Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 169 of 255
Found at i:55420846 original size:18 final size:18
Alignment explanation
Indices: 55420823--55420859 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
55420813 GGAAAAGGAA
*
55420823 ACATATAAGAGTTATGAT
1 ACATATAAGAGCTATGAT
*
55420841 ACATATAAGGGCTATGAT
1 ACATATAAGAGCTATGAT
55420859 A
1 A
55420860 TGCACCTGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (18 bp):
ACATATAAGAGCTATGAT
Found at i:55424765 original size:7 final size:7
Alignment explanation
Indices: 55424755--55424779 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55424745 TTATATACAT
55424755 AATACTA
1 AATACTA
55424762 AATACTA
1 AATACTA
55424769 AATACTA
1 AATACTA
55424776 AATA
1 AATA
55424780 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:55425754 original size:25 final size:24
Alignment explanation
Indices: 55425705--55425756 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
55425695 ACTATTATAA
*
55425705 AAAATTACAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
55425729 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
55425754 AAA
1 AAA
55425757 TAATATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:55425961 original size:30 final size:30
Alignment explanation
Indices: 55425926--55425994 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
55425916 ATTAATTAAA
55425926 GAGAGCTTTGAGAAATTTAAAGAGAAATAT
1 GAGAGCTTTGAGAAATTTAAAGAGAAATAT
* ** *
55425956 GAGAGCTTTGATAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAAGAGAAATAT
55425986 GAGAGCTTT
1 GAGAGCTTT
55425995 TTTGCCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.30
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAAGAGAAATAT
Found at i:55430860 original size:75 final size:75
Alignment explanation
Indices: 55430732--55430938 Score: 292
Period size: 75 Copynumber: 2.8 Consensus size: 75
55430722 ATGTCCACAG
* * *
55430732 TTGCCCTCACATGATGAGCAATTAAGAGATGCTCTATGTAAACCCAACTTCATGAAACATGTCCA
1 TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAACATCATGAAACATGTCCA
55430797 CAATTTAGAC
66 CAATTTAGAC
* *
55430807 TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAGCATCATGAAACATGTCTA
1 TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAACATCATGAAACATGTCCA
*
55430872 CACTTTAGAC
66 CAATTTAGAC
* * * *
55430882 TTGCCCTACCATGATGAGCAATTAAGATG-TGCTC-ATCTGAAATCCAACTTCATGAAA
1 TTGCCCTAACATGATGAGCAATTAAGA-GATGCTCTATGT-AAAACCAACATCATGAAA
55430939 ATAGATATTA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 3 0.03
75 115 0.97
76 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (75 bp):
TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAACATCATGAAACATGTCCA
CAATTTAGAC
Found at i:55442065 original size:7 final size:7
Alignment explanation
Indices: 55442050--55442160 Score: 199
Period size: 7 Copynumber: 16.1 Consensus size: 7
55442040 AGCTTTCTCC
55442050 AAAAT-A
1 AAAATGA
*
55442056 AAAAAGA
1 AAAATGA
55442063 AAAATGA
1 AAAATGA
55442070 AAAATGA
1 AAAATGA
55442077 AAAATGA
1 AAAATGA
55442084 AAAATGA
1 AAAATGA
55442091 AAAATGA
1 AAAATGA
55442098 AAAATGA
1 AAAATGA
55442105 AAAATGA
1 AAAATGA
55442112 AAAATGA
1 AAAATGA
55442119 AAAATGA
1 AAAATGA
55442126 AAAATGA
1 AAAATGA
55442133 AAAATGA
1 AAAATGA
55442140 AAAATGA
1 AAAATGA
55442147 AAAATG-
1 AAAATGA
55442153 AAAATGA
1 AAAATGA
55442160 A
1 A
55442161 TTTATGTTTT
Statistics
Matches: 101, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
6 10 0.10
7 91 0.90
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAATGA
Found at i:55444544 original size:22 final size:22
Alignment explanation
Indices: 55444519--55444563 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
55444509 ATGTCAATCA
55444519 TGGTTTATCCATCAAATTCCCT
1 TGGTTTATCCATCAAATTCCCT
*
55444541 TGGTTTATCCATCGAATTCCCT
1 TGGTTTATCCATCAAATTCCCT
55444563 T
1 T
55444564 TTAACCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (22 bp):
TGGTTTATCCATCAAATTCCCT
Found at i:55459851 original size:75 final size:75
Alignment explanation
Indices: 55459757--55459931 Score: 192
Period size: 75 Copynumber: 2.3 Consensus size: 75
55459747 ACAGTAGTCG
** * * * * * *
55459757 GTTTATCCGACTAGTGCTGGGCACGAATATCGTTGGTTTATCCAAGTAGAGCTGGGCTTACTATT
1 GTTTATCCGACTAACGCTGGGCACAAATAACGTTGGTTTATCCAACTAGAGCTAGGCTCACTAAT
55459822 TATTTCCTCT
66 TATTTCCTCT
* **
55459832 GTTTATCTGACTAACGCTGGGTGCAAATAACGTTGGTTTATCCAACTAGAGCTAGGCTCACTAAT
1 GTTTATCCGACTAACGCTGGGCACAAATAACGTTGGTTTATCCAACTAGAGCTAGGCTCACTAAT
*
55459897 TA-TTCGT-T
66 TATTTCCTCT
* * *
55459905 AGTTTATTCGACTAGCGCTTGGCACAA
1 -GTTTATCCGACTAACGCTGGGCACAA
55459932 CTTTCATCAG
Statistics
Matches: 81, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
73 1 0.01
74 24 0.30
75 56 0.69
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (75 bp):
GTTTATCCGACTAACGCTGGGCACAAATAACGTTGGTTTATCCAACTAGAGCTAGGCTCACTAAT
TATTTCCTCT
Found at i:55464166 original size:46 final size:46
Alignment explanation
Indices: 55464116--55464291 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
55464106 TGATTGAGCA
55464116 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55464162 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55464207 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
55464255 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55464292 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55464272 original size:93 final size:93
Alignment explanation
Indices: 55464113--55464284 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
55464103 GGATGATTGA
*
55464113 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
55464178 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55464206 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
55464270 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
55464285 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55472084 original size:113 final size:114
Alignment explanation
Indices: 55471861--55472090 Score: 345
Period size: 113 Copynumber: 2.0 Consensus size: 114
55471851 TAAAACTTTA
*** * *
55471861 ACACATGCATATACTCATATTCTAGGGCTCATAATAATCATAAAATAAATATTTTTGATGTCAAA
1 ACACATGCATATACTCATATTCTAAACCTCATAACAATCATAAAATAAATATTTTTAATGTCAAA
**
55471926 TTTGTGGTCTTGAAACCACTATTCTGACTAGGCCCTATTTCGGGATGTT
66 TTTGTGGTCCCGAAACCACTATTCTGACTAGGCCCTATTTCGGGATGTT
* * *
55471975 ACACATGCATATATTCATATTCTAAACCTCATAACAATCATAAAATCAATA-TTTTAATGTCAGA
1 ACACATGCATATACTCATATTCTAAACCTCATAACAATCATAAAATAAATATTTTTAATGTCAAA
* *
55472039 TTTGTGGTCCCGAAACCACTATTTTGACTAGGCCCTATTTTGGGATGTT
66 TTTGTGGTCCCGAAACCACTATTCTGACTAGGCCCTATTTCGGGATGTT
55472088 ACA
1 ACA
55472091 TTTCTCCCCT
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 59 0.57
114 45 0.43
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (114 bp):
ACACATGCATATACTCATATTCTAAACCTCATAACAATCATAAAATAAATATTTTTAATGTCAAA
TTTGTGGTCCCGAAACCACTATTCTGACTAGGCCCTATTTCGGGATGTT
Found at i:55473202 original size:40 final size:40
Alignment explanation
Indices: 55473155--55473232 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
55473145 ACACACCATG
* *
55473155 TGGGGATAAAATCGACCCACCCATCCCTGCACACCATATA
1 TGGGGATAAAATCGACCCACCCATCCATACACACCATATA
* * *
55473195 TGGGGATAAAGTCGTCCCATCCATCCATACACACCATA
1 TGGGGATAAAATCGACCCACCCATCCATACACACCATA
55473233 AGGTACCACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.19
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCATCCATACACACCATATA
Found at i:55483942 original size:21 final size:21
Alignment explanation
Indices: 55483918--55483967 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
55483908 ATGGTGACTC
*
55483918 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCCGAGATGGATCAAT
55483939 CGGCTTCCGAGATGGATCAAT
1 CGGCTTCCGAGATGGATCAAT
*
55483960 CAGCTTCC
1 CGGCTTCC
55483968 CTTGAGCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (21 bp):
CGGCTTCCGAGATGGATCAAT
Found at i:55501293 original size:27 final size:27
Alignment explanation
Indices: 55501247--55501298 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
55501237 CAGTAACAGT
*
55501247 TGGGCCTAGCCCATTAATAGAATCAAG
1 TGGGCCTAGCCCAGTAATAGAATCAAG
55501274 TGGGCCTAAGCCCAGT-ATAGAATCA
1 TGGGCCT-AGCCCAGTAATAGAATCA
55501299 GTATCATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAATAGAATCAAG
Found at i:55501474 original size:22 final size:22
Alignment explanation
Indices: 55501446--55501488 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55501436 ACTAAGTCAA
*
55501446 CAGGACAGCTCAACGTAGTAGG
1 CAGGACAACTCAACGTAGTAGG
* *
55501468 CAGGACAACTTAACGTCGTAG
1 CAGGACAACTCAACGTAGTAG
55501489 ATAGGACCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (22 bp):
CAGGACAACTCAACGTAGTAGG
Found at i:55509424 original size:27 final size:27
Alignment explanation
Indices: 55509367--55509426 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
55509357 ATACATCTCC
*
55509367 TAGGGGCATATCAGTCATTTTACTATG
1 TAGGGGCATATCAGTCATTTTACAATG
*
55509394 TAGGGGCATTTCAGTCATTTTATCAAT-
1 TAGGGGCATATCAGTCATTTTA-CAATG
55509421 TAGGGG
1 TAGGGG
55509427 GTCTAGGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (27 bp):
TAGGGGCATATCAGTCATTTTACAATG
Found at i:55514203 original size:43 final size:43
Alignment explanation
Indices: 55514113--55514209 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
55514103 TGTGATTACA
** **
55514113 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCAATATATGATACTG
* *
55514156 TGTAAGACCTTGTCTGGGACATTGGCATCAATATTTGATAACT-
1 TGTAAGACCATGTCTGGGACATTGGCATCAATATATGAT-ACTG
55514199 TGTAAGACCAT
1 TGTAAGACCAT
55514210 ATTTGAGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCAATATATGATACTG
Found at i:55521697 original size:43 final size:43
Alignment explanation
Indices: 55521591--55521706 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
55521581 GATTGCCGAG
* * *
55521591 ATGTGATTACAAGTAAGACCATGTCTAGGACATTAGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGCT
* * * * *
55521634 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGGATCGCT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGCT
* * *
55521677 ATGTGATAACATGTATGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
55521707 TATGGTATTG
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGCT
Found at i:55544972 original size:19 final size:19
Alignment explanation
Indices: 55544948--55544988 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
55544938 AAGATGCCTC
*
55544948 AATC-AAATTCAAAATTTTG
1 AATCAAAATT-AAAAATTTG
55544967 AATCAAAATTAAAAATTTG
1 AATCAAAATTAAAAATTTG
55544986 AAT
1 AAT
55544989 TTTAAGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (19 bp):
AATCAAAATTAAAAATTTG
Found at i:55549443 original size:46 final size:46
Alignment explanation
Indices: 55549352--55549570 Score: 158
Period size: 46 Copynumber: 4.7 Consensus size: 46
55549342 TGTGTAAGGT
* *
55549352 GCCGATACGATGTCCCAGACACGGTCTTACACTGACTATCATCTCGTA-
1 GCCGATGC-ATGTCCCAGACA-TGTCTTACACTGACTATCATCTCG-AG
** *
55549400 GCCGATGCATGTCCCAGACATGTCTTACACTGGGTTAT-GTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GACTATCATCTCGAG
* * * * *
55549446 GCCGTTGCATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTATCATCTCGAG
* * * * * * *
55549492 TCCGATGCCATGTCCCAAAAATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGAG
* * *
55549540 ACTGATGCATGTCTCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
55549571 AGCTCACAAA
Statistics
Matches: 137, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.02
46 66 0.48
47 39 0.28
48 28 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
Found at i:55551839 original size:16 final size:16
Alignment explanation
Indices: 55551818--55551848 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
55551808 AAATAAATCT
55551818 TTTAATTAGATTTATA
1 TTTAATTAGATTTATA
55551834 TTTAATTAGATTTAT
1 TTTAATTAGATTTAT
55551849 TTAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTAATTAGATTTATA
Found at i:55553683 original size:15 final size:14
Alignment explanation
Indices: 55553660--55553700 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
55553650 CATTAGCTTC
55553660 TTTGTTTTATTTATT
1 TTTG-TTTATTTATT
55553675 TTTGCTTTATTTATT
1 TTTG-TTTATTTATT
55553690 TTTGTTTATTT
1 TTTGTTTATTT
55553701 CATTGGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTGTTTATTTATT
Found at i:55561989 original size:22 final size:23
Alignment explanation
Indices: 55561918--55562021 Score: 104
Period size: 24 Copynumber: 4.5 Consensus size: 23
55561908 ACTGATCATA
* *
55561918 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTGTCAGCTCAAT
* ** * *
55561941 GGAGCTTACCAAT-TCAACTCAAA
1 AGAGCTTA-CTGTGTCAGCTCAAT
55561964 AGAGCTTACTG-GTCAGCTCAAT
1 AGAGCTTACTGTGTCAGCTCAAT
*
55561986 AGAGCTTACTGTTTTCAGCTCAAT
1 AGAGCTTACTG-TGTCAGCTCAAT
55562010 AGAGCTTACTGT
1 AGAGCTTACTGT
55562022 TTATTAGCTC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
22 20 0.31
23 22 0.34
24 23 0.35
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (23 bp):
AGAGCTTACTGTGTCAGCTCAAT
Found at i:55562008 original size:24 final size:23
Alignment explanation
Indices: 55561918--55562023 Score: 124
Period size: 23 Copynumber: 4.6 Consensus size: 23
55561908 ACTGATCATA
*
55561918 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* *** * *
55561941 GGAGCTTACCAATTCAACTCAAA
1 AGAGCTTACTGTTTCAGCTCAAT
*
55561964 AGAGCTTACTG-GTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
55561986 AGAGCTTACTGTTTTCAGCTCAAT
1 AGAGCTTACTG-TTTCAGCTCAAT
55562010 AGAGCTTACTGTTT
1 AGAGCTTACTGTTT
55562024 ATTAGCTCAA
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
22 19 0.28
23 27 0.40
24 21 0.31
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:55566876 original size:48 final size:48
Alignment explanation
Indices: 55566775--55567041 Score: 232
Period size: 48 Copynumber: 5.6 Consensus size: 48
55566765 CATCGGTGTC
* * * * *** * *
55566775 GATGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * * * *
55566823 AATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCGTATTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * *
55566871 GATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATGCCATGTCCC-AGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * * ** **
55566919 GATGCCATGTCCCAGACGTGGTCTTACACTAGCACACATATCAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * ** *
55566967 GATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATA-AAATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGA-GGCT
*
55567015 GATGCCATGTCCCAGATATGGTCTTAC
1 GATGCCATGTCCCAGACATGGTCTTAC
55567042 CCAGATATGG
Statistics
Matches: 174, Mismatches: 42, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
47 4 0.02
48 167 0.96
49 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
Found at i:55566924 original size:96 final size:96
Alignment explanation
Indices: 55566775--55567041 Score: 306
Period size: 96 Copynumber: 2.8 Consensus size: 96
55566765 CATCGGTGTC
* * * * * *
55566775 GATGCCATGTCCTAGACATGGTCTTACACTGACACAT-ATAACAAT-GCCAATGCCATGTTCCAA
1 GATGCCATGCCCTAGACATGGTCTTACACTGGCTC-TCATAA-AATGGCCGATGCCATGTCCCAG
* * * * ** **
55566838 ACATGGTCTTACACTGGCTCGCGTATTGAGGCT
64 ACATGGTCTTACACTAGCACACATATCAACACT
** *
55566871 GATGCCATGCCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGAC
1 GATGCCATGCCCTAGACATGGTCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGAC
*
55566936 GTGGTCTTACACTAGCACACATATCAACACT
66 ATGGTCTTACACTAGCACACATATCAACACT
*
55566967 GATGCCATGTCCC-AGACATGATCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGA
1 GATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGA
*
55567031 TATGGTCTTAC
65 CATGGTCTTAC
55567042 CCAGATATGG
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
95 2 0.01
96 139 0.97
97 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (96 bp):
GATGCCATGCCCTAGACATGGTCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATCAACACT
Found at i:55567019 original size:144 final size:143
Alignment explanation
Indices: 55566741--55567041 Score: 351
Period size: 144 Copynumber: 2.1 Consensus size: 143
55566731 ATGTCATGGT
* *
55566741 CATGGTCTTACACTAGCTCTCAGACATCGGTGTCGATGCCATGTCCTAGACATGGTCTTACACTG
1 CATGGTCTTACACTAGCTCTCAGACATC-GTGGCGATGCCATGTCCCAGACATGGTCTTACACTG
* * * ** *
55566806 ACACATATAACAATGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCGTATTGAGGCT
65 ACACATATAACAATG-C-ATGCCATGTCCCAAACATGATCTTACACTGGCTCGCATATAAAGGCC
55566871 GATGCCATG-CCCTAGA
128 GATGCCATGTCCC-AGA
* * *
55566887 CATGGTCTTACACTGGCTCTCATA-AT-GTGGCTGATGCCATGTCCCAGACGTGGTCTTACACTA
1 CATGGTCTTACACTAGCTCTCAGACATCGTGGC-GATGCCATGTCCCAGACATGGTCTTACACT-
* * *
55566950 GCACACATATCAACACTG-ATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATA-AAATGG
64 G-ACACATAT-AACAATGCATGCCATGTCCCAAACATGATCTTACACTGGCTCGCATATAAA-GG
55567013 CCGATGCCATGTCCCAGA
126 CCGATGCCATGTCCCAGA
*
55567031 TATGGTCTTAC
1 CATGGTCTTAC
55567042 CCAGATATGG
Statistics
Matches: 134, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
143 5 0.04
144 87 0.65
145 6 0.04
146 30 0.22
147 6 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (143 bp):
CATGGTCTTACACTAGCTCTCAGACATCGTGGCGATGCCATGTCCCAGACATGGTCTTACACTGA
CACATATAACAATGCATGCCATGTCCCAAACATGATCTTACACTGGCTCGCATATAAAGGCCGAT
GCCATGTCCCAGA
Found at i:55567046 original size:16 final size:16
Alignment explanation
Indices: 55567025--55567057 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
55567015 GATGCCATGT
55567025 CCCAGATATGGTCTTA
1 CCCAGATATGGTCTTA
55567041 CCCAGATATGGTCTTA
1 CCCAGATATGGTCTTA
55567057 C
1 C
55567058 ACTGGCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (16 bp):
CCCAGATATGGTCTTA
Found at i:55571877 original size:16 final size:15
Alignment explanation
Indices: 55571852--55571883 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
55571842 ATGGATAATT
55571852 AAGCTTACAAGCCAC
1 AAGCTTACAAGCCAC
55571867 AAGCATTACAAGCCAC
1 AAGC-TTACAAGCCAC
55571883 A
1 A
55571884 TCTCGTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGCTTACAAGCCAC
Found at i:55572781 original size:16 final size:15
Alignment explanation
Indices: 55572757--55572786 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
55572747 AACTGTTTTA
55572757 TTACAAATTTCACTC
1 TTACAAATTTCACTC
55572772 TTACATAATTTCACT
1 TTACA-AATTTCACT
55572787 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:55573071 original size:49 final size:50
Alignment explanation
Indices: 55572999--55573116 Score: 177
Period size: 49 Copynumber: 2.4 Consensus size: 50
55572989 TGGTATGCAC
*
55572999 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCAG-TACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACAAT-CAGATACACGT
* * *
55573048 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGT
55573098 AGTAGCCTGCACTTAGTAC
1 AGTAGCCTGCACTTAGTAC
55573117 GACAAACGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 32 0.51
50 31 0.49
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGT
Found at i:55573115 original size:50 final size:49
Alignment explanation
Indices: 55572999--55573126 Score: 177
Period size: 50 Copynumber: 2.6 Consensus size: 49
55572989 TGGTATGCAC
* *
55572999 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCAGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACGT
* *
55573048 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATCCAG-TACACGT
* *
55573098 AGTAGCCTGCACTTAGTACGACAAACGTG
1 AGTAGCCTGCACTTAGTACTACACACGTG
55573127 GTTGATGTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
49 32 0.45
50 39 0.55
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACGT
Found at i:55574746 original size:151 final size:151
Alignment explanation
Indices: 55574463--55574747 Score: 408
Period size: 151 Copynumber: 1.9 Consensus size: 151
55574453 TTAGGTCGCA
* * * * *
55574463 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCAGGTGTGCAGTACTAAGT
1 TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGTCACGTGTGCAGTACTAAGT
* * * * *
55574528 GCAGGTTACTACGTGAACCAAATTGATAGGTCGCATGTGTAGTACTAACTTCAGACTACTATGCA
66 ACAGGCTACTACGTGAACCAAATTGATAGGTCGCATGTATAATACTAACTGCAGACTACTATGCA
55574593 TACCCGTTAACTTCGATCATG
131 TACCCGTTAACTTCGATCATG
* * *
55574614 TGTGCAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGATAAGTCACGTGTGTAGTACTAAGT
1 TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGTCACGTGTGCAGTACTAAGT
* * * * *
55574679 ACAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAATACTAAGTGCAGGCTACTATTCA
66 ACAGGCTACTACGTGAACCAAATTGATAGGTCGCATGTATAATACTAACTGCAGACTACTATGCA
55574744 TACC
131 TACC
55574748 AGAGAGCTTC
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
151 116 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (151 bp):
TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGTCACGTGTGCAGTACTAAGT
ACAGGCTACTACGTGAACCAAATTGATAGGTCGCATGTATAATACTAACTGCAGACTACTATGCA
TACCCGTTAACTTCGATCATG
Found at i:55574750 original size:50 final size:50
Alignment explanation
Indices: 55574413--55574739 Score: 320
Period size: 50 Copynumber: 6.5 Consensus size: 50
55574403 TTAAGTCACG
* * *
55574413 TGTGTAGCACGAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * * * *
55574463 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCAG-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTC-GCA
* * * *
55574513 TGTGCAGTACTAAGTGCAGGTTACTACGTGAACCAAATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * * * ** * **
55574563 TGTGTAGTACTAACTTCAGACTACTATGCATACCCG-TT-A-ACTTCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG--CA
* * * * *
55574612 TGTGTGCAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGATAAGTCACG
1 TGTGT--AGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
*
55574664 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* *
55574714 TGTATAATACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55574740 TTCATACCAG
Statistics
Matches: 218, Mismatches: 50, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 10 0.05
50 168 0.77
51 24 0.11
52 7 0.03
53 1 0.00
54 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
Found at i:55576423 original size:29 final size:29
Alignment explanation
Indices: 55576336--55576454 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 29
55576326 GTGAGCATGA
*
55576336 ATAT-AATGTGATTTGGGCCTAATTGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
55576364 ACATAGATGTGATTTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
55576393 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * * * *
55576422 ATGTGAATAT-AATTGGGTCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
55576450 ATATA
1 ATATA
55576455 CAGGTATGTG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.28
29 54 0.72
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:55586235 original size:20 final size:20
Alignment explanation
Indices: 55586212--55586252 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
55586202 TGAGATCATT
*
55586212 TCTCATGAGTTTTGTACACA
1 TCTCATGAGTTTTGCACACA
55586232 TCTCATGAGTTTTGCACACA
1 TCTCATGAGTTTTGCACACA
55586252 T
1 T
55586253 ACTCGTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
TCTCATGAGTTTTGCACACA
Found at i:55586531 original size:48 final size:48
Alignment explanation
Indices: 55586479--55586648 Score: 175
Period size: 48 Copynumber: 3.5 Consensus size: 48
55586469 AATACTATTA
* * * *
55586479 CCATGTTCCAAACATGGTCTTACATTGGCT-TACATATTGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGAGGCCGATG
* *
55586527 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATG
* * * * *
55586575 CCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCA-ACATCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGC--CGATG
* *
55586623 CCATATCCCAGATATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
55586649 AGCACACATA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 100 0.96
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATG
Found at i:55586579 original size:96 final size:96
Alignment explanation
Indices: 55586367--55586648 Score: 268
Period size: 96 Copynumber: 2.9 Consensus size: 96
55586357 ATACAAAAGG
* * *
55586367 ATAA-AATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTGTTATACATCG-GTGCCAAT
1 ATAACAATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGC--TTACATATCGAG-GCCGAT
*
55586430 GCCATGTCCCAGACATAGTCTTACACTGACATAC
63 GCCATGTCCCAGACATGGTCTTACACTGACATAC
* * * * *
55586464 ATAACAATACT-ATTACCATGTTCCAAACATGGTCTTACATTGGCTTACATATTGAGGCCGATGC
1 ATAACAATGCTGA-TGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATCGAGGCCGATGC
* *
55586528 CATGTCCCAGACATGGTCTTACACTGGC-TCTC
65 CATGTCCCAGACATGGTCTTACACTGACAT-AC
** * * ** * ***
55586560 ATAA-TGTGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACATCGATGC
1 ATAACAAT-GCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATCGAGGCCGATGC
* *
55586624 CATATCCCAGATATGGTCTTACACT
65 CATGTCCCAGACATGGTCTTACACT
55586649 AGCACACATA
Statistics
Matches: 151, Mismatches: 28, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
95 2 0.01
96 109 0.72
97 7 0.05
98 33 0.22
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (96 bp):
ATAACAATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATCGAGGCCGATGCC
ATGTCCCAGACATGGTCTTACACTGACATAC
Found at i:55586640 original size:144 final size:146
Alignment explanation
Indices: 55586377--55586646 Score: 343
Period size: 144 Copynumber: 1.9 Consensus size: 146
55586367 ATAAAATGCT
* * *
55586377 GATGCCATGTCCCAGACATGGTCTTACATTGGCTGTTATACATCGGTGCCAATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCAATGCCATGTCCCAG
* * * * *
55586442 ACATAGTCTTACACTGACATACATAACAATACTATTACCATGTTCCAAACATGGTCTTACATTGG
66 ACATAGTCTTACACTGACACACATAACAACACGATTACCATATCCCAAACATGGTCTTACATTGG
55586507 CTTACATATTGAGGCC
131 CTTACATATTGAGGCC
**
55586523 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGCTGATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGT-GCCAATGCCATGTCCCA
* * * * *
55586585 GACATGGTCTTACACT-AGCACACATATCAACATCGA-TGCCATATCCCAGATATGGTCTTACA
65 GACATAGTCTTACACTGA-CACACATAACAACA-CGATTACCATATCCCAAACATGGTCTTACA
55586647 CTAGCACACA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
143 3 0.03
144 62 0.58
145 4 0.04
146 37 0.35
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (146 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCAATGCCATGTCCCAG
ACATAGTCTTACACTGACACACATAACAACACGATTACCATATCCCAAACATGGTCTTACATTGG
CTTACATATTGAGGCC
Found at i:55586649 original size:48 final size:48
Alignment explanation
Indices: 55586522--55586663 Score: 171
Period size: 48 Copynumber: 3.0 Consensus size: 48
55586512 ATATTGAGGC
* * * * ***
55586522 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC-T
1 CGATGCCATATCCCAGACATGGTCTTACACTAGCACACAT-AT-CAACAT
*
55586571 -GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACAT
1 CGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAACAT
*
55586618 CGATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAAC
1 CGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAAC
55586664 CAAATGTCTT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
46 1 0.01
47 3 0.04
48 79 0.95
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
CGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAACAT
Found at i:55589546 original size:26 final size:26
Alignment explanation
Indices: 55589517--55589624 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
55589507 TGGTACAAAT
55589517 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
55589543 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55589569 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
55589595 TGATAATGGTTTAGGTAAATTTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55589621 TGAT
1 TGAT
55589625 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:55591139 original size:26 final size:26
Alignment explanation
Indices: 55591110--55591162 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
55591100 TTTACAGTTT
55591110 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCTTAGG-GATAAATTGACCGAAA
* *
55591136 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCTTAGGGATAAATTGACCGAAA
55591162 T
1 T
55591163 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCCTTAGGGATAAATTGACCGAAA
Found at i:55595516 original size:22 final size:22
Alignment explanation
Indices: 55595501--55595559 Score: 91
Period size: 24 Copynumber: 2.6 Consensus size: 22
55595491 TCAGCTTGAA
55595501 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
55595523 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTA-C-TGTTCAGCTCAAT
55595547 AGAGCTTACTGTT
1 AGAGCTTACTGTT
55595560 TTTCAGCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 11 0.33
23 2 0.06
24 20 0.61
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:55595544 original size:24 final size:25
Alignment explanation
Indices: 55595512--55595583 Score: 110
Period size: 24 Copynumber: 2.9 Consensus size: 25
55595502 GAGCTTACTG
55595512 TTCAGCTCAATAGAGCTTACCG-TT
1 TTCAGCTCAATAGAGCTTACCGTTT
*
55595536 TTCAGCTCAATAGAGCTTACTGTTT
1 TTCAGCTCAATAGAGCTTACCGTTT
*
55595561 TTCAGCTCAAGAGGAGCTTACCG
1 TTCAGCTCAATA-GAGCTTACCG
55595584 ACCAAGATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 21 0.49
25 13 0.30
26 9 0.21
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
TTCAGCTCAATAGAGCTTACCGTTT
Found at i:55598067 original size:78 final size:78
Alignment explanation
Indices: 55597938--55598093 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
55597928 GATATTGGAT
*
55597938 TGGTGGATAAATGTTTGTGAGTTTTGGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
1 TGGTGGATAAATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
55598003 GGAAATTGCTACA
66 GGAAATTGCTACA
*
55598016 TGGTGGATATATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
1 TGGTGGATAAATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
55598081 GGAAATTGCTACA
66 GGAAATTGCTACA
55598094 CACGGGCGTG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.29, C:0.06, G:0.31, T:0.33
Consensus pattern (78 bp):
TGGTGGATAAATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
GGAAATTGCTACA
Found at i:55615134 original size:40 final size:40
Alignment explanation
Indices: 55615089--55615280 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 40
55615079 ATAACCACAA
* * *
55615089 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
** *
55615129 GCACAAATGCCTTCGTCTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
55615169 GCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
55615209 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
55615249 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
55615281 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:55615196 original size:80 final size:80
Alignment explanation
Indices: 55615060--55615279 Score: 221
Period size: 80 Copynumber: 2.8 Consensus size: 80
55615050 ACCCAAGTTT
* * * * * * * * * *
55615060 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGCACTTAGCCCGGATAAAATCACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
55615123 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * * *
55615139 CTTCGTCTCTTAGCCCGGAT-ATATCAACTCGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGCACTTAGCCCGGATAAAATC-ACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
55615203 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* * *
55615219 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGCACTTAGCCCGGATAAAATCACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATA
55615280 TCATTCAAAT
Statistics
Matches: 113, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
79 11 0.10
80 95 0.84
81 7 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGCACTTAGCCCGGATAAAATCACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:55623850 original size:26 final size:28
Alignment explanation
Indices: 55623832--55623897 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
55623822 CATTTGATAT
55623832 TTTC-CACACTAAGTGTCATTCTCAATA
1 TTTCGCACACTAAGTGTCATTCTCAATA
*
55623859 TTTCGCACACTAAGTGCCATTCTCAATA
1 TTTCGCACACTAAGTGTCATTCTCAATA
*
55623887 TTTCGTACACT
1 TTTCGCACACT
55623898 GAGTACCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 4 0.11
28 32 0.89
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (28 bp):
TTTCGCACACTAAGTGTCATTCTCAATA
Found at i:55623860 original size:28 final size:29
Alignment explanation
Indices: 55623828--55623906 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
55623818 GAATCATTTG
*
55623828 ATATTTTC-CACACTAAGTGTCATTCTCA
1 ATATTTTCGCACACTAAGTGCCATTCTCA
55623856 ATA-TTTCGCACACTAAGTGCCATTCTCA
1 ATATTTTCGCACACTAAGTGCCATTCTCA
* * *
55623884 ATA-TTTCGTACACTGAGTACCAT
1 ATATTTTCGCACACTAAGTGCCAT
55623907 ATTTGATTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.09
28 42 0.91
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (29 bp):
ATATTTTCGCACACTAAGTGCCATTCTCA
Found at i:55625921 original size:17 final size:18
Alignment explanation
Indices: 55625885--55625921 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
55625875 ATAATAGTAA
55625885 TAATAAAATGCTAATAAG
1 TAATAAAATGCTAATAAG
55625903 TAAT-AAATG-TAATATAG
1 TAATAAAATGCTAATA-AG
55625920 TA
1 TA
55625922 CTAGAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.32
Consensus pattern (18 bp):
TAATAAAATGCTAATAAG
Found at i:55626485 original size:3 final size:3
Alignment explanation
Indices: 55626207--55626474 Score: 94
Period size: 3 Copynumber: 91.0 Consensus size: 3
55626197 TTGCATTAAC
* * * * * *
55626207 AAT AAT AAT AGT AAG AAT AAT AAC GAT AAT -AT AAC AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
55626254 AA- AA- AAT AAT AAC AAT AAT AGA- AAT AAT AAA AAT AAA AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
55626296 AA- AAGGT AAGG AA- AAT AAT ACT GAC ACT GAC AAT AAT ACT AAT AAT
1 AAT AA--T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
55626342 AAC AAT -AT ATT GAA- AAT ACT GAT -AT ATT CAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
55626385 AAT AAT AAT AAT AAT AAT AAT AGT AGA- AAT AAC AAT CAT -AT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T
* * ** *
55626430 AGT AAT AAT ACA- CAT AGG AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
55626475 TTGAATAATA
Statistics
Matches: 188, Mismatches: 59, Indels: 36
0.66 0.21 0.13
Matches are distributed among these distances:
2 23 0.12
3 155 0.82
4 8 0.04
5 2 0.01
ACGTcount: A:0.60, C:0.06, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:55631405 original size:14 final size:14
Alignment explanation
Indices: 55631386--55631413 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55631376 TGGTGTCTGT
55631386 TTCAAACCTTAAAA
1 TTCAAACCTTAAAA
55631400 TTCAAACCTTAAAA
1 TTCAAACCTTAAAA
55631414 GGACTTTTTC
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:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
TTCAAACCTTAAAA
Found at i:55633232 original size:19 final size:20
Alignment explanation
Indices: 55633200--55633237 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
55633190 TCACCATTCT
*
55633200 ATTGTTATTTGTATTGAATA
1 ATTGTTATTTGTATGGAATA
55633220 ATTGTTA-TTGTATGGAAT
1 ATTGTTATTTGTATGGAAT
55633238 GTGCGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (20 bp):
ATTGTTATTTGTATGGAATA
Found at i:55633459 original size:50 final size:48
Alignment explanation
Indices: 55633340--55633484 Score: 184
Period size: 50 Copynumber: 3.0 Consensus size: 48
55633330 TACTAGGGTA
* * * * *
55633340 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGACATCGGTATTGT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATG-CATCGGCATCGT
* *
55633389 A-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGACATCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCATCG-T
55633438 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCATC
55633485 TGTAACACCC
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
48 37 0.45
49 4 0.05
50 42 0.51
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGCATCGGCATCGT
Found at i:55634914 original size:47 final size:47
Alignment explanation
Indices: 55634718--55635076 Score: 236
Period size: 47 Copynumber: 7.6 Consensus size: 47
55634708 TGCTGCCATA
** *
55634718 TCCCAGACATGGTCTTACGTTGGCTATC-TCCATCGAGGCAGATGCCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CATCGAGGCCGATG-CATG
* * * * * * *
55634767 TCCTAGACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CAT-CGAGGCCGATGCATG
* * * * *
55634816 TCCCAAACATGTCTTACACTAG--AACAACA-CTTA-GCCGAT-CATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATC-GAGGCCGATGCATG
* * *
55634859 TCCTAGACACGTCTTACATTGGCTATCATCATCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
* *
55634906 TCCCAGACATGTCTTACACTGGC-ACTCATC-TCTACGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTA-TCATCATCGAGGCCGATG-CATG
* * * *
55634953 TCCCAGACATGGTCTTACACTGGCTATCTTAAT-GTGGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
* ** * * * *
55635000 TCCCAGACATGTCTTACACTAGCCCTCCTC-TCAATGTCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATG-CATG
* *
55635047 TCCCAGACATGGTCTTATACTGGCTCTCAT
1 TCCCAGACAT-GTCTTACACTGGCTATCAT
55635077 ATAACCCAAT
Statistics
Matches: 242, Mismatches: 51, Indels: 35
0.74 0.16 0.11
Matches are distributed among these distances:
43 22 0.09
44 5 0.02
45 8 0.03
46 39 0.16
47 71 0.29
48 49 0.20
49 37 0.15
50 9 0.04
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
Found at i:55635000 original size:94 final size:93
Alignment explanation
Indices: 55634758--55635071 Score: 343
Period size: 94 Copynumber: 3.4 Consensus size: 93
55634748 CATCGAGGCA
* * * * *
55634758 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTGTATACGT-GCTGATGCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-T-TA-ATGTGGCTGATGCATGTCCCAG
* *
55634822 ACATGTCTTACACTAGAACAACA-CT-TAGCC
63 ACATGTCTTACACTAGCAC-TCATCTCTAGCC
* * * * * * *
55634852 GAT--CATGTCCTAGACA-CGTCTTACATTGGCTATCATCATCGAGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAAT-GTGGCTGATGCATGTCCCAGAC
*
55634914 ATGTCTTACACTGGCACTCATCTCTACGCC
65 ATGTCTTACACTAGCACTCATCTCTA-GCC
55634944 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTGGCTGATGCATGTCCCAGACA
* * * *
55635009 TGTCTTACACTAGCCCTCCTCTCAATGTC
66 TGTCTTACACTAGCACTCATCTCTA-GCC
*
55635038 GATGCCATGTCCCAGACATGGTCTTATACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
55635072 CTCATATAAC
Statistics
Matches: 185, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
88 1 0.01
89 4 0.02
90 34 0.18
91 16 0.09
92 19 0.10
94 92 0.50
95 19 0.10
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTAGCC
Found at i:55642557 original size:47 final size:47
Alignment explanation
Indices: 55642363--55642664 Score: 228
Period size: 47 Copynumber: 6.4 Consensus size: 47
55642353 TGCTGCCATA
55642363 TCCCAGACATGGTCTTACGA-TGGCTATC-TCCATCGAGGCCGATGCCATG
1 TCCCAGACAT-GTCTTAC-ACTGGCTATCAT-CATCGAGGCCGATG-CATG
* * * * ** * * *
55642412 TCCTAGACATGGTCTTACACTAGCTCTCGTGTTACG-TGCTGATGCATA
1 TCCCAGACAT-GTCTTACACTGGCTATCATCAT-CGAGGCCGATGCATG
* * *
55642460 TCCCAGACATGTCTTACACTAGC-A-CA-AAACTGA-GCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATC-GAGGCCGATGCATG
* **
55642504 TACCAGACACATCTTACACTGGCTATCATCATCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
* **
55642551 TCCCAGACATGTCTTACACTGGC-AGTCATC-TCTACTCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTA-TCATCATCGAGGCCGATG-CATG
* * * * * *
55642598 TCTCAAACATGGTCTTACACTGGCTATCTTAAT-GTGGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
55642645 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
55642665 AGCCTTACTC
Statistics
Matches: 200, Mismatches: 39, Indels: 31
0.74 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 2 0.01
46 24 0.12
47 75 0.38
48 34 0.17
49 32 0.16
50 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
Found at i:55642651 original size:94 final size:91
Alignment explanation
Indices: 55642401--55642708 Score: 293
Period size: 94 Copynumber: 3.3 Consensus size: 91
55642391 TCCATCGAGG
* * * * *
55642401 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTGTTACGT-GCTGATGCATATCCCA
1 CCGATGCCATGTCC-AGACATGGTCTTACACTGGCTATC-T-TAATGTGGCTGATGCATGTCCCA
** * *
55642465 GACATGTCTTACACTAGCA-CAAAACTGAG
63 GACATGTCTTACACTAGCATC-ACTCTCAT
** * * * *
55642494 CCGATG-CATGTACCAGACA-CATCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCCCAG
1 CCGATGCCATGT-CCAGACATGGTCTTACACTGGCTATCTTAAT-GTGGCTGATGCATGTCCCAG
*
55642557 ACATGTCTTACACTGGCAGTCA-TCTCTACT
64 ACATGTCTTACACTAGCA-TCACTCTC-A-T
*
55642587 CCGATGCCATGTCTCAAACATGGTCTTACACTGGCTATCTTAATGTGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTC-CAGACATGGTCTTACACTGGCTATCTTAATGTGGCTGATGCATGTCCCAGA
* *
55642652 CATGTCTTACACTAGCCTTACTCTCAAT
65 CATGTCTTACACTAGCATCACTCTC-AT
55642680 ACCGATGCCATGTCCCAGACATGGTCTTA
1 -CCGATGCCATGT-CCAGACATGGTCTTA
55642709 TACTAGCTCT
Statistics
Matches: 176, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
89 2 0.01
90 1 0.01
91 48 0.27
92 12 0.07
93 19 0.11
94 74 0.42
95 20 0.11
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (91 bp):
CCGATGCCATGTCCAGACATGGTCTTACACTGGCTATCTTAATGTGGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCATCACTCTCAT
Found at i:55642692 original size:47 final size:45
Alignment explanation
Indices: 55642401--55642715 Score: 137
Period size: 47 Copynumber: 6.8 Consensus size: 45
55642391 TCCATCGAGG
* * * *
55642401 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCT-CGTGTTACGT
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGC-CTAC-TCTCA-AT
* * * ** * *
55642449 GCTGATGCATATCCCAGACAT-GTCTTACACTAGCACAAAACT-GAG
1 -CCGATGCATGTCCCAGACATGGTCTTACACTAGC-CTACTCTCAAT
* ** * **
55642494 CCGATGCATGTACCAGACA-CATCTTACACT-GGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCCTA-C-TC-TC-AAT
* * *
55642541 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCAGT-CATCTCTACT
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGC-CTAC-TCTC-AAT
* * * *
55642587 CCGATGCCATGTCTCAAACATGGTCTTACACT-GGCTA-TCTTAATGT
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCCTACTCTCAA--T
*
55642633 GGCTGATGCATGTCCCAGACAT-GTCTTACACTAGCCTTACTCTCAAT
1 --CCGATGCATGTCCCAGACATGGTCTTACACTAGCC-TACTCTCAAT
*
55642680 ACCGATGCCATGTCCCAGACATGGTCTTATACTAGC
1 -CCGATG-CATGTCCCAGACATGGTCTTACACTAGC
55642716 TCTCACATAA
Statistics
Matches: 202, Mismatches: 42, Indels: 45
0.70 0.15 0.16
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 27 0.13
45 4 0.02
46 26 0.13
47 89 0.44
48 42 0.21
49 11 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCCTACTCTCAAT
Found at i:55651586 original size:50 final size:50
Alignment explanation
Indices: 55651463--55651701 Score: 259
Period size: 50 Copynumber: 4.8 Consensus size: 50
55651453 TACTAAGGTA
* * * * * ** *
55651463 ATATGTGAGCCAGTGTAAGACCATGTTTCGAACATGGCATCGATATC-AT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
55651512 A-ATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCACCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* * * *
55651561 ATATGAGAGCTAGTGTAAGATCATGTTTGAGACATGGCATTGGC-CTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAT
*
55651611 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* * * * * *
55651661 ATATGAGAGCCAATGTAAAACTAAGTCTAGGACATGGCATC
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
55651702 AGTATCTTAC
Statistics
Matches: 160, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
48 35 0.22
49 5 0.03
50 119 0.74
51 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
Found at i:55651646 original size:100 final size:98
Alignment explanation
Indices: 55651463--55651678 Score: 299
Period size: 100 Copynumber: 2.2 Consensus size: 98
55651453 TACTAAGGTA
* * *
55651463 ATATGTGAGCCAGTGTAAGACCATGTTTCGAACATGGCATCGATATCATAATAAGAGCTAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTTTCGAACATGGCATCGACATCATAATAAGAGCCAGTGTA
*
55651528 AGACCATGTCTGGGACATGGCGTCGGCACCGAT
66 AGACCATGTCTGGGACATGGCATCGGCACCGAT
* * * * * *
55651561 ATATGAGAGCTAGTGTAAGATCATGTTT-GAGACATGGCATTGGCCTCGATATATGAGAGCCAGT
1 ATATGAGAGCCAGTGTAAGACCATGTTTCGA-ACATGGCATCGACATC-ATA-ATAAGAGCCAGT
55651625 GTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
63 GTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
*
55651661 ATATGAGAGCCAATGTAA
1 ATATGAGAGCCAGTGTAA
55651679 AACTAAGTCT
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
97 2 0.02
98 37 0.36
99 3 0.03
100 61 0.59
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (98 bp):
ATATGAGAGCCAGTGTAAGACCATGTTTCGAACATGGCATCGACATCATAATAAGAGCCAGTGTA
AGACCATGTCTGGGACATGGCATCGGCACCGAT
Found at i:55659370 original size:28 final size:28
Alignment explanation
Indices: 55659304--55659456 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
55659294 ATATTAAGTC
* * *
55659304 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55659331 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55659359 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
55659387 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
55659415 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
55659442 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55659457 GCACAATTTA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 38 0.33
28 78 0.67
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:55659408 original size:83 final size:83
Alignment explanation
Indices: 55659304--55659456 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
55659294 ATATTAAGTC
* *
55659304 CGCACACTCAGTGCTATATAATC-AGCTCGCACACCTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATC-AACTCGCACACTT
55659368 AGTGCTACATAGTCAAACT
65 AGTGCTACATAGTCAAACT
* * * *
55659387 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
55659452 GTGCT
66 GTGCT
55659457 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 39 0.62
84 24 0.38
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:55659475 original size:56 final size:55
Alignment explanation
Indices: 55659303--55659481 Score: 232
Period size: 56 Copynumber: 3.2 Consensus size: 55
55659293 CATATTAAGT
* * * * *
55659303 CCGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
*
55659358 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAAAC
* * * * *
55659414 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAAC
*
55659470 CCGCACTCTTAG
1 CCGCACACTTAG
55659482 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
55 42 0.38
56 68 0.62
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (55 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:55673234 original size:22 final size:22
Alignment explanation
Indices: 55673203--55673246 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55673193 ATAAAATTCT
55673203 AAAATCTAATAAAAATAAAAAA
1 AAAATCTAATAAAAATAAAAAA
* * *
55673225 AAAATTTAATTAAAATTAAAAA
1 AAAATCTAATAAAAATAAAAAA
55673247 CATAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAATCTAATAAAAATAAAAAA
Found at i:55673260 original size:22 final size:21
Alignment explanation
Indices: 55673203--55673260 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
55673193 ATAAAATTCT
55673203 AAAATCTAATAAAAATAAAAAA
1 AAAAT-TAATAAAAATAAAAAA
*
55673225 AAAATTTAATTAAAATTAAAAACA
1 AAAA-TTAA-TAAAAATAAAAA-A
55673249 TAAAA-TAATAAA
1 -AAAATTAATAAA
55673261 TAAATGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 11 0.35
23 15 0.48
24 1 0.03
25 4 0.13
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATTAATAAAAATAAAAAA
Found at i:55678594 original size:14 final size:14
Alignment explanation
Indices: 55678558--55678594 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
55678548 AGGATATCAA
55678558 AACAAG-AATTAAG
1 AACAAGTAATTAAG
55678571 AACACA-TAATTAAG
1 AACA-AGTAATTAAG
55678585 AACAAGTAAT
1 AACAAGTAAT
55678595 ATATTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (14 bp):
AACAAGTAATTAAG
Found at i:55691573 original size:43 final size:43
Alignment explanation
Indices: 55691525--55691691 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 43
55691515 ATTACCAAGA
55691525 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
55691568 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
** * * * * *
55691611 CATGATTTCGTGTAAGACCATGTTTGGGACCTTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
55691653 ATGTGATAACATGTAAGACCATATTTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
55691692 ATACGAGCTA
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 93 0.90
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:55706935 original size:57 final size:57
Alignment explanation
Indices: 55706845--55706984 Score: 158
Period size: 57 Copynumber: 2.5 Consensus size: 57
55706835 GTTATGGATT
** * *
55706845 GGATTTAGCCTGGACAAGTAATCCAGAGCAAGCTCT-TTAGAGCATATGTCATAAAAA
1 GGATTTAGCCTGGACTGGTAATCCTGAGCAAGCTCTATT-GAGCATATATCATAAAAA
* ** * *
55706902 GGATTTAGCCTGGACTGGTAATCCTGA-CTAAGCTCTATTGAGTATATATTGTAGACA
1 GGATTTAGCCTGGACTGGTAATCCTGAGC-AAGCTCTATTGAGCATATATCATAAAAA
*
55706959 GGATTTAGCCTAGACTGGTAATCCTG
1 GGATTTAGCCTGGACTGGTAATCCTG
55706985 TTGTCTATAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
56 1 0.01
57 68 0.96
58 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (57 bp):
GGATTTAGCCTGGACTGGTAATCCTGAGCAAGCTCTATTGAGCATATATCATAAAAA
Found at i:55707300 original size:18 final size:18
Alignment explanation
Indices: 55707277--55707313 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55707267 ATGAATATGT
55707277 GTTCATCCTTGATTATAG
1 GTTCATCCTTGATTATAG
55707295 GTTCATCCTTGATTATAG
1 GTTCATCCTTGATTATAG
55707313 G
1 G
55707314 CTTGTAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (18 bp):
GTTCATCCTTGATTATAG
Found at i:55707819 original size:54 final size:54
Alignment explanation
Indices: 55707755--55707862 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
55707745 TGATCACTCA
55707755 CACTATCCATTGGCCAGTGTTGGTACAATATGGTAAAGCAATTATGGTTACAAT
1 CACTATCCATTGGCCAGTGTTGGTACAATATGGTAAAGCAATTATGGTTACAAT
55707809 CACTATCCATTGGCCAGTGTTGGTACAATATGGTAAAGCAATTATGGTTACAAT
1 CACTATCCATTGGCCAGTGTTGGTACAATATGGTAAAGCAATTATGGTTACAAT
55707863 GGCATGTATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (54 bp):
CACTATCCATTGGCCAGTGTTGGTACAATATGGTAAAGCAATTATGGTTACAAT
Found at i:55713393 original size:33 final size:33
Alignment explanation
Indices: 55713350--55713442 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
55713340 ACAATGCATG
55713350 CAGTAGCAGTCTGGGCCTGAGCCCTATTCAGTAT
1 CAGTA-CAGTCTGGGCCTGAGCCCTATTCAGTAT
55713384 CAGTACAGTCTGGGCCTGAGCCCTATTCAGTAT
1 CAGTACAGTCTGGGCCTGAGCCCTATTCAGTAT
*
55713417 CAGTACAGTCTGGGCCTTAGCCCTAT
1 CAGTACAGTCTGGGCCTGAGCCCTAT
55713443 ACAATAACAT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
33 53 0.91
34 5 0.09
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTGAGCCCTATTCAGTAT
Found at i:55713915 original size:27 final size:26
Alignment explanation
Indices: 55713873--55713949 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
55713863 TACCCCTCAA
*
55713873 GGGTATTCGGTTATTTCACAAATCAG
1 GGGTATTCGGTAATTTCACAAATCAG
* * **
55713899 GGGTATCTCGGTAATTTTACAACTTGG
1 GGGTAT-TCGGTAATTTCACAAATCAG
*
55713926 GGGTATTTCAGTAATTTCACAAAT
1 GGGTA-TTCGGTAATTTCACAAAT
55713950 TGGGGGTCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.15
27 34 0.83
28 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (26 bp):
GGGTATTCGGTAATTTCACAAATCAG
Found at i:55713952 original size:27 final size:27
Alignment explanation
Indices: 55713885--55713956 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
55713875 GTATTCGGTT
** *
55713885 ATTTCACAAATCAGGGGTATCTCGGTA
1 ATTTCACAAATTGGGGGTATCTCAGTA
* * *
55713912 ATTTTACAACTTGGGGGTATTTCAGTA
1 ATTTCACAAATTGGGGGTATCTCAGTA
55713939 ATTTCACAAATTGGGGGT
1 ATTTCACAAATTGGGGGT
55713957 CTTAACGACC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.35
Consensus pattern (27 bp):
ATTTCACAAATTGGGGGTATCTCAGTA
Found at i:55721857 original size:13 final size:13
Alignment explanation
Indices: 55721835--55721867 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
55721825 AAGGGTTTGT
55721835 TTAT-TAAACTAA
1 TTATCTAAACTAA
55721847 TTATCTAAACTAA
1 TTATCTAAACTAA
*
55721860 TTAACTAA
1 TTATCTAA
55721868 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:55728495 original size:27 final size:27
Alignment explanation
Indices: 55728258--55728493 Score: 292
Period size: 27 Copynumber: 8.7 Consensus size: 27
55728248 TACTAAAATG
** *
55728258 CCCTCGATTTGTAGAATTACCATTTAA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
55728285 CCCTCGATTTATAGAATTACCATTTAA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55728312 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55728339 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
55728366 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
55728393 CCTTAGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55728420 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
55728447 CCCTTGATTTGCAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
55728474 CCCTCAATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
55728494 TAAAATACCA
Statistics
Matches: 183, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:55728502 original size:27 final size:27
Alignment explanation
Indices: 55728472--55728558 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
55728462 ATTACTATTT
* *
55728472 TACCCTCAATTTACAAAATTACTAAAA
1 TACCATCAATTTACAAAATTACCAAAA
*** *
55728499 TACCATTGGTTTCCAAAATTACCAAAA
1 TACCATCAATTTACAAAATTACCAAAA
* * *
55728526 TACCATCGA-TCAGTAAAATTACCAAAA
1 TACCATCAATTTA-CAAAATTACCAAAA
55728553 TACCAT
1 TACCAT
55728559 GGTCTGTAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (27 bp):
TACCATCAATTTACAAAATTACCAAAA
Found at i:55728519 original size:54 final size:54
Alignment explanation
Indices: 55728361--55728520 Score: 142
Period size: 54 Copynumber: 3.0 Consensus size: 54
55728351 AGAATTACCG
* * **** *
55728361 TTTTACCCTCAATTTATAGAATTACCGTTTTACC-TTAGATTTACAAAATTACTA
1 TTTTACCCTCAATTTACAAAATTACCAAAATACCATT-GATTTCCAAAATTACTA
* * * *** * * *
55728415 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTGCAGAATTACTA
1 TTTTACCCTCAATTTACAAAATTACCAAAATACCATTGATTTCCAAAATTACTA
* *
55728469 TTTTACCCTCAATTTACAAAATTACTAAAATACCATTGGTTTCCAAAATTAC
1 TTTTACCCTCAATTTACAAAATTACCAAAATACCATTGATTTCCAAAATTAC
55728521 CAAAATACCA
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 88 0.98
55 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (54 bp):
TTTTACCCTCAATTTACAAAATTACCAAAATACCATTGATTTCCAAAATTACTA
Found at i:55728595 original size:53 final size:53
Alignment explanation
Indices: 55728538--55728718 Score: 195
Period size: 53 Copynumber: 3.4 Consensus size: 53
55728528 CCATCGATCA
* * * * *
55728538 GTAAAATTACCAAAATACCATGGTCTGTAAAATTGCTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTT
* * *
55728591 GTAAAATTATCAAAATACCCCTAGTTTGTAAAGTTACCAAAATACCAC-GGTTT
1 GTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTT
* * * *
55728644 GTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTGGTTT
**
55728698 ACAAAATTA-CAGAAATACCCT
1 GTAAAATTACCA-AAATACCCT
55728719 TGACTTTCTA
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 4 0.04
53 59 0.56
54 42 0.40
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTT
Found at i:55728596 original size:27 final size:27
Alignment explanation
Indices: 55728486--55728717 Score: 186
Period size: 27 Copynumber: 8.7 Consensus size: 27
55728476 CTCAATTTAC
* ** **
55728486 AAAATTACTAAAATACCATTGGTTTCC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
55728513 AAAATTACCAAAATA-CCATCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
55728540 AAAATTACCAAAATA-CCATGGTCTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
55728566 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
55728593 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
55728620 AAAGTTACCAAAATACCAC-GGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
55728646 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* **
55728673 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
55728700 AAAATTA-CAGAAATACCC
1 AAAATTACCA-AAATACCC
55728718 TTGACTTTCT
Statistics
Matches: 166, Mismatches: 33, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
25 2 0.01
26 40 0.24
27 120 0.72
28 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:55728622 original size:80 final size:80
Alignment explanation
Indices: 55728538--55728692 Score: 204
Period size: 80 Copynumber: 1.9 Consensus size: 80
55728528 CCATCGATCA
* * * ** *
55728538 GTAAAATTACCAAAATACCATGGTCTGTAAAATTGCTAAAATACCC-CTGGTTTGTAAAATTATC
1 GTAAAATTACCAAAATACCACGGTCTGTAAAATTACCAAAATACCCTC-AATTTGTAAAATTACC
55728602 AAAATACCCCTAGTTT
65 AAAATACCCCTAGTTT
* * * *
55728618 GTAAAGTTACCAAAATACCACGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 GTAAAATTACCAAAATACCACGGTCTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
55728683 AAATACCCCT
66 AAATACCCCT
55728693 GATTTACAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 63 0.98
81 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (80 bp):
GTAAAATTACCAAAATACCACGGTCTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
AAATACCCCTAGTTT
Found at i:55728780 original size:27 final size:27
Alignment explanation
Indices: 55728673--55728780 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
55728663 CTCAATTTGT
** * *
55728673 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
55728700 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
55728727 TAAAAATTA-TAGAAATACCATTAGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
55728756 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
55728781 GTAGATTTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
27 40 0.62
28 7 0.11
29 18 0.28
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:55728898 original size:27 final size:27
Alignment explanation
Indices: 55728821--55728898 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
55728811 AAATGACTAC
* *
55728821 AATACCCTT-AATAGGTAAAAAGACCGT
1 AATACCCTTGTAT-GGTAAAATGACCGT
* * *
55728848 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCTTGTATGGTAAAATGACCGT
55728875 AATACCCTTGTATGGTAAAATGAC
1 AATACCCTTGTATGGTAAAATGAC
55728899 AAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCTTGTATGGTAAAATGACCGT
Found at i:55729629 original size:20 final size:20
Alignment explanation
Indices: 55729595--55729650 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
55729585 GATACGTGGG
55729595 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
55729612 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
*
55729633 GTATGAAATGCACATGAT
1 GTATGATATGCACATGAT
55729651 GAATTCATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
20 23 0.68
21 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:55729729 original size:26 final size:26
Alignment explanation
Indices: 55729700--55729874 Score: 282
Period size: 26 Copynumber: 6.8 Consensus size: 26
55729690 GAGGAAGTGC
*
55729700 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
55729726 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
55729752 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
55729778 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
55729804 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
55729830 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
55729855 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
55729875 ATTAAAGAGG
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
25 32 0.23
26 107 0.77
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:55729778 original size:52 final size:52
Alignment explanation
Indices: 55729700--55729874 Score: 318
Period size: 52 Copynumber: 3.4 Consensus size: 52
55729690 GAGGAAGTGC
55729700 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
55729752 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
55729804 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
55729855 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
55729875 ATTAAAGAGG
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 10 0.08
51 24 0.20
52 86 0.72
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:55730078 original size:42 final size:42
Alignment explanation
Indices: 55730019--55730110 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
55730009 TAGTCTCCCC
*
55730019 AAATGGGCTAGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTAGCATACATTCATTGATATTTCATGTGATATTG
* *
55730061 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTAGCATACATTCATTGATATTTCATGTGATATTG
55730103 AAATGGGC
1 AAATGGGC
55730111 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (42 bp):
AAATGGGCTAGCATACATTCATTGATATTTCATGTGATATTG
Found at i:55738601 original size:58 final size:58
Alignment explanation
Indices: 55738520--55738667 Score: 160
Period size: 57 Copynumber: 2.6 Consensus size: 58
55738510 GGGTTGTTAC
* *
55738520 AAGGATTTAGCCCGGA-TGGGTAATCCTGATATAATCCC-TCTCGAGCATATGTTACA-A
1 AAGGATTTAGCCTGGACT-GGTAATCCTGATATAAGCCCTTCT-GAGCATATGTTACAGA
* * * * * *
55738577 TTAGGATTTAGCCTGGACTGGTAATCGTAAT-TGAGCTCTTCTGAGCATATGTTATAGA
1 -AAGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCCTTCTGAGCATATGTTACAGA
*
55738635 AAGGATTTAGCCTGGACTGGTAATCCTGTTATA
1 AAGGATTTAGCCTGGACTGGTAATCCTGATATA
55738668 TGATATATGG
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
57 43 0.59
58 29 0.40
59 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (58 bp):
AAGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCCTTCTGAGCATATGTTACAGA
Found at i:55738906 original size:23 final size:22
Alignment explanation
Indices: 55738873--55738919 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
55738863 AAATGATGTT
55738873 TTATGAAATATGGAAGCAT-GAAA
1 TTATGAAATAT-GAA-CATGGAAA
*
55738896 TTATGATATATGAACATGGAAA
1 TTATGAAATATGAACATGGAAA
55738918 TT
1 TT
55738920 TGTTTGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 9 0.41
23 10 0.45
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (22 bp):
TTATGAAATATGAACATGGAAA
Found at i:55741991 original size:40 final size:39
Alignment explanation
Indices: 55741941--55742166 Score: 292
Period size: 40 Copynumber: 5.7 Consensus size: 39
55741931 GCTACTCACT
* *
55741941 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
* *
55741981 CAATTGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTTAGTAACTCGCA
* *
55742021 CAAATGCCTTCGGGACTTAGCCCGAATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTTAGTAACTCGCA
55742061 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
** * * *
55742101 CAAATGCCTTCGGGACTT-GCCCGGAACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
*
55742140 CAAATGCCTTCGGGACTTTGCCCGGTT
1 CAAATGCCTTCGGGACTTAGCCCGGTT
55742167 ATCATCCAAA
Statistics
Matches: 168, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 34 0.20
40 132 0.79
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:55744194 original size:20 final size:20
Alignment explanation
Indices: 55744169--55744209 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
55744159 GTTAAATTGT
55744169 GAAATAAATGAAAAATATGG
1 GAAATAAATGAAAAATATGG
55744189 GAAATAAATGAAAAATATGG
1 GAAATAAATGAAAAATATGG
55744209 G
1 G
55744210 CTACTAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.20
Consensus pattern (20 bp):
GAAATAAATGAAAAATATGG
Found at i:55744775 original size:43 final size:43
Alignment explanation
Indices: 55744679--55744801 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
55744669 ATCGATATGT
* * * *
55744679 GATTACATGTAAGACCATGTCTGGGACATTAGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAATCA
*
55744722 GATTACGTGTAAGACCATGTTTGGGACATTAGCATCGTTAATCA
1 GATTACGTGTAAGACCATGTCTGGGACATTAGCATCG-TAATCA
** * * * *
55744766 -ATTTTGTGTAAGACCCTGTCTAGGACAGTGGCATCG
1 GATTACGTGTAAGACCATGTCTGGGACATTAGCATCG
55744802 ATATGTGATA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 63 0.94
44 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAATCA
Found at i:55748323 original size:15 final size:15
Alignment explanation
Indices: 55748286--55748331 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
55748276 TTCTTGTATA
*
55748286 AAATGTTTAAATA--
1 AAATATTTAAATATT
*
55748299 AAATAATTAAATATT
1 AAATATTTAAATATT
*
55748314 AAATATTTAAAGATT
1 AAATATTTAAATATT
55748329 AAA
1 AAA
55748332 CATGAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.41
15 16 0.59
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
AAATATTTAAATATT
Found at i:55751711 original size:23 final size:23
Alignment explanation
Indices: 55751685--55751734 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
55751675 GTTTAATGGA
* *
55751685 CATTATGGAACCT-CATCCATTGT
1 CATTATGCAACCTCCA-CCATTCT
*
55751708 CATTGTGCAACCTCCACCATTCT
1 CATTATGCAACCTCCACCATTCT
55751731 CATT
1 CATT
55751735 CACAACTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (23 bp):
CATTATGCAACCTCCACCATTCT
Found at i:55760642 original size:37 final size:37
Alignment explanation
Indices: 55760583--55760691 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
55760573 AGCTCAGACG
* *
55760583 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55760620 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55760657 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55760692 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55760953 original size:98 final size:96
Alignment explanation
Indices: 55760837--55761020 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
55760827 GCACATCGCC
*
55760837 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAT-T-TTTCACATT
55760902 -GACCATTCAGCTTTACCACATATGCATATCTCA
64 AG-CCATTCAGCTTTACCACATATGCATATCTCA
* *
55760935 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATTTTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATTTTTCACATTAG
*
55761000 CCATTCGGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
55761021 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
96 29 0.36
97 2 0.02
98 50 0.62
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATTTTTCACATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:55760963 original size:48 final size:48
Alignment explanation
Indices: 55760837--55761021 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
55760827 GCACATCGCC
*
55760837 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
55760887 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
55760935 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55760983 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
55761022 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 81 0.65
49 2 0.02
50 41 0.33
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:55761023 original size:98 final size:96
Alignment explanation
Indices: 55760837--55761149 Score: 297
Period size: 94 Copynumber: 3.3 Consensus size: 96
55760827 GCACATCGCC
* * *
55760837 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACAT-T-TTTCACATT
*
55760902 GACCATTCAGCTTTACCAC--ATATGCATATCTCA
64 G-CCATTCGGCTTTACCACATATATGCATAT-TCA
55760935 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATTTTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATTTTTCACATT-G
*
55761000 CCATTCGGCTTTACCACATATATGCATGTTCA
65 CCATTCGGCTTTACCACATATATGCATATTCA
** * * * * **
55761032 T--AT-TCACCACATTGGCCATTCGGCCTTATCACACATATGCA-TGCTC--ACATTCATCACAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTA-C-CACATATACATTTCTCATACATTTTTCACAT
* * *
55761091 TGGCCATTCGGCCTTATCACATATATGCATGTTC-
63 T-GCCATTCGGCTTTACCACATATATGCATATTCA
* *
55761125 -ACAT-TCATCACATTGGCCATTCGGC
1 TACATAT-TTCACATTAGCCATTCGGC
55761150 CTTATCTCAT
Statistics
Matches: 190, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
94 65 0.34
95 21 0.11
96 30 0.16
97 15 0.08
98 59 0.31
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATTTTTCACATTGC
CATTCGGCTTTACCACATATATGCATATTCA
Found at i:55761070 original size:47 final size:47
Alignment explanation
Indices: 55760943--55761184 Score: 299
Period size: 47 Copynumber: 5.1 Consensus size: 47
55760933 CATACATATT
* * * * **
55760943 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
55760991 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
55761038 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
55761085 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
55761132 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
55761179 TCACAT
1 TCACAT
55761185 AAAATCCCAA
Statistics
Matches: 175, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
47 138 0.79
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:55761111 original size:22 final size:22
Alignment explanation
Indices: 55761084--55761155 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
55761074 GCTCACATTC
55761084 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
55761106 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
55761130 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
55761153 ATC
1 ATC
55761156 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:55761185 original size:25 final size:25
Alignment explanation
Indices: 55761106--55761185 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
55761096 ATTCGGCCTT
**
55761106 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
55761131 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
55761153 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
55761178 ATCACATA
1 ATCACATA
55761186 AAATCCCAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:55765522 original size:30 final size:30
Alignment explanation
Indices: 55765465--55765522 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
55765455 TTTTCGAGCA
* *
55765465 TAGGGGTAAAATGATCATTTTGCCAAAGTC
1 TAGGGGCAAAATGATCATTTTACCAAAGTC
* *
55765495 TAGGGGCAAAATGGTCATTTTATCAAAG
1 TAGGGGCAAAATGATCATTTTACCAAAG
55765523 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTACCAAAGTC
Found at i:55766122 original size:48 final size:46
Alignment explanation
Indices: 55765914--55766130 Score: 199
Period size: 48 Copynumber: 4.6 Consensus size: 46
55765904 AATGAGCGTT
*
55765914 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGATGATGATAGCC
* * * *
55765961 AGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGA-GTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGATGATGATAGCC
* * * ** * *
55766005 AGTGTAAGACATGTCTAGGACATGCATCAGCACGCATAGGCGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCG-AT-GATGATAGCC
*
55766053 AGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCGATGATGATAGCC
*
55766102 AGT-TAAGACCATGTCCGGGACATGACATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
55766131 TGCAACTTAT
Statistics
Matches: 139, Mismatches: 21, Indels: 19
0.78 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 31 0.22
45 1 0.01
46 7 0.05
47 32 0.23
48 34 0.24
49 22 0.16
50 8 0.06
51 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGATGATGATAGCC
Found at i:55766983 original size:55 final size:55
Alignment explanation
Indices: 55766909--55767028 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
55766899 AATCAATTTA
* ** * *
55766909 GTACAGGGGCAGGCCACACGGGTGTGTGTCGTGGCCGTGTTTTAAAGTCAGTGTT
1 GTACAGGGGCAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
* *
55766964 GTACATGGGTAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
1 GTACAGGGGCAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
* *
55767019 GCACACGGGC
1 GTACAGGGGC
55767029 TAACGGCACA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (55 bp):
GTACAGGGGCAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
Found at i:55769608 original size:64 final size:64
Alignment explanation
Indices: 55769513--55769767 Score: 305
Period size: 65 Copynumber: 4.0 Consensus size: 64
55769503 TAAGAAGATA
* ** *
55769513 AAACCACTTTAAAGAAGTGTGTTATCTAAGTTCACTTTAAAGAAGCATGTTACCTTAAAGAGGT
1 AAACCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGGT
* *
55769577 AAATCCACTTTAAA-AAGTGTGTCGTCTAAGTTTGCTTTAAAGAAGTGTGTTACCTTAAAGAGGT
1 AAA-CCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGGT
* *** * * *
55769641 AAAGCCACTTTAAAGAACTACATCATCTAATTTTGCTTTAAAGAAGTGTGTTTCCTTAAAGAGGT
1 AAA-CCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGGT
* * * * * *
55769706 AAAGCATCTTTAACGAAATGTGTCTTTTAAGTTTTCTTTAAAGAAGCGTGTTACCTTAAAGA
1 AAACCA-CTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGA
55769768 ACTAAAGCCA
Statistics
Matches: 162, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
64 62 0.38
65 100 0.62
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (64 bp):
AAACCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGGT
Found at i:55773066 original size:31 final size:32
Alignment explanation
Indices: 55773005--55773069 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
55772995 GATTTTTTGA
*
55773005 AGAAACAAATAAACTAAACTATGAAAACCTAAG
1 AGAAACAAATAAAATAAACTA-GAAAACCTAAG
55773038 AGAAACAAA-AAAATAAATCTA-AAAACCTAAG
1 AGAAACAAATAAAATAAA-CTAGAAAACCTAAG
55773069 A
1 A
55773070 TAGAATCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 11 0.37
32 7 0.23
33 12 0.40
ACGTcount: A:0.65, C:0.14, G:0.08, T:0.14
Consensus pattern (32 bp):
AGAAACAAATAAAATAAACTAGAAAACCTAAG
Found at i:55773172 original size:35 final size:35
Alignment explanation
Indices: 55773125--55773198 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
55773115 ATCCTATTTA
* *
55773125 TAGCCTTTAGGTAGCCG-CTGTCCTTAACCCTAGGT
1 TAGCCTTCAGGTAGCCGTC-ATCCTTAACCCTAGGT
*
55773160 TAGCCTTCAGGTAGTCGTCATCCTTAACCCTAGGT
1 TAGCCTTCAGGTAGCCGTCATCCTTAACCCTAGGT
55773195 TAGC
1 TAGC
55773199 TAATGTTCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (35 bp):
TAGCCTTCAGGTAGCCGTCATCCTTAACCCTAGGT
Found at i:55778523 original size:20 final size:21
Alignment explanation
Indices: 55778498--55778537 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
55778488 CACTTGAAAC
*
55778498 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
55778518 AGGGCAACACACCGGTGTGG
1 AGGGCAACACACCCGTGTGG
55778538 TCATTATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:55779820 original size:96 final size:98
Alignment explanation
Indices: 55779710--55779891 Score: 262
Period size: 96 Copynumber: 1.9 Consensus size: 98
55779700 AGGGTATGAT
* * * *
55779710 GCCGATGCCATGTCCCGGACATGGTCTTACCCTGGCTCATC-C-AT-CAAGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATCCAAGCCGATGACATGTCC
*
55779772 CAGACATGGTCTTACACTGACTTTCAAAATCTAG
65 CAAACATGGTCTTACACTGACTTTCAAAATCTAG
**
55779806 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGACATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCCAAGCCGATGACATGTCC
55779871 CAAACATGGTCTTACACTGAC
65 CAAACATGGTCTTACACTGAC
55779892 ACATCTCGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 2 0.03
96 36 0.48
98 2 0.03
99 35 0.47
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (98 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCCAAGCCGATGACATGTCCC
AAACATGGTCTTACACTGACTTTCAAAATCTAG
Found at i:55779906 original size:96 final size:95
Alignment explanation
Indices: 55779710--55779932 Score: 251
Period size: 96 Copynumber: 2.3 Consensus size: 95
55779700 AGGGTATGAT
* * * * *
55779710 GCCGATGCCATGTCCCGGACATGGTCTTACCCTGGCTCATCCATCAAGCCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGACATGTCCCAA
*
55779775 ACATGGTCTTACACTGACTTTCAAAATCTAG
66 ACATGGTCTTACACTGAC-TACAAAATCTAG
**
55779806 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGTGCCGATGACATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C--AT-CAAGCCGATGACATGTC
**
55779870 CCAAACATGGTCTTACACTGAC-AC-ATCTCGTA-
62 CCAAACATGGTCTTACACTGACTACAAAATC-TAG
*
55779902 GCCGATG-CATGTCCCAAACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
55779933 GGCTTACATC
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
94 10 0.09
95 15 0.14
96 46 0.41
97 3 0.03
98 2 0.02
99 35 0.32
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.25
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGACATGTCCCAA
ACATGGTCTTACACTGACTACAAAATCTAG
Found at i:55779943 original size:46 final size:46
Alignment explanation
Indices: 55779756--55780070 Score: 234
Period size: 46 Copynumber: 6.7 Consensus size: 46
55779746 TCATCCATCA
* * * *
55779756 AGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTTTCAAAATC-T
1 AGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTAC-ATATCGT
* *
55779804 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT
1 A-GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ACATAT-CGT
* *
55779856 -GCCGATGACATGTCCCAAACATGGTCTTACACTGAC--ACATCTCGT
1 AGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATATCGT
*
55779901 AGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTC-T
1 AGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGT
* * * * * * * *
55779946 AGGTCGATGCTTGTCCTAGACATGTCTTACACTAGC-T-CTTGTCTT
1 A-GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGT
* *
55779991 AACACCGATGCATGTCTCAAACATGTCTTACACTGGCTCT-CATAAT-GT
1 -A-GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-ATCGT
* *
55780039 GGCCGATGCATGTCCCATACATGTCTTACACT
1 AGCCGATGCATGTCCCAAACATGTCTTACACT
55780071 AGCACACAAA
Statistics
Matches: 221, Mismatches: 32, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
44 16 0.07
45 21 0.10
46 104 0.47
48 5 0.02
49 36 0.16
50 36 0.16
51 2 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
AGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGT
Found at i:55780003 original size:92 final size:92
Alignment explanation
Indices: 55779807--55780073 Score: 265
Period size: 92 Copynumber: 2.9 Consensus size: 92
55779797 AAAATCTAGG
* * * *
55779807 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGACATGTCCC
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATA-ATCTG-GCCGATG-CATGTCCC
* * * * * *
55779872 AAACATGGTCTTACACT-GACACATCTCGT-A-G
61 AGACAT-GTCTTACACTAG-CTCTTGTCTTAACA
* * * *
55779903 CCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCTAGGTCGATGCTTGTCCTAGA
1 CCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAATCT-GGCCGATGCATGTCCCAGA
55779966 CATGTCTTACACTAGCTCTTGTCTTAACA
64 CATGTCTTACACTAGCTCTTGTCTTAACA
* * *
55779995 CCGATGCATGTCTCAAACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCATACA
1 CCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATCTGGCCGATGCATGTCCCAGACA
55780060 TGTCTTACACTAGC
66 TGTCTTACACTAGC
55780074 ACACAAATAA
Statistics
Matches: 143, Mismatches: 21, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
90 16 0.11
91 13 0.09
92 75 0.52
93 5 0.03
94 15 0.10
95 13 0.09
96 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (92 bp):
CCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATCTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTCTTGTCTTAACA
Found at i:55780049 original size:138 final size:142
Alignment explanation
Indices: 55779711--55780070 Score: 342
Period size: 138 Copynumber: 2.5 Consensus size: 142
55779701 GGGTATGATG
* ** * * * * *
55779711 CCGATGCCATGTCCCGGACATGGTCTTACCCTGGCTCATCCATC-AAGCCGATGCCATGTCCCAG
1 CCGATGACATGTCCCAAACATGGTCTTACACTGACACAT-C-TCGTAGCCGATG-CATGTCCCAA
*
55779775 ACATGGTCTTACACTGACTTTCAAAATCTAGGCCGATGCCATGTCCCAGACATGGTCTTACACTA
63 ACAT-GTCTTACACTGACTTACAAAATCTAGGCCGATGCCATGTCCCAGACATGGTCTTACACTA
* *
55779840 GCTCTCACATATCCGTG
127 GCTCTCACATATACG-A
55779857 CCGATGACATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAAACA
1 CCGATGACATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAAACA
* ** * * *
55779922 TGTCTTACACTGGCTTAC-ATCTCTAGGTCGATG-CTTGTCCTAGACAT-GTCTTACACTAGCTC
66 TGTCTTACACTGACTTACAAAATCTAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
** *
55779984 TTGTCTTA-AC-A
131 -TCACATATACGA
* * * * * *
55779995 CCGATG-CATGTCTCAAACAT-GTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCCCAT
1 CCGATGACATGTCCCAAACATGGTCTTACACTGACACATC-T--CGTAGCCGATGCATGTCCCAA
55780057 ACATGTCTTACACT
63 ACATGTCTTACACT
55780071 AGCACACAAA
Statistics
Matches: 183, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
135 2 0.01
136 14 0.08
137 13 0.07
138 38 0.21
140 16 0.09
141 16 0.09
142 12 0.07
143 15 0.08
144 15 0.08
145 9 0.05
146 33 0.18
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (142 bp):
CCGATGACATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAAACA
TGTCTTACACTGACTTACAAAATCTAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
TCACATATACGA
Found at i:55780945 original size:39 final size:39
Alignment explanation
Indices: 55780889--55781025 Score: 204
Period size: 39 Copynumber: 3.5 Consensus size: 39
55780879 TAAGCCTTCG
** *
55780889 GGACTTTAAG-CCTGGATATATTTCTAGCATGTAGCCTGC
1 GGACTTTAAGTCC-GGATATATTTCCCGCATATAGCCTGC
* *
55780928 GGACCTGAAGTCCGGATATATTTCCCGCATATAGCCTGC
1 GGACTTTAAGTCCGGATATATTTCCCGCATATAGCCTGC
55780967 GGACTTTAAGTCCGGATATATTTCCCGCATATAGCCTGC
1 GGACTTTAAGTCCGGATATATTTCCCGCATATAGCCTGC
*
55781006 AGACTTTAAGTCCGGATATA
1 GGACTTTAAGTCCGGATATA
55781026 ATTTTCAAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 87 0.98
40 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (39 bp):
GGACTTTAAGTCCGGATATATTTCCCGCATATAGCCTGC
Found at i:55790832 original size:46 final size:45
Alignment explanation
Indices: 55790698--55790959 Score: 221
Period size: 46 Copynumber: 5.6 Consensus size: 45
55790688 AATCGAGGCT
* * *
55790698 GATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCACATATCTGTGCC
1 GATG-CATGTCCCAGACA-TGTCTTACACT-G-TCTTACATCTCT-AGCC
**
55790748 GATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTCATAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGTCTTACATCTC-TAGCC
* * *
55790794 GATGGATGTCCCAGACATCTCTTACACTGTCTTACATCTCGAGCCC
1 GATGCATGTCCCAGACATGTCTTACACTGTCTTACATCTCTAG-CC
*
55790840 GATGCATGTCCCAGACATGTCTTACACTAG-CTCT-CATCT-TAATACC
1 GATGCATGTCCCAGACATGTCTTACACT-GTCT-TACATCTCT-A-GCC
* * * *
55790886 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGTCT-TACAT-CTCTAGCC
*
55790932 GATGCATGTCTCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
55790960 AGCACACAAA
Statistics
Matches: 183, Mismatches: 17, Indels: 28
0.80 0.07 0.12
Matches are distributed among these distances:
44 10 0.05
45 16 0.09
46 122 0.67
47 4 0.02
48 2 0.01
49 1 0.01
50 28 0.15
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGTCTTACATCTCTAGCC
Found at i:55790888 original size:92 final size:91
Alignment explanation
Indices: 55790698--55790967 Score: 307
Period size: 92 Copynumber: 2.9 Consensus size: 91
55790688 AATCGAGGCT
*
55790698 GATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATGTCCCAG
1 GATG-CATGTCCCAGACA-TGTCTTACACT-G-TCTTACATATC-GTGCCGATG-CATGTCCCAG
*
55790763 ACATGGTCTTACACTA--ACACATCTCATAGCC
60 ACAT-GTCTTACACTAGCACACATCTAATAGCC
* * * *
55790794 GATGGATGTCCCAGACATCTCTTACACTGTCTTACATCTCGAGCCCGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGTCTTACATATCGTG-CCGATGCATGTCCCAGACATG
* *
55790859 TCTTACACTAGCTCTCATCTTAATA-CC
65 TCTTACACTAGCACACATC-TAATAGCC
* *
55790886 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCTCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGTCT-TACAT-ATCGT-GCCGATGCATGTCCCAGACA
55790949 TGTCTTACACTAGCACACA
63 TGTCTTACACTAGCACACA
55790968 AATGACCCAA
Statistics
Matches: 151, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
90 11 0.07
91 16 0.11
92 90 0.60
93 8 0.05
94 10 0.07
95 12 0.08
96 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (91 bp):
GATGCATGTCCCAGACATGTCTTACACTGTCTTACATATCGTGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACACATCTAATAGCC
Found at i:55790941 original size:138 final size:142
Alignment explanation
Indices: 55790603--55790959 Score: 336
Period size: 138 Copynumber: 2.5 Consensus size: 142
55790593 TATAATGCCA
* * * * * * *
55790603 ATGCCATGTCCCAGATATGGTCTTACACTAGCTCATC-CATCAAGTCTATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTAAT--AGCCGATG-CATGTCCCAGACA
* * * * ** * *
55790667 TGGTCTTATACTGACTTTCGAAATCGAGGCTGATGCCATGTCCCAGACATTGTCTTACACTAGCT
63 T-CTCTTACACTGTCTTAC-ATCTCGAGCCCGATGCCATGTCCCAGACATTGTCTTACACTAGCT
** *
55790732 CTCACATATCTGTGCCG
126 CTCACATATCAATACCG
* *
55790749 ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCATAGCCGATGGATGTCCCAGACATCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTAATAGCCGATGCATGTCCCAGACATCT
55790814 CTTACACTGTCTTACATCTCGAGCCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCTCAT
66 CTTACACTGTCTTACATCTCGAGCCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCA-
55790877 C-T-T-AATACCG
130 CATATCAATACCG
** * * *
55790887 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCTCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATC-TAA--TAGCCGATGCATGTCCCAGACA
*
55790949 TGTCTTACACT
63 TCTCTTACACT
55790960 AGCACACAAA
Statistics
Matches: 180, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
135 2 0.01
136 14 0.08
137 14 0.08
138 36 0.20
139 1 0.01
140 20 0.11
141 14 0.08
142 11 0.06
143 13 0.07
144 12 0.07
145 6 0.03
146 34 0.19
147 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (142 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTAATAGCCGATGCATGTCCCAGACATCT
CTTACACTGTCTTACATCTCGAGCCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCAC
ATATCAATACCG
Found at i:55791048 original size:15 final size:15
Alignment explanation
Indices: 55791028--55791059 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55791018 CCGGGAGTCC
55791028 TACTATCTCAATATT
1 TACTATCTCAATATT
55791043 TACTATCTCAATATT
1 TACTATCTCAATATT
55791058 TA
1 TA
55791060 TCATACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (15 bp):
TACTATCTCAATATT
Found at i:55794073 original size:20 final size:20
Alignment explanation
Indices: 55794048--55794087 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55794038 AATACCAAAC
55794048 TTGTAATTATTTTATTTTTA
1 TTGTAATTATTTTATTTTTA
55794068 TTGTAATTATTTTATTTTTA
1 TTGTAATTATTTTATTTTTA
55794088 GTATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTGTAATTATTTTATTTTTA
Found at i:55795014 original size:37 final size:38
Alignment explanation
Indices: 55794973--55795046 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
55794963 GAGGGTTAAG
*
55794973 TCTTAA-AGTTTGGGTAGAAACCTTAAGGGAG-TTGTAC
1 TCTTAAGA-TTTGGGTAAAAACCTTAAGGGAGATTGTAC
* *
55795010 TCTTAAGATTTTGGTAAAAATCTTAAGGGAGATTGTA
1 TCTTAAGATTTGGGTAAAAACCTTAAGGGAGATTGTA
55795047 AGGTTAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 26 0.81
38 6 0.19
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (38 bp):
TCTTAAGATTTGGGTAAAAACCTTAAGGGAGATTGTAC
Done.