Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 127 of 427
Found at i:33793628 original size:54 final size:54
Alignment explanation
Indices: 33793569--33793719 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
33793559 TACCCCACAA
** * * *
33793569 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* ** *
33793623 TGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
33793677 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
33793720 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.02
54 81 0.98
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:33793685 original size:81 final size:81
Alignment explanation
Indices: 33793567--33793719 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
33793557 TTTACCCCAC
** **
33793567 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATTGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
33793631 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
33793648 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
33793712 TGGTAATT
65 TGGTAATT
33793720 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:33793726 original size:27 final size:27
Alignment explanation
Indices: 33793596--33793719 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
33793586 TACCCTACAG
* *
33793596 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
* *
33793623 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
33793650 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
33793677 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
33793704 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
33793720 CTGTAAATTG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:33793733 original size:27 final size:27
Alignment explanation
Indices: 33793703--33793773 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
33793693 TTATAAACCA
* *
33793703 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
33793730 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
33793757 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
33793774 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:33793735 original size:54 final size:54
Alignment explanation
Indices: 33793596--33793719 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
33793586 TACCCTACAG
* **
33793596 GGGTATTTTAGTAATTTTTCAAACCATTGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
33793650 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
33793704 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
33793720 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:33798110 original size:30 final size:30
Alignment explanation
Indices: 33798074--33798233 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
33798064 GACAAGATTG
* * * * *
33798074 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
33798104 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
33798132 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
33798161 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
33798191 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
33798220 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33798234 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:33798201 original size:59 final size:57
Alignment explanation
Indices: 33798074--33798233 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
33798064 GACAAGATTG
* * * * * *
33798074 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
33798132 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
33798191 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
33798234 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:33807903 original size:42 final size:42
Alignment explanation
Indices: 33807800--33807959 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
33807790 ATATGTGTTA
* ** *
33807800 TCGTGTAAGACCACATCTGGGATGTTGGCATCGAATTATGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT-TGATT
*
33807843 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
* * ** * * *
33807886 TTGTGTAAGACCATGTCTGCAACAGTGGCAGCCATATTTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCA-TCGTATTTGATT
* * * *
33807929 ACATGTAATACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
33807960 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 21, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
42 25 0.27
43 38 0.40
44 31 0.33
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:33807924 original size:43 final size:42
Alignment explanation
Indices: 33807846--33807928 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
33807836 TATGATTTAC
** * * *
33807846 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTT
1 GTGTAAGACCATGTCTGCAACAGTGGCACCATATTTGATTTT
33807888 GTGTAAGACCATGTCTGCAACAGTGGCAGCCATATTTGATT
1 GTGTAAGACCATGTCTGCAACAGTGGCA-CCATATTTGATT
33807929 ACATGTAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGCAACAGTGGCACCATATTTGATTTT
Found at i:33812620 original size:5 final size:5
Alignment explanation
Indices: 33812610--33812635 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33812600 CAAGTTATAC
33812610 GAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA G
33812636 TTGATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:33815840 original size:49 final size:49
Alignment explanation
Indices: 33815773--33816017 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 49
33815763 TAGACAAGGC
* * * *
33815773 TATCTGGTACGCAAAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
33815822 TAT-GCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGTCCTAAC
1 TATCG-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
33815872 CATCTGATACACATAGTAGCCTGCACTTAGTATTACACACGTGATCGAAGT
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
** *
33815923 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * *
33815972 TATCCGCTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
33816018 TCACAATAGA
Statistics
Matches: 158, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 77 0.49
50 44 0.28
51 37 0.23
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:33816284 original size:27 final size:27
Alignment explanation
Indices: 33816244--33816297 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33816234 AGGTACAACC
* *
33816244 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
33816271 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
33816298 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:33819189 original size:39 final size:39
Alignment explanation
Indices: 33819135--33819297 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
33819125 TGTGAATGAA
33819135 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
33819174 TGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
33819213 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
33819252 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
33819292 TGTGCG
1 TGTGCG
33819298 GGTTACCATA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 97 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33826091 original size:56 final size:56
Alignment explanation
Indices: 33826030--33826163 Score: 187
Period size: 56 Copynumber: 2.4 Consensus size: 56
33826020 CATGGCATCA
* * * **
33826030 ATATATATGTGTGAGTAAGACCACATTTACTACGTTGACATCTATATGTGACTTTG
1 ATATATGTGTGTGAGTAAGACCACATTTAATACGTTGACATCGATATGTGACTCCG
* * *
33826086 ATATATGTGTGCGAGTAAGACCACCTTTAATACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGTGAGTAAGACCACATTTAATACGTTGACATCGATATGTGACTCCG
*
33826142 ACATATGTGTGTGAGTAAGACC
1 ATATATGTGTGTGAGTAAGACC
33826164 CTATCTAGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (56 bp):
ATATATGTGTGTGAGTAAGACCACATTTAATACGTTGACATCGATATGTGACTCCG
Found at i:33830771 original size:19 final size:21
Alignment explanation
Indices: 33830736--33830774 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
33830726 TCTTGGTGAA
33830736 ATTTTATCTTATTTAATCTTG
1 ATTTTATCTTATTTAATCTTG
33830757 ATTTTAT-TT-TTTAATCTT
1 ATTTTATCTTATTTAATCTT
33830775 ACGGATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (21 bp):
ATTTTATCTTATTTAATCTTG
Found at i:33835738 original size:23 final size:23
Alignment explanation
Indices: 33835712--33835757 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33835702 AATACTTAAA
33835712 GTGCAACCAATTCAATTAGCAAT
1 GTGCAACCAATTCAATTAGCAAT
33835735 GTGCAACCAATTCAATTAGCAAT
1 GTGCAACCAATTCAATTAGCAAT
33835758 CACCTAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (23 bp):
GTGCAACCAATTCAATTAGCAAT
Found at i:33849143 original size:27 final size:27
Alignment explanation
Indices: 33849112--33849614 Score: 171
Period size: 27 Copynumber: 18.6 Consensus size: 27
33849102 TTAGTTTACC
* *
33849112 AAATTACTGAAATACCCTTGACTTATA
1 AAATTACTGAAATACCCTCGATTTATA
* * *
33849139 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTATA
** * *
33849166 AAATTACCCAAATATCCTCAATTTGA-A
1 AAATTACTGAAATACCCTCGATTT-ATA
* **
33849193 AAATTACAGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTATA
*
33849220 AAATTACTGAAATACCCTCGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTATA
* * * **
33849248 AAATTATTGAAATACTCTTG-TAAGATA
1 AAATTACTGAAATACCCTCGAT-TTATA
* * **
33849275 GAATTAC-CATTTTACCCTCGATTTATA
1 AAATTACTGA-AATACCCTCGATTTATA
* ** * *
33849302 AAATTAC-CATTTTACTCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTATA
* * *** *
33849329 GAATTACCGTCTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTATA
* * ** *
33849356 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTATA
* * * *
33849383 AAATTACTGAAATACCTTTGGTTTACA
1 AAATTACTGAAATACCCTCGATTTATA
** * **
33849410 AAATTACCAAAATACCCTTGATCAATA
1 AAATTACTGAAATACCCTCGATTTATA
** * *
33849437 AAATTACCAAAATAGCCCT-GGTTTGTA
1 AAATTACTGAAATA-CCCTCGATTTATA
* * *
33849464 AAATTACTAAAATATCCCT-GGTTTGTA
1 AAATTACTGAAATA-CCCTCGATTTATA
* *
33849491 AAATTACTAAAATACCCCCGATTTATA
1 AAATTACTGAAATACCCTCGATTTATA
* * *** *
33849518 GAATTATTGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTATA
* *** * *
33849545 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACTGAAATACCCTCGATTTATA
* * *** * *
33849572 AATTTACCGTTTTACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTATA
33849598 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
33849615 CTATAGGGTA
Statistics
Matches: 377, Mismatches: 85, Indels: 29
0.77 0.17 0.06
Matches are distributed among these distances:
26 23 0.06
27 320 0.85
28 34 0.09
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTATA
Found at i:33849426 original size:81 final size:81
Alignment explanation
Indices: 33849272--33849553 Score: 212
Period size: 81 Copynumber: 3.5 Consensus size: 81
33849262 CTCTTGTAAG
* * ** * * *
33849272 ATAGAATTACCATTTTACCCTCGATTTATAAAATTAC-CATTTTA-CTCTCGATTTACAGAATTA
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGA-AATACCT-TTGGTTTACAAAATTA
****
33849335 CCGTCTTACCCTCGATTT
64 CCAAAATACCCTCGATTT
*
33849353 ACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCTTTGGTTTACAAAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCTTTGGTTTACAAAATTACC
* **
33849418 AAAATACCCTTGATCA
66 AAAATACCCTCGATTT
* *** * ** * * **
33849434 ATAAAATTACCAAAATAGCCCT-GGTTTGTAAAATTACTAAAATATCC-CTGGTTTGTAAAATTA
1 ATAGAATTACCATTTTA-CCCTCGATTTACAAAATTACTGAAATA-CCTTTGGTTTACAAAATTA
* *
33849497 CTAAAATACCCCCGATTT
64 CCAAAATACCCTCGATTT
*** *
33849515 ATAGAATTATTGTTTTACCCTCGATTTACAGAATTACTG
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACTG
33849554 TTTTACCCTT
Statistics
Matches: 152, Mismatches: 44, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
80 4 0.03
81 139 0.91
82 9 0.06
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCTTTGGTTTACAAAATTACC
AAAATACCCTCGATTT
Found at i:33849758 original size:81 final size:81
Alignment explanation
Indices: 33849557--33849758 Score: 182
Period size: 81 Copynumber: 2.5 Consensus size: 81
33849547 ATTACTGTTT
* * * *** *
33849557 TACCCTTGATTTACAAATTTACCGTTTTACCCTCGA-TTGTGAAATTACTGAAATACCCCTATAG
1 TACCCCTGATTTACAAAATTACAGAAATACCCTTGATTTGTGAAATTACTGAAATACCCCTATAG
*
33849621 GGTAGAATTACCAAAA
66 GGTAAAATTACCAAAA
* ** * *
33849637 CACCCCT-AGTTTGTAAAATTACCA-AAATACCAC-TGGTTTGTGAAATTA-TCGAAATACCCTT
1 TACCCCTGA-TTTACAAAATTA-CAGAAATACC-CTTGATTTGTGAAATTACT-GAAATACCCCT
**
33849698 A-ATTTGTAAAATTACCAAAA
62 ATA-GGGTAAAATTACCAAAA
33849718 TACCCCTGATTTACAAAATTACAGAAATACCCTTGATTTGT
1 TACCCCTGATTTACAAAATTACAGAAATACCCTTGATTTGT
33849759 AGATTTACCA
Statistics
Matches: 94, Mismatches: 19, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
79 1 0.01
80 24 0.26
81 68 0.72
82 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (81 bp):
TACCCCTGATTTACAAAATTACAGAAATACCCTTGATTTGTGAAATTACTGAAATACCCCTATAG
GGTAAAATTACCAAAA
Found at i:33849777 original size:27 final size:27
Alignment explanation
Indices: 33849112--33849779 Score: 159
Period size: 27 Copynumber: 24.7 Consensus size: 27
33849102 TTAGTTTACC
** * *
33849112 AAATTACTGAAATACCCTTGACTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* *** *
33849139 AAATTACCAAAGTACCCCCAATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * ** *
33849166 AAATTACCCAAATATCCTCAATTTGAA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
33849193 AAATTA-CAGAAATACCC-TCAGTTTGCA
1 AAATTACCA-AAATACCCTTGA-TTTGTA
** *
33849220 AAATTACTGAAATACCCTCGATTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
*** * **
33849248 AAATTATTGAAATACTCTTG-TAAGATA
1 AAATTACCAAAATACCCTTGATTTG-TA
* *** * *
33849275 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*** * * **
33849302 AAATTACCATTTTACTCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* **** * **
33849329 GAATTACCGTCTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* *** * **
33849356 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
** * * **
33849383 AAATTACTGAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
***
33849410 AAATTACCAAAATACCCTTGATCAATA
1 AAATTACCAAAATACCCTTGATTTGTA
*
33849437 AAATTACCAAAATAGCCC-TGGTTTGTA
1 AAATTACCAAAATA-CCCTTGATTTGTA
* *
33849464 AAATTACTAAAATATCCC-TGGTTTGTA
1 AAATTACCAAAATA-CCCTTGATTTGTA
* ** *
33849491 AAATTACTAAAATACCCCCGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* ****** * **
33849518 GAATTATTGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* ***** **
33849545 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* **** * *
33849572 AATTTACCGTTTTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
** * **
33849598 AAATTACTGAAATACCCCT-ATAGGGTA
1 AAATTACCAAAATACCCTTGAT-TTGTA
* * *
33849625 GAATTACCAAAACACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
33849652 AAATTACCAAAATACCAC-TGGTTTGTG
1 AAATTACCAAAATACC-CTTGATTTGTA
* * *
33849679 AAATTATCGAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* **
33849706 AAATTACCAAAATACCCCTGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
33849733 AAATTA-CAGAAATACCCTTGATTTGTA
1 AAATTACCA-AAATACCCTTGATTTGTA
* * *
33849760 GATTTACCAAAACACCCTTG
1 AAATTACCAAAATACCCTTG
33849780 TAGGATGAAA
Statistics
Matches: 496, Mismatches: 129, Indels: 32
0.75 0.20 0.05
Matches are distributed among these distances:
25 1 0.00
26 24 0.05
27 440 0.89
28 31 0.06
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:33850607 original size:20 final size:20
Alignment explanation
Indices: 33850582--33850668 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
33850572 GATATGATAT
*
33850582 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
33850602 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
33850622 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
33850642 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
33850662 ACATGAT
1 ACATGAT
33850669 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:33850841 original size:25 final size:26
Alignment explanation
Indices: 33850718--33850879 Score: 233
Period size: 26 Copynumber: 6.3 Consensus size: 26
33850708 GAGGAAGTGC
33850718 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
33850744 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
33850770 AAAATGGCTTATGACCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33850796 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33850822 AAAAGGGCTT-TGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
33850847 AAAAGGGCTT-TACCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
33850870 AAAAGAGGCT
1 AAAAG-GGCT
33850880 AGGCCTCTAG
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
23 5 0.04
24 9 0.07
25 32 0.26
26 78 0.63
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:33855013 original size:40 final size:40
Alignment explanation
Indices: 33854938--33855130 Score: 230
Period size: 40 Copynumber: 4.8 Consensus size: 40
33854928 TTCTAGCACA
* * * *
33854938 AGCCCGCGGGTCTTTAA-CCCTGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCA-TAT
* * * *
33854977 AGCCTGCCGGTCTTTAAACTCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
* * *
33855017 AGCCTACGAGTCTTTAAGCCCAGATACTATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
* *
33855057 AGCCTGCGGGTTTTTAAG-CCTGAATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCAG-ATACAATTCCAGCATAT
33855097 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCA
33855131 TCAAATAACA
Statistics
Matches: 130, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 19 0.15
40 108 0.83
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
Found at i:33862781 original size:40 final size:40
Alignment explanation
Indices: 33862724--33862907 Score: 221
Period size: 40 Copynumber: 4.7 Consensus size: 40
33862714 TAAGCTCGCG
* * *
33862724 GGTCTTTAA-CCCTGATACCATTCCAGCACGA-AGCCTGCA
1 GGTCTTTAAGCCCAGATACAATTCCAGCA-TATAGCCTGCA
* * *
33862763 GGTCTTTAAACCCGGATACAATTCCAGCATATAGCCT-AA
1 GGTCTTTAAGCCCAGATACAATTCCAGCATATAGCCTGCA
** * *
33862802 GGAATTTAAGCCCAAATACAATTCCAGCATATAGCCTGCG
1 GGTCTTTAAGCCCAGATACAATTCCAGCATATAGCCTGCA
*
33862842 GGTCTTTAAGCCCAGATACAATTCCAGCATATAGCCTGCG
1 GGTCTTTAAGCCCAGATACAATTCCAGCATATAGCCTGCA
**
33862882 GGTCTTTAAGCCTGGATACAATTCCA
1 GGTCTTTAAGCCCAGATACAATTCCA
33862908 TCAAATATCA
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 43 0.34
40 83 0.66
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (40 bp):
GGTCTTTAAGCCCAGATACAATTCCAGCATATAGCCTGCA
Found at i:33866963 original size:29 final size:28
Alignment explanation
Indices: 33866929--33867031 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
33866919 TACTCAATCA
*
33866929 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
33866958 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
33866987 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
33867016 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
33867032 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:33873945 original size:29 final size:28
Alignment explanation
Indices: 33873911--33874013 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
33873901 TACTCAATCA
*
33873911 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
33873940 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
33873969 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
33873998 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
33874014 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:33876365 original size:46 final size:47
Alignment explanation
Indices: 33876309--33876480 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 47
33876299 TATGTGTGCT
33876309 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATCAATATGAGAGCC
* ** * *
33876355 AGTGTAAGACATGTTTGGGACATGCATTGGCCATGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATCA-ATA-TGAGAGCC
** * * ** * * *
33876403 AGTGTAAGGTATGTCTAGGACATGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATCAATATGAGAGCC
33876449 AGTGTAAGACATGTCTGGGACATGCATCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC
33876481 TCGCGATATA
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 60 0.60
47 7 0.07
48 30 0.30
49 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATCAATATGAGAGCC
Found at i:33883156 original size:37 final size:36
Alignment explanation
Indices: 33883106--33883192 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
33883096 TACGAAGTCT
33883106 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
33883142 GTACCCGGACATAATCTCCACACGTAGTCATTGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
33883179 TCACCCGGAACATA
1 T-ACCCGG-ACATA
33883193 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:33883330 original size:49 final size:49
Alignment explanation
Indices: 33883261--33883621 Score: 560
Period size: 49 Copynumber: 7.4 Consensus size: 49
33883251 TTTACCACAT
*
33883261 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
33883310 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
33883359 ATATACATATACTTTCACATTCACCACATCGGCCATTAGTCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
33883408 ATATACATATACTTTCACATTCATCACATCGACCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
33883457 ATATACATATACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
33883506 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
33883555 ATATATAAACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
33883604 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
33883622 GAATCTTGAT
Statistics
Matches: 292, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 292 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:33889927 original size:21 final size:20
Alignment explanation
Indices: 33889893--33889932 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33889883 GTCATAAAGA
*
33889893 CCACACGAGTGTGTTACCCTT
1 CCACACGAGCGTG-TACCCTT
*
33889914 CCACACGGGCGTGTACCCT
1 CCACACGAGCGTGTACCCT
33889933 ATTTTCAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.23
Consensus pattern (20 bp):
CCACACGAGCGTGTACCCTT
Found at i:33896083 original size:93 final size:93
Alignment explanation
Indices: 33895924--33896094 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
33895914 GGATGGTTGA
* * * * * *
33895924 GCATCCGAACTCGTTTAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
33895989 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
33896017 GCATCCAAACTCGTTGAGTTGAGCCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
33896082 TGAGTCCGCGTTC
66 TGAGTCCGAGTTC
33896095 ACTTAGGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33896361 original size:19 final size:20
Alignment explanation
Indices: 33896324--33896361 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33896314 ATAAGGTGGT
33896324 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
33896344 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
33896362 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:33901013 original size:80 final size:81
Alignment explanation
Indices: 33900797--33901061 Score: 328
Period size: 80 Copynumber: 3.3 Consensus size: 81
33900787 TCGAATGATG
* * *
33900797 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAT-ATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCCGGGCTAAG-TCCCGAAGGCA
*
33900859 TTTGTGCAAGTTACTAAA
64 TTTGTGCGAGTTACTAAA
* * * * *
33900877 TCCGAGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATGCGGGTTAAGTCCCGAAGTCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCCGAAGGCATT
*
33900940 TGTGTGAGTTACTAAA
66 TGTGCGAGTTACTAAA
* *
33900956 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCCGAAGGCATT
*
33901020 TGTGCGAATTACTATAA
66 TGTGCGAGTTACTA-AA
*
33901037 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33901062 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.37
80 96 0.60
81 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTCCCGAAGGCATT
TGTGCGAGTTACTAAA
Found at i:33901075 original size:40 final size:39
Alignment explanation
Indices: 33900798--33901080 Score: 227
Period size: 40 Copynumber: 7.1 Consensus size: 39
33900788 CGAATGATGT
* * *
33900798 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTATGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* * *
33900838 CCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTA-AA
1 CCGGGCTATG-TCCCGAAGGCATTTGTGCGAG-TACTATAA
* * *
33900877 TCCGAGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTATGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* * * * *
33900916 TGCGGGTTAAGTCCCGAAGTCATTTGTGTGAGTTACTA-AA
1 -CCGGGCTATGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
33900956 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTATGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
33900997 TCGGGCTATGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 CCGGGCTATGTCCCGAAGGCATTTGTGCG-AGTACTATAA
** *
33901037 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTA-CTATAA
33901077 CCGG
1 CCGG
33901081 TTAAACTCCG
Statistics
Matches: 213, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
39 41 0.19
40 160 0.75
41 12 0.06
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:33901092 original size:159 final size:159
Alignment explanation
Indices: 33900797--33901093 Score: 349
Period size: 159 Copynumber: 1.9 Consensus size: 159
33900787 TCGAATGATG
33900797 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
* ** * *
33900862 GTGCAAGTTACTAAATCCGAGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATGCGGGTTAAG
66 GTGCAAGTTACTAAATCCGAGCTAAGTCCGAAGGCATTTGAACGAGTTACTAAATGCCGGTTAAC
33900927 TCCCGAAGTCATTTGTGTGAGTTACTAAA
131 TCCCGAAGTCATTTGTGTGAGTTACTAAA
* * * * *
33900956 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAT-CGGGCTATG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAT-ATCCGGACTAAGAT-CCGAAGGCA
* * *
33901018 TTTGTGCGAA-TTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATAT-CC
63 TTTGTGC-AAGTTACTA-AATCCGAGCTAAGT-CCGAAGGCATTTGAACGAGTTA-CTAAATGCC
33901079 GGTTAAACT-CCGAAG
124 GGTT-AACTCCCGAAG
33901094 GTACGTGATT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
158 1 0.01
159 78 0.67
160 38 0.32
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (159 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCAAGTTACTAAATCCGAGCTAAGTCCGAAGGCATTTGAACGAGTTACTAAATGCCGGTTAAC
TCCCGAAGTCATTTGTGTGAGTTACTAAA
Found at i:33908823 original size:40 final size:40
Alignment explanation
Indices: 33908744--33909005 Score: 341
Period size: 40 Copynumber: 6.5 Consensus size: 40
33908734 ATGATGTCCT
* * *
33908744 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* *
33908784 GACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
33908824 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATGCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
33908864 GGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
33908904 GGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
* * *
33908944 GGCTATGTCCCGAAGGCATTTGTACGAGTTACTAAAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
33908984 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
33909006 AATGAGTAGC
Statistics
Matches: 202, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.01
40 189 0.94
41 10 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:33909012 original size:120 final size:119
Alignment explanation
Indices: 33908744--33909038 Score: 332
Period size: 120 Copynumber: 2.5 Consensus size: 119
33908734 ATGATGTCCT
** * * *
33908744 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTG-AATGAGTAG-CTAAATCCGG-TTAAGATCCGAAGGCATTTGT
* * **
33908807 GCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATGCG
63 GCAAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAAACCG
* **
33908864 GGTTAAGTCCCGAAGGCATTTGTGTGAGTTA-CTAAATCCGGGTTAAG-TCCTGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGAATGAG-TAGCTAAATCC-GGTTAAGATCC-GAAGGCATTTGT
* *
33908927 GCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGTACGAGTTACTAAAACCG
63 GCAAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAAACCG
* *
33908984 GGCTATGTCCCGAAGGCATTTGAATGAGTAGCTATATCCGGTTAA-ACTCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTAAATCCGGTTAAGA-TCCGAAGG
33909039 TACGTGATTC
Statistics
Matches: 149, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
119 16 0.11
120 124 0.83
121 9 0.06
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTAAATCCGGTTAAGATCCGAAGGCATTTGTGCA
AGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAAACCG
Found at i:33912425 original size:48 final size:46
Alignment explanation
Indices: 33912363--33912496 Score: 144
Period size: 48 Copynumber: 2.9 Consensus size: 46
33912353 CCATAGCATG
* * * *
33912363 AGAGCCAGTTTAAGACATGTCTGGCACATGCATTGGCCTCAAGATA
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACA
* * * **
33912409 TTTA-AGCCAGTGTAAGACATGTATGGGACATGTATCGGCATTGAGACA
1 ---AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACA
*
33912457 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
33912497 GCGATATACA
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 33 0.47
48 35 0.50
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (46 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACA
Found at i:33913896 original size:20 final size:21
Alignment explanation
Indices: 33913857--33913896 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33913847 GTCATAAAGA
33913857 CCACACGAGCGTGTTACCCTT
1 CCACACGAGCGTGTTACCCTT
*
33913878 CCACACGGGCGTG-TACCCT
1 CCACACGAGCGTGTTACCCT
33913897 GTTTTCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (21 bp):
CCACACGAGCGTGTTACCCTT
Found at i:33918036 original size:40 final size:40
Alignment explanation
Indices: 33917958--33918098 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
33917948 ACCCAAGTAT
* *
33917958 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
33917997 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
33918037 CTTCGGGACGTAGCCCGGATATAGTAACTTGTACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33918077 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33918099 CATCCGAATA
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 11 0.13
40 74 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33928539 original size:28 final size:29
Alignment explanation
Indices: 33928468--33928568 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
33928458 GTGACAAGAT
33928468 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
33928497 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
33928526 T-GCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
33928554 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
33928569 GAATTTAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
28 28 0.39
29 43 0.61
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:33928587 original size:29 final size:29
Alignment explanation
Indices: 33928555--33928627 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
33928545 TGAAAAGTAT
* * *
33928555 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
33928584 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
33928613 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
33928628 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:33930503 original size:20 final size:21
Alignment explanation
Indices: 33930464--33930503 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33930454 GTCATAAAGA
33930464 CCACACGAGCGTGTTACCCTT
1 CCACACGAGCGTGTTACCCTT
*
33930485 CCACACGGGCGTG-TACCCT
1 CCACACGAGCGTGTTACCCT
33930504 GTTTTCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (21 bp):
CCACACGAGCGTGTTACCCTT
Found at i:33935103 original size:27 final size:26
Alignment explanation
Indices: 33935073--33935157 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
33935063 GCTGCTAAAG
*
33935073 CAGTAAATGTGGCAAAGCCACCAGTA
1 CAGTAAATGTGGCATAGCCACCAGTA
* *
33935099 TCAGTAATTGTAGCATAGCCACCAGTAA
1 -CAGTAAATGTGGCATAGCCACCAGT-A
* * *
33935127 CAGTGAATGTGACATAGTCACCAGTA
1 CAGTAAATGTGGCATAGCCACCAGTA
33935153 CAGTA
1 CAGTA
33935158 CTTCCTCCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.10
27 42 0.88
28 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (26 bp):
CAGTAAATGTGGCATAGCCACCAGTA
Found at i:33935338 original size:27 final size:27
Alignment explanation
Indices: 33935308--33935598 Score: 388
Period size: 27 Copynumber: 10.9 Consensus size: 27
33935298 TTTACCATTT
* *
33935308 AGGGGTATTACGGTCATCTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAC
* *
33935335 AGGGGCATTACGATCATTTTACCCTAT
1 AGGGGCATTACGGTCATTTTACCCTAC
* *** *
33935362 AGGGGTATTATAATCATTTTACCCCAC
1 AGGGGCATTACGGTCATTTTACCCTAC
* *
33935389 AGGGGTATTACGGTCATTTTACCTTAC
1 AGGGGCATTACGGTCATTTTACCCTAC
* *
33935416 AGGGGCATTACAGTCATCTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAC
* * *
33935443 AAGGGCATTACGGTCATTTTACGCTAT
1 AGGGGCATTACGGTCATTTTACCCTAC
* *
33935470 AGGGGTATTACGGCCATTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAC
*
33935497 AGGGGCATTA-GGTCATCTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAC
33935523 AGGGGCATTACGGTCATTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAC
33935550 A-GGGCATTACGGTCATTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAC
*
33935576 AGGGGTATTACGGTCATTTTACC
1 AGGGGCATTACGGTCATTTTACC
33935599 TATTTTAGGG
Statistics
Matches: 229, Mismatches: 33, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 50 0.22
27 179 0.78
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (27 bp):
AGGGGCATTACGGTCATTTTACCCTAC
Found at i:33936011 original size:8 final size:8
Alignment explanation
Indices: 33935998--33936024 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
33935988 AATGCCAAAG
33935998 TTTCGACT
1 TTTCGACT
33936006 TTTCGACT
1 TTTCGACT
33936014 TTTCGACT
1 TTTCGACT
33936022 TTT
1 TTT
33936025 GCTGATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (8 bp):
TTTCGACT
Found at i:33939484 original size:34 final size:33
Alignment explanation
Indices: 33939446--33939535 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 33
33939436 TTTCAGTTAA
*
33939446 GGCCTTAGCCCATTTCAGAATCA-TAATCAGTGTG
1 GGCCTAAGCCCATTTCAGAATCAGT-ATCAGTG-G
33939480 GGCCTAAGCCCA-TTCTAGTAA-CAGTATCAGTGG
1 GGCCTAAGCCCATTTC-AG-AATCAGTATCAGTGG
*
33939513 GGCCTAAGCCCATTACAGAATCA
1 GGCCTAAGCCCATTTCAGAATCA
33939536 ATGCAGTATG
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
32 2 0.04
33 20 0.41
34 24 0.49
35 3 0.06
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (33 bp):
GGCCTAAGCCCATTTCAGAATCAGTATCAGTGG
Found at i:33939929 original size:27 final size:27
Alignment explanation
Indices: 33939899--33940149 Score: 201
Period size: 27 Copynumber: 9.3 Consensus size: 27
33939889 TAGGGCAAAT
* *
33939899 CAGTCATTTTACCTTACAGGGATATTA
1 CAGTCATTTTACCTTATAGGGGTATTA
* *
33939926 CAGTCATTTTACCATACAGGGGTATTA
1 CAGTCATTTTACCTTATAGGGGTATTA
* *
33939953 CAGTCACTTTA-CTGTATAGGGGTATTT
1 CAGTCATTTTACCT-TATAGGGGTATTA
* *
33939980 C-GATAATTTTACCTTATAAGGGTATCT-
1 CAG-TCATTTTACCTTATAGGGGTAT-TA
* *
33940007 CAGTCATTTTACCCTAT-GAGGGTATTT
1 CAGTCATTTTACCTTATAG-GGGTATTA
* * *
33940034 CGGTCATTTTACCTTATAGAGGTATTT
1 CAGTCATTTTACCTTATAGGGGTATTA
* * *
33940061 CAATCATTTTACCATATGGGGGTATTTA
1 CAGTCATTTTACCTTATAGGGGTA-TTA
* *
33940089 TA-TCATTTTACCTTATAGGGGTATTT
1 CAGTCATTTTACCTTATAGGGGTATTA
* *
33940115 C-GATCATTTTAACC-TATGGGGGTATTT
1 CAG-TCATTTT-ACCTTATAGGGGTATTA
*
33940142 CGGTCATT
1 CAGTCATT
33940150 CTATCTCAGA
Statistics
Matches: 184, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.03
27 167 0.91
28 12 0.07
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCTTATAGGGGTATTA
Found at i:33940045 original size:81 final size:79
Alignment explanation
Indices: 33939904--33940143 Score: 232
Period size: 81 Copynumber: 3.0 Consensus size: 79
33939894 CAAATCAGTC
* * * * *
33939904 ATTTTACCTTA-CAGGGATATTACAGTCATTTTACCATACAGGGGTATTACAGTCACTTTACTGT
1 ATTTTACCTTATAAGGG-TATT-CAGTCATTTTACCATATAGGGGTATTTCGGTCATTTTACT-T
33939968 ATAGGGGTATTTCGATA
63 ATAGGGGTATTTCGATA
*
33939985 ATTTTACCTTATAAGGGTATCTCAGTCATTTTACCCTAT-GAGGGTATTTCGGTCATTTTACCTT
1 ATTTTACCTTATAAGGGTAT-TCAGTCATTTTACCATATAG-GGGTATTTCGGTCATTTTA-CTT
* * *
33940049 ATAGAGGTATTTCAATC
63 ATAGGGGTATTTCGATA
* ** * * * * *
33940066 ATTTTACCATATGGGGGTATTTATATCATTTTACCTTATAGGGGTATTTCGATCATTTTAACCTA
1 ATTTTACCTTATAAGGGTATTCA-GTCATTTTACCATATAGGGGTATTTCGGTCATTTT-ACTTA
*
33940131 TGGGGGTATTTCG
64 TAGGGGTATTTCG
33940144 GTCATTCTAT
Statistics
Matches: 132, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
80 3 0.02
81 120 0.91
82 9 0.07
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (79 bp):
ATTTTACCTTATAAGGGTATTCAGTCATTTTACCATATAGGGGTATTTCGGTCATTTTACTTATA
GGGGTATTTCGATA
Found at i:33940174 original size:27 final size:27
Alignment explanation
Indices: 33940144--33940203 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
33940134 GGGTATTTCG
* *
33940144 GTCATTCTATC-TCAGAATGGCAAAATC
1 GTCATTCTATCAT-AGAAGGGCAAAATA
* *
33940171 GTCATTTTATCATATAAGGGCAAAATA
1 GTCATTCTATCATAGAAGGGCAAAATA
33940198 GTCATT
1 GTCATT
33940204 TACCACATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (27 bp):
GTCATTCTATCATAGAAGGGCAAAATA
Found at i:33940204 original size:27 final size:27
Alignment explanation
Indices: 33940162--33940258 Score: 110
Period size: 26 Copynumber: 3.7 Consensus size: 27
33940152 ATCTCAGAAT
* *
33940162 GGCAAAATC-GTCATTTTATCATATAAG
1 GGCAAAA-CAGTCATTTTACCACATAAG
*
33940189 GGCAAAATAGTCA-TTTACCACATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* *
33940215 GG-AAAACAGTCACTTTGCCACATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
*
33940241 GGTAAAACAGTCATTTTA
1 GGCAAAACAGTCATTTTA
33940259 TCTTATAAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
25 9 0.15
26 27 0.45
27 24 0.40
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (27 bp):
GGCAAAACAGTCATTTTACCACATAAG
Found at i:33944729 original size:50 final size:47
Alignment explanation
Indices: 33944661--33944870 Score: 200
Period size: 46 Copynumber: 4.5 Consensus size: 47
33944651 GGCTGTTACG
*
33944661 ATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGTC
1 ATGTCCCAGACATGGTCTTACACTAGCT-TCACATCT-CGTGCCGATG-C
* *
33944711 ATGTCCTAGACATGGTCTTACACT-G--ACACATCTCGTAGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTAGCTTCACATCTCGT-GCCGATGC
* * * *
33944756 ATGTCCCAGACAT-GTCTTACACTGGCTT-ACATCTCGAGGCTGACGC
1 ATGTCCCAGACATGGTCTTACACTAGCTTCACATCTCG-TGCCGATGC
* * * *
33944802 ATGCCCCAGACAT-GTCTTACACTAGC-TCCCGTCTCAATGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGCTTCACATCTC-GTGCCGATG-C
*
33944849 ATGTCCTAGACATGGTCTTACA
1 ATGTCCCAGACATGGTCTTACA
33944871 GTGGCTCACA
Statistics
Matches: 133, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
44 10 0.08
45 18 0.14
46 61 0.46
47 12 0.09
48 8 0.06
49 1 0.01
50 23 0.17
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGGTCTTACACTAGCTTCACATCTCGTGCCGATGC
Found at i:33948454 original size:43 final size:43
Alignment explanation
Indices: 33948406--33948487 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
33948396 GGTTATTGAG
*
33948406 TTGTGATTACATGTAAGACCATGTCT-AGGTCATTGGCATTGTA
1 TTGTGATTACATGTAAGACCATGTCTGA-GACATTGGCATTGTA
33948449 TTGTGATTACATGTAAGACCATGTCTGAGACATTGGCAT
1 TTGTGATTACATGTAAGACCATGTCTGAGACATTGGCAT
33948488 CGTTAATCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
TTGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTA
Found at i:33948501 original size:43 final size:43
Alignment explanation
Indices: 33948411--33948511 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 43
33948401 TTGAGTTGTG
* * * **
33948411 ATTACATGTAAGACCATGTCTAGGTCATTGGCATTGTATTGTG
1 ATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGCA
33948454 ATTACATGTAAGACCATGTCT-GAGACATTGGCATCGTTAAT-CA
1 ATTACATGTAAGACCATGTCTAG-GACATTGGCATCG-TAATGCA
33948497 ATTACATGTAAGACC
1 ATTACATGTAAGACC
33948512 CTATCTGGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 1 0.02
43 47 0.92
44 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGCA
Found at i:33948529 original size:43 final size:44
Alignment explanation
Indices: 33948454--33948562 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 44
33948444 TTGTATTGTG
* * **
33948454 ATTACATGTAAGACCATGTCT-GAGACATTGGCATCGTTA-ATCA
1 ATTACATGTAAGACCATATCTGGAGACAGTGGCATCAATATAT-A
* *
33948497 ATTACATGTAAGACCCTATCTGGA-ACAGTGGCATCAATATATG
1 ATTACATGTAAGACCATATCTGGAGACAGTGGCATCAATATATA
*
33948540 ATAACATGTAAGACCATATCTGG
1 ATTACATGTAAGACCATATCTGG
33948563 GATATGGCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 52 0.93
44 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (44 bp):
ATTACATGTAAGACCATATCTGGAGACAGTGGCATCAATATATA
Found at i:33953963 original size:30 final size:29
Alignment explanation
Indices: 33953927--33953985 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
33953917 AATGAAAGTA
*
33953927 TGGCACTAAGTGTGCGATTTAAACTAGCTT
1 TGGCACTAAGTGTGCAATTT-AACTAGCTT
33953957 TGGCACTAAGTGTGCAATTTAACTAGCTT
1 TGGCACTAAGTGTGCAATTTAACTAGCTT
33953986 CAACTACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAATTTAACTAGCTT
Found at i:33954178 original size:26 final size:26
Alignment explanation
Indices: 33954149--33954206 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
33954139 TTCAACATGA
*
33954149 GGTAAGTACAGAAATGAATAAGTACG
1 GGTAAGTACAGAAATGAAAAAGTACG
*
33954175 GGTAAGTACAGAAGTGAAAAAGTACG
1 GGTAAGTACAGAAATGAAAAAGTACG
33954201 GG-AAGT
1 GGTAAGT
33954207 GTAACATCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.17
Consensus pattern (26 bp):
GGTAAGTACAGAAATGAAAAAGTACG
Found at i:33955430 original size:29 final size:29
Alignment explanation
Indices: 33955393--33955465 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
33955383 CATATTAATT
33955393 GGCCCATTAGGCCCAAATCACATGTATAA
1 GGCCCATTAGGCCCAAATCACATGTATAA
* * *
33955422 GGCCTATTAGGCCCAAATCACATTTATAT
1 GGCCCATTAGGCCCAAATCACATGTATAA
*
33955451 GGCCCGTTAGGCCCA
1 GGCCCATTAGGCCCA
33955466 GTCACATTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAATCACATGTATAA
Found at i:33961814 original size:30 final size:29
Alignment explanation
Indices: 33961780--33961836 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
33961770 TTCGAGCTTT
33961780 GGGGCAAAAGTGAAAATATGCAAAAGTTTA
1 GGGGCAAAA-TGAAAATATGCAAAAGTTTA
* * *
33961810 GGGGCAAAATGTAATTTTGCAAAAGTT
1 GGGGCAAAATGAAAATATGCAAAAGTT
33961837 AGAGTTAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.25
Consensus pattern (29 bp):
GGGGCAAAATGAAAATATGCAAAAGTTTA
Found at i:33963172 original size:30 final size:30
Alignment explanation
Indices: 33963132--33963196 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
33963122 ATAGAATTAT
*
33963132 ATGATGAATAAAATATGGAATTGAATCTTA
1 ATGAAGAATAAAATATGGAATTGAATCTTA
33963162 ATGAAGAATAAAATATGGAATTGAATCTTA
1 ATGAAGAATAAAATATGGAATTGAATCTTA
33963192 ATGAA
1 ATGAA
33963197 TCTATTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (30 bp):
ATGAAGAATAAAATATGGAATTGAATCTTA
Found at i:33967278 original size:43 final size:43
Alignment explanation
Indices: 33967120--33967278 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
33967110 GGTTATTGAG
* *
33967120 ATGTGATTACATGTAAGACCATGTCTGGGACACTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATATCTGGGACACTGGCATCGAT
** * * *
33967162 ATTGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTGGGACACTGGCATCGAT
* * * *
33967206 AAT-CGATTACATGTAAGACCCTATCTGGGACAGTGGCATCGGT
1 -ATGTGATTACATGTAAGACCATATCTGGGACACTGGCATCGAT
* *
33967249 ATGTGATAACATGTAAGACCATATATGGGA
1 ATGTGATTACATGTAAGACCATATCTGGGA
33967279 TATGGCAGTG
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.03
43 91 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTGGGACACTGGCATCGAT
Found at i:33970825 original size:42 final size:42
Alignment explanation
Indices: 33970776--33970860 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
33970766 TCCATATTTG
33970776 TCCATTGAATTAAAAAATGGTATAATAGCCACATAAATCCCT
1 TCCATTGAATTAAAAAATGGTATAATAGCCACATAAATCCCT
33970818 TCCATTGAATTAAAAAATGGTATAATAGCCACATAAATCCCT
1 TCCATTGAATTAAAAAATGGTATAATAGCCACATAAATCCCT
33970860 T
1 T
33970861 AACTACATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (42 bp):
TCCATTGAATTAAAAAATGGTATAATAGCCACATAAATCCCT
Found at i:33974620 original size:39 final size:39
Alignment explanation
Indices: 33974308--33974624 Score: 314
Period size: 39 Copynumber: 8.1 Consensus size: 39
33974298 TGTAATTGTA
* * * *
33974308 CCTGAATGCACATTCGTGCCCCTATTGTA-TTCTGGCAAC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTT-TGGTACC
* ** *
33974347 CCTGAATGCACATACTTGCCCCTGTTGTACTTCAGTACT
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTTGGTACC
*** *
33974386 CCTGAATGCACATACGTGCCCCTGTTGTACTTCAATAAC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTTGGTACC
* * * **
33974425 CATGAATGCACCTATGTGCCCCCATTGTACTTTGGTACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTTGGTACC
* * * * *
33974464 TCTAAATGCACATACATGCCCTTGTTGTAATTTGGTACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTTGGTACC
* * * *
33974503 CTTGAATGCACCTACGTGCCCCCGTTGTATTTTGGTACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTTGGTACC
* *
33974542 CCTGAATGCACCTACGTGCCCCCT-TTGTACTTCGGTACC
1 CCTGAATGCACATACGTG-CCCCTGTTGTACTTTGGTACC
* * * *
33974581 CCTGAATGCACATACATGCCCCTATTGCACTTTGATACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTTGGTACC
33974620 CCTGA
1 CCTGA
33974625 TTTGCACTTA
Statistics
Matches: 227, Mismatches: 48, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
38 5 0.02
39 216 0.95
40 6 0.03
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (39 bp):
CCTGAATGCACATACGTGCCCCTGTTGTACTTTGGTACC
Found at i:33976973 original size:40 final size:40
Alignment explanation
Indices: 33976873--33977090 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
33976863 TGGATGATAA
* *
33976873 CCGGGCTAAGTCCCAAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * * *
33976914 CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
33976954 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33976994 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
33977034 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
33977073 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33977091 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 102 0.64
41 24 0.15
42 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33989700 original size:43 final size:44
Alignment explanation
Indices: 33989620--33989778 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 44
33989610 GAAAGCTTGT
* *
33989620 TCAATGCCAAC-GT-CCAAACATGGTCTTACATGTAATCAAGTA
1 TCAATGCCAACTGTCCCAAACATGGTCTTACATGAAATCAAATA
* * *
33989662 TCAATGCC-ACTGTCCCAGACAAGGTCTTGCATGAAATCAAATA
1 TCAATGCCAACTGTCCCAAACATGGTCTTACATGAAATCAAATA
* * *
33989705 -CGATGCCGA-TGTCCCAAACATGGTCTTACATGTAAATCTCAA-A
1 TCAATGCCAACTGTCCCAAACATGGTCTTACATG-AAATC-AAATA
* * * *
33989748 TCGATGCCAAC-GTCCTAGACGTGGTCTTACA
1 TCAATGCCAACTGTCCCAAACATGGTCTTACA
33989779 CAAAATCACA
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.02
42 36 0.38
43 31 0.32
44 27 0.28
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
TCAATGCCAACTGTCCCAAACATGGTCTTACATGAAATCAAATA
Found at i:33989711 original size:42 final size:41
Alignment explanation
Indices: 33989633--33989756 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 41
33989623 ATGCCAACGT
* * * *
33989633 CCAAACATGGTCTTACATGTAATCAAGTATCAATGCCACTGTC
1 CCAAACAAGGTCTTACATGAAATCAAATA-CGATGCCA-TGTC
* *
33989676 CCAGACAAGGTCTTGCATGAAATCAAATACGATGCCGATGTC
1 CCAAACAAGGTCTTACATGAAATCAAATACGATGCC-ATGTC
*
33989718 CCAAACATGGTCTTACATGTAAATCTCAAAT-CGATGCCA
1 CCAAACAAGGTCTTACATG-AAA--TCAAATACGATGCCA
33989757 ACGTCCTAGA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 26 0.38
43 29 0.43
44 7 0.10
45 6 0.09
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (41 bp):
CCAAACAAGGTCTTACATGAAATCAAATACGATGCCATGTC
Found at i:33991397 original size:28 final size:28
Alignment explanation
Indices: 33991349--33991442 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
33991339 AAGTCTACAT
* *
33991349 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
33991377 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
33991406 ACATTGATACGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
33991434 ACATTCATA
1 ACATTCATA
33991443 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:33994473 original size:40 final size:39
Alignment explanation
Indices: 33994428--33994634 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
33994418 CGGAATACAA
*
33994428 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
33994468 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
33994508 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
33994548 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
33994588 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
33994627 CCGGATAT
1 CCGGATAT
33994635 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:33994568 original size:80 final size:80
Alignment explanation
Indices: 33994428--33994633 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
33994418 CGGAATACAA
* * *
33994428 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
33994492 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
33994508 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
33994572 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
33994588 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
33994634 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 36 0.34
80 68 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:34002519 original size:40 final size:39
Alignment explanation
Indices: 34002474--34002681 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
34002464 CGGAATACAA
*
34002474 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34002514 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34002554 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
34002594 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
34002634 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34002674 CCGGATAT
1 CCGGATAT
34002682 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34002614 original size:80 final size:80
Alignment explanation
Indices: 34002474--34002680 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
34002464 CGGAATACAA
* * *
34002474 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
34002538 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
34002554 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
34002618 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
34002634 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
34002681 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:34006029 original size:17 final size:18
Alignment explanation
Indices: 34006007--34006040 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34005997 CACATTGAAG
34006007 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
34006024 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
34006041 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:34007302 original size:29 final size:28
Alignment explanation
Indices: 34007236--34007329 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
34007226 AAGTTTACAT
* * *
34007236 ACATGCATATAGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
34007264 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
*
34007293 GCATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
34007321 ACATTCATA
1 ACATTCATA
34007330 GTCATCCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 31 0.54
29 26 0.46
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:34010144 original size:27 final size:27
Alignment explanation
Indices: 34009721--34010167 Score: 442
Period size: 27 Copynumber: 16.6 Consensus size: 27
34009711 ACACTACAAC
*
34009721 GGTATTTCGGTAATTTTAC-ACTACGAG
1 GGTATTTCGGTAATTTTACAAAT-CGAG
* * *
34009748 GGTATTTCGATAATTTTAC-ATTACAAG
1 GGTATTTCGGTAATTTTACAAAT-CGAG
* * *
34009775 GGTATTTTGATAATTTTACAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
*
34009802 GGTGTTTCGGTAATTTTACAAA-CTGAG
1 GGTATTTCGGTAATTTTACAAATC-GAG
*
34009829 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
34009856 GGTGTTTCGATAATTTCACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
34009883 GGTGTTTCGGTAATTTCACAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
* **
34009910 GGTATTTCGATAATTTTACAAATTAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** *
34009937 GGTATTTTAGTAA-TTT-CATAATCAAG
1 GGTATTTCGGTAATTTTACA-AATCGAG
* *
34009963 AGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
34009990 GGTGTTTCGATAATTTTACAAATTC-AG
1 GGTATTTCGGTAATTTTACAAA-TCGAG
*
34010017 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** *
34010044 GGTATTTTAGTAATTTTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** *
34010071 GGTATTTTAGTAATTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
34010097 GGTATTTCGATAATATTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
*
34010124 GGTATTTCGGTAATTTTACAAA-CTGGG
1 GGTATTTCGGTAATTTTACAAATC-GAG
* *
34010151 GGTACTTAGGTAATTTT
1 GGTATTTCGGTAATTTT
34010168 CTTTTATTAC
Statistics
Matches: 357, Mismatches: 53, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.01
26 44 0.12
27 304 0.85
28 7 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:34010163 original size:134 final size:134
Alignment explanation
Indices: 34009721--34010167 Score: 517
Period size: 134 Copynumber: 3.3 Consensus size: 134
34009711 ACACTACAAC
* * * * *
34009721 GGTATTTCGGTAATTTTACACTAC-GAGGGTATTTCGATAATTTTAC-ATTACAAGGGTATTTTG
1 GGTATTTCGATAATTTTACA-AACTGAGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTTG
** * ** * *
34009784 ATAATTTTACAAATCGGGGGTGTTTCGGTAATTTTACAAACTGAGGGTATTTCGATAATTTTACA
64 ATAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAATC-GAGGGTATTTCGATAATTTTACA
34009849 AATCGAG
128 AATCGAG
* * * * * *
34009856 GGTGTTTCGATAATTTCACAAA-TCGAGGGTGTTTCGGTAATTTCACAAATCGGGGGTATTTCGA
1 GGTATTTCGATAATTTTACAAACT-GAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGA
* * * *
34009920 TAATTTTACAAATTAAGGGTATTTTAGTAATTTCATAATCAAGAGTATTTC-AGTAATTTTACAA
65 TAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGA-TAATTTTACAA
34009984 ATCGAG
129 ATCGAG
* * * *
34009990 GGTGTTTCGATAATTTTACAAATTCAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTT-AG
1 GGTATTTCGATAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGA-
*
34010054 TAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATATTACAAA
65 TAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAA
*
34010119 TCAAG
130 TCGAG
* * * *
34010124 GGTATTTCGGTAATTTTACAAACTGGGGGTACTTAGGTAATTTT
1 GGTATTTCGATAATTTTACAAACTGAGGGTATTTCGGTAATTTT
34010168 CTTTTATTAC
Statistics
Matches: 264, Mismatches: 41, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
133 2 0.01
134 180 0.68
135 80 0.30
136 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (134 bp):
GGTATTTCGATAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGAT
AATTTTACAAATCAAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCGATAATTTTACAAAT
CGAG
Found at i:34010186 original size:107 final size:104
Alignment explanation
Indices: 34009773--34010186 Score: 335
Period size: 107 Copynumber: 3.8 Consensus size: 104
34009763 TTACATTACA
* * * * *
34009773 AGGGTATTTTGATAATTTTACAAATCGGGGGTGTTTCGGTAATTTTACAAACTGAGGGTA-TTTC
1 AGGGTGTTTCGATAA-TTTACAAATC-AGGGTATTTCGGTAATTTTACAAA-TGAGGGTATTTTA
* * ** *
34009837 GATAATTTTAC-AAAT-CGAGGGTGTTTCGATAATTTCACAAATCG
63 G-TAATTTT-CTAATTACAAGTAT-TTTAG-TAATTTCACAAATCG
* * * *
34009881 AGGGTGTTTCGGTAATTTCACAAATCGGGGGTATTTCGATAATTTTACAAATTAAGGGTATTTTA
1 AGGGTGTTTCGATAATTT-ACAAATC-AGGGTATTTCGGTAATTTTACAAA-TGAGGGTATTTTA
* * *
34009946 GTAA-TTTCATAATCA-AGAGTATTTCAGTAATTTTACAAATCG
63 GTAATTTTC-TAATTACA-AGTATTTTAGTAATTTCACAAATCG
*
34009988 AGGGTGTTTCGATAATTTTACAAATTCAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTA
1 AGGGTGTTTCGATAA-TTTACAAA-TCAGGGTATTTCGGTAATTTTACAAAT-GAGGGTATTTTA
*
34010053 GTAATTTTAC-AAAT-CAAGGGTATTTTAGTAATTTCAC-AATCG
63 GTAATTTT-CTAATTACAA--GTATTTTAGTAATTTCACAAATCG
* * *
34010095 AGGGTATTTCGATAATATTACAAATCAAGGGTATTTCGGTAATTTTACAAACTGGGGGTA-CTTA
1 AGGGTGTTTCGATAAT-TTACAAATC-AGGGTATTTCGGTAATTTTACAAA-TGAGGGTATTTTA
*
34010159 GGTAATTTTCTTTTATTACAAGT-TTTTA
63 -GTAATTTTC--TAATTACAAGTATTTTA
34010187 CTTACCTTGG
Statistics
Matches: 253, Mismatches: 31, Indels: 45
0.77 0.09 0.14
Matches are distributed among these distances:
106 10 0.04
107 146 0.58
108 84 0.33
109 10 0.04
110 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (104 bp):
AGGGTGTTTCGATAATTTACAAATCAGGGTATTTCGGTAATTTTACAAATGAGGGTATTTTAGTA
ATTTTCTAATTACAAGTATTTTAGTAATTTCACAAATCG
Found at i:34011718 original size:8 final size:8
Alignment explanation
Indices: 34011702--34011752 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
34011692 TGAATCGAAG
34011702 AAAGCCGA
1 AAAGCCGA
*
34011710 AATGCCGA
1 AAAGCCGA
*
34011718 AAAGCTGA
1 AAAGCCGA
34011726 AAAGCC-A
1 AAAGCCGA
34011733 AAATGCCGA
1 AAA-GCCGA
34011742 AAAGCC-A
1 AAAGCCGA
34011749 AAAG
1 AAAG
34011753 TTTGGCTACG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 9 0.24
8 24 0.65
9 4 0.11
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.06
Consensus pattern (8 bp):
AAAGCCGA
Found at i:34012007 original size:29 final size:28
Alignment explanation
Indices: 34011975--34012081 Score: 110
Period size: 29 Copynumber: 3.8 Consensus size: 28
34011965 ATAATATGAT
*
34011975 TTGGGCCTAATGGGGCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* *
34012004 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* *
34012033 CTGGGCC-AGATGGGCCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATATGAATAGA-A
*
34012061 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
34012082 CATGTATGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.02
28 19 0.30
29 44 0.69
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:34012030 original size:58 final size:57
Alignment explanation
Indices: 34011967--34012079 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
34011957 GCATGAATAT
** * *
34011967 AATATGATTTGGGCCTA-ATGGGGCATATGAATGAGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
34012025 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
34012080 TGCATGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 21 0.43
58 28 0.57
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:34013862 original size:28 final size:28
Alignment explanation
Indices: 34013818--34013881 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
34013808 TGGCCCCTTT
* *
34013818 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
* *
34013846 ATGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
34013874 AGGCCCAA
1 AGGCCCAA
34013882 CTACTTCCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:34021272 original size:40 final size:40
Alignment explanation
Indices: 34021256--34021493 Score: 367
Period size: 40 Copynumber: 6.0 Consensus size: 40
34021246 AGCCCGGTTA
*
34021256 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
*
34021296 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
34021336 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
34021376 TAGTAACTCGCACAATTGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
34021416 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
34021456 TAGTAACTTAGCACAAA-GCCTTCAGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
34021494 CATCATTCGA
Statistics
Matches: 187, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
39 3 0.02
40 172 0.92
41 12 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:34028079 original size:31 final size:31
Alignment explanation
Indices: 34028038--34028097 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
34028028 TTGAGCTAAG
*
34028038 GTGTTGCTATGTCTCAGATTTTGCACAATTT
1 GTGTTACTATGTCTCAGATTTTGCACAATTT
**
34028069 GTGTTACTATGTCTTGGATTTTGCACAAT
1 GTGTTACTATGTCTCAGATTTTGCACAAT
34028098 CTCTTGCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (31 bp):
GTGTTACTATGTCTCAGATTTTGCACAATTT
Found at i:34030004 original size:23 final size:22
Alignment explanation
Indices: 34029978--34030020 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
34029968 AACATTTAAT
* *
34029978 ACCAAATTTTAAACCAATTCACA
1 ACCAAAGTATAAACC-ATTCACA
34030001 ACCAAAGTATAAACCATTCA
1 ACCAAAGTATAAACCATTCA
34030021 TGCCATATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (22 bp):
ACCAAAGTATAAACCATTCACA
Found at i:34030883 original size:42 final size:41
Alignment explanation
Indices: 34030792--34030938 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 41
34030782 GTCCTAGACG
* * **
34030792 TGGTCTTACATGTAATCAAGTATCAATACCATTGT-CCAAGACA
1 TGGTCTTACATGAAATCAA--ATCGATACCAACGTCCCAA-ACA
* ** * *
34030835 GGGTCTTACATGAAATCAAATACGATGTCGATGTCCCAAACA
1 TGGTCTTACATGAAATCAAAT-CGATACCAACGTCCCAAACA
* * *
34030877 TGGTCTTACACGTAAATCTCAAATCGATACCAACGTCCCAGACG
1 TGGTCTTACATG-AAA--TCAAATCGATACCAACGTCCCAAACA
34030921 TGGTCTTACATGAAATCA
1 TGGTCTTACATGAAATCA
34030939 CATATCAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 5 0.06
42 20 0.24
43 27 0.33
44 25 0.30
45 6 0.07
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (41 bp):
TGGTCTTACATGAAATCAAATCGATACCAACGTCCCAAACA
Found at i:34031635 original size:6 final size:6
Alignment explanation
Indices: 34031617--34031679 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
34031607 AAGAAACATT
*
34031617 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
34031666 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
34031680 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
5 3 0.06
6 40 0.83
7 4 0.08
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:34031846 original size:27 final size:26
Alignment explanation
Indices: 34031799--34031849 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
34031789 CGAGGCTACC
*
34031799 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
34031825 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
34031850 TTGCAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:34032346 original size:27 final size:27
Alignment explanation
Indices: 34032086--34032338 Score: 326
Period size: 27 Copynumber: 9.4 Consensus size: 27
34032076 AACACCCTAG
** *
34032086 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
34032113 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
34032140 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
34032167 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
34032194 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
34032221 GGGTAAAATAGTAATTTTGTAAATAGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
34032248 GGGTAAAACGGTAATTCTATAAATCGG
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
34032275 GGGTAAAATAATAATTTTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
34032302 GGGTAAAACTGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
34032329 GGGTAAAACA
1 GGGTAAAACA
34032339 ATCATTTTTC
Statistics
Matches: 195, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:34033119 original size:27 final size:27
Alignment explanation
Indices: 34033066--34033222 Score: 113
Period size: 27 Copynumber: 5.7 Consensus size: 27
34033056 TTTCATCCTA
* * * *
34033066 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
34033093 CAAGGGTATTTTAGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
34033120 CAAAGGTATTTCTA-AAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* *
34033149 CAAGGGTATTTTTGTAATTTTGCAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
**
34033176 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAAC
* *
34033203 TAGGGGTATTTT-GCTAATTT
1 CAAGGGTATTTTAG-TAATTT
34033223 GGTAAACTAA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
26 3 0.03
27 68 0.67
28 19 0.19
29 12 0.12
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:34045223 original size:28 final size:28
Alignment explanation
Indices: 34045190--34045281 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
34045180 GGGCCAATTT
34045190 CATTCATATGGCCTATCAGGCCCAATCA
1 CATTCATATGGCCTATCAGGCCCAATCA
*
34045218 CATTCATATGGCCCATCAGGCCCAATCA
1 CATTCATATGGCCTATCAGGCCCAATCA
* * * *
34045246 CTTTCATCTGGCCTGTTAGGCCCAATCA
1 CATTCATATGGCCTATCAGGCCCAATCA
34045274 CATTCATA
1 CATTCATA
34045282 GTCATGGAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (28 bp):
CATTCATATGGCCTATCAGGCCCAATCA
Found at i:34048036 original size:28 final size:27
Alignment explanation
Indices: 34047986--34048075 Score: 128
Period size: 28 Copynumber: 3.3 Consensus size: 27
34047976 TAGCATGGTT
* * *
34047986 ACCAAAACAGATA-TTGTGACAGAGTC
1 ACCAGAACAGATATTTGTGGCAGAGCC
34048012 ACCAGATACAGATATTTGTGGCAGAGCC
1 ACCAGA-ACAGATATTTGTGGCAGAGCC
34048040 ACCAGAATCAGATATTTGTGGCAGAGCC
1 ACCAGAA-CAGATATTTGTGGCAGAGCC
34048068 ACCAGAAC
1 ACCAGAAC
34048076 GCTTCCTCCA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 9 0.16
28 44 0.76
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAGAGCC
Found at i:34048540 original size:8 final size:8
Alignment explanation
Indices: 34048523--34048553 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
34048513 CCATAAAATA
34048523 TCGGCTTT
1 TCGGCTTT
*
34048531 TCGGCATT
1 TCGGCTTT
34048539 TCGGCTTT
1 TCGGCTTT
34048547 TCGGCTT
1 TCGGCTT
34048554 ATGCCGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.26, G:0.26, T:0.45
Consensus pattern (8 bp):
TCGGCTTT
Found at i:34085346 original size:27 final size:27
Alignment explanation
Indices: 34085315--34085480 Score: 174
Period size: 27 Copynumber: 6.1 Consensus size: 27
34085305 TTAGTTTACC
**
34085315 AAATTACTGAAATACCCTC-GACTTGTA
1 AAATTACCAAAATACCC-CTGACTTGTA
* *
34085342 AAATTACCAAAATACCCCAGGCTTG-A
1 AAATTACCAAAATACCCCTGACTTGTA
**
34085368 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGACTTGTA
*
34085395 AAATTACCAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATACCCCTGACTTGTA
* * *
34085422 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGACTTGTA
* * * *
34085449 AAATTATCGAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCCTGACTTGTA
34085476 GAAAT
1 -AAAT
34085481 ATTGAAATAC
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
26 25 0.20
27 94 0.76
28 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGACTTGTA
Found at i:34085377 original size:26 final size:27
Alignment explanation
Indices: 34085336--34085465 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
34085326 ATACCCTCGA
*
34085336 CTTGTAAAATTACCAAAATACCCCAGG
1 CTTGTAAAATTACCAAAATACCCCTGG
34085363 CTTG-AAAATTACCAAAATACCCCTGG
1 CTTGTAAAATTACCAAAATACCCCTGG
*
34085389 TTTGTAAAATTACCAAAATACCCCTGG
1 CTTGTAAAATTACCAAAATACCCCTGG
* *
34085416 CTTGTAAAATTACCAAAATACCCTTGA
1 CTTGTAAAATTACCAAAATACCCCTGG
* * * *
34085443 TTTGTGAAATTATCGAAATACCC
1 CTTGTAAAATTACCAAAATACCC
34085466 TTGATTTGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 24 0.26
27 69 0.74
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (27 bp):
CTTGTAAAATTACCAAAATACCCCTGG
Found at i:34085453 original size:54 final size:53
Alignment explanation
Indices: 34085315--34085465 Score: 203
Period size: 53 Copynumber: 2.8 Consensus size: 53
34085305 TTAGTTTACC
** * *
34085315 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCAGGCTTGA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCAGGCTTGA
* * *
34085368 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCAGGCTTG-A
* * *
34085422 AAATTACCAAAATACCCTTGATTTGTGAAATTATCGAAATACCC
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCC
34085466 TTGATTTGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 45 0.53
54 40 0.47
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (53 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCAGGCTTGA
Found at i:34085503 original size:27 final size:27
Alignment explanation
Indices: 34085484--34085922 Score: 626
Period size: 27 Copynumber: 16.3 Consensus size: 27
34085474 TAGAAATATT
* * *
34085484 GAAATACTCCTGTAAGGTAGAATTAAC
1 GAAATACCCCTGTAGGGTAGAATTACC
34085511 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
34085538 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
34085565 AAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
34085592 GAAATACCCCTGTACGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
34085619 GAAATACCTCTGTAGGGTCGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
34085646 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
34085673 GAAATACCCCTATAGGGCAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
34085700 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
34085727 GACATACCCCTGTTGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
34085754 AAAATGCCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
34085781 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
34085808 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
34085835 GAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
34085862 GAAGTACCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
34085889 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
34085916 GAGATAC
1 GAAATAC
34085923 TCTTGTGGGA
Statistics
Matches: 366, Mismatches: 46, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 366 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:34086204 original size:27 final size:26
Alignment explanation
Indices: 34086166--34086248 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
34086156 TGGAGGAAGC
*
34086166 GTTCTTGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
34086193 GTTCTGGTGGCTCA-GCCACAATATCT
1 GTTCTGGTGGCT-ATGCCACAATATCT
* * *
34086219 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
34086246 GTT
1 GTT
34086249 GACCGACCGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.20
27 38 0.78
28 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:34086387 original size:78 final size:78
Alignment explanation
Indices: 34086258--34086489 Score: 365
Period size: 78 Copynumber: 3.0 Consensus size: 78
34086248 TGACCGACCG
* * **
34086258 ATGGCTGAGTGCTGATTATGTTACCGAAGGCTGTGTGCCGCTATTGTGGGCTTTGTGCCGATTAT
1 ATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTTGTGCCGATTAT
34086323 AGACCCATTATCA
66 AGACCCATTATCA
* *
34086336 ATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGTCATTATTGTGGGCTTTGTACCGATTAT
1 ATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTTGTGCCGATTAT
*
34086401 AGACCCATTATCG
66 AGACCCATTATCA
* * *
34086414 ATGGTTGAGTGCCGATCATGTTACCAAAGGCTGTGTGCCATTATTGTGGGCTTCGTGCCGATTAT
1 ATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTTGTGCCGATTAT
*
34086479 AGACCCGTTAT
66 AGACCCATTAT
34086490 GTGCCTAACA
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 141 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (78 bp):
ATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTGTGCCATTATTGTGGGCTTTGTGCCGATTAT
AGACCCATTATCA
Found at i:34086685 original size:27 final size:26
Alignment explanation
Indices: 34086628--34086706 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
34086618 TTCTATTAAG
* * * **
34086628 TGGCTCTGCCATATTATTTGATTCTGG
1 TGGCTCTGCCACAATATCTG-TTCTAA
34086655 TGGCTCTGCCACAATATCTGTATCTAA
1 TGGCTCTGCCACAATATCTGT-TCTAA
*
34086682 TGGCTCTGTCACAATATCTGTTCTA
1 TGGCTCTGCCACAATATCTGTTCTA
34086707 GTAGCCATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.11
27 40 0.89
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
TGGCTCTGCCACAATATCTGTTCTAA
Found at i:34086925 original size:6 final size:6
Alignment explanation
Indices: 34086915--34086983 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
34086905 TTGCATTCAA
* * * * *
34086915 ATTCTG GTTCTG ATTCTG -TCACCTG ATTCTG AATCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
34086964 ATTCTA ATTCTA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG AT
34086984 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
5 1 0.02
6 43 0.90
7 3 0.06
8 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:34086992 original size:18 final size:17
Alignment explanation
Indices: 34086971--34087004 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34086961 TTGATTCTAA
34086971 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
34086989 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
34087005 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:34087693 original size:27 final size:27
Alignment explanation
Indices: 34087661--34087767 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 27
34087651 ATATATACTA
* * * *
34087661 CACATAGGGGCAAAATAGTCATCTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
34087688 CTCATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
34087715 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
34087742 CACATAAGGGAAAAATAGTTATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
34087768 TCGATTAAGG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:34089871 original size:21 final size:21
Alignment explanation
Indices: 34089837--34089876 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34089827 AGTGGTCATG
*
34089837 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
**
34089858 GATGATTTGCGAGTCACTT
1 GATGATTTAAGAGTCACTT
34089877 GTGTTTAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:34090419 original size:28 final size:28
Alignment explanation
Indices: 34090387--34090451 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
34090377 ACTATGATTT
*
34090387 TGATTGGGCTTGACGGGACTTATAAAAG
1 TGATTGGGCTTGACGGGACATATAAAAG
* * * *
34090415 TGATTGGGCTTGATGGGCCATATGAATG
1 TGATTGGGCTTGACGGGACATATAAAAG
34090443 TGATTGGGC
1 TGATTGGGC
34090452 CGGATGGGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.23, C:0.11, G:0.35, T:0.31
Consensus pattern (28 bp):
TGATTGGGCTTGACGGGACATATAAAAG
Found at i:34090457 original size:28 final size:28
Alignment explanation
Indices: 34090414--34090480 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
34090404 ACTTATAAAA
**
34090414 GTGATTGGGCTTGATGGGCCATATGAAT
1 GTGATTGGGCCGGATGGGCCATATGAAT
*
34090442 GTGATTGGGCCGGATGGGTCATATGAAT
1 GTGATTGGGCCGGATGGGCCATATGAAT
*
34090470 GAGATTGGGCC
1 GTGATTGGGCC
34090481 TAAAGGGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.21, C:0.12, G:0.39, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCGGATGGGCCATATGAAT
Found at i:34094368 original size:40 final size:40
Alignment explanation
Indices: 34094294--34094475 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
34094284 AACCCAAGTA
* * *
34094294 CCTTCGGGAATTAG-CCGGATATA-ACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
34094333 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
34094373 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
34094413 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34094453 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
34094476 CATCCGAATA
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.09
40 119 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:34099512 original size:40 final size:39
Alignment explanation
Indices: 34099409--34099559 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 39
34099399 CGAATGGTAT
* * * * *
34099409 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAA
*
34099449 CCGGG-TCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-CAAAA
* * * *
34099488 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAAAA
* * *
34099528 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
34099560 CGCTATATCC
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 4 0.04
39 27 0.30
40 60 0.66
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
Found at i:34108105 original size:40 final size:40
Alignment explanation
Indices: 34108050--34108259 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
34108040 AACATTGGAA
34108050 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
34108090 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
34108130 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
34108170 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
34108209 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
34108250 CTATATCCGG
1 ATATATCCGG
34108260 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:34118710 original size:40 final size:40
Alignment explanation
Indices: 34118602--34118811 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
34118592 CGGGATTTAA
* * * * *
34118602 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
34118642 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34118682 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34118722 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34118762 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34118802 CCGGATATAT
1 CCGGATATAT
34118812 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:34126764 original size:40 final size:40
Alignment explanation
Indices: 34126700--34126918 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
34126690 TTCGAATGAT
*
34126700 TCCGGGCTAAGTCCCGAAGACATTTGTGCTATTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATA
*
34126740 TCCGTGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATA
* *
34126780 TCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATA
*
34126820 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATA
* *
34126860 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTATA
* *
34126900 TCC-GTCTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
34126919 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.08
40 148 0.90
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATA
Found at i:34146752 original size:42 final size:43
Alignment explanation
Indices: 34146685--34146772 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 43
34146675 GTATTGCAGA
*
34146685 AAAGGATTCAGCCCTAACGGATAATCCGA-TATCTCAAAATAG
1 AAAGGATTCAGCCCGAACGGATAATCCGATTATCTCAAAATAG
* *
34146727 AAAGGATTCAGCCCGGACGGGTAATCCGATTATCTCAAAATAG
1 AAAGGATTCAGCCCGAACGGATAATCCGATTATCTCAAAATAG
34146770 AAA
1 AAA
34146773 AGATCTAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 26 0.62
43 16 0.38
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (43 bp):
AAAGGATTCAGCCCGAACGGATAATCCGATTATCTCAAAATAG
Found at i:34150116 original size:39 final size:40
Alignment explanation
Indices: 34150016--34150197 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
34150006 TCGAATGATG
* * *
34150016 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
34150056 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
34150096 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
34150134 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
34150175 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34150198 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:34150161 original size:78 final size:80
Alignment explanation
Indices: 34150016--34150197 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
34150006 TCGAATGATG
* * * *
34150016 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
34150081 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
34150096 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
34150158 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
34150175 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34150198 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:34160297 original size:15 final size:15
Alignment explanation
Indices: 34160277--34160345 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
34160267 GTATCTTGGG
34160277 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
34160292 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
34160307 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
34160322 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
34160337 TTTCTTTAT
1 TTTCTTTAT
34160346 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:34160346 original size:30 final size:30
Alignment explanation
Indices: 34160268--34160355 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
34160258 CATAGTATCG
* * * *
34160268 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
34160298 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
34160328 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
34160356 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:34162788 original size:46 final size:46
Alignment explanation
Indices: 34162735--34162910 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
34162725 TATTTGGGCA
34162735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
34162781 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
34162828 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
34162874 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34162911 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:34162890 original size:93 final size:93
Alignment explanation
Indices: 34162731--34162902 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
34162721 GGGATATTTG
* *
34162731 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34162796 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
34162824 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34162889 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
34162903 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:34165731 original size:40 final size:39
Alignment explanation
Indices: 34165667--34165834 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 39
34165657 TCTTCAGAAT
* **
34165667 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** * *
34165706 TTAACCCGGATTTGGTAACTTGCACAAATGCTTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
34165746 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
34165786 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
34165826 TTAGCCCGG
1 TTAGCCCGG
34165835 GTATCATTCA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 99 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:34165815 original size:80 final size:80
Alignment explanation
Indices: 34165667--34165834 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
34165657 TCTTCAGAAT
* * ** *
34165667 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
* *
34165731 AAATGCTTTCGGGTC
66 AAATGCCTTCGGGAC
** * *
34165746 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCA
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCA
*
34165810 TAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
34165826 TTAGCCCGG
1 TTAGCCCGG
34165835 GTATCATTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
79 4 0.05
80 69 0.92
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
AAATGCCTTCGGGAC
Found at i:34169741 original size:34 final size:34
Alignment explanation
Indices: 34169697--34169769 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
34169687 GCATTATTGT
*
34169697 TACTGTTACTGTAATGGGCTAAGGCCC-ACACTGA
1 TACTGATACTGTAATGGGCTAAGGCCCTA-ACTGA
*
34169731 TACTGATACTGTAATGGGCTATGGCCCTAACTGA
1 TACTGATACTGTAATGGGCTAAGGCCCTAACTGA
34169765 TACTG
1 TACTG
34169770 GACTGTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (34 bp):
TACTGATACTGTAATGGGCTAAGGCCCTAACTGA
Found at i:34174201 original size:43 final size:42
Alignment explanation
Indices: 34174077--34174321 Score: 219
Period size: 43 Copynumber: 5.7 Consensus size: 42
34174067 CTATGTGTTA
* *
34174077 TCGTGTAAGACCATGTTTGGGACATTGGCATC-A-ACTTATGATT
1 TCGTGTAAGACC-CGTCTGGGACATTGGCATCGATA-TT-TGATT
* *
34174120 TACGTGTAAGACCACATCTGGGACGTTGGCATCG-TATTTGATT
1 T-CGTGTAAGACC-CGTCTGGGACATTGGCATCGATATTTGATT
*
34174163 TCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATT
1 TCGTGTAAGACCC-GTCTGGGACATTGGCATCGATATTTGATT
* * * * * *
34174206 ACATGTAAGACTACATCTAGGACGTTGGCATCG-TATTTGATT
1 TCGTGTAAGAC-CCGTCTGGGACATTGGCATCGATATTTGATT
* * *
34174248 TCGTGTAAGAGCCTGTCTGGGACAGTGGCATCAATATTTGATT
1 TCGTGTAAGA-CCCGTCTGGGACATTGGCATCGATATTTGATT
* * * *
34174291 ACATGTAAGATCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGA-CCCGTCTGGGACATTGGCAT
34174322 TGTACGAGCT
Statistics
Matches: 164, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 58 0.35
43 74 0.45
44 30 0.18
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCCGTCTGGGACATTGGCATCGATATTTGATT
Done.