Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 5 of 311
Found at i:1326651 original size:103 final size:103
Alignment explanation
Indices: 1326485--1326672 Score: 288
Period size: 103 Copynumber: 1.8 Consensus size: 103
1326475 AATTGACGAG
***
1326485 GAGGTAAGCGATGGTAGTTTCTAAATCTCTAAAGAATTCAAGTGTTTATTTTGTTTGTAAGTAAA
1 GAGGTAAGCGATGGTAGTTTCTAAATCTCTAAAGAATTCAAGTGTTTATTTTACCTGTAAGTAAA
1326550 GAAAAACTAATTATTAATGAGCATATCAAATTGGTGAA
66 GAAAAACTAATTATTAATGAGCATATCAAATTGGTGAA
* *
1326588 GAGGTAAGCGATGGTTA-TTTCTAGATCTCTAAAGAATTCAAGTGTTTATTTTACCTGTGAGTAA
1 GAGGTAAGCGATGG-TAGTTTCTAAATCTCTAAAGAATTCAAGTGTTTATTTTACCTGTAAGTAA
* * *
1326652 ATATAAACTACTTATTAATGA
65 AGAAAAACTAATTATTAATGA
1326673 AGAGCACATC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
103 74 0.97
104 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (103 bp):
GAGGTAAGCGATGGTAGTTTCTAAATCTCTAAAGAATTCAAGTGTTTATTTTACCTGTAAGTAAA
GAAAAACTAATTATTAATGAGCATATCAAATTGGTGAA
Found at i:1329385 original size:150 final size:151
Alignment explanation
Indices: 1329114--1329419 Score: 524
Period size: 150 Copynumber: 2.0 Consensus size: 151
1329104 TTATGTCGGG
* * *
1329114 CAACACGTCTAATAGTATTTACTTAAAGTACTTTCCTCTATTGGAGGGTCTCCATCGTACCGGTA
1 CAACACGTCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACCGGTA
* * *
1329179 CTTACAGTTGGGGAGCAACAGTGTTAGACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
66 CTTACAGCTGGGGAGCAACAATGTTAAACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
1329244 GGGGTAAGTAACAT-GCTGGA
131 GGGGTAAGTAACATGGCTGGA
*
1329264 CAACACGTCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACTGGTA
1 CAACACGTCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACCGGTA
* *
1329329 TTTACAGCTGGGGATCAACAATGTTAAACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
66 CTTACAGCTGGGGAGCAACAATGTTAAACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
1329394 GGGGTAAGTAACATGGCTGGA
131 GGGGTAAGTAACATGGCTGGA
1329415 CAACA
1 CAACA
1329420 AAACACGGGG
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
150 135 0.92
151 11 0.08
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (151 bp):
CAACACGTCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACCGGTA
CTTACAGCTGGGGAGCAACAATGTTAAACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
GGGGTAAGTAACATGGCTGGA
Found at i:1329437 original size:31 final size:32
Alignment explanation
Indices: 1329382--1329444 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1329372 GCTTTGTCGA
1329382 ACAACAAAACACGGGGTAAGTAACATGGCTGG
1 ACAACAAAACACGGGGTAAGTAACATGGCTGG
1329414 ACAACAAAACACGGGG-AAGTAACATGGCTGG
1 ACAACAAAACACGGGGTAAGTAACATGGCTGG
1329445 TTGTGTAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 15 0.48
32 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.29, T:0.11
Consensus pattern (32 bp):
ACAACAAAACACGGGGTAAGTAACATGGCTGG
Found at i:1329562 original size:2 final size:2
Alignment explanation
Indices: 1329555--1329586 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1329545 ACGTCTCATT
1329555 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1329587 ATCCTCTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1331542 original size:40 final size:40
Alignment explanation
Indices: 1331488--1331605 Score: 200
Period size: 40 Copynumber: 3.0 Consensus size: 40
1331478 CGGATGTAAC
* *
1331488 AACCAGCACAAATGCCTTCGGGACTTAACCTGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
1331528 AACCTGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
1331568 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1331606 TTTTTTTCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:1339417 original size:40 final size:40
Alignment explanation
Indices: 1339363--1339480 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
1339353 CGGATGTAAC
*
1339363 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
1339403 AACCTGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
1339443 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1339481 TTTTTTTCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:1348985 original size:10 final size:10
Alignment explanation
Indices: 1348972--1348996 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1348962 TTTTTTATTC
1348972 TTTTAATTTT
1 TTTTAATTTT
1348982 TTTTAATTTT
1 TTTTAATTTT
1348992 TTTTA
1 TTTTA
1348997 TTGCAGAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:1353501 original size:20 final size:20
Alignment explanation
Indices: 1353464--1353504 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1353454 ATACATGGAA
*
1353464 TTAAAAAAATAACTCTTAAT
1 TTAAAAAAATAACACTTAAT
1353484 TTAAAGAAAATAA-ACTTAAT
1 TTAAA-AAAATAACACTTAAT
1353504 T
1 T
1353505 ATTTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATAACACTTAAT
Found at i:1356593 original size:6 final size:6
Alignment explanation
Indices: 1356582--1356607 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1356572 TATAATTCCC
1356582 CTGTTT CTGTTT CTGTTT CTGTTT CT
1 CTGTTT CTGTTT CTGTTT CTGTTT CT
1356608 ACACCCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.15, T:0.65
Consensus pattern (6 bp):
CTGTTT
Found at i:1357076 original size:45 final size:44
Alignment explanation
Indices: 1356998--1357082 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
1356988 TATGTTCTTG
1356998 ATAATTTTTAAAATTAATTATTTAAACCATAATTATATTTTTTAT
1 ATAATTTTTAAAATTAATTATTTAAACCATAATTA-ATTTTTTAT
* *
1357043 ATAATTTTTAATATTAATTATTTAAA-TAGTAATTAATTTT
1 ATAATTTTTAAAATTAATTATTTAAACCA-TAATTAATTTT
1357083 ATTCTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 6 0.16
45 31 0.84
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (44 bp):
ATAATTTTTAAAATTAATTATTTAAACCATAATTAATTTTTTAT
Found at i:1372101 original size:30 final size:30
Alignment explanation
Indices: 1372065--1372126 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
1372055 CATCATGATC
*
1372065 TAAATTCACCAGTTGATATAGCACAGAACT
1 TAAATTCACCAGTTGATATAACACAGAACT
* *
1372095 TAAATTCACGAGTTGATATAACACGGAACT
1 TAAATTCACCAGTTGATATAACACAGAACT
1372125 TA
1 TA
1372127 TTTGGAAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (30 bp):
TAAATTCACCAGTTGATATAACACAGAACT
Found at i:1375831 original size:31 final size:31
Alignment explanation
Indices: 1375793--1375851 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1375783 AAGTAGCCGA
*
1375793 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAACCGAAGCTACCACTTTTCAT
*
1375824 TGATCAGGTAACCGAAGCTACCATTTTT
1 TGATCAGGTAACCGAAGCTACCACTTTT
1375852 TACTTGCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (31 bp):
TGATCAGGTAACCGAAGCTACCACTTTTCAT
Found at i:1375916 original size:50 final size:50
Alignment explanation
Indices: 1375859--1376008 Score: 255
Period size: 50 Copynumber: 3.0 Consensus size: 50
1375849 TTTTACTTGC
*
1375859 CATTTGTCCTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
1 CATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
*
1375909 CATTTGTCCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
1 CATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
* * *
1375959 TACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1376009 TTGTCATGGT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 94 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (50 bp):
CATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
Found at i:1378077 original size:12 final size:12
Alignment explanation
Indices: 1378060--1378085 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1378050 AGACTACAGA
1378060 ACACATCACTTC
1 ACACATCACTTC
1378072 ACACATCACTTC
1 ACACATCACTTC
1378084 AC
1 AC
1378086 CAAGCCTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (12 bp):
ACACATCACTTC
Found at i:1382863 original size:15 final size:16
Alignment explanation
Indices: 1382838--1382867 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1382828 TTTATAAATA
1382838 TATATATTTTATGCAT
1 TATATATTTTATGCAT
1382854 TATA-ATTTTATGCA
1 TATATATTTTATGCA
1382868 GAGGTGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (16 bp):
TATATATTTTATGCAT
Found at i:1389745 original size:18 final size:18
Alignment explanation
Indices: 1389675--1389747 Score: 94
Period size: 18 Copynumber: 4.1 Consensus size: 18
1389665 CATTTACGGC
**
1389675 ACTATTCACGTATACAAC
1 ACTATTCACGTATACAGT
1389693 ACTATTCACGTATAC-GAT
1 ACTATTCACGTATACAG-T
*
1389711 ACTATTTACGTATACAGT
1 ACTATTCACGTATACAGT
*
1389729 ACTATTCATGTATACAGT
1 ACTATTCACGTATACAGT
1389747 A
1 A
1389748 GTTGGGATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 47 0.98
19 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:1402437 original size:18 final size:18
Alignment explanation
Indices: 1402405--1402439 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1402395 TATAAAATTA
**
1402405 TTTTTTAAATTTTTAAAT
1 TTTTTTAAAAATTTAAAT
1402423 TTTTTTAAAAATTTAAA
1 TTTTTTAAAAATTTAAA
1402440 ATTAATAAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTTAAAAATTTAAAT
Found at i:1405337 original size:26 final size:25
Alignment explanation
Indices: 1405308--1405376 Score: 66
Period size: 28 Copynumber: 2.6 Consensus size: 25
1405298 ATTTTAAACA
* *
1405308 AAAATTTAAAAATAATATATTATTT
1 AAAATTTAAAAATAATAAACTATTT
* *
1405333 GAAAATTTATGAAAAAAATAAACTCTTT
1 -AAAATTTA--AAAATAATAAACTATTT
1405361 AAAATTTTAAAAATAA
1 AAAA-TTTAAAAATAA
1405377 ATTCATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 14 0.40
27 4 0.11
28 17 0.49
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (25 bp):
AAAATTTAAAAATAATAAACTATTT
Found at i:1405378 original size:27 final size:28
Alignment explanation
Indices: 1405307--1405378 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 28
1405297 TATTTTAAAC
* * *
1405307 AAAAATTTAAAAAT-AATATATTATTTG
1 AAAATTTTAAAAATAAATAAACTATTTG
* *
1405334 AAAATTTATGAAAA-AAATAAACTCTTT-
1 AAAATTT-TAAAAATAAATAAACTATTTG
1405361 AAAATTTTAAAAATAAAT
1 AAAATTTTAAAAATAAAT
1405379 TCATTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
26 5 0.14
27 17 0.47
28 14 0.39
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTTTAAAAATAAATAAACTATTTG
Found at i:1406316 original size:37 final size:37
Alignment explanation
Indices: 1406263--1406333 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
1406253 ATAAACGTAC
*
1406263 TACCCATCCAAACCCACCATTAGAAAGATTGGAGTAG
1 TACCCACCCAAACCCACCATTAGAAAGATTGGAGTAG
* *
1406300 TACCCACCCAATCCCACCATTAGAAGGATTGGAG
1 TACCCACCCAAACCCACCATTAGAAAGATTGGAG
1406334 ATGAGAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (37 bp):
TACCCACCCAAACCCACCATTAGAAAGATTGGAGTAG
Found at i:1407835 original size:27 final size:28
Alignment explanation
Indices: 1407800--1407854 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
1407790 ATGATATCAA
*
1407800 AATACATATT-TTTTATACTATTTATTTT
1 AATACATATTATTTTATA-TAATTATTTT
*
1407828 AATA-ATATTATTTTTTATAATTATTTT
1 AATACATATTATTTTATATAATTATTTT
1407855 TGGGTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
AATACATATTATTTTATATAATTATTTT
Found at i:1407842 original size:15 final size:15
Alignment explanation
Indices: 1407806--1407848 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1407796 TCAAAATACA
*
1407806 TATTTTTTATACTAT
1 TATTTTTTATAATAT
*
1407821 T-TATTTTAATAATAT
1 TAT-TTTTTATAATAT
1407836 TATTTTTTATAAT
1 TATTTTTTATAAT
1407849 TATTTTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTTATAATAT
Found at i:1417831 original size:28 final size:28
Alignment explanation
Indices: 1417787--1417845 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
1417777 CCTCTACGAG
1417787 TAAGGCGAAAGGAAAGGAGAAGCTCGTT
1 TAAGGCGAAAGGAAAGGAGAAGCTCGTT
*
1417815 TAAGGCGAAAGGCAAGGAGAAGCTCGTT
1 TAAGGCGAAAGGAAAGGAGAAGCTCGTT
1417843 TAA
1 TAA
1417846 ACTTTCAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.34, T:0.15
Consensus pattern (28 bp):
TAAGGCGAAAGGAAAGGAGAAGCTCGTT
Found at i:1417914 original size:37 final size:38
Alignment explanation
Indices: 1417864--1417940 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 38
1417854 TAATCGAGTG
* *
1417864 AAAGCTAAACCAGTGAGTGATC-GGAGTGCTGCATGTA
1 AAAGCTAAACCAGTAAGTGATCTAGAGTGCTGCATGTA
*
1417901 AAAGCTAAACCAGTAAGTGATCTAGAGTGGTGCATGTA
1 AAAGCTAAACCAGTAAGTGATCTAGAGTGCTGCATGTA
1417939 AA
1 AA
1417941 CACTCATAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 21 0.58
38 15 0.42
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (38 bp):
AAAGCTAAACCAGTAAGTGATCTAGAGTGCTGCATGTA
Found at i:1422749 original size:13 final size:14
Alignment explanation
Indices: 1422707--1422751 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
1422697 TAATAATGTT
1422707 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
1422722 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
1422735 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
1422748 TAAA
1 TAAA
1422752 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:1428122 original size:20 final size:20
Alignment explanation
Indices: 1428089--1428129 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1428079 GCCCCATGGC
* *
1428089 CATGTTCCAGGCCACACGGG
1 CATGTCCCAAGCCACACGGG
1428109 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCCACACGGG
1428129 C
1 C
1428130 GTGTGCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.39, G:0.27, T:0.12
Consensus pattern (20 bp):
CATGTCCCAAGCCACACGGG
Found at i:1428598 original size:20 final size:20
Alignment explanation
Indices: 1428573--1428615 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
1428563 CTAGAGTTGT
1428573 TAATGCTCAAACAATTGCTA
1 TAATGCTCAAACAATTGCTA
1428593 TAATGCTCAAACAATTGCTA
1 TAATGCTCAAACAATTGCTA
1428613 TAA
1 TAA
1428616 AGGAAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (20 bp):
TAATGCTCAAACAATTGCTA
Found at i:1429846 original size:23 final size:23
Alignment explanation
Indices: 1429802--1429846 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1429792 TTATATTAAA
**
1429802 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
* *
1429825 ATTAAGAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
1429847 TTTTAGTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:1431838 original size:15 final size:16
Alignment explanation
Indices: 1431818--1431851 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1431808 ACTAACGCGA
*
1431818 AATTTTTTTTAA-TAT
1 AATTTTTTATAATTAT
1431833 AATTTTTTATAATTAT
1 AATTTTTTATAATTAT
1431849 AAT
1 AAT
1431852 GATATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTTTATAATTAT
Found at i:1433302 original size:2 final size:2
Alignment explanation
Indices: 1433295--1433331 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1433285 AATAAGCTAT
*
1433295 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1433332 CTTGGCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1439930 original size:16 final size:17
Alignment explanation
Indices: 1439900--1439935 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1439890 TTCATATAAT
1439900 AAATAAAAGATAATGAG
1 AAATAAAAGATAATGAG
*
1439917 AAATAAAA-ATAATGTG
1 AAATAAAAGATAATGAG
1439933 AAA
1 AAA
1439936 CGAAGCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (17 bp):
AAATAAAAGATAATGAG
Found at i:1443994 original size:54 final size:54
Alignment explanation
Indices: 1443896--1444032 Score: 132
Period size: 54 Copynumber: 2.6 Consensus size: 54
1443886 AAAGGATTTC
* * * * * * ** *
1443896 GCAAACCGAAAGATTC-GAAAATCTTATAAGTATATGGTTGCGATCTTAAATTG
1 GCAAACTGTAAGATTCTAAAAATCTTATAAATAAAAGGTCACGATCTTAAATCG
1443949 GCAAACTGTAAGATTCTAAAAATCTTATAAATAAAAGGTCACGATCTTAAATCG
1 GCAAACTGTAAGATTCTAAAAATCTTATAAATAAAAGGTCACGATCTTAAATCG
** * * * *
1444003 GTGAATTGTAAAATTCTTAAAATCGTATAA
1 GCAAACTGTAAGATTCTAAAAATCTTATAA
1444033 GTATACGGTC
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 14 0.21
54 54 0.79
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (54 bp):
GCAAACTGTAAGATTCTAAAAATCTTATAAATAAAAGGTCACGATCTTAAATCG
Found at i:1452193 original size:50 final size:50
Alignment explanation
Indices: 1452069--1452317 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1452059 GATAATAACA
* * ** * *
1452069 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1452120 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1452170 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1452220 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1452275 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1452318 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1452247 original size:100 final size:104
Alignment explanation
Indices: 1452068--1452317 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1452058 TGATAATAAC
**
1452068 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1452133 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1452170 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1452233 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1452275 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1452318 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1452433 original size:13 final size:13
Alignment explanation
Indices: 1452412--1452443 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1452402 GCTTGGATCA
*
1452412 TCATCAAATAAAT
1 TCATAAAATAAAT
1452425 TCATAAAATAAAT
1 TCATAAAATAAAT
1452438 TCATAA
1 TCATAA
1452444 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1453377 original size:13 final size:13
Alignment explanation
Indices: 1453306--1453380 Score: 54
Period size: 13 Copynumber: 5.9 Consensus size: 13
1453296 TTTCTTTTGT
1453306 TATATATATATAA
1 TATATATATATAA
1453319 TATAATATAATATAA
1 TAT-ATAT-ATATAA
*
1453334 AATAT-TA-ATAA
1 TATATATATATAA
1453345 TA-ATCAT-TACT--
1 TATAT-ATATA-TAA
*
1453356 TACATATATATAA
1 TATATATATATAA
1453369 TATATATATATA
1 TATATATATATA
1453381 TTAACTAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 20
0.68 0.04 0.28
Matches are distributed among these distances:
10 2 0.04
11 10 0.20
12 7 0.14
13 16 0.33
14 6 0.12
15 8 0.16
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (13 bp):
TATATATATATAA
Found at i:1454975 original size:23 final size:23
Alignment explanation
Indices: 1454945--1454990 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1454935 TTAATAATTC
1454945 AAAAAATAAAAAAATATTTTTAA
1 AAAAAATAAAAAAATATTTTTAA
*
1454968 AAAAAATATAAAAATATTTTTAA
1 AAAAAATAAAAAAATATTTTTAA
1454991 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAAATAAAAAAATATTTTTAA
Found at i:1455446 original size:72 final size:72
Alignment explanation
Indices: 1455368--1455505 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 72
1455358 TTTTTAGTTT
* * * *
1455368 TGGCCTGTCAATGGCCGGCACCCAGTACAATAAAAAAAATCGATTTTTTTTTCAAAAAAAATTTT
1 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
1455433 TGGGTGC
66 TGGGTGC
1455440 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
1 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
1455505 T
66 T
1455506 TTGCTCTCTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (72 bp):
TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
TGGGTGC
Found at i:1455544 original size:109 final size:109
Alignment explanation
Indices: 1455416--1455811 Score: 556
Period size: 109 Copynumber: 3.7 Consensus size: 109
1455406 ATCGATTTTT
** * *
1455416 TTTTCAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATC
1 TTTT-AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATC
*
1455481 AAATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
65 GAATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
* *
1455526 TTTTAAAAAAAAAATTTGGGTGCTGGCCTGTTAATGGTCGACACCCAGTACAACAAAAAAAATCG
1 TTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATCG
***
1455591 AATTTTTTTTC-AAAATTTTTTTTTTGCTCTCTAAAAATACT-AG
66 AATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATA-TGAG
1455634 TTTTAAAAAAAAAATTTGGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATC
1 TTTTAAAAAAAAAATTT-GGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATC
* * *
1455699 GAATTTTTTTTCAAAAAAAA---ATTT-CTCTCTAAAAATACGGG
65 GAATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
* * *
1455740 TTTT-AAAAAAAAA-TTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAATTT
1 TTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAA-TC
1455803 GAATTTTTT
65 GAATTTTTT
1455812 CAATTTTTTT
Statistics
Matches: 260, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
103 43 0.17
104 12 0.05
105 9 0.03
106 18 0.07
107 3 0.01
108 44 0.17
109 123 0.47
110 8 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (109 bp):
TTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATCG
AATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
Found at i:1457929 original size:16 final size:16
Alignment explanation
Indices: 1457896--1457947 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1457886 ATATATAGTT
1457896 AATTAATT-AAAATATG
1 AATTAATTGAAAA-ATG
*
1457912 AATTAATTGAAAACTG
1 AATTAATTGAAAAATG
*
1457928 AA--AATTGAAAAGTG
1 AATTAATTGAAAAATG
1457942 AATTAA
1 AATTAA
1457948 ATACCCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 13 0.42
16 14 0.45
17 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.31
Consensus pattern (16 bp):
AATTAATTGAAAAATG
Found at i:1458329 original size:45 final size:45
Alignment explanation
Indices: 1458265--1458374 Score: 177
Period size: 45 Copynumber: 2.4 Consensus size: 45
1458255 CTGTTACCGC
* *
1458265 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTT-GAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGT-TTCGAATATTGT
1458310 TACTGTTACCGTTACCGATTCGGCACTTTGTGTTTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTTTCGAATATTGT
*
1458355 TACTGTTACCGTTACTGATT
1 TACTGTTACCGTTACCGATT
1458375 GTCGAATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 2 0.03
45 59 0.97
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTTTCGAATATTGT
Found at i:1458380 original size:32 final size:31
Alignment explanation
Indices: 1458344--1458405 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
1458334 ACTTTGTGTT
*
1458344 TCGAATATTGTTACTGTTACCGTTACTGATTG
1 TCGAATATTGTTACTGTTA-CGTTACCGATTG
1458376 TCGAATATTGTTACTGTTACGTTACCGATT
1 TCGAATATTGTTACTGTTACGTTACCGATT
1458406 CGGCACTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.44
Consensus pattern (31 bp):
TCGAATATTGTTACTGTTACGTTACCGATTG
Found at i:1458438 original size:119 final size:120
Alignment explanation
Indices: 1458265--1458489 Score: 364
Period size: 119 Copynumber: 1.9 Consensus size: 120
1458255 CTGTTACCGC
1458265 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTTGAATATTGTTACTGTTACCGTTACCGATT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTG-TGAATATTGTTACTGTTACCGTTACCGATT
* * *
1458330 CGGCACTTTGTGTTTCGAATATTGTTACTGTTACCGTTACTGATTGTCGAATATTGT
65 CGACACTTTGTGTGTCGAATATTGTTACCG-TACCGTTACTGATTGTCGAATATTGT
*
1458387 TACTGTTAC-GTTACCGATTCGGCACTTTGTGTG-GAATATTGTTACTGTTACCGTTACCGATTC
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTGAATATTGTTACTGTTACCGTTACCGATTC
* *
1458450 GACACTTTGTGTGTCGGATATTGTTACCGTACTGTTACTG
66 GACACTTTGTGTGTCGAATATTGTTACCGTACCGTTACTG
1458490 TTACTGTTCT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
118 10 0.10
119 55 0.57
121 24 0.25
122 8 0.08
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (120 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTGAATATTGTTACTGTTACCGTTACCGATTC
GACACTTTGTGTGTCGAATATTGTTACCGTACCGTTACTGATTGTCGAATATTGT
Found at i:1458443 original size:74 final size:76
Alignment explanation
Indices: 1458301--1458448 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 76
1458291 TTTGTGTGTT
1458301 GAATATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTTTCGAATATTGTTACTGTTACCG
1 GAATATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTG-TTCGAATATTGTTACTGTTACCG
*
1458366 TTACTGATTGTC
65 TTACCGATTGTC
*
1458378 GAATATTGTTACTGTTA-CGTTACCGATTCGGCACTTTGTG-TGGAATATTGTTACTGTTACCGT
1 GAATATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTTCGAATATTGTTACTGTTACCGT
1458441 TACCGATT
66 TACCGATT
1458449 CGACACTTTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
74 29 0.42
76 23 0.33
77 17 0.25
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (76 bp):
GAATATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTTCGAATATTGTTACTGTTACCGT
TACCGATTGTC
Found at i:1458712 original size:18 final size:18
Alignment explanation
Indices: 1458667--1458857 Score: 160
Period size: 18 Copynumber: 10.6 Consensus size: 18
1458657 TAACTGATTA
1458667 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
1458685 TTA-TCAGATAATTGACTG
1 TTACTGA-ATAATTGACTG
* *
1458703 TTACTGGAT-ATTAGACTA
1 TTACTGAATAATT-GACTG
* * *
1458721 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
1458739 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
1458757 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
1458775 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
1458793 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
1458812 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
1458829 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
1458847 TTACTGGATAA
1 TTACTGAATAA
1458858 CCGATCAATT
Statistics
Matches: 142, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
17 22 0.15
18 101 0.71
19 19 0.13
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:1458797 original size:72 final size:72
Alignment explanation
Indices: 1458655--1458857 Score: 191
Period size: 72 Copynumber: 2.8 Consensus size: 72
1458645 AAAGGTATAA
* * * * * * *
1458655 AATAACTGATTATTACTGAATAATTGA-CTGTTA-TCAGATAATTGACTGTTACTGGATATTAGA
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGA-ATAACTGACTGTCACTGAATAATAGA
1458718 CTATTACTG
64 CTATTACTG
*
1458727 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
*
1458791 TGTTACTG
65 TATTACTG
* * * * * *
1458799 AATAACTTAATTGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCACTGAATAA
1458858 CCGATCAATT
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 89 0.81
73 19 0.17
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
ATTACTG
Found at i:1460303 original size:50 final size:50
Alignment explanation
Indices: 1460179--1460427 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1460169 GATAATAACA
* * ** * *
1460179 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1460230 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1460280 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1460330 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1460385 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1460428 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1460357 original size:100 final size:104
Alignment explanation
Indices: 1460178--1460427 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1460168 TGATAATAAC
**
1460178 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1460243 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1460280 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1460343 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1460385 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1460428 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1460543 original size:13 final size:13
Alignment explanation
Indices: 1460522--1460553 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1460512 GCTTGGATCA
*
1460522 TCATCAAATAAAT
1 TCATAAAATAAAT
1460535 TCATAAAATAAAT
1 TCATAAAATAAAT
1460548 TCATAA
1 TCATAA
1460554 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1460801 original size:30 final size:30
Alignment explanation
Indices: 1460765--1460822 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1460755 CCTCGACTCT
*
1460765 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1460795 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1460823 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1461562 original size:23 final size:24
Alignment explanation
Indices: 1461517--1461566 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
1461507 CTTTTCTTTC
*
1461517 TTTCTTTCCTTCCTTCCTTCTCTG
1 TTTCTTTCCTTCCTCCCTTCTCTG
*
1461541 TTTCTTT-CTTTCTCCCTTCTCTG
1 TTTCTTTCCTTCCTCCCTTCTCTG
1461564 TTT
1 TTT
1461567 TGTTTTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.00, C:0.34, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTCTTTCCTTCCTCCCTTCTCTG
Found at i:1461570 original size:28 final size:27
Alignment explanation
Indices: 1461508--1461571 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
1461498 TTTTCTTTTC
* *
1461508 TTTTCTTTCTTTCTTTCCTTCCTTCCT
1 TTTTGTTTCTTTCTTTCCTCCCTTCCT
*
1461535 TCTCTGTTTCTTTCTTT-CTCCCTTCTCT
1 T-TTTGTTTCTTTCTTTCCTCCCTTC-CT
1461563 GTTTTGTTT
1 -TTTTGTTT
1461572 TGCTCTCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 8 0.27
28 21 0.70
29 1 0.03
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTTGTTTCTTTCTTTCCTCCCTTCCT
Found at i:1461620 original size:3 final size:3
Alignment explanation
Indices: 1461612--1461662 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
1461602 TCATATATAT
*
1461612 ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1461655 AT- ATA ATA
1 ATA ATA ATA
1461663 TAAAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
2 12 0.30
3 28 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:1461623 original size:8 final size:8
Alignment explanation
Indices: 1461610--1461665 Score: 62
Period size: 8 Copynumber: 6.8 Consensus size: 8
1461600 TGTCATATAT
1461610 ATATAATA
1 ATATAATA
1461618 ATATAATA
1 ATATAATA
1461626 ATATAATATA
1 ATAT-A-ATA
1461636 ATATAAT-
1 ATATAATA
1461643 ATATTAATA
1 ATA-TAATA
1461652 ATA-ATATA
1 ATATA-ATA
1461660 ATATAA
1 ATATAA
1461666 AAACATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.10
8 25 0.60
9 6 0.14
10 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:1461625 original size:5 final size:5
Alignment explanation
Indices: 1461604--1461665 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
1461594 TTTCTTTGTC
1461604 ATATA TATATA ATA-A TATAATA ATATA ATATA ATATA ATAT- AT-TA
1 ATATA -ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA ATATA
1461649 ATAATA ATATA ATATA A
1 AT-ATA ATATA ATATA A
1461666 AAACATAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
3 1 0.02
4 5 0.10
5 31 0.62
6 12 0.24
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:1461673 original size:13 final size:13
Alignment explanation
Indices: 1461615--1461674 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
1461605 TATATATATA
*
1461615 ATAATATAATAAT
1 ATAATATAAAAAT
1461628 ATAATATAATATAAT
1 ATAATATAA-A-AAT
* *
1461643 ATATTAATAATAAT
1 ATAAT-ATAAAAAT
*
1461657 ATAATATAAAAAC
1 ATAATATAAAAAT
1461670 ATAAT
1 ATAAT
1461675 TATTACTTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 20 0.53
14 7 0.18
15 7 0.18
16 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAAAAAT
Found at i:1461674 original size:37 final size:37
Alignment explanation
Indices: 1461604--1461674 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
1461594 TTTCTTTGTC
* *
1461604 ATATATATATAATAATATAATAATATAATATAATATA
1 ATATATATATAATAATATAATAATAAAACATAATATA
1461641 ATATAT-TAATAATAATATAAT-ATAAAAACATAAT
1 ATATATAT-ATAATAATATAATAAT-AAAACATAAT
1461675 TATTACTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 3 0.10
37 27 0.90
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (37 bp):
ATATATATATAATAATATAATAATAAAACATAATATA
Found at i:1462178 original size:18 final size:18
Alignment explanation
Indices: 1462152--1462215 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
1462142 ACATGATCGA
*
1462152 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* *
1462170 TATTGAATAATTGATTAT
1 TACTGAATAACTGATTAT
* * *
1462188 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTAT
1462206 TACTGAATAA
1 TACTGAATAA
1462216 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:1466377 original size:50 final size:50
Alignment explanation
Indices: 1466253--1466501 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1466243 GATAATAACA
* * ** * *
1466253 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1466304 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1466354 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1466404 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1466459 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1466502 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1466431 original size:100 final size:104
Alignment explanation
Indices: 1466252--1466501 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1466242 TGATAATAAC
**
1466252 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1466317 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1466354 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1466417 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1466459 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1466502 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1466617 original size:13 final size:13
Alignment explanation
Indices: 1466596--1466627 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1466586 GCTTGGATCA
*
1466596 TCATCAAATAAAT
1 TCATAAAATAAAT
1466609 TCATAAAATAAAT
1 TCATAAAATAAAT
1466622 TCATAA
1 TCATAA
1466628 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1469087 original size:23 final size:23
Alignment explanation
Indices: 1469061--1469106 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1469051 TTAATAATTC
1469061 AAAAAATAAAAAAATATTTTTAA
1 AAAAAATAAAAAAATATTTTTAA
*
1469084 AAAAAATATAAAAATATTTTTAA
1 AAAAAATAAAAAAATATTTTTAA
1469107 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAAATAAAAAAATATTTTTAA
Found at i:1469562 original size:72 final size:72
Alignment explanation
Indices: 1469484--1469621 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 72
1469474 TTTTTAGTTT
* * * *
1469484 TGGCCTGTCAATGGCCGGCACCCAGTACAATAAAAAAAATCGATTTTTTTTTCAAAAAAAATTTT
1 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
1469549 TGGGTGC
66 TGGGTGC
1469556 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
1 TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
1469621 T
66 T
1469622 TTGCTCTCTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (72 bp):
TGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATCAAATTTTTTTTCAAAAAAAATTTT
TGGGTGC
Found at i:1469660 original size:109 final size:108
Alignment explanation
Indices: 1469532--1469924 Score: 550
Period size: 107 Copynumber: 3.7 Consensus size: 108
1469522 ATCGATTTTT
* * *
1469532 TTTTCAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAATC
1 TTTT-AAAAAAAA-ATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATC
*
1469597 AAATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
64 GAATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
*
1469642 TTTTAAAAAAAAAATTTGGGTGCTGGCCTGTTAATGGCCGACACCCAGTACAAC-AAAAAAATCG
1 TTTT-AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATCG
***
1469706 AATTTTTTTTC-AAAATTTTTTTTTTGCTCTCTAAAAATACT-AG
65 AATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATA-TGAG
1469749 TTTTAAAAAAAAATTTGGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATCG
1 TTTTAAAAAAAAATTT-GGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATCG
* * *
1469814 AATTTTTTTTCAAAAAAAA---ATTT-CTCTCTAAAAATACGGG
65 AATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
* * *
1469854 TTTTAAAAAAAAA-TTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAATTTG
1 TTTTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAA-TCG
1469918 AATTTTT
65 AATTTTT
1469925 CAATTTTTTT
Statistics
Matches: 258, Mismatches: 19, Indels: 18
0.87 0.06 0.06
Matches are distributed among these distances:
103 43 0.17
104 11 0.04
105 27 0.10
106 15 0.06
107 67 0.26
108 42 0.16
109 41 0.16
110 12 0.05
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (108 bp):
TTTTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAACAAAAAAAATCGA
ATTTTTTTTCAAAAAAAATTTTTTTGCTCTCTAAAAATATGAG
Found at i:1472042 original size:16 final size:16
Alignment explanation
Indices: 1472009--1472060 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1471999 ATATATAGTT
1472009 AATTAATT-AAAATATG
1 AATTAATTGAAAA-ATG
*
1472025 AATTAATTGAAAACTG
1 AATTAATTGAAAAATG
*
1472041 AA--AATTGAAAAGTG
1 AATTAATTGAAAAATG
1472055 AATTAA
1 AATTAA
1472061 ATACCCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 13 0.42
16 14 0.45
17 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.31
Consensus pattern (16 bp):
AATTAATTGAAAAATG
Found at i:1472493 original size:32 final size:32
Alignment explanation
Indices: 1472457--1472519 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1472447 ACTTTGTGTT
*
1472457 TCGAATATTGTTACTGTTACCGTTACTGATTG
1 TCGAATATTGTTACTGTTACCGTTACCGATTG
1472489 TCGAATATTGTTACTGTTACCGTTACCGATT
1 TCGAATATTGTTACTGTTACCGTTACCGATT
1472520 CGGCACTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (32 bp):
TCGAATATTGTTACTGTTACCGTTACCGATTG
Found at i:1472539 original size:43 final size:43
Alignment explanation
Indices: 1472378--1472590 Score: 241
Period size: 45 Copynumber: 5.1 Consensus size: 43
1472368 CTGTTACCGC
* *
1472378 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTTGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTG--GAATATTGT
*
1472423 TACTGTTACCGTTACCGATTCGGCACTTTGTGTTTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTG--TGGAATATTGT
*
1472468 TACTGTTACCGTTA-C---T--G-A---T-TGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGGAATATTGT
1472500 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGGAATATTGT
* *
1472543 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGGATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTG--GAATATTGT
1472588 TAC
1 TAC
1472591 CGTACTGTTA
Statistics
Matches: 147, Mismatches: 6, Indels: 30
0.80 0.03 0.16
Matches are distributed among these distances:
32 25 0.17
33 1 0.01
34 2 0.01
35 1 0.01
36 1 0.01
38 2 0.01
39 2 0.01
41 1 0.01
42 1 0.01
43 45 0.31
44 1 0.01
45 64 0.44
47 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (43 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGGAATATTGT
Found at i:1472571 original size:120 final size:120
Alignment explanation
Indices: 1472378--1472603 Score: 364
Period size: 120 Copynumber: 1.9 Consensus size: 120
1472368 CTGTTACCGC
*
1472378 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTTGAATATTGTTACTGTTACCGTTACCGATT
1 TACTGCTACCGTTACCGATTCGGCACTTTGTGTG-TGAATATTGTTACTGTTACCGTTACCGATT
* * *
1472443 CGGCACTTTGTGTTTCGAATATTGTTACTGTTACCGTTACTGATTGTCGAATATTGT
65 CGACACTTTGTGTGTCGAATATTGTTACCG-TACCGTTACTGATTGTCGAATATTGT
*
1472500 TACTGTTACCGTTACCGATTCGGCACTTTGTGTG-GAATATTGTTACTGTTACCGTTACCGATTC
1 TACTGCTACCGTTACCGATTCGGCACTTTGTGTGTGAATATTGTTACTGTTACCGTTACCGATTC
* *
1472564 GACACTTTGTGTGTCGGATATTGTTACCGTACTGTTACTG
66 GACACTTTGTGTGTCGAATATTGTTACCGTACCGTTACTG
1472604 TTACTGTTCT
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
119 10 0.10
120 55 0.57
122 32 0.33
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (120 bp):
TACTGCTACCGTTACCGATTCGGCACTTTGTGTGTGAATATTGTTACTGTTACCGTTACCGATTC
GACACTTTGTGTGTCGAATATTGTTACCGTACCGTTACTGATTGTCGAATATTGT
Found at i:1472826 original size:18 final size:18
Alignment explanation
Indices: 1472781--1472971 Score: 160
Period size: 18 Copynumber: 10.6 Consensus size: 18
1472771 TAACTGATTA
1472781 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
1472799 TTA-TCAGATAATTGACTG
1 TTACTGA-ATAATTGACTG
* *
1472817 TTACTGGAT-ATTAGACTA
1 TTACTGAATAATT-GACTG
* * *
1472835 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
1472853 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
1472871 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
1472889 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
1472907 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
1472926 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
1472943 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
1472961 TTACTGGATAA
1 TTACTGAATAA
1472972 CCGATCAATT
Statistics
Matches: 142, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
17 22 0.15
18 101 0.71
19 19 0.13
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:1472911 original size:72 final size:72
Alignment explanation
Indices: 1472769--1472971 Score: 191
Period size: 72 Copynumber: 2.8 Consensus size: 72
1472759 AAAGGTATAA
* * * * * * *
1472769 AATAACTGATTATTACTGAATAATTGA-CTGTTA-TCAGATAATTGACTGTTACTGGATATTAGA
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGA-ATAACTGACTGTCACTGAATAATAGA
1472832 CTATTACTG
64 CTATTACTG
*
1472841 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
*
1472905 TGTTACTG
65 TATTACTG
* * * * * *
1472913 AATAACTTAATTGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCACTGAATAA
1472972 CCGATCAATT
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 89 0.81
73 19 0.17
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
ATTACTG
Found at i:1474420 original size:50 final size:50
Alignment explanation
Indices: 1474296--1474544 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1474286 GATAATAACA
* * ** * *
1474296 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1474347 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1474397 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1474447 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1474502 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1474545 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1474474 original size:100 final size:104
Alignment explanation
Indices: 1474295--1474544 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1474285 TGATAATAAC
**
1474295 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1474360 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1474397 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1474460 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1474502 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1474545 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1474660 original size:13 final size:13
Alignment explanation
Indices: 1474639--1474670 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1474629 GCTTGGATCA
*
1474639 TCATCAAATAAAT
1 TCATAAAATAAAT
1474652 TCATAAAATAAAT
1 TCATAAAATAAAT
1474665 TCATAA
1 TCATAA
1474671 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1475649 original size:23 final size:24
Alignment explanation
Indices: 1475604--1475653 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
1475594 CTTTTCTTTC
*
1475604 TTTCTTTCCTTCCTTCCTTCTCTG
1 TTTCTTTCCTTCCTCCCTTCTCTG
*
1475628 TTTCTTT-CTTTCTCCCTTCTCTG
1 TTTCTTTCCTTCCTCCCTTCTCTG
1475651 TTT
1 TTT
1475654 TGTTTTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.00, C:0.34, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTCTTTCCTTCCTCCCTTCTCTG
Found at i:1475657 original size:28 final size:27
Alignment explanation
Indices: 1475595--1475658 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
1475585 TTTTCTTTTC
* *
1475595 TTTTCTTTCTTTCTTTCCTTCCTTCCT
1 TTTTGTTTCTTTCTTTCCTCCCTTCCT
*
1475622 TCTCTGTTTCTTTCTTT-CTCCCTTCTCT
1 T-TTTGTTTCTTTCTTTCCTCCCTTC-CT
1475650 GTTTTGTTT
1 -TTTTGTTT
1475659 TGCTCTCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 8 0.27
28 21 0.70
29 1 0.03
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTTGTTTCTTTCTTTCCTCCCTTCCT
Found at i:1475708 original size:12 final size:12
Alignment explanation
Indices: 1475691--1475746 Score: 68
Period size: 12 Copynumber: 5.0 Consensus size: 12
1475681 TTTCTTTGTC
1475691 ATATATATAATA
1 ATATATATAATA
1475703 ATATATA-ATATA
1 ATATATATA-ATA
1475715 ATATA-AT-ATA
1 ATATATATAATA
1475725 ATATAT-TAATA
1 ATATATATAATA
1475736 ATA-ATATAATA
1 ATATATATAATA
1475747 TAAAAACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 11 0.28
11 13 0.33
12 15 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATAATA
Found at i:1475715 original size:5 final size:5
Alignment explanation
Indices: 1475691--1475749 Score: 72
Period size: 5 Copynumber: 12.2 Consensus size: 5
1475681 TTTCTTTGTC
1475691 ATAT- ATATA ATA-A TATATA ATATA ATATA ATATA ATAT- AT-TA ATAATA
1 ATATA ATATA ATATA -ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
1475739 ATATA ATATA A
1 ATATA ATATA A
1475750 AAACATAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
3 1 0.02
4 9 0.18
5 34 0.69
6 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:1475730 original size:24 final size:25
Alignment explanation
Indices: 1475691--1475749 Score: 88
Period size: 24 Copynumber: 2.4 Consensus size: 25
1475681 TTTCTTTGTC
1475691 ATAT-ATATAATAATATATAAT-ATA
1 ATATAATATAATAATAT-TAATAATA
1475715 ATATAATATAAT-ATATTAATAATA
1 ATATAATATAATAATATTAATAATA
1475739 ATATAATATAA
1 ATATAATATAA
1475750 AAACATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATAATATAATAATATTAATAATA
Found at i:1476263 original size:18 final size:18
Alignment explanation
Indices: 1476237--1476300 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
1476227 ACATGATCGA
*
1476237 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* *
1476255 TATTGAATAATTGATTAT
1 TACTGAATAACTGATTAT
* * *
1476273 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTAT
1476291 TACTGAATAA
1 TACTGAATAA
1476301 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:1477173 original size:111 final size:110
Alignment explanation
Indices: 1476930--1477175 Score: 332
Period size: 110 Copynumber: 2.2 Consensus size: 110
1476920 GGGACGTTAC
1476930 AAAACATACGAGTTTAAAAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
1 AAAA-ATACGAGTTT-AAAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
* * ****
1476995 CGACAAAAAAAATTCAATTTTTTTTCAAAAATTTCTTTTTGCTCCCT
64 CAACAAAAAAAATTCAACTTTTTTTCAAAAATAAAATTTTGCTCCCT
* ** *
1477042 AAAAATACGAATTTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACA
1 AAAAATACGAGTTTAAAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
* *
1477107 ACAAAAAAAAATTCGAACTTTTTTTCAAAAA-AAAATTTTGTTCTCT
66 AC-AAAAAAAATTC-AACTTTTTTTCAAAAATAAAATTTTGCTCCCT
*
1477153 AAAAATACCAGTTTAAAAAAAAA
1 AAAAATACGAGTTTAAAAAAAAA
1477176 TTTTGAAAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
110 49 0.42
111 48 0.41
112 19 0.16
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (110 bp):
AAAAATACGAGTTTAAAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
ACAAAAAAAATTCAACTTTTTTTCAAAAATAAAATTTTGCTCCCT
Found at i:1477327 original size:108 final size:107
Alignment explanation
Indices: 1477205--1478211 Score: 1026
Period size: 107 Copynumber: 9.3 Consensus size: 107
1477195 CTTTTTTTTT
* *
1477205 GCACCCAAAATTTTTTTTTTGAAAATTCTTATTTTTAGAGAGCACAAAAAATTTTTTGAAAAAAA
1 GCACCC-AAATTTTTTTTTT-AAAACTCGTATTTTTAGAGAGCA-AAAAAATTTTTTGAAAAAAA
** * * * *
1477270 ATT-AAAATTTTTT-TTGTACTGGGTACCGTCCATTTACAAGCCA
63 ATTGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * *
1477313 GCACCCAAA-TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAATTTTTTTTTAAAAAAATT
1 GCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAA-ATTTTTTGAAAAAAAAT
* *
1477377 TGAAGTTTTTTTTTGTTGTACTGTGTGCCGGCCATTAACAGGCCA
65 TGAA--TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* *
1477422 ACA-CCTAA--TTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAACTTTTTTTGAAAAAAA
1 GCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGC-AAAAAAA--TTTTTTGAAAAAAA
**
1477484 ATTCGAATTTTTTTTGTTGTACTGGGTGCCAACCATTGACAGGCCA
63 ATT-GAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* ** * *
1477530 GCACCCAAAAAAAAGTTTTTTTTTAAAACAAGTATTTTCAGAGAGCAAAAAAATATTTTTTGTAA
1 GCACCC-----AAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGC-AAAAAA-ATTTTTTGAAA
* * *
1477595 AAAAATTGACTTTTTTTT-TTGCAATGGGTGCCGGCCATTGACAGGCCA
59 AAAAATTGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * *** *
1477643 GCACCCAAAATTTTTTTTT-AAACTCATATTTTTAAAGAGCAAAATTTTTTTTTAAAAAAAAATT
1 GCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAATTTTTTGAAAAAAAATT
*
1477707 CAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
66 GAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * *
1477749 GCACCCCAAATTTCTTTTTT-AAACTCGTATTTTTAGGGAGCAAAAAATTTTTTTTTGAAAAAAA
1 GCA-CCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAA--ATTTTTTGAAAAAAA
*
1477813 ATTTGAATTTTTTTTGTTGTACTGGGTGCCGGCCAGTGACAGGCCA
63 A-TTGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * *** *
1477859 GCATCCAAA-TTTTTTTTTAAAGCTCGTATTTTTAGAGAACAAAATTTTGTTTTTGAAAAATAAT
1 GCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAT-TTTTTGAAAAAAAAT
* ** *
1477923 TCG-ATTTTTTTTGTTGTACTAGGTGCAAGCCATTAACAGGCCA
65 T-GAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * **
1477966 GCA-CCAAATTTTTTTTTTAAAACTTGTATTTTTAGAAAGTAAAAAAA-AATTTG-AAAAAAATT
1 GCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAATTTTTTGAAAAAAAATT
* * * *
1478028 CGATTTTTTTTTGTTTTATTGGGTGCCGGCCATTGACAGGCTA
66 -GAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * * *
1478071 GCACCCAAATTTTTTTTTT-TAACTTGTTTTTTTAAAGAGCAAAAAAAAAATTTTTGAAAAAAAA
1 GCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGC--AAAAAAATTTTTTGAAAAAAAA
* * *
1478135 TCGAATTTTGTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGG-CT
64 TTGAA--TT-TTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
1478181 GACACCC-AA-TTTTTTTTT-AAACTCGTATTTT
1 G-CACCCAAATTTTTTTTTTAAAACTCGTATTTT
1478212 GTATACCAAT
Statistics
Matches: 756, Mismatches: 106, Indels: 73
0.81 0.11 0.08
Matches are distributed among these distances:
104 15 0.02
105 115 0.15
106 66 0.09
107 164 0.22
108 99 0.13
109 113 0.15
110 53 0.07
111 36 0.05
113 32 0.04
114 12 0.02
115 16 0.02
116 34 0.04
117 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (107 bp):
GCACCCAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAATTTTTTGAAAAAAAATT
GAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
Found at i:1477933 original size:216 final size:214
Alignment explanation
Indices: 1477205--1478211 Score: 1028
Period size: 216 Copynumber: 4.6 Consensus size: 214
1477195 CTTTTTTTTT
* * * *
1477205 GCACCCAAAATTTTTTTTTTGAAAATTCTTATTTTTAGAGAGCACAAAAA-ATTTTTTGAAAAAA
1 GCACCC-AAA-TTTTTTTTT--AAACTCGTATTTTTA-A-AGAACAAAAATTTTTTTTGAAAAAA
* ** * * *
1477269 AATT-AAAATTTTTT-TTGTACTGGGTACC-GTCCATTTACAAGCCAGCA-CCCAAATTTTTTTT
60 AATTCGATTTTTTTTGTTGTACTGGGTGCCAG-CCATTGACAGGCCAGCACCCCAAATTTTTTTT
1477330 TAAAACTCGTATTTTTAGAGAGCAAAAAATTTTTTTTT-AAAAAAATTTGAAGTTTTTTTTTGTT
124 TAAAACTCGTATTTTTAGAGAGCAAAAAATTTTTTTTTGAAAAAAATTTGAA--TTTTTTTTGTT
* *
1477394 GTACTGTGTGCCGGCCATTAACAGGCCA
187 GTACTGGGTGCCGGCCATTGACAGGCCA
* * * * *
1477422 ACA-CCTAATTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAACTTTTTTTGAAAAAAAAT
1 GCACCCAAATTTTTTTTTAAACTCGTATTTTTA-A-AG-AACAAAAATTTTTTTTGAAAAAAAAT
* *
1477486 TCGAATTTTTTTTGTTGTACTGGGTGCCAACCATTGACAGGCCAGCACCCAAAAAAAAGTTTTTT
63 TCG-ATTTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCC----CAAA-TTTTTT
** * * * *
1477551 TTTAAAACAAGTATTTTCAGAGAGCAAAAAAATATTTTTTGTAAAAAAA-TTGACTTTTTTTT-T
122 TTTAAAACTCGTATTTTTAGAGAGCAAAAAATTTTTTTTTG-AAAAAAATTTGAATTTTTTTTGT
* *
1477614 TGCAATGGGTGCCGGCCATTGACAGGCCA
186 TGTACTGGGTGCCGGCCATTGACAGGCCA
* * * *
1477643 GCACCCAAAATTTTTTTTTAAACTCATATTTTTAAAGAGCAAAATTTTTTTTTAAAAAAAAATTC
1 GCACCC-AAATTTTTTTTTAAACTCGTATTTTTAAAGAACAAAAATTTTTTTTGAAAAAAAATTC
* *
1477708 AATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTTCTTTTTT-AAA
65 GATTTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCCAAATTT-TTTTTTAAAA
*
1477772 CTCGTATTTTTAGGGAGCAAAAAATTTTTTTTTGAAAAAAAATTTGAATTTTTTTTGTTGTACTG
129 CTCGTATTTTTAGAGAGCAAAAAATTTTTTTTTG-AAAAAAATTTGAATTTTTTTTGTTGTACTG
*
1477837 GGTGCCGGCCAGTGACAGGCCA
193 GGTGCCGGCCATTGACAGGCCA
* * * *
1477859 GCATCCAAATTTTTTTTTAAAGCTCGTATTTTTAGAGAACAAAATTTTGTTTTTGAAAAATAATT
1 GCACCCAAATTTTTTTTTAAA-CTCGTATTTTTAAAGAACAAAAATTT-TTTTTGAAAAAAAATT
* * *
1477924 CGATTTTTTTTGTTGTACTAGGTGCAAGCCATTAACAGGCCAGCA--CCAAATTTTTTTTTTAAA
64 CGATTTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCCAAA-TTTTTTTTTAAA
* * * *** * * * *
1477987 ACTTGTATTTTTAGAAAGTAAAAAA---AAATTTGAAAAAAATTCGATTTTTTTTTGTTTTATTG
128 ACTCGTATTTTTAGAGAGCAAAAAATTTTTTTTTGAAAAAAATTTGAATTTTTTTTGTTGTACTG
*
1478049 GGTGCCGGCCATTGACAGGCTA
193 GGTGCCGGCCATTGACAGGCCA
* * * * ***
1478071 GCACCCAAATTTTTTTTTTTAACTTGTTTTTTTAAAGAGCAAAAAAAAAATTTTTGAAAAAAAA-
1 GCACCCAAA-TTTTTTTTTAAACTCGTATTTTTAAAGA--ACAAAAATTTTTTTTGAAAAAAAAT
*
1478135 TCGAATTTTGTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGG-CTG-ACACCC-AATTTTTTT
63 TCG-A--TT-TTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCAC-CCCAAATTTTTTT
1478197 TT-AAACTCGTATTTT
123 TTAAAACTCGTATTTT
1478212 GTATACCAAT
Statistics
Matches: 667, Mismatches: 90, Indels: 69
0.81 0.11 0.08
Matches are distributed among these distances:
212 88 0.13
213 35 0.05
214 84 0.13
215 62 0.09
216 123 0.18
217 86 0.13
218 2 0.00
219 44 0.07
220 23 0.03
221 30 0.04
222 14 0.02
223 65 0.10
224 4 0.01
225 7 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (214 bp):
GCACCCAAATTTTTTTTTAAACTCGTATTTTTAAAGAACAAAAATTTTTTTTGAAAAAAAATTCG
ATTTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCCAAATTTTTTTTTAAAACT
CGTATTTTTAGAGAGCAAAAAATTTTTTTTTGAAAAAAATTTGAATTTTTTTTGTTGTACTGGGT
GCCGGCCATTGACAGGCCA
Found at i:1481302 original size:109 final size:110
Alignment explanation
Indices: 1480999--1481570 Score: 457
Period size: 110 Copynumber: 5.2 Consensus size: 110
1480989 ATTGGTATAC
* * * * * *
1480999 AAAATACGAGTTTCAAAAAAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGACCGGCACCCAGCAC
1 AAAATACAAGTTTTAAAAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGACACCCAGTAC
* * * *
1481063 AACACAAAAAAAATTCGATTTTTTTTTCAAAAAAAATTTTTGTTGCTCTTTA
66 AACA-AAAAAAAATTCTA-ATTTTTTTC-----AATTTTTTTTTGCTCTTTA
* *
1481115 AAAATACGAG--TT----AAAAAAAATTTTTGGGTGC-AGGCCTGTAAAT-GCTCGACACCCAGT
1 AAAATACAAGTTTTAAAAAAAAAAAATTTTTGGGTGCTA-GCCTGTCAATGGC-CGACACCCAGT
*
1481172 ACAACAAAAGAAAATTCTAATTTTTTTC-ATTTTTTTTTGCTCTTTA
64 ACAACAAAAAAAAATTCTAATTTTTTTCAATTTTTTTTTGCTCTTTA
* * * * *
1481218 AAACTACAACTTTTAAAAAAAAAAAATTTTTTTGGTGCTAGCCTGTCAATGGCCAACA-CCAATA
1 AAAATACAAGTTTTAAAAAAAAAAAA-TTTTTGGGTGCTAGCCTGTCAATGGCCGACACCCAGTA
* *
1481282 CAACAAAAAAAAATTATAATTTTTTCTCAAAAATTTTTTTTTGCTC-TAA
65 CAACAAAAAAAAATTCTAATTTTTT-TC---AATTTTTTTTTGCTCTTTA
* * * * * *
1481331 AAAAAACTAGTTTT-AAAAAAAAAAA-TTTTGGGTGCTGGTCTGTCAATGGTCGACACCCAGTAT
1 AAAATACAAGTTTTAAAAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGACACCCAGTAC
* * *
1481394 AAC-AAAAAAAATTCGAATTTTTTTTCAAATTTTTTTTTACTCTCTA
66 AACAAAAAAAAATTCTAA-TTTTTTTC-AATTTTTTTTTGCTCTTTA
* * * * * * *
1481440 AAAATACGAGTTTT---AAAAAAAAA--TTTGGGTGCTGGCCTGTCAATGGTCGGCACCTAGCAT
1 AAAATACAAGTTTTAAAAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGACACCCAGTAC
* * *
1481500 GAC-AAAAAAAATTCAAATTTTTTTTCAAAATTTTTTTTTTGCTCTCTA
66 AACAAAAAAAAATTCTAA-TTTTTTTC--AA-TTTTTTTTTGCTCTTTA
*
1481548 AAAATACGAGTTTTAAAAAAAAA
1 AAAATACAAGTTTTAAAAAAAAA
1481571 TTTGAAAACA
Statistics
Matches: 385, Mismatches: 46, Indels: 55
0.79 0.09 0.11
Matches are distributed among these distances:
103 23 0.06
105 2 0.01
106 57 0.15
107 12 0.03
108 45 0.12
109 57 0.15
110 84 0.22
111 57 0.15
112 11 0.03
113 12 0.03
114 15 0.04
116 10 0.03
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (110 bp):
AAAATACAAGTTTTAAAAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGACACCCAGTAC
AACAAAAAAAAATTCTAATTTTTTTCAATTTTTTTTTGCTCTTTA
Found at i:1481878 original size:107 final size:108
Alignment explanation
Indices: 1481598--1482695 Score: 1067
Period size: 107 Copynumber: 10.3 Consensus size: 108
1481588 ATTTTTTTTT
* **** *
1481598 GCACCCAATTTTTTTTTTAAAACTCGTATTTTTAGAA-AGCAAAAAAA-AAAATTTG-AAAAAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTA-AAGAG-AAAAAAATTTTTTTTGAAAAAAAA
* *
1481660 TTTGAATTTTTTTTTTGTTGTACTGGGTGCCGGCC--T-----GTCA
64 TTCGAA--TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * **
1481700 GCA-CCAATTTTTTTTTTAAAAGTCGTA-TTTTATAGAG-AAAATTTTTTTTTTG-AAAAAAATT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAGAAAAAAATTTTTTTTGAAAAAAAATT
* * *
1481761 C-AATTTTTTTTGTTGTACTGGGTGCCGGCAATTAATAGGCCA
66 CGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* *
1481803 GCA-CCAAAATTTTTTTTAAAACTCGTATTTTTAAAGAGTAAAAAAAATTTTTTTGAAAAAAAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAG-AAAAAAATTTTTTTTGAAAAAAAAT
* * *
1481867 TCGAA-TTTTTTT-TTGTACTGGGTGCCAGCTATTGATAGGCCA
65 TCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
** * * *
1481909 GCACCCAAATTTTTTTTTAAAACAAGTATTTTCAGAGAGCAAAAAAAATATTTTTTGAAAAAAAA
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAG--AAAAAAATTTTTTTTGAAAAAAAA
* * * *
1481974 TT-GACTTTTTCTTT-TTGCACTGGGTGCCGGCAATTGACAGGCTA
64 TTCGAATTTTT-TTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * ** *
1482018 GCACCCAAAATTTTTTTT-AAACTCGTACTTTT--AGAGAGAAATTTTTTTTTTGAAAAAAAAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAGAAAAAAATTTTTTTTGAAAAAAAATT
* *
1482080 CGAAATTTTTTTGTTGTACTGGGTGCCGGCAATTGACAGGCCA
66 CGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * * * * *
1482123 GTA-TCAAATTTTTTTTTTAAAACTTGTATTTTT--AG-GGAGAAATTTTTTTTTGACAAAAAAT
1 GCACCCAAA-TTTTTTTTTAAAACTCGTATTTTTAAAGAGAAAAAAATTTTTTTTGAAAAAAAAT
* * * *
1482184 TTGAA-TTTTTTTATTGTACTAGGTGCCGACCATTGACAGGCCA
65 TCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * * * *
1482227 GCA-CCAATTTTTTTTTTAAAACTCTTATTTTTAGAGAGTAAAAATTTTTTTTTTAAAAAATAAT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAGAAAAAAATTTTTTTTGAAAAAA-AAT
*
1482291 TCGAATTTTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCA
65 TCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * *
1482335 GCACCCAAAAATTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAATATTTTTTTTGAAAAATAA
1 GCACCC--AAATTTTTTTTTAAAACTCGTATTTTTAAAGAGAAAAAAATTTTTTTTGAAAAAAAA
* * *
1482400 TTCGATTTTTTTTTGTTGTATTGGGTGCCAGCCATTGACAGGCCA
64 TTCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * * **
1482445 GCA-CCAATTTTTTTTTTAAAACTCGTATTTTTATAGAGCAAAATTTTTTTTTTG-AAAAAAATT
1 GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAGAAAAAAATTTTTTTTGAAAAAAAATT
* * * *
1482508 TGAATTTTTTTTTGTTTTACTGGGTGTCGGCCATTGACAGGCTA
66 CGAA-TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
** * *
1482552 GCACCCAAAAAATTTTTTT--AACTCGTACTTTTAAAGAGCAAAAAAAAATTTTTTTGAAAAAAA
1 GCACCC-AAATTTTTTTTTAAAACTCGTATTTTTAAAGAG--AAAAAAATTTTTTTTGAAAAAAA
1482615 AGTT-GAACTTTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
63 A-TTCGAA--TTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
* * *
1482663 GCATCCAAATTTTTTTTTTTAAACTCATATTTT
1 GCACCCAAA-TTTTTTTTTAAAACTCGTATTTT
1482696 GTATACCAAT
Statistics
Matches: 838, Mismatches: 117, Indels: 71
0.82 0.11 0.07
Matches are distributed among these distances:
96 26 0.03
98 7 0.01
99 13 0.02
100 7 0.01
101 23 0.03
102 3 0.00
103 49 0.06
104 76 0.09
105 70 0.08
106 89 0.11
107 156 0.19
108 79 0.09
109 70 0.08
110 61 0.07
111 99 0.12
113 10 0.01
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (108 bp):
GCACCCAAATTTTTTTTTAAAACTCGTATTTTTAAAGAGAAAAAAATTTTTTTTGAAAAAAAATT
CGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCA
Found at i:1483680 original size:26 final size:26
Alignment explanation
Indices: 1483644--1483697 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
1483634 AATCCGAAAG
1483644 TTTGCAGCAAGTTAACAACTACAATC
1 TTTGCAGCAAGTTAACAACTACAATC
1483670 TTTGCAGCAAGTTAACAACTACAATC
1 TTTGCAGCAAGTTAACAACTACAATC
1483696 TT
1 TT
1483698 AAGCGTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
TTTGCAGCAAGTTAACAACTACAATC
Found at i:1484340 original size:18 final size:19
Alignment explanation
Indices: 1484317--1484361 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
1484307 TCGCACATTT
*
1484317 GATGAGCTT-ACAATTTTG
1 GATGAGCTTCACAATTTTA
*
1484335 GATGAG-TTCACAGTTTTA
1 GATGAGCTTCACAATTTTA
1484353 GATGAGCTT
1 GATGAGCTT
1484362 GTAGGTGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (19 bp):
GATGAGCTTCACAATTTTA
Found at i:1486294 original size:22 final size:21
Alignment explanation
Indices: 1486262--1486302 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1486252 TAAACAAAGT
1486262 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
1486283 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
1486303 AAGAAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:1487368 original size:39 final size:40
Alignment explanation
Indices: 1487261--1487369 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 40
1487251 GACCTCGAGT
* * **
1487261 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-TCTATTACTTCGGATAGAGC
** ** * *
1487302 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCATCTATTACTTCGGATAGAGC
1487340 CGATGAGACACTGGGTGTCATCTATTACTT
1 CGATGAGACACTGGGTGTCATCTATTACTT
1487370 TGAACTATCC
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
38 18 0.35
39 17 0.33
40 1 0.02
41 16 0.31
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCATCTATTACTTCGGATAGAGC
Found at i:1488050 original size:20 final size:20
Alignment explanation
Indices: 1488027--1488064 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1488017 GTTATTAAGT
1488027 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
1488047 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
1488065 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:1490001 original size:12 final size:11
Alignment explanation
Indices: 1489986--1490047 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 11
1489976 GATAAATATT
1489986 ATATTAAATTTA
1 ATATTAAA-TTA
1489998 ATATTAAATTA
1 ATATTAAATTA
1490009 ATA--AAA-TA
1 ATATTAAATTA
*
1490017 CTATTCAAA-TA
1 ATATT-AAATTA
1490028 AGTATTAAATTA
1 A-TATTAAATTA
1490040 A-ATTAAAT
1 ATATTAAAT
1490048 ATTAAATCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 7 0.16
11 14 0.33
12 15 0.35
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATTAAATTA
Found at i:1490017 original size:49 final size:48
Alignment explanation
Indices: 1489945--1490070 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 48
1489935 ACTTAATCAC
* *
1489945 TTTAATATTAAATTAATATAATACT-TATCAAGATAAATATTATATTAAA
1 TTTAATATTAAATTAATAAAATACTAT-TCAA-ATAAATATTAAATTAAA
*
1489994 TTTAATATTAAATTAATAAAATACTATTCAAATAAGTATTAAATTAAA
1 TTTAATATTAAATTAATAAAATACTATTCAAATAAATATTAAATTAAA
* * *
1490042 TTAAATATTAAATCTATTAAAATAATATT
1 TTTAATATTAAAT-TAATAAAATACTATT
1490071 ATTTTTAGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 27 0.39
49 41 0.59
50 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (48 bp):
TTTAATATTAAATTAATAAAATACTATTCAAATAAATATTAAATTAAA
Found at i:1498961 original size:17 final size:17
Alignment explanation
Indices: 1498940--1498979 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1498930 TATAAAATAG
*
1498940 AATTTA-TAATAATTAT
1 AATTTATTAAGAATTAT
1498956 ACATTTATTAAGAATTAT
1 A-ATTTATTAAGAATTAT
1498974 AATTTA
1 AATTTA
1498980 ATAGAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.48
18 10 0.48
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTATTAAGAATTAT
Found at i:1498984 original size:44 final size:44
Alignment explanation
Indices: 1498935--1499023 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
1498925 AAAACTATAA
* * *
1498935 AATAGAATTTATAATAATTATACATTTATTA-AGAATTATAATTT
1 AATAGAAATTATAATAATTACACATTTA-GACAGAATTATAATTT
* * *
1498979 AATAGAAATTGTGATAATTACACATTTAGACATAATTATAATTT
1 AATAGAAATTATAATAATTACACATTTAGACAGAATTATAATTT
1499023 A
1 A
1499024 TTTATATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (44 bp):
AATAGAAATTATAATAATTACACATTTAGACAGAATTATAATTT
Found at i:1500217 original size:26 final size:30
Alignment explanation
Indices: 1500178--1500252 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 30
1500168 ATTAATTAAT
*
1500178 TTTTTTAAAATTTAAAATA-TTTTTATA-A
1 TTTTTTAAATTTTAAAATATTTTTTATATA
1500206 -TTTTT-AATTTTAAAATATTTTTTATATA
1 TTTTTTAAATTTTAAAATATTTTTTATATA
*
1500234 TTTTTTGAATTTTTAAAAT
1 TTTTTT-AAATTTTAAAAT
1500253 TTTAAAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.28
27 13 0.32
28 1 0.03
29 5 0.12
31 10 0.25
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TTTTTTAAATTTTAAAATATTTTTTATATA
Found at i:1501652 original size:20 final size:19
Alignment explanation
Indices: 1501623--1501674 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1501613 AAACCCTTCT
* *
1501623 AAATTTTAAAAATTATTATA
1 AAATTATAAAAATTA-TAAA
*
1501643 AAATTATAAAATTTATAAA
1 AAATTATAAAAATTATAAA
1501662 AAAGTTATAAAAA
1 AAA-TTATAAAAA
1501675 GTTTACAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATTATAAAAATTATAAA
Found at i:1501677 original size:10 final size:9
Alignment explanation
Indices: 1501623--1501674 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
1501613 AAACCCTTCT
*
1501623 AAATTTTAA
1 AAATTATAA
1501632 AAATTATTATA
1 AAATTA-TA-A
1501643 AAATTATAA
1 AAATTATAA
*
1501652 AATTTATAAA
1 AAATTAT-AA
1501662 AAAGTTATAA
1 AAA-TTATAA
1501672 AAA
1 AAA
1501675 GTTTACAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 12 0.33
10 13 0.36
11 11 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
AAATTATAA
Found at i:1503917 original size:22 final size:21
Alignment explanation
Indices: 1503875--1503927 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1503865 AATATTAAAA
* *
1503875 ATATATT-TGATAATAATTTT
1 ATATATTATTATAATAAATTT
1503895 ATATATTATTATAATTAAATTT
1 ATATATTATTATAA-TAAATTT
* *
1503917 AAATAATATTA
1 ATATATTATTA
1503928 GTATACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.26
21 5 0.19
22 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATATTATTATAATAAATTT
Found at i:1521410 original size:15 final size:16
Alignment explanation
Indices: 1521390--1521419 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1521380 TTCTTACTCT
1521390 AAAATTA-ATAAAATC
1 AAAATTATATAAAATC
1521405 AAAATTATATAAAAT
1 AAAATTATATAAAAT
1521420 ATTGCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATTATATAAAATC
Found at i:1523471 original size:42 final size:40
Alignment explanation
Indices: 1523421--1523500 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
1523411 CATGAATGTA
* *
1523421 TTATTTAATAAGACTATATTATTATTTTATTATATTGTAAT
1 TTATTTAATAAGACTATAATATTATTTTAATA-ATTGTAAT
* *
1523462 TTATATTAATAATATTATAATATTATTTTAATAATTGTA
1 TTAT-TTAATAAGACTATAATATTATTTTAATAATTGTA
1523501 TGGTAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 10 0.29
42 24 0.71
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (40 bp):
TTATTTAATAAGACTATAATATTATTTTAATAATTGTAAT
Found at i:1524060 original size:15 final size:15
Alignment explanation
Indices: 1524040--1524071 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1524030 ATTGAGTAGA
1524040 AATAAAGTATGAATT
1 AATAAAGTATGAATT
1524055 AATAAAGTATGAATT
1 AATAAAGTATGAATT
1524070 AA
1 AA
1524072 GATAGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (15 bp):
AATAAAGTATGAATT
Found at i:1525382 original size:6 final size:6
Alignment explanation
Indices: 1525371--1525399 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1525361 ATGTGCCGAC
1525371 TACTGT TACTGT TACTGT TACTGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTG
1525400 ATTCGGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:1525427 original size:45 final size:45
Alignment explanation
Indices: 1525377--1525489 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
1525367 CGACTACTGT
*
1525377 TACTGTTACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
* ** *
1525422 TACTGTTACTGTTACCGTTGTTGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
* *
1525467 TATTGCTACTGTTACTGTTACTG
1 TACTGTTACTGTTACTGTTACTG
1525490 TTCCAGATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
Found at i:1525436 original size:51 final size:51
Alignment explanation
Indices: 1525344--1525491 Score: 159
Period size: 45 Copynumber: 3.0 Consensus size: 51
1525334 TTTTGCCGGC
* * *
1525344 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTGTTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACTG
*
1525394 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACCG-T--TG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACTG
* * * *
1525442 -T--TGATTCAGCACTTTGTGTGTTGAATATTGCTACTGTTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACTG
1525490 TT
1 TT
1525492 CCAGATTTGT
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
45 36 0.43
46 1 0.01
47 1 0.01
48 4 0.05
49 1 0.01
50 13 0.16
51 27 0.33
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (51 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACTG
Found at i:1525693 original size:18 final size:18
Alignment explanation
Indices: 1525670--1525839 Score: 164
Period size: 18 Copynumber: 9.4 Consensus size: 18
1525660 CTGATTATTT
1525670 CTGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
1525688 CCGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
* *
1525706 CTGGATAATAGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
1525724 CTGAATAACTGAATATTA
1 CTGAATAATTGACTGTTA
* * *
1525742 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
*
1525760 CTGAATAAATGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
1525778 CTGAATAACTTAATTGCTA
1 CTGAATAA-TTGACTGTTA
*
1525797 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
*
1525814 CTAAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
1525832 CTGGATAA
1 CTGAATAA
1525840 CCGATCAATT
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
17 12 0.10
18 98 0.80
19 12 0.10
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:1525900 original size:36 final size:36
Alignment explanation
Indices: 1525860--1525928 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
1525850 GATCAATACT
** * *
1525860 GAATAACTGGTTATTATTGAATAATTGATTGTTACC
1 GAATAACTGACTATTATTGAATAAATAATTGTTACC
*
1525896 GAATAACTGACTGTTATTGAATAAATAATTGTT
1 GAATAACTGACTATTATTGAATAAATAATTGTT
1525929 CTGATTGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (36 bp):
GAATAACTGACTATTATTGAATAAATAATTGTTACC
Found at i:1525917 original size:18 final size:18
Alignment explanation
Indices: 1525655--1525919 Score: 77
Period size: 18 Copynumber: 14.3 Consensus size: 18
1525645 AAAGGTATAA
*
1525655 AATAACTGATTATT-TCTG
1 AATAACTGATTGTTAT-TG
* * **
1525673 AATAATTGACTGTTACCG
1 AATAACTGATTGTTATTG
* * *
1525691 AATAATTGACTGTTACTG
1 AATAACTGATTGTTATTG
* * *
1525709 GATAA-TAGACTGTTACTG
1 AATAACT-GATTGTTATTG
* * *
1525727 AATAACTGAATATTACTG
1 AATAACTGATTGTTATTG
* *
1525745 AATAACTGATTGTCACTG
1 AATAACTGATTGTTATTG
* * *
1525763 AATAAATGACTGTTACTG
1 AATAACTGATTGTTATTG
* * *
1525781 AATAACTTAATTGCTACTG
1 AATAAC-TGATTGTTATTG
* * *
1525800 AATATCTGATT-TTACTA
1 AATAACTGATTGTTATTG
* * *
1525817 AATAATTGACTGTTACTG
1 AATAACTGATTGTTATTG
* * *
1525835 GATAACCGATCAATTGATCAATACTG
1 AATAA-C--T-GATTG-T---TATTG
* *
1525861 AATAACTGGTTATTATTG
1 AATAACTGATTGTTATTG
* **
1525879 AATAATTGATTGTTACCG
1 AATAACTGATTGTTATTG
*
1525897 AATAACTGACTGTTATTG
1 AATAACTGATTGTTATTG
1525915 AATAA
1 AATAA
1525920 ATAATTGTTC
Statistics
Matches: 188, Mismatches: 46, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
17 13 0.07
18 141 0.75
19 15 0.08
21 2 0.01
22 5 0.03
23 2 0.01
25 1 0.01
26 9 0.05
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTATTG
Found at i:1525928 original size:18 final size:18
Alignment explanation
Indices: 1525859--1525928 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 18
1525849 TGATCAATAC
* * *
1525859 TGAATAACTGGTTATTAT
1 TGAATAAATGATTGTTAT
* *
1525877 TGAATAATTGATTGTTAC
1 TGAATAAATGATTGTTAT
* * *
1525895 CGAATAACTGACTGTTAT
1 TGAATAAATGATTGTTAT
*
1525913 TGAATAAATAATTGTT
1 TGAATAAATGATTGTT
1525929 CTGATTGTTA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (18 bp):
TGAATAAATGATTGTTAT
Found at i:1527133 original size:5 final size:5
Alignment explanation
Indices: 1527125--1527173 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
1527115 AGTATATACT
*
1527125 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATGTG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
1527174 AACATTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:1533597 original size:3 final size:3
Alignment explanation
Indices: 1533589--1533620 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1533579 GGCAAGTAAC
*
1533589 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1533621 CCAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1536725 original size:21 final size:21
Alignment explanation
Indices: 1536699--1536772 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1536689 GGATCAACTC
1536699 TTATGAGCTTCTGTTCAGCTT
1 TTATGAGCTTCTGTTCAGCTT
*
1536720 TTATGAGCTTCTGTTAAGCTT
1 TTATGAGCTTCTGTTCAGCTT
*
1536741 TTATGAGCTTCTATTCA----
1 TTATGAGCTTCTGTTCAGCTT
1536758 TTATGAGCTTCTGTT
1 TTATGAGCTTCTGTT
1536773 AGTGTGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.29
21 35 0.71
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (21 bp):
TTATGAGCTTCTGTTCAGCTT
Found at i:1541378 original size:26 final size:26
Alignment explanation
Indices: 1541342--1541396 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
1541332 AGATATATAA
1541342 CATAGTTTCCAAAACAATCTAAGCAT
1 CATAGTTTCCAAAACAATCTAAGCAT
1541368 CATAGTTTCCAAAACAATCTAAGCAT
1 CATAGTTTCCAAAACAATCTAAGCAT
1541394 CAT
1 CAT
1541397 GGCCAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (26 bp):
CATAGTTTCCAAAACAATCTAAGCAT
Found at i:1552387 original size:5 final size:5
Alignment explanation
Indices: 1552377--1552402 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1552367 ATGAAATATA
1552377 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
1552403 TAACATATTT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:1552555 original size:23 final size:24
Alignment explanation
Indices: 1552524--1552594 Score: 90
Period size: 23 Copynumber: 2.9 Consensus size: 24
1552514 TTTTAAATAT
1552524 TAATAAATTTAAATTTAAATAAAA
1 TAATAAATTTAAATTTAAATAAAA
**
1552548 TAAT-AATTTAAAAATAAATAAAA
1 TAATAAATTTAAATTTAAATAAAA
*
1552571 TAATAAAATTACATATTTAAATAA
1 TAATAAATTTA-A-ATTTAAATAA
1552595 TACAATTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 21 0.54
24 9 0.23
25 1 0.03
26 8 0.21
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (24 bp):
TAATAAATTTAAATTTAAATAAAA
Found at i:1552568 original size:18 final size:17
Alignment explanation
Indices: 1552535--1552568 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1552525 AATAAATTTA
*
1552535 AATTTAAATAAAATAAT
1 AATTTAAAAAAAATAAT
1552552 AATTTAAAAATAAATAA
1 AATTTAAAAA-AAATAA
1552569 AATAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTTAAAAAAAATAAT
Found at i:1552577 original size:12 final size:12
Alignment explanation
Indices: 1552539--1552577 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1552529 AATTTAAATT
1552539 TAAATAAAATAA
1 TAAATAAAATAA
* *
1552551 TAATTTAAA-AA
1 TAAATAAAATAA
1552562 TAAATAAAATAA
1 TAAATAAAATAA
1552574 TAAA
1 TAAA
1552578 ATTACATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAATAAAATAA
Found at i:1552735 original size:28 final size:28
Alignment explanation
Indices: 1552681--1552738 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
1552671 GTCTTAATAA
***
1552681 TATATAAATATATTTTTTTATTAATTTT
1 TATATAAATATATTTAGATATTAATTTT
*
1552709 TATATAAATATAATTTAGATATTATTTTT
1 TATATAAATAT-ATTTAGATATTAATTTT
1552738 T
1 T
1552739 CGTTTCCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TATATAAATATATTTAGATATTAATTTT
Found at i:1553627 original size:24 final size:23
Alignment explanation
Indices: 1553594--1553658 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
1553584 GAGATTGAAA
* *
1553594 TTAAATTATATATTTTTATGATAG
1 TTAAAATATATATTTTTATCAT-G
*
1553618 TTAAAATATA-A-TTTTATCATT
1 TTAAAATATATATTTTTATCATG
*
1553639 TTAATAGTATATATTTTTAT
1 TTAA-AATATATATTTTTAT
1553659 AATTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.12
22 13 0.38
23 2 0.06
24 15 0.44
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TTAAAATATATATTTTTATCATG
Found at i:1564447 original size:185 final size:185
Alignment explanation
Indices: 1564135--1564511 Score: 754
Period size: 185 Copynumber: 2.0 Consensus size: 185
1564125 CTAAGGGAGA
1564135 AAATTTGACTGTTTAATATTTAGTCGGCAGGAACCTCTTTACCGTCCAACATTTGGAAATACTTC
1 AAATTTGACTGTTTAATATTTAGTCGGCAGGAACCTCTTTACCGTCCAACATTTGGAAATACTTC
1564200 ATCAGGATCACTGACCACACATTACAAAACCAAAGATTACGACACAAACCTTTATCACTACAAAC
66 ATCAGGATCACTGACCACACATTACAAAACCAAAGATTACGACACAAACCTTTATCACTACAAAC
1564265 TTTCAACTTCAAAAACTAAAACATGCTGAAACTCTGTATGTCACTAATTCCTCCT
131 TTTCAACTTCAAAAACTAAAACATGCTGAAACTCTGTATGTCACTAATTCCTCCT
1564320 AAATTTGACTGTTTAATATTTAGTCGGCAGGAACCTCTTTACCGTCCAACATTTGGAAATACTTC
1 AAATTTGACTGTTTAATATTTAGTCGGCAGGAACCTCTTTACCGTCCAACATTTGGAAATACTTC
1564385 ATCAGGATCACTGACCACACATTACAAAACCAAAGATTACGACACAAACCTTTATCACTACAAAC
66 ATCAGGATCACTGACCACACATTACAAAACCAAAGATTACGACACAAACCTTTATCACTACAAAC
1564450 TTTCAACTTCAAAAACTAAAACATGCTGAAACTCTGTATGTCACTAATTCCTCCT
131 TTTCAACTTCAAAAACTAAAACATGCTGAAACTCTGTATGTCACTAATTCCTCCT
1564505 AAATTTG
1 AAATTTG
1564512 CTATTATACC
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 192 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.29
Consensus pattern (185 bp):
AAATTTGACTGTTTAATATTTAGTCGGCAGGAACCTCTTTACCGTCCAACATTTGGAAATACTTC
ATCAGGATCACTGACCACACATTACAAAACCAAAGATTACGACACAAACCTTTATCACTACAAAC
TTTCAACTTCAAAAACTAAAACATGCTGAAACTCTGTATGTCACTAATTCCTCCT
Found at i:1570061 original size:49 final size:49
Alignment explanation
Indices: 1570007--1570106 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
1569997 ATCTTACATC
* * *
1570007 TAACTAAATTATTTGATAATGTATAAAATTATTATCAACTGTTTAAAGA
1 TAACTAAATTATTCGATAATGTATAAAACTATAATCAACTGTTTAAAGA
* *
1570056 TAACTAAATTATTCGGTAATGTATAAAACTATAATCAACTTTTTAAAGA
1 TAACTAAATTATTCGATAATGTATAAAACTATAATCAACTGTTTAAAGA
1570105 TA
1 TA
1570107 TAATCGATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (49 bp):
TAACTAAATTATTCGATAATGTATAAAACTATAATCAACTGTTTAAAGA
Found at i:1576824 original size:18 final size:18
Alignment explanation
Indices: 1576798--1576832 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1576788 GAATAACGAT
1576798 GACGACGACGAAGAAGAC
1 GACGACGACGAAGAAGAC
*
1576816 GACGCCGACGAAGAAGA
1 GACGACGACGAAGAAGA
1576833 AGAACAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.34, T:0.00
Consensus pattern (18 bp):
GACGACGACGAAGAAGAC
Done.