Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 109 of 211
Found at i:30434587 original size:63 final size:63
Alignment explanation
Indices: 30434509--30434642 Score: 259
Period size: 63 Copynumber: 2.1 Consensus size: 63
30434499 GATGTGATGA
*
30434509 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
30434572 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
30434635 ATGTGATA
1 ATGTGATA
30434643 ATGCCTAATG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 70 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (63 bp):
ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:30434594 original size:16 final size:16
Alignment explanation
Indices: 30434556--30434595 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
30434546 GATGTGATGA
*
30434556 ATGTGAAAGTGTATAT
1 ATGTGATAGTGTATAT
30434572 ATGTGATAGTGTATAT
1 ATGTGATAGTGTATAT
30434588 ATGTGATA
1 ATGTGATA
30434596 AGGCCTAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (16 bp):
ATGTGATAGTGTATAT
Found at i:30434623 original size:94 final size:94
Alignment explanation
Indices: 30434572--30434866 Score: 392
Period size: 94 Copynumber: 3.1 Consensus size: 94
30434562 AAGTGTATAT
* *
30434572 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATAT
* * **
30434637 GTGATAATGCCTAATGGCCGATGTGATGA
66 GCGATAATGCATAATGGAAGATGTGATGA
*
30434666 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATAT
* * * **
30434731 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GCGATAATGCATAATGGAAGATGTGATGA
*
30434760 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--CATAT
* ** * **
30434825 ATGTGATAGGGCCTAATGGCCGATGTGATGA
64 ATGCGATAATGCATAATGGAAGATGTGATGA
30434856 ATGTGATAAGT
1 ATGTGA-AAGT
30434867 CTCGAAGGGC
Statistics
Matches: 195, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
94 150 0.77
96 41 0.21
97 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATAT
GCGATAATGCATAATGGAAGATGTGATGA
Found at i:30434655 original size:110 final size:110
Alignment explanation
Indices: 30434462--30434689 Score: 438
Period size: 110 Copynumber: 2.1 Consensus size: 110
30434452 GATGTGATGA
*
30434462 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
30434527 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
30434572 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
30434637 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
30434682 ATGTGATA
1 ATGTGATA
30434690 AGGCCTAATG
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 116 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (110 bp):
ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:30434726 original size:157 final size:157
Alignment explanation
Indices: 30434440--30434736 Score: 585
Period size: 157 Copynumber: 1.9 Consensus size: 157
30434430 ATGATAGTAT
30434440 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
30434505 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
30434570 ATATGTGATAGTGTATATATGTGATAA
131 ATATGTGATAGTGTATATATGTGATAA
*
30434597 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
30434662 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
30434727 ATATGTGATA
131 ATATGTGATA
30434737 AGGCCTAATG
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 139 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (157 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAGTGTATATATGTGATAA
Found at i:30434736 original size:141 final size:142
Alignment explanation
Indices: 30434572--30434866 Score: 538
Period size: 141 Copynumber: 2.1 Consensus size: 142
30434562 AAGTGTATAT
*
30434572 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
30434637 GTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
30434701 CCGATGTGATGA
131 CCGATGTGATGA
30434713 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
30434778 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATG
30434843 GCCGATGTGATGA
130 GCCGATGTGATGA
30434856 ATGTGATAAGT
1 ATGTGA-AAGT
30434867 CTCGAAGGGC
Statistics
Matches: 148, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
141 103 0.70
143 41 0.28
144 4 0.03
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (142 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
CCGATGTGATGA
Found at i:30435040 original size:37 final size:37
Alignment explanation
Indices: 30434984--30435062 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30434974 CCGAGCTCTA
* *
30434984 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
30435021 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30435058 AAGAC
1 AAGAC
30435063 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30437093 original size:17 final size:17
Alignment explanation
Indices: 30437055--30437096 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
30437045 ATTCACATAT
*
30437055 AAAATATATAAAAAATT
1 AAAATATATAAAAAATA
*
30437072 GAAATATATAAAACAA-A
1 AAAATATATAAAA-AATA
30437089 AAAATATA
1 AAAATATA
30437097 AATAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATATATAAAAAATA
Found at i:30437123 original size:27 final size:27
Alignment explanation
Indices: 30437093--30437150 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
30437083 AACAAAAAAA
* * *
30437093 TATAAATAATTTTTTAAAAAAA-GTATG
1 TATAAAT-ATATTATAAAAAAATGCATG
*
30437120 TATATATATATTATAAAAAAATGCATG
1 TATAAATATATTATAAAAAAATGCATG
30437147 TATA
1 TATA
30437151 TGTGCATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (27 bp):
TATAAATATATTATAAAAAAATGCATG
Found at i:30437287 original size:29 final size:26
Alignment explanation
Indices: 30437254--30437330 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 26
30437244 TATATATGTA
* *
30437254 TAAAATATATACATGTATTTATAAAGT
1 TAAAAAATATACATGTATAT-TAAAGT
*
30437281 CTAAAAAATATAGGCATATATATTAAAGT
1 -TAAAAAATATA--CATGTATATTAAAGT
*
30437310 TAAAAAAATATGCATGTATAT
1 T-AAAAAATATACATGTATAT
30437331 GTATAGAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
27 8 0.20
28 11 0.27
29 15 0.37
30 7 0.17
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (26 bp):
TAAAAAATATACATGTATATTAAAGT
Found at i:30437324 original size:27 final size:29
Alignment explanation
Indices: 30437275--30437330 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
30437265 CATGTATTTA
30437275 TAAAGTCTAAAAAATATAGGCATATATAT
1 TAAAGTCTAAAAAATATAGGCATATATAT
* *
30437304 TAAAGT-TAAAAAA-ATATGCATGTATAT
1 TAAAGTCTAAAAAATATAGGCATATATAT
30437331 GTATAGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.48
28 7 0.28
29 6 0.24
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (29 bp):
TAAAGTCTAAAAAATATAGGCATATATAT
Found at i:30438347 original size:21 final size:20
Alignment explanation
Indices: 30438309--30438348 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30438299 ATATTGTAGT
*
30438309 TGGGCTTGGGTTTAGGTTAA
1 TGGGCTTGAGTTTAGGTTAA
*
30438329 TGGGCTTGTAGTTTGGGTTA
1 TGGGCTTG-AGTTTAGGTTA
30438349 TTTAGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (20 bp):
TGGGCTTGAGTTTAGGTTAA
Found at i:30445754 original size:27 final size:27
Alignment explanation
Indices: 30445695--30445756 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
30445685 ACTTCAGATC
*
30445695 GCCAGGCCCTCTGGCGAACACCAACTT
1 GCCAGGCCCTCTAGCGAACACCAACTT
* *
30445722 GACAGGCCCTCTAGTGAACACCAACTAT
1 GCCAGGCCCTCTAGCGAACACCAACT-T
30445750 -CCAGGCC
1 GCCAGGCC
30445757 TAAAGGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.39, G:0.21, T:0.15
Consensus pattern (27 bp):
GCCAGGCCCTCTAGCGAACACCAACTT
Found at i:30450090 original size:19 final size:18
Alignment explanation
Indices: 30450060--30450097 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
30450050 TGGTTTTCTC
*
30450060 AAAATGGAAATAGAAATG
1 AAAATGGAAATAAAAATG
30450078 AAAATGAGAAATAAAAATG
1 AAAATG-GAAATAAAAATG
30450097 A
1 A
30450098 TTCTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATAAAAATG
Found at i:30452332 original size:12 final size:12
Alignment explanation
Indices: 30452315--30452339 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30452305 GTAGAATCTA
30452315 TTTTTGTATTTG
1 TTTTTGTATTTG
30452327 TTTTTGTATTTG
1 TTTTTGTATTTG
30452339 T
1 T
30452340 ATCTGTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTTGTATTTG
Found at i:30463260 original size:30 final size:31
Alignment explanation
Indices: 30463223--30463300 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
30463213 TGACGATTTA
30463223 AAAAAAAACCATTT-AACAGTCCAATGACTTT
1 AAAAAAAA-CATTTAAACAGTCCAATGACTTT
* * *
30463254 AAAAAAAACTTTTAAATAGTTCAATGAC-TT
1 AAAAAAAACATTTAAACAGTCCAATGACTTT
* *
30463284 AAATGAAAACTTTTAAA
1 AAA-AAAAACATTTAAA
30463301 TAGTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.22
31 32 0.78
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (31 bp):
AAAAAAAACATTTAAACAGTCCAATGACTTT
Found at i:30463279 original size:31 final size:31
Alignment explanation
Indices: 30463244--30463305 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
30463234 TTTAACAGTC
30463244 CAATGACTTTAAA-AAAAACTTTTAAATAGTT
1 CAATGAC-TTAAATAAAAACTTTTAAATAGTT
*
30463275 CAATGACTTAAATGAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
30463306 TAAAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTAAATAGTT
Found at i:30463326 original size:29 final size:30
Alignment explanation
Indices: 30463258--30463316 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
30463248 GACTTTAAAA
*
30463258 AAAACTTTTAAATAGTTCAATGACTTAAATG
1 AAAACTTTTAAATAGTTCAA-GAATTAAATG
*
30463289 AAAACTTTTAAATAGTTTAA-AATTAAAT
1 AAAACTTTTAAATAGTTCAAGAATTAAAT
30463317 TGTAACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
31 19 0.73
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (30 bp):
AAAACTTTTAAATAGTTCAAGAATTAAATG
Found at i:30464849 original size:21 final size:19
Alignment explanation
Indices: 30464818--30464861 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
30464808 TTACATAATG
30464818 TAATAATATATTTAAAATAT
1 TAATAATATATTT-AAATAT
*
30464838 TAATACATATATTTAACTAT
1 TAATA-ATATATTTAAATAT
30464858 TAAT
1 TAAT
30464862 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAATATATTTAAATAT
Found at i:30466106 original size:20 final size:19
Alignment explanation
Indices: 30466068--30466117 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
30466058 TAATAATTAA
30466068 TATATTATGT-ATTACTAT
1 TATATTATGTAATTACTAT
*
30466086 TATATTATGTAATATAGTAT
1 TATATTATGTAAT-TACTAT
* *
30466106 TAAATAATGTAA
1 TATATTATGTAA
30466118 ATATTAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 15 0.56
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (19 bp):
TATATTATGTAATTACTAT
Found at i:30471866 original size:40 final size:40
Alignment explanation
Indices: 30471782--30471965 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
30471772 TTGAATGCTG
* * * *
30471782 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
30471821 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
30471862 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
30471902 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
30471942 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30471966 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:30471919 original size:80 final size:81
Alignment explanation
Indices: 30471782--30471962 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
30471772 TTGAATGCTG
* * *
30471782 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
30471846 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
30471862 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
30471923 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
30471942 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
30471963 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:30471986 original size:39 final size:39
Alignment explanation
Indices: 30471850--30472012 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 39
30471840 GGTATTTGTG
* * * **
30471850 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
30471890 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
30471930 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
30471969 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
30472009 CGAG
1 CGAG
30472013 GAGCTAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 29 0.28
40 75 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:30476013 original size:55 final size:56
Alignment explanation
Indices: 30475963--30476068 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 56
30475953 TTTTTATGGA
* * *
30475963 TTTTCCTCTAGGATAAATCCAACAACCCATGTTTATCTTCTCCT-CTTTTTAAAAAC
1 TTTT-CTCTAGGATAAAACCAACAACCCAGGATTATCTTCTCCTCCTTTTTAAAAAC
* * *
30476019 TTTTTTTTAGGATAAAACCAACAACCTAGGATTATCTTCTCCTCCTTTTT
1 TTTTCTCTAGGATAAAACCAACAACCCAGGATTATCTTCTCCTCCTTTTT
30476069 TAGGCAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 33 0.77
56 10 0.23
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.42
Consensus pattern (56 bp):
TTTTCTCTAGGATAAAACCAACAACCCAGGATTATCTTCTCCTCCTTTTTAAAAAC
Found at i:30476352 original size:20 final size:23
Alignment explanation
Indices: 30476315--30476359 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
30476305 TGCAATATTA
30476315 AAAATGCTAACTAAAATGT-CTT
1 AAAATGCTAACTAAAATGTACTT
30476337 AAAATG-TAAC-AAAATGTACTT
1 AAAATGCTAACTAAAATGTACTT
30476358 AA
1 AA
30476360 GTACAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATGCTAACTAAAATGTACTT
Found at i:30486273 original size:282 final size:281
Alignment explanation
Indices: 30485734--30486296 Score: 814
Period size: 282 Copynumber: 2.0 Consensus size: 281
30485724 TGTTTTAAAG
* *
30485734 TGTATTTGATATATTATATTTTAAAATTATTTATTTAATAAAATAATTTAAAATATTAATATGGG
1 TGTATTTCATATATTATATTTTAAAATTATTTATTTAATAAAATAATTTAAAAAATTAATATGGG
** ** *
30485799 TTGGACCGGGTCGAGCTTGGACTTAATTATTATATTTTGGATCAAGTTTAAACAAATTTTTAGAC
66 TCAGACCGGGTC--GCTCAGACTTAATTATTATATTTTGGATCAAGTTTAAACAAATTTTTAAAC
* *
30485864 TCATATTCAAGCCAACACAAATCCTACCCAACGCATGATCACCTCTACCCTCACCTTTGAGCTTA
129 TCATATTCAAACCAACACAAATCCAACCCAACGCATGATCACCTCTACCCTCACCTTTGAGCTTA
*
30485929 AGTAAAATATATAATCAACCATAACATTTTGCTTAACATTAGAAATGTTTTGTCAAGTCAAAACT
194 AGTAAAATATATAATCAAACATAACATTTTGCTTAACATTAGAAATGTTTTGTCAAGTCAAAACT
30485994 CATGACTTGATAGATTATTGAAT
259 CATGACTTGATAGATTATTGAAT
* *
30486017 TGTATTTCATATATTGTATTTTAAAATTGTTTATTTAATAAAATAATTTAAAAAAATTAATATGG
1 TGTATTTCATATATTATATTTTAAAATTATTTATTTAATAAAATAATTT-AAAAAATTAATATGG
* * *
30486082 GTCAGACCAGGG-C-CTCAGACTTAATTATTATATTTTGGGTC-GGATTTAGACAAATTTTTAAA
65 GTCAGACC-GGGTCGCTCAGACTTAATTATTATATTTTGGATCAAG-TTTAAACAAATTTTTAAA
* * * * *
30486144 TTCATATTTCAAACCAACCCAAATTCAACTCGACGCATGATCACCTCTACCCTCACCTTTGAG-T
128 CTCATA-TTCAAACCAACACAAATCCAACCCAACGCATGATCACCTCTACCCTCACCTTTGAGCT
*
30486208 TAAGT-AAATATATAATCAAACATAACATTTT-CATTAACATTAGAATAATGTTTTGTCTAGTCA
192 TAAGTAAAATATATAATCAAACATAACATTTTGC-TTAACATTAG-A-AATGTTTTGTCAAGTCA
30486271 AAACTCATGACTTGATAGATTATTGA
254 AAACTCATGACTTGATAGATTATTGA
30486297 TGAAACAAAA
Statistics
Matches: 252, Mismatches: 21, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
279 1 0.00
280 36 0.14
281 53 0.21
282 92 0.37
283 46 0.18
284 21 0.08
285 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (281 bp):
TGTATTTCATATATTATATTTTAAAATTATTTATTTAATAAAATAATTTAAAAAATTAATATGGG
TCAGACCGGGTCGCTCAGACTTAATTATTATATTTTGGATCAAGTTTAAACAAATTTTTAAACTC
ATATTCAAACCAACACAAATCCAACCCAACGCATGATCACCTCTACCCTCACCTTTGAGCTTAAG
TAAAATATATAATCAAACATAACATTTTGCTTAACATTAGAAATGTTTTGTCAAGTCAAAACTCA
TGACTTGATAGATTATTGAAT
Found at i:30486967 original size:24 final size:24
Alignment explanation
Indices: 30486918--30487006 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 24
30486908 TATGTGTCTA
* * *
30486918 CATCTGTATCTAAAT-TTATATCTG
1 CATCTGTATCTGAATCTAAAAT-TG
* * *
30486942 CATTTGTATTTGTATCTAAAATTG
1 CATCTGTATCTGAATCTAAAATTG
*
30486966 CATCTGTCTCTGAATCTAAAATTG
1 CATCTGTATCTGAATCTAAAATTG
* * *
30486990 TATCTATATCTGTATCT
1 CATCTGTATCTGAATCT
30487007 GATCTGTTTG
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 46 0.92
25 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (24 bp):
CATCTGTATCTGAATCTAAAATTG
Found at i:30489158 original size:14 final size:15
Alignment explanation
Indices: 30489134--30489162 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30489124 ATATAAAAAC
30489134 TATTAATATATTATA
1 TATTAATATATTATA
30489149 TATT-ATATATTATA
1 TATTAATATATTATA
30489163 AGATATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAATATATTATA
Found at i:30491594 original size:47 final size:47
Alignment explanation
Indices: 30491534--30491892 Score: 584
Period size: 47 Copynumber: 7.6 Consensus size: 47
30491524 ATAGTATGGG
30491534 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
30491581 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
30491628 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
30491675 TTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
30491722 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
30491771 CTAATGGCCGATGTGATGAATGTGAAAGTG----TATGTGAT-AGAGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG-GC
*
30491814 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
30491863 CTAATGGCCGATGTGATGAATGTGATAAGT
1 CTAATGGCCGATGTGATGAATGTGA-AAGT
30491893 CCCGAAGGGC
Statistics
Matches: 292, Mismatches: 9, Indels: 19
0.91 0.03 0.06
Matches are distributed among these distances:
42 1 0.00
43 40 0.14
47 165 0.57
49 81 0.28
50 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (47 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
Found at i:30492053 original size:37 final size:37
Alignment explanation
Indices: 30492010--30492088 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30492000 CCGAGCTCTA
* * *
30492010 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
30492047 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
30492084 AAGAC
1 AAGAC
30492089 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:30493772 original size:17 final size:18
Alignment explanation
Indices: 30493747--30493784 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30493737 ATTATAAGGT
30493747 ATAATAAGAAATAAAAAA
1 ATAATAAGAAATAAAAAA
* *
30493765 ATAA-AAGATATAAATAA
1 ATAATAAGAAATAAAAAA
30493782 ATA
1 ATA
30493785 TGACACTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
ATAATAAGAAATAAAAAA
Found at i:30503597 original size:34 final size:34
Alignment explanation
Indices: 30503559--30503625 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
30503549 CCCTAATGCT
* *
30503559 TACTGATACTGGAATAG-GCTCAGGCCTAAACTGA
1 TACTGATACT-GAAAAGTGCTCAGGCCCAAACTGA
*
30503593 TACTGATACTGAAAAGTGCTTAGGCCCAAACTG
1 TACTGATACTGAAAAGTGCTCAGGCCCAAACTG
30503626 CGATTATCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 24 0.83
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (34 bp):
TACTGATACTGAAAAGTGCTCAGGCCCAAACTGA
Found at i:30504112 original size:20 final size:20
Alignment explanation
Indices: 30504084--30504121 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30504074 TAAGCAAAGT
* *
30504084 TACGGTTTTCCAACACAACC
1 TACGATTTTCAAACACAACC
30504104 TACGATTTTCAAACACAA
1 TACGATTTTCAAACACAA
30504122 TATCATATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (20 bp):
TACGATTTTCAAACACAACC
Found at i:30509791 original size:617 final size:617
Alignment explanation
Indices: 30508618--30509849 Score: 2140
Period size: 617 Copynumber: 2.0 Consensus size: 617
30508608 TCTAACCCTA
* * *
30508618 CACGCCATGTGAGGATTAAATCAACCTATCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
1 CACGCCATATGAGGATTAAATCAACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
* *
30508683 CATAATCAGAAGGTTACAGCTGAGCTGCCAGATAACAAGCTTAATAGCCTTTCAGACACTTATTT
66 CATAATCAGAAGGTTACAGCTGAGCTGCCAGATAACAAGCTTAATAGCCTTTCAGACACTTACTC
30508748 CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATAAGTCATGCCATTATGCAATTA
131 CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATAAGTCATGCCATTATGCAATTA
*
30508813 ATAGTACATACATTTAGATATCATAAGTCATGCTCGGTATAAAAATCAGACAGACAGATCACATA
196 ATAGTACATACATTTAGATATCATAAGTCATGCTCAGTATAAAAATCAGACAGACAGATCACATA
* *
30508878 TATAAGGGTCTAAGTAAAGCTTACCGACCCTATAGTAGGTTTACTGTTGACGTGGGCGACCCATG
261 TATAAGGGTCTAAGTAAAGCTTACCGACCCTACAGTAGGTTCACTGTTGACGTGGGCGACCCATG
* * *
30508943 CAACCTTAGCAATCAATTCAGTGAAAATGGGCTCACACGCCCATGTGGTCTACCTGTATAGGCCT
326 CAACCTTAGCAATCAATTCAGTGAAAATGGGCTCACACGCCCATGTGGTCTACCCGCATAGGCCC
** *
30509008 ACATGCTTGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTGCATAGTCCATTTTTAATGTAACC
391 ACATGCCCGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTGCATAGTCCATTTTCAATGTAACC
30509073 CGTGCTAGCTAAATATTCATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTAC
456 CGTGCTAGCTAAATATTCATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTAC
* *
30509138 TGGAGTCATTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCGCTTGA
521 TGGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCACTTGA
*
30509203 TGTCTTTGAAACTAGAGTCAAATACCTTTCCT
586 TGTCTTTGAAACTAGACTCAAATACCTTTCCT
* *
30509235 CACGCCATATGGGGATTAAATCCACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
1 CACGCCATATGAGGATTAAATCAACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
* *
30509300 CATAATCAGAAGGTTGCAGCTGAGCTGCCAGATAACAAGCTTAATAGCCTTTCAGACACTTCCTC
66 CATAATCAGAAGGTTACAGCTGAGCTGCCAGATAACAAGCTTAATAGCCTTTCAGACACTTACTC
* *
30509365 CAAATATCATCAACCCACCTCGATGCAATGCAACATACAAAATATGTCATGCCATTATGCAATTA
131 CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATAAGTCATGCCATTATGCAATTA
*
30509430 ATAGTACATACATTTAGATATCATAAGTCATGCTCAGTATAAAAATCAGACAGACAGATCACTTA
196 ATAGTACATACATTTAGATATCATAAGTCATGCTCAGTATAAAAATCAGACAGACAGATCACATA
* * *
30509495 TATAGGGGTCTAAGTAAAGCTTATCGACCCTACAGTAGGTTCACTGTTGACGTGGGTGACCCATG
261 TATAAGGGTCTAAGTAAAGCTTACCGACCCTACAGTAGGTTCACTGTTGACGTGGGCGACCCATG
30509560 CAACCTTAGCAATCAATTCAGTGAAAATGGGCTCACACGCCCATGTGGTCTACCCGCATAGGCCC
326 CAACCTTAGCAATCAATTCAGTGAAAATGGGCTCACACGCCCATGTGGTCTACCCGCATAGGCCC
* * * *
30509625 ACATGCCCGTGTGGCCCACTTGGTCCAAATTGGCCTTGGCTGCATAGTCCATTTTCATTGTAACC
391 ACATGCCCGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTGCATAGTCCATTTTCAATGTAACC
* *
30509690 CGTGCTAGCTAAATATTCATATATGTTTTCACTGTTTACTTATATGTTCCTTCAAAGTTGTCTAC
456 CGTGCTAGCTAAATATTCATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTAC
* *
30509755 TTGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAGAATTCCAAATTAAGGTCCACTTGA
521 TGGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCACTTGA
*
30509820 TGTTTTTGAAACTAGACTCAAATACCTTTC
586 TGTCTTTGAAACTAGACTCAAATACCTTTC
30509850 TACGATAATA
Statistics
Matches: 579, Mismatches: 36, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
617 579 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (617 bp):
CACGCCATATGAGGATTAAATCAACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
CATAATCAGAAGGTTACAGCTGAGCTGCCAGATAACAAGCTTAATAGCCTTTCAGACACTTACTC
CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATAAGTCATGCCATTATGCAATTA
ATAGTACATACATTTAGATATCATAAGTCATGCTCAGTATAAAAATCAGACAGACAGATCACATA
TATAAGGGTCTAAGTAAAGCTTACCGACCCTACAGTAGGTTCACTGTTGACGTGGGCGACCCATG
CAACCTTAGCAATCAATTCAGTGAAAATGGGCTCACACGCCCATGTGGTCTACCCGCATAGGCCC
ACATGCCCGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTGCATAGTCCATTTTCAATGTAACC
CGTGCTAGCTAAATATTCATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTAC
TGGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCACTTGA
TGTCTTTGAAACTAGACTCAAATACCTTTCCT
Found at i:30511444 original size:18 final size:20
Alignment explanation
Indices: 30511420--30511469 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
30511410 TTAATGCAAT
30511420 TAAATATTATTAT-ATTTGA
1 TAAATATTATTATAATTTGA
*
30511439 -AAATATAAATT-TAATTTGA
1 TAAATAT-TATTATAATTTGA
30511458 TAAATATTATTA
1 TAAATATTATTA
30511470 ATATGTGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 7 0.28
19 12 0.48
20 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
TAAATATTATTATAATTTGA
Found at i:30517197 original size:9 final size:9
Alignment explanation
Indices: 30517183--30517209 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
30517173 AAAAGTTTAA
30517183 TTAATTTTT
1 TTAATTTTT
30517192 TTAATTTTT
1 TTAATTTTT
30517201 TTAATTTTT
1 TTAATTTTT
30517210 AAAAGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTAATTTTT
Found at i:30518401 original size:12 final size:12
Alignment explanation
Indices: 30518384--30518420 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30518374 AGTATGCTAG
30518384 AGTTTTTAGTTT
1 AGTTTTTAGTTT
30518396 AGTTTTTA-TTT
1 AGTTTTTAGTTT
*
30518407 -GTTTTCAGTTT
1 AGTTTTTAGTTT
30518418 AGT
1 AGT
30518421 CCTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 6 0.27
11 6 0.27
12 10 0.45
ACGTcount: A:0.16, C:0.03, G:0.16, T:0.65
Consensus pattern (12 bp):
AGTTTTTAGTTT
Found at i:30524592 original size:60 final size:60
Alignment explanation
Indices: 30524499--30524623 Score: 250
Period size: 60 Copynumber: 2.1 Consensus size: 60
30524489 TGAGATATTT
30524499 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
30524559 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
30524619 TGGAT
1 TGGAT
30524624 GTATCTAAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (60 bp):
TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
Found at i:30526275 original size:17 final size:17
Alignment explanation
Indices: 30526255--30526311 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
30526245 TAAACTTTGT
30526255 TTTTCCCATCTCTTTTA
1 TTTTCCCATCTCTTTTA
*
30526272 TTTTCCC-TCACTTTCCTA
1 TTTTCCCATCTCTTT--TA
* *
30526290 TTTTTCAATCTCTTTTA
1 TTTTCCCATCTCTTTTA
*
30526307 CTTTC
1 TTTTC
30526312 AAACCCCCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 6 0.19
17 12 0.39
18 7 0.23
19 6 0.19
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTCCCATCTCTTTTA
Found at i:30546673 original size:6 final size:6
Alignment explanation
Indices: 30546662--30546703 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
30546652 GGTTTTCTTA
* *
30546662 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
30546704 ATTCTTTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:30557676 original size:22 final size:23
Alignment explanation
Indices: 30557651--30557710 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
30557641 TGGACTGAAT
30557651 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
30557673 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
30557695 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
30557711 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:30557678 original size:4 final size:4
Alignment explanation
Indices: 30557660--30557693 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
30557650 TATAAAAATT
30557660 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
30557694 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:30564146 original size:22 final size:23
Alignment explanation
Indices: 30564121--30564180 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
30564111 TGGACTGAAT
30564121 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
30564143 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
30564165 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
30564181 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:30564148 original size:4 final size:4
Alignment explanation
Indices: 30564130--30564163 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
30564120 TATAAAAATT
30564130 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
30564164 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:30570342 original size:30 final size:30
Alignment explanation
Indices: 30570308--30570372 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
30570298 ATGTGTCTAC
* * *
30570308 ATTTGTATCTGAATTTGTATCTGCATCTGT
1 ATTTGTATCTAAAATTGTATCTGCATCTGA
*
30570338 ATTTGTATCTAAAATTGTATCTGTATCTGA
1 ATTTGTATCTAAAATTGTATCTGCATCTGA
30570368 ATTTG
1 ATTTG
30570373 AAATTGTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTTGTATCTAAAATTGTATCTGCATCTGA
Found at i:30570344 original size:6 final size:6
Alignment explanation
Indices: 30570311--30570402 Score: 55
Period size: 6 Copynumber: 15.5 Consensus size: 6
30570301 TGTCTACATT
* * * * **
30570311 TGTATC TGAATT TGTATC TGCATC TGTATT TGTATC TAAAAT- TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC T-GTATC TGTATC
* * * *
30570359 TGTATC TGAATT TGAAAT- TGTATC TATATC TGTATC TG-ATC TGT
1 TGTATC TGTATC TG-TATC TGTATC TGTATC TGTATC TGTATC TGT
30570403 TTGTATAGGT
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
5 9 0.14
6 50 0.78
7 5 0.08
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (6 bp):
TGTATC
Found at i:30570359 original size:24 final size:24
Alignment explanation
Indices: 30570332--30570395 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
30570322 TTGTATCTGC
*
30570332 ATCTGTATTTGTATCTAAAATTGT
1 ATCTGTATCTGTATCTAAAATTGT
* * *
30570356 ATCTGTATCTGAATTTGAAATTGT
1 ATCTGTATCTGTATCTAAAATTGT
*
30570380 ATCTATATCTGTATCT
1 ATCTGTATCTGTATCT
30570396 GATCTGTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.48
Consensus pattern (24 bp):
ATCTGTATCTGTATCTAAAATTGT
Found at i:30571089 original size:7 final size:7
Alignment explanation
Indices: 30571072--30571116 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
30571062 ATATATAAAC
30571072 TATTAATA
1 TATT-ATA
30571080 TATTATA
1 TATTATA
30571087 TATTATA
1 TATTATA
30571094 TATTATA
1 TATTATA
30571101 T-TATATTA
1 TAT-TA-TA
30571109 TATTATA
1 TATTATA
30571116 T
1 T
30571117 GGTAGTAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 1 0.03
7 23 0.68
8 9 0.26
9 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:30571093 original size:5 final size:5
Alignment explanation
Indices: 30571078--30571116 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
30571068 AAACTATTAA
30571078 TATAT TATA- TAT-T ATATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT
30571117 GGTAGTAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 3 0.10
5 27 0.87
6 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:30571100 original size:12 final size:12
Alignment explanation
Indices: 30571078--30571111 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
30571068 AAACTATTAA
30571078 TATATTATATAT
1 TATATTATATAT
30571090 TATA-TATTATAT
1 TATATTA-TATAT
30571102 TATATTATAT
1 TATATTATAT
30571112 TATATGGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATTATATAT
Found at i:30572617 original size:5 final size:5
Alignment explanation
Indices: 30572609--30572638 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
30572599 TATATTATAA
30572609 GATAT GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT
30572639 AGCATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:30572618 original size:15 final size:15
Alignment explanation
Indices: 30572600--30572637 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
30572590 AACATATTAT
*
30572600 ATATTATAAGATATG
1 ATATGATAAGATATG
*
30572615 ATATGATATGATATG
1 ATATGATAAGATATG
30572630 ATATGATA
1 ATATGATA
30572638 TAGCATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (15 bp):
ATATGATAAGATATG
Found at i:30582770 original size:42 final size:42
Alignment explanation
Indices: 30582721--30582803 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
30582711 AAATTCAAAG
*
30582721 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAATGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
30582763 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
30582804 CACACATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:30586743 original size:3 final size:3
Alignment explanation
Indices: 30586737--30586772 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
30586727 ATCGTTTTTC
30586737 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30586773 ACGCATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30590419 original size:9 final size:9
Alignment explanation
Indices: 30590407--30590441 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
30590397 AAAAAGGAAA
30590407 AAGAAAAAG
1 AAGAAAAAG
30590416 AAGAAAAAG
1 AAGAAAAAG
*
30590425 AAGAAGAAG
1 AAGAAAAAG
30590434 AAGAAAAA
1 AAGAAAAA
30590442 AGAGAGGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:30590421 original size:15 final size:15
Alignment explanation
Indices: 30590403--30590435 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30590393 TAAAAAAAAG
30590403 GAAAAAGAAAAAGAA
1 GAAAAAGAAAAAGAA
*
30590418 GAAAAAGAAGAAGAA
1 GAAAAAGAAAAAGAA
30590433 GAA
1 GAA
30590436 GAAAAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAGAA
Found at i:30593026 original size:22 final size:23
Alignment explanation
Indices: 30593001--30593045 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30592991 TTTCCGTAAA
* *
30593001 TATATTTA-TTTTATCTTTTTAT
1 TATATTTACTTATATCCTTTTAT
30593023 TATATTTACTTATATCCTTTTAT
1 TATATTTACTTATATCCTTTTAT
30593046 AATTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (23 bp):
TATATTTACTTATATCCTTTTAT
Found at i:30594943 original size:24 final size:23
Alignment explanation
Indices: 30594900--30594945 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
30594890 TAATAACATA
*
30594900 ATCAAATAAAAAAATTAAATTAT
1 ATCAAATAAAAAAATGAAATTAT
30594923 ATCAAATTAAAATAAA-GAAATTA
1 ATCAAA-TAAAA-AAATGAAATTA
30594946 AAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 11 0.55
25 3 0.15
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (23 bp):
ATCAAATAAAAAAATGAAATTAT
Found at i:30594982 original size:25 final size:26
Alignment explanation
Indices: 30594941--30594993 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
30594931 AAAATAAAGA
*
30594941 AATTAAAATTTATTTTTTAATA-AAT
1 AATTAAAATTTAGTTTTTAATATAAT
*
30594966 AATT-AAATTTAAGTTTTTAGTATAAT
1 AATTAAAATTT-AGTTTTTAATATAAT
30594992 AA
1 AA
30594994 GTATACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 13 0.54
26 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
AATTAAAATTTAGTTTTTAATATAAT
Found at i:30595382 original size:14 final size:14
Alignment explanation
Indices: 30595338--30595384 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
30595328 AAATTTATTT
30595338 ATTTATTATATAAA
1 ATTTATTATATAAA
* * *
30595352 ATTT-TAAAATAAT
1 ATTTATTATATAAA
30595365 ATTTATTATATAAA
1 ATTTATTATATAAA
30595379 ATTTAT
1 ATTTAT
30595385 CTTTTGTCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTATTATATAAA
Found at i:30601078 original size:34 final size:34
Alignment explanation
Indices: 30601023--30601087 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
30601013 AATAATCTCT
* * * *
30601023 GTTTGGGCCTACGCCCTTTTCAGTATCAGTATCA
1 GTTTAGGCCTAAGCCCATTTCAATATCAGTATCA
*
30601057 GTTTAGGCCTAAGCCCATTTCAATATGAGTA
1 GTTTAGGCCTAAGCCCATTTCAATATCAGTA
30601088 AGTATTAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (34 bp):
GTTTAGGCCTAAGCCCATTTCAATATCAGTATCA
Found at i:30608293 original size:34 final size:34
Alignment explanation
Indices: 30608249--30608314 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
30608239 AAATAATCTC
*
30608249 AGTTTGGGCCTAAGCCC-TTTTCAGTATCAGTATT
1 AGTTTAGGCCTAAGCCCATTTT-AGTATCAGTATT
*
30608283 AGTTTAGGCCTAAGCCCATTTTAGTATGAGTA
1 AGTTTAGGCCTAAGCCCATTTTAGTATCAGTA
30608315 AGCATTAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (34 bp):
AGTTTAGGCCTAAGCCCATTTTAGTATCAGTATT
Found at i:30608327 original size:34 final size:35
Alignment explanation
Indices: 30608254--30608335 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
30608244 ATCTCAGTTT
*
30608254 GGGCCTAAGCCC-TTTTCAGTATCAGTATTAGTTTA
1 GGGCCTAAGCCCATTTTCAGTATCAGTA-TAGATTA
*
30608289 -GGCCTAAGCCCATTTT-AGTATGAGTA-AGCATTA
1 GGGCCTAAGCCCATTTTCAGTATCAGTATAG-ATTA
*
30608322 GGGCCTTAGCCCAT
1 GGGCCTAAGCCCAT
30608336 CACAGTACAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 2 0.05
33 3 0.07
34 32 0.78
35 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
GGGCCTAAGCCCATTTTCAGTATCAGTATAGATTA
Found at i:30611740 original size:47 final size:47
Alignment explanation
Indices: 30611686--30612106 Score: 565
Period size: 47 Copynumber: 8.6 Consensus size: 47
30611676 TATTTGAATA
30611686 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30611733 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30611784 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
30611835 AATGT-AAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30611882 AATGTGAAAGCGTATATATGTGTGATAAGGCCCGATAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATA--TGTGATAAGG-CC--TAATGGCCGATGTGATG
30611934 AATGTGAAAGTGTATATATATATGATGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATG-TGATAAGGCCTAATGGCCGATGTGATG
*
30611986 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
30612033 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30612080 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30612107 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 16, Indels: 32
0.88 0.04 0.08
Matches are distributed among these distances:
47 150 0.44
48 10 0.03
49 10 0.03
50 4 0.01
51 94 0.27
52 56 0.16
54 4 0.01
55 8 0.02
56 6 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30611758 original size:51 final size:51
Alignment explanation
Indices: 30611698--30612051 Score: 550
Period size: 51 Copynumber: 7.1 Consensus size: 51
30611688 TGTGAAAGTG
30611698 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
30611749 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
30611800 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGT-AAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATA
*
30611847 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG--TA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
30611896 TATATGTGTGATAAGGCCCGATAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGG-CC--TAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
30611950 TATATATGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG----
1 TATATATG-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
30611998 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
30612049 TAT
1 TAT
30612052 GTGACAGGGC
Statistics
Matches: 281, Mismatches: 8, Indels: 28
0.89 0.03 0.09
Matches are distributed among these distances:
47 80 0.28
48 10 0.04
49 15 0.05
50 4 0.01
51 97 0.35
52 56 0.20
54 11 0.04
55 8 0.03
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (51 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:30612017 original size:151 final size:147
Alignment explanation
Indices: 30611686--30612095 Score: 644
Period size: 151 Copynumber: 2.8 Consensus size: 147
30611676 TATTTGAATA
*
30611686 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
30611751 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
64 TATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
30611816 CCTAATGGCCGACGTGATG
129 CCTAATGGCCGACGTGATG
* *
30611835 AATGTAAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATA
1 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30611900 TGTGTGATAAGGCCCGATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATGATAA
66 TGTGTGATAAGG-CC--TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATG-TGATAA
*
30611965 GGCCTAATGGCCGATGTGATG
127 GGCCTAATGGCCGACGTGATG
30611986 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
30612051 --TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 TGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
30612096 AATGTGATAA
Statistics
Matches: 243, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
146 28 0.12
147 17 0.07
148 4 0.02
149 64 0.26
150 41 0.17
151 89 0.37
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (147 bp):
AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCC
TAATGGCCGACGTGATG
Found at i:30612033 original size:198 final size:195
Alignment explanation
Indices: 30611686--30612101 Score: 633
Period size: 198 Copynumber: 2.1 Consensus size: 195
30611676 TATTTGAATA
30611686 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
30611749 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
66 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG---ATATATATGTGATAA
* * * *
30611814 GGCCTAATGGCCGACGTGATGAATGT-AAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
128 GGCCTAATGGCCGACGTGATGAATGTGAA-AGTGTATATATGTGACAAGGCCGAATGGCCAACGT
30611878 GATG
192 GATG
*
30611882 AATGTGAAAGCGTATATATGTGTGATAAGGCCCGATAATGGCCGATGTGATGAATGTGAAAGTGT
1 AATGTGAAAGTGTATATATGTGTGATAAGG-CC--TAATGGCCGATGTGATGAATGTGAAAGTGT
*
30611947 ATATATATATGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG-TATATATGTGATA
63 ATATATATATG-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
* * *
30612011 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
127 AGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGT
30612076 GATG
192 GATG
* *
30612080 GATGTGAAAGTGTATAAATGTG
1 AATGTGAAAGTGTATATATGTG
30612102 ATAAGTCCCG
Statistics
Matches: 201, Mismatches: 12, Indels: 12
0.89 0.05 0.05
Matches are distributed among these distances:
196 17 0.08
198 101 0.50
199 4 0.02
201 41 0.20
202 38 0.19
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (195 bp):
AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGC
CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:30612281 original size:37 final size:37
Alignment explanation
Indices: 30612225--30612303 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
30612215 CCGAGCTCTA
*
30612225 AAGACCCGATGACTACGTGTGG-GAATT-TCGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTAT-GTCCGGGT
*
30612262 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30612299 AAGAC
1 AAGAC
30612304 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30616563 original size:42 final size:42
Alignment explanation
Indices: 30616430--30616575 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
30616420 GTTACTCCGT
* * * *
30616430 GGAATCAGCACTTAGCAACCAAC-TTATATTCAATGATACGA
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
* * * *
30616471 GGAATCATCACATAGTAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG
* * *
30616513 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 -GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
30616556 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
30616576 CCTCGAAGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 19 0.22
42 32 0.37
43 29 0.34
44 5 0.06
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
Found at i:30616634 original size:67 final size:68
Alignment explanation
Indices: 30616515--30616643 Score: 181
Period size: 67 Copynumber: 1.9 Consensus size: 68
30616505 GGATACGGTG
30616515 GAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCTC
1 GAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCTC
30616580 GAA
66 GAA
* * * * **
30616583 GAATCTGCACTTAGCAACC-CCTTTTTG-ATCAGTGATTCGGGGAATTTGCACTTAGCAACCC
1 GAATCAGCACTTAGCAACCACC-TTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCC
30616644 TTTACATTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
67 32 0.59
68 22 0.41
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (68 bp):
GAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCTC
GAA
Found at i:30617636 original size:11 final size:13
Alignment explanation
Indices: 30617606--30617637 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30617596 TGCTCAAACG
30617606 TCAAAATTTTCGA
1 TCAAAATTTTCGA
30617619 TCAAAATTTTC-A
1 TCAAAATTTTCGA
30617631 -CAAAATT
1 TCAAAATT
30617638 ATTCTGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 1 0.05
13 11 0.58
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.38
Consensus pattern (13 bp):
TCAAAATTTTCGA
Found at i:30629159 original size:27 final size:27
Alignment explanation
Indices: 30629079--30629304 Score: 280
Period size: 27 Copynumber: 8.5 Consensus size: 27
30629069 GGTATAACAA
*
30629079 TCATTTTACCCTATG-GGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGG
* *
30629105 TCATTTTA-CCTACG-GGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCGG
* * *
30629130 TCATTTTACCCCATGGGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCGG
*
30629157 TCATTTTACCCTATGAGGGTACTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
*
30629184 TCATTTTACCCTATGAGGGTACTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
30629211 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
* * * * *
30629238 TCATTTTATCCTCTG-GGCTATTTTGA
1 TCATTTTACCCTATGAGGGTATTTCGG
* *
30629264 TCATTTTACCCTATAAGAGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
*
30629291 TTATTTTACCCTAT
1 TCATTTTACCCTAT
30629305 TTTAGGGTAT
Statistics
Matches: 172, Mismatches: 25, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
25 22 0.13
26 32 0.19
27 118 0.69
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGG
Found at i:30629290 original size:107 final size:105
Alignment explanation
Indices: 30629079--30629304 Score: 287
Period size: 107 Copynumber: 2.1 Consensus size: 105
30629069 GGTATAACAA
* *
30629079 TCATTTTACCCTATGGGGTATTTCGATCATTTTACCTACGGGGTATTTTGGTCATTTTACCCCAT
1 TCATTTTACCCTATGGGGTACTTCGATCATTTTACCTACGGGGTATTTCGGTCATTTTACCCCAT
* * *
30629144 GGGGGTATTTCAGTCATTTTACCCTATGAGGGTACTTCGG
66 GGGGCTATTTCAGTCATTTTACCCTATAAGAGTACTTCGG
* *
30629184 TCATTTTACCCTATGAGGGTACTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCC
1 TCATTTTACCCTATG-GGGTACTTCGATCATTTTA-CCTACG-GGGTATTTCGGTCATTTTA-CC
* * *
30629249 TC-T-GGGCTATTT-TGATCATTTTACCCTATAAGAGTATTTCGG
62 CCATGGGGCTATTTCAG-TCATTTTACCCTATAAGAGTACTTCGG
*
30629291 TTATTTTACCCTAT
1 TCATTTTACCCTAT
30629305 TTTAGGGTAT
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
105 15 0.14
106 18 0.17
107 50 0.48
108 19 0.18
109 3 0.03
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (105 bp):
TCATTTTACCCTATGGGGTACTTCGATCATTTTACCTACGGGGTATTTCGGTCATTTTACCCCAT
GGGGCTATTTCAGTCATTTTACCCTATAAGAGTACTTCGG
Found at i:30638477 original size:27 final size:27
Alignment explanation
Indices: 30638447--30638505 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
30638437 CTGACGACCT
30638447 CAACTTGCCAGGCCCTCTGGCGAACAC
1 CAACTTGCCAGGCCCTCTGGCGAACAC
* *
30638474 CAACTTGCCAGGCCCTCTTGTGAACAC
1 CAACTTGCCAGGCCCTCTGGCGAACAC
30638501 CAACT
1 CAACT
30638506 CTCAAGGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.39, G:0.19, T:0.19
Consensus pattern (27 bp):
CAACTTGCCAGGCCCTCTGGCGAACAC
Found at i:30638513 original size:27 final size:27
Alignment explanation
Indices: 30638447--30638514 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
30638437 CTGACGACCT
*
30638447 CAACTTGCCAGGCCCTCTGGCGAACAC
1 CAACTTGCAAGGCCCTCTGGCGAACAC
* * *
30638474 CAACTTGCCAGGCCCTCTTGTGAACAC
1 CAACTTGCAAGGCCCTCTGGCGAACAC
30638501 CAACTCT-CAAGGCC
1 CAACT-TGCAAGGCC
30638515 AACTGGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.40, G:0.19, T:0.18
Consensus pattern (27 bp):
CAACTTGCAAGGCCCTCTGGCGAACAC
Found at i:30642831 original size:21 final size:21
Alignment explanation
Indices: 30642807--30642856 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
30642797 GCCATTTATT
*
30642807 GCATGAAAAGTATATAATAAA
1 GCATGAAAACTATATAATAAA
*
30642828 GCATGAAAACTATATAATAAT
1 GCATGAAAACTATATAATAAA
30642849 GCAT-AAAA
1 GCATGAAAA
30642857 TCACATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (21 bp):
GCATGAAAACTATATAATAAA
Found at i:30657292 original size:21 final size:19
Alignment explanation
Indices: 30657258--30657301 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
30657248 CTACAAAATG
*
30657258 TAATAATATATTTAAAATAT
1 TAATAATAGATTT-AAATAT
*
30657278 TAATACATAGATTTAACTAT
1 TAATA-ATAGATTTAAATAT
30657298 TAAT
1 TAAT
30657302 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (19 bp):
TAATAATAGATTTAAATAT
Found at i:30658400 original size:5 final size:5
Alignment explanation
Indices: 30658347--30658396 Score: 73
Period size: 5 Copynumber: 10.0 Consensus size: 5
30658337 AAACTATTAA
* * *
30658347 TATAT TATAT TATAT TATAT TATAT TATAT TATAT AACAT TATAT AATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
30658397 AATAGGACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:30658519 original size:20 final size:19
Alignment explanation
Indices: 30658481--30658530 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
30658471 TAATAATTAA
30658481 TATATTATGT-ATTACTAT
1 TATATTATGTAATTACTAT
*
30658499 TATATTATGTAATATAGTAT
1 TATATTATGTAAT-TACTAT
* *
30658519 TAAATAATGTAA
1 TATATTATGTAA
30658531 GTATTAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 15 0.56
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (19 bp):
TATATTATGTAATTACTAT
Found at i:30673253 original size:47 final size:47
Alignment explanation
Indices: 30673184--30673339 Score: 213
Period size: 47 Copynumber: 3.3 Consensus size: 47
30673174 GTGACTCAAT
* *
30673184 TATATTTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30673231 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
30673278 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30673325 TAAAAATGTGATAAG
1 TATATATGTGATAAG
30673340 TCCCGAAGGG
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:30673514 original size:37 final size:37
Alignment explanation
Indices: 30673458--30673536 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
30673448 CCGAGCTCTA
*
30673458 AAGACCCGATGACTACGTGTGG-GAATT-TCGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTAT-GTCCGGGT
*
30673495 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30673532 AAGAC
1 AAGAC
30673537 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30677802 original size:42 final size:42
Alignment explanation
Indices: 30677664--30677809 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
30677654 GTTACTCCGT
* * * *
30677664 GGAATCAGCACTTAGCAACCAAC-TTATATTCAATGATACGA
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
* * * *
30677705 GGAATCATCACATAGTAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG
* * * *
30677747 TGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 -GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
30677790 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
30677810 CCTCGAAGAA
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.01
41 19 0.22
42 31 0.36
43 29 0.34
44 5 0.06
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
Found at i:30678871 original size:11 final size:13
Alignment explanation
Indices: 30678841--30678872 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30678831 TGCTCAAACG
30678841 TCAAAATTTTCGA
1 TCAAAATTTTCGA
30678854 TCAAAATTTTC-A
1 TCAAAATTTTCGA
30678866 -CAAAATT
1 TCAAAATT
30678873 ATTCTGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 1 0.05
13 11 0.58
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.38
Consensus pattern (13 bp):
TCAAAATTTTCGA
Found at i:30691779 original size:18 final size:18
Alignment explanation
Indices: 30691758--30691792 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30691748 CTATAAATTT
*
30691758 AAATTTAATGATAATATA
1 AAATATAATGATAATATA
*
30691776 AAATATAATGATCATAT
1 AAATATAATGATAATAT
30691793 TTCAACTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATAATGATAATATA
Found at i:30692969 original size:5 final size:5
Alignment explanation
Indices: 30692959--30693006 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
30692949 AAACTATTAA
* * *
30692959 TATAT TATAT TATAT TATA- T-TAT TATAT TATAT AACAT TATAT AATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
30693007 AATAGGACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 32 0.89
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:30692998 original size:18 final size:18
Alignment explanation
Indices: 30692961--30692999 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
30692951 ACTATTAATA
* *
30692961 TATTATATTATATTATAT
1 TATTATATTATATAACAT
30692979 TATTATATTATATAACAT
1 TATTATATTATATAACAT
30692997 TAT
1 TAT
30693000 ATAATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATATTATATAACAT
Found at i:30693128 original size:20 final size:19
Alignment explanation
Indices: 30693090--30693139 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
30693080 TAATAATTAA
30693090 TATATTATGT-ATTACTAT
1 TATATTATGTAATTACTAT
*
30693108 TATATTATGTAATATAGTAT
1 TATATTATGTAAT-TACTAT
* *
30693128 TAAATAATGTAA
1 TATATTATGTAA
30693140 GTATTAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 15 0.56
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (19 bp):
TATATTATGTAATTACTAT
Found at i:30715604 original size:41 final size:41
Alignment explanation
Indices: 30715505--30715605 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
30715495 GTTAATTATA
*
30715505 CCCTGAATTGCACATACATGCCCCTATTTGTACTTTGATAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTTGATAC
* * * *
30715546 CCATGAATTGCACATACGTGGCCCTGTTTGTACTTTGGTAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTTGATAC
* *
30715587 CCCTAAATTGCCCATACGT
1 CCCTGAATTGCACATACGT
30715606 ACCTATTTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTATTTGTACTTTGATAC
Found at i:30732028 original size:15 final size:16
Alignment explanation
Indices: 30731986--30732026 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
30731976 ACTAGCTTCT
30731986 TTTTTTTTTTCACGAA
1 TTTTTTTTTTCACGAA
30732002 TTTTTTTTTTCACGAA
1 TTTTTTTTTTCACGAA
30732018 TTTTTTTTT
1 TTTTTTTTT
30732027 CAACTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTTTTTTCACGAA
Found at i:30732086 original size:13 final size:12
Alignment explanation
Indices: 30732066--30732103 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
30732056 ATGGAAACCA
30732066 AATTTTTTTTTG
1 AATTTTTTTTTG
30732078 AATTTTTTTTTG
1 AATTTTTTTTTG
30732090 AATTTTTTTTTG
1 AATTTTTTTTTG
30732102 AA
1 AA
30732104 GAAACTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:30733139 original size:21 final size:23
Alignment explanation
Indices: 30733094--30733140 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30733084 TCACCTGCAA
* *
30733094 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
30733117 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
30733138 TAA
1 TAA
30733141 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:30736566 original size:41 final size:40
Alignment explanation
Indices: 30736521--30736678 Score: 190
Period size: 41 Copynumber: 3.9 Consensus size: 40
30736511 AGTTAATTAT
* * *
30736521 ACCCTGAATTGCATATATGTGCCTCTGTTTGCACTTTGGTA
1 ACCCTGAATTGCACATATGTGCC-CTGTTTGTACTTCGGTA
* **
30736562 ACCCTGAATTGCCCATATGTGCCCTTGTTTGTACTTCAATA
1 ACCCTGAATTGCACATATGTGCCC-TGTTTGTACTTCGGTA
* *
30736603 CCCCTGAATTGCACATAAGTGCCACTGTTTGTACTTCGGTA
1 ACCCTGAATTGCACATATGTGCC-CTGTTTGTACTTCGGTA
* * *
30736644 TCCCTGAATTGCACATATGTGCCCTATTTATACTT
1 ACCCTGAATTGCACATATGTGCCCTGTTTGTACTT
30736679 TGGTGATTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
40 11 0.11
41 88 0.88
42 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (40 bp):
ACCCTGAATTGCACATATGTGCCCTGTTTGTACTTCGGTA
Found at i:30739007 original size:20 final size:20
Alignment explanation
Indices: 30738984--30739027 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
30738974 CCACTTTTCG
30738984 TTTCTTAAAACCATTTACCA
1 TTTCTTAAAACCATTTACCA
* * *
30739004 TTTCTTATATCCATTTGCCA
1 TTTCTTAAAACCATTTACCA
30739024 TTTC
1 TTTC
30739028 ATATATCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTCTTAAAACCATTTACCA
Found at i:30739032 original size:20 final size:20
Alignment explanation
Indices: 30738994--30739039 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
30738984 TTTCTTAAAA
*
30738994 CCATTTACCATTTCTTATAT
1 CCATTTACCATTTCATATAT
*
30739014 CCATTTGCCATTTCATATAT
1 CCATTTACCATTTCATATAT
30739034 CCATTT
1 CCATTT
30739040 CCACCCATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (20 bp):
CCATTTACCATTTCATATAT
Found at i:30744039 original size:19 final size:17
Alignment explanation
Indices: 30744007--30744065 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
30743997 TTTTGAGGAC
*
30744007 TAAATTGAATATTTATT
1 TAAAATGAATATTTATT
*
30744024 TAAAATGAATATATT-TA
1 TAAAATGAATAT-TTATT
30744041 TACAAATTGAATATTTATT
1 TA-AAA-TGAATATTTATT
30744060 TAAAAT
1 TAAAAT
30744066 TGTTGCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 15 0.43
18 10 0.29
19 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (17 bp):
TAAAATGAATATTTATT
Found at i:30757763 original size:20 final size:20
Alignment explanation
Indices: 30757738--30757776 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30757728 TACTTTCTTC
30757738 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
30757758 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
30757777 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:30758067 original size:26 final size:26
Alignment explanation
Indices: 30758038--30758090 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
30758028 TGCCAATGTC
30758038 ATGTCCCAAACATGGTCTCACATGGG
1 ATGTCCCAAACATGGTCTCACATGGG
* *
30758064 ATGTCCCAAATATGGTCTTACATGGG
1 ATGTCCCAAACATGGTCTCACATGGG
30758090 A
1 A
30758091 GTTCTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
ATGTCCCAAACATGGTCTCACATGGG
Found at i:30758147 original size:50 final size:50
Alignment explanation
Indices: 30758064--30758185 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 50
30758054 CTCACATGGG
* * ** * *
30758064 ATGTCCCAAATATGGTCTTACATGGGAGTTCTCATATCGATGCCCATGCC
1 ATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGATGCCAACGCC
* * * * *
30758114 ATGTCCCAAACATTGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCT
1 ATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGATGCCAACGCC
* **
30758164 ATGTCCCAGATGTGGTCTTACA
1 ATGTCCCAAACATGGTCTTACA
30758186 TGGGTTCTCA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGATGCCAACGCC
Found at i:30759946 original size:30 final size:30
Alignment explanation
Indices: 30759907--30760042 Score: 116
Period size: 30 Copynumber: 4.6 Consensus size: 30
30759897 ATAACTAAAG
30759907 CCATCCCTTTTCATAATTTGATGGCCATCA
1 CCATCCCTTTTCATAATTTGATGGCCATCA
* * * ***
30759937 CCATACCTTTTCATTA-TGGATGGTTGTCA
1 CCATCCCTTTTCATAATTTGATGGCCATCA
*
30759966 CCATCCCTTTTCATAATTTGATAGGCGA--A
1 CCATCCCTTTTCATAATTTGAT-GGCCATCA
* * * * **
30759995 GCTATCCCATTTCATAATTCGATAGCCAAAA
1 -CCATCCCTTTTCATAATTTGATGGCCATCA
30760026 CCATCCCTTTTCATAAT
1 CCATCCCTTTTCATAAT
30760043 GTAACGCCCC
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
29 27 0.33
30 52 0.63
31 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTTGATGGCCATCA
Found at i:30759988 original size:89 final size:89
Alignment explanation
Indices: 30759877--30760039 Score: 211
Period size: 89 Copynumber: 1.8 Consensus size: 89
30759867 ATAGCCACAG
* * * * **
30759877 CCATCCATTTTCATATTTTGATA-ACTAAAGCCATCCCTTTTCATAATTTGATGGCCATCACCAT
1 CCATCCATTTTCATAATTTGATAGAC-AAAGCCATCCCATTTCATAATTCGATAGCCAAAACCAT
30759941 ACCTTTTCATTATGGATGGTTGTCA
65 ACCTTTTCATTATGGATGGTTGTCA
* * * * *
30759966 CCATCCCTTTTCATAATTTGATAGGCGAAGCTATCCCATTTCATAATTCGATAGCCAAAACCATC
1 CCATCCATTTTCATAATTTGATAGACAAAGCCATCCCATTTCATAATTCGATAGCCAAAACCATA
30760031 CCTTTTCAT
66 CCTTTTCAT
30760040 AATGTAACGC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
89 61 0.98
90 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (89 bp):
CCATCCATTTTCATAATTTGATAGACAAAGCCATCCCATTTCATAATTCGATAGCCAAAACCATA
CCTTTTCATTATGGATGGTTGTCA
Found at i:30774702 original size:26 final size:26
Alignment explanation
Indices: 30774638--30774711 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
30774628 ATATCTATCT
* * *
30774638 ATATATACATTTCATATAA-CACTTG
1 ATATATTCATTTCATATAACCAATTC
30774663 ATATAATT-ATTTTCATATAACCAATTC
1 ATAT-ATTCA-TTTCATATAACCAATTC
* *
30774690 TTATATTCATTTCACATAACCA
1 ATATATTCATTTCATATAACCA
30774712 TTTTGTACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 5 0.12
26 27 0.68
27 8 0.20
ACGTcount: A:0.39, C:0.18, G:0.01, T:0.42
Consensus pattern (26 bp):
ATATATTCATTTCATATAACCAATTC
Found at i:30774886 original size:46 final size:46
Alignment explanation
Indices: 30774830--30774948 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 46
30774820 CGGCATGATG
* *
30774830 CCATAATGTCTTTCAACTATGGCCTTATTCATTTAC-CATCATATTT
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTT-CTCATCATATTA
* * * *
30774876 CCATAGTGTCTTTCAACCATGGTCTTATTCATTTCTCGTCATGTTA
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTCTCATCATATTA
*
30774922 CCATAATGTCTTTCAATTATGGTCTTA
1 CCATAATGTCTTTCAACTATGGTCTTA
30774949 CACATCTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.02
46 62 0.98
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (46 bp):
CCATAATGTCTTTCAACTATGGTCTTATTCATTTCTCATCATATTA
Found at i:30774988 original size:45 final size:45
Alignment explanation
Indices: 30774922--30775267 Score: 419
Period size: 45 Copynumber: 7.7 Consensus size: 45
30774912 CGTCATGTTA
* ** * * *
30774922 CCATAATGTCTTTCAATTATGGTCTTACACATCTTAATTGTGATG
1 CCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATG
* * **
30774967 CCATAACGTCTTT-TGACTATGGTCTTATTGGTCTGAATCGTGATG
1 CCATAACGTCTTTCAG-CTATGGTCTTACTCATCTGAATCGTGATG
* * * *
30775012 CCATAATGTCTTTCAGCTATGGTTTTACTCGTCTGAATTGTGATG
1 CCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATG
*
30775057 CCATAACGTCTTTCAGCTATGGTCTTACTCGA-CTGAATCATGATG
1 CCATAACGTCTTTCAGCTATGGTCTTACTC-ATCTGAATCGTGATG
* *
30775102 CCATAACGTCTTTCAGCTATGGTCTTACTCATTTGAATCATGATG
1 CCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATG
* * * *
30775147 CCATAACATCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGATG
1 CCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATG
* *
30775192 CCATAACATCTTTCAGCTATGGCCTTACTCATCTGAATCGTGATG
1 CCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATG
* * *
30775237 TCATAA-GTCTTTCAGTTATTGTCTTACTCAT
1 CCATAACGTCTTTCAGCTATGGTCTTACTCAT
30775268 TTCTAGTATG
Statistics
Matches: 262, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
44 22 0.08
45 239 0.91
46 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
CCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATCGTGATG
Found at i:30775360 original size:45 final size:45
Alignment explanation
Indices: 30775096--30775360 Score: 170
Period size: 45 Copynumber: 5.9 Consensus size: 45
30775086 CGACTGAATC
* * * *
30775096 ATGATGCCATAAC-GTCTTTCAGCTATGGTCTTACTCATTT-GAAT
1 ATGATGCCAT-ACTATCTTTCAACTATGGTCTTACTCATTTCTAGT
* * ** *
30775140 CATGATGCCATAAC-ATCTTTCAGCTATGGTCTTACTCGTTTGAATT
1 -ATGATGCCAT-ACTATCTTTCAACTATGGTCTTACTCATTTCTAGT
* * * *
30775186 GTGATGCCATAAC-ATCTTTCAGCTATGGCCTTACTCA--TCTGAAT
1 ATGATGCCAT-ACTATCTTTCAACTATGGTCTTACTCATTTCT-AGT
* * ** *
30775230 CGTGATGTCATA--AGTCTTTCAGTTATTGTCTTACTCATTTCTAGT
1 -ATGATGCCATACTA-TCTTTCAACTATGGTCTTACTCATTTCTAGT
* * * *
30775275 ATGATGCCATACTGTCTTTCAACTATGGTATTATTTATTTCTAGT
1 ATGATGCCATACTATCTTTCAACTATGGTCTTACTCATTTCTAGT
* * *
30775320 AT-AGTGCCATAGTATCTTTCAACTGTGGTCTTAGTCATTTC
1 ATGA-TGCCATACTATCTTTCAACTATGGTCTTACTCATTTC
30775361 CTTCAAACCA
Statistics
Matches: 181, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.01
44 33 0.18
45 141 0.78
46 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.41
Consensus pattern (45 bp):
ATGATGCCATACTATCTTTCAACTATGGTCTTACTCATTTCTAGT
Found at i:30780206 original size:29 final size:30
Alignment explanation
Indices: 30780145--30780221 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
30780135 GTAGCCGAAG
* *
30780145 CCATCCCTGTTCATAATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGCCA
**
30780175 CCATCCCTTTTCATTGTT-GATGGTCGCCA
1 CCATCCCTTTTCATAATTCGATGGTCGCCA
30780204 CCATCCCTTTTCATAATT
1 CCATCCCTTTTCATAATT
30780222 TGATAGCCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 26 0.63
30 15 0.37
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATGGTCGCCA
Found at i:30780294 original size:30 final size:30
Alignment explanation
Indices: 30780206--30780281 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
30780196 GGTCGCCACC
*
30780206 ATCCCTTTTCATAATTTGATAGCCAAAGCT
1 ATCCCTTTTCATAATTTGATAGACAAAGCT
30780236 ATCCCTTTTCATAATTTGATAGACAAAGCT
1 ATCCCTTTTCATAATTTGATAGACAAAGCT
*
30780266 ATCCATTTTCATAATT
1 ATCCCTTTTCATAATT
30780282 CGGTGGACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGACAAAGCT
Found at i:30786035 original size:27 final size:27
Alignment explanation
Indices: 30785781--30786040 Score: 324
Period size: 27 Copynumber: 9.7 Consensus size: 27
30785771 TACCCTCGAT
* *
30785781 GGGTAACATGACCGAAATACCCC-ATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * * * *
30785807 AGGTAAAATGACTGAAATGCCCCCATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * * *
30785834 GGGTAAAATTACCATAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
*
30785861 GGGTAAAATGACTGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
30785888 GGGTAAAATGACCGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * *
30785915 GGGTAAAATGACTGTAATACCCTTTTA
1 GGGTAAAATGACCGTAATACCCCTATA
*
30785942 GGGTAAAATAACCGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* **
30785969 GGGTAAAATGACCGTAATACCCTTGCA
1 GGGTAAAATGACCGTAATACCCCTATA
*
30785996 GGGTAAAATGACCGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
*
30786023 AGGTAAAATGACCGTAAT
1 GGGTAAAATGACCGTAAT
30786041 GCCCTGATGG
Statistics
Matches: 202, Mismatches: 31, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
26 19 0.09
27 183 0.91
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTATA
Found at i:30786107 original size:23 final size:23
Alignment explanation
Indices: 30786078--30786153 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
30786068 CCCCTCAAGG
30786078 TGAAATGATTGTTTTGTCTGTGGT
1 TGAAATGATTG-TTTGTCTGTGGT
* *
30786102 T-AAATGACTCGTTTGTCTGTGTT
1 TGAAATGA-TTGTTTGTCTGTGGT
**
30786125 TGGTATGATTGATTTGTCTGTGGT
1 TGAAATGATTG-TTTGTCTGTGGT
30786149 ATGAA
1 -TGAA
30786154 TGACTGATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
23 20 0.50
24 18 0.45
25 2 0.05
ACGTcount: A:0.18, C:0.07, G:0.28, T:0.47
Consensus pattern (23 bp):
TGAAATGATTGTTTGTCTGTGGT
Found at i:30786156 original size:24 final size:23
Alignment explanation
Indices: 30786081--30786162 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
30786071 CTCAAGGTGA
* *
30786081 AATGATTGTTTTGTCTGTGGTTA
1 AATGATTGATTTGTCTGTGGTTG
* *
30786104 AATGACTCG-TTTGTCTGTGTTTGG
1 AATGA-TTGATTTGTCTGTGGTT-G
*
30786128 TATGATTGATTTGTCTGTGGTATG
1 AATGATTGATTTGTCTGTGGT-TG
*
30786152 AATGACTGATT
1 AATGATTGATT
30786163 CTAAGCATGG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
23 19 0.40
24 27 0.57
25 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.27, T:0.48
Consensus pattern (23 bp):
AATGATTGATTTGTCTGTGGTTG
Found at i:30786348 original size:32 final size:32
Alignment explanation
Indices: 30786307--30786552 Score: 187
Period size: 32 Copynumber: 7.7 Consensus size: 32
30786297 GCTACGATGC
*
30786307 TACTGATGGCTTTGTGCCGATCATAGTACCAT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * *
30786339 TACTGATGGCTTTGTACCAATTATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * *
30786371 TACTAATGGCTTTGCGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * * * *
30786403 TAC-AATGGCTGTGTGCTGATCAT-TTCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
* * * *
30786434 TACTGATGGCTATGTACCGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
* * *
30786466 CACTAATGGCTTTGTGCCGATCAT-GTTACCAT
1 TACTGATGGCTTTGTGCCGATCATAG-TACCGT
* * * *
30786498 TACTGATGGCTGTGTGCTGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
*
30786530 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
30786553 CATTATTGTA
Statistics
Matches: 171, Mismatches: 36, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
30 2 0.01
31 23 0.13
32 145 0.85
33 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:30786589 original size:22 final size:21
Alignment explanation
Indices: 30786564--30786627 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
30786554 ATTATTGTAC
30786564 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
30786586 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
30786608 TTACGGCTCTTAGCCATTCT
1 TTATGGCT-TTAGCCATTCT
30786628 TACTACTGGC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:30786642 original size:26 final size:26
Alignment explanation
Indices: 30786613--30786667 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
30786603 CCTGTTTACG
*
30786613 GCTCT-TAGCCATTCTTACTACTGGCA
1 GCTCTATAG-CATTATTACTACTGGCA
*
30786639 GCTCTATTGCATTATTACTACTGGCA
1 GCTCTATAGCATTATTACTACTGGCA
30786665 GCT
1 GCT
30786668 ATGCTGCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (26 bp):
GCTCTATAGCATTATTACTACTGGCA
Found at i:30786680 original size:26 final size:26
Alignment explanation
Indices: 30786622--30786674 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30786612 GGCTCTTAGC
* * *
30786622 CATTCTTACTACTGGCAGCTCTATTG
1 CATTATTACTACTGGCAGCTATACTG
*
30786648 CATTATTACTACTGGCAGCTATGCTG
1 CATTATTACTACTGGCAGCTATACTG
30786674 C
1 C
30786675 GATATTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (26 bp):
CATTATTACTACTGGCAGCTATACTG
Found at i:30790992 original size:33 final size:33
Alignment explanation
Indices: 30790937--30791000 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
30790927 TGAGCCCTTT
30790937 AACAGTAACAGTACAATGTGGGCCTTAGCCCAA
1 AACAGTAACAGTACAATGTGGGCCTTAGCCCAA
*
30790970 AACAGTAACGGTGACAAT-TGGGCCTTAGCCC
1 AACAGTAACAGT-ACAATGTGGGCCTTAGCCC
30791001 CCATCAGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (33 bp):
AACAGTAACAGTACAATGTGGGCCTTAGCCCAA
Found at i:30791361 original size:32 final size:32
Alignment explanation
Indices: 30791297--30791531 Score: 276
Period size: 32 Copynumber: 7.4 Consensus size: 32
30791287 TAATGGCTAC
* *
30791297 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
** * *
30791328 AAGCCATCAGTAGTAGTGATATGA-CTGGTACA
1 AAGCCATCAGTAACAGTAATATGATC-GGCACA
* ** *
30791360 AAGCCATCAGTAACGGTAATATGGCCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
30791392 AAGCCATCAGTAACAATAATATCATCGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
30791424 AAGCCATCAGTAATAGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
30791456 AAGCCATCAGTTACATTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
30791488 AAGCCATCAGTAACGGTACTATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
30791520 AAGCCATCAGTA
1 AAGCCATCAGTA
30791532 GCATTATAGC
Statistics
Matches: 168, Mismatches: 33, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
31 10 0.06
32 157 0.93
33 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:30791554 original size:26 final size:26
Alignment explanation
Indices: 30791523--30791577 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
30791513 CGGCACAAAG
* * *
30791523 CCATCAGTAGCATTATAGCAAAGCTA
1 CCATCAGTAGCATCACAACAAAGCTA
*
30791549 CCATCAGTAGTATCACAACAAAGCTA
1 CCATCAGTAGCATCACAACAAAGCTA
30791575 CCA
1 CCA
30791578 ATAATCAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (26 bp):
CCATCAGTAGCATCACAACAAAGCTA
Found at i:30791740 original size:24 final size:24
Alignment explanation
Indices: 30791713--30791759 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
30791703 GAATTAGTCA
30791713 TACCAAACACAGACAAATCAATCG
1 TACCAAACACAGACAAATCAATCG
*
30791737 TACCAATCACAGACAAATCAATC
1 TACCAAACACAGACAAATCAATC
30791760 ATTTAACCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.49, C:0.30, G:0.06, T:0.15
Consensus pattern (24 bp):
TACCAAACACAGACAAATCAATCG
Found at i:30791895 original size:27 final size:27
Alignment explanation
Indices: 30791865--30792219 Score: 302
Period size: 27 Copynumber: 13.1 Consensus size: 27
30791855 TATCATGGTC
*
30791865 ATTTTGCAAACTGGGGGTATTTCGGTA
1 ATTTTACAAACTGGGGGTATTTCGGTA
* * *
30791892 ATTTCATAAACTGGGGGTATTTCGATA
1 ATTTTACAAACTGGGGGTATTTCGGTA
* *
30791919 ATTTT-GAAACTGGGGGTATTTCAGTA
1 ATTTTACAAACTGGGGGTATTTCGGTA
* * ** *
30791945 ATTTCACAAATTAAGGGTATTTCAGTA
1 ATTTTACAAACTGGGGGTATTTCGGTA
* ** * *
30791972 ATTTTGCAAACTGGGATTATTTTGATA
1 ATTTTACAAACTGGGGGTATTTCGGTA
* * *
30791999 ATTTTGCAAACTGAGGGTATTTTGGTA
1 ATTTTACAAACTGGGGGTATTTCGGTA
* * * *
30792026 ATTTTGCAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACTGGGGGTATTTCGGTA
*
30792053 ATTTTGCAAACTGTGGGG-ATTTCGGTA
1 ATTTTACAAACTG-GGGGTATTTCGGTA
* * ** *
30792080 ATTTCACAAATTGAAGGTATTTTGGTA
1 ATTTTACAAACTGGGGGTATTTCGGTA
*
30792107 ATTTTACAAACTGGGGGTATTTCGATA
1 ATTTTACAAACTGGGGGTATTTCGGTA
* *
30792134 ATTTTACAAA-TCGAGGGTATTTCGATA
1 ATTTTACAAACT-GGGGGTATTTCGGTA
* * *
30792161 ATTTTACAAATTAGAGGTATTTCGGTA
1 ATTTTACAAACTGGGGGTATTTCGGTA
** * * *
30792188 ATTTTTTTAAACCGAGGGTATTTCGATA
1 A-TTTTACAAACTGGGGGTATTTCGGTA
30792216 ATTT
1 ATTT
30792220 ACCCATTGAG
Statistics
Matches: 264, Mismatches: 58, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
26 25 0.09
27 215 0.81
28 24 0.09
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTTACAAACTGGGGGTATTTCGGTA
Found at i:30792243 original size:26 final size:26
Alignment explanation
Indices: 30792121--30792262 Score: 90
Period size: 26 Copynumber: 5.3 Consensus size: 26
30792111 TACAAACTGG
** *
30792121 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAA-TTTACCCATTGA
**
30792148 GGGTATTTCGATAATTTTACAAATT-A
1 GGGTATTTCGATAA-TTTACCCATTGA
* **** **
30792174 GAGGTATTTCGGTAATTTTTTTAAACCGA
1 G-GGTATTTCGATAA--TTTACCCATTGA
30792203 GGGTATTTCGATAATTTACCCATTGA
1 GGGTATTTCGATAATTTACCCATTGA
*
30792229 GGGTATTT-GTGTAATTTACCCATTGA
1 GGGTATTTCG-ATAATTTACCCATTGA
*
30792255 GAGTATTT
1 GGGTATTT
30792263 TGGTCATTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 38 0.40
27 36 0.38
28 19 0.20
29 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGATAATTTACCCATTGA
Found at i:30792244 original size:81 final size:81
Alignment explanation
Indices: 30792005--30792245 Score: 213
Period size: 81 Copynumber: 3.0 Consensus size: 81
30791995 GATAATTTTG
* * * * ** * * * *
30792005 CAAACTGAGGGTATTTTGGTAATTTTGCAAA-TTAGGGGTATTTTGGTAATTTTGCAAA-CTGTG
1 CAAATTGAAGGTATTTCGGTAATTTTACAAACCGA-GGGTATTTCGATAATTTTACAAATC-GAG
*
30792068 GGGATTTCGGTAATTTCA
64 GGTATTTCGGTAATTTCA
* * *
30792086 CAAATTGAAGGTATTTTGGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAATCGAGGG
1 CAAATTGAAGGTATTTCGGTAATTTTACAAACCGAGGGTATTTCGATAATTTTACAAATCGAGGG
* *
30792151 TATTTCGATAATTTTA
66 TATTTCGGTAATTTCA
** ** *
30792167 CAAATT-AGAGGTATTTCGGTAATTTTTTTAAACCGAGGGTATTTCGATAA-TTTACCCATTGAG
1 CAAATTGA-AGGTATTTCGGTAA-TTTTACAAACCGAGGGTATTTCGATAATTTTACAAATCGAG
30792230 GGTATTT-GTGTAATTT
64 GGTATTTCG-GTAATTT
30792246 ACCCATTGAG
Statistics
Matches: 134, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 2 0.01
81 107 0.80
82 25 0.19
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
CAAATTGAAGGTATTTCGGTAATTTTACAAACCGAGGGTATTTCGATAATTTTACAAATCGAGGG
TATTTCGGTAATTTCA
Done.