Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 115 of 218
Found at i:33839442 original size:37 final size:38
Alignment explanation
Indices: 33839372--33839443 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
33839362 ATAATAATAA
* *
33839372 TTTATAATGAAATTATTAATTTTTTTATATTTTTATTT
1 TTTATAATGAAATAATTAATTTTTTCATATTTTTATTT
*
33839410 TTTATAAT-AAATAA-TATATTTTTTCATGTTTTTA
1 TTTATAATGAAATAATTA-ATTTTTTCATATTTTTA
33839444 AAATTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 2 0.07
37 20 0.67
38 8 0.27
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (38 bp):
TTTATAATGAAATAATTAATTTTTTCATATTTTTATTT
Found at i:33840824 original size:50 final size:50
Alignment explanation
Indices: 33840723--33841051 Score: 322
Period size: 50 Copynumber: 6.5 Consensus size: 50
33840713 GGGAATGAGA
* * * * **
33840723 TCCCATGTAATACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCA-C----CGA-TATGAGAAC
33840779 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * * * **
33840829 TTCCATATAAGACCA-GTCTGGGACTTGGCGTTGGCACCGAGATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
***
33840878 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * * **
33840928 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * *
33840978 TCCC-TCATAAGACCATGTCTGGGATATGACATGGAC-CTCGATATGAGAAC
1 TCCCAT-ATAAGACCATGTCTGGGACATGGCATGGGCAC-CGATATGAGAAC
* *
33841028 TCCCATGTAAGACCATATCTGGGA
1 TCCCATATAAGACCATGTCTGGGA
33841052 TATGACATTG
Statistics
Matches: 226, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
49 41 0.18
50 147 0.65
51 3 0.01
55 1 0.00
56 34 0.15
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
Found at i:33841011 original size:100 final size:100
Alignment explanation
Indices: 33840723--33841051 Score: 439
Period size: 100 Copynumber: 3.2 Consensus size: 100
33840713 GGGAATGAGA
* * * *
33840723 TCCCATGTAATACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCAT-AT
1 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCA---AG---ATGAGAGGTCCC-TCAT
33840787 AAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
59 AAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * * *
33840829 TTCCATATAAGACCA-GTCTGGGACTTGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCA
1 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
33840893 TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
66 TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
33840928 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
1 TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
* * *
33840993 TGTCTGGGATATGACATGGAC-CTCGATATGAGAAC
66 TGTCTGGGACATGGCATGGGCAC-CGATATGAGAAC
* *
33841028 TCCCATGTAAGACCATATCTGGGA
1 TCCCATATAAGACCATGTCTGGGA
33841052 TATGACATTG
Statistics
Matches: 201, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
99 70 0.35
100 97 0.48
102 2 0.01
105 20 0.10
106 12 0.06
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (100 bp):
TCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCTCATAAGACCA
TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
Found at i:33841052 original size:50 final size:49
Alignment explanation
Indices: 33840770--33841103 Score: 300
Period size: 50 Copynumber: 6.7 Consensus size: 49
33840760 TCATTGAGAT
**
33840770 TATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCAT-GGCACCGA
* * *
33840820 TATGAGAACTTCCATATAAGACCA-GTCTGGGACTTGGCGTTGGCACCGA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGC-ATGGCACCGA
* ** ***
33840869 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCAT-GGCACCGA
* *
33840919 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCAA
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGC-ATGGCACCGA
* ** * *
33840969 GATGAGAGGTCCC-TCATAAGACCATGTCTGGGATATGACATGG-ACCTCGA
1 TATGAGAACTCCCAT-ATAAGACCATGTCTGGGACATGGCATGGCA-C-CGA
* * * * * *
33841019 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTG-ACAG-
1 TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCATGGCACCGA
* * * *
33841066 TACAGAAAACATCCCATGTAAGACTATGTCTGGGACAT
1 TA-TGAGAAC-TCCCATATAAGACCATGTCTGGGACAT
33841104 AACTTTGGCA
Statistics
Matches: 233, Mismatches: 41, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.01
48 7 0.03
49 69 0.30
50 153 0.66
51 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (49 bp):
TATGAGAACTCCCATATAAGACCATGTCTGGGACATGGCATGGCACCGA
Found at i:33843849 original size:25 final size:25
Alignment explanation
Indices: 33843821--33843899 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
33843811 CTAATGGCCG
33843821 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
33843846 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
33843868 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
33843893 ATGTGAT
1 ATGTGAT
33843900 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:33843871 original size:47 final size:47
Alignment explanation
Indices: 33843808--33844077 Score: 495
Period size: 47 Copynumber: 5.7 Consensus size: 47
33843798 ATGATAGTAT
33843808 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
33843855 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
33843902 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
33843949 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
33843996 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
33844045 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
33844078 CCCGAAGGGC
Statistics
Matches: 217, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
47 172 0.79
49 41 0.19
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:33844249 original size:37 final size:37
Alignment explanation
Indices: 33844194--33844271 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33844184 CCGAGCTCTA
* * *
33844194 AAGA-CCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33844230 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33844267 AAGAC
1 AAGAC
33844272 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33845836 original size:31 final size:31
Alignment explanation
Indices: 33845764--33845839 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
33845754 ATTTAACGGT
* *
33845764 AGAGTGATTAAAATTGACAACTTATCTAACG
1 AGAGTGACTAAAATTGACAACTTATCTAACC
* *
33845795 GGAGTAACTAAAATTGACAACTTAT-TAAACC
1 AGAGTGACTAAAATTGACAACTTATCT-AACC
33845826 AGAGTGACTAAAAT
1 AGAGTGACTAAAAT
33845840 AACAGAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.03
31 37 0.97
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (31 bp):
AGAGTGACTAAAATTGACAACTTATCTAACC
Found at i:33848157 original size:8 final size:8
Alignment explanation
Indices: 33848144--33848199 Score: 50
Period size: 7 Copynumber: 7.5 Consensus size: 8
33848134 AGGAGGGCAT
33848144 GATTGAAA
1 GATTGAAA
33848152 GATTG-AA
1 GATTGAAA
*
33848159 GATTTAAA
1 GATTGAAA
33848167 G-TTGAATA
1 GATTGAA-A
33848175 GA-T-AAA
1 GATTGAAA
*
33848181 GATTGAAG
1 GATTGAAA
33848189 GATTG-AA
1 GATTGAAA
33848196 GATT
1 GATT
33848200 TAAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
6 3 0.08
7 18 0.46
8 18 0.46
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (8 bp):
GATTGAAA
Found at i:33851830 original size:96 final size:96
Alignment explanation
Indices: 33851645--33851819 Score: 237
Period size: 96 Copynumber: 1.8 Consensus size: 96
33851635 AGAGGAGTAC
* * * * * *
33851645 GATTGATCTCTCACCTGTTGTGAAGTGTTATTGGTGTAATTCAAAAGATCATGAGGGTTTCCGAT
1 GATTGAGCTATCACCTGTTGTGAAGTGTTATTGGAGTAATTCAAAAGATCATAAGAGTTTCCAAT
33851710 GTCTAATTAAATATCTAAATAGAGAGAATAA
66 GTCTAATTAAATATCTAAATAGAGAGAATAA
* * *
33851741 GATTGAGCTATCACCTTTTGTGCAA-TGTTATTGGAGTAGTTCTAAAGATCATAAGAGTTTCCAA
1 GATTGAGCTATCACCTGTTGTG-AAGTGTTATTGGAGTAATTCAAAAGATCATAAGAGTTTCCAA
33851805 TGTGC-AATTAAATAT
65 TGT-CTAATTAAATAT
33851820 TCAACAAGAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
96 65 0.96
97 3 0.04
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (96 bp):
GATTGAGCTATCACCTGTTGTGAAGTGTTATTGGAGTAATTCAAAAGATCATAAGAGTTTCCAAT
GTCTAATTAAATATCTAAATAGAGAGAATAA
Found at i:33860473 original size:30 final size:30
Alignment explanation
Indices: 33860437--33860494 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
33860427 TGACATCACT
33860437 TATCTGTGACGGTCATTGAA-CTGACTAACC
1 TATCTGTGACGGTCATTGAATC-GACTAACC
33860467 TATCTGTGACGGTCATTGAATCGACTAA
1 TATCTGTGACGGTCATTGAATCGACTAA
33860495 AGGGGTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (30 bp):
TATCTGTGACGGTCATTGAATCGACTAACC
Found at i:33862742 original size:32 final size:32
Alignment explanation
Indices: 33862706--33862769 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
33862696 ACCTCTACAT
*
33862706 TAATGCTCAACTCAAGTTCGAATATTTTTAAC
1 TAATGCTCAACTCAAGTTCAAATATTTTTAAC
*
33862738 TAATGCTTAACTCAAGTTCAAATATTTTTAAC
1 TAATGCTCAACTCAAGTTCAAATATTTTTAAC
33862770 CTACCACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (32 bp):
TAATGCTCAACTCAAGTTCAAATATTTTTAAC
Found at i:33866760 original size:180 final size:180
Alignment explanation
Indices: 33866458--33866819 Score: 679
Period size: 180 Copynumber: 2.0 Consensus size: 180
33866448 AAAGAGCATG
* * *
33866458 AAAACTGTGGAGTAAGAGTAGATTTAGTAACAATCATCTTCGCGTTGCTTCATTGCCATCCTTAC
1 AAAACTGTGGAATAAGAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
*
33866523 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAGCACTCTCACCATAACCTTTTACGGATTTTACT
66 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
33866588 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
131 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
*
33866638 AAAACTGTGGAATAATAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
1 AAAACTGTGGAATAAGAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
33866703 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
66 ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
33866768 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
131 TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
33866818 AA
1 AA
33866820 GAAATAACAG
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (180 bp):
AAAACTGTGGAATAAGAGTAGATTTAGTAACAATCATCTTCACCTTGCTTCATTGCCATCCTTAC
ATGAGGAGAGTTGAAAAATAAAGAAGAAAAAAACACTCTCACCATAACCTTTTACGGATTTTACT
TAATAAATAGTAAACTTTTTACTTGATCTAATAAACAATCCTATAAATAT
Found at i:33868471 original size:21 final size:20
Alignment explanation
Indices: 33868442--33868481 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33868432 TCTCTCAACA
*
33868442 AATTATTAAAATGTTCAAAAC
1 AATTATTAAAA-ATTCAAAAC
*
33868463 AATTTTTAAAAATTCAAAA
1 AATTATTAAAAATTCAAAA
33868482 TATTTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (20 bp):
AATTATTAAAAATTCAAAAC
Found at i:33868491 original size:19 final size:20
Alignment explanation
Indices: 33868464--33868502 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
33868454 GTTCAAAACA
*
33868464 ATTTTTAAAA-ATTCAAAAT
1 ATTTATAAAACATTCAAAAT
*
33868483 ATTTATAAAACTTTCAAAAT
1 ATTTATAAAACATTCAAAAT
33868503 TTATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTATAAAACATTCAAAAT
Found at i:33868539 original size:19 final size:19
Alignment explanation
Indices: 33868485--33868539 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 19
33868475 TTCAAAATAT
* * *
33868485 TTATAA-AACTTTCAAAAT
1 TTATAATAATTTTAAAAAA
* *
33868503 TTAT-ATATTTTTTAAAAA
1 TTATAATAATTTTAAAAAA
33868521 TTATAATAATTTTAAAAAA
1 TTATAATAATTTTAAAAAA
33868540 AATTCTAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.03
18 16 0.55
19 12 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAATAATTTTAAAAAA
Found at i:33875930 original size:35 final size:35
Alignment explanation
Indices: 33875882--33876039 Score: 226
Period size: 35 Copynumber: 4.5 Consensus size: 35
33875872 TTATGGACTG
* *
33875882 GTCCTTTGGGGCGACACCATGTAAATGGTATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
**
33875917 GTTGTTCGGGGCGACACCGTGTAAATGGTATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
* *
33875952 GTCCTTTGGGGCGACACCGTGTAAACGGTATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
* *
33875987 GTCCTTTGGGGCGACACCGTATAAATGGTATACAT
1 GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
* *
33876022 GTCTTTCAGGGCGACACC
1 GTCCTTCGGGGCGACACC
33876040 TCAAAAGGGG
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 110 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (35 bp):
GTCCTTCGGGGCGACACCGTGTAAATGGTATACAT
Found at i:33881456 original size:29 final size:29
Alignment explanation
Indices: 33881414--33881541 Score: 195
Period size: 29 Copynumber: 4.4 Consensus size: 29
33881404 TTATTGACCA
*
33881414 ATGAAAAGGGATAGCTTCTA-CTATGGAAT
1 ATGAAAAGGGATAGCTTC-AGCTATCGAAT
33881443 ATGAAAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
33881472 ATGAAAAGGGGTAGCTTCAGCTATTGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
33881501 ATGAAAAGGGGTAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
33881530 ATGAAAAGGGAT
1 ATGAAAAGGGAT
33881542 GTTGACGACC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 1 0.01
29 91 0.99
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:33881637 original size:29 final size:29
Alignment explanation
Indices: 33881523--33881686 Score: 143
Period size: 29 Copynumber: 5.6 Consensus size: 29
33881513 AGCTTCAGCT
*
33881523 ATCGATTATGAAAAGGGATGTTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
* * * *
33881552 ATCAACTATGAAAAGGGACGGTGATGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
*** * *
33881581 ATCGAATT-TGAGAAA-GGATAACGTCGACT
1 ATCG-ATTATGA-AAAGGGATGGTGACGACC
*
33881610 ATCGATTATGAAAAGGGATGGTGACGACG
1 ATCGATTATGAAAAGGGATGGTGACGACC
* ** *
33881639 ATTGATTAATGAAAAGGGATGGTTTCAACC
1 ATCGATT-ATGAAAAGGGATGGTGACGACC
*
33881669 ATCGAATATGAAAAGGGA
1 ATCGATTATGAAAAGGGA
33881687 CGGTCACAAC
Statistics
Matches: 104, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
28 6 0.06
29 70 0.67
30 28 0.27
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGACGACC
Found at i:33881684 original size:87 final size:87
Alignment explanation
Indices: 33881521--33881684 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 87
33881511 GTAGCTTCAG
* *
33881521 CTATCGATTATGAAAAGGGATGTTGACGACCATCAACTATGAAAAGGGACGGTGATGACCATCGA
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGACGGTGATAACCATCGA
*
33881586 ATTTGAGAAAGGATAACGTCGA
66 ATATGAGAAAGGATAACGTCGA
* ** * * *
33881608 CTATCGATTATGAAAAGGGATGGTGACGACGATTGATTAATGAAAAGGGATGGT-TTCAACCATC
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACT-ATGAAAAGGGACGGTGAT-AACCATC
33881672 GAATATGA-AAAGG
64 GAATATGAGAAAGG
33881685 GACGGTCACA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 39 0.59
88 27 0.41
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (87 bp):
CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGACGGTGATAACCATCGA
ATATGAGAAAGGATAACGTCGA
Found at i:33884843 original size:21 final size:21
Alignment explanation
Indices: 33884803--33884848 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
33884793 GCCAAGATCG
*
33884803 TGTGGCTACCCCACATGCCCA
1 TGTGGCTACCCCACACGCCCA
* * *
33884824 TGTGGCTACCTCATACGCCCG
1 TGTGGCTACCCCACACGCCCA
33884845 TGTG
1 TGTG
33884849 CTCAAACAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTGGCTACCCCACACGCCCA
Found at i:33885676 original size:13 final size:13
Alignment explanation
Indices: 33885658--33885730 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
33885648 GCATAGACAC
33885658 TTCATATAACCAT
1 TTCATATAACCAT
* *
33885671 TTCATATATCTAT
1 TTCATATAACCAT
33885684 TTCTATATAATCCA-
1 TTC-ATATAA-CCAT
33885698 TTCATATAACCAT
1 TTCATATAACCAT
* * *
33885711 TTTATGTAATCAT
1 TTCATATAACCAT
33885724 TTCATAT
1 TTCATAT
33885731 TATAATTCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.06
13 35 0.73
14 8 0.17
15 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.01, T:0.47
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:33885726 original size:40 final size:42
Alignment explanation
Indices: 33885658--33885741 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 42
33885648 GCATAGACAC
33885658 TTCATATAACCATTTCATATATCTATTTC-TA-TATAATCCA
1 TTCATATAACCATTTCATATATCTATTTCATATTATAATCCA
* * *
33885698 TTCATATAACCATTTTATGTAATC-ATTTCATATTATAATTCA
1 TTCATATAACCATTTCATAT-ATCTATTTCATATTATAATCCA
33885740 TT
1 TT
33885742 TACATATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 23 0.61
41 5 0.13
42 10 0.26
ACGTcount: A:0.35, C:0.17, G:0.01, T:0.48
Consensus pattern (42 bp):
TTCATATAACCATTTCATATATCTATTTCATATTATAATCCA
Found at i:33885727 original size:26 final size:28
Alignment explanation
Indices: 33885661--33885730 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
33885651 TAGACACTTC
* *
33885661 ATATAA-CCATTTCATATATCTATTTCT
1 ATATAATCCATTTCATATAACCATTTCT
33885688 ATATAATCCA-TTCATATAACCATTT-T
1 ATATAATCCATTTCATATAACCATTTCT
*
33885714 ATGTAAT-CATTTCATAT
1 ATATAATCCATTTCATAT
33885731 TATAATTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 2 0.05
26 14 0.37
27 19 0.50
28 3 0.08
ACGTcount: A:0.36, C:0.17, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATAATCCATTTCATATAACCATTTCT
Found at i:33899176 original size:138 final size:138
Alignment explanation
Indices: 33898920--33899181 Score: 298
Period size: 138 Copynumber: 1.9 Consensus size: 138
33898910 AAAATGGGCT
* * * * ** *
33898920 TGCTTACACAAGCTATCGGTCGAAATGTAAGCTACATGATGTTGCTCACACAAGCTATTGAGTAT
1 TGCTTACACAAGCTATCGGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAAGTAA
* * * * **
33898985 CCGCAACTAATGCTGGACCTTAGGCATCGGTAGGACATTCAAGACCAGTACCCGAAACATGGTAA
66 CCGCAACTAATGCTGAAACTTAGCCATCGGTAGGAAATTCAAGACCAACACCCGAAACATGGTAA
33899050 CCTGGGTC
131 CCTGGGTC
* * *
33899058 TGCTTACACAAGCTGTCGGTCGAAACGTAA-CTACACGGTGCTATTCACACAAGCTATCAAGTAA
1 TGCTTACACAAGCTATCGGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAAGTAA
* *
33899122 CCGCAAC-ACAT-CTTGAAAACTTAGCCA-CTGGTAGGAAATTCAGGACTAACACCCGAAACA
66 CCGCAACTA-ATGC-TG-AAACTTAGCCATC-GGTAGGAAATTCAAGACCAACACCCGAAACA
33899182 CCGTAACCCT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
136 2 0.02
137 38 0.37
138 62 0.61
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (138 bp):
TGCTTACACAAGCTATCGGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAAGTAA
CCGCAACTAATGCTGAAACTTAGCCATCGGTAGGAAATTCAAGACCAACACCCGAAACATGGTAA
CCTGGGTC
Found at i:33905956 original size:21 final size:21
Alignment explanation
Indices: 33905919--33905961 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33905909 TTTGGGCCGA
*
33905919 AAATGGTGCAAAAAATAGAAG
1 AAATGGTGCAAAAAATAAAAG
*
33905940 AAATGGTG-AAGATAATAAAAG
1 AAATGGTGCAA-AAAATAAAAG
33905961 A
1 A
33905962 CAGATTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.16
Consensus pattern (21 bp):
AAATGGTGCAAAAAATAAAAG
Found at i:33907890 original size:19 final size:18
Alignment explanation
Indices: 33907858--33907893 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33907848 TAAAGTAGTG
*
33907858 ATTTAGTAATTAAAAGAA
1 ATTTAGTAAATAAAAGAA
33907876 ATTTAAGTAAATAAAAGA
1 ATTT-AGTAAATAAAAGA
33907894 TGAAACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
ATTTAGTAAATAAAAGAA
Found at i:33929095 original size:105 final size:106
Alignment explanation
Indices: 33928965--33929179 Score: 378
Period size: 106 Copynumber: 2.0 Consensus size: 106
33928955 TAATGGGTAA
*
33928965 AATTCGATAGAAACACACTTAATTTT-CAATTGGTGGTCATAATTTTCTCATAATTGGCTCAAAA
1 AATTCGATAGAAACACACTTAATTTTACAATTGGTGGTCATAATTTGCTCATAATTGGCTCAAAA
*
33929029 TTTAAGAGAAATTACCTAAGAAAAGTTTAAAATTGGCTTAT
66 TTTAAGAGAAATTACCTAAGAAAAGTTTAAAATTGGCTCAT
*
33929070 AATTCGATAGAAACACACTTAATTTTACAATTGGTGGTCATAATTTGCTCATAATTTGCTCAAAA
1 AATTCGATAGAAACACACTTAATTTTACAATTGGTGGTCATAATTTGCTCATAATTGGCTCAAAA
* *
33929135 TTTAGGAGAAATTACTTAAGAAAAGTTTAAAATTGGCTCAT
66 TTTAAGAGAAATTACCTAAGAAAAGTTTAAAATTGGCTCAT
33929176 AATT
1 AATT
33929180 TGCTTCCACA
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
105 26 0.25
106 78 0.75
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (106 bp):
AATTCGATAGAAACACACTTAATTTTACAATTGGTGGTCATAATTTGCTCATAATTGGCTCAAAA
TTTAAGAGAAATTACCTAAGAAAAGTTTAAAATTGGCTCAT
Found at i:33929123 original size:11 final size:11
Alignment explanation
Indices: 33929107--33929137 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
33929097 CAATTGGTGG
33929107 TCATAATTTGC
1 TCATAATTTGC
33929118 TCATAATTTGC
1 TCATAATTTGC
*
33929129 TCAAAATTT
1 TCATAATTT
33929138 AGGAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (11 bp):
TCATAATTTGC
Found at i:33929677 original size:18 final size:17
Alignment explanation
Indices: 33929646--33929680 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33929636 CTAGAATATA
*
33929646 TTTTTTTAACTTTTTAT
1 TTTTTTTAAATTTTTAT
33929663 TTTTTTTACAATTTTTAT
1 TTTTTTTA-AATTTTTAT
33929681 GGTTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTAAATTTTTAT
Found at i:33930797 original size:15 final size:14
Alignment explanation
Indices: 33930774--33930809 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
33930764 ATCTACTAGC
*
33930774 TCTTTTTCTTTTTT
1 TCTTTTTCTATTTT
33930788 TCTATTTTCTATTTT
1 TCT-TTTTCTATTTT
33930803 TCTTTTT
1 TCTTTTT
33930810 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (14 bp):
TCTTTTTCTATTTT
Found at i:33933150 original size:87 final size:86
Alignment explanation
Indices: 33933002--33933168 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 86
33932992 AAATTTAAAT
* * * * * *
33933002 TCAATGAATACATCAAGTCCGTCTTAGTAGGACCACCCAACCTCTGGGATATGAATTCATTAAGA
1 TCAATAAATACATCAAATCCATCTCAATAGGACCACCCAACCTCTGGGATATGAATCCATTAAGA
33933067 GTAATAAACTCAACCTCACATG
66 GTAA-AAACTCAACCTCACATG
* * *
33933089 TCAATAAATTCATCAAATCCATCTCAATAGGACCACCCAA-ATCCTGGGCTATGAATCCATTAAG
1 TCAATAAATACATCAAATCCATCTCAATAGGACCACCCAACCT-CTGGGATATGAATCCATTAAG
*
33933153 AGTAAGAACTCAACCT
65 AGTAAAAACTCAACCT
33933169 TATTCATGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 11 0.16
87 58 0.84
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (86 bp):
TCAATAAATACATCAAATCCATCTCAATAGGACCACCCAACCTCTGGGATATGAATCCATTAAGA
GTAAAAACTCAACCTCACATG
Found at i:33953249 original size:14 final size:14
Alignment explanation
Indices: 33953230--33953257 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33953220 TAAAGTTACA
33953230 TTTAATAATTCATT
1 TTTAATAATTCATT
33953244 TTTAATAATTCATT
1 TTTAATAATTCATT
33953258 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:33953288 original size:13 final size:13
Alignment explanation
Indices: 33953270--33953300 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33953260 TAAATTGGGT
33953270 TTAAATTAATTAA
1 TTAAATTAATTAA
*
33953283 TTAAATTGATTAA
1 TTAAATTAATTAA
33953296 TTAAA
1 TTAAA
33953301 GTAGTTAAAT
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:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTAAATTAATTAA
Found at i:33956920 original size:27 final size:28
Alignment explanation
Indices: 33956890--33956947 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
33956880 TAGCGGCCAT
**
33956890 ATTGCAACGGCCAT-TTGTAATAGTCAG
1 ATTGCAACAACCATATTGTAATAGTCAG
* *
33956917 ATTGCAACAACCATATTGTAATGGTTAG
1 ATTGCAACAACCATATTGTAATAGTCAG
33956945 ATT
1 ATT
33956948 CCAATGGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (28 bp):
ATTGCAACAACCATATTGTAATAGTCAG
Found at i:33959259 original size:29 final size:28
Alignment explanation
Indices: 33959211--33959268 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
33959201 TGTGGAACAA
* * *
33959211 TGGCTTTTATTTTGACTAAAGTTTATTT
1 TGGCTTTTATTTTCACTAAACTGTATTT
33959239 TGGCTTTT-TTTCTCACTTAAACTGTATTT
1 TGGCTTTTATTT-TCAC-TAAACTGTATTT
33959268 T
1 T
33959269 TAGTTTCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 3 0.12
28 11 0.44
29 11 0.44
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (28 bp):
TGGCTTTTATTTTCACTAAACTGTATTT
Found at i:33959972 original size:12 final size:12
Alignment explanation
Indices: 33959955--33959979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33959945 GGCCAATAGG
33959955 TTAGTATTAAAA
1 TTAGTATTAAAA
33959967 TTAGTATTAAAA
1 TTAGTATTAAAA
33959979 T
1 T
33959980 AGTGCCTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAGTATTAAAA
Found at i:33963734 original size:15 final size:15
Alignment explanation
Indices: 33963714--33963821 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
33963704 TTTATGGAAA
33963714 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* ***
33963729 ATCAAATA-ATGAAA
1 ATCAAAGATATGGGT
33963743 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
33963759 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
33963773 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
33963789 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
33963803 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
33963819 ATC
1 ATC
33963822 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:33963749 original size:30 final size:30
Alignment explanation
Indices: 33963710--33963830 Score: 190
Period size: 30 Copynumber: 4.0 Consensus size: 30
33963700 CATATTTATG
*
33963710 GAAAA-TCAAAGATATGGGTATCAAATAAT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
33963739 GAAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
*
33963769 GGAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAAGTCAAAGATATGGGTATCAAATATT
* *
33963799 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAAGTCAAAGATATGGGTATC-AAATATT
33963830 G
1 G
33963831 GCATAATAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 5 0.06
30 75 0.86
31 7 0.08
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
GAAAAGTCAAAGATATGGGTATCAAATATT
Found at i:33966675 original size:26 final size:25
Alignment explanation
Indices: 33966646--33966728 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
33966636 TTAAATTCTA
33966646 TTTAATTATCTTTTATTTAAAACTCT
1 TTTAATTAT-TTTTATTTAAAACTCT
* * ** * *
33966672 TTTAAATAATAATAATTAAATTA-TGT
1 TTTAATTATTTTTATTTAAA--ACTCT
33966698 TTTAATTATTATTTATTTAAAACTCT
1 TTTAATTATT-TTTATTTAAAACTCT
33966724 TTTAA
1 TTTAA
33966729 ATAATAACTA
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
25 9 0.22
26 24 0.59
27 8 0.20
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (25 bp):
TTTAATTATTTTTATTTAAAACTCT
Found at i:33966705 original size:52 final size:49
Alignment explanation
Indices: 33966615--33966748 Score: 191
Period size: 52 Copynumber: 2.7 Consensus size: 49
33966605 TTGAATTTTA
*
33966615 AAAACTCTTTTAAATAATAATTTAAATTCTATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATTTAAATTATATTTAATTAT-TATTTATTT
*
33966664 AAAACTCTTTTAAATAATAATAATTAAATTATGTTTTAATTATTATTTATTT
1 AAAACTCTTTTAAATAATAAT--TTAAATTAT-ATTTAATTATTATTTATTT
*
33966716 AAAACTCTTTTAAATAATAA-CTAAATTATATTT
1 AAAACTCTTTTAAATAATAATTTAAATTATATTT
33966749 CCTTATCTGA
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
48 3 0.04
49 29 0.38
51 9 0.12
52 36 0.47
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.50
Consensus pattern (49 bp):
AAAACTCTTTTAAATAATAATTTAAATTATATTTAATTATTATTTATTT
Found at i:33966813 original size:94 final size:94
Alignment explanation
Indices: 33966696--33966870 Score: 296
Period size: 94 Copynumber: 1.9 Consensus size: 94
33966686 ATTAAATTAT
* *
33966696 GTTTTAATTATTATTTATTTAAAACTCTTTTAAATAATAACTAAATTATATTTCCTTATCTGATA
1 GTTTTAATTATTATTTATCTAAAACTATTTTAAATAATAACTAAATTATATTTCCTTATCTGATA
*
33966761 AGGAATATATAAAATCATTTTGATTTTGA
66 AGAAATATATAAAATCATTTTGATTTTGA
* * *
33966790 GTTTTAATTATTATTTATCTAAAACTATTTTAAATAATAATTAAATTCTATTTCTTTATCTGATA
1 GTTTTAATTATTATTTATCTAAAACTATTTTAAATAATAACTAAATTATATTTCCTTATCTGATA
33966855 AGAAATATATAAAATC
66 AGAAATATATAAAATC
33966871 CCATTTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (94 bp):
GTTTTAATTATTATTTATCTAAAACTATTTTAAATAATAACTAAATTATATTTCCTTATCTGATA
AGAAATATATAAAATCATTTTGATTTTGA
Found at i:33970492 original size:50 final size:52
Alignment explanation
Indices: 33970377--33970493 Score: 132
Period size: 50 Copynumber: 2.3 Consensus size: 52
33970367 AACAAATAAG
* * * * * *
33970377 TTACTTAATGCATGAATTAATTTAATGATGTAACCTTTAACTAACATGGGAG
1 TTACATAATGCATGAATTAATTTAATGATGCAAACTTTAAATAACATGAGAA
* *
33970429 TTACGTAATGCATGTCA-TAATTT-ATGATGCAAAC-TTAAATAACATGAGAA
1 TTACATAATGCATG-AATTAATTTAATGATGCAAACTTTAAATAACATGAGAA
33970479 TTACATAATGCATGA
1 TTACATAATGCATGA
33970494 CTTTATTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
50 26 0.47
51 9 0.16
52 19 0.35
53 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (52 bp):
TTACATAATGCATGAATTAATTTAATGATGCAAACTTTAAATAACATGAGAA
Found at i:33978448 original size:26 final size:27
Alignment explanation
Indices: 33978397--33978449 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
33978387 AAAATTAATA
* *
33978397 CACAACTATTAATCTAATTATGCATAT
1 CACAAATATTAATCTAATTATCCATAT
33978424 CACAAATATTAAT-TAA-TATTCCATAT
1 CACAAATATTAATCTAATTA-TCCATAT
33978450 AAAACAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 9 0.39
27 12 0.52
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (27 bp):
CACAAATATTAATCTAATTATCCATAT
Found at i:33982325 original size:30 final size:30
Alignment explanation
Indices: 33982286--33982384 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
33982276 ACGGCCTAAG
* *
33982286 ACACAGGCTGTTCGCACGACTGCGTGTCAC
1 ACACGGGCTGTTCGCACGACCGCGTGTCAC
* * * *
33982316 ACTCGGGCTGTTTGCACGGCCGTGTGTCAC
1 ACACGGGCTGTTCGCACGACCGCGTGTCAC
* * * * *
33982346 ACACGAGCTGTTCCCATGACCGTGTGTTAC
1 ACACGGGCTGTTCGCACGACCGCGTGTCAC
*
33982376 ACACAGGCT
1 ACACGGGCT
33982385 ATGTCAAATG
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.23
Consensus pattern (30 bp):
ACACGGGCTGTTCGCACGACCGCGTGTCAC
Found at i:33984900 original size:22 final size:22
Alignment explanation
Indices: 33984872--33984913 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
33984862 GCCAATATGG
*
33984872 GATTAAAATTAATTTTTTAAGA
1 GATTAAAATTAAGTTTTTAAGA
33984894 GATTAAAATTAAGTTTTTAA
1 GATTAAAATTAAGTTTTTAA
33984914 TAAAATAGTG
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:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
GATTAAAATTAAGTTTTTAAGA
Found at i:33985015 original size:69 final size:69
Alignment explanation
Indices: 33984894--33985138 Score: 282
Period size: 69 Copynumber: 3.5 Consensus size: 69
33984884 TTTTTTAAGA
* * *
33984894 GATTAAAATTAAGTTTTTAAT-AAAATAGTGAAGAAGTGAGTTATGAGAGTATTCTCTAGTTAAA
1 GATTAAAATTAATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGAGTATTCTCTAGTTAAA
33984958 GTGG
66 GTGG
* * *
33984962 GATTAAAATTTATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGTGTATTCTCTAGTTAAT
1 GATTAAAATTAATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGAGTATTCTCTAGTTAAA
*
33985027 GTGA
66 GTGG
* * *
33985031 GATTAAAATTAACTTTTTTATTGAAAA-AGTGAAGAAAATGCCA-CTTATTTATGAGAGTATTCT
1 GATTAAAATTAA-TTTTTTAATAAAAATAGTGAAG-AAGTG--AGC-TA--TA--AGAGTATTCT
33985094 CTAGTTAAAGTGG
57 CTAGTTAAAGTGG
*
33985107 GATTAAAATTAA-ATTTTAATAAAAATAGTGAA
1 GATTAAAATTAATTTTTTAATAAAAATAGTGAA
33985139 TAAATTGTCA
Statistics
Matches: 149, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
68 19 0.13
69 60 0.40
70 16 0.11
71 1 0.01
72 3 0.02
74 12 0.08
75 6 0.04
76 32 0.21
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (69 bp):
GATTAAAATTAATTTTTTAATAAAAATAGTGAAGAAGTGAGCTATAAGAGTATTCTCTAGTTAAA
GTGG
Found at i:33985096 original size:76 final size:75
Alignment explanation
Indices: 33985011--33985157 Score: 197
Period size: 76 Copynumber: 1.9 Consensus size: 75
33985001 AGCTATAAGT
* * * *
33985011 GTATTCTCTAGTTAATGTGAGATTAAAATTAACTTTTTTATTGAAAA-AGTGAAGAAAATGCCAC
1 GTATTCTCTAGTTAAAGTGAGATTAAAATTAA--ATTTTAATAAAAATAGTGAAGAAAATGCCAC
33985075 TTATTTATGAGA
64 TTATTTATGAGA
* * * *
33985087 GTATTCTCTAGTTAAAGTGGGATTAAAATTAAATTTTAATAAAAATAGTGAATAAATTGTCACTT
1 GTATTCTCTAGTTAAAGTGAGATTAAAATTAAATTTTAATAAAAATAGTGAAGAAAATGCCACTT
33985152 ATTTAT
66 ATTTAT
33985158 AAGGTAAATG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 10 0.16
75 22 0.35
76 30 0.48
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (75 bp):
GTATTCTCTAGTTAAAGTGAGATTAAAATTAAATTTTAATAAAAATAGTGAAGAAAATGCCACTT
ATTTATGAGA
Found at i:33985344 original size:29 final size:29
Alignment explanation
Indices: 33985312--33985368 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
33985302 ACATTTCAAG
*
33985312 GGATTAAAATTAAGTTTTAATGAAAATAA
1 GGATTAAAATTAACTTTTAATGAAAATAA
* *
33985341 GGATTAAAATTAACTTTTCATTAAAATA
1 GGATTAAAATTAACTTTTAATGAAAATA
33985369 GTGAAGAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (29 bp):
GGATTAAAATTAACTTTTAATGAAAATAA
Found at i:33987564 original size:61 final size:59
Alignment explanation
Indices: 33987436--33987568 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 59
33987426 TTCCATCCTT
*
33987436 AACTCAAGGGGTCGGCTATGCATGAGAGAAAAAAGGGGGATTGACATTCTAGTTTTAATA
1 AACTCAAGGGG-CGGCTATGCATGAGAGAAAAAAGGAGGATTGACATTCTAGTTTTAATA
* * *
33987496 AAATCAAGGGGCAGAGC-ATGCATGAGAGAAAAAAAGGAGGATTGACATGTC-ATTTTTAGTA
1 AACTCAAGGGGC-G-GCTATGCATGAGAG-AAAAAAGGAGGATTGACAT-TCTAGTTTTAATA
33987557 AACTCAAGGGGC
1 AACTCAAGGGGC
33987569 TTCTCACAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 1 0.02
60 22 0.34
61 39 0.61
62 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.22
Consensus pattern (59 bp):
AACTCAAGGGGCGGCTATGCATGAGAGAAAAAAGGAGGATTGACATTCTAGTTTTAATA
Found at i:34003751 original size:101 final size:102
Alignment explanation
Indices: 34003632--34003816 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
34003622 AAAGTGATGG
* * *
34003632 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAAAA--TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGTGAT-GGTCACATGTGTAGC
34003695 ACTATATGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATATGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * ** *
34003733 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATTGTGATGGTCACATGTGTAGCA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGTGATGGTCACATGTGTAGCA
*
34003798 CTATGTGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
34003817 TGAACCGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGTGATGGTCACATGTGTAGCA
CTATATGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:34003767 original size:26 final size:26
Alignment explanation
Indices: 34003738--34003818 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
34003728 TTCGATCACG
34003738 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
*
34003764 TGTGTA-T-CGGATTGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TA-TGTGCA-GGCT-ACTA
*
34003789 TGTGTAGCACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
34003815 TGTG
1 TGTG
34003819 AACCGGTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
24 1 0.02
25 19 0.44
26 22 0.51
27 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:34003817 original size:51 final size:51
Alignment explanation
Indices: 34003624--34003818 Score: 202
Period size: 51 Copynumber: 3.9 Consensus size: 51
34003614 TGAAAGTGAA
* * * * *
34003624 AGTGAT-GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTAC-CAA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGGAT
* * * *
34003673 AATGATAGGTCGCATGTGTAGTACTATATGCAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGAT
* * *
34003725 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGAT
* *
34003776 TGTGAT-GGTCACATGTGTAGCACTATGTGCAGGCTACTATGTG
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
34003819 AACCGGTATC
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 5 0.04
50 34 0.29
51 76 0.64
52 3 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGGAT
Found at i:34004063 original size:16 final size:16
Alignment explanation
Indices: 34004042--34004073 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34004032 CGATTGAAAG
*
34004042 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
34004058 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
34004074 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:34009893 original size:51 final size:52
Alignment explanation
Indices: 34009730--34009924 Score: 200
Period size: 51 Copynumber: 3.8 Consensus size: 52
34009720 TGAAAGTGAT
* * * *
34009730 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
* * * * *
34009780 GGTCACATGTGTAGTACTATATGCAGGCTACTATGCGTACCGGATAGC-TTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
* ** *
34009831 GATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGCGAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
* * * * *
34009882 GGTCACATGTGTAGCACTATTTGCAAGCTACTATGTGAACCGG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
34009925 TATCATTAAT
Statistics
Matches: 116, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
50 38 0.33
51 77 0.66
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (52 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCGATA
Found at i:34009924 original size:102 final size:101
Alignment explanation
Indices: 34009736--34009924 Score: 272
Period size: 102 Copynumber: 1.9 Consensus size: 101
34009726 TGATGGTCAC
* * *
34009736 GTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAACGATAGGTCACATGTGTAGCACTATA
* *
34009801 TGCAGGCTACTATGCGTACCGGATAGCTTCGATCAT
66 TGCAAGCTACTATGCGAACCGGATAGCTTCGATCAT
* *
34009837 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGCGAT-GGTCACATGTGTAGCACTA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-CGATAGGTCACATGTGTAGCACTA
* *
34009901 TTTGCAAGCTACTATGTGAACCGG
64 TATGCAAGCTACTATGCGAACCGG
34009925 TATCATTAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 35 0.45
102 39 0.51
103 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAACGATAGGTCACATGTGTAGCACTATA
TGCAAGCTACTATGCGAACCGGATAGCTTCGATCAT
Found at i:34012756 original size:20 final size:19
Alignment explanation
Indices: 34012731--34012770 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
34012721 TTAGTTTTTG
34012731 TTTATTTATTTATTTATATT
1 TTTATTTATTTATTTA-ATT
*
34012751 TTTATTTATTTGTTTAATT
1 TTTATTTATTTATTTAATT
34012770 T
1 T
34012771 CTTTTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTATTTATTTATTTAATT
Found at i:34013780 original size:48 final size:48
Alignment explanation
Indices: 34013709--34013805 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
34013699 TGGAAAGATC
34013709 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
1 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
34013757 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
1 ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
34013805 A
1 A
34013806 AGATCATCCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (48 bp):
ATCCAAATCTATTCTAACTTGTAGAGGTCTATTCTAACTTGGATTGGA
Found at i:34020709 original size:62 final size:61
Alignment explanation
Indices: 34020596--34020719 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 61
34020586 GTGACACCTC
34020596 AATAGAGGTCTAACATGGAAGACCATATTTAGCTATACCAACCAATATAGTCCACCAGGAT
1 AATAGAGGTCTAACATGGAAGACCATATTTAGCTATACCAACCAATATAGTCCACCAGGAT
* * * * **
34020657 AATAGAGGTCTAACATGTAAGACTATATCTTAGCTATGCCAACCAGTATAGTCTGCCAGGAT
1 AATAGAGGTCTAACATGGAAGACCATAT-TTAGCTATACCAACCAATATAGTCCACCAGGAT
34020719 A
1 A
34020720 GTAAACACAG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
61 26 0.46
62 30 0.54
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (61 bp):
AATAGAGGTCTAACATGGAAGACCATATTTAGCTATACCAACCAATATAGTCCACCAGGAT
Found at i:34027601 original size:32 final size:32
Alignment explanation
Indices: 34027559--34027668 Score: 139
Period size: 32 Copynumber: 3.4 Consensus size: 32
34027549 TAGAAATTTT
* **
34027559 TGGCCCACACGGCCTAAATTGCCATGCTTGTG
1 TGGCCCACACGGCCCAAATTGCCATGCCCGTG
* *
34027591 TGGCCTACACGGCCCAAATTGCCATGCCCATG
1 TGGCCCACACGGCCCAAATTGCCATGCCCGTG
* * *
34027623 TCGCCCACACCGCCCAAATTGCCTTGCCCGTG
1 TGGCCCACACGGCCCAAATTGCCATGCCCGTG
*
34027655 TGGCCTACACGGCC
1 TGGCCCACACGGCC
34027669 TCGCACATTG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.18, C:0.39, G:0.23, T:0.20
Consensus pattern (32 bp):
TGGCCCACACGGCCCAAATTGCCATGCCCGTG
Found at i:34028565 original size:52 final size:52
Alignment explanation
Indices: 34028487--34028591 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
34028477 CAAACAATCC
34028487 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
1 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
34028539 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
1 TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
34028591 T
1 T
34028592 CAAACGCACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.26
Consensus pattern (52 bp):
TTAACAAAAATATAATACCCTTTTGTACACACAAAGTCTAGAACCCAAGACT
Found at i:34028968 original size:151 final size:152
Alignment explanation
Indices: 34028684--34028980 Score: 356
Period size: 151 Copynumber: 2.0 Consensus size: 152
34028674 GGGACGTTAC
* *
34028684 AGTTTAAATTTTGAAAAATAAAAATTTGTTTTTTTTAGTCATTTTAAAGTTTAAAATTTTAGAAC
1 AGTTTAAATATTGAAAAATAAAAATTTGTTTTTTTAAGTCATTTTAAAGTTTAAAATTTTAGAAC
*
34028749 AAAATTTTGAATTTTTTCAACTACTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAATGTTCT
66 AAAATTTTGAATTTTTTCAACTACTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAATGATCT
34028814 TTTTTT-TAAAAAAAAGGAGAA
131 TTTTTTCTAAAAAAAAGGAGAA
* *
34028835 AGTTTACATATTGAAAAATAAAAATTTG-TTTTTTAAGTCATTTTAAAGGAAAGTTTAAATTTTT
1 AGTTTAAATATTGAAAAATAAAAATTTGTTTTTTTAAGTCATTTT-----AAAGTTTAAA-ATTT
* * * * * * * * *
34028899 TA-AA-AAAGTTTTG-ATTTTTTTAACTATTTCGAAATAAGA-TTTTGATTTTTAAGAAAAGTAA
60 TAGAACAAAATTTTGAATTTTTTCAACTACTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAA
*
34028960 TGAT-TTTTTTTCTAAATAAAA
125 TGATCTTTTTTTCTAAAAAAAA
34028981 CTTTGATTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
150 15 0.12
151 33 0.27
152 29 0.23
153 22 0.18
154 8 0.06
155 12 0.10
156 5 0.04
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (152 bp):
AGTTTAAATATTGAAAAATAAAAATTTGTTTTTTTAAGTCATTTTAAAGTTTAAAATTTTAGAAC
AAAATTTTGAATTTTTTCAACTACTTCAAAATAAAAGCTTTAATCTTTAAGAAAAATAATGATCT
TTTTTTCTAAAAAAAAGGAGAA
Found at i:34029490 original size:25 final size:24
Alignment explanation
Indices: 34029462--34029508 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
34029452 TCACTTGCAT
34029462 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
34029487 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
34029509 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:34040936 original size:42 final size:42
Alignment explanation
Indices: 34040876--34041064 Score: 206
Period size: 42 Copynumber: 4.5 Consensus size: 42
34040866 CATTTATTGT
* *
34040876 ATTTAGAGGTCCAGGTGTGGAGGTCTATTTACTTTTCATTTC
1 ATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTTC
* * *
34040918 ATTTAAAGGCCCATGTGTGGAGGTCCATTTGCTTTTCATTTC
1 ATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTTC
* * *
34040960 ATTTAGAGGCTCACAGGTTTGGAGGTCCATTCACTTTTCATTGC
1 ATTTAGAGGC-C-CAGGTGTGGAGGTCCATTTACTTTTCATTTC
* * * *
34041004 ATTTGGAGACCCAGGTGTGGAGGTTCGTTTACTTTTC---T-
1 ATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTTC
*
34041042 AGGTTAGAGGCCCAGGTGTGGAG
1 A-TTTAGAGGCCCAGGTGTGGAG
34041065 ATTATTGCAG
Statistics
Matches: 123, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 18 0.15
42 68 0.55
43 2 0.02
44 34 0.28
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (42 bp):
ATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTTC
Found at i:34041039 original size:86 final size:84
Alignment explanation
Indices: 34040876--34041040 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 84
34040866 CATTTATTGT
* * * * *
34040876 ATTTAGAGGTCCAGGTGTGGAGGTCTATTTACTTTTCATTTCATTTAAAGGCCCATGTGTGGAGG
1 ATTTAGAGGTCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAAAGACCCAGGTGTGGAGG
*
34040941 TCCATTTGCTTTTCATTTC
66 TCCATTTACTTTTCATTTC
* **
34040960 ATTTAGAGGCTCACAGGTTTGGAGGTCCATTCACTTTTCATTGCATTTGGAGACCCAGGTGTGGA
1 ATTTAGAGG-TC-CAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAAAGACCCAGGTGTGGA
* *
34041025 GGTTCGTTTACTTTTC
64 GGTCCATTTACTTTTC
34041041 TAGGTTAGAG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 9 0.13
85 2 0.03
86 57 0.84
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (84 bp):
ATTTAGAGGTCCAGGTGTGGAGGTCCATTCACTTTTCATTGCATTTAAAGACCCAGGTGTGGAGG
TCCATTTACTTTTCATTTC
Found at i:34041645 original size:18 final size:18
Alignment explanation
Indices: 34041622--34041656 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34041612 ACTACAGGCA
*
34041622 TTCTATTTCTTTTTTTTC
1 TTCTATCTCTTTTTTTTC
*
34041640 TTCTATCTGTTTTTTTT
1 TTCTATCTCTTTTTTTT
34041657 GGCCATAGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.77
Consensus pattern (18 bp):
TTCTATCTCTTTTTTTTC
Found at i:34041889 original size:44 final size:46
Alignment explanation
Indices: 34041825--34041922 Score: 148
Period size: 44 Copynumber: 2.2 Consensus size: 46
34041815 AAAGTTTTAA
* *
34041825 ATTTTTTT-TAAAAAAGAGAAAATTTAGATATTAA-TAA-AAAAAT
1 ATTTTTTTAAAAAAAAGAGAAAATTTAGATATTAACAAATAAAAAT
*
34041868 ATTTTTTTAAAAAAAATAGAAAATTTAGATATTAACAAATAAAAAT
1 ATTTTTTTAAAAAAAAGAGAAAATTTAGATATTAACAAATAAAAAT
34041914 ATTTTTTTA
1 ATTTTTTTA
34041923 GTTATTTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 8 0.16
44 24 0.49
45 2 0.04
46 15 0.31
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (46 bp):
ATTTTTTTAAAAAAAAGAGAAAATTTAGATATTAACAAATAAAAAT
Found at i:34042183 original size:150 final size:152
Alignment explanation
Indices: 34041966--34042246 Score: 478
Period size: 150 Copynumber: 1.8 Consensus size: 152
34041956 AGTAAAAGTT
*
34041966 TTAATCTTTAAGAAAAATAGTATTTTTTTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATA
1 TTAATCTTTAAGAAAAATAGTA--TTTCTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATA
* *
34042031 AAAATCTATTGTTTTT-AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAATGTTTTGATTTT
64 AAAATCTATT-TTTTTAAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTT
34042095 TTTTAAACTACTTCAAAATAAAAAC
128 TTTTAAACTACTTCAAAATAAAAAC
34042120 TTAATCTTTAAGAAAAATAGTA-TTCTTTT-AAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAA
1 TTAATCTTTAAGAAAAATAGTATTTCTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAA
*
34042183 AATCTATTTTTTTAAGTCATTTTAAAAGAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTT
66 AATCTATTTTTTTAAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTT
34042247 ATAACTATTT
Statistics
Matches: 122, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
149 5 0.04
150 89 0.73
151 6 0.05
154 22 0.18
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (152 bp):
TTAATCTTTAAGAAAAATAGTATTTCTTTTAAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAA
AATCTATTTTTTTAAGTCATTTTAAAAGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTT
TAAACTACTTCAAAATAAAAAC
Found at i:34042907 original size:20 final size:20
Alignment explanation
Indices: 34042864--34042908 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
34042854 TTGTATAATT
* *
34042864 TTTATTTATTTTATTTCGTT
1 TTTATTTATTTTATGTCGTA
34042884 TTTATTTATTTTCATGTC-TA
1 TTTATTTATTTT-ATGTCGTA
34042904 TTTAT
1 TTTAT
34042909 ATTTTTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTTATGTCGTA
Found at i:34049409 original size:19 final size:21
Alignment explanation
Indices: 34049385--34049425 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34049375 TGAATTTAGT
34049385 AAAATAAA-AAT-AGTAAGTG
1 AAAATAAAGAATGAGTAAGTG
*
34049404 AAAATAAAGTATGAGTAAGTG
1 AAAATAAAGAATGAGTAAGTG
34049425 A
1 A
34049426 TGATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (21 bp):
AAAATAAAGAATGAGTAAGTG
Found at i:34049761 original size:23 final size:23
Alignment explanation
Indices: 34049735--34049785 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
34049725 TGCTTAGTGA
34049735 TATTTTCACTTTC-GTGCCCATGT
1 TATTTTCAC-TTCAGTGCCCATGT
* * *
34049758 TATTTTGACTTCATTGCTCATGT
1 TATTTTCACTTCAGTGCCCATGT
34049781 TATTT
1 TATTT
34049786 CGTGTATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.53
Consensus pattern (23 bp):
TATTTTCACTTCAGTGCCCATGT
Found at i:34049861 original size:17 final size:18
Alignment explanation
Indices: 34049828--34049866 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
34049818 AAGGGCTTTG
34049828 TGAAATAAAAATTTTACA
1 TGAAATAAAAATTTTACA
*
34049846 TGAAAT-AAAGTTTTACA
1 TGAAATAAAAATTTTACA
34049863 TGAA
1 TGAA
34049867 GTGTATGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (18 bp):
TGAAATAAAAATTTTACA
Found at i:34058167 original size:21 final size:20
Alignment explanation
Indices: 34058121--34058167 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
34058111 GAAACAACTG
34058121 AAAAAAAGACAAAAATAAAA
1 AAAAAAAGACAAAAATAAAA
*
34058141 ATAAAAAAGAGAAGCAAATAAAA
1 A-AAAAAAGACAA--AAATAAAA
34058164 AAAA
1 AAAA
34058168 CGATGCCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 3 0.13
23 9 0.39
ACGTcount: A:0.81, C:0.04, G:0.09, T:0.06
Consensus pattern (20 bp):
AAAAAAAGACAAAAATAAAA
Found at i:34061259 original size:32 final size:32
Alignment explanation
Indices: 34061218--34061281 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
34061208 GCCATCTATT
*
34061218 TTCATTGTTCAACTCTTTGACAACACGAAAAA
1 TTCATTGTTCAACTCTTTGAAAACACGAAAAA
* *
34061250 TTCATTGTTCTACTCTTTGAAAACATGAAAAA
1 TTCATTGTTCAACTCTTTGAAAACACGAAAAA
34061282 ACTAAGAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (32 bp):
TTCATTGTTCAACTCTTTGAAAACACGAAAAA
Found at i:34065899 original size:277 final size:277
Alignment explanation
Indices: 34065405--34066236 Score: 1353
Period size: 277 Copynumber: 3.0 Consensus size: 277
34065395 CTCATTTAGT
* * * * *
34065405 CACAAATTCATTCTACTATAATATTGTCATACTCTCTTTTTGCGAGCTGGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
* * * *
34065470 TGCACTGGCGAAGATCGCCTAAGTCATGAGACTTAGACGGGATAAGGTAGGTAACTTTGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
* * * * *
34065535 AGTACTTCATTGAAATTCGTCTATACTACGAAGTTCCACTTCGCGAGGTGACTATTTGC-TTGTT
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCACGGGGTGACGATTT-CTTTGTT
* * *
34065599 CTGGAGAGTGACTGCCTATAAACATGCTACCGTTTATAATTAAATCTCACACTAAATATAAATTA
195 GTGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTA
*
34065664 AATTAAATCAGTGGTTTC
260 AATTAAATCAGTGGTGTC
34065682 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
* * *
34065747 TGCATTGGAGAAGATCGCCAAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTCGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
34065812 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCACGGGGTGACGATTTCTTTGTTG
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCACGGGGTGACGATTTCTTTGTTG
34065877 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
*
34065942 ATTAAATCGGTGGTGTC
261 ATTAAATCAGTGGTGTC
**
34065959 TGCAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
1 CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
* *
34066024 TGCACTGGTGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAATTTTGTGGCAA
66 TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
* * *
34066089 AGTACTTCGTTGAACTTCGTCTATAATGCGAAGTTCCACTTCACGGGGTGACGATTTCTTTATTG
131 AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCACGGGGTGACGATTTCTTTGTTG
* *
34066154 TAGAGAGTGACCGCCTATAAACATGTTATCGTTTATAATTAAATCTCACACTAAATATAAATTAA
196 TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
34066219 ATTAAATC-GATGGTGTC
261 ATTAAATCAG-TGGTGTC
34066236 C
1 C
34066237 GCAAGTGTAT
Statistics
Matches: 518, Mismatches: 35, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
276 2 0.00
277 516 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (277 bp):
CACAAATTCATTCCACTATAATATTGTCATACCCTCTTTTGGAGAGCTAGTACTGTTTGGGAGAC
TGCACTGGAGAAGATCGCCTAAGTCGTGAGACTTAGACGAGATAAGGTTGGTAACTTTGTGGCAA
AGTACTTCATTGAACTTCGTCTATACTGCGAAGTTCCACTTCACGGGGTGACGATTTCTTTGTTG
TGGAGAGTGACCGCCTATAAACATGTTACCGTTTATAATTAAATCTCACACTAAATATAAATTAA
ATTAAATCAGTGGTGTC
Found at i:34072607 original size:33 final size:33
Alignment explanation
Indices: 34072563--34072627 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
34072553 GAAATAGCCC
34072563 GGGCCTGAGCCCTAAT-CAGTAACAGTACAGTGT
1 GGGCCTGAGCCC-AATACAGTAACAGTACAGTGT
* *
34072596 GGGCCTTAGCCCAATACAGTATCAGTACAGTG
1 GGGCCTGAGCCCAATACAGTAACAGTACAGTG
34072628 CAATCATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (33 bp):
GGGCCTGAGCCCAATACAGTAACAGTACAGTGT
Found at i:34081281 original size:16 final size:18
Alignment explanation
Indices: 34081255--34081288 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34081245 CCAATTTTCG
34081255 TTTACTATCA-TTGCACA
1 TTTACTATCATTTGCACA
34081272 TTTA-TATCATTTGCACA
1 TTTACTATCATTTGCACA
34081289 ATATTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTACTATCATTTGCACA
Found at i:34088243 original size:39 final size:39
Alignment explanation
Indices: 34088214--34088395 Score: 190
Period size: 39 Copynumber: 4.6 Consensus size: 39
34088204 GCTACTCGTT
*
34088214 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
34088253 CAATTGCCTTCGGGACTTAACCCGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
* * *
34088292 CAAATGCCTTCGGGCTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
34088331 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
34088372 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
34088396 ACATCATTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
38 10 0.08
39 56 0.47
40 40 0.34
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:34096622 original size:13 final size:13
Alignment explanation
Indices: 34096604--34096628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34096594 TTAATTTGTA
34096604 AAATTATATTAAC
1 AAATTATATTAAC
34096617 AAATTATATTAA
1 AAATTATATTAA
34096629 TTTGTACTTA
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTATATTAAC
Found at i:34099597 original size:27 final size:27
Alignment explanation
Indices: 34099557--34099623 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
34099547 CCATTCTATG
* *
34099557 TTAACATCCTATTAGACTATCCC-GTGT
1 TTAACGTCCCATTAGACTA-CCCTGTGT
* *
34099584 TTAGCGTCCCATTAGGCTACCCTGTGT
1 TTAACGTCCCATTAGACTACCCTGTGT
34099611 TTAACGTCCCATT
1 TTAACGTCCCATT
34099624 GGGCTATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (27 bp):
TTAACGTCCCATTAGACTACCCTGTGT
Found at i:34099765 original size:45 final size:44
Alignment explanation
Indices: 34099709--34099919 Score: 190
Period size: 45 Copynumber: 4.7 Consensus size: 44
34099699 ACTATCAAAG
* * * * * *
34099709 GATGTCATAGCATCTCTCAGCTATGGTCTTAGTCTTGTTTACCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTAATCTT-TATATCAT
* * *
34099754 GATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTCTGTCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTAATC-TTTATATCAT
* * ***
34099799 AATGCCATAGGCATCTTTCAGCTATGGTCTTAAAAATTATATCAT
1 GATGCCATA-GCATCTTTCAACTATGGTCTTAATCTTTATATCAT
* * ** *
34099844 GATGCCATAACATCTTTCAACTATGGTCTTACAAACCAT-TGTCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTT--AATCTTTATATCAT
*
34099889 GATGCCATAACATCTTTCAACTATGGTCTTA
1 GATGCCATAGCATCTTTCAACTATGGTCTTA
34099920 CTCATTTTAG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 19 0.14
45 93 0.66
46 27 0.19
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (44 bp):
GATGCCATAGCATCTTTCAACTATGGTCTTAATCTTTATATCAT
Found at i:34099867 original size:90 final size:89
Alignment explanation
Indices: 34099751--34099919 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
34099741 TCTTGTTTAC
* ** ** *
34099751 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCA-TTTCTGTCATAATGCCATAGGCATCT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCAT-TGTCATAATGCCATA-ACATCT
*
34099815 TTCAGCTATGGTCTTAAAAATTATAT
64 TTCAACTATGGTCTTAAAAATTATAT
*
34099841 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATGATGCCATAACATCTTT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATAATGCCATAACATCTTT
34099906 CAACTATGGTCTTA
66 CAACTATGGTCTTA
34099920 CTCATTTTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 20 0.29
90 49 0.70
91 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (89 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGTCATAATGCCATAACATCTTT
CAACTATGGTCTTAAAAATTATAT
Found at i:34099920 original size:45 final size:44
Alignment explanation
Indices: 34099751--34099920 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 44
34099741 TCTTGTTTAC
* ** *
34099751 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTCTGT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAATAT-TGT
* * * * *
34099796 CATAATGCCATAGGCATCTTTCAGCTATGGTCTTAAAAAT-TATAT
1 CATGATGCCATA-ACATCTTTCAACTATGGTCTTACAAATAT-TGT
*
34099841 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAACCATTGT
1 CATGATGCCATAACATCTTTCAACTATGGTCTTACAAA-TATTGT
34099886 CATGATGCCATAACATCTTTCAACTATGGTCTTAC
1 CATGATGCCATAACATCTTTCAACTATGGTCTTAC
34099921 TCATTTTAGG
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
44 23 0.21
45 62 0.57
46 24 0.22
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (44 bp):
CATGATGCCATAACATCTTTCAACTATGGTCTTACAAATATTGT
Found at i:34108042 original size:10 final size:9
Alignment explanation
Indices: 34107991--34108050 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
34107981 GATTTGTATT
34107991 AATTACTTTAA
1 AATTA-TTT-A
34108002 AATTATTTA
1 AATTATTTA
34108011 AA--ATTTA
1 AATTATTTA
*
34108018 TATTCATTTA
1 AATT-ATTTA
34108028 TAATTATATTA
1 -AATTAT-TTA
34108039 AATTATTTA
1 AATTATTTA
34108048 AAT
1 AAT
34108051 ATCATATAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 6 0.14
9 9 0.21
10 16 0.38
11 11 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (9 bp):
AATTATTTA
Found at i:34109037 original size:26 final size:25
Alignment explanation
Indices: 34108987--34109037 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
34108977 AAATTGCCAG
**
34108987 CAACATTAATTTTTAAAAACCTAAT
1 CAACATTAATTTTTAAAAAAATAAT
*
34109012 CAACATTTATTTCTTAAAAAAATAAT
1 CAACATTAATTT-TTAAAAAAATAAT
34109038 TGGGCTCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (25 bp):
CAACATTAATTTTTAAAAAAATAAT
Found at i:34109328 original size:29 final size:30
Alignment explanation
Indices: 34109278--34109338 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
34109268 AAGTGCATTG
*
34109278 TTATACATAAATTTTGATTTTG-TGTAATT
1 TTATACATAAATTTTGAATTTGATGTAATT
*
34109307 TTATACATGAAATTTT-AATTTGATTTAATT
1 TTATACAT-AAATTTTGAATTTGATGTAATT
34109337 TT
1 TT
34109339 CACAAAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (30 bp):
TTATACATAAATTTTGAATTTGATGTAATT
Found at i:34110561 original size:43 final size:43
Alignment explanation
Indices: 34110511--34110743 Score: 272
Period size: 43 Copynumber: 5.4 Consensus size: 43
34110501 TGTGAAAAAG
*
34110511 CGCCGCTATAGAACATGATCTTTAGCGGCGCTTTTATCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAA
* * *
34110554 CGCCGCTAAAGAACATTACCTTTAGCAGCGCTTTTATCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAA
* *
34110597 CACCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTA-TCACAAA
* * * *
34110640 CGCCGCTAAAATAACATGATCTTTGGCGGCAC-TTTACCCACAAA
1 CGCCGCT-AAAGAACATGATCTTTAGCGGCGCTTTTA-TCACAAA
* * * * *
34110684 CGCCGCTAAAGATCATTACCTTTAGCAGCACTTTTATCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAA
* *
34110727 CGCTGCTAAAGATCATG
1 CGCCGCTAAAGAACATG
34110744 TCCTTTAACG
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
42 4 0.02
43 117 0.71
44 44 0.27
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAA
Found at i:34110725 original size:87 final size:87
Alignment explanation
Indices: 34110511--34110750 Score: 272
Period size: 87 Copynumber: 2.8 Consensus size: 87
34110501 TGTGAAAAAG
* *
34110511 CGCCGCTATAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCT-AAAGAACATTACCT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCT
* *
34110575 TTAGCAGCGCTTTTATCACAAA
66 TTAGCAGCACTTTTACCACAAA
* * * *
34110597 CACCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAAATAACATGATC
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTA-TCACAAACGCCGCTAAAAGAACATGACC
* *
34110661 TTTGGCGGCAC-TTTACCCACAAA
65 TTTAGCAGCACTTTTA-CCACAAA
* * * * * * * *
34110684 CGCCGCTAAAGATCATTACCTTTAGCAGCACTTTTATCACAAACGCTGCT-AAAGATCATGTCCT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCT
34110748 TTA
66 TTA
34110751 ACGACGTTTA
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
85 4 0.03
86 58 0.46
87 61 0.48
88 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (87 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAGAACATGACCT
TTAGCAGCACTTTTACCACAAA
Found at i:34112181 original size:193 final size:192
Alignment explanation
Indices: 34111785--34112196 Score: 469
Period size: 193 Copynumber: 2.1 Consensus size: 192
34111775 GGTCTATTAT
* * *
34111785 TATGTTCATTAACATCATA-A-AAAATCATCAATTACATCCTAATAACAATTTCAACTCCAAAGT
1 TATGTTCATTAACATCA-ACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAGT
* * * * * ** *
34111848 TGACTAAAGAAGCTTTGTAGGATATGAAAACACAAGTGCATTTCCATTCAAGTAAATTGTTGTGT
65 TAACTAAAGAAGCATTGCAGGATATCAAAACACAAATGCATTTCCATTCAAGTAAATAATAGTGT
* * *
34111913 TGTAATCACAAAGTTCAAATGAAAACCAATGACTTGAACCCATAAAAAATTCAACTTAGTCTA
130 TGTAATCACAAAGTCCAAATGAAAACCAATGACTTAAACCCATAAAAAATTCAACTTAGTCCA
*
34111976 T-TGTATTCATTAACATCAACATAAAAACATCAATTACTTCCTAATAACAATTCCAACCCCAAAG
1 TATG--TTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAG
* **
34112040 TTCAATTAAA-AAGCATTGCAGGATA-CATAAATGCAAATGCATTTCCATTCAAGT-AATAATAG
64 TT-AACTAAAGAAGCATTGCAGGATATCA-AAACACAAATGCATTTCCATTCAAGTAAATAATAG
* * * * *
34112102 TGTTTTAATCACAAAGCTCCAAATGTAAACC-ATGACTTAAACCCATTATAGATTACAAACTTAG
127 TGTTGTAATCACAAAG-TCCAAATGAAAACCAATGACTTAAACCCATAAAAAATT-C-AACTTAG
34112166 TCCA
189 TCCA
* *
34112170 TATGCTCATTAACATGAACATTAAAAA
1 TATGTTCATTAACATCAACA-TAAAAA
34112197 AACAATTCTA
Statistics
Matches: 185, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
190 2 0.01
191 2 0.01
192 54 0.29
193 103 0.56
194 22 0.12
195 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (192 bp):
TATGTTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCCAACCCCAAAGTT
AACTAAAGAAGCATTGCAGGATATCAAAACACAAATGCATTTCCATTCAAGTAAATAATAGTGTT
GTAATCACAAAGTCCAAATGAAAACCAATGACTTAAACCCATAAAAAATTCAACTTAGTCCA
Found at i:34114317 original size:8 final size:7
Alignment explanation
Indices: 34114299--34114399 Score: 55
Period size: 7 Copynumber: 14.1 Consensus size: 7
34114289 ACTAATTAAT
34114299 CTAAACC
1 CTAAACC
34114306 CTAAACCC
1 CTAAA-CC
*
34114314 CTAATCC
1 CTAAACC
34114321 CT-AACC
1 CTAAACC
*
34114327 CTTAAATC
1 C-TAAACC
*
34114335 TTAAA-C
1 CTAAACC
34114341 C-ACAACC
1 CTA-AACC
34114348 CTTAAACC
1 C-TAAACC
* *
34114356 GTAAACT
1 CTAAACC
*
34114363 ATAAACC
1 CTAAACC
*
34114370 ATAAACC
1 CTAAACC
34114377 CTAAACC
1 CTAAACC
*
34114384 CATAATCC
1 C-TAAACC
*
34114392 TTAAACC
1 CTAAACC
34114399 C
1 C
34114400 ATAATCTATA
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
5 1 0.01
6 7 0.10
7 45 0.62
8 18 0.25
9 1 0.01
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:34114360 original size:21 final size:21
Alignment explanation
Indices: 34114302--34114399 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
34114292 AATTAATCTA
* *
34114302 AACCC-TAAACCCCTAATCCCT
1 AACCCTTAAA-CCCTAAACCAT
* * *
34114323 AACCCTTAAATCTTAAACCAC
1 AACCCTTAAACCCTAAACCAT
* *
34114344 AACCCTTAAACCGTAAACTAT
1 AACCCTTAAACCCTAAACCAT
* *
34114365 AAACCATAAACCCTAAACCCAT
1 AACCCTTAAACCCTAAA-CCAT
*
34114387 AATCCTTAAACCC
1 AACCCTTAAACCC
34114400 ATAATCTATA
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
21 42 0.70
22 18 0.30
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (21 bp):
AACCCTTAAACCCTAAACCAT
Found at i:34114413 original size:15 final size:15
Alignment explanation
Indices: 34114364--34114405 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
34114354 CCGTAAACTA
* *
34114364 TAAA-CCATAAACCC
1 TAAACCCATAATCCT
34114378 TAAACCCATAATCCT
1 TAAACCCATAATCCT
34114393 TAAACCCATAATC
1 TAAACCCATAATC
34114406 TATAAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCATAATCCT
Found at i:34114449 original size:14 final size:14
Alignment explanation
Indices: 34114430--34114468 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34114420 TAGCATCTTT
*
34114430 TAAACCATAAACGC
1 TAAACCATAAACCC
*
34114444 TAAACCATATACCC
1 TAAACCATAAACCC
*
34114458 CAAACCATAAA
1 TAAACCATAAA
34114469 TCTTAAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.31, G:0.03, T:0.15
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:34114630 original size:14 final size:14
Alignment explanation
Indices: 34114611--34114643 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34114601 AACACTAAAT
34114611 CCCTAAC-TCTTAAC
1 CCCTAACGTC-TAAC
34114625 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
34114639 CCCTA
1 CCCTA
34114644 GCCCATAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.27, C:0.45, G:0.03, T:0.24
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:34114674 original size:22 final size:22
Alignment explanation
Indices: 34114634--34114701 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
34114624 CCCCTAACGT
** *
34114634 CTAACCCCTAGCCCATAAA-CC
1 CTAACCCCTAAACCTTAAATCC
34114655 CATAACCCCTAAACCTTAAATCC
1 C-TAACCCCTAAACCTTAAATCC
*
34114678 C-AGCCCCTAAACCTT-AATCC
1 CTAACCCCTAAACCTTAAATCC
34114698 CTAA
1 CTAA
34114702 TCCATACTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 6 0.15
21 15 0.38
22 15 0.38
23 3 0.08
ACGTcount: A:0.35, C:0.43, G:0.03, T:0.19
Consensus pattern (22 bp):
CTAACCCCTAAACCTTAAATCC
Found at i:34114698 original size:20 final size:21
Alignment explanation
Indices: 34114660--34114698 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34114650 AAACCCATAA
34114660 CCCCTAAACCTTAAATCCCAG
1 CCCCTAAACCTTAAATCCCAG
34114681 CCCCTAAACCTT-AATCCC
1 CCCCTAAACCTTAAATCCC
34114699 TAATCCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.31, C:0.46, G:0.03, T:0.21
Consensus pattern (21 bp):
CCCCTAAACCTTAAATCCCAG
Found at i:34115117 original size:41 final size:41
Alignment explanation
Indices: 34115058--34115250 Score: 264
Period size: 41 Copynumber: 4.7 Consensus size: 41
34115048 TAAAATGTTT
* * *
34115058 TTAGCGGCGCCTTT-TCAAAAACGCCACTAAAGCCCCCAGCA
1 TTAGCGGCG-CTTTCTCAAAAATGCCGCTAAAGCCACCAGCA
*
34115099 TTAGCGGCGCTTTCTCAAAAATGCCACTAAAGCCACCAGCA
1 TTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCACCAGCA
* *
34115140 TTAGCGGCGCTTTCTCAAAAAAGCCGCTAAAGCCACGAGCA
1 TTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCACCAGCA
* * *
34115181 TTAGCGGCGCTTTCTCAAAAATGCCGTTAAAGCTACCAGGA
1 TTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCACCAGCA
* *
34115222 TTAGCAGCGCTTTTTCAAAAA-GCCGCTAA
1 TTAGCGGCGCTTTCTCAAAAATGCCGCTAA
34115251 TGCTTGGTTC
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 11 0.08
41 127 0.92
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCACCAGCA
Found at i:34115293 original size:81 final size:82
Alignment explanation
Indices: 34115058--34115293 Score: 269
Period size: 82 Copynumber: 2.9 Consensus size: 82
34115048 TAAAATGTTT
* * * * *
34115058 TTAGCGGCGCCTTT-TCAAAAACGCCACTAAAGCCCCCAGCATTAGCGGCGCTTTCTCAAAAATG
1 TTAGCAGCG-CTTTCTCAAAAAAGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAATG
*
34115122 CCACTAAAGCCACCAGCA
65 CCGCTAAAGCCACCAGCA
*
34115140 TTAGCGGCGCTTTCTCAAAAAAGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAATGC
1 TTAGCAGCGCTTTCTCAAAAAAGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAATGC
* * *
34115205 CGTTAAAGCTACCAGGA
66 CGCTAAAGCCACCAGCA
* * *** ** * * *
34115222 TTAGCAGCGCTTTTTC-AAAAAGCCGCTAATGCTTGGTTCTTTAGCGGCGCTTTTTCAAAAACGC
1 TTAGCAGCGCTTTCTCAAAAAAGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAATGC
34115286 CGCTAAAG
66 CGCTAAAG
34115294 ACCCGAAAGG
Statistics
Matches: 133, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 50 0.38
82 83 0.62
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (82 bp):
TTAGCAGCGCTTTCTCAAAAAAGCCGCTAAAGCCACGAGCATTAGCGGCGCTTTCTCAAAAATGC
CGCTAAAGCCACCAGCA
Found at i:34121389 original size:104 final size:105
Alignment explanation
Indices: 34121209--34121476 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
34121199 TAACCGTTAT
* **
34121209 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
34121274 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
34121313 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
34121378 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
34121418 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
34121477 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:34121837 original size:29 final size:29
Alignment explanation
Indices: 34121804--34121867 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
34121794 TAATCCACCA
34121804 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
34121833 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
34121863 CCCAA
1 CCCAA
34121868 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:34121841 original size:30 final size:30
Alignment explanation
Indices: 34121811--34121867 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34121801 CCACCCAACT
34121811 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
34121840 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
34121868 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:34124232 original size:40 final size:40
Alignment explanation
Indices: 34124175--34124671 Score: 469
Period size: 40 Copynumber: 12.4 Consensus size: 40
34124165 AATTATTGTA
* * * *
34124175 TGAATGCACATATGTGCCCCTGTTTGGATTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
34124215 TGAATGCACATACGTGCCCCTATTGGTACTTTGGTACTCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
34124255 TAAATTCACATATGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
34124295 TGAATGCA-AAACATGCCCCTGTTTATACTTCGGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * * ** * *
34124334 TGCATGCACATATGTACCCTTATTTGTATTTTAGTACTCA
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
34124374 TGAATTCACATACATGCCCCT-TCTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGT-TTGTACTTCGGTACCCC
* * * * *
34124414 T-AGATGCACATGCATACCCCTGTTTGTATTTCAGTACCCC
1 TGA-ATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
34124454 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACTCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
34124494 TAAATGGACATACGTGCCCCTATTTATACTTCGGTACTCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
34124534 TGAATGCACATATGTGCCGCTGCTTGTACTTCAGTACCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
34124574 TGAGTGCACATATGTGCCCCTGTTTGTGCTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
34124614 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCAC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
34124654 TGAATGCACATGCGTGCC
1 TGAATGCACATACGTGCC
34124672 ATTTTTTATT
Statistics
Matches: 361, Mismatches: 91, Indels: 10
0.78 0.20 0.02
Matches are distributed among these distances:
39 33 0.09
40 326 0.90
41 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:34124671 original size:120 final size:120
Alignment explanation
Indices: 34124175--34124664 Score: 545
Period size: 120 Copynumber: 4.1 Consensus size: 120
34124165 AATTATTGTA
** * * ** * *
34124175 TGAATGCACATATGTGCCCCTGTTTGGATTTTGGTACCCCTGAATGCACATACGTGCCCCTATTG
1 TGAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTT
* ** *
34124240 GTACTTTGGTACTCCTAAATTCACATATGTGCCCCTATTTGTACTTCGATACCCC
66 GTACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
* * * * * * *
34124295 TGAATGCA-AAACATGCCCCTGTTTATACTTCGGTGCCCCTGCATGCACATATGTACCCTTATTT
1 TGAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTT
* * * * *
34124359 GTATTTTAGTACTCATGAATTCACATACATGCCCCT-TCTTGTACTTCGGTACCCC
66 GTACTTTGGTACTCCTAAATGCACATACATGCCCCTAT-TTGTACTTCGGTACCCC
* * * *
34124414 T-AGATGCACATGCATACCCCTGTTTGTATTTCAGTACCCCTGAATGCACATATGTGCCCCTGTT
1 TGA-ATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATT
* * * *
34124478 TGTACTTTGGTACTCCTAAATGGACATACGTGCCCCTATTTATACTTCGGTACTCC
65 TGTACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
** * * * * *
34124534 TGAATGCACATATGTGCCGCTGCTTGTACTTCAGTACCCTTGAGTGCACATATGTGCCCCTGTTT
1 TGAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTT
* * * * *
34124599 GTGCTTTGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCAC
66 GTACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
34124654 TGAATGCACAT
1 TGAATGCACAT
34124665 GCGTGCCATT
Statistics
Matches: 307, Mismatches: 58, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
118 2 0.01
119 95 0.31
120 208 0.68
121 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (120 bp):
TGAATGCACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATTT
GTACTTTGGTACTCCTAAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
Found at i:34134998 original size:21 final size:22
Alignment explanation
Indices: 34134932--34135000 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 22
34134922 ATGATCTGGC
* *
34134932 CACACGATCGTGTA-ACCTCGT
1 CACACGGTCGTGTATCCCTCGT
* *
34134953 CACACGGGC-T-TATCCCTCAGC
1 CACACGGTCGTGTATCCCTC-GT
34134974 CACACGGTCGTGTATCCCT-GT
1 CACACGGTCGTGTATCCCTCGT
34134995 CACACG
1 CACACG
34135001 ATCTAGACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 23 0.61
22 1 0.03
23 7 0.18
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.22
Consensus pattern (22 bp):
CACACGGTCGTGTATCCCTCGT
Found at i:34137247 original size:21 final size:21
Alignment explanation
Indices: 34137223--34137266 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
34137213 TCAGATAGGC
34137223 CACATGGTTGTGT-GAGTGGGT
1 CACATGGTTGTGTGGA-TGGGT
34137244 CACATGGTTGTGTGGATGGGT
1 CACATGGTTGTGTGGATGGGT
34137265 CA
1 CA
34137267 AACGATCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.16, C:0.11, G:0.41, T:0.32
Consensus pattern (21 bp):
CACATGGTTGTGTGGATGGGT
Found at i:34139837 original size:16 final size:17
Alignment explanation
Indices: 34139813--34139847 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
34139803 GGGAGGACAC
34139813 TTAAAAAAAATTCTGCT
1 TTAAAAAAAATTCTGCT
34139830 TTAAAAAAAATTCTGCT
1 TTAAAAAAAATTCTGCT
34139847 T
1 T
34139848 GTTTTTCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (17 bp):
TTAAAAAAAATTCTGCT
Found at i:34143551 original size:17 final size:18
Alignment explanation
Indices: 34143518--34143552 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34143508 CTTGTTGACA
34143518 TAAAACTACTAAATAATT
1 TAAAACTACTAAATAATT
*
34143536 TAAAAC-ACTTAATAATT
1 TAAAACTACTAAATAATT
34143553 ATCACAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAACTACTAAATAATT
Found at i:34150626 original size:21 final size:22
Alignment explanation
Indices: 34150602--34150646 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
34150592 AGAAAAAGAG
34150602 AAATACAAAAAAG-AATA-AATC
1 AAAT-CAAAAAAGAAATAGAATC
*
34150623 AAATTAAAAAAGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
34150645 AA
1 AA
34150647 CAATTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.16
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:34153758 original size:41 final size:41
Alignment explanation
Indices: 34153659--34153761 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
34153649 GGCAATTAGC
* * * *
34153659 CTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCAAGC
1 CTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGA
*
34153700 CTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCAAGA
1 CTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGA
34153741 CTGCTAGACGTAAAGTCTGAA
1 CTGCTAGACGTAAAGTCTGAA
34153762 TTATCTCATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (41 bp):
CTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCAAGA
Found at i:34155514 original size:18 final size:17
Alignment explanation
Indices: 34155481--34155519 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
34155471 TTGTATAAAT
34155481 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
34155499 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
34155516 TGTG
1 TGTG
34155520 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:34155772 original size:23 final size:23
Alignment explanation
Indices: 34155745--34155842 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
34155735 AGTGTTATTG
34155745 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
34155768 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
34155791 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
34155813 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
34155836 ATCAGTG
1 ATCAGTG
34155843 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:34155811 original size:45 final size:45
Alignment explanation
Indices: 34155747--34155835 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
34155737 TGTTATTGAT
* *
34155747 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
34155792 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
34155836 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:34159148 original size:34 final size:34
Alignment explanation
Indices: 34159105--34159281 Score: 176
Period size: 34 Copynumber: 5.1 Consensus size: 34
34159095 AAATAATACC
* * *
34159105 AGAAATGATGTATGAACAGGAGAGATTCCCTACA
1 AGAAATGATGTGTGAACAGGAAAGATTCCCTGCA
*
34159139 AGAAATGATGTGTGAACAGGAAAGATTTCCTGCA
1 AGAAATGATGTGTGAACAGGAAAGATTCCCTGCA
* * * * * *
34159173 ACAAAATAATGCGTGAACAAGAAAGATTCGCTCCA
1 A-GAAATGATGTGTGAACAGGAAAGATTCCCTGCA
* * *
34159208 AGAAATGATGTGTGAACATGAGAGATTCTCTGCA
1 AGAAATGATGTGTGAACAGGAAAGATTCCCTGCA
* * *
34159242 ACAAAATAATGTGTGAACAGGAAATATTCCCT-CTA
1 A-GAAATGATGTGTGAACAGGAAAGATTCCCTGC-A
34159277 AGAAA
1 AGAAA
34159282 AGACAAGTGA
Statistics
Matches: 115, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
34 62 0.54
35 53 0.46
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (34 bp):
AGAAATGATGTGTGAACAGGAAAGATTCCCTGCA
Found at i:34159234 original size:69 final size:69
Alignment explanation
Indices: 34159117--34159281 Score: 233
Period size: 69 Copynumber: 2.4 Consensus size: 69
34159107 AAATGATGTA
* *
34159117 TGAACAGGAGAGATTCCCTACAAGAAATGATGTGTGAACAGGAAAGATT-TCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTCCAAGAAATGATGTGTGAACAGGAAAGATTCT-CTGCAACAAAATA
34159181 ATGCG
65 ATGCG
* * * *
34159186 TGAACAAGAAAGATTCGCTCCAAGAAATGATGTGTGAACATGAGAGATTCTCTGCAACAAAATAA
1 TGAACAGGAAAGATTCCCTCCAAGAAATGATGTGTGAACAGGAAAGATTCTCTGCAACAAAATAA
*
34159251 TGTG
66 TGCG
* *
34159255 TGAACAGGAAATATTCCCTCTAAGAAA
1 TGAACAGGAAAGATTCCCTCCAAGAAA
34159282 AGACAAGTGA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
69 83 0.99
70 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (69 bp):
TGAACAGGAAAGATTCCCTCCAAGAAATGATGTGTGAACAGGAAAGATTCTCTGCAACAAAATAA
TGCG
Found at i:34163539 original size:37 final size:37
Alignment explanation
Indices: 34163498--34163571 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
34163488 CTCACAACAA
34163498 TCCTTTTAGTAGATGGATCAAAGACCCTATACCCTTT
1 TCCTTTTAGTAGATGGATCAAAGACCCTATACCCTTT
*
34163535 TCCTTTTAGTAGATGGATCAAAGACCCTATACTCTTT
1 TCCTTTTAGTAGATGGATCAAAGACCCTATACCCTTT
34163572 CTTCACACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (37 bp):
TCCTTTTAGTAGATGGATCAAAGACCCTATACCCTTT
Found at i:34167512 original size:24 final size:25
Alignment explanation
Indices: 34167485--34167536 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
34167475 TAGGTTTAGG
34167485 TTTTCTTTTT-TTTT-TCTTTTCATT
1 TTTTCTTTTTGTTTTCTCTTTTC-TT
*
34167509 TTTTGTTTTTGTTTTCTCTTTTCTT
1 TTTTCTTTTTGTTTTCTCTTTTCTT
34167534 TTT
1 TTT
34167537 AGAGTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 9 0.36
26 7 0.28
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.83
Consensus pattern (25 bp):
TTTTCTTTTTGTTTTCTCTTTTCTT
Found at i:34167530 original size:19 final size:19
Alignment explanation
Indices: 34167488--34167536 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
34167478 GTTTAGGTTT
34167488 TCTTTTTTTTTTCTTTTCA
1 TCTTTTTTTTTTCTTTTCA
*
34167507 T-TTTTTGTTTTTGTTTTC-
1 TCTTTTT-TTTTTCTTTTCA
34167525 TCTTTTCTTTTT
1 TCTTTT-TTTTT
34167537 AGAGTAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.23
19 19 0.73
20 1 0.04
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (19 bp):
TCTTTTTTTTTTCTTTTCA
Found at i:34175866 original size:20 final size:19
Alignment explanation
Indices: 34175843--34175885 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34175833 GGATTGAGAA
*
34175843 AATTATTTAATTAAAAAATT
1 AATTAATTAA-TAAAAAATT
*
34175863 AATTAATTAATCAAAAATT
1 AATTAATTAATAAAAAATT
34175882 AATT
1 AATT
34175886 TAATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTAATTAATAAAAAATT
Found at i:34175888 original size:20 final size:17
Alignment explanation
Indices: 34175841--34175889 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
34175831 TTGGATTGAG
34175841 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
34175857 AAAATTAA-TTAATTAATCA
1 AAAATTAATTTAATT-A--A
34175876 AAAATTAATTTAAT
1 AAAATTAATTTAAT
34175890 ATATAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.43
17 2 0.07
19 9 0.32
20 5 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:34178516 original size:7 final size:7
Alignment explanation
Indices: 34178500--34178557 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
34178490 ACTTTTTCAA
*
34178500 TCATCAC
1 TCATCCC
34178507 TCATCCC
1 TCATCCC
34178514 TCATCCC
1 TCATCCC
*
34178521 CCATCCC
1 TCATCCC
*
34178528 CCATCCC
1 TCATCCC
* *
34178535 CCAACCC
1 TCATCCC
*
34178542 CCATCCC
1 TCATCCC
34178549 TCATCCC
1 TCATCCC
34178556 TC
1 TC
34178558 TCATCTCTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.17, C:0.62, G:0.00, T:0.21
Consensus pattern (7 bp):
TCATCCC
Done.