Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2541760
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 26494 characters in sequence are not A, C, G, or T
File 5 of 16
Found at i:858243 original size:12 final size:11
Alignment explanation
Indices: 858228--858280 Score: 60
Period size: 9 Copynumber: 5.0 Consensus size: 11
858218 TCTGAGTCAC
858228 CATCTTCATCAA
1 CATCTTCATC-A
858240 CATCTTCAT--
1 CATCTTCATCA
858249 CATCTTCATCAA
1 CATCTTCATC-A
858261 CATCTTCA-C-
1 CATCTTCATCA
858270 CATCTTCATCA
1 CATCTTCATCA
858281 TCTTTGATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
9 17 0.47
10 1 0.03
11 1 0.03
12 17 0.47
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (11 bp):
CATCTTCATCA
Found at i:858254 original size:21 final size:21
Alignment explanation
Indices: 858224--858280 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
858214 TTCATCTGAG
858224 TCACCATCTTCATCAACATCT
1 TCACCATCTTCATCAACATCT
*
858245 TCATCATCTTCATCAACATCT
1 TCACCATCTTCATCAACATCT
858266 TCACCATCTTCATCA
1 TCACCATCTTCATCA
858281 TCTTTGATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.28, C:0.37, G:0.00, T:0.35
Consensus pattern (21 bp):
TCACCATCTTCATCAACATCT
Found at i:859892 original size:13 final size:13
Alignment explanation
Indices: 859874--859899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
859864 CAATTTTTTG
859874 TGTATCGATACAT
1 TGTATCGATACAT
859887 TGTATCGATACAT
1 TGTATCGATACAT
859900 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:859911 original size:32 final size:33
Alignment explanation
Indices: 859854--859917 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
859844 TACAAGCCAA
**
859854 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
859887 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
859918 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:861180 original size:475 final size:475
Alignment explanation
Indices: 860328--861228 Score: 1294
Period size: 475 Copynumber: 1.9 Consensus size: 475
860318 GATGCTTATC
** * *
860328 TTATTTAAGGGATAAACTTTGGTTTTATGGAAAATAGGGCAAAGAAAAGATTTTCAAGCAAAAAG
1 TTATTTAAGGGATAAACTTTCATTTTAAGAAAAATAGGGCAAAGAAAAGATTTTCAAGCAAAAAG
*
860393 AAATTATCAGTATCATTTATCCTAACGAGGAGAATGTATTTATAGTGCCAAATCACAAAATGAAT
66 AAATAATCAGTATCATTTATCCTAACGAGGAGAATGTATTTATAGTGCCAAATCACAAAATGAAT
* * * * * *
860458 GAAGATTATTACTAGAATCTATGTTTATCTCATTTGAGGCACGAATTTAGAATTTACGAAAATTG
131 GAAGATCATTACTAGAATCCATATTTATCTCATTTAAGGCACGAACTTAGAATTTACAAAAATTG
* * ** * * * *
860523 GTGGGAAAATAACCTTTCTTGTGAAACCAAAGCATCAATATGATTTATCTTAATGAGAAGACTAT
196 GTGGAAAAAAAACCTTTCTTACGAAACCAAAGCATCAATATAATGTATCCTAATGAAAAGACTAT
* *
860588 GTTTATGGTGCCTAATCCTAAAAAGAATAGGGATTAGTATGAGTATTCATGTTTGTCTTTTTTAA
261 GTTTATGGTACCTAATCCTAAAAAGAATAGGGATTAGTATGAGTATTCATGTTTGTCTTCTTTAA
* ** * *
860653 GAGACAAACTTTGATTCTATCAAAAATGGAGGAAAGATAAGCTTTTCTTGCGATACCAAAGAATC
326 AAGACAAACTTTGATTCTATCAAAAACAGAGGAAAGAAAAGCTTTTCTTGCGATAACAAAGAATC
* * *
860718 AGTGTCATGTATCCTAATGAAGGGAATGTGTTTTTGGCTTCTAATCTTTTAAAGAATTGAGATTG
391 AATGTCATCTATCCTAATG-AGAGAATGTGTTTTTGGCTTCTAATCTTTTAAAGAATTGAGATTG
860783 TTACGAGAAACAATTCTTGTG
455 TTACGAGAAACAATTCTTGTG
* * *
860804 TTATTTAAGGGATAAACTTTCATTTTAAGAAAAATAGGGGAAAGAAAAGATTTTTATGCAATAGA
1 TTATTTAAGGGATAAACTTTCATTTTAAGAAAAATAGGGCAAAGAAAAGATTTTCAAGCAA-A-A
* * *
860869 A-AAA-AATCTA-TATCATTTATCCTAATGAGGAGAATGTATTTATAGTTCCAAATCATAAAATG
64 AGAAATAATC-AGTATCATTTATCCTAACGAGGAGAATGTATTTATAGTGCCAAATCACAAAATG
* * * *
860931 AAT-AACGATCATTACT-GGATCCCATATTTATCTCATTTAAGGCATGAACTTAGACTTTATAAA
128 AATGAA-GATCATTACTAGAAT-CCATATTTATCTCATTTAAGGCACGAACTTAGAATTTACAAA
860994 AATTGGT-GAAAAAAAACCTTTCTTACGAAACCAAAGCATCAATATAATGTATCCTAATGAAAAG
191 AATTGGTGGAAAAAAAACCTTTCTTACGAAACCAAAGCATCAATATAATGTATCCTAATGAAAAG
* *
861058 ACTATGTTTATGGTACTTAATCCTGAAAAGAAT-GGGAATTAGTATGAGTATTCATGTTTGTCTT
256 ACTATGTTTATGGTACCTAATCCTAAAAAGAATAGGG-ATTAGTATGAGTATTCATGTTTGTCTT
* *
861122 CTTTAAAAGATAAACTTTGATTCTATCAAAAACAGTGGAAAGAAAAGCTTTTCTTGCGATAACAA
320 CTTTAAAAGACAAACTTTGATTCTATCAAAAACAGAGGAAAGAAAAGCTTTTCTTGCGATAACAA
*
861187 AGCATCAATGTCATCTATCCTAATGAGAGAATGTGTTTTTGG
385 AGAATCAATGTCATCTATCCTAATGAGAGAATGTGTTTTTGG
861229 TTCCCAGTCT
Statistics
Matches: 375, Mismatches: 44, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
474 19 0.05
475 190 0.51
476 159 0.42
477 5 0.01
478 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (475 bp):
TTATTTAAGGGATAAACTTTCATTTTAAGAAAAATAGGGCAAAGAAAAGATTTTCAAGCAAAAAG
AAATAATCAGTATCATTTATCCTAACGAGGAGAATGTATTTATAGTGCCAAATCACAAAATGAAT
GAAGATCATTACTAGAATCCATATTTATCTCATTTAAGGCACGAACTTAGAATTTACAAAAATTG
GTGGAAAAAAAACCTTTCTTACGAAACCAAAGCATCAATATAATGTATCCTAATGAAAAGACTAT
GTTTATGGTACCTAATCCTAAAAAGAATAGGGATTAGTATGAGTATTCATGTTTGTCTTCTTTAA
AAGACAAACTTTGATTCTATCAAAAACAGAGGAAAGAAAAGCTTTTCTTGCGATAACAAAGAATC
AATGTCATCTATCCTAATGAGAGAATGTGTTTTTGGCTTCTAATCTTTTAAAGAATTGAGATTGT
TACGAGAAACAATTCTTGTG
Found at i:861864 original size:20 final size:20
Alignment explanation
Indices: 861824--861877 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
861814 TTTTATAATT
*
861824 TATATCGATACAAATAGTGAA
1 TATATCGATACATA-AGTGAA
* *
861845 TGTATTGATACATAAGTGAA
1 TATATCGATACATAAGTGAA
861865 TATATCGATACAT
1 TATATCGATACAT
861878 GTTTGAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (20 bp):
TATATCGATACATAAGTGAA
Found at i:862003 original size:3 final size:3
Alignment explanation
Indices: 861997--862052 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
861987 GTCAACTTCT
* * * *
861997 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA CCT TCA TCA TCT TCA TCT
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
862045 TCA TCA TC
1 TCA TCA TC
862053 TTTGATGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.27, C:0.36, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:862053 original size:9 final size:9
Alignment explanation
Indices: 861992--862054 Score: 60
Period size: 9 Copynumber: 7.3 Consensus size: 9
861982 TCCGAGTCAA
*
861992 CTTCTTCAT
1 CTTCATCAT
*
862001 CATCATCAT
1 CTTCATCAT
*
862010 CATCATCAT
1 CTTCATCAT
* *
862019 CATCATCAC
1 CTTCATCAT
862028 CTTCATCAT
1 CTTCATCAT
862037 C-T--TCAT
1 CTTCATCAT
862043 CTTCATCAT
1 CTTCATCAT
862052 CTT
1 CTT
862055 TGATGGTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
6 5 0.11
7 1 0.02
8 1 0.02
9 39 0.85
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (9 bp):
CTTCATCAT
Found at i:863651 original size:20 final size:20
Alignment explanation
Indices: 863623--863661 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
863613 TAGCTGTTGG
863623 GTACAATGTATCGATACAAT
1 GTACAATGTATCGATACAAT
*
863643 GTACTATGTATCGATACAA
1 GTACAATGTATCGATACAA
863662 ACAGTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
GTACAATGTATCGATACAAT
Found at i:864211 original size:7 final size:7
Alignment explanation
Indices: 864168--864212 Score: 51
Period size: 6 Copynumber: 6.9 Consensus size: 7
864158 TTTTCCTTAA
864168 TTTTTCT
1 TTTTTCT
864175 TTTTT-T
1 TTTTTCT
864181 TTTTT-T
1 TTTTTCT
*
864187 TTTTGC-
1 TTTTTCT
864193 TTTTTCT
1 TTTTTCT
*
864200 GTTTTCT
1 TTTTTCT
864207 TTTTTC
1 TTTTTC
864213 ATTTCATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 16 0.50
7 16 0.50
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:864222 original size:26 final size:26
Alignment explanation
Indices: 864167--864226 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
864157 CTTTTCCTTA
* **
864167 ATTTTTCTTTTTTTTTTTTTTTTTGC
1 ATTTTTCTTTTTCTTTTTTCATTTGC
864193 -TTTTTCTGTTTTCTTTTTTCATTT-C
1 ATTTTTCT-TTTTCTTTTTTCATTTGC
864218 ATTTTTCTT
1 ATTTTTCTT
864227 ATTTTCACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (26 bp):
ATTTTTCTTTTTCTTTTTTCATTTGC
Found at i:866857 original size:14 final size:14
Alignment explanation
Indices: 866840--866873 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
866830 AAAAATGATA
*
866840 AATCCAAAATATTT
1 AATCAAAAATATTT
*
866854 AATCAAAAATGTTT
1 AATCAAAAATATTT
866868 AATCAA
1 AATCAA
866874 GGATAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (14 bp):
AATCAAAAATATTT
Found at i:868201 original size:14 final size:14
Alignment explanation
Indices: 868182--868218 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
868172 AAAGAGAGAA
*
868182 TGGAGATTAGACAT
1 TGGAGATAAGACAT
868196 TGGAGATAAGACAT
1 TGGAGATAAGACAT
868210 TGGAGATAA
1 TGGAGATAA
868219 CTACTTAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.24
Consensus pattern (14 bp):
TGGAGATAAGACAT
Found at i:868431 original size:24 final size:24
Alignment explanation
Indices: 868382--868430 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
868372 TTATTAATCC
* *
868382 TTAAATTTTATTATTTATAATTTT
1 TTAAATTTTATTAATCATAATTTT
868406 TTAAATTTT-TTAATCATAATTTT
1 TTAAATTTTATTAATCATAATTTT
868429 TT
1 TT
868431 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTAAATTTTATTAATCATAATTTT
Found at i:872863 original size:29 final size:26
Alignment explanation
Indices: 872815--872890 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 26
872805 TAATAGTTTA
*
872815 ATATAATATATTTAAAATATTTAAAAAT
1 ATATAATATA-TT-ATATATTTAAAAAT
*
872843 AATATTATCATAATTATATATTTAAAAAT
1 -ATATAAT-AT-ATTATATATTTAAAAAT
872872 ATATAATATATTATATATT
1 ATATAATATATTATATATT
872891 ATGAAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 10 0.24
27 2 0.05
28 6 0.14
29 19 0.45
30 4 0.10
31 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATAATATATTATATATTTAAAAAT
Found at i:873002 original size:33 final size:34
Alignment explanation
Indices: 872965--873035 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
872955 GCCTATGAAA
872965 ATAT-AAATTATAAATT-TAATATATTATTTTAAT
1 ATATAAAATT-TAAATTATAATATATTATTTTAAT
* * *
872998 ATATAAAAATTTTATTTATAATATATTATTTTATT
1 ATAT-AAAATTTAAATTATAATATATTATTTTAAT
873033 ATA
1 ATA
873036 CAATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.12
34 4 0.12
35 24 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
ATATAAAATTTAAATTATAATATATTATTTTAAT
Found at i:873041 original size:60 final size:60
Alignment explanation
Indices: 872971--873083 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 60
872961 GAAAATATAA
** * * *
872971 ATTATAAA-TTTAATATATTATTTTAATATA-TAAAAATTTTATTTATAATATATTATTTT
1 ATTATAAATTTTAA-ATAAAATTTAAATATATTAAAAAGTTTATTAATAATATATTATTTT
873030 ATTATACAATTTTAAATAAAATTTAAATATATTAAAAAGTTTATTAATAATATA
1 ATTATA-AATTTTAAATAAAATTTAAATATATTAAAAAGTTTATTAATAATATA
873084 ATATAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 6 0.13
60 15 0.33
61 25 0.54
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (60 bp):
ATTATAAATTTTAAATAAAATTTAAATATATTAAAAAGTTTATTAATAATATATTATTTT
Found at i:874582 original size:22 final size:22
Alignment explanation
Indices: 874557--874602 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
874547 GCAAAATCAG
*
874557 TTGAATATTTTTGAACTAGAAA
1 TTGAATATTTTTGAACTAAAAA
874579 TTGAATATTTTTGAACTAAAAA
1 TTGAATATTTTTGAACTAAAAA
874601 TT
1 TT
874603 TAATCTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (22 bp):
TTGAATATTTTTGAACTAAAAA
Found at i:875695 original size:95 final size:96
Alignment explanation
Indices: 875579--875769 Score: 357
Period size: 95 Copynumber: 2.0 Consensus size: 96
875569 GTAACTCTTT
875579 CTAAGGCCGTCAATTCAAATATACACCTACTAGAAATTATTAATATTTTA-AGCATTACTATCAT
1 CTAAGGCCGTCAATTCAAATATACACCTACTAGAAATTATTAATATTTTATAGCATTACTATCAT
*
875643 GTTAGTTTATAGTTTCAATTGACTAATTATC
66 GTTAGTTTATAGTTTCAATCGACTAATTATC
*
875674 CTAAGGCCGTCAATTCAAATATACACCTACTAGAAATTATTAATATTTTATAGCATTCCTATCAT
1 CTAAGGCCGTCAATTCAAATATACACCTACTAGAAATTATTAATATTTTATAGCATTACTATCAT
875739 GTTAGTTTATAGTTTCAATCGACTAATTATC
66 GTTAGTTTATAGTTTCAATCGACTAATTATC
875770 AATGTCATAA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 50 0.54
96 43 0.46
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (96 bp):
CTAAGGCCGTCAATTCAAATATACACCTACTAGAAATTATTAATATTTTATAGCATTACTATCAT
GTTAGTTTATAGTTTCAATCGACTAATTATC
Found at i:883777 original size:132 final size:132
Alignment explanation
Indices: 883622--883886 Score: 433
Period size: 132 Copynumber: 2.0 Consensus size: 132
883612 AAGAATATTT
*
883622 TTTTTCTTATTTATTTGAGATATTATTTATATTTAATTTACAAATAAATATCTAAACAAGATTAT
1 TTTTTCTTATTTATTTAAGATATTATTTATATTTAATTTACAAATAAATATCTAAACAAGATTAT
* * *
883687 GTAGATGTTAAATTAATTATATATATAATTAATTTA-CCTATAGCTATTTAATTTAAATTATTTC
66 GTAGATATTAAATTAATTATATAAATAATTAATTTATCC-ATAGCTATTTAATTTAAATTAATTC
883751 TTA
130 TTA
* * *
883754 TTTTTCTTATTTATTTAAGATATTATTTATATTTAATTTATAAATAAATATTTAAACAAGATTGT
1 TTTTTCTTATTTATTTAAGATATTATTTATATTTAATTTACAAATAAATATCTAAACAAGATTAT
* *
883819 TTAGATATTAAATTAATTATATAAATAATTAATTTATCCATATCTATTTAATTTAAATTAATTCT
66 GTAGATATTAAATTAATTATATAAATAATTAATTTATCCATAGCTATTTAATTTAAATTAATTCT
883884 TA
131 TA
883886 T
1 T
883887 ATTTACTGAA
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 121 0.98
133 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (132 bp):
TTTTTCTTATTTATTTAAGATATTATTTATATTTAATTTACAAATAAATATCTAAACAAGATTAT
GTAGATATTAAATTAATTATATAAATAATTAATTTATCCATAGCTATTTAATTTAAATTAATTCT
TA
Found at i:887002 original size:167 final size:164
Alignment explanation
Indices: 886817--887400 Score: 518
Period size: 167 Copynumber: 3.5 Consensus size: 164
886807 GTTTAAAATC
* * *
886817 TTAAAATTCATCAAATATTATTATTTAATTTATAGTAAATCAGTCTTCAGAAATGCATTCATTTT
1 TTAAAATTCATCAAATATTATCATTTAATTTATAGTAAATCAGT-TT-AAAAATTCATTCATTTT
* * *
886882 CATAAGTTTTTGAAATTTTTCCTTGAAATTCTCCTGTTTTCAAAAAACGGAGTTTTTTACTCCGT
64 CATAAGTTTTTGAATTTTTTCCTTGAAATTCTCCTATTTTCAAAAAACGGAGTTTTCTACTCCGT
**
886947 AAATGCTTTCAAGGGGATTTTTCTTGATTTTTAATTT
129 AAATATTTTC-AGGGGATTTTTCTTGATTTTTAATTT
* * * * * *
886984 TTAAAATTCATTAAATATTATCATTTGATTTAAATTAAGTCAGTTTGTAAAAGTTCACTT-ATTT
1 TTAAAATTCATCAAATATTATCATTTAATTTATAGTAAATCAG-TT-TAAAAATTCA-TTCATTT
* * * ** ** * * *
887048 TCATAAATTTTTCAATTTTTTCCTTGAAATTTTATTATTTTTGAAATACGAAGTTTTCTACTTCG
63 TCATAAGTTTTTGAATTTTTTCCTTGAAATTCTCCTATTTTCAAAAAACGGAGTTTTCTACTCCG
* *
887113 TAAATATTTTCAGGGGGATTTTTCTTGGTTTTTTATTT
128 TAAATATTTTCA-GGGGATTTTTCTTGATTTTTAATTT
* * * *
887151 TTAAAACTCATCAAATATTATCATTTGATTTATAGTAAATCAGTTTTAAAAAATTAATTCA-TTC
1 TTAAAATTCATCAAATATTATCATTTAATTTATAGTAAATCAG-TTT-AAAAATTCATTCATTTT
* * * * * * *
887215 CATAAG-TTTTGGATTTTTTCTTTGAAATGC-CCATTTTTTCTAGAAAACCGAGTATTCTACTCC
64 CATAAGTTTTTGAATTTTTTCCTTGAAATTCTCC-TATTTTC-AAAAAACGGAGTTTTCTACTCC
**
887278 GTAAATATTTTC-GGAGAGATTTTTCTTGATTTAAAATTT
127 GTAAATATTTTCAGG-G-GATTTTTCTTGATTTTTAATTT
* * * * ** * *
887317 TAAAAATTCATCTAATATTGTTATTTAAATCCA-ATTAAATCAGTTTTAAAAAATTCAATTTA-T
1 TTAAAATTCATCAAATATTATCATTT-AATTTATAGTAAATCAG-TTT-AAAAATTC-ATTCATT
* *
887380 TTCATAA-ATTTTAAATTTTTT
62 TTCATAAGTTTTTGAATTTTTT
887401 GTATATATTG
Statistics
Matches: 335, Mismatches: 69, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
164 2 0.01
165 25 0.07
166 98 0.29
167 206 0.61
168 4 0.01
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (164 bp):
TTAAAATTCATCAAATATTATCATTTAATTTATAGTAAATCAGTTTAAAAATTCATTCATTTTCA
TAAGTTTTTGAATTTTTTCCTTGAAATTCTCCTATTTTCAAAAAACGGAGTTTTCTACTCCGTAA
ATATTTTCAGGGGATTTTTCTTGATTTTTAATTT
Found at i:887741 original size:11 final size:11
Alignment explanation
Indices: 887727--887777 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
887717 AAACTCAGCA
887727 AAAAAAGAGAG
1 AAAAAAGAGAG
887738 AAAAAAAGAGAG
1 -AAAAAAGAGAG
* *
887750 AAAAAAGAAAA
1 AAAAAAGAGAG
887761 AAAAAAGCA-AG
1 AAAAAAG-AGAG
887772 AAAAAA
1 AAAAAA
887778 TGGGAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
11 23 0.66
12 12 0.34
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:887743 original size:14 final size:12
Alignment explanation
Indices: 887726--887777 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
887716 AAAACTCAGC
887726 AAAAAAAGAGAG
1 AAAAAAAGAGAG
887738 AAAAAAAGAGAG
1 AAAAAAAGAGAG
*
887750 -AAAAAAGA-AA
1 AAAAAAAGAGAG
887760 AAAAAAAGCA-AG
1 AAAAAAAG-AGAG
887772 AAAAAA
1 AAAAAA
887778 TGGGAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
10 1 0.03
11 15 0.42
12 20 0.56
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAG
Found at i:889728 original size:155 final size:152
Alignment explanation
Indices: 889275--889732 Score: 456
Period size: 155 Copynumber: 3.0 Consensus size: 152
889265 TCTTTAGAAT
* * * * ** *
889275 CGAGTCCTAGATTGTCACCGAGTTCGTTTTTACACCGAAGGTGGGTATTTAGGATATGTTCATCT
1 CGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCT
** * * * * * **
889340 TTTCTATAATCCTTTTAAGTCCTTTAAGGGTGTCAGATACTTTTATGTCAAAGGTGGAT-CCTAA
66 CATCTATAATCTTTTTAAGTCCTTTAAGGGTATTAGGTACTTCTACATCAAA-GT--ATCCCTAA
*
889404 AGGCATTTTTGTAATTTTTTAAAAC
128 AGGCATTTTCGTAATTTTTTAAAAC
** * *
889429 TAAGTCCTAGGTTGTCACTAGGTTCGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCT
1 CGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCT
* * * * * * *
889494 CATTTTATAATCCTTTGTAAG-CCTTTTAAGGATA-TCGAGCACTTCTACACCAAAAATATCCCT
66 CA-TCTATAAT-CTTTTTAAGTCC-TTTAAGGGTATTAG-GTACTTCTACATC-AAAGTATCCCT
* * *
889557 -AGGGACTTTTTGGTAATTTTTTAAAAC
126 AAAGG-CATTTTCGTAATTTTTTAAAAC
* * *
889584 CGAGTCTTAGGTTGTCACTGGGTTCGCTTTTATGCCTAAGGTGGGTATTTAGGATAGGTTCATCC
1 CGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCT
* *
889649 CATCTATAATCTTTTTTTAGTCCTTTAGGGGTATTAGGTACTTCTACATCGAAAGTATCCCCTAA
66 CATCTATAATC-TTTTTAAGTCCTTTAAGGGTATTAGGTACTTCTACATC-AAAGTAT-CCCTAA
889714 AGGCATTTTCGTAATTTTT
128 AGGCATTTTCGTAATTTTT
889733 CTTGAACTTA
Statistics
Matches: 242, Mismatches: 50, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
153 1 0.00
154 97 0.40
155 115 0.48
156 26 0.11
157 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (152 bp):
CGAGTCCTAGGTTGTCACTGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCT
CATCTATAATCTTTTTAAGTCCTTTAAGGGTATTAGGTACTTCTACATCAAAGTATCCCTAAAGG
CATTTTCGTAATTTTTTAAAAC
Found at i:890113 original size:48 final size:48
Alignment explanation
Indices: 890042--890191 Score: 291
Period size: 48 Copynumber: 3.1 Consensus size: 48
890032 AAATTTAAAT
890042 ATTTTTATAAAATAAAGGTCATGTCTCGGGATTAGAATAGTACGTGAA
1 ATTTTTATAAAATAAAGGTCATGTCTCGGGATTAGAATAGTACGTGAA
890090 ATTTTTATAAAATAAAGGTCATGTCTCGGGATTAGAATAGTACGTGAA
1 ATTTTTATAAAATAAAGGTCATGTCTCGGGATTAGAATAGTACGTGAA
*
890138 ATTTTTATAAAATAAAGGTCATGTCTCGGGATTAGAATAGTACATGAA
1 ATTTTTATAAAATAAAGGTCATGTCTCGGGATTAGAATAGTACGTGAA
890186 ATTTTT
1 ATTTTT
890192 CCTATGCATA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 101 1.00
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35
Consensus pattern (48 bp):
ATTTTTATAAAATAAAGGTCATGTCTCGGGATTAGAATAGTACGTGAA
Found at i:891013 original size:20 final size:20
Alignment explanation
Indices: 890968--891019 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
890958 GTAGCCAAAC
* **
890968 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
890988 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
891007 TTGTATCGATACA
1 TTGTATCGATACA
891020 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:893247 original size:22 final size:21
Alignment explanation
Indices: 893219--893269 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
893209 TTTGCAAGTT
*
893219 GAAATAAAGAAGTTGGCTAATGA
1 GAAATAAAG-AGTTAGCTAA-GA
*
893242 -AAATAATGAGTTAGCTAAGA
1 GAAATAAAGAGTTAGCTAAGA
893262 GAAATAAA
1 GAAATAAA
893270 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.53, C:0.04, G:0.22, T:0.22
Consensus pattern (21 bp):
GAAATAAAGAGTTAGCTAAGA
Found at i:897197 original size:13 final size:13
Alignment explanation
Indices: 897179--897216 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
897169 CATTTTTCTT
897179 TGTATCGATACAA
1 TGTATCGATACAA
*
897192 TGTATCGATACAC
1 TGTATCGATACAA
897205 TGTATCGATACA
1 TGTATCGATACA
897217 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:899117 original size:20 final size:20
Alignment explanation
Indices: 899072--899123 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
899062 GTAGCCAAAC
* **
899072 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
899092 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
899111 TTGTATCGATACA
1 TTGTATCGATACA
899124 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:903681 original size:13 final size:13
Alignment explanation
Indices: 903663--903690 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
903653 ATACAAAGGT
903663 CAATGTATCGATA
1 CAATGTATCGATA
903676 CAATGTATCGATA
1 CAATGTATCGATA
903689 CA
1 CA
903691 TTTGAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:903776 original size:32 final size:32
Alignment explanation
Indices: 903735--903805 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
903725 AGTTTCGTAG
903735 CGATACATTGT-TTCAATAAAAAACTTATGTAT
1 CGATACATTGTATT-AATAAAAAACTTATGTAT
* *
903767 CGATACATTGTATTGATAAAACACTTATGTAT
1 CGATACATTGTATTAATAAAAAACTTATGTAT
903799 CGATACA
1 CGATACA
903806 GTTACAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATTAATAAAAAACTTATGTAT
Found at i:905963 original size:14 final size:14
Alignment explanation
Indices: 905944--905970 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
905934 CATCAACGAA
905944 ACTGAAAGTGGAAC
1 ACTGAAAGTGGAAC
905958 ACTGAAAGTGGAA
1 ACTGAAAGTGGAA
905971 TATGCTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.30, T:0.15
Consensus pattern (14 bp):
ACTGAAAGTGGAAC
Found at i:906409 original size:16 final size:16
Alignment explanation
Indices: 906384--906419 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
906374 TCTAAATAAG
*
906384 AAAAACAAAAAAGAGA
1 AAAAACAAAAAAAAGA
*
906400 AAAAAGAAAAAAAAGA
1 AAAAACAAAAAAAAGA
906416 AAAA
1 AAAA
906420 GCATGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAAAGA
Found at i:907586 original size:43 final size:43
Alignment explanation
Indices: 907468--907676 Score: 142
Period size: 43 Copynumber: 4.8 Consensus size: 43
907458 GAATTAGACT
* *
907468 ACATTAGCACTTGCAT-ATTTTCATATGCATTTGTCATTCTATTGATG
1 ACATT-GCATTTGCATCA-TTTCATATGCATTTG-CATT-T-TAGATG
** * ** *
907515 -C-TTGCATTTGCATTGTCTCACCTACATTTGCATTTTAGATG
1 ACATTGCATTTGCATCATTTCATATGCATTTGCATTTTAGATG
* * * *
907556 ACATTGTATTTGCATCATTGCATGTGCATTTGCTACTTTGTTGATG
1 ACATTGCATTTGCATCATTTCATATGCATTTGC-A-TTT-TAGATG
* * * *
907602 -C-TTGCATTTTGTATCATTTTATATGCATTTGCA-TTCAGATA
1 ACATTGCA-TTTGCATCATTTCATATGCATTTGCATTTTAGATG
907643 ACATTGGCATTTGCATCATTTCATATGCATTTGC
1 ACATT-GCATTTGCATCATTTCATATGCATTTGC
907677 CACCTAATGC
Statistics
Matches: 126, Mismatches: 26, Indels: 24
0.72 0.15 0.14
Matches are distributed among these distances:
41 8 0.06
42 5 0.04
43 51 0.40
44 29 0.23
45 27 0.21
46 6 0.05
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (43 bp):
ACATTGCATTTGCATCATTTCATATGCATTTGCATTTTAGATG
Found at i:907674 original size:20 final size:20
Alignment explanation
Indices: 907604--907676 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
907594 TGTTGATGCT
* *
907604 TGCATTTTGTATCATTTTATA
1 TGCA-TTTGCATCATTTCATA
**
907625 TGCATTTGCATTCAGATAACAT-
1 TGCATTTGCA-TC--ATTTCATA
907647 TGGCATTTGCATCATTTCATA
1 T-GCATTTGCATCATTTCATA
907668 TGCATTTGC
1 TGCATTTGC
907677 CACCTAATGC
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
20 18 0.44
21 7 0.17
22 3 0.07
23 13 0.32
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (20 bp):
TGCATTTGCATCATTTCATA
Found at i:909124 original size:20 final size:20
Alignment explanation
Indices: 909099--909167 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
909089 ATACATTAAA
909099 ATCGATACATTCTTCAATGT
1 ATCGATACATTCTTCAATGT
909119 ATCGATACATTCTTCAATGT
1 ATCGATACATTCTTCAATGT
*
909139 ATCGATACATTCTTTAATGT
1 ATCGATACATTCTTCAATGT
909159 ATCGATACA
1 ATCGATACA
909168 ATCTGCCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (20 bp):
ATCGATACATTCTTCAATGT
Found at i:913482 original size:20 final size:20
Alignment explanation
Indices: 913457--913524 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
913447 ATTACAAGCA
913457 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
913477 ATGTATCGAT---A--CA--
1 ATGTATCGATACAATTCATC
913490 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
913510 ATGTATCGATACAAT
1 ATGTATCGATACAAT
913525 ATATCGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
16 1 0.02
17 1 0.02
18 2 0.05
20 25 0.61
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:913495 original size:13 final size:13
Alignment explanation
Indices: 913455--913540 Score: 70
Period size: 13 Copynumber: 7.5 Consensus size: 13
913445 CCATTACAAG
913455 CAATGTATCGATA
1 CAATGTATCGATA
913468 CAA--T-TC-AT-
1 CAATGTATCGATA
913476 C-ATGTATCGATA
1 CAATGTATCGATA
913488 CAATGTATCGATA
1 CAATGTATCGATA
913501 CAA--T-TC-AT-
1 CAATGTATCGATA
913509 C-ATGTATCGATA
1 CAATGTATCGATA
*
913521 CAATATATCGATA
1 CAATGTATCGATA
*
913534 CATTGTA
1 CAATGTA
913541 CCATGTATTG
Statistics
Matches: 58, Mismatches: 3, Indels: 24
0.68 0.04 0.28
Matches are distributed among these distances:
7 2 0.03
8 2 0.03
9 6 0.10
10 8 0.14
11 6 0.10
12 2 0.03
13 32 0.55
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:913495 original size:33 final size:33
Alignment explanation
Indices: 913455--913535 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
913445 CCATTACAAG
913455 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
913488 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
*
913521 CAATATATCGATACA
1 CAATGTATCGATACA
913536 TTGTACCATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCGATA
Found at i:913546 original size:33 final size:33
Alignment explanation
Indices: 913455--913556 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 33
913445 CCATTACAAG
* *
913455 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATATATCGATACAATTCACCATGTATCGATA
* *
913488 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATATATCGATACAATTCACCATGTATCGATA
* *
913521 CAATATATCGATAC-ATTGTACCATGTATTGATA
1 CAATATATCGATACAATT-CACCATGTATCGATA
913554 CAA
1 CAA
913557 ACAGTGGTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 3 0.05
33 61 0.95
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATATATCGATACAATTCACCATGTATCGATA
Found at i:913610 original size:20 final size:19
Alignment explanation
Indices: 913585--913657 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
913575 CTGCCAATTT
*
913585 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
913605 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
* * *
913624 CACGTATCGATACAAAGCAT
1 CATGTATCGATACAATG-AC
*
913644 AATGTATCGATACA
1 CATGTATCGATACA
913658 TCTGGGTAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 17 0.38
20 28 0.62
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:913632 original size:19 final size:20
Alignment explanation
Indices: 913588--913638 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
913578 CCAATTTCAT
* *
913588 GTATCGATACAATTGTCCAT
1 GTATCGATACAATTGACCAC
*
913608 GTATCGATACAA-TGAGCAC
1 GTATCGATACAATTGACCAC
913627 GTATCGATACAA
1 GTATCGATACAA
913639 AGCATAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (20 bp):
GTATCGATACAATTGACCAC
Found at i:914244 original size:22 final size:22
Alignment explanation
Indices: 914182--914237 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
914172 AGTTTTCGTT
*
914182 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATCAAAGAA
*
914204 TTTCTCCCCCTTAATCAAAGCA
1 TTTCTCCCCCTTAATCAAAGAA
914226 TTTCTCCCCCTT
1 TTTCTCCCCCTT
914238 TGTCAAATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.23, C:0.36, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTCTCCCCCTTAATCAAAGAA
Found at i:917142 original size:13 final size:13
Alignment explanation
Indices: 917124--917149 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
917114 TACAGCAAGT
917124 ATGTATCGATACA
1 ATGTATCGATACA
917137 ATGTATCGATACA
1 ATGTATCGATACA
917150 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:919399 original size:21 final size:21
Alignment explanation
Indices: 919366--919410 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
919356 TTGCAAGTTG
*
919366 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
919388 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
919408 AAA
1 AAA
919411 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:921234 original size:15 final size:15
Alignment explanation
Indices: 921214--921244 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
921204 TAAAAATGTC
*
921214 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
921229 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
921244 C
1 C
921245 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:923335 original size:13 final size:13
Alignment explanation
Indices: 923317--923342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
923307 CATTTTTTCT
923317 TTGTATCGATACA
1 TTGTATCGATACA
923330 TTGTATCGATACA
1 TTGTATCGATACA
923343 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:925896 original size:13 final size:13
Alignment explanation
Indices: 925878--925903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
925868 TACAGCAAGT
925878 ATGTATCGATACA
1 ATGTATCGATACA
925891 ATGTATCGATACA
1 ATGTATCGATACA
925904 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:932261 original size:13 final size:13
Alignment explanation
Indices: 932243--932273 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
932233 ACAATTCATC
932243 ATGTATCGATATA
1 ATGTATCGATATA
932256 ATGTATCGATATA
1 ATGTATCGATATA
*
932269 TTGTA
1 ATGTA
932274 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:932368 original size:19 final size:18
Alignment explanation
Indices: 932322--932371 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
932312 CAATTTCATG
* *
932322 TATCGATACAATTATCTA
1 TATCGATACAATGAACTA
* *
932340 TATAGATACAATGAACATT
1 TATCGATACAATGAAC-TA
932359 TATCGATACAATG
1 TATCGATACAATG
932372 TATCGATACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (18 bp):
TATCGATACAATGAACTA
Found at i:932392 original size:12 final size:13
Alignment explanation
Indices: 932359--932394 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
932349 AATGAACATT
932359 TATCGATACAATG
1 TATCGATACAATG
932372 TATCGATACAATG
1 TATCGATACAATG
932385 TA-CGATACAA
1 TATCGATACAA
932395 AGCATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:932831 original size:20 final size:19
Alignment explanation
Indices: 932785--932841 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
932775 TTGTATCGAT
* *
932785 ACATTGTATCGAAACATGT
1 ACATTGTATCGATACATGG
*
932804 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
932823 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
932842 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:932895 original size:20 final size:20
Alignment explanation
Indices: 932870--932920 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
932860 TTACCACTGT
*
932870 TTGTATCGATACATGGT-ATA
1 TTGTATCGATACATGATGA-A
932890 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
932910 TTGTATCGATA
1 TTGTATCGATA
932921 AATTGCTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:933625 original size:148 final size:148
Alignment explanation
Indices: 933357--933656 Score: 591
Period size: 148 Copynumber: 2.0 Consensus size: 148
933347 AGAAACTTGG
933357 GGTATAGTTCTTGAAGAGATTGAGAGGTTGTTATCTTAGCCTTCAAAAGATAAGGATTGTAAGGT
1 GGTATAGTTCTTGAAGAGATTGAGAGGTTGTTATCTTAGCCTTCAAAAGATAAGGATTGTAAGGT
*
933422 TATACCTTTGCCTTAAAGGTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTG
66 TATACCTTTGCCTTAAAGGTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTC
933487 TCAAGGAGAGAGGATGAA
131 TCAAGGAGAGAGGATGAA
933505 GGTATAGTTCTTGAAGAGATTGAGAGGTTGTTATCTTAGCCTTCAAAAGATAAGGATTGTAAGGT
1 GGTATAGTTCTTGAAGAGATTGAGAGGTTGTTATCTTAGCCTTCAAAAGATAAGGATTGTAAGGT
933570 TATACCTTTGCCTTAAAGGTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTC
66 TATACCTTTGCCTTAAAGGTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTC
933635 TCAAGGAGAGAGGATGAA
131 TCAAGGAGAGAGGATGAA
933653 GGTA
1 GGTA
933657 CCGATTTGGA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 151 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (148 bp):
GGTATAGTTCTTGAAGAGATTGAGAGGTTGTTATCTTAGCCTTCAAAAGATAAGGATTGTAAGGT
TATACCTTTGCCTTAAAGGTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTC
TCAAGGAGAGAGGATGAA
Found at i:935335 original size:20 final size:21
Alignment explanation
Indices: 935294--935336 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
935284 TATTAAAAAG
935294 TTAGCTAATGAAAACAATGAA
1 TTAGCTAATGAAAACAATGAA
935315 TTAGCTAA-GAAAAACAA-GAA
1 TTAGCTAATG-AAAACAATGAA
935335 TT
1 TT
935337 TCCATGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.23
Consensus pattern (21 bp):
TTAGCTAATGAAAACAATGAA
Found at i:935677 original size:17 final size:17
Alignment explanation
Indices: 935655--935688 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
935645 TTCCAAAAGG
935655 ATCAAAGGTATTAAACA
1 ATCAAAGGTATTAAACA
935672 ATCAAAGGTATTAAACA
1 ATCAAAGGTATTAAACA
935689 CTAATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
ATCAAAGGTATTAAACA
Found at i:939190 original size:13 final size:13
Alignment explanation
Indices: 939172--939198 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
939162 ACAACATTCC
939172 TTGTATCGATACA
1 TTGTATCGATACA
939185 TTGTATCGATACA
1 TTGTATCGATACA
939198 T
1 T
939199 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:941098 original size:22 final size:22
Alignment explanation
Indices: 941073--941114 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
941063 TTTTTTAAGA
941073 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
941095 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
941115 ATGTTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:941726 original size:13 final size:13
Alignment explanation
Indices: 941708--941734 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
941698 ACATTATGCT
941708 TTGTATCGATACA
1 TTGTATCGATACA
941721 TTGTATCGATACA
1 TTGTATCGATACA
941734 T
1 T
941735 GTTCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:941768 original size:20 final size:19
Alignment explanation
Indices: 941718--941774 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
941708 TTGTATCGAT
*
941718 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
941737 TCATTATATCGATACATGG
1 ACATTGTATCGATACATGG
941756 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
941775 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:941828 original size:20 final size:20
Alignment explanation
Indices: 941803--941856 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
941793 CTACCACTGT
*
941803 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
941823 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
941843 TTGTATCGATACAT
1 TTGTATCGATACAT
941857 TGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:945793 original size:15 final size:16
Alignment explanation
Indices: 945775--945808 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
945765 GTGAAAACAC
945775 AAAAAATGAAAAAG-A
1 AAAAAATGAAAAAGCA
*
945790 AAAAAATGCAAAAGCA
1 AAAAAATGAAAAAGCA
945806 AAA
1 AAA
945809 TAAAAAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAAATGAAAAAGCA
Found at i:946721 original size:27 final size:27
Alignment explanation
Indices: 946685--946819 Score: 162
Period size: 27 Copynumber: 5.0 Consensus size: 27
946675 TTTCTTTTCA
* * *
946685 AAGTCCACAACTCCGTGGAATCTTTTT
1 AAGTCCACAACTCTGTGGAACCCTTTT
* *
946712 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGAACCCTTTT
* * *
946739 AAGTCCACAGCTCTGTGGCACTCTTTT
1 AAGTCCACAACTCTGTGGAACCCTTTT
*
946766 AAAGTCCACAACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCTGTGGAACCCTTTT
* *
946794 AAGTCCATAACTCTGTGGCACCCTTT
1 AAGTCCACAACTCTGTGGAACCCTTT
946820 CAAAGCCCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 73 0.74
28 25 0.26
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGAACCCTTTT
Found at i:946775 original size:55 final size:55
Alignment explanation
Indices: 946685--946846 Score: 213
Period size: 55 Copynumber: 3.0 Consensus size: 55
946675 TTTCTTTTCA
* * *
946685 AAGTCCACAACTCCGTGG-AATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* *
946739 AAGTCCACAGCTCTGTGGCACTCTTTTAAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* * * * *
946794 AAGTCCATAACTCTGTGGCACCCTTTCAAAGCCCACAAGT-CGTGGCA-CCTTTT
1 AAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
946847 CAAAGCCCAT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 6 0.06
54 22 0.23
55 67 0.71
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (55 bp):
AAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:946839 original size:82 final size:84
Alignment explanation
Indices: 946677--946944 Score: 253
Period size: 82 Copynumber: 3.2 Consensus size: 84
946667 CAGTGGCATT
* * * * * *
946677 TCTTTTCAAAGTCCACAACTCCGTGGAATCTTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAA
1 TCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTAAGTCCATAACTCTGTGGCACCCTTTCAAA
* *
946741 GTCCAC-AGCTCTGTGGCAC
66 GCCCACAAGATC-GTGGCAC
* *
946760 TCTTTT-AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACCCTTTCAAA
1 TCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTAAGTCCATAACTCTGTGGCACCCTTTCAAA
946824 GCCCACAAG-TCGTGGCAC
66 GCCCACAAGATCGTGGCAC
* * * * * * *
946842 -CTTTTCAAAGCCCATAAGTCAGTGGCATCCTTCTTAAAGCCCATGAGT-TAGTGGCATCCTTCT
1 TCTTTTCAAAGTCCACAACTCAGTGGCATCCTT-TT-AAGTCCATAACTCT-GTGGCACCCTT-T
* *
946905 CAAGGCCCACAAGATAGTGGCA-
62 CAAAGCCCACAAGATCGTGGCAC
*
946927 TCCTTTTCAAAGGCCACA
1 T-CTTTTCAAAGTCCACA
946945 CAAATCAGTG
Statistics
Matches: 154, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
81 5 0.03
82 76 0.49
83 18 0.12
84 21 0.14
85 13 0.08
86 7 0.05
87 14 0.09
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (84 bp):
TCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTAAGTCCATAACTCTGTGGCACCCTTTCAAA
GCCCACAAGATCGTGGCAC
Found at i:947004 original size:32 final size:32
Alignment explanation
Indices: 946931--947617 Score: 510
Period size: 32 Copynumber: 22.6 Consensus size: 32
946921 GTGGCATCCT
* * * * *
946931 TTTCAAAGGCCACACAAATCAGTGG-TA-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
946961 TTTCAAAGCCCACACAAGTCGGTGGCAACTTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
946993 TTTGAAAGCCCACACAAGTCCGTGGCAACCCG
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
** *
947025 TTTCAAAGCCCACACAAGTTAGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
947057 TTTCAAAG-CC-CATAAGTCAGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
947085 TTTCAAAGCCCACACAAGTCGATGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * * *
947117 TATGAAAGCCTACACAAGTTGGTGGTAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
947149 TTTGAAAGCCCACACAAATCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* ** * *
947181 TTTCAAAGCCTACACAAGTCGACGACAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
947213 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
947241 TTTCAAAGCCCACACAAGTCGGTGGTAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
947273 TTTAAAAGCTCATACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * * *
947305 TTTGAAAGCCCACATAAGTTGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
947337 TTTCAAAGCCCACACAAGTCGATGGCAACCCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* ** *
947369 TTTCAAAG-CC-CATAAGTTAGTGG-AAC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
947397 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
947425 TTTCAAAG-TC-CATAAGTCGGTGGCATC-CT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
947454 TTTCAAAG-CC-CACAAGTCGGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
947482 TTTTAAAGCCCACA-AA-TCAGTGGC-A-TCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
** * * *
947510 TTTCAAA-ATC-CATAAGTCGGTGGCATC-CT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
947539 TTTCAAAG-CC-CACAAGTCGATGG-TA-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
947567 TTTCAAAGCCCACATAAGTCGATGGCAACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
947599 TTTCAAAGCCTACACAAGT
1 TTTCAAAGCCCACACAAGT
947618 TAGTGGCATC
Statistics
Matches: 534, Mismatches: 96, Indels: 52
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.00
27 3 0.01
28 109 0.20
29 58 0.11
30 90 0.17
31 9 0.02
32 263 0.49
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
Found at i:947091 original size:124 final size:122
Alignment explanation
Indices: 946808--947625 Score: 520
Period size: 124 Copynumber: 6.8 Consensus size: 122
946798 CCATAACTCT
* * *
946808 GTGGCACCC-TTTCAAAGCC-CACAAGTCGTGGCACCTTTTCAAAG-CC-CATAAGTC-AGTGGC
1 GTGGCACCCATTTCAAAGCCACACAAGTCGTGGCATCATTTCAAAGCCCACACAAGTCGA-TGGC
* * ** * * *
946868 -A-TCCTTCTTAAAG-CC-CATGAGTTAGTGGC-ATCCTTCTC-AAGGCC-CACAAGAT-A
65 AACTCATT-TCAAAGCCCACACAAGTCAGTGGCAACCCTT-TCAAAGCCCACACAAG-TCA
* * * * * *
946921 GTGGCATCCTTTTCAAAGGCCACACAAATCAGTGGTATCTTTTCAAAGCCCACACAAGTCGGTGG
1 GTGGCACCCATTTCAAA-GCCACACAAGTC-GTGGCATCATTTCAAAGCCCACACAAGTCGATGG
* * * *
946986 CAACTTATTTGAAAGCCCACACAAGTCCGTGGCAACCCGTTTCAAAGCCCACACAAGTTA
64 CAACTCATTTCAAAGCCCACACAAGTCAGTGGCAACCC-TTTCAAAGCCCACACAAGTCA
*
947046 GTGGCAACCCATTTCAAAGCC-CATAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGATGG
1 GTGGC-ACCCATTTCAAAGCCACACAAGTC-GTGGCATCATTTCAAAGCCCACACAAGTCGATGG
* * * ** * * * * *
947110 CAACTCATATGAAAGCCTACACAAGTTGGTGGTAACTCATTTGAAAGCCCACACAAATCG
64 CAACTCATTTCAAAGCCCACACAAGTCAGTGGCAAC-CCTTTCAAAGCCCACACAAGTCA
* * *
947170 GTGGCAACCCATTTCAAAGCCTACACAAGTCGACGACAACCCATTTCAAAG-CC-CACAAGTC-A
1 GTGGC-ACCCATTTCAAAGCC-ACACAAGTCG-TGGC-A-TCATTTCAAAGCCCACACAAGTCGA
* * * * * * *
947232 GTGGC-A-TCATTTCAAAGCCCACACAAGTCGGTGGTAACTCATTTAAAAGCTCATACAAGTCG
61 -TGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCAAC-CCTTTCAAAGCCCACACAAGTCA
* * * * * *
947294 GTGGCAACTCATTTGAAAGCCCACATAAGTTGGTGGTAACCCATTTCAAAGCCCACACAAGTCGA
1 GTGGC-ACCCATTTCAAAG-CCACACAAG-TCGTGG-CA-TCATTTCAAAGCCCACACAAGTCGA
* * * *
947359 TGGCAACCCCTTTCAAAG-CC-CATAAGTTAGTGG-AACCCTTTCAAAG-CC-CACAAGTCA
61 TGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTCA
* * * * *
947416 GTGGCATCC-TTTCAAAGTC-CATAAGTCGGTGGCATCCTTTTCAAAG-CC-CACAAGTCGGTGG
1 GTGGCACCCATTTCAAAGCCACACAAGTC-GTGGCAT-CATTTCAAAGCCCACACAAGTCGATGG
* * * ** * *
947477 C-A-TCTTTTTAAAGCCCACA-AA-TCAGTGGC-ATCCTTTCAAA-ATC-CATAAGTCG
64 CAACTCATTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTCA
* * * * *
947529 GTGGCATCCTTTTCAAAGCC-CACAAGTCGATGGTATCTTTTCAAAGCCCACATAAGTCGATGGC
1 GTGGCACCCATTTCAAAGCCACACAAGTCG-TGGCATCATTTCAAAGCCCACACAAGTCGATGGC
* * *
947593 AACTCTTTTCAAAGCCTACACAAGTTAGTGGCA
65 AACTCATTTCAAAGCCCACACAAGTCAGTGGCA
947626 TCTTTTTTTT
Statistics
Matches: 571, Mismatches: 87, Indels: 87
0.77 0.12 0.12
Matches are distributed among these distances:
113 60 0.11
114 35 0.06
115 30 0.05
116 10 0.02
117 41 0.07
118 14 0.02
119 19 0.03
120 13 0.02
121 7 0.01
122 22 0.04
123 6 0.01
124 207 0.36
125 28 0.05
126 53 0.09
127 7 0.01
128 19 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (122 bp):
GTGGCACCCATTTCAAAGCCACACAAGTCGTGGCATCATTTCAAAGCCCACACAAGTCGATGGCA
ACTCATTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTCA
Found at i:947155 original size:156 final size:156
Alignment explanation
Indices: 946965--947617 Score: 641
Period size: 156 Copynumber: 4.3 Consensus size: 156
946955 GTATCTTTTC
* * * *
946965 AAAGCCCACACAAGTCGGTGGCAACTTATTTGAAAGCCCACACAAGTCCGTGGCAACCCGTTTCA
1 AAAGCCTACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
*
947030 AAGCCCACACAAGT-TAGTGGCAACCCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGC
66 AAGCCCACACAAGTCGA-TGGCAACCCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGC
*
947094 CCACACAAGTCGATGGCAACTCATATG
130 CCACACAAGTCGATGGCAACTCATATA
* * *
947121 AAAGCCTACACAAGTTGGTGGTAACTCATTTGAAAGCCCACACAAATCGGTGGCAACCCATTTCA
1 AAAGCCTACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * * *
947186 AAGCCTACACAAGTCGACGACAACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCC
66 AAGCCCACACAAGTCGATGGCAACCCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCC
* * *
947251 CACACAAGTCGGTGGTAACTCATTTA
131 CACACAAGTCGATGGCAACTCATATA
* * * *
947277 AAAG-CTCATACAAGTCGGTGGCAACTCATTTGAAAGCCCACATAAGTTGGTGGTAACCCATTTC
1 AAAGCCT-ACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTC
* * * * *
947341 AAAGCCCACACAAGTCGATGGCAACCCCTTTCAAAGCCCATAAGTTAGTGGAACCCTTTCAAAG-
65 AAAGCCCACACAAGTCGATGGCAACCCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGC
* * *
947405 CC-CACAAGTC-AGTGGC-A-TCCTTTC
130 CCACACAAGTCGA-TGGCAACTCATATA
* * * * * * * *
947429 AAAG--TCCATAAGTCGGTGGCATC-CTTTTCAAAG-CC-CACAAGTCGGTGGC-A-TCTTTTTA
1 AAAGCCTACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* ** * *
947487 AAGCCCACA-AA-TC-AGTGGC-ATCC-TTTCAAAATCCATAAGTCGGTGGCATCCTTTTCAAAG
66 AAGCCCACACAAGTCGA-TGGCAACCCATTTCAAAGCCCATAAGTCAGTGGCAT-CATTTCAAAG
* * * *
947547 -CC-CACAAGTCGATGG-TA-TCTTTTC
129 CCCACACAAGTCGATGGCAACTCATATA
* * * * * *
947571 AAAGCCCACATAAGTCGATGGCAACTCTTTTCAAAGCCTACACAAGT
1 AAAGCCTACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGT
947618 TAGTGGCATC
Statistics
Matches: 423, Mismatches: 62, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
141 20 0.05
142 37 0.09
143 7 0.02
144 17 0.04
145 24 0.06
146 2 0.00
147 18 0.04
148 2 0.00
149 8 0.02
150 14 0.03
151 1 0.00
152 9 0.02
153 1 0.00
154 11 0.03
155 4 0.01
156 247 0.58
157 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (156 bp):
AAAGCCTACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
AAGCCCACACAAGTCGATGGCAACCCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCC
CACACAAGTCGATGGCAACTCATATA
Found at i:947625 original size:32 final size:31
Alignment explanation
Indices: 946817--947625 Score: 439
Period size: 32 Copynumber: 26.8 Consensus size: 31
946807 TGTGGCACCC
946817 TTTCAAAGCC-CACAAGTC-GTGGC-AC-CT
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
* *
946844 TTTCAAAGCC-CATAAGTCAGTGGCATC-CT
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
** * *
946873 TCTT-AAAGCC-CATGAGTTAGTGGCATC-CT
1 T-TTCAAAGCCACACAAGTCAGTGGCAACTCT
* * *
946902 TCTCAAGGCC-CACAAGAT-AGTGGCATC-CT
1 TTTCAAAGCCACACAAG-TCAGTGGCAACTCT
* *
946931 TTTCAAAGGCCACACAAATCAGTGG-TA-TCT
1 TTTCAAA-GCCACACAAGTCAGTGGCAACTCT
*
946961 TTTCAAAGCCCACACAAGTCGGTGGCAACT-T
1 TTTCAAAG-CCACACAAGTCAGTGGCAACTCT
* * * *
946992 ATTTGAAAGCCCACACAAGTCCGTGGCAACCCG
1 -TTTCAAAG-CCACACAAGTCAGTGGCAACTCT
* * *
947025 TTTCAAAGCCCACACAAGTTAGTGGCAACCCA
1 TTTCAAAG-CCACACAAGTCAGTGGCAACTCT
* *
947057 TTTCAAAGCC-CATAAGTCAGTGGC-A-TCA
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
*
947085 TTTCAAAGCCCACACAAGTC-GATGGCAACTCA
1 TTTCAAAG-CCACACAAGTCAG-TGGCAACTCT
* * ** * *
947117 TATGAAAGCCTACACAAGTTGGTGGTAACTCA
1 TTTCAAAGCC-ACACAAGTCAGTGGCAACTCT
* * * * *
947149 TTTGAAAGCCCACACAAATCGGTGGCAACCCA
1 TTTCAAAG-CCACACAAGTCAGTGGCAACTCT
* * * *
947181 TTTCAAAGCCTACACAAGTC-GACGACAACCCA
1 TTTCAAAGCC-ACACAAGTCAG-TGGCAACTCT
*
947213 TTTCAAAGCC-CACAAGTCAGTGGC-A-TCA
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
* * *
947241 TTTCAAAGCCCACACAAGTCGGTGGTAACTCA
1 TTTCAAAG-CCACACAAGTCAGTGGCAACTCT
* * * *
947273 TTTAAAAGCTCATACAAGTCGGTGGCAACTCA
1 TTTCAAAGC-CACACAAGTCAGTGGCAACTCT
* * ** * * *
947305 TTTGAAAGCCCACATAAGTTGGTGGTAACCCA
1 TTTCAAAG-CCACACAAGTCAGTGGCAACTCT
* *
947337 TTTCAAAGCCCACACAAGTC-GATGGCAACCCC
1 TTTCAAAG-CCACACAAGTCAG-TGGCAACTCT
* * *
947369 TTTCAAAGCC-CATAAGTTAGTGG-AAC-CC
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
*
947397 TTTCAAAGCC-CACAAGTCAGTGGC-A-TCC
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
* * * *
947425 TTTCAAAGTC-CATAAGTCGGTGGCATC-CT
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
*
947454 TTTCAAAGCC-CACAAGTCGGTGGC-A-TCT
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
* * *
947482 TTTTAAAGCC-CACAAATCAGTGGC-A-TCC
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
** * * *
947510 TTTCAAAATC-CATAAGTCGGTGGCATC-CT
1 TTTCAAAGCCACACAAGTCAGTGGCAACTCT
*
947539 TTTCAAAGCC-CACAAGTC-GATGG-TA-TCT
1 TTTCAAAGCCACACAAGTCAG-TGGCAACTCT
*
947567 TTTCAAAGCCCACATAAGTC-GATGGCAACTCT
1 TTTCAAAG-CCACACAAGTCAG-TGGCAACTCT
*
947599 TTTCAAAGCCTACACAAGTTAGTGGCA
1 TTTCAAAGCC-ACACAAGTCAGTGGCA
947626 TCTTTTTTTT
Statistics
Matches: 641, Mismatches: 93, Indels: 91
0.78 0.11 0.11
Matches are distributed among these distances:
27 17 0.03
28 128 0.20
29 108 0.17
30 96 0.15
31 30 0.05
32 257 0.40
33 5 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (31 bp):
TTTCAAAGCCACACAAGTCAGTGGCAACTCT
Found at i:947798 original size:48 final size:48
Alignment explanation
Indices: 947742--947844 Score: 152
Period size: 48 Copynumber: 2.1 Consensus size: 48
947732 AGCACCTTTA
947742 TTAGCTCAATGCCACTGGCCTTAAATCAACACATTGTCCACTTTTCCC
1 TTAGCTCAATGCCACTGGCCTTAAATCAACACATTGTCCACTTTTCCC
* ** * * *
947790 TTAGCTCAATGTCGTTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGCCACTGGCCTTAAATCAACACATTGTCCACTTTTCCC
947838 TTAGCTC
1 TTAGCTC
947845 TATATCGTCG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (48 bp):
TTAGCTCAATGCCACTGGCCTTAAATCAACACATTGTCCACTTTTCCC
Found at i:947858 original size:48 final size:48
Alignment explanation
Indices: 947771--947873 Score: 170
Period size: 48 Copynumber: 2.1 Consensus size: 48
947761 CTTAAATCAA
* *
947771 CACATTGTCCACTTTTCCCTTAGCTCAATGTCGTTGGCCTTGAATTAG
1 CACATTGTCCACTTTTCCCTTAGCTCAATATCGTCGGCCTTGAATTAG
* *
947819 CACATTGTCCACTTTTCCCTTAGCTCTATATCGTCGGCCTTGAATTGG
1 CACATTGTCCACTTTTCCCTTAGCTCAATATCGTCGGCCTTGAATTAG
947867 CACATTG
1 CACATTG
947874 GCACTCTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (48 bp):
CACATTGTCCACTTTTCCCTTAGCTCAATATCGTCGGCCTTGAATTAG
Found at i:948629 original size:20 final size:20
Alignment explanation
Indices: 948604--948678 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
948594 TTTTACCCAG
*
948604 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
948624 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
948644 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
948664 ATGTATCGATACATT
1 ATGTATCGATACATT
948679 CTATCTTTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:949979 original size:10 final size:10
Alignment explanation
Indices: 949964--949998 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
949954 TTTGAAAATA
949964 TAGCCGTTAC
1 TAGCCGTTAC
949974 TAGCCGTTAC
1 TAGCCGTTAC
949984 TAGCCGTTAC
1 TAGCCGTTAC
*
949994 AAGCC
1 TAGCC
949999 AATGTATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (10 bp):
TAGCCGTTAC
Found at i:950040 original size:13 final size:13
Alignment explanation
Indices: 950022--950047 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
950012 AATTTGGTCA
950022 TGTATCGATACAT
1 TGTATCGATACAT
950035 TGTATCGATACAT
1 TGTATCGATACAT
950048 ACAAGATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:950138 original size:22 final size:21
Alignment explanation
Indices: 950108--950162 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
950098 CCAATCACCT
* **
950108 GTATTGATACAATTTTTTGCAA
1 GTATCGATACAATTTGGT-CAA
*
950130 GTATCGATAC-ATTTGGTCAT
1 GTATCGATACAATTTGGTCAA
950150 GTATCGATACAAT
1 GTATCGATACAAT
950163 GTATCGATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 12 0.43
21 7 0.25
22 9 0.32
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (21 bp):
GTATCGATACAATTTGGTCAA
Found at i:950166 original size:13 final size:13
Alignment explanation
Indices: 950148--950172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
950138 ACATTTGGTC
950148 ATGTATCGATACA
1 ATGTATCGATACA
950161 ATGTATCGATAC
1 ATGTATCGATAC
950173 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:952653 original size:13 final size:13
Alignment explanation
Indices: 952635--952672 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
952625 ATAAACCCTT
*
952635 TGTATCGATACAC
1 TGTATCGATACAA
952648 TGTATCGATACAA
1 TGTATCGATACAA
952661 TGTATCGATACA
1 TGTATCGATACA
952673 GAGAATGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:953933 original size:52 final size:52
Alignment explanation
Indices: 953874--953991 Score: 166
Period size: 52 Copynumber: 2.3 Consensus size: 52
953864 AGATAACGAG
* ** *
953874 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTG-TTTTGAAAATAAAATCGGA
* *
953926 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGGA
953978 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
953992 AAACTTAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 48 0.81
53 11 0.19
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:956336 original size:13 final size:13
Alignment explanation
Indices: 956318--956343 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
956308 ACAAAGATCG
956318 ATGTATCGATACA
1 ATGTATCGATACA
956331 ATGTATCGATACA
1 ATGTATCGATACA
956344 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:957122 original size:40 final size:42
Alignment explanation
Indices: 957076--957167 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
957066 GTCCCATTGT
*
957076 TTGAGGACAAAGGAAAAG-A-GAATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGGAAAGAAA-AGTGTCTTGCTCC
** * * *
957116 TTGAGGATGAAGGAAGAGAAGGAAAGGAAAGTGTCTTGCTTC
1 TTGAGGACAAAGGAAAAGAAGGAAAGAAAAGTGTCTTGCTCC
957158 TTGAGGACAA
1 TTGAGGACAA
957168 TGTGAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
40 15 0.37
41 3 0.07
42 23 0.56
ACGTcount: A:0.38, C:0.10, G:0.32, T:0.21
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGGAAAGAAAAGTGTCTTGCTCC
Found at i:957241 original size:42 final size:41
Alignment explanation
Indices: 957195--957415 Score: 248
Period size: 42 Copynumber: 5.1 Consensus size: 41
957185 CCCATTTTTC
* * *
957195 GAGGACAAAGGAAAAAGGGAAATGAAATACGTCCTGCTCTCT
1 GAGGACAAAGGAAAAAGGAAAAT-AAATGCGTCCTGCTCTTT
957237 GAGGACAAAAGG-AAAAGGAAAATAAAGTGCGTCCTGCTCTTT
1 GAGGAC-AAAGGAAAAAGGAAAATAAA-TGCGTCCTGCTCTTT
* *
957279 GAGGACTAGAAGGGAAAATAAGG-AAATAAAAAGCGTCCTACTCTTT
1 GAGGAC-A-AA-GG-AAA-AAGGAAAAT-AAATGCGTCCTGCTCTTT
* *
957325 GAGGACAAAGGAGAAAAGGAAAACGAAATGCGTCCAGCTCTTT
1 GAGGACAAAGGA-AAAAGGAAAA-TAAATGCGTCCTGCTCTTT
*
957368 GAGGACAAAGGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAGGAAAAAGGAAAATAAA-TGCGTCCTGCTCTTT
957410 GAGGAC
1 GAGGAC
957416 TACAAAGTGC
Statistics
Matches: 154, Mismatches: 13, Indels: 24
0.81 0.07 0.13
Matches are distributed among these distances:
41 6 0.04
42 70 0.45
43 41 0.27
44 4 0.03
45 1 0.01
46 25 0.16
47 7 0.05
ACGTcount: A:0.41, C:0.15, G:0.27, T:0.17
Consensus pattern (41 bp):
GAGGACAAAGGAAAAAGGAAAATAAATGCGTCCTGCTCTTT
Found at i:957527 original size:248 final size:248
Alignment explanation
Indices: 957260--957781 Score: 846
Period size: 248 Copynumber: 2.1 Consensus size: 248
957250 AAAGGAAAAT
*
957260 AAAGTGCGTCCTGCTCTTTGAGGACTAGAAGGGAAAATAAGGAAATAAAAAGCGTCCTACTCTTT
1 AAAG-GCGTCCTGCTCTTTGAGGACTAGAAGGGAAAAAAAGGAAATAAAAAGCGTCCTACTCTTT
* * * * *
957325 GAGGACAAAGGAGAAAAGGAAAACGAAATGCGTCCAGCTCTTTGAGGACAAAGGAAAGAGGAAAA
65 AAAGACAAAGAAGAAAAGGAAAACGAAATGCGTCCAGCTCTTTGAGGACAAAAGAAAGAAGAAAA
* *
957390 TAAAGTGCGTCCTGCTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCTTTGAAAAGAAA
130 TAAAGTGCGTCCTACTCTTTGAGGACTACAAAATGCCACCAACTTGAGTGGGCTTTGAAAAGAAA
* * * * *
957455 AAGACGTCTTGGTCTTTGAGGACTAGAGGGTGCTACCAACTCGTGTGGGCTTTA
195 AAGACATCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGCGGGCTTTA
* *
957509 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGGAAAAAAAGGAAATAAAGAGCGTCCTGCTCTTTA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGGAAAAAAAGGAAATAAAAAGCGTCCTACTCTTTA
* * *
957574 AAGACAAAGAAGAAAAGGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAGAAGAAAAT
66 AAGACAAAGAAGAAAAGGAAAACGAAATGCGTCCAGCTCTTTGAGGACAAAAGAAAGAAGAAAAT
957639 AAAGTGCGTCCTACTCTTTGAGGACTACAAAATGCCACCAACTTGAGTGGGCTTTGAAAAGAAAA
131 AAAGTGCGTCCTACTCTTTGAGGACTACAAAATGCCACCAACTTGAGTGGGCTTTGAAAAGAAAA
* *
957704 AGGCATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGCGGGCTTTA
196 AGACATCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGCGGGCTTTA
*
957757 TAAGGCGTCCTGCTCTTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
957782 GAAAGGTGCC
Statistics
Matches: 252, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
248 248 0.98
249 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.22
Consensus pattern (248 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGGAAAAAAAGGAAATAAAAAGCGTCCTACTCTTTA
AAGACAAAGAAGAAAAGGAAAACGAAATGCGTCCAGCTCTTTGAGGACAAAAGAAAGAAGAAAAT
AAAGTGCGTCCTACTCTTTGAGGACTACAAAATGCCACCAACTTGAGTGGGCTTTGAAAAGAAAA
AGACATCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGCGGGCTTTA
Found at i:957658 original size:42 final size:42
Alignment explanation
Indices: 957509--957663 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 42
957499 GTGGGCTTTA
957509 AAAG-GCGTCCTGCTCTTTGAGGACTAGAAGGGAA-AAAAAGGAAAT
1 AAAGTGCGTCCTGCTCTTTGAGGAC-A-AA---AAGAAAAAGGAAAT
* * * *
957554 AAAGAGCGTCCTGCTCTTTAAAGACAAAGAAGAAAAGGGAAAT
1 AAAGTGCGTCCTGCTCTTTGAGGACAAA-AAGAAAAAGGAAAT
*
957597 GAAA-TGCGTCCTGCTCTTTGAGGAC-AAAAGAAAGAAGAAAAT
1 -AAAGTGCGTCCTGCTCTTTGAGGACAAAAAGAAA-AAGGAAAT
*
957639 AAAGTGCGTCCTACTCTTTGAGGAC
1 AAAGTGCGTCCTGCTCTTTGAGGAC
957664 TACAAAATGC
Statistics
Matches: 96, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 9 0.09
42 31 0.32
43 28 0.29
44 5 0.05
45 5 0.05
46 18 0.19
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (42 bp):
AAAGTGCGTCCTGCTCTTTGAGGACAAAAAGAAAAAGGAAAT
Found at i:957790 original size:55 final size:55
Alignment explanation
Indices: 957702--957841 Score: 203
Period size: 55 Copynumber: 2.6 Consensus size: 55
957692 TTGAAAAGAA
* * *
957702 AAAGGCATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGCGGGC-TTT
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGCGGGCTTTT
* *
957756 ATAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTT
1 A-AAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGCGGGCTTTT
*
957812 AAAGGCGTCATGCTCTTTGAGGACT-AAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
957842 GTGAAAAGAG
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
54 6 0.08
55 68 0.87
56 4 0.05
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.26
Consensus pattern (55 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGCGGGCTTTT
Found at i:957963 original size:61 final size:56
Alignment explanation
Indices: 957855--958162 Score: 313
Period size: 55 Copynumber: 5.4 Consensus size: 56
957845 AAAAGAGAGA
*
957855 GCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACTAACTTGT-TCGGGCTTTAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTGAGAAGGTGCCACCAACTTGTGT-GGGCTTT-----G-AAAG
*
957916 GCATCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTGAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * ** *
957971 GCATCTTGCTATTAGAGGACTG-GAAAATGCCACCAACCTGTGTGGGCTTTGAAAAGGAAAG
1 GCATCCTGCTCTTTGAGGACTGAGAAGGTGCCACCAACTTGTGTGGGCTTT------GAAAG
*
958032 GCATCCTGCTCTCTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTGAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * ** *
958087 GCGTCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGAATTGAAAA
1 GCATCCTGCTCTTTGAGGACTGAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
958142 GCATCCTACTCTTTGAGGACT
1 GCATCCTGCTCTTTGAGGACT
958163 AAAGGGCGAA
Statistics
Matches: 214, Mismatches: 22, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
54 4 0.02
55 116 0.54
56 1 0.00
61 88 0.41
62 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (56 bp):
GCATCCTGCTCTTTGAGGACTGAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:957989 original size:155 final size:149
Alignment explanation
Indices: 957706--957991 Score: 385
Period size: 155 Copynumber: 1.9 Consensus size: 149
957696 AAAGAAAAAG
* * * *
957706 GCATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGCGGGCTTTATAAGGCGTCCTGCT
1 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGCGGGCTTTAAAAGGCATCCTGCT
* * * * *
957771 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGCGTCATGCTCTTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCATGCTATTAGAGGAC
957836 TAAAGGGTGAAAAGAGAGA
131 TAAAGGGTGAAAAGAGAGA
* * *
957855 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTTCGGGCTTTAAAAGGAAAAGGCAT
1 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGCGGGCTTT------AAAAGGCAT
*
957920 CCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCTTGCTATT
60 CCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCATGCTATT
957984 AGAGGACT
124 AGAGGACT
957992 GGAAAATGCC
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
149 45 0.38
155 70 0.60
156 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (149 bp):
GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGCGGGCTTTAAAAGGCATCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCATGCTATTAGAGGAC
TAAAGGGTGAAAAGAGAGA
Found at i:958062 original size:116 final size:116
Alignment explanation
Indices: 957855--958142 Score: 343
Period size: 116 Copynumber: 2.5 Consensus size: 116
957845 AAAAGAGAGA
* * * * * *
957855 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGT-TCGGGCTTT-AAAAGGAAAAGGC
1 GCATCCTACTATTAGAGGACTA-AAAGTGCCACCAACCTGTGT-GGGCTTTGAAAAGGAAAAGGC
*
957918 ATCCTGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAG
64 ATCCTGCTCTCTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAG
* *
957971 GCATCTTGCTATTAGAGGACTGGAAAA-TGCCACCAACCTGTGTGGGCTTTGAAAAGG-AAAGGC
1 GCATCCTACTATTAGAGGACT--AAAAGTGCCACCAACCTGTGTGGGCTTTGAAAAGGAAAAGGC
*
958034 ATCCTGCTCTCTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
64 ATCCTGCTCTCTGAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAG
* * * * **
958087 GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGAATTGAAAAG
1 GCATCCTACTATTAGAGGACTAAAA-GTGCCACCAACCTGTGTGGGCTTTGAAAAG
958143 CATCCTACTC
Statistics
Matches: 149, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
114 4 0.03
115 2 0.01
116 133 0.89
117 9 0.06
118 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (116 bp):
GCATCCTACTATTAGAGGACTAAAAGTGCCACCAACCTGTGTGGGCTTTGAAAAGGAAAAGGCAT
CCTGCTCTCTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAG
Found at i:958311 original size:155 final size:148
Alignment explanation
Indices: 958023--958320 Score: 366
Period size: 155 Copynumber: 2.0 Consensus size: 148
958013 TGGGCTTTGA
958023 AAAGGAAAGGCATCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 AAAGGAAAGGCATCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
*
958088 CGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGAATTGAAAAGCATCCTACTC
66 CGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGAATTGAAAAGCATCCTACTC
958153 TTTGAGGACTAAAGGGCG
131 TTTGAGGACTAAAGGGCG
* * * *
958171 AAAGGAGAGAGCATCCTGCTCTTTGAGGATTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAGGAAAG-GCATCCTGCTCTCTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----
* * * ** * * *
958235 GGAAAAGGTGTCCTGCTTTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGG-CTTTAAAAGGC
60 -G-AAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGAATTGAAAA-GC
* *
958299 GTCCTGCTCTTTGAGGACTAAA
122 ATCCTACTCTTTGAGGACTAAA
958321 AGGTGCCACC
Statistics
Matches: 126, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
148 8 0.06
149 43 0.34
150 3 0.02
154 7 0.06
155 65 0.52
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (148 bp):
AAAGGAAAGGCATCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
CGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGAATTGAAAAGCATCCTACTC
TTTGAGGACTAAAGGGCG
Found at i:958326 original size:55 final size:55
Alignment explanation
Indices: 958184--958380 Score: 216
Period size: 55 Copynumber: 3.5 Consensus size: 55
958174 GGAGAGAGCA
* ** * *
958184 TCCTGCTCTTTGAGGATTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTT------AAAAGGCG
* ** *
958245 TCCTGCTTTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
*
958300 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
* *
958355 TCCTGCTCTTTGAAGACTAAAGGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTG
958381 AAAAGAGAGA
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
55 81 0.66
60 3 0.02
61 39 0.32
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCG
Found at i:958366 original size:210 final size:210
Alignment explanation
Indices: 957971--958585 Score: 917
Period size: 210 Copynumber: 2.9 Consensus size: 210
957961 GCTTTGAAAG
* * * * *
957971 GCATCTTGCTATTAGAGGACTGGAAAATGCCACCAACCTGTGTGGGCTTTGAAAAGG-AAAGGCA
1 GCATCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * * * *
958035 TCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTT
65 TCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
** * * *
958100 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGAATTGAAAAGCATCCTACTCTTTGAGGACTAA
130 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAA
*
958165 AGGGCGAAAGGAGAGA
195 AGGGCGAAAAGAGAGA
* * * *
958181 GCATCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
1 GCATCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
*
958246 CCTGCTTTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
66 CCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
* *
958311 GAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGACTAAA
131 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
*
958376 GGGTGAAAAGAGAGA
196 GGGCGAAAAGAGAGA
* * * *
958391 ACGTCTTGCTCTTTGAGGACTCGAAAGTGACACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCATCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
*
958456 CCTGCTCTTTGAGGACTTGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
66 CCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
* * *
958521 GAGGACTGAAAGGTGCCACCAACTTGTCTGGGCTTTTAAAGGCGTCCTGCTCTTTGAGGACTAAA
131 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
958586 AGGTGCCACC
Statistics
Matches: 364, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
209 6 0.02
210 358 0.98
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (210 bp):
GCATCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
GGGCGAAAAGAGAGA
Found at i:958536 original size:55 final size:55
Alignment explanation
Indices: 958392--959246 Score: 610
Period size: 55 Copynumber: 15.5 Consensus size: 55
958382 AAAGAGAGAA
* * *
958392 CGTCTTGCTCTTTGAGGACTCGAAA-GTGACACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGG
** * *
958453 CGTCCTGCTCTTTGAGGACTTGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * *
958508 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTCTGGGCTTTTAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
958563 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGG
* * * * * **
958624 CGTCCTCCTCTCTGAGGACTAGAGGGTACCACCAACTCCTGTGGGCTTTAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
958679 CATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * *
958734 CGTCTTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
958789 CATCCTGCTCTCTAAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * ** *
958844 CATCCTGCCCTTTGAGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * * *
958899 CG---T-CTCTTTGAGGACT-AAAGG-GCGA--AA--GGAGAGAGCGTCT---A-G
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAGG
* ** ** * *** **** ***
958941 C-TCTTTGAGGACTGGGAAGTGCCACCAACTTGTG---TGGGCTT-TAAAAGG----AAAAGG
1 CGTC-CT--GCTCTTTG-AG-G--ACTAAAAGGTGCCACCAACTTGT-GTGGGCTTTAAAAGG
* * * *
958995 CATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * *
959050 C-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* **
959105 CGTCCTGCTCTTTGAGGACTAGGAA-GTGAAACCAACTTGTGTGGGCTTTAAAAGGAGAAGG
1 CGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGG
* *
959166 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
959221 CATCCTACTTTTTGAGGACAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAAGG
959247 CGAAAGGAGG
Statistics
Matches: 636, Mismatches: 109, Indels: 104
0.75 0.13 0.12
Matches are distributed among these distances:
42 2 0.00
43 1 0.00
45 6 0.01
46 2 0.00
47 2 0.00
48 10 0.02
49 4 0.01
50 7 0.01
51 20 0.03
52 8 0.01
53 3 0.00
54 7 0.01
55 420 0.66
56 6 0.01
58 1 0.00
60 4 0.01
61 133 0.21
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (55 bp):
CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
Found at i:958692 original size:171 final size:171
Alignment explanation
Indices: 958392--960402 Score: 921
Period size: 171 Copynumber: 12.1 Consensus size: 171
958382 AAAGAGAGAA
* *
958392 CGTCTTGCTCTTTGAGGACTCGAAA-GTGACACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 CGTCTTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* * *
958456 CCTGCTCTTTGAGGACTTGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
65 CCTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
*
958521 GAGGACTGAAAGGTGCCACCAACTTGTCTGGGCTTTTAAAGG
130 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
*
958563 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * *
958628 CTCCTCTCTGAGGACTAGAGGGTACCACCAACTCCTGTGGGCTTTAAAAGGCATCCTACTCTTTG
66 CTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
958693 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
131 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
* *
958734 CGTCTTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * * * * *
958793 CTGCTCTCTAAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAGGCATCCTGCCCTTTG
66 CTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
* ** *
958858 AGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGG
131 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
* * ** ** ** * ** ** **
958899 CG---T-CTCTTTGAGGACTAAAGGGCGAAAGGAGA-GAGCGTCTAGCTCTT-TGAGG-ACTGG-
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCA-ACTTGTGT-GGGCT-TTAAAAGGAAAAGGC
*** * * * * *** **
958956 GAAGTGC-CAC-CA--ACTTGTGTGG-G-CTTTAA------AAGG----AAAAGGCATCCTGCTC
63 GTCCTGCTCTCTGAGGACTAGAG-GGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTC
* * * *
959005 TTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
127 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
* * *
959050 CTTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * ** * *
959109 CTGCTCTTTGAGGACTAG-GAAGTGAAACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
66 CTGCTCTCTGAGGACTAGAG-GGTGCCACCAACTCGTGTGGGCTTT---A--A-AAGGCATCCTG
* * * *
959173 CTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGG
124 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
* * * * * * ** ** * * ** ** *
959221 CATCCTACTTTTTGAGGACAAAAAGGCGAAAGGAGGGAGCGTCT-TGCTCTTTGAGGAGTAAGAA
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCA---A-CTTGTGTGGGCTTT-AAAAGGAA-AA
* * * *** ** * **
959285 -GCG--C--CAC-C--A--ACTTGTGTGG-G-CTTTAA------AAGG----AAGAGGTGTCCTG
60 GGCGTCCTGCTCTCTGAGGACTAGAG-GGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTG
* **
959328 CTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGG
124 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT--------TTAAAGG
* * * * * *
959383 CATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * * * * *
959447 CTCCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTCT
66 CTGCTCTCTGAGGACTAG-AGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
* *
959511 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
130 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
* * * *
959553 CATCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGTGTC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * * *
959612 CTGCTCTTTGAGGACTA-AAGG-G-CA--AA--------AG----AAGAGAGCATCCAGCTCTTT
66 CTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAG-GCATCCTGCTCTTT
* *
959660 GAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
130 GAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT------TAAAGG
* * *
959708 CATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGCGTC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * *
959767 CTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
66 CTGCTCTCTGAGGACTAGAG-GGTGCCACCAACTCGTGTGGGCTTT---A--A-AAGGCATCCTG
* *
959831 CTCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGG
124 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----TA-AAGG
* * * * *
959884 CGTCCTGCTCTTTGAGGACT-CAAGGTGCCACCAGCTTGTGTGGACTTT------AAAAGGCATC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * ** * * *
959942 CTGCTTTTTGAGGAC-AAAAAG-GCGA--AA---G-GAGGG-------A-GCGTCCTGCTCTTTG
66 CTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
* ** *
959991 AGGACTAGGAA-GCACCACCAACTTGTGTGGGCTTTAAAAGGAAGAGG
131 AGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----TAA-AGG
* * * * * * *
960038 TGTCCTGCTCTTTGAGGA-TTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGCA
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGGAA-AAGGCG
* * * * * *
960102 TCCAGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCT
64 TCCTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGG----C--ATCCT
* * *
960166 GCTCTTTAAGGCCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
123 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
* * * *
960215 CGTCCTGCACTCTGAGGACTAAAAGGTACCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTC
1 CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * * *
960274 CTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTTTG
66 CTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
* ** *
960339 AGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGG
131 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
*
960380 CGTCCTGCTCTTTGAGGACTAAA
1 CGTCTTGCTCTTTGAGGACTAAA
960403 GGGCGAAAGG
Statistics
Matches: 1437, Mismatches: 245, Indels: 322
0.72 0.12 0.16
Matches are distributed among these distances:
148 3 0.00
149 46 0.03
150 6 0.00
151 57 0.04
152 2 0.00
153 27 0.02
154 105 0.07
155 130 0.09
156 4 0.00
157 11 0.01
158 9 0.01
159 1 0.00
160 4 0.00
161 39 0.03
162 58 0.04
163 8 0.01
164 6 0.00
165 201 0.14
166 9 0.01
167 12 0.01
168 4 0.00
169 3 0.00
170 50 0.03
171 343 0.24
172 5 0.00
173 7 0.00
174 11 0.01
175 59 0.04
176 47 0.03
177 63 0.04
178 57 0.04
179 1 0.00
181 5 0.00
182 5 0.00
183 39 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (171 bp):
CGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
CTGCTCTCTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGG
Found at i:959022 original size:61 final size:60
Alignment explanation
Indices: 958923--959220 Score: 323
Period size: 61 Copynumber: 5.1 Consensus size: 60
958913 CTAAAGGGCG
* ***
958923 AAAGGAGAGAGCGT-CTAGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAG-GCGTCCT-GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTA
* *
958984 AAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTT-
1 AAAGG-AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTA
* * *
959044 ----GAAAGGC-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT-
1 AAAGGAAAGGCGTCCT-GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTA
** **
959099 ----GAAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGAAACCAACTTGTGTGGGCTTTA
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTA
* * *
959155 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTA
1 AAAGGA-AAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTA
959216 AAAGG
1 AAAGG
959221 CATCCTACTT
Statistics
Matches: 203, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
54 3 0.01
55 90 0.44
56 4 0.02
60 2 0.01
61 99 0.49
62 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (60 bp):
AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:959092 original size:206 final size:200
Alignment explanation
Indices: 958733--959108 Score: 558
Period size: 206 Copynumber: 1.9 Consensus size: 200
958723 GCTTTTAAAG
* *
958733 GCGTCTTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
1 GCGTCTAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
*
958798 CTCTAAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAGGCATCCTGCCCTTTGAGGAC
66 CTCTAAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTTGAAAGGCATCCTGCCCTTTGAGGAC
958863 TAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGGCGTCTCTTTGAGGACTAAAGGGCGAAAGG
131 TAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGGCGTCTCTTTGAGGACTAAAGGGCGAAAGG
958928 AGAGA
196 AGAGA
**
958933 GCGTCTAGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 GCGTCTAGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCA
* * * * * *
958997 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTGAAAGGC-TTCTCGCTCT
59 TCCTGCTCTCTAAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTTGAAAGGCATCCT-GCCCT
*
959061 TTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
123 TTGAGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGGCGTC
959109 CTGCTCTTTG
Statistics
Matches: 156, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
200 43 0.28
201 2 0.01
205 4 0.03
206 107 0.69
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (200 bp):
GCGTCTAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
CTCTAAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTTGAAAGGCATCCTGCCCTTTGAGGAC
TAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGGCGTCTCTTTGAGGACTAAAGGGCGAAAGG
AGAGA
Found at i:959176 original size:116 final size:115
Alignment explanation
Indices: 958923--959245 Score: 349
Period size: 116 Copynumber: 2.8 Consensus size: 115
958913 CTAAAGGGCG
**
958923 AAAGGAG-AGAGCGTCTAGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAGGAGAAG-GCGTCTAGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT---
** *
958986 AGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTT
61 --G-AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGAAACCAACTTGTGTGGGCTTT
* * *
959044 ----GA-AAGGCTTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
1 AAAGGAGAAGGCGTCTAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* **
959104 GCGTCCTGCTCTTTGAGGACTAGGAAGTGAAACCAACTTGTGTGGGCTTT
66 GCATCCTGCTCTTTGAGGACTAAAAAGTGAAACCAACTTGTGTGGGCTTT
* * *
959154 AAAAGGAGAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAA
1 -AAAGGAGAAGGCGT-CTAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* *
959218 AGGCATCCTACTTTTTGAGGAC-AAAAAG
64 AGGCATCCTGCTCTTTGAGGACTAAAAAG
959246 GCGAAAGGAG
Statistics
Matches: 172, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
110 48 0.28
111 1 0.01
115 8 0.05
116 109 0.63
117 6 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (115 bp):
AAAGGAGAAGGCGTCTAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
GCATCCTGCTCTTTGAGGACTAAAAAGTGAAACCAACTTGTGTGGGCTTT
Found at i:959408 original size:62 final size:58
Alignment explanation
Indices: 959265--959632 Score: 364
Period size: 55 Copynumber: 6.3 Consensus size: 58
959255 GGGAGCGTCT
* * * * **
959265 TGCTCTTTGAGGAGTAAGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCC
1 TGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGC-TTAAAA-GAAAAGGCATCC
*
959326 TGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT--AAAAG--AAAAGGCATCC
* * * **
959388 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCC
1 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGC-TTAAAA-GAAAAGGCATCC
* * *
959448 TCCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT---TG-AAAGGCGTCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
* *
959503 TGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT---TG-AAAGGCATCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
* **
959558 TGCTCTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTT---TG-AAAGGTGTCC
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
959613 TGCTCTTTGAGGACTAAAGG
1 TGCTCTTTGAGGACTAAAGG
959633 GCAAAAGAAG
Statistics
Matches: 273, Mismatches: 26, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
54 5 0.02
55 125 0.46
56 1 0.00
59 2 0.01
60 45 0.16
61 47 0.17
62 46 0.17
63 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (58 bp):
TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
Found at i:959429 original size:122 final size:112
Alignment explanation
Indices: 959265--959629 Score: 416
Period size: 110 Copynumber: 3.2 Consensus size: 112
959255 GGGAGCGTCT
* *
959265 TGCTCTTTGAGGAGTAAGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCT
1 TGCTCTTTGAGGACTAAG--GTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-AGGTGTCCTGCT
*
959330 CTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGCATCC
63 CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT-----AG---AAAGGCATCC
* * *
959388 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTCCTC
1 TGCTCTTTGAGGACT-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGTGTCCTGCTC
* *
959453 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
64 TTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTAGAAAGGCATCC
* **
959503 TGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGCATCCTGCTC
1 TGCTCTTTGAGGACT--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGTGTCCTGCTC
* **
959563 TTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCC
64 TTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTAGAAAGGCATCC
959613 TGCTCTTTGAGGACTAA
1 TGCTCTTTGAGGACTAA
959630 AGGGCAAAAG
Statistics
Matches: 220, Mismatches: 17, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
108 2 0.01
109 3 0.01
110 70 0.32
111 1 0.00
115 23 0.10
116 26 0.12
118 1 0.00
122 49 0.22
123 42 0.19
124 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (112 bp):
TGCTCTTTGAGGACTAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGTGTCCTGCTCTT
TGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTAGAAAGGCATCC
Found at i:959495 original size:29 final size:29
Alignment explanation
Indices: 959462--959609 Score: 73
Period size: 27 Copynumber: 5.3 Consensus size: 29
959452 CTTTGAGGAC
959462 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** ** * * *
959491 TGAAA-G-GCGTCCTGCTCTCTGAGGAC--
1 TGAAAGGTGCCACCAACT-TGTGTGGGCTT
*
959517 TAAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** * * *
959546 TGAAA-G-G-CATCCTGCTCTTTGAGGAC--
1 TGAAAGGTGCCA-CCAACT-TGTGTGGGCTT
959572 T-AAATGGTGCCACCAACTTGTGTGGGCTT
1 TGAAA-GGTGCCACCAACTTGTGTGGGCTT
959601 TGAAAGGTG
1 TGAAAGGTG
959610 TCCTGCTCTT
Statistics
Matches: 79, Mismatches: 26, Indels: 28
0.59 0.20 0.21
Matches are distributed among these distances:
25 3 0.04
26 7 0.09
27 25 0.32
28 25 0.32
29 16 0.20
30 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:959674 original size:713 final size:705
Alignment explanation
Indices: 957647--963055 Score: 4161
Period size: 713 Copynumber: 7.6 Consensus size: 705
957637 ATAAAGTGCG
* * * *
957647 TCCTACTCTTTGAGGACTACAAA-ATGCCACCAACTTGAGTGGGCTTTGAAAAGAAAAAGGCATC
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-------AAAAGGCGTC
* * * *
957711 CTGCTCTTTGAGGACT-GGAGGGTGCCACCAACTCGTGCGGGCTTT-ATAAGGCGTCCTGCTCTT
58 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGA-AAGGCGTCCTGCTCTT
* * * * *
957774 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGCGTCATGCTCTTTGAGGACTAA
122 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGACTAA
* * * * * * *
957839 AGGGTGAAAAG-AGAGAGCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACTAACTTGT-TCGGG
187 AAGGCG-AAAGCAGGGAGCGTCTTGCTCTTTGAGGACTAAGAA-GCGCCACCAACTTGTGT-GGG
* *
957901 CTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTCGTGTGGGCTT
249 CTTTAAAAGGAAGAGGCGTCCTGCTCTTTGAGGACT-A-AAGGTGCCACCAACTCGTGTGGGCTT
* * * * ** *
957965 ----TG--AAAGGCATCTTGCTATTAGAGGACTGGAAAATGCCACCAACCTGTGTGGGCTTTGAA
312 AAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AA
* ** *
958024 AAGG-AAAGGCATCCTGCTCTCTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
375 AAGGAAAACGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * ** * * *
958088 CGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGAATTGAAAAGCATCCTACTC
440 CGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
* ** * * * * * * * **
958153 TTTGAGGACTAAAGGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGATTGGGAAGTGCCA-CCAA
505 TTTGAGGACT--A-----AAAGGTGCCACCA-ACT--TGTGTG-GGCTTTGAAAG-G-CATCCTG
* * * * * * * *
958217 CT-TGTGTGGGCTTTAAAAGG--AAA--AG-GTG-TCCTGCTTTTTGAGGACT-GGAGGGTGCCA
557 CTCTTTGAGGAC--T-AAAGGCAAAAGGAGAGAGCACCAGCTCTTTGAGGACTAGGA-AGTGCCA
*
958274 CCAACTCGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA
618 CCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAA-GTGCCACCAA
* *
958333 CTCGTGTGGGCTTT-G-AAAGGCG
682 CTTGTGTGGGCTTTAGAAAAGGCA
* * * * * *
958355 TCCTGCTCTTTGAAGACTAAAGGGTG--A--AA------AGAG----AGAA--CGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* *
958404 TGAGGACTCGAAA-GTGACACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGA
66 TGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGA
** * * * * *
958468 GGACTTGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
125 GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGACT-AAAA
* * * *
958533 GTGCCACCAACTTGTCTGGGCTTTTAAAGGCGTCCTGCTCTTTGAGGACTAA-AAGGTGCCACCA
189 G-GCGA--AA---G-CAGGG-------A-GCGTCTTGCTCTTTGAGGACTAAGAA-GCGCCACCA
* * * * *
958597 ACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTCCTCTCTGAGGACTAGAGGGTACCACCAACTC
238 ACTTGTGTGGGCTTTAAAAGGAAGAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTC
* * *
958662 CTGTGGGCTT------TAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT
302 GTGTGGGCTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGT
* * * *
958721 GGGCTTTTAAAGG----C--GTCTTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC
366 GGGCTTTAAAAGGAAAACGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
* * *
958780 TTTGAAAGGCATCCTGCTCTCTAAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAGGC
431 TTTGAAAGGCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * ** *
958845 ATCCTGCCCTTTGAGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTGAAAGG---CGT-CTCT
496 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
* * * *
958906 TTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCTAGCTCTTTGAGGACTGGGAAGTGCCACCAACT
561 TTGAGGACTAAA-GGCAAAAGGAGAGAGC-ACCAGCTCTTTGAGGACTAGGAAGTGCCACCAACT
* *
958971 TGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTG
624 TGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTG
959036 TGGGCTTT-G-AAAGGC-
688 TGGGCTTTAGAAAAGGCA
* * *
959051 TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
* **
959116 TTGAGGACTAGGAA-GTGAAACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTG
65 TTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTG
* * * *
959180 AGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTTTTTGAGGACAAAAA
124 AGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGACTAAAA
* *
959245 GGCGAAAGGAGGGAGCGTCTTGCTCTTTGAGGAGTAAGAAGCGCCACCAACTTGTGTGGGCTTTA
189 GGCGAAAGCAGGGAGCGTCTTGCTCTTTGAGGACTAAGAAGCGCCACCAACTTGTGTGGGCTTTA
*
959310 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAG
254 AAAGGAAGAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTT-AAAAAG
*
959375 AAAAAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAA
318 -AAAAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
*
959440 ACGTGTCCTCCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
382 ACGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
*
959505 CTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGG
447 CTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
* **
959570 ACTAAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAAAGGGC
512 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAAA-GGC
* *
959635 AAAAGAAGAGAGCATCCAGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
576 AAAAGGAGAGAGCA-CCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* *
959700 GGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-G-AAAGG
640 GGAAAAGGCGTCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAGAAAAGG
*
959763 CG
704 CA
*
959765 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCGTCC
*
959829 TGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGC
59 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGC
* * *
959892 TCTTTGAGGACT-CAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTGCTTTTTGAGGA
118 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGA
* * * * *
959956 CAAAAAGGCGAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAAGCACCACCAACTTGTGTGG
183 CTAAAAGGCGAAAGCAGGGAGCGTCTTGCTCTTTGAGGACTAAGAAGCGCCACCAACTTGTGTGG
* *
960021 GCTTTAAAAGGAAGAGGTGTCCTGCTCTTTGAGGATTAAAGGTGCCACCAACTCGTGTGGGCTTC
248 GCTTTAAAAGGAAGAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTT-
* *
960086 AAAAAGAAACAAGGCATCCAGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAA
312 AAAAAGAAA-AAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAA
* *
960151 AGGAAAACGTGTCCTGCTCTTTAAGGCCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
376 AGGAAAACGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* *
960216 GTCCTGCACTCTGAGGACTAAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
441 GTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* *
960281 CTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTTTGAGGACT-
506 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTA
* * * * * * * * ** ** * * *
960345 -----AAAA-G-G-CACCACCAACT-TGTGTGGGCTTTGAAAG-GCGTCCTGCTCTTTGAGGAC-
571 AAGGCAAAAGGAGAGAGCACCAGCTCTTTGAGGAC-TAGGAAGTGCCACCAACT-TGTGTGGGCT
* * **
960399 -TAAAGGGCGAAAGGAGAGAGCGTCCAGCTCTTTGAGGACTGCGAAGTGCCACCAACTTGTGTGG
634 TTAAA-AG-G-AA--A-AG-GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGG
*
960463 GCTTTAAAAGGAAAAGGTA
691 GCTTT---A-GAAAAGGCA
* * *
960482 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGC-TTCTCGCTCT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT-GCTCT
*
960546 TTGAGGACTA-AAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
65 TTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
* * *
960610 AGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAA
130 A-AAAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCATCCTGCTTTTTGAGGACTAAA
* * * * * * *
960674 A-G-G--TGC---CA-C--C-AGCT-TGTGTGGACTTTAA-AAG-G-CATCCTACTT-TTTGAGG
188 AGGCGAAAGCAGGGAGCGTCTTGCTCTTTGAGGAC--TAAGAAGCGCCA-CCAACTTGTGTG-GG
* * * ** *
960723 AC--AAAAAGGCGAAAGGAGGGAGCGACTTGCTCTTTGAGGACTAGGAA-GCACCACCAACTTGT
249 -CTTTAAAA-G-G-AA-GA--G-GCGTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTCGT
** ** * *
960785 GTGGGCTTTAAAAAG-AAGCGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGG
304 GTGGGC-TTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGG
* * * *
960849 GCTTCAAAAAGAAAAAAG-GCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTAGG
368 GCTT-TAAAAGGAAAACGTG--TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG
* * * * *
960912 CTTTAAAAGGAAAACGTGTCCTCCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
430 CTTTGAAAGG----C--GTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
*
960977 GAAAGGCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
489 GAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
* * * * * * * * *
961042 CTGCTCTTTGAGGACT-------AAATG-GTG-CCACCAACT-TGTGTGGGCTTTGAAAGGTGTC
554 CTGCTCTTTGAGGACTAAAGGCAAAAGGAGAGAGCACCAGCTCTTTGAGGAC-TAGGAA-GTG-C
** * * * ** * * * **
961097 CTGC-TCTT-TGAGGACTAAAGGGCAAAAGAAGAGAGCGTCCAGCTCTTTGAGGACTGGGAAGTG
616 CACCAACTTGTGTGGGCTTTA----AAAGGAAAAG-GCGTCCTGCTCTTTGAGGACT-AAAAGTG
*
961160 CCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCA
675 CCACCAACTTGTGTGGGCTTT---A-GAAAAGGCA
* * *
961195 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCTTCCCGCTCTT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
961260 TGAGGACTA-AAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
66 TGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
* **
961324 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTTTGAGGACTAAAAGGC---A
131 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGACTAAAAGGCGAAA
* * * * ** ** * * * **
961386 -C---CACCATCTTG---TGTG-GG-CTTTGAAAGGCGTCCTGC-TCTT-TGAGGACTAAAGGGC
196 GCAGGGAGCGTCTTGCTCTTTGAGGACTAAG-AA-GCG-CCACCAACTTGTGTGGGCTTTA----
* * * *
961440 GAAAGG-AGAGAGCGTCCAGCTCTTTGAGGACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTAA
254 -AAAGGAAGAG-GCGTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTCGTGTGGGCTTAAA
* * * *
961503 AAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
315 AAGAAAAAGGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
961568 ----C-T-T-CTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
379 AAAACGTGTCCT-GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
* * *
961626 CCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGCGTCCT
443 CCTGCTCTCTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCT
* * * * *
961690 GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTTTTTGAG
501 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
* * * **
961755 GACAAAAAGGCGAAAGGAGGGAGCGACTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGT
566 GAC-TAAAGGCAAAAGGAGAGAGC-ACCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGT
** * * *
961820 GGGCTTTAAAAGGAAGCGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCT
629 GGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCT
* *
961885 TCAAAAAGAAAAAAGGGA
694 T----TAG--AAAAGGCA
* *
961903 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG----C--GTCCT
* *
961967 CCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTCTGA
60 GCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
* *
962031 GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTTGAGGACTAAATG
125 GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGACTAAAAG
* ** * * ** *** ** * * **
962096 GTGCCACCA---A----CTTG---TGTG-GG-CTTTGAAAG-GTGTCCTGCTCTGTGAGGACTAA
190 GCGAAAGCAGGGAGCGTCTTGCTCTTTGAGGACTAAG-AAGCGCCACCAACT-TGTGTGGGCTTT
* * * *
962148 AGGGCAAAAGAAGAGAGCGTCCAGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCT
253 A----AAAGGAAGAG-GCGTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTCGTGTGGGCT
* * * * * *
962212 TTAAAAGGAAAACGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGA
311 TAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
962277 AAGG----C-T-TCCCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGA
375 AAGGAAAACGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* *
962336 CGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
440 CGTCCTGCTCTCTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGT
* * * * * *
962400 CCTGCTCTTTGAAGACTAAAAGGTGCCGCCAGCTTGTGTGGACTTTAAAAGGCATCCTGCTTTTT
498 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTT
* ** * * ** *
962465 GAGGACAAAAAGGTGAAAGGAGGGAGCGTCTTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTG
563 GAGGAC-TAAAGGCAAAAGGAGAGAGC-ACCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTG
* * * * * *
962530 TGTGGGCTTTAAAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACTAACTCGTCTGG
626 TGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGG
*
962595 GCTTTAAAAAGAAAAAAGGCG
691 GCTTT----AG--AAAAGGCA
* *
962616 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG----C--GTCCT
* *
962680 GCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTCTGA
60 GCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
* *
962744 GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTTGAGGACTAAAGG
125 GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGACTAAAAG
* ** * * * *
962809 TGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTTTTTGAGGACT--GAAGGT
190 -GCGA--AA---------GC-------AG---GGA-GCGTCTTGCTCTTTGAGGACTAAGAA-GC
* *
962872 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
231 GCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCA
* * * *
962937 CGAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGATTGGAGGTGCCACCAA
295 CCAACTCGTGTGGGC-TTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAA
* * *
963002 CTTGTGTGGGCTTTGAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGGAAGG
359 CTTGTGTGGGCTTT-AAAAG-GAAAACGTGTCCTGCTCTTTGAGGACTGAAAGG
963056 GCTAAAAGCG
Statistics
Matches: 4012, Mismatches: 405, Indels: 527
0.81 0.08 0.11
Matches are distributed among these distances:
683 3 0.00
684 3 0.00
685 41 0.01
686 12 0.00
687 3 0.00
688 2 0.00
689 3 0.00
690 8 0.00
691 115 0.03
692 10 0.00
693 3 0.00
694 10 0.00
695 40 0.01
696 28 0.01
697 148 0.04
698 9 0.00
699 6 0.00
700 26 0.01
701 234 0.06
702 8 0.00
703 36 0.01
704 34 0.01
705 18 0.00
706 129 0.03
707 385 0.10
708 130 0.03
709 179 0.04
710 20 0.00
711 81 0.02
712 72 0.02
713 1474 0.37
714 14 0.00
715 4 0.00
716 13 0.00
717 470 0.12
718 54 0.01
719 26 0.01
725 1 0.00
732 1 0.00
738 1 0.00
740 3 0.00
741 63 0.02
742 42 0.01
743 3 0.00
745 2 0.00
746 14 0.00
747 7 0.00
748 3 0.00
749 21 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (705 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGACTAAAAGGCGAAA
GCAGGGAGCGTCTTGCTCTTTGAGGACTAAGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAA
GAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTAAAAAGAAAAAGGC
ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGTGTCCT
GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTCTGAG
GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
TGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAAAGGCAAAAGGAGAG
AGCACCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCA
Found at i:959873 original size:60 final size:60
Alignment explanation
Indices: 959653--959937 Score: 406
Period size: 60 Copynumber: 4.8 Consensus size: 60
959643 AGAGCATCCA
* * * *
959653 GCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 GCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
959714 GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-----GA-AAGGCGTCCT
1 GCTCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
*
959769 GCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 GCTCTTTGAGGACTA--AAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
959830 GCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 GCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
* *
959890 GCTCTTTGAGGACTCAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGG
1 GCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG
959938 CATCCTGCTT
Statistics
Matches: 206, Mismatches: 8, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
54 1 0.00
55 46 0.22
56 4 0.02
59 2 0.01
60 91 0.44
61 62 0.30
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (60 bp):
GCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
Found at i:960016 original size:214 final size:216
Alignment explanation
Indices: 959762--960153 Score: 621
Period size: 214 Copynumber: 1.8 Consensus size: 216
959752 GCTTTGAAAG
**
959762 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AGAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAGGAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAAG-AGGCG
* * * * * *
959826 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTT-TAAAAG-GAGAAGGCGTCC
65 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGCATCC
* *
959889 TGCTCTTTGAGGACTCAAGGTGCCACCAGCTTGTGT-GGACTTTAAAAGGCATCCTGCTTTTTGA
130 AGCTCTTTGAGGACTCAAGGTGCCACCAACTTGTGTAGG-CTTTAAAAGGCATCCTGCTTTTTGA
959953 GGACAAAAAGGCGAAAGGAGGGA
194 GGACAAAAAGGCGAAAGGAGGGA
*
959976 GCGTCCTGCTCTTTGAGGACTAGGAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGCGT
*
960041 CCTGCTCTTTGAGGATTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGCATCCA
66 CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGCATCCA
*
960106 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
131 GCTCTTTGAGGACTCAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
960154 AAAACGTGTC
Statistics
Matches: 161, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
214 100 0.62
215 7 0.04
216 52 0.32
217 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (216 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGCGT
CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGCATCCA
GCTCTTTGAGGACTCAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCCTGCTTTTTGAGG
ACAAAAAGGCGAAAGGAGGGA
Found at i:960091 original size:61 final size:60
Alignment explanation
Indices: 959978--960404 Score: 364
Period size: 55 Copynumber: 7.4 Consensus size: 60
959968 AGGAGGGAGC
** *
959978 GTCCTGCTCTTTGAGGACTAGGAA-GCACCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGT
1 GTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
* * * * *
960039 GTCCTGCTCTTTGAGGATTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGGAA-AAGGT
* * * * *
960101 ATCCAGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
* * *
960161 GTCCTGCTCTTTAAGGCCTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
* * * *
960216 GTCCTGCACTCTGAGGACTAAAAGGTACCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
* *
960271 GTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
* * ** *
960326 ATCCTGCCCTTTGAGGACTAAAAGGCACCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
960381 GTCCTGCTCTTTGAGGACTAAAGG
1 GTCCTGCTCTTTGAGGACTAAAGG
960405 GCGAAAGGAG
Statistics
Matches: 321, Mismatches: 41, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
54 5 0.02
55 173 0.54
56 1 0.00
59 2 0.01
60 38 0.12
61 59 0.18
62 43 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT
Found at i:960140 original size:122 final size:114
Alignment explanation
Indices: 959983--960402 Score: 423
Period size: 110 Copynumber: 3.7 Consensus size: 114
959973 GGAGCGTCCT
*
959983 GCTCTTTGAGGACTAGGAA-GCACCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCT
1 GCTCTTTGAGGACTA-GAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAA-AGGTGTCCTGCT
* *
960047 CTTTGAGGATTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGCATCCA
64 CTTTGAGGATAAAAGGTGCCACCAACTTGTGTGGGCTT-----AG--A-AAGGCATCCA
* * *
960106 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTGCTC
1 GCTCTTTGAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGTGTCCTGCTC
* * * * * *
960170 TTTAAGGCCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCT
65 TTTGAGG-ATAAAAGGTGCCACCAACTTGTGTGGGCTTAGAAAGGCATCCA
* * * *
960221 GCACTCTGAGGACTAAAAGGTACCACCAACTTGTGTGGGCTTT-----GAAAGGCGTCCTGCTCT
1 GCTCTTTGAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAGGTGTCCTGCTCT
* * *
960281 CTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCT
66 TTGAGGA-TAAAAGGTGCCACCAACTTGTGTGGGCTTAGAAAGGCATCCA
* * * *
960331 GCCCTTTGAGGACTAAAAGGCACCACCAACTTGTGTGGGCTTT-----GAAAGGCGTCCTGCTCT
1 GCTCTTTGAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAGGTGTCCTGCTCT
960391 TTGAGGACTAAA
66 TTGAGGA-TAAA
960403 GGGCGAAAGG
Statistics
Matches: 265, Mismatches: 27, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
110 126 0.48
111 1 0.00
115 20 0.08
116 26 0.10
118 1 0.00
121 3 0.01
122 45 0.17
123 43 0.16
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (114 bp):
GCTCTTTGAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAGGTGTCCTGCTCT
TTGAGGATAAAAGGTGCCACCAACTTGTGTGGGCTTAGAAAGGCATCCA
Found at i:960212 original size:29 final size:29
Alignment explanation
Indices: 960179--960324 Score: 74
Period size: 29 Copynumber: 5.2 Consensus size: 29
960169 CTTTAAGGCC
960179 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
* ** * * *
960208 TGAAAGGCGTCCTGC-AC-TCTGAGGAC--
1 TGAAAGGTG-CCACCAACTTGTGTGGGCTT
* *
960234 TAAAAGGTACCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** ** * * *
960263 TGAAA-G-GCGTCCTGCTCTCTGAGGAC--
1 TGAAAGGTGCCACCAACT-TGTGTGGGCTT
*
960289 TAAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
960318 TGAAAGG
1 TGAAAGG
960325 CATCCTGCCC
Statistics
Matches: 75, Mismatches: 32, Indels: 20
0.59 0.25 0.16
Matches are distributed among these distances:
25 3 0.04
26 12 0.16
27 18 0.24
28 19 0.25
29 20 0.27
30 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:960240 original size:55 final size:55
Alignment explanation
Indices: 960096--960402 Score: 409
Period size: 55 Copynumber: 5.5 Consensus size: 55
960086 AAAAAGAAAC
* * * * *
960096 AAGGCATCCAGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
* * *
960150 AAGGAAAACGTGTCCTGCTCTTTAAGGCCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGA
1 AAGG----C--GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
* * *
960211 AAGGCGTCCTGCACTCTGAGGACTAAAAGGTACCACCAACTTGTGTGGGCTTTGA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
*
960266 AAGGCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
* * **
960321 AAGGCATCCTGCCCTTTGAGGACTAAAAGGCACCACCAACTTGTGTGGGCTTTGA
1 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
960376 AAGGCGTCCTGCTCTTTGAGGACTAAA
1 AAGGCGTCCTGCTCTTTGAGGACTAAA
960403 GGGCGAAAGG
Statistics
Matches: 224, Mismatches: 22, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
54 4 0.02
55 172 0.77
57 1 0.00
58 1 0.00
60 15 0.07
61 31 0.14
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (55 bp):
AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
Found at i:960509 original size:61 final size:60
Alignment explanation
Indices: 960408--960705 Score: 343
Period size: 61 Copynumber: 5.1 Consensus size: 60
960398 CTAAAGGGCG
* * **
960408 AAAGGAGAGAGCGTCCAGCTCTTTGAGGACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAG-GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTA
** *
960469 AAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-
1 AAAGG-AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
960529 ----GAAAGGC-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT-
1 AAAGGAAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
*
960584 ----GAAAGGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
960640 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTA
1 AAAGGA-AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
960701 AAAGG
1 AAAGG
960706 CATCCTACTT
Statistics
Matches: 208, Mismatches: 17, Indels: 24
0.84 0.07 0.10
Matches are distributed among these distances:
54 3 0.01
55 91 0.44
56 6 0.03
60 6 0.03
61 99 0.48
62 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (60 bp):
AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:960559 original size:55 final size:55
Alignment explanation
Indices: 960418--960731 Score: 328
Period size: 55 Copynumber: 5.5 Consensus size: 55
960408 AAAGGAGAGA
* **
960418 GCGTCCAGCTCTTTGAGGACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
** *
960479 GTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
960534 GC-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
960589 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
* * *
960650 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
960705 GCATCCTACTTTTTGAGGACAAAAAGG
1 GCGTCCTGCTCTTTGAGGACTAAAAGG
960732 CGAAAGGAGG
Statistics
Matches: 221, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
54 3 0.01
55 117 0.53
56 7 0.03
60 6 0.03
61 88 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:960661 original size:116 final size:115
Alignment explanation
Indices: 960408--960731 Score: 351
Period size: 116 Copynumber: 2.8 Consensus size: 115
960398 CTAAAGGGCG
* **
960408 AAAGGAG-AGAGCGTCCAGCTCTTTGAGGACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAGGAGAAG-GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT---
* *
960471 AGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
61 --G-AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
960529 ----GA-AAGGC-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAA
1 AAAGGAGAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
* *
960588 GGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT
65 GGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
960639 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAA
1 -AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
* * *
960704 GGCATCCTACTTTTTGAGGACAAAAAGG
65 GGCATCCTGCTCTTTGAGGACTAAAAGG
960732 CGAAAGGAGG
Statistics
Matches: 172, Mismatches: 19, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
110 47 0.27
111 3 0.02
115 8 0.05
116 107 0.62
117 7 0.04
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (115 bp):
AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:960722 original size:171 final size:171
Alignment explanation
Indices: 960418--960733 Score: 510
Period size: 171 Copynumber: 1.8 Consensus size: 171
960408 AAAGGAGAGA
*
960418 GCGTCCAGCTCTTTGAGGACTGCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTAT
1 GCGTCCAGCTCTTTGAGGACTGCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* * * *
960483 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCTTCTCGCTCTTT
66 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCTCCTCACTCTTT
*
960548 GAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
131 GAGGACAAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
960589 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 GCGTCCAGCTCTTTGAGGACT-GCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
960653 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCT-ACTTT
65 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGC-TCCTCACTCT
960717 TTGAGGACAAAAAGGCG
129 TTGAGGACAAAAAGGCG
960734 AAAGGAGGGA
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
171 129 0.97
172 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (171 bp):
GCGTCCAGCTCTTTGAGGACTGCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCTCCTCACTCTTT
GAGGACAAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:960756 original size:265 final size:271
Alignment explanation
Indices: 959979--962899 Score: 1039
Period size: 265 Copynumber: 10.6 Consensus size: 271
959969 GGAGGGAGCG
* * *
959979 TCCTGCTCTTTGAGGACTAGGAA-GCACCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCC
1 TCCTGCTCTTTGAGGACTA-AAAGGCGCCACCAACTTGTGTGGGCTTT-----GAA-AGGCGTCC
* * * * * *
960043 TGCTCTTTGAGGATTA-AAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAACAAGGCATCCAG
59 TGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTT-TAAAAGGAA-AAGGCGTCCTG
* * * *
960107 CTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGG-CTTTAAAAGGAAAACGTGTCCTGCTC
121 CTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGT-GGACTTTAAAAGG----C--ATCCTACTC
* * * * * * * * *
960170 TTTAAGGCCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCACTCTGAGGACT
179 TTTGAGGACTAAAAAG-GCGA-CAA--TGTGTAGG---TG-AA-GCGACCTGCTCTTTGAGGACT
* *
960235 AAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCG
235 AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCT
* * * *
960272 TCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTT
1 TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
*
960337 TGAGGACTAAAAG-GCACCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGA
66 TGAGGACTAGAAGTG--CCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGA
* * * * * ***
960395 GGACT-AAAGG-GCGA--A-------AGGA----GAGA-GCGTCC-AGCTCTTTGAGGACTGCGA
129 GGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTA-CTCTTTGAGGACTAAAA
* *
960443 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-GTATCCTGCTCTTTGAGGACTAAAAGGT
193 AG-GCGA-CAA--TGTGTAGG---T-----G--AAGCG-A-CCTGCTCTTTGAGGACTAAAAGGT
*
960507 GCCACCAGCTTGTGTGGGCTTTGAAAGGCT
242 GCCACCAACTTGTGTGGGCTTTGAAAGGCT
960537 T-CTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCT-GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
*
960601 TTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGA
65 TTGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGA
*
960666 GGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTTTTTGAGGAC-AAAAA
129 GGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTCTTTGAGGACTAAAAA
* * **
960730 GGCGA-AA-G-G-AGG-G-AGCGACTTGCTCTTTGAGGACTAGGAA-GCACCACCAACTTGTGTG
194 GGCGACAATGTGTAGGTGAAGCGACCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTG
*
960788 GGCTTTAAAAAGAAGCGGT
258 GGCTTT-GAAAG--GC--T
* * * *
960807 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGCAT
1 -TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTT-----TG---AAAGGCGT
* * * *
960871 CCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTC
57 CCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
* * * * * * * *
960935 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTCTGAGG
121 CTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTCTTTGAGG
* * * *
961000 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-GCATCCTGCTCTTTGAGGACTAAATGG
186 ACTAAAAAG-GCGA-CAA--TGTGTAGG---TG-AAGCG-A-CCTGCTCTTTGAGGACTAAAAGG
961064 TGCCACCAACTTGTGTGGGCTTTGAAAGG-T
241 TGCCACCAACTTGTGTGGGCTTTGAAAGGCT
* ** * *
961094 GTCCTGCTCTTTGAGGACT-AAAGG-G-CA--AA--------AG--AAGAGA-GCGTCCAGCTCT
1 -TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * *
961143 TTGAGGACTGGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
65 TTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGA
* * **
961208 GGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCTTCCCGCTCTTTGAGGACT-AAAA
129 GGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTCTTTGAGGACTAAAAA
* *
961272 GGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCA
194 GGCG--A-CAA--TGTGTAGG---TG-AA-GCGACCTGCTCTTTGAGGACTAAAAGGTGCCACCA
*
961337 ACTTGTGTGGGCTTTGAAAGGCA
249 ACTTGTGTGGGCTTTGAAAGGCT
* * *
961360 TCCTGCCCTTTGAGGACTAAAAGGCACCACCATCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
961425 TGAGGACTA-AAGGGCGA--AA--------GG-------A-G-AGA-GCGTCCAGCTCTTTGAGG
66 TGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGG
** * * *
961469 ACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACT
131 ACT-AAAAGGTGCCACCAGCTTGTGTGGACTTT------AAAAGGCATCCTACTCTTTGAGGACT
* * * * *
961533 AAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG-G-CTTCTCGCTCTTTGAGGACTAAAAGGCG
189 AAAAAG-GCGA-CA--ATGTGTAGG---TG-AAGCGAC--CT-GCTCTTTGAGGACTAAAAGGTG
*
961596 CCACCAACTTGTGTGGGCTTTGAAAGGCG
243 CCACCAACTTGTGTGGGCTTTGAAAGGCT
* * *
961625 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACTA-AAAGGCGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCC
* * * * *
961689 TGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTT------AAAAGGCATCCTACT
59 TGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
* * * * * * *
961748 TTTTGAGGAC-AAAAAG-GCGA-AAG---GAG-GG--------A-GCGA-CTTGCTCTTTGAGGA
123 CTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGC-ATCCTACTCTTTGAGGA
** * * *
961796 CTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGCGGTGTCCTGCTCTTTGAGGACT-A
187 CTAAAAAG-GCGA-CAA--TGTGTAGG---T-----GAAGC---GACCTGCTCTTTGAGGACTAA
* * **
961860 AAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGGA
237 AAGGTGCCACCAACTTGTGTGGGCTT-----TG---AAAGGCT
* * * *
961903 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCT
1 TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGG----C--GTCCT
*
961967 CCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCT
60 GCTCTTTGAGGACTAG-AA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
* * * * * *
962025 CTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTTGAGGAC
123 CTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTCTTTGAGGAC
** * * * * *
962090 TAAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTGTGAGGACT-AAAGG-G-
188 TAAAAAG-GCGA-CAA--TGTGTAGG---TG-AA-GCGACCTGCTCTTTGAGGACTAAAAGGTGC
* ** * *
962152 CA--AA--------AG--AAGAGA-GCG
244 CACCAACTTGTGTGGGCTTTGAAAGGCT
* ** * *
962167 TCCAGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGCATCC
1 TCCTGCTCTTTGAGGACT-AAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGG----CG--TCC
* * * *
962231 TGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGCTTCCCGCT
59 TGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
* * * * * * *
962290 CTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCTTTGAGGAC
123 CTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTCTTTGAGGAC
** * * * *
962355 TAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAAGACTAAA
188 TAAAAAG-GCGA-CAA----TGT--G---T---AGGTGAA-GCGACCTGCTCTTTGAGGACTAAA
* * * * *
962420 AGGTGCCGCCAGCTTGTGTGGACTTTAAAAGGCA
238 AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCT
* * * * *
962454 TCCTGCTTTTTGAGGACAAAAAGGTG--A--AA---G-G-AGG----G--A-GCGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * *
962503 TGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCTCTTTGAG
66 TGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAG
* * * * * * *
962568 GACT-AAAGGTGCCACTAACTCGTCTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGA
130 GACTAAAAGGTGCCACCAGCTTGTGTGGACTTT--------AAAAGGCATCCTACTCTTTGAGGA
* * * * * * *
962632 CT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTGCTCTTTGAGGATTGA
187 CTAAAAAG-GCGA-CAA--TGTGTAGG---T-----G--AA-GCGACCTGCTCTTTGAGGACTAA
*
962696 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
237 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCT
* * * *
962731 TCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTT
1 TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
962796 TGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTTTTTG
66 TGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCGTCCTGCTCTTTG
* * *
962860 AGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
128 AGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGG
962900 AAAAGGTGTC
Statistics
Matches: 2091, Mismatches: 273, Indels: 535
0.72 0.09 0.18
Matches are distributed among these distances:
259 83 0.04
260 4 0.00
261 2 0.00
262 2 0.00
263 5 0.00
264 48 0.02
265 746 0.36
266 36 0.02
267 13 0.01
268 8 0.00
269 9 0.00
270 82 0.04
271 125 0.06
272 20 0.01
273 10 0.00
274 2 0.00
275 13 0.01
276 7 0.00
277 270 0.13
278 86 0.04
279 18 0.01
280 34 0.02
281 27 0.01
282 3 0.00
283 11 0.01
284 5 0.00
285 15 0.01
286 25 0.01
287 121 0.06
288 26 0.01
289 2 0.00
290 4 0.00
291 3 0.00
292 35 0.02
293 145 0.07
294 46 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (271 bp):
TCCTGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGG
ACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTCTTTGAGGACTAAAAAGG
CGACAATGTGTAGGTGAAGCGACCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC
TTTGAAAGGCT
Found at i:960757 original size:210 final size:203
Alignment explanation
Indices: 960541--962900 Score: 617
Period size: 210 Copynumber: 10.8 Consensus size: 203
960531 AAGGCTTCTC
*
960541 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
1 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
960606 GACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGAC
66 GACTA--AAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGAC
* * *
960670 TAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGG-CATCCTACTTTTTGAGGAC-AAAAAGGC
123 TAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGACATCCTACTCTTTGAGGACTTAAAAGGC
960733 GAAAGGAGGGAGCGACTT
188 GAAAGGAGGGAGCG-C-T
* *
960751 GCTCTTTGAGGACTAGGAA-GCACCACCAACTTGTGTGGGCTTTAAAAAGAAGCGGTGTCCTGCT
1 GCTCTTTGAGGACTA-AAAGGCGCCACCAACTTGTGTGGGCTTT-AAAAG--GC---GTCCTGCT
* * *
960815 CTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGCATCCTGCTCTT
59 CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT-----TG---AAAGGCGTCCTGCTCTT
* * * *
960880 TGAGGACT-GAAGGTGCCACCAACTTGTGTAGG-CTTTAAAAGGAAAACGTGTCCTCCTCTTTAA
116 TGAGGACTAAAAGGTGCCACCAACTTGTGT-GGACTTTAAAAGG---AC--ATCCTACTCTTTGA
* * * *
960943 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCT
175 GGACTTAAAAG-GCGA--AA---G-G-AGG----G--A-GCG--CT
* * * *
960989 GCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
1 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
*
961054 GACTAAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAAAGGG
66 GACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT------
* ** * * * *** * * * *
961119 CAAAAGAAGAGAGCGTCCAGCTCTTTGAGGAC-TGGGAAGTGCCA-CCAACT-TTTGTGGGCTTT
124 ---AA-AAG-GTGCCACCAACT-TGTGTGGACTTTAAAAG-GACATCCTACTCTTTGAGGAC-TT
* *
961181 AAAA-G-GAAA--AGGCATC-CT
181 AAAAGGCGAAAGGAGGGAGCGCT
* * * *
961199 GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCTTCCCGCTCTTTGAG
1 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
*
961264 GACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
66 GACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
* * * *
961329 TGCCACCAACTTGTGTGGGCTTTGAAAGG-CATCCTGCCCTTTGAGGAC-TAAAAGGC-ACCACC
130 TGCCACCAACTTGTGTGGACTTTAAAAGGACATCCTACTCTTTGAGGACTTAAAAGGCGA--A--
*
961391 ATCTTGTGTGGGCTTTGAAAGGCGTCCT
191 A----G-G-AGG----G--A-GCG--CT
* * * *
961419 GCTCTTTGAGGACT-AAAGG-GCGA--AA-----G-GAG-----AGA-GCGTCCAGCTCTTTGAG
1 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
* *
961468 GACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGAC
66 GACT--AAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGAGGAC
* * * * *
961532 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG-C-TTCTCGCTCTTTGAGGAC-TAAAAGG
123 TAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGACATCCT-ACTCTTTGAGGACTTAAAAGG
*
961594 CGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCT
187 CG--A--AA---G-G-AGG----G--A-GCG--CT
* * *
961629 GCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCT
1 GCTCTTTGAGGACTA-AAAGGCGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCGTCCTGCT
* * * * * *
961693 CTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTTTTTGAGGAC
59 CTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* * ** * * * * * * *
961758 AAAAAGGCGAAAGGAGGGAGCGACTTGCTCTTTGAGGAC--TAGGAAGTGCCA-CCAACT-TGTG
123 ---TA----AAAGGTGCCACCAACTTG-----TGTGGACTTTA-AAAG-GACATCCTACTCTTTG
* * * *
961819 TGGGCTTTAAAA-G-G-AAGCG-GTG-TC-CT
174 AGGAC-TTAAAAGGCGAAAG-GAGGGAGCGCT
* * * *
961845 GCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGGATCCTGC
1 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTT-TAAAAG------GCG-TCCTGC
* * * *
961909 TCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTCCTCTTT
58 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG----C--GTCCTGCTCTTT
* * * * * *
961974 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-CGTCCTGCTCTCTGAGGAC-TA
117 GAGGACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGACATCCTACTCTTTGAGGACTTA
* * *
962037 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCT
182 AAA-G-GCGA--AA---G-G-AGG----G--A-GC--GCT
* * * * * *
962077 GCTTTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTGTGAG
1 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
* ** * * **
962142 GACTAAAGG-G-CA--AA--------AG--AAGAGA-GCGTCCAGCTCTTTGAGGACTGGGAA-G
66 GACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGG
* *
962191 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGCATCCTGCTCTTTGAGGAC-TAAAAGGTGC
130 TGCCACCAACTTGTGTGGACTTTAAAAGG---A--CATCCTACTCTTTGAGGACTTAAAA-G-GC
* * *
962255 CACCAGCTTGTGTGG-GCTTTGAAAGGCTT
188 GA-AAG---GAG-GGAGC--------GC-T
* *
962284 CCCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCTTT
1 ---GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
*
962349 GAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAA
63 GAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAG
* * * * *
962413 GACTAAAAGGTGCCGCCAGCTTGTGTGGACTTTAAAAGG-CATCCTGCTTTTTGAGGAC-AAAAA
120 GACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGACATCCTACTCTTTGAGGACTTAAAA
*
962476 GGTGAAAGGAGGGAGCGTCTT
185 GGCGAAAGGAGGGAGCG-C-T
* *
962497 GCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCT
1 GCTCTTTGAGGACTA-AAAGGCGCCACCAACTTGTGTGGGCTTT---A--AA-AGGCGTCCTGCT
* * *
962561 CTTTGAGGACTAAAGGTGCCACTAACTCGTCTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTT
59 CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-----G---AAAGGCGTCCTGCTCTT
* * *
962626 TGAGGACT-GAAGGTGCCACCAACTTGTGTAGG-CTTTAAAAGGAAAACGTGTCCTGCTCTTTGA
116 TGAGGACTAAAAGGTGCCACCAACTTGTGT-GGACTTTAAAAGG---AC--ATCCTACTCTTTGA
* * *
962689 GGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCT
175 GGACTT-AAAAG-GCGA--AA---G-G-AGG----G--A-GCG--CT
* * * * *
962735 GCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTTGAG
1 GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
* * *
962800 GACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTTTTTGAGGAC
66 GACTAAAGGTGCCACCAACTTGTGTGGGCTTT-----G---AAAGGCGTCCTGCTCTTTGAGGAC
* *
962865 T-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
123 TAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGA
962901 AAAGGTGTCC
Statistics
Matches: 1655, Mismatches: 229, Indels: 513
0.69 0.10 0.21
Matches are distributed among these distances:
197 7 0.00
198 12 0.01
199 20 0.01
200 6 0.00
201 2 0.00
202 1 0.00
204 89 0.05
205 7 0.00
206 4 0.00
207 2 0.00
208 3 0.00
209 12 0.01
210 422 0.25
211 27 0.02
212 11 0.01
213 14 0.01
214 9 0.01
215 87 0.05
216 151 0.09
217 69 0.04
218 5 0.00
219 11 0.01
220 27 0.02
221 3 0.00
222 44 0.03
223 14 0.01
224 8 0.00
225 46 0.03
226 50 0.03
227 3 0.00
228 1 0.00
229 8 0.00
230 6 0.00
231 18 0.01
232 247 0.15
233 62 0.04
235 5 0.00
236 4 0.00
237 34 0.02
238 95 0.06
239 9 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (203 bp):
GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
GACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGT
GCCACCAACTTGTGTGGACTTTAAAAGGACATCCTACTCTTTGAGGACTTAAAAGGCGAAAGGAG
GGAGCGCT
Found at i:960897 original size:62 final size:58
Alignment explanation
Indices: 960750--961117 Score: 339
Period size: 55 Copynumber: 6.3 Consensus size: 58
960740 GGGAGCGACT
** ** **
960750 TGCTCTTTGAGGACTAGGAA-GCACCACCAACTTGTGTGGGCTTTAAAAAGAAGCGGTGTCC
1 TGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGC-TT-AAAAGAAAAGGCATCC
*
960811 TGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT--AAAAG--AAAAGGCATCC
* * * **
960873 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCC
1 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGC-TTAAAA-GAAAAGGCATCC
* * * *
960933 TCCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT---TG-AAAGGCGTCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
* *
960988 TGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT---TG-AAAGGCATCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
* **
961043 TGCTCTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTT---TG-AAAGGTGTCC
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
961098 TGCTCTTTGAGGACTAAAGG
1 TGCTCTTTGAGGACTAAAGG
961118 GCAAAAGAAG
Statistics
Matches: 271, Mismatches: 28, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
54 5 0.02
55 124 0.46
56 1 0.00
59 4 0.01
60 47 0.17
61 43 0.16
62 45 0.17
63 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (58 bp):
TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAAGGCATCC
Found at i:960980 original size:29 final size:29
Alignment explanation
Indices: 960947--961094 Score: 73
Period size: 27 Copynumber: 5.3 Consensus size: 29
960937 CTTTAAGGAC
960947 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** ** * * *
960976 TGAAA-G-GCGTCCTGCTCTCTGAGGAC--
1 TGAAAGGTGCCACCAACT-TGTGTGGGCTT
*
961002 TAAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** * * *
961031 TGAAA-G-G-CATCCTGCTCTTTGAGGAC--
1 TGAAAGGTGCCA-CCAACT-TGTGTGGGCTT
961057 T-AAATGGTGCCACCAACTTGTGTGGGCTT
1 TGAAA-GGTGCCACCAACTTGTGTGGGCTT
961086 TGAAAGGTG
1 TGAAAGGTG
961095 TCCTGCTCTT
Statistics
Matches: 79, Mismatches: 26, Indels: 28
0.59 0.20 0.21
Matches are distributed among these distances:
25 3 0.04
26 7 0.09
27 25 0.32
28 25 0.32
29 16 0.20
30 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:961001 original size:55 final size:54
Alignment explanation
Indices: 960863--961117 Score: 348
Period size: 55 Copynumber: 4.6 Consensus size: 54
960853 CAAAAAGAAA
* * * *
960863 AAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTG
* *
960917 AAAGGAAAACGTGTCCTCCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGG----C--GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG
*
960978 AAAGGCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG
*
961033 AAAGGCATCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTG
*
961088 AAAGGTGTCCTGCTCTTTGAGGACTAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGG
961118 GCAAAAGAAG
Statistics
Matches: 179, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
54 10 0.06
55 120 0.67
57 1 0.01
58 1 0.01
60 16 0.09
61 31 0.17
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (54 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:961258 original size:55 final size:55
Alignment explanation
Indices: 961187--962479 Score: 450
Period size: 55 Copynumber: 23.6 Consensus size: 55
961177 CTTTAAAAGG
961187 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
961242 AAAAGGCTTCCCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * *
961297 GAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * ** *
961352 GAAAGGCATCCTGCCCTTTGAGGACTAAAAGGCACCACCATCTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * * ** ** *** * **
961407 GAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCAGCTCTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGT-GGGCT-TT
** **** ** * *** *** ***
961464 -TGAGG-A--CTGCGAAGTG-CCACCAACTTGTG---TGGGCTT-TAAAAGG----
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGT-GTGGGCTTT
961507 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
961562 GAAAGGC-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * * *
961617 GAAAGGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAGCTTGTGTGGGCTTT
* *
961672 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTT
1 ---A--A-AAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * * ** ** *** * *
961733 AAAAGGCATCCTACTTTTTGAGGACAAAAAGGCGAAAGGAGGGAGCGACT-TGCTCTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTG--TGGGCT-TT
** **** ** * *** *** ***
961790 -TGAGG-A--CTAG-GAAGTG-CCACCAACTTGTG---TGGGCTT-TAAAAGG----
1 AAAAGGCATCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGT-GTGGGCTTT
** ** * * *
961833 AAGCGGTGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAA
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTT--------T
* * * *
961895 AAAAGGGATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
961949 AAAAGGAAAACGTGTCCTCCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGG----C--ATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
962010 GAAAGGCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
962065 GAAAGGCATCCTGCTTTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* ** * * ** *** * **
962120 GAAAGGTGTCCTGCTCTGTGAGGACT-AAAGG-GCAAAAGAAGAGAGCGTCCAGCTCTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGC--CACCAGCTTGTGT-GGGCT-TT
** ***** ** * *** *** ***
962177 -TGAGG-A--CTGGGAAGTG-CCACCAACTTGTG---TGGGCTT-TAAAAGG----
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGT-GTGGGCTTT
*
962220 AAAACGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * * *
962275 GAAAGGCTTCCCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * * *
962330 GAAAGACGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
962385 AAAAGGAGAAGGCGTCCTGCTCTTTGAAGACTAAAAGGTGCCGCCAGCTTGTGTGGACTTT
1 ---A--A-AAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* *
962446 AAAAGGCATCCTGCTTTTTGAGGACAAAAAGGTG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
962480 AAAGGAGGGA
Statistics
Matches: 905, Mismatches: 244, Indels: 178
0.68 0.18 0.13
Matches are distributed among these distances:
44 8 0.01
45 2 0.00
46 1 0.00
47 19 0.02
48 19 0.02
49 5 0.01
50 4 0.00
51 13 0.01
52 16 0.02
53 20 0.02
54 14 0.02
55 558 0.62
56 26 0.03
57 8 0.01
58 2 0.00
60 23 0.03
61 121 0.13
62 46 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (55 bp):
AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
Found at i:961399 original size:768 final size:764
Alignment explanation
Indices: 960482--962148 Score: 819
Period size: 768 Copynumber: 2.2 Consensus size: 764
960472 GGAAAAGGTA
* *
960482 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGC-TTCTCGCTCT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCT-GCTCT
*
960546 TTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT-GA-AAGGCGTCCTGCTCTTTGAGGAC
65 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGGAC
* * * * * * *
960609 TAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAA
130 TA-AAAGGTGCCACCAGCTTGTGTGGACTTT---A--A-AAGGCATCCTACTTTTTGAGGACAAA
* ** ** ** * ** * * * *
960673 AAGGTGCCACCAGCTTGTG----TGGACTTT-A-A-A-AGGCA-TCCTACTT-TTTGAGGAC--A
188 AAGGCGAAAGGAG-GAGAGCCCATGCTCTTTGAGACAGAAGCACACCAACTTGTGTG-GG-CTTA
** ** *
960726 AAAAGGCGAAAGGAGGGAGCGACTTGCTCTTTGAGGACTAGGAA-GCACCACCAACTTGTGTGGG
250 AAAA----AAA-G-CTG-GC--C-TGCTCTTTGAGGACTA--AAGGTGCCACCAACTCGTGTGGG
* ** ** * * * *
960790 CTTTAAAAAG--AAGCGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTT
303 CTTCAAAAAGAAAAAAGGCATCCAGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTT
* * * * * *
960853 CAAAAAGAAAAAAG-GCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTAGGCTTT
368 -TAAAAGGAAAACGTG--TCCTCCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
960916 AAAAGGAAAACGTGTCCTCCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
430 GAAAGG----C--GTCCTGCACTCTGAGGACTAAAAGGTACCACCAACTTGTGTGGGCTTTGAAA
*
960981 GGCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGC
489 GGCATCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGC
* * * * *** * * * ** *
961046 TCTTTGAGGACTAAATGGTGC-CACCAA-CTTGTGT-GGGCTTTGA-A-AGG-TGT-CCTGC-TC
554 CCTTTGAGGACTAAA-GG-ACAAAACAAGAGAGCGTCGCGCTTTGAGACAGGAAGTGCCACCAAC
* *
961103 -TTTGAGGACTAAAGGGCAAAAGAAGAGAGCGTCCAGCTCTTTGAGGACTGGGAAGTGCCACCAA
617 TTTTGAGGACTAAAGGGCAAAAGAAGAGAGCATCCAGCTCTTTGAGGACTGAGAAGTGCCACCAA
*
961167 CTTTTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTG
682 CTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTG
* *
961232 TGTGGGCTTTAAAAGGCT
747 TGTGGGCTTTGAAAGGCG
* *
961250 TCCCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
961315 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-GA-AAGGCATCCTGCCCTTTGAGGACT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGGACT
** * * * * * * * *
961378 AAAAGGCACCACCATCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGAA
131 AAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTTTTTGAGGACAAAAAGGCGAA
*
961443 AGGA-GAGAGCGTCCA-GCTCTTTGAGGACTGCGAAGTGC-CACCAACTTGTGTGGGCTTTAAAA
196 AGGAGGAGAGC--CCATGCTCTTTGA-GAC--AGAA--GCACACCAACTTGTGTGGGC-TTAAAA
* * *
961505 GGAAAAGGCAT--CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTT-----TG
253 --AAAA-GC-TGGCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAG
* * * * *
961563 ---AAAGGCTTCTC-GCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGG-
313 AAAAAAGGCATC-CAGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGA
* * * *
961623 ---C--GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAA
376 AAACGTGTCCTCCTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AA
* * * * * * *
961682 GGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTAC
434 GGCGTCCTGCACTCTGAGGACTAAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGC
* * * * ** ** *** ** * *
961747 TTTTTGAGGACAAAAAGGCGAAAGGAGGGAGCGACT-TGCTCTTTGAGGACTAGGAAGTGCC-AC
499 TCTCTGAGGACTAAAAGGTGCCACCA---A-CTTGTGTGGGCTTTGA--A--AGGCA-T-CCTGC
* * ** ** * * *
961810 CAACTTGTGTGGGCT---TTA-AAAGGAAGCG-GTGTCCTGCTCTTTGAGGACTA--AAGGTGCC
554 C--CTT-TGAGGACTAAAGGACAAAACAAGAGAGCGT-C-GCGCTTTGA-GAC-AGGAA-GTGCC
** * * ** * *
961868 ACCAACTCGTGTGGGCTTCAAAAAG-AAAA-AAG-G-G-ATCCTGCTCTTTGAGGACTGA-AGGT
611 ACCAACTTTTGAGGAC-T-AAAGGGCAAAAGAAGAGAGCATCCAGCTCTTTGAGGACTGAGAAGT
* * ** * *
961927 GCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTCCTCTTTGAGGACTGAAAGGTGCCA
674 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCA
*
961992 CCAACTTGTGTGGGCTTTGAAAGGCG
739 CCAGCTTGTGTGGGCTTTGAAAGGCG
* * *
962018 TCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * *
962083 TGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTT-GA-AAGGTGTCCTGCTCTGTGAGGACT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGGACT
962146 AAA
131 AAA
962149 GGGCAAAAGA
Statistics
Matches: 717, Mismatches: 116, Indels: 132
0.74 0.12 0.14
Matches are distributed among these distances:
755 18 0.03
756 95 0.13
757 3 0.00
758 1 0.00
759 9 0.01
760 4 0.01
761 2 0.00
762 66 0.09
763 33 0.05
764 2 0.00
765 14 0.02
766 4 0.01
767 11 0.02
768 380 0.53
769 26 0.04
770 4 0.01
771 3 0.00
772 9 0.01
773 6 0.01
774 19 0.03
775 3 0.00
776 4 0.01
778 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (764 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCGTCCTGCTCTTTGAGGACT
AAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCTACTTTTTGAGGACAAAAAGGCGAA
AGGAGGAGAGCCCATGCTCTTTGAGACAGAAGCACACCAACTTGTGTGGGCTTAAAAAAAAGCTG
GCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAAGAAAAAAGGCATCC
AGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTCCTC
TTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCACTCTGAGGACT
AAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTCTGAGGACTAAAAGGTGCC
ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTTTGAGGACTAAAGGACAAAACAAGAGAGC
GTCGCGCTTTGAGACAGGAAGTGCCACCAACTTTTGAGGACTAAAGGGCAAAAGAAGAGAGCATC
CAGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
TCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCG
Found at i:961424 original size:29 final size:29
Alignment explanation
Indices: 961283--961424 Score: 75
Period size: 29 Copynumber: 5.1 Consensus size: 29
961273 GCGCCACCAA
961283 CTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 CTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* * * * ** *
961312 CTT-TGAGGAC--TAAAAGGTG-CCACCAA
1 CTTGTGTGGGCTTTGAAAGGCGTCCTGC-T
* *
961338 CTTGTGTGGGCTTTGAAAGGCATCCTGCC
1 CTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* * * * **
961367 CTT-TGAGGAC--TAAAAGGC-ACCACCAT
1 CTTGTGTGGGCTTTGAAAGGCGTCCTGC-T
961393 CTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 CTTGTGTGGGCTTTGAAAGGCGTCCTGCT
961422 CTT
1 CTT
961425 TGAGGACTAA
Statistics
Matches: 75, Mismatches: 28, Indels: 20
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 20 0.27
27 10 0.13
28 10 0.13
29 23 0.31
30 6 0.08
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (29 bp):
CTTGTGTGGGCTTTGAAAGGCGTCCTGCT
Found at i:961542 original size:61 final size:60
Alignment explanation
Indices: 961441--961738 Score: 343
Period size: 61 Copynumber: 5.1 Consensus size: 60
961431 CTAAAGGGCG
* * **
961441 AAAGGAGAGAGCGTCCAGCTCTTTGAGGACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAG-GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
961502 AAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-
1 AAAGG-AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
961562 ----GAAAGGC-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTT-
1 AAAGGAAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
961617 ----GAAAGGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTTA
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTA
* *
961673 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTA
1 AAAGGA-AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
961734 AAAGG
1 AAAGG
961739 CATCCTACTT
Statistics
Matches: 208, Mismatches: 17, Indels: 24
0.84 0.07 0.10
Matches are distributed among these distances:
54 3 0.01
55 91 0.44
56 6 0.03
60 6 0.03
61 99 0.48
62 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (60 bp):
AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:961694 original size:116 final size:115
Alignment explanation
Indices: 961441--961764 Score: 351
Period size: 116 Copynumber: 2.8 Consensus size: 115
961431 CTAAAGGGCG
* **
961441 AAAGGAG-AGAGCGTCCAGCTCTTTGAGGACTGCGAA-GTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAGGAGAAG-GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT---
*
961504 AGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
61 --G-AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
961562 ----GA-AAGGC-TTCTCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAA
1 AAAGGAGAAGGCGTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
* * *
961621 GGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTGTGGGCTTT
65 GGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
961672 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAA
1 -AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
* * *
961737 GGCATCCTACTTTTTGAGGACAAAAAGG
65 GGCATCCTGCTCTTTGAGGACTAAAAGG
961765 CGAAAGGAGG
Statistics
Matches: 172, Mismatches: 19, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
110 47 0.27
111 3 0.02
115 8 0.05
116 107 0.62
117 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (115 bp):
AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:961755 original size:171 final size:171
Alignment explanation
Indices: 961451--961766 Score: 510
Period size: 171 Copynumber: 1.8 Consensus size: 171
961441 AAAGGAGAGA
961451 GCGTCCAGCTCTTTGAGGACTGCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCAGCTCTTTGAGGACTGCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* * * *
961516 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCTTCTCGCTCTTT
66 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCTCCTCACTCTTT
*
961581 GAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
131 GAGGACAAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
961622 GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGCG
1 GCGTCCAGCTCTTTGAGGACT-GCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
961686 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCT-ACTTT
65 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGC-TCCTCACTCT
961750 TTGAGGACAAAAAGGCG
129 TTGAGGACAAAAAGGCG
961767 AAAGGAGGGA
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
171 129 0.97
172 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (171 bp):
GCGTCCAGCTCTTTGAGGACTGCGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCTCCTCACTCTTT
GAGGACAAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAG
Done.