Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 20
Found at i:2198 original size:17 final size:17
Alignment explanation
Indices: 2176--2217 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
2166 CTTCTCCTTC
2176 TTCCCCATGATCGTGCT
1 TTCCCCATGATCGTGCT
*
2193 TTCCCCGTGATCGTGCT
1 TTCCCCATGATCGTGCT
2210 TTCCCCAT
1 TTCCCCAT
2218 AGCCAAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.10, C:0.38, G:0.17, T:0.36
Consensus pattern (17 bp):
TTCCCCATGATCGTGCT
Found at i:3221 original size:54 final size:54
Alignment explanation
Indices: 3154--3439 Score: 353
Period size: 54 Copynumber: 5.3 Consensus size: 54
3144 GAGTACTATT
* * *
3154 GGCACTAATTGTGCAACCCACAGAGTTCATAATATGTTTATGAATGACAGTATC
1 GGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACAGTATC
* *
3208 AGCACTAAGTGTGCAACCCAC-GAAATTCATAATATGTTTATGAACGACCGTATC
1 GGCACTAAGTGTGCAACCCACAG-AATTCATAATATGTTTATGAACGACAGTATC
* * *
3262 GGTACTAAGTGTGCAATACCACAGAATTCATAATATGTTTATGAACGACTGTATC
1 GGCACTAAGTGTGCAA-CCCACAGAATTCATAATATGTTTATGAACGACAGTATC
* * *
3317 GGCACTAACTATGCAACCCACAGAATTCTTAATATGTTTATGAACGATCA-TATC
1 GGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGA-CAGTATC
* * * * * *
3371 GGTACTATGTGTACAACCCAC-GAAATTCATAGTATGTTTATGAATGACCGTATC
1 GGCACTAAGTGTGCAACCCACAG-AATTCATAATATGTTTATGAACGACAGTATC
*
3425 GGCACTACGTGTGCA
1 GGCACTAAGTGTGCA
3440 CCTCAAAGAA
Statistics
Matches: 199, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.02
54 147 0.74
55 48 0.24
56 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (54 bp):
GGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACAGTATC
Found at i:3362 original size:109 final size:108
Alignment explanation
Indices: 3157--3431 Score: 374
Period size: 109 Copynumber: 2.5 Consensus size: 108
3147 TACTATTGGC
* * * * *
3157 ACTAATTGTGCAACCCACAGAGTTCATAATATGTTTATGAATGACAGTATCAGCACTAAGTGTGC
1 ACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAATGACAGTATCGGCACTAACTATGC
*
3222 AACCCACGAAATTCATAATATGTTTATGAACGACCGTATCGGT
66 AACCCACGAAATTCATAATATGTTTATGAACGACCATATCGGT
* * *
3265 ACTAAGTGTGCAATACCACAGAATTCATAATATGTTTATGAACGACTGTATCGGCACTAACTATG
1 ACTAAGTGTGCAA-CCCACAGAATTCATAATATGTTTATGAATGACAGTATCGGCACTAACTATG
* *
3330 CAACCCAC-AGAATTCTTAATATGTTTATGAACGATCATATCGGT
65 CAACCCACGA-AATTCATAATATGTTTATGAACGACCATATCGGT
* * * *
3374 ACTATGTGTACAACCCAC-GAAATTCATAGTATGTTTATGAATGACCGTATCGGCACTA
1 ACTAAGTGTGCAACCCACAG-AATTCATAATATGTTTATGAATGACAGTATCGGCACTA
3432 CGTGTGCACC
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 52 0.35
109 94 0.64
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (108 bp):
ACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAATGACAGTATCGGCACTAACTATGC
AACCCACGAAATTCATAATATGTTTATGAACGACCATATCGGT
Found at i:6257 original size:30 final size:30
Alignment explanation
Indices: 6193--6249 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
6183 AAAAATGGTA
*
6193 GAACCAGCTGAAAACCGGCAAAACCGGGGT
1 GAACCAGCTGAAAACCGGCAAAACCAGGGT
**
6223 GAACCAGCTGAAAATTGGCAAAACCAG
1 GAACCAGCTGAAAACCGGCAAAACCAG
6250 TTTGAACCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.25, G:0.26, T:0.09
Consensus pattern (30 bp):
GAACCAGCTGAAAACCGGCAAAACCAGGGT
Found at i:11014 original size:20 final size:20
Alignment explanation
Indices: 10989--11037 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
10979 ATTAAGGGGT
10989 ATCGATACCTGAAGAACAAA
1 ATCGATACCTGAAGAACAAA
11009 ATCGATACCTGAAGAACAAA
1 ATCGATACCTGAAGAACAAA
11029 ATCGATACC
1 ATCGATACC
11038 AAGGGTAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.16
Consensus pattern (20 bp):
ATCGATACCTGAAGAACAAA
Found at i:11506 original size:19 final size:18
Alignment explanation
Indices: 11482--11522 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
11472 GATATGAGTA
* *
11482 TATGTGTTATATGTTATGG
1 TATGTGTTACATGATAT-G
11501 TATGTGTTACATGATATG
1 TATGTGTTACATGATATG
11519 TATG
1 TATG
11523 AATACATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (18 bp):
TATGTGTTACATGATATG
Found at i:11587 original size:23 final size:23
Alignment explanation
Indices: 11538--11581 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11528 ATGTAAGTGT
11538 AATAAATCATGTGAATATATATA
1 AATAAATCATGTGAATATATATA
* * *
11561 AATAATTCTTGTGATTATATA
1 AATAAATCATGTGAATATATA
11582 AGAATATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (23 bp):
AATAAATCATGTGAATATATATA
Found at i:17664 original size:18 final size:18
Alignment explanation
Indices: 17641--17703 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
17631 AATTTGATAT
*
17641 GTGGTCCTTCAGGATATA
1 GTGGTCCTTCAGGACATA
*
17659 GTGGTCATTCAGGACATA
1 GTGGTCCTTCAGGACATA
*
17677 GTGG-CCATTTAGGACATA
1 GTGGTCC-TTCAGGACATA
17695 GTGGTCCTT
1 GTGGTCCTT
17704 TCGGACAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 1 0.03
18 36 0.92
19 2 0.05
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (18 bp):
GTGGTCCTTCAGGACATA
Found at i:23629 original size:30 final size:31
Alignment explanation
Indices: 23577--23636 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
23567 CAATTATTCA
* *
23577 TAACTTTTCCAAAATTTTCAAAATGGTCCCG
1 TAACTTTTCCAAAAATTACAAAATGGTCCCG
23608 TAACTTTT-CAAAAATTACAAAATGGTCCC
1 TAACTTTTCCAAAAATTACAAAATGGTCCC
23637 CAATTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (31 bp):
TAACTTTTCCAAAAATTACAAAATGGTCCCG
Found at i:23646 original size:30 final size:30
Alignment explanation
Indices: 23581--23644 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
23571 TATTCATAAC
* * * *
23581 TTTTCCAAAATTTTCAAAATGGTCCCGTAA
1 TTTTTCAAAAATTACAAAATGGTCCCGCAA
*
23611 CTTTTCAAAAATTACAAAATGGTCCC-CAA
1 TTTTTCAAAAATTACAAAATGGTCCCGCAA
23640 TTTTT
1 TTTTT
23645 TCTAATGCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (30 bp):
TTTTTCAAAAATTACAAAATGGTCCCGCAA
Found at i:24279 original size:22 final size:22
Alignment explanation
Indices: 24254--24304 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
24244 TTATCATCCT
24254 TTAAATTATCATTTAATGAATA
1 TTAAATTATCATTTAATGAATA
*
24276 TTAATTTATCATTTAATGAATA
1 TTAAATTATCATTTAATGAATA
24298 TTAAATT
1 TTAAATT
24305 CATTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
TTAAATTATCATTTAATGAATA
Found at i:26695 original size:8 final size:8
Alignment explanation
Indices: 26682--26712 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
26672 CTCTCATCTT
26682 TTTTTTTC
1 TTTTTTTC
26690 TTTTTTTC
1 TTTTTTTC
26698 TCTTTTTTC
1 T-TTTTTTC
26707 TTTTTT
1 TTTTTT
26713 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:26720 original size:17 final size:16
Alignment explanation
Indices: 26682--26724 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
26672 CTCTCATCTT
**
26682 TTTTTTTCTTTTTTTC
1 TTTTTTTCTTTTTTAA
26698 TCTTTTTTCTTTTTTAAA
1 T-TTTTTTCTTTTTT-AA
26716 TTTTTTTCT
1 TTTTTTTCT
26725 CTTATGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTTTTTTAA
Found at i:29910 original size:24 final size:24
Alignment explanation
Indices: 29883--29931 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
29873 AGTCTTCCAT
* *
29883 ATGATGTATAAAACATCTATGTAC
1 ATGATATATAAAACATCTACGTAC
29907 ATGATATATAAAACATCTACGTAC
1 ATGATATATAAAACATCTACGTAC
29931 A
1 A
29932 ATGTCATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (24 bp):
ATGATATATAAAACATCTACGTAC
Found at i:46175 original size:90 final size:90
Alignment explanation
Indices: 46068--46232 Score: 312
Period size: 90 Copynumber: 1.8 Consensus size: 90
46058 ATTTAATTTT
*
46068 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
46133 GGATATAAAATGATTATTAAATTCC
66 GGATATAAAATGATTATTAAATTCC
46158 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
*
46223 GGCTATAAAA
66 GGATATAAAA
46233 GGGTGTGTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACTT
GGATATAAAATGATTATTAAATTCC
Found at i:52943 original size:90 final size:89
Alignment explanation
Indices: 52833--53007 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 89
52823 TAATCCCGAA
* * * * * *
52833 TATTTAATTTTAATTAATTAAATATAGATTTAATTAATTTGAAATAA-TAAAATCCCTAATATGA
1 TATTAAATTTTAATTAATTAAATATAGAGTTAATTAA-TTAAAATAAGAAAAAT-CATAATACGA
52897 TTAGGGTAACTTGGATATAAAAGGAT
64 TTAGGGTAACTTGGATATAAAAGGAT
*
52923 TATTAAATTTTAATTAATTAAATATAGAGTTAATTAATTAAAATAAGAAAAATTATAATACGATT
1 TATTAAATTTTAATTAATTAAATATAGAGTTAATTAATTAAAATAAGAAAAATCATAATACGATT
*
52988 AGGGTAACTTGGTTATAAAA
66 AGGGTAACTTGGATATAAAA
53008 TGGTGTGTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
89 36 0.47
90 40 0.53
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (89 bp):
TATTAAATTTTAATTAATTAAATATAGAGTTAATTAATTAAAATAAGAAAAATCATAATACGATT
AGGGTAACTTGGATATAAAAGGAT
Found at i:59597 original size:41 final size:41
Alignment explanation
Indices: 59513--59692 Score: 182
Period size: 41 Copynumber: 4.4 Consensus size: 41
59503 ACCATAGTAT
** * * * * * *
59513 AATTGAATTGGTTTGTGAATAAATGCATGTTTCCAAGACCG
1 AATTGAATTGAATTGTGAATTATTGCATGCTGCCATGATCG
* * * *
59554 AATTGAATTAAATTATGGATTATTGCATGCTACCATGATCG
1 AATTGAATTGAATTGTGAATTATTGCATGCTGCCATGATCG
* *
59595 AATT-AAGTTGAATTGTGAATTATTGTATGCTGCCATGATTG
1 AATTGAA-TTGAATTGTGAATTATTGCATGCTGCCATGATCG
* * *
59636 AATTGAATCGAATTGTGAATTATTGCATGCTGCTATGATTG
1 AATTGAATTGAATTGTGAATTATTGCATGCTGCCATGATCG
*
59677 AATTGAATAGAATTGT
1 AATTGAATTGAATTGT
59693 AAAGATATAA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 2 0.02
41 112 0.97
42 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (41 bp):
AATTGAATTGAATTGTGAATTATTGCATGCTGCCATGATCG
Found at i:70453 original size:45 final size:45
Alignment explanation
Indices: 70389--70519 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
70379 TCTCATTATG
* * *
70389 TTGGAGCTATTACCAGCATTACCCATCTTATTCCCTAAGAGTATA
1 TTGGAACTATTACCAGCATTACCCAACTTATTCCCTAAGACTATA
* ** ** * *
70434 TTGGAACTCTTATTAGCATTACCCAACTTATAACTTAAGACTATG
1 TTGGAACTATTACCAGCATTACCCAACTTATTCCCTAAGACTATA
**
70479 TTGGAGTTATTACCAGCATTACCCAACTTATTCCCTAAGAC
1 TTGGAACTATTACCAGCATTACCCAACTTATTCCCTAAGAC
70520 CTTTTTTAAT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (45 bp):
TTGGAACTATTACCAGCATTACCCAACTTATTCCCTAAGACTATA
Found at i:71584 original size:19 final size:19
Alignment explanation
Indices: 71560--71605 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
71550 ACTATAGCCA
71560 GCATCAAGCATGGCTAGCT
1 GCATCAAGCATGGCTAGCT
71579 GCATCAAGCATGGCTAGCT
1 GCATCAAGCATGGCTAGCT
71598 GCATCAAG
1 GCATCAAG
71606 TCATCCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (19 bp):
GCATCAAGCATGGCTAGCT
Found at i:72493 original size:21 final size:20
Alignment explanation
Indices: 72467--72509 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
72457 AGAATGATCG
*
72467 AAATAA-AAACATACATGTAAA
1 AAATAACAAAAATA-ATG-AAA
72488 AAATAACAAAAATAATGAAA
1 AAATAACAAAAATAATGAAA
72508 AA
1 AA
72510 TAAGGAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (20 bp):
AAATAACAAAAATAATGAAA
Found at i:81653 original size:19 final size:20
Alignment explanation
Indices: 81616--81653 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
81606 AATAACATAA
*
81616 AAAGTATAAGATCAGTGACT
1 AAAGTATAAGATAAGTGACT
81636 AAAGTATAA-ATAAGTGAC
1 AAAGTATAAGATAAGTGAC
81654 AAAATTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAGTATAAGATAAGTGACT
Found at i:85374 original size:55 final size:55
Alignment explanation
Indices: 85296--85950 Score: 653
Period size: 55 Copynumber: 11.9 Consensus size: 55
85286 GTAGTCAGAT
*
85296 AAAT-TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATGAA-ACTAGAA
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGAT-AAGACTAGAA
* * * * *
85350 AAATCTATGGAAGATAAGTATGCTCCACTCTACTTTCAGGGAGATAAGACTTGAA
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
* * *
85405 AAATATTTGGAAGATGGGTCTGCTCGACTCTTCTTTCAGGGAGATAAGACTCA-AA
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACT-AGAA
* * * *
85460 AAATCTTTGGAAGAAAGCTATGATCCACTCTTCTTTCAGGGAGATAAGACTCA-AA
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACT-AGAA
* * * * * *
85515 AATTCTTTGAAAGGT-GGGCATGCTCCACTCTTCTTTCAGGGAGATAAGCCTCGAA
1 AAATCTTTGGAAGATAGGTC-TGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
* * * * * * *
85570 AAATATTTGGAAGA-CGAGCCTACTCCACTATTCTTTCCGGGAGATTTAGACTCA-AA
1 AAATCTTTGGAAGATAG-GTCTGCTCCACTCTTCTTTCAGGGAGA-TAAGACT-AGAA
* * * ** * *
85626 AATTCTTTGTAAGA-AGGGTCTGCTCCACTCTTCTTTGAAAGATATAAGACTCGAA
1 AAATCTTTGGAAGATA-GGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
* ** ** * *
85681 AAATCTTTGTAAGACGGGTCTGCTCCACTCTTCTTTCAATGAGATAAGACTCGAT
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
* * *
85736 AAATCTTTGGAAGATAGGTCTGCTCCACTTTTCTTTTAGGGAGATAAGAC-AAAA
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
* * ** * *
85790 AAATCTTTGGTAGACAAATCTTCTCCACTCTTCTTTCAGGGAGATAAGACTCGAA
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
* * * * *
85845 AAATATTTGGAAGATAGGTGTGCTCCACTTTTCTTTTAGGGAGATAAGACTAAAA
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
* * * *
85900 AAATATTTAGAAGGTGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACT
1 AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACT
85951 CGAATGTGAT
Statistics
Matches: 490, Mismatches: 98, Indels: 25
0.80 0.16 0.04
Matches are distributed among these distances:
54 51 0.10
55 399 0.81
56 39 0.08
57 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (55 bp):
AAATCTTTGGAAGATAGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTAGAA
Found at i:86759 original size:45 final size:45
Alignment explanation
Indices: 86710--86944 Score: 188
Period size: 45 Copynumber: 5.2 Consensus size: 45
86700 CACAATACAG
* * * *
86710 AAAGATTGATTTCTCTTTACCAGAAAGT-AAAGAATGATAGCACTA
1 AAAGATTGACTCCTCTTCACCAGAAAGTCAAA-AATGACAGCACTA
* *
86755 AAAGATTGACTCCTCTTCACGAGAAAGTCAAAAATGACATCACTA
1 AAAGATTGACTCCTCTTCACCAGAAAGTCAAAAATGACAGCACTA
* * * * ** *
86800 AAAGATTGACTCATCTTCTCGAGAAAGTCAATGAA-GACAAAACTG
1 AAAGATTGACTCCTCTTCACCAGAAAGTCAA-AAATGACAGCACTA
* * * * * ** *
86845 AAAGATTTACTTCTCTCCACGAGAAAGTCAAGAACAACACCACTA
1 AAAGATTGACTCCTCTTCACCAGAAAGTCAAAAATGACAGCACTA
* * * * * *
86890 AAAGGTTGACTTCTTTTCACGAGAAAGTCAATAATGACATCACT-
1 AAAGATTGACTCCTCTTCACCAGAAAGTCAAAAATGACAGCACTA
86934 AAAGATTGACT
1 AAAGATTGACT
86945 ATTCCTTCAA
Statistics
Matches: 157, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
44 13 0.08
45 139 0.89
46 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (45 bp):
AAAGATTGACTCCTCTTCACCAGAAAGTCAAAAATGACAGCACTA
Found at i:86807 original size:90 final size:88
Alignment explanation
Indices: 86673--86944 Score: 239
Period size: 90 Copynumber: 3.0 Consensus size: 88
86663 AGACAGGTTA
* * *
86673 ACTCATCTACACGAGAAAGTCAAGAATCACAAT-AC-AGAAAGATTGATTTCTCTTTACCAGAAA
1 ACTCCTCTACACGAGAAAGTCAAGAATAAC-ATCACTA-AAAGATTGA-TTCTCTTTACGAGAAA
* *
86736 GTAAAGAATGATAGCACTAAAAGATTG
63 GTAAAGAATGACAACACT-AAAGATTG
* * * *
86763 ACTCCTCTTCACGAGAAAGTCAAAAATGACATCACTAAAAGATTGACTCATCTTCT-CGAGAAAG
1 ACTCCTCTACACGAGAAAGTCAAGAATAACATCACTAAAAGATTGATTC-TCTT-TACGAGAAAG
* * *
86827 TCAATGAA-GACAAAACTGAAAGATTT
64 T-AAAGAATGACAACACT-AAAGATTG
* * * * *
86853 ACTTCTCTCCACGAGAAAGTCAAGAACAACACCACTAAAAGGTTGACTTCT-TTTCACGAGAAAG
1 ACTCCTCTACACGAGAAAGTCAAGAATAACATCACTAAAAGATTGA-TTCTCTTT-ACGAGAAAG
* * *
86917 TCAATAATGACATCACTAAAGATTG
64 TAAAGAATGACAACACTAAAGATTG
86942 ACT
1 ACT
86945 ATTCCTTCAA
Statistics
Matches: 147, Mismatches: 26, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
88 1 0.01
89 19 0.13
90 118 0.80
91 9 0.06
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.24
Consensus pattern (88 bp):
ACTCCTCTACACGAGAAAGTCAAGAATAACATCACTAAAAGATTGATTCTCTTTACGAGAAAGTA
AAGAATGACAACACTAAAGATTG
Found at i:86915 original size:135 final size:134
Alignment explanation
Indices: 86673--86944 Score: 348
Period size: 135 Copynumber: 2.0 Consensus size: 134
86663 AGACAGGTTA
* * **
86673 ACTCATCTACACGAGAAAGTCAAGAATCACAATACAGAAAGATTGATTTCTCTTTACCAGAAAGT
1 ACTCATCTACACGAGAAAGTCAAGAATCACAAAACAGAAAGATTGACTTCTCTCCACCAGAAAGT
** * *
86738 AAAGAATGATAGCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAAAATGACATCACTAAAA
66 AAAGAACAACACCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAAAATGACATCACT-AAA
86803 GATTG
130 GATTG
* * * * * *
86808 ACTCATCTTCTCGAGAAAGTCAATGAA-GACAAAACTGAAAGATTTACTTCTCTCCACGAGAAAG
1 ACTCATCTACACGAGAAAGTCAA-GAATCACAAAACAGAAAGATTGACTTCTCTCCACCAGAAAG
* * * * *
86872 TCAAGAACAACACCACTAAAAGGTTGACTTCTTTTCACGAGAAAGTCAATAATGACATCACTAAA
65 TAAAGAACAACACCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAAAATGACATCACTAAA
86937 GATTG
130 GATTG
86942 ACT
1 ACT
86945 ATTCCTTCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
134 11 0.09
135 103 0.88
136 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.24
Consensus pattern (134 bp):
ACTCATCTACACGAGAAAGTCAAGAATCACAAAACAGAAAGATTGACTTCTCTCCACCAGAAAGT
AAAGAACAACACCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAAAATGACATCACTAAAG
ATTG
Found at i:98815 original size:18 final size:19
Alignment explanation
Indices: 98794--98837 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
98784 AGTTGTTTTA
*
98794 AAATAAAAG-ATAATAATT
1 AAATAAAAGAAAAATAATT
98812 AAATAAAAGAAAAATAATT
1 AAATAAAAGAAAAATAATT
98831 AAATAAA
1 AAATAAA
98838 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAATAAAAGAAAAATAATT
Found at i:98837 original size:23 final size:23
Alignment explanation
Indices: 98792--98837 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
98782 AAAGTTGTTT
* *
98792 TAAAATAAAAGATAATAATTAAA
1 TAAAAGAAAAGATAATAAATAAA
98815 TAAAAGAAAA-ATAATTAAATAAA
1 TAAAAGAAAAGATAA-TAAATAAA
98838 CAAATTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (23 bp):
TAAAAGAAAAGATAATAAATAAA
Found at i:99258 original size:12 final size:12
Alignment explanation
Indices: 99243--99272 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99233 AAAAGTATGC
99243 GAAAAATAGAGA
1 GAAAAATAGAGA
*
99255 GAAAACTAGAGA
1 GAAAAATAGAGA
99267 GAAAAA
1 GAAAAA
99273 GAATACTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:101033 original size:5 final size:5
Alignment explanation
Indices: 101023--101092 Score: 50
Period size: 5 Copynumber: 13.0 Consensus size: 5
101013 TGTTTAGAGA
*** *
101023 AAAAT AAAAT AAAAT AAAGCAT CTGAT AAAAT AAAAT AAAATAT AAAAA
1 AAAAT AAAAT AAAAT AAA--AT AAAAT AAAAT AAAAT -AAA-AT AAAAT
*
101072 AAAAT GAAAAT AAAAT GAAAT
1 AAAAT -AAAAT AAAAT AAAAT
101093 GGGTTGCCTC
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
5 36 0.71
6 11 0.22
7 4 0.08
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:101088 original size:11 final size:11
Alignment explanation
Indices: 101048--101091 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
101038 AAAGCATCTG
101048 ATAAAAT-AAA
1 ATAAAATGAAA
*
101058 ATAAAATATAAA
1 ATAAAAT-GAAA
*
101070 AAAAAATGAAA
1 ATAAAATGAAA
101081 ATAAAATGAAA
1 ATAAAATGAAA
101092 TGGGTTGCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 7 0.24
11 13 0.45
12 9 0.31
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (11 bp):
ATAAAATGAAA
Found at i:106822 original size:77 final size:79
Alignment explanation
Indices: 106694--106838 Score: 188
Period size: 77 Copynumber: 1.9 Consensus size: 79
106684 GTATAGTAAG
** *
106694 TAAACATTAAAAGAATGCAATTCTTATTACAACTCTTTTAATGGATATTTAATTCAGAA-TAATT
1 TAAACATTAAAAGAATGCAATTCAGATTACAACTCTTTTAAGGGATATTTAATTCA-AATTAATT
106758 AAATAAGAGTTTAAA
65 AAATAAGAGTTTAAA
* * * * *
106773 TAAACATT-AAAGAGTGTAATTCAGATTATAAGTC-TTTAAGGGATATTTAATTTAAATTAATTA
1 TAAACATTAAAAGAATGCAATTCAGATTACAACTCTTTTAAGGGATATTTAATTCAAATTAATTA
106836 AAT
66 AAT
106839 TAATTAATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
76 2 0.04
77 27 0.47
78 20 0.35
79 8 0.14
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (79 bp):
TAAACATTAAAAGAATGCAATTCAGATTACAACTCTTTTAAGGGATATTTAATTCAAATTAATTA
AATAAGAGTTTAAA
Found at i:107333 original size:16 final size:15
Alignment explanation
Indices: 107303--107350 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
107293 TTGGTTAACC
107303 ATTAAGGTAAATTAT
1 ATTAAGGTAAATTAT
*
107318 ATTAATGGTCAATTAT
1 ATTAA-GGTAAATTAT
107334 ATTTAA-GTAAATT-T
1 A-TTAAGGTAAATTAT
107348 ATT
1 ATT
107351 TTTGATCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 11 0.38
16 10 0.34
17 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (15 bp):
ATTAAGGTAAATTAT
Found at i:109047 original size:73 final size:63
Alignment explanation
Indices: 108875--109053 Score: 198
Period size: 63 Copynumber: 2.7 Consensus size: 63
108865 TAAAACATCT
* * *
108875 TAAATCCTAATTAAAACACTTAAAAC-TATTTAAACTAAAATACCTAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACTTATTTAAACTAAAATACCTAAAAAAAATAAAATATAC
* *
108938 TAAATCCTAATTAAAACACTAAAACTTATTTCAACTAAATTACCTAAAACAAAGATAAAATATAC
1 TAAATCCTAATTAAAACACTAAAACTTATTTAAACTAAAATACCTAAAA-AAA-ATAAAATATAC
*
109003 AAATAATATCCTAAAACTTAAAATACTAAAAACTTATTTAAACTAAAATAC
1 ---TAA-ATCCT--AA-TTAAAACACT-AAAACTTATTTAAACTAAAATAC
109054 ATAGATAAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
62 6 0.06
63 40 0.41
64 2 0.02
65 9 0.09
68 3 0.03
69 5 0.05
71 2 0.02
72 9 0.09
73 21 0.22
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.30
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACTTATTTAAACTAAAATACCTAAAAAAAATAAAATATAC
Found at i:111233 original size:21 final size:21
Alignment explanation
Indices: 111207--111268 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
111197 AAAATTATAA
111207 AGGAAGTACTGATACTCCCTT
1 AGGAAGTACTGATACTCCCTT
111228 AGGAAGTACTGATACTCCCTT
1 AGGAAGTACTGATACTCCCTT
* *
111249 AGGCAGTACTAATACTCCCT
1 AGGAAGTACTGATACTCCCT
111269 GTTTTAGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (21 bp):
AGGAAGTACTGATACTCCCTT
Found at i:119899 original size:25 final size:25
Alignment explanation
Indices: 119871--119933 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
119861 GAGTGTTGTT
119871 GAGTTTGACTCGAAAATTTTAAAAA
1 GAGTTTGACTCGAAAATTTTAAAAA
*
119896 GAGTTTGACTCGAAAATTTTGAAAA
1 GAGTTTGACTCGAAAATTTTAAAAA
* *
119921 GGGCTTGACTCGA
1 GAGTTTGACTCGA
119934 CTCAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (25 bp):
GAGTTTGACTCGAAAATTTTAAAAA
Found at i:120438 original size:32 final size:32
Alignment explanation
Indices: 120401--120464 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
120391 AATCACCTTA
120401 AAGGTTCTTGAACTTCTCATATTTCAAAAAAG
1 AAGGTTCTTGAACTTCTCATATTTCAAAAAAG
*
120433 AAGGTTCTTGAACTTCTCATATTTCGAAAAAG
1 AAGGTTCTTGAACTTCTCATATTTCAAAAAAG
120465 GATTGAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (32 bp):
AAGGTTCTTGAACTTCTCATATTTCAAAAAAG
Found at i:124877 original size:19 final size:21
Alignment explanation
Indices: 124835--124892 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
124825 GAAAACTAGT
* * *
124835 AGAAGAGAGTATTTTTTAAGG
1 AGAAGAAAATATTTTTCAAGG
124856 AG-AGAAAATATTTTTCAA-G
1 AGAAGAAAATATTTTTCAAGG
*
124875 AGAAGAAAAT-TTCTTCAA
1 AGAAGAAAATATTTTTCAA
124893 TTCTGAGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.31
20 20 0.62
21 2 0.06
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (21 bp):
AGAAGAAAATATTTTTCAAGG
Found at i:125017 original size:21 final size:21
Alignment explanation
Indices: 124993--125059 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
124983 AATATTCAAC
*
124993 TTTAAACAGATAATACTATCT
1 TTTAAATAGATAATACTATCT
* * * *
125014 TTTAATTTGA-AATATTCAAC-
1 TTTAAATAGATAATACT-ATCT
125034 TTTAAATAGATAATACTATCT
1 TTTAAATAGATAATACTATCT
125055 TTTAA
1 TTTAA
125060 TTTGAAATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.43
Consensus pattern (21 bp):
TTTAAATAGATAATACTATCT
Found at i:125027 original size:20 final size:20
Alignment explanation
Indices: 125004--125068 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
124994 TTAAACAGAT
125004 AATACTATCTTTTAATTTGA
1 AATACTATCTTTTAATTTGA
* * * *
125024 AATATTCAAC-TTTAAATAGA
1 AATACT-ATCTTTTAATTTGA
125044 TAATACTATCTTTTAATTTGA
1 -AATACTATCTTTTAATTTGA
125065 AATA
1 AATA
125069 TTCAAAAGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.45
Consensus pattern (20 bp):
AATACTATCTTTTAATTTGA
Found at i:125045 original size:41 final size:41
Alignment explanation
Indices: 124983--125073 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
124973 AATATCTTTT
124983 AATATTCAACTTTAAACAGATAATACTATCTTTTAATTTGA
1 AATATTCAACTTTAAACAGATAATACTATCTTTTAATTTGA
*
125024 AATATTCAACTTTAAATAGATAATACTATCTTTTAATTTGA
1 AATATTCAACTTTAAACAGATAATACTATCTTTTAATTTGA
125065 AATATTCAA
1 AATATTCAA
125074 AAGATAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (41 bp):
AATATTCAACTTTAAACAGATAATACTATCTTTTAATTTGA
Found at i:127704 original size:41 final size:41
Alignment explanation
Indices: 127636--127815 Score: 173
Period size: 41 Copynumber: 4.4 Consensus size: 41
127626 ACCATAGTAT
** * * * * *
127636 AATTGAATTGGTTTGTGAATAAATGCATGTTTCCATGACCG
1 AATTGAATTGAATTGTGAATTATTGCATGCTACCATGATCG
* * * *
127677 AATTGAATTAAATTATGGATTATTGCATGCTACTATGATCG
1 AATTGAATTGAATTGTGAATTATTGCATGCTACCATGATCG
* * *
127718 AATT-AAGTTGAATTGTGAATTATTGTATGCTGCCATGATTG
1 AATTGAA-TTGAATTGTGAATTATTGCATGCTACCATGATCG
* * * *
127759 AATTGAATCGAATTGTGAATTATTGCATGCTGCTATGATTG
1 AATTGAATTGAATTGTGAATTATTGCATGCTACCATGATCG
*
127800 AATTGAATAGAATTGT
1 AATTGAATTGAATTGT
127816 AAAGATATAA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
40 2 0.02
41 111 0.97
42 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (41 bp):
AATTGAATTGAATTGTGAATTATTGCATGCTACCATGATCG
Found at i:131124 original size:67 final size:65
Alignment explanation
Indices: 131008--131190 Score: 219
Period size: 65 Copynumber: 2.8 Consensus size: 65
130998 AAGATATCTG
* * **
131008 TTGTTTCATGA-AAA-TGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGA
1 TTGTTTCAAGAGAAACT-GTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA
131071 TTT
64 -TT
*
131074 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
131139 T
65 T
* * * *
131140 TTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACA-AAATTTGTTTTAAGGGAAA
131191 CTGTCTCAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
64 1 0.01
65 43 0.42
66 4 0.04
67 34 0.33
68 20 0.19
69 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:131179 original size:65 final size:67
Alignment explanation
Indices: 130955--131190 Score: 216
Period size: 65 Copynumber: 3.5 Consensus size: 67
130945 CATATGAAGT
* * * * * * *
130955 TGTCTCGAA-AGAGATAGAATTCGTTTCAAGGGAAAT-GATCTCAAAGATATCTGTTGTTTCATG
1 TGTCTC-AAGAGAGACAAAATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-TTTG-TGTTTCAAG
131018 A-AAA-
62 AGAAAC
* * **
131022 TGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAG
1 T-GTCTCAAGAGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAG
131087 AAAC
64 AAAC
* * *
131091 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGGGAA
1 TGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAA
131154 AC
66 AC
* *
131156 TGTCTCAAGAGAGA-AGAAATTTGTTTCAAGAGAAA
1 TGTCTCAAGAGAGACA-AAATTTGTTTTAAGGGAAA
131191 CTGTCTCAAG
Statistics
Matches: 142, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
64 1 0.01
65 43 0.30
66 3 0.02
67 37 0.26
68 34 0.24
69 22 0.15
70 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (67 bp):
TGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAA
AC
Found at i:131184 original size:21 final size:21
Alignment explanation
Indices: 131160--131224 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
131150 GGAAACTGTC
131160 TCAAGAGAGAAGAAATTTGTT
1 TCAAGAGAGAAGAAATTTGTT
* *
131181 TC---A-AG-AGAAA-CTGTC
1 TCAAGAGAGAAGAAATTTGTT
131196 TCAAGAGAGAAGAAATTTGTT
1 TCAAGAGAGAAGAAATTTGTT
131217 TCAAGAGA
1 TCAAGAGA
131225 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 2 0.06
18 2 0.06
19 2 0.06
20 5 0.15
21 13 0.38
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGAAGAAATTTGTT
Found at i:131189 original size:19 final size:19
Alignment explanation
Indices: 131165--131225 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
131155 CTGTCTCAAG
131165 AGAGAAGAAATTTGTTTC-
1 AGAGAAGAAATTTGTTTCA
* *
131183 A-AG-AGAAA-CTGTCTCAA
1 AGAGAAGAAATTTGTTTC-A
131200 GAGAGAAGAAATTTGTTTCA
1 -AGAGAAGAAATTTGTTTCA
131220 AGAGAA
1 AGAGAA
131226 ACTGTCTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 2 0.06
18 2 0.06
19 8 0.24
20 6 0.18
21 5 0.15
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (19 bp):
AGAGAAGAAATTTGTTTCA
Found at i:131191 original size:36 final size:35
Alignment explanation
Indices: 131139--131502 Score: 283
Period size: 36 Copynumber: 10.5 Consensus size: 35
131129 ATTCAAAGAT
131139 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAA-AAA
*
131175 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAA-AAA
*
131211 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAA
* * ** * * * *
131247 CTTAGTTCCAAAAGAAATTGGCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAA
*** * *
131284 TTTGTTTCAAATAAAACATAT-TC-----A-AATAA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGAAAAA
131313 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAA
*
131349 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAA
* * * *
131385 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGAAAAA
*
131413 TTATGTTTCAAGAGG-AACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAG-GGAAACTGTCTCAAGAGAGA-AAAA
*
131450 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AAAA
*
131487 TTCGTTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
131503 TGTTTTCAAT
Statistics
Matches: 267, Mismatches: 36, Indels: 50
0.76 0.10 0.14
Matches are distributed among these distances:
28 4 0.01
29 31 0.12
30 6 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 4 0.01
36 156 0.58
37 59 0.22
38 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (35 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAA
Found at i:131287 original size:174 final size:174
Alignment explanation
Indices: 131085--131400 Score: 454
Period size: 174 Copynumber: 1.8 Consensus size: 174
131075 GTGTTTCAAG
* * ** * * *
131085 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGGCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
131150 GGAAACTGTCTCAAGAGAGA-AGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAGAAATTT
66 GGAAACTGTCTCAAGAGAGACA-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAGAAATTT
*
131214 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
130 ATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
* ** * * *
131259 AGAAATTGGCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGGCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* **
131324 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAATTTA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAGAAATTTA
*
131389 TTTCAAGGGAAA
131 TTTCAAGAGAAA
131401 TGTTTTCAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
174 122 0.99
175 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.27
Consensus pattern (174 bp):
AGAAACTGGCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAGAAATTTA
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
Found at i:131293 original size:73 final size:72
Alignment explanation
Indices: 131139--131293 Score: 213
Period size: 73 Copynumber: 2.1 Consensus size: 72
131129 ATTCAAAGAT
* * * * *
131139 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAGAAATTAGTTCCAAAAGAAACTGGCTCAAGAGA
131204 GAAGAAA
66 GAAGAAA
* *
131211 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA-AAACTTAGTTCCAAAAGAAATTGGCTCAAGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGA-AGAAA-TTAGTTCCAAAAGAAACTGGCTCAAGA
*
131275 GAGATGAAA
64 GAGAAGAAA
131284 TTTGTTTCAA
1 TTTGTTTCAA
131294 ATAAAACATA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
72 33 0.45
73 40 0.55
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (72 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAGAAATTAGTTCCAAAAGAAACTGGCTCAAGAGA
GAAGAAA
Found at i:131495 original size:102 final size:102
Alignment explanation
Indices: 131315--131578 Score: 433
Period size: 102 Copynumber: 2.6 Consensus size: 102
131305 TCAAATAATT
* *
131315 TGTTTCAAG-GGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TGTTTCAAGAGG-AACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
* *
131378 GACTAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
65 GACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
131416 TGTTTCAAGAGGAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGGAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
131481 ACAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * *
131518 TGTTTCAAGAGAAACTGTATCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAAG
1 TGTTTCAAGAGGAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAG
131579 CGAGGTAAAA
Statistics
Matches: 153, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
101 30 0.20
102 123 0.80
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (102 bp):
TGTTTCAAGAGGAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:131661 original size:19 final size:19
Alignment explanation
Indices: 131616--131653 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
131606 ATCTTGAGTG
131616 AAATGAAATGCCTTCTTTC
1 AAATGAAATGCCTTCTTTC
131635 AAATGAAATGCCTTCTTTC
1 AAATGAAATGCCTTCTTTC
131654 TAGTGAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
AAATGAAATGCCTTCTTTC
Found at i:133176 original size:69 final size:69
Alignment explanation
Indices: 133061--133198 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
133051 TGTCTCTCTC
*
133061 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
133126 TCAT
66 TCAT
* *
133130 TTGATGCTCTATGATCTTTGAGTGAAGTGGTTCAGTGATT-AGGAAATGATTGTGCTTGATCAAT
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCA-GAAATGATTGTGCTTGATCAAT
133194 CTCAT
65 CTCAT
133199 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 1 0.02
69 64 0.98
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:133310 original size:14 final size:12
Alignment explanation
Indices: 133277--133318 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 12
133267 TCAATTTTCC
133277 TTTTTTTCTCTT
1 TTTTTTTCTCTT
133289 TTTATTTTCTCTT
1 TTT-TTTTCTCTT
133302 TGCTTTTTTCTCTT
1 T--TTTTTTCTCTT
133316 TTT
1 TTT
133319 GTTCTGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
14 10 0.37
15 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:134565 original size:7 final size:7
Alignment explanation
Indices: 134553--134596 Score: 79
Period size: 7 Copynumber: 6.1 Consensus size: 7
134543 ATGTAGATGT
134553 AAAATGC
1 AAAATGC
134560 AAAATGC
1 AAAATGC
134567 AAAATGC
1 AAAATGC
134574 AAAATGC
1 AAAATGC
134581 AAAATGC
1 AAAATGC
134588 AAAAATGC
1 -AAAATGC
134596 A
1 A
134597 TGAAATGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAATGC
Found at i:136555 original size:18 final size:18
Alignment explanation
Indices: 136534--136580 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
136524 TATTAATAGA
136534 GTAAAAAAAATAAAAAAG
1 GTAAAAAAAATAAAAAAG
* *
136552 GTAAAAGAAATTAAAAAG
1 GTAAAAAAAATAAAAAAG
*
136570 G-AATAAAAATA
1 GTAAAAAAAATA
136581 GTGTGTACAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAG
Found at i:136684 original size:36 final size:36
Alignment explanation
Indices: 136607--136690 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 36
136597 TAGTATTTAC
*
136607 TAAAACAAATAAAAATAATAAATATATAATACTAAG
1 TAAAACAAATAAAAATAATAAATACATAATACTAAG
* * *
136643 TAAAACAAATAAAAATAA-AGATTTACATGATATTAAG
1 TAAAACAAATAAAAATAATA-A-ATACATAATACTAAG
136680 -AAAACAAATAA
1 TAAAACAAATAA
136691 TAGAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 1 0.02
36 30 0.71
37 11 0.26
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.24
Consensus pattern (36 bp):
TAAAACAAATAAAAATAATAAATACATAATACTAAG
Found at i:136715 original size:17 final size:18
Alignment explanation
Indices: 136685--136727 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
136675 TTAAGAAAAC
136685 AAATAATAGAAAAAAATA
1 AAATAATAGAAAAAAATA
* *
136703 AAATAA-AGTAAAATATA
1 AAATAATAGAAAAAAATA
*
136720 ATATAATA
1 AAATAATA
136728 TATATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAATAGAAAAAAATA
Found at i:136773 original size:2 final size:2
Alignment explanation
Indices: 136766--136823 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
136756 AATATTAAGA
136766 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
136808 AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
136824 ACGTATAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:136830 original size:11 final size:11
Alignment explanation
Indices: 136768--136830 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
136758 TATTAAGAAT
*
136768 ATATATATATAT
1 ATATATATA-AC
*
136780 ATATATATATAT
1 ATATATATA-AC
*
136792 ATATATATATAT
1 ATATATATA-AC
*
136804 ATATATATAAT
1 ATATATATAAC
136815 ATATATATAAC
1 ATATATATAAC
*
136826 GTATA
1 ATATA
136831 AAATATAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
11 16 0.33
12 33 0.67
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (11 bp):
ATATATATAAC
Found at i:138906 original size:24 final size:22
Alignment explanation
Indices: 138879--138947 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 22
138869 TTATGCATGC
138879 TTATTTTATTTTTATTTTTTTA
1 TTATTTTATTTTTATTTTTTTA
* *
138901 TGTTATGTTATTTTTATGTTTTTA
1 --TTATTTTATTTTTATTTTTTTA
*
138925 TTATTTTAATTTTAATTATTTTT
1 TTATTTT-ATTTTTATT-TTTTT
138948 CTAATAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 6 0.16
23 7 0.18
24 25 0.66
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.75
Consensus pattern (22 bp):
TTATTTTATTTTTATTTTTTTA
Found at i:141392 original size:24 final size:24
Alignment explanation
Indices: 141364--141411 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
141354 GGATTGTTGG
141364 ATTAAAGTGAGAGAATTGTAAGTT
1 ATTAAAGTGAGAGAATTGTAAGTT
141388 ATTAAAGTGAGAGAATTGTAAGTT
1 ATTAAAGTGAGAGAATTGTAAGTT
141412 TTGGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (24 bp):
ATTAAAGTGAGAGAATTGTAAGTT
Found at i:143315 original size:22 final size:22
Alignment explanation
Indices: 143287--143347 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
143277 GGGTCTACGC
143287 GGTCCTTCAGGACATATACAGA
1 GGTCCTTCAGGACATATACAGA
* * *
143309 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCAGGACATATACAGA
* *
143331 GGTTCTTCAGGAAATAT
1 GGTCCTTCAGGACATAT
143348 TTCACATGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (22 bp):
GGTCCTTCAGGACATATACAGA
Found at i:145487 original size:88 final size:88
Alignment explanation
Indices: 145385--145561 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
145375 CAATATCACA
145385 TAACATTTAACTTACGTAATTCATATTACATGTCTTATATATATTTTCTTATATCTTCTTATAAA
1 TAACATTTAACTTACGTAATTCATATTACATGTCTTATATATATTTTCTTATATCTTCTTATAAA
145450 CAAAAAAACATCTAGATCATCAT
66 CAAAAAAACATCTAGATCATCAT
145473 TAACATTTAACTTACGTAATTCATATTACATGTCTTATATATATTTTCTTATATCTTCTTATAAA
1 TAACATTTAACTTACGTAATTCATATTACATGTCTTATATATATTTTCTTATATCTTCTTATAAA
145538 CAAAAAAACATCTAGATCATCAT
66 CAAAAAAACATCTAGATCATCAT
145561 T
1 T
145562 CCCTAATTTA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.42
Consensus pattern (88 bp):
TAACATTTAACTTACGTAATTCATATTACATGTCTTATATATATTTTCTTATATCTTCTTATAAA
CAAAAAAACATCTAGATCATCAT
Found at i:149105 original size:22 final size:22
Alignment explanation
Indices: 149076--149126 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
149066 ACAAAGAGAC
*
149076 CACT-TGTCTATCTGCTCACCT
1 CACTATGTCCATCTGCTCACCT
*
149097 CACTATGTCCATCTGCTCCCCT
1 CACTATGTCCATCTGCTCACCT
149119 CACTATGT
1 CACTATGT
149127 ACTGTAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.16, C:0.39, G:0.10, T:0.35
Consensus pattern (22 bp):
CACTATGTCCATCTGCTCACCT
Found at i:151903 original size:151 final size:152
Alignment explanation
Indices: 151689--151966 Score: 441
Period size: 151 Copynumber: 1.8 Consensus size: 152
151679 TTGAGACGAA
* * * *
151689 TTTTACCCGAAGCAATACATTTCATTTCCCTACAAATTGTTCTTCTTAAAACAAGATTCATCTCG
1 TTTTACCCGAAACAAGACATTTCATTTACCTACAAATTGTTCTTCTTAAAACAAGATTAATCTCG
151754 CTTGAGATAGGTTTTACTCAAAACAAGACAGTTCATTTCACTACAGATTGTTTTTCTTAAAATAT
66 CTTGAGATAGGTTTTACTCAAAACAAGACAGTTCATTTCACTACAGATTGTTTTTCTTAAAATAT
151819 GATTCATATCCCTTTAGATAGT
131 GATTCATATCCCTTTAGATAGT
* * * *
151841 TTTTACTCGAAACAAGACATTTTATTTATCTACAAATTGTT-TTCTTAAAACAAGATTAATCTCT
1 TTTTACCCGAAACAAGACATTTCATTTACCTACAAATTGTTCTTCTTAAAACAAGATTAATCTCG
* * * *
151905 CTTGAGATAGTTTTTACTCGAAACAAGACATTTCATTTTACTACAGATTGTTTTTCTTAAAA
66 CTTGAGATAGGTTTTACTCAAAACAAGACAGTTCATTTCACTACAGATTGTTTTTCTTAAAA
151967 CAAGATTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
151 79 0.69
152 35 0.31
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (152 bp):
TTTTACCCGAAACAAGACATTTCATTTACCTACAAATTGTTCTTCTTAAAACAAGATTAATCTCG
CTTGAGATAGGTTTTACTCAAAACAAGACAGTTCATTTCACTACAGATTGTTTTTCTTAAAATAT
GATTCATATCCCTTTAGATAGT
Found at i:151992 original size:36 final size:36
Alignment explanation
Indices: 151876--151993 Score: 112
Period size: 36 Copynumber: 3.2 Consensus size: 36
151866 TTATCTACAA
* *
151876 ATTG-TTTTCTTAAAACAAGATTAATCTCTCTTGAG
1 ATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAG
* ** * * **
151911 ATAGTTTTTACTCGAAACAAGACATTTCATTTTACTACAG
1 ATTGTTTTT-CTTAAAACAAG--ATTT-ATCTCACTTGAG
151951 ATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAG
1 ATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAG
151987 ATTGTTT
1 ATTGTTT
151994 CACTTGAAAC
Statistics
Matches: 62, Mismatches: 16, Indels: 9
0.71 0.18 0.10
Matches are distributed among these distances:
35 3 0.05
36 19 0.31
37 13 0.21
39 12 0.19
40 15 0.24
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (36 bp):
ATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAG
Found at i:152004 original size:75 final size:76
Alignment explanation
Indices: 151689--151993 Score: 389
Period size: 76 Copynumber: 4.0 Consensus size: 76
151679 TTGAGACGAA
* * * * * *
151689 TTTTACCCGAAGCAATACATTTCATTTCCCTACAAATTGTTCTTCTTAAAACAAGATTCATCTCG
1 TTTTACTCGAAACAAGACATTTCATTTCACTACAAATTGTTTTTCTTAAAACAAGATTCATCTCA
*
151754 CTTGAGATAGG
66 CTTGAGATAGT
* * * * * * *
151765 TTTTACTCAAAACAAGACAGTTCATTTCACTACAGATTGTTTTTCTTAAAATATGATTCATATCC
1 TTTTACTCGAAACAAGACATTTCATTTCACTACAAATTGTTTTTCTTAAAACAAGATTCATCTCA
*
151830 CTTTAGATAGT
66 CTTGAGATAGT
* *
151841 TTTTACTCGAAACAAGACATTTTATTT-ATCTACAAATTG-TTTTCTTAAAACAAGATTAATCTC
1 TTTTACTCGAAACAAGACATTTCATTTCA-CTACAAATTGTTTTTCTTAAAACAAGATTCATCTC
*
151904 TCTTGAGATAGT
65 ACTTGAGATAGT
* * *
151916 TTTTACTCGAAACAAGACATTTCATTTTACTACAGATTGTTTTTCTTAAAACAAGATTTATCTCA
1 TTTTACTCGAAACAAGACATTTCATTTCACTACAAATTGTTTTTCTTAAAACAAGATTCATCTCA
*
151981 CTTGAGATTGT
66 CTTGAGATAGT
151992 TT
1 TT
151994 CACTTGAAAC
Statistics
Matches: 197, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
75 66 0.34
76 131 0.66
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (76 bp):
TTTTACTCGAAACAAGACATTTCATTTCACTACAAATTGTTTTTCTTAAAACAAGATTCATCTCA
CTTGAGATAGT
Found at i:152033 original size:39 final size:39
Alignment explanation
Indices: 151968--152076 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
151958 TTCTTAAAAC
* *
151968 AAGA-TTTATCTCACTTGAGATTGTTTCACTTGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTTGAAACAG
* *
152006 AAGATTTTACCTCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTTGAAACAG
152045 AAGATTTTATCTCGCTTGAGATAGTTTCACTT
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTT
152077 TATCTTGCTT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
38 4 0.06
39 60 0.94
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCACTTGAAACAG
Found at i:152043 original size:151 final size:151
Alignment explanation
Indices: 151718--152071 Score: 361
Period size: 151 Copynumber: 2.3 Consensus size: 151
151708 TTTCATTTCC
* * * * *
151718 CTACAAATTGTTCTTCTTAAAACAAGATTCATCTCGCTTGAGATAGGTTTTACTCAAAACAAGAC
1 CTACAAATAGTT-TACTCAAAACAAGATTAATCTCGCTTGAGATAGTTTTTACTCAAAACAAGAC
* * * * *
151783 AGTTCATTTCACTACAGATTGTTTTTCTTAAAATATGATTCATATCCCTTTAGATAGTTTTTACT
65 AGTTCATTTCACTACAGATTGTTTTTCTTAAAACAAGATTCATATCACTTGAGATAGTTTTCACT
** *
151848 CGAAACAAGACATTTTATTTAT
130 CGAAACAAGACATTTTACCTAG
* * * * *
151870 CTACAAATTGTTTTCTTAAAACAAGATTAATCTCTCTTGAGATAGTTTTTACTCGAAACAAGACA
1 CTACAAATAGTTTACTCAAAACAAGATTAATCTCGCTTGAGATAGTTTTTACTCAAAACAAGACA
* * * * * *
151935 TTTCATTTTACTACAGATTGTTTTTCTTAAAACAAGATTTATCTCACTTGAGATTG-TTTCACTT
66 GTTCATTTCACTACAGATTGTTTTTCTTAAAACAAGATTCATATCACTTGAGATAGTTTTCACTC
* *
151999 GAAAC-AGAAGATTTTACCTCG
131 GAAACAAG-ACATTTTACCTAG
** * * *
152020 CTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTT
1 CTACAAATAGTTT-ACTC-AAA-ACAAGA-TTAATCTCGCTTGAGATAGTTT
152072 CACTTTATCT
Statistics
Matches: 168, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
149 2 0.01
150 28 0.17
151 98 0.58
152 15 0.09
153 5 0.03
154 20 0.12
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (151 bp):
CTACAAATAGTTTACTCAAAACAAGATTAATCTCGCTTGAGATAGTTTTTACTCAAAACAAGACA
GTTCATTTCACTACAGATTGTTTTTCTTAAAACAAGATTCATATCACTTGAGATAGTTTTCACTC
GAAACAAGACATTTTACCTAG
Found at i:152086 original size:25 final size:25
Alignment explanation
Indices: 152050--152100 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
152040 AACAGAAGAT
152050 TTTATCTCGCTTGAGATAGTTTCAC
1 TTTATCTCGCTTGAGATAGTTTCAC
*
152075 TTTATCTTGCTTGAGATAGTTTCAC
1 TTTATCTCGCTTGAGATAGTTTCAC
152100 T
1 T
152101 CGAAACAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.47
Consensus pattern (25 bp):
TTTATCTCGCTTGAGATAGTTTCAC
Found at i:152093 original size:64 final size:64
Alignment explanation
Indices: 152019--152139 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
152009 ATTTTACCTC
*
152019 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTTTATCTT
1 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCACTTTATCTT
*
152083 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCTCTTGAGATAATTTCACT
1 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCACT
152140 CAAAATAGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (64 bp):
GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAATTTCACTTTATCTT
Found at i:152129 original size:39 final size:39
Alignment explanation
Indices: 152075--152366 Score: 446
Period size: 39 Copynumber: 7.6 Consensus size: 39
152065 ATAGTTTCAC
**
152075 TTTATCTTGCTTGAGATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
* * * *
152114 TTTATCTCTCTTGAGATAATTTCACTCAAAATAGAAGAT
1 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
152153 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
*
152192 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
* *
152231 TTTATCTCACTTGAG--AGTTTCAATTGAAACAGAAGAT
1 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
* *
152268 TTTATGTCACTTGAGATAGTTTCACTAGAAACAGAAGAT
1 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
*
152307 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-
1 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
*
152345 TTTATCTCACTTGAGATTGTTT
1 TTTATCTCACTTGAGATAGTTT
152367 TTCTTAAAAA
Statistics
Matches: 230, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
37 34 0.15
38 20 0.09
39 176 0.77
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (39 bp):
TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
Found at i:152310 original size:115 final size:115
Alignment explanation
Indices: 152075--152360 Score: 466
Period size: 115 Copynumber: 2.5 Consensus size: 115
152065 ATAGTTTCAC
* * *
152075 TTTATCTTGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCTCTTGAGATAATTTCACT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAG--AATTTCAAT
* *
152140 CAAAATAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGAT
64 CAAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTAGAAACAGAAGAT
* **
152192 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGAGTTTCAATTG
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGAATTTCAATCA
*
152257 AAACAGAAGATTTTATGTCACTTGAGATAGTTTCACTAGAAACAGAAGAT
66 AAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTAGAAACAGAAGAT
152307 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTATCTCACTTGAGA
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGA
152361 TTGTTTTTCT
Statistics
Matches: 160, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
114 16 0.10
115 92 0.57
117 52 0.32
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (115 bp):
TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGAATTTCAATCA
AAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTAGAAACAGAAGAT
Found at i:152970 original size:24 final size:24
Alignment explanation
Indices: 152943--152989 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
152933 AAAACCCAAC
152943 CCCAAAAT-AAACCCAGACCCGAGG
1 CCCAAAATCAAACCC-GACCCGAGG
152967 CCCAAAATCAAACCCGACCCGAG
1 CCCAAAATCAAACCCGACCCGAG
152990 TCTAAACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.40, C:0.40, G:0.15, T:0.04
Consensus pattern (24 bp):
CCCAAAATCAAACCCGACCCGAGG
Found at i:153401 original size:2 final size:2
Alignment explanation
Indices: 153394--153446 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
153384 AAAAACACTA
153394 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
153435 AT AT AT AT AT AT
1 AT AT AT AT AT AT
153447 CGATATCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:154212 original size:19 final size:19
Alignment explanation
Indices: 154190--154241 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
154180 CCCTAAAACT
154190 ATTTTTTTATTTTATTTAG
1 ATTTTTTTATTTTATTTAG
**** * *
154209 ATTTAGCCATTTAATTTTG
1 ATTTTTTTATTTTATTTAG
154228 ATTTTTTTATTTTA
1 ATTTTTTTATTTTA
154242 GCCACATTAT
Statistics
Matches: 22, Mismatches: 11, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (19 bp):
ATTTTTTTATTTTATTTAG
Found at i:154575 original size:186 final size:188
Alignment explanation
Indices: 154370--154744 Score: 736
Period size: 186 Copynumber: 2.0 Consensus size: 188
154360 AATTTTAATT
154370 AGTTTTTTTAATAATTATTTATTTCGTAATTTAAACCTTTAGACTTAGTTCTTAGATTAGATTAA
1 AGTTTTTTTAATAATTATTTATTTCGTAATTTAAACCTTTAGACTTAGTTCTTAGATTAGATTAA
154435 CCTTCGAATCGAATTTATAAATTAGGATGACACTCTTGTTTAATTAGGGAGCAATACGAGTCGAG
66 CCTTCGAATCGAATTTATAAATTAGGATGACACTCTTGTTTAATTAGGGAGCAATACGAGTCGAG
154500 -TTTCGCATAAAATGTCCGATTACTCGAATCGATTGCTCGACTTTTT-AAATTTGTTA
131 TTTTCGCATAAAATGTCCGATTACTCGAATCGATTGCTCGACTTTTTAAAATTTGTTA
154556 AGTTTTTTTAATAATTATTTATTTCGTAATTTAAACCTTTAGACTTAGTTCTTAGATTAGATTAA
1 AGTTTTTTTAATAATTATTTATTTCGTAATTTAAACCTTTAGACTTAGTTCTTAGATTAGATTAA
154621 CCTTCGAATCGAATTTATAAATTAGGATGACACTCTTGTTTAATTAGGGAGCAATACGAGTCGAG
66 CCTTCGAATCGAATTTATAAATTAGGATGACACTCTTGTTTAATTAGGGAGCAATACGAGTCGAG
154686 TTTTCGCATAAAATGTCCGATTACTCGAATCGATTGCTCGACTTTTTAAAATTTGTTA
131 TTTTCGCATAAAATGTCCGATTACTCGAATCGATTGCTCGACTTTTTAAAATTTGTTA
154744 A
1 A
154745 TAATTAATAT
Statistics
Matches: 187, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
186 130 0.70
187 46 0.25
188 11 0.06
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (188 bp):
AGTTTTTTTAATAATTATTTATTTCGTAATTTAAACCTTTAGACTTAGTTCTTAGATTAGATTAA
CCTTCGAATCGAATTTATAAATTAGGATGACACTCTTGTTTAATTAGGGAGCAATACGAGTCGAG
TTTTCGCATAAAATGTCCGATTACTCGAATCGATTGCTCGACTTTTTAAAATTTGTTA
Found at i:158076 original size:24 final size:22
Alignment explanation
Indices: 158048--158097 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
158038 TATTATTTAA
158048 ATTATATTAAATAATTATAAATAT
1 ATTATATTAAAT-ATTATAAA-AT
* * *
158072 ATTATTTTAACTATTTTAAAAT
1 ATTATATTAAATATTATAAAAT
158094 ATTA
1 ATTA
158098 ATATATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTATATTAAATATTATAAAAT
Found at i:162740 original size:18 final size:18
Alignment explanation
Indices: 162693--162742 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
162683 AATGCATTTT
* *
162693 ATGCATCGATACATAACC
1 ATGCATCGATGCACAACC
* *
162711 ATGCAGCAATGCACAACC
1 ATGCATCGATGCACAACC
162729 ATGCATCGATGCAC
1 ATGCATCGATGCAC
162743 TTAGAATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (18 bp):
ATGCATCGATGCACAACC
Found at i:162806 original size:65 final size:64
Alignment explanation
Indices: 162719--162854 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 64
162709 CCATGCAGCA
** * * * *
162719 ATGCACAACCATGCATCGATGCACTTAGAATTTTTTTGAAACATCGAA-CTGATTTTGTGCACCG
1 ATGCACAACCATGCATCGATGCACCCAGAATATATTTGAAACATCGAAGC-AAATTTGTGCACCG
* * *
162783 ATGCACAAGTCATGCATCGATGCACCCCGACTATATTTGAAACATCGAAGCAAATTTGTGCACCG
1 ATGCACAA-CCATGCATCGATGCACCCAGAATATATTTGAAACATCGAAGCAAATTTGTGCACCG
162848 ATGCACA
1 ATGCACA
162855 CCCTAGTGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 8 0.13
65 52 0.85
66 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (64 bp):
ATGCACAACCATGCATCGATGCACCCAGAATATATTTGAAACATCGAAGCAAATTTGTGCACCG
Found at i:164811 original size:21 final size:21
Alignment explanation
Indices: 164787--164826 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
164777 AAGACTTTAT
164787 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
164808 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
164827 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:168691 original size:23 final size:22
Alignment explanation
Indices: 168661--168806 Score: 120
Period size: 23 Copynumber: 6.7 Consensus size: 22
168651 ACACTAGTTA
168661 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCA-CCCTTGAAT
* * *
168684 GTGCATCGATTCA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
*
168705 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
* * * *
168728 GTGCGTCGATTCA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
* *
168749 GTGTACCGATGCACGCCTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
* *
168772 GTGCATCGATGCACTC-T-ACT
1 GTGCATCGATGCACCCTTGAAT
*
168792 GTGCATCGATACACC
1 GTGCATCGATGCACC
168807 AGTAGGGTTT
Statistics
Matches: 95, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
20 15 0.16
21 33 0.35
22 1 0.01
23 46 0.48
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:168715 original size:44 final size:44
Alignment explanation
Indices: 168661--168781 Score: 199
Period size: 44 Copynumber: 2.8 Consensus size: 44
168651 ACACTAGTTA
*
168661 GTGCATCGATGCATC-CCTTGAATGTGCATCGATTCACCATGAAG
1 GTGCACCGATGCA-CGCCTTGAATGTGCATCGATTCACCATGAAG
*
168705 GTGCACCGATGCACGCCTTGAATGTGCGTCGATTCACCATGAAG
1 GTGCACCGATGCACGCCTTGAATGTGCATCGATTCACCATGAAG
*
168749 GTGTACCGATGCACGCCTTGAATGTGCATCGAT
1 GTGCACCGATGCACGCCTTGAATGTGCATCGAT
168782 GCACTCTACT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 1 0.01
44 71 0.99
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (44 bp):
GTGCACCGATGCACGCCTTGAATGTGCATCGATTCACCATGAAG
Found at i:171540 original size:65 final size:63
Alignment explanation
Indices: 171410--171566 Score: 183
Period size: 65 Copynumber: 2.4 Consensus size: 63
171400 CACACCCATT
* *
171410 TCGAATGCATTTTATGCACCAATGCACAACCATGCATCGATGCACTCAGGATTTTATTGAAACA
1 TCGAATG-ATTTTGTGCACCAATGCACAACCATGCATCGATGCACCCAGGATTTTATTGAAACA
* * * *
171474 TCGAATTGATTTTGTGCACCGATGCACAAGTCATGCATCGATGCACCCCGGCTATTT-TTGAAAC
1 TCGAA-TGATTTTGTGCACCAATGCACAA-CCATGCATCGATGCACCCAGGAT-TTTATTGAAAC
171538 A
63 A
*
171539 TCGAA-GCAAATTTGTGCACCAATGCACA
1 TCGAATG--ATTTTGTGCACCAATGCACA
171567 CCCTAGTGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
63 1 0.01
64 24 0.30
65 52 0.65
66 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (63 bp):
TCGAATGATTTTGTGCACCAATGCACAACCATGCATCGATGCACCCAGGATTTTATTGAAACA
Found at i:174187 original size:19 final size:19
Alignment explanation
Indices: 174141--174189 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
174131 CTCGACCCCA
174141 TTGACTTTGACCCAACCCG
1 TTGACTTTGACCCAACCCG
* *
174160 TTTACTTTGACCTAACCCG
1 TTGACTTTGACCCAACCCG
*
174179 TTGAATTTGAC
1 TTGACTTTGAC
174190 TAGGCCTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (19 bp):
TTGACTTTGACCCAACCCG
Found at i:174726 original size:23 final size:23
Alignment explanation
Indices: 174665--174728 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
174655 GTGTTTGTGT
* *
174665 TGTTCGTTTATGTTCATTTTTTG
1 TGTTCGTTTATGTTCGTTTATTG
174688 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
*
174711 TGTTCGTTTATATTCGTT
1 TGTTCGTTTATGTTCGTT
174729 CGTTTATCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.09, C:0.09, G:0.19, T:0.62
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:174731 original size:14 final size:13
Alignment explanation
Indices: 174675--174735 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
174665 TGTTCGTTTA
* *
174675 TGTTCATTTTTTG
1 TGTTCGTTTATTG
174688 TGTTCGTTTA---
1 TGTTCGTTTATTG
174698 TGTTCGTTTATTG
1 TGTTCGTTTATTG
174711 TGTTCGTTTATAT-
1 TGTTCGTTTAT-TG
174724 TCGTTCGTTTAT
1 T-GTTCGTTTAT
174736 CATTTACATG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
10 10 0.24
13 20 0.49
14 11 0.27
ACGTcount: A:0.10, C:0.10, G:0.18, T:0.62
Consensus pattern (13 bp):
TGTTCGTTTATTG
Found at i:174831 original size:16 final size:16
Alignment explanation
Indices: 174810--174840 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
174800 AAAAAAAATT
174810 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
174826 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
174841 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:178682 original size:21 final size:21
Alignment explanation
Indices: 178657--178698 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
178647 CCAGAATGGG
*
178657 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
178678 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
178699 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:181158 original size:24 final size:23
Alignment explanation
Indices: 181131--181176 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
181121 AAAACATTAT
181131 TCTTAACTAGATTTAATATTAAAA
1 TCTTAACTAGATTTAAT-TTAAAA
181155 TCTTAACTAGATTTAATTTAAA
1 TCTTAACTAGATTTAATTTAAA
181177 TTATAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
TCTTAACTAGATTTAATTTAAAA
Found at i:187752 original size:2 final size:2
Alignment explanation
Indices: 187745--187780 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
187735 ATTGTGGACC
187745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
187781 TACAACATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:190750 original size:2 final size:2
Alignment explanation
Indices: 190645--190737 Score: 75
Period size: 2 Copynumber: 46.0 Consensus size: 2
190635 TGGGTTTTAA
* * *
190645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT -T TT GAA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * *
190686 AGC AT AT AGT -T TT GAA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 A-T AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190728 AT AT AT AT AT
1 AT AT AT AT AT
190738 TTTAAAAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
1 3 0.04
2 71 0.93
3 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:190792 original size:37 final size:37
Alignment explanation
Indices: 190745--190835 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
190735 TATTTTAAAA
*
190745 ATATAT-TTATAGTTTTTAAAAAATATATAACATGTAT
1 ATATATATTATAGTTTTTAAAAAAT-TATAACATATAT
* *
190782 -TATATATTATAGTTTTTGAAAAATTATAATATATAT
1 ATATATATTATAGTTTTTAAAAAATTATAACATATAT
*
190818 ATATATATATATAATTTT
1 ATATATAT-TATAGTTTT
190836 AACTTATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 15 0.32
37 24 0.51
38 8 0.17
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (37 bp):
ATATATATTATAGTTTTTAAAAAATTATAACATATAT
Found at i:191847 original size:18 final size:18
Alignment explanation
Indices: 191824--191862 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
191814 ATGGCCGGAG
191824 CGGTGGTGAGACGACAAT
1 CGGTGGTGAGACGACAAT
*
191842 CGGTGGTGAGACGGCAAT
1 CGGTGGTGAGACGACAAT
191860 CGG
1 CGG
191863 CGGGGGCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.44, T:0.15
Consensus pattern (18 bp):
CGGTGGTGAGACGACAAT
Found at i:194257 original size:149 final size:148
Alignment explanation
Indices: 193987--194286 Score: 564
Period size: 149 Copynumber: 2.0 Consensus size: 148
193977 TTGCTCTCTT
*
193987 AATGTAACACACATAACCCGTATAATTATACCTATACAGATTATAGATGTTATCCGAATTTCTAA
1 AATGTAACACACATAACCCATATAATTATACCTATACAGATTATAGATGTTATCCGAATTTCTAA
194052 AAACCATTTTACGATTCGAAAGCAATTTAAAATTTATTTTCTTAAAATAGTAAATGATATTACAA
66 AAACCATTTTACGATTCGAAAGCAATTTAAAATTTATTTTCTTAAAATAGTAAATGATATTACAA
194117 AAATATCATATCATATATA
131 AAATATCATATCATATA-A
*
194136 AATGTAACACCCATAACCCATATAATTATACCTATACAGATTATAGATGTTATCCGAATTTCTAA
1 AATGTAACACACATAACCCATATAATTATACCTATACAGATTATAGATGTTATCCGAATTTCTAA
*
194201 AAACCATTTTACGATTCGAAAGCAATTTAAAATTTATTTTCTTAAAATAGTAAATGATATTATAA
66 AAACCATTTTACGATTCGAAAGCAATTTAAAATTTATTTTCTTAAAATAGTAAATGATATTACAA
194266 AAATATCATATCATATAA
131 AAATATCATATCATATAA
194284 AAT
1 AAT
194287 TACGTTTTAT
Statistics
Matches: 148, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
148 4 0.03
149 144 0.97
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (148 bp):
AATGTAACACACATAACCCATATAATTATACCTATACAGATTATAGATGTTATCCGAATTTCTAA
AAACCATTTTACGATTCGAAAGCAATTTAAAATTTATTTTCTTAAAATAGTAAATGATATTACAA
AAATATCATATCATATAA
Found at i:197990 original size:18 final size:18
Alignment explanation
Indices: 197944--197991 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
197934 GATTAGGTTA
197944 GTTTAGGTGTTGGGCTAGG
1 GTTTAGGT-TTGGGCTAGG
197963 GTTTTA-GTTTGGGCTTAGG
1 G-TTTAGGTTTGGGC-TAGG
197982 G-TTAGGTTTG
1 GTTTAGGTTTG
197992 AATGTTGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.12
18 11 0.42
19 8 0.31
20 4 0.15
ACGTcount: A:0.10, C:0.04, G:0.42, T:0.44
Consensus pattern (18 bp):
GTTTAGGTTTGGGCTAGG
Found at i:198045 original size:3 final size:3
Alignment explanation
Indices: 198032--198128 Score: 114
Period size: 3 Copynumber: 33.3 Consensus size: 3
198022 CTGAGTTTTG
*
198032 TAA TAAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
198078 TAA TAA TAA TAA T-A TAA TGAA -AA TAA -AA AAA TAA TAC TAA T-A
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
198120 TAA T-A TAA T
1 TAA TAA TAA T
198129 GGTTGAAAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
2 10 0.12
3 67 0.82
4 5 0.06
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:198427 original size:40 final size:40
Alignment explanation
Indices: 198349--198470 Score: 97
Period size: 40 Copynumber: 3.0 Consensus size: 40
198339 TCTTTCGAAA
* * * **
198349 ATACTGACCCAACTCCTTCTGCGATGGTTGA-CCTAAGGTG
1 ATACTGATCCAACTCCTTATGTGATGAATGAGCC-AAGGTG
198389 ATACTGATCCAACTCCTTATGTGATGAATGAGCCAAGGTTG
1 ATACTGATCCAACTCCTTATGTGATGAATGAGCCAAGG-TG
* * *
198430 AT--GGCATTCCAACTCCCTATGTGATGGAATTGAGCTAAGGT
1 ATACTG-A-TCCAACTCCTTATGTGAT-GAA-TGAGCCAAGGT
198471 TGAATAAGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
39 1 0.01
40 31 0.46
41 23 0.34
42 4 0.06
43 9 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (40 bp):
ATACTGATCCAACTCCTTATGTGATGAATGAGCCAAGGTG
Found at i:198696 original size:118 final size:118
Alignment explanation
Indices: 198449--198698 Score: 358
Period size: 118 Copynumber: 2.1 Consensus size: 118
198439 CAACTCCCTA
* * * *
198449 TGTGATGGAATTGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGA
1 TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATAAACTTCTTCTACCTCATCAGA
* * * * *
198514 TGAGTTCTTCTCATTACGAATCATTCTATTAGAAATGTTGATCCACCTTCTTC
66 TAAGTTCTTCTCATTACAAACCATTCCATTAGAAATGTTGATACACCTTCTTC
*
198567 TTTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATAAACTTCTTCTACCTCATCAGA
1 TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATAAACTTCTTCTACCTCATCAGA
* * *
198632 TAAGTTCTTCTCATTACAAACCCTTCCATTGGAAATGTTGATATACC-TCATTC
66 TAAGTTCTTCTCATTACAAACCATTCCATTAGAAATGTTGATACACCTTC-TTC
*
198685 TGTGATAGAATCGA
1 TGTGATGGAATCGA
198699 ACAAAGTGAT
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
117 2 0.02
118 114 0.98
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (118 bp):
TGTGATGGAATCGAGCTAAGGTTGAATAAGTTCTTCTCATTATAAACTTCTTCTACCTCATCAGA
TAAGTTCTTCTCATTACAAACCATTCCATTAGAAATGTTGATACACCTTCTTC
Found at i:212622 original size:3 final size:3
Alignment explanation
Indices: 212614--212679 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
212604 TCGGGTTTGG
* *
212614 TAA TAA TAA TAA TAA TATT TCAA -AA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* *
212660 TAA TCA TAA CAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
212680 TAGTGGTTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 1 0.02
5 1 0.02
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:214388 original size:39 final size:38
Alignment explanation
Indices: 214341--214630 Score: 369
Period size: 37 Copynumber: 7.6 Consensus size: 38
214331 ATATATATTG
*
214341 TATATAATATATAGTTTTTTATAAA-ATTTTGAAAACATA
1 TATATAATATATAGTTTTTGA-AAATATTTTGAAAA-ATA
* * *
214380 TATGTAATATATAGTTTTCTAAAAAGACGTTTTGAAAAAATA
1 TATATAATATATAGTTTT-TGAAAATA--TTTTG-AAAAATA
*
214422 TATATAATATATAGTTTTTAAAAATATTTTG-AAAATA
1 TATATAATATATAGTTTTTGAAAATATTTTGAAAAATA
* *
214459 TATATAATATATAGTTTTTGAAAACATTTT-AAAAACA
1 TATATAATATATAGTTTTTGAAAATATTTTGAAAAATA
*
214496 TATATAATGTATAGTTTTTGAAAATATTTTG-AAAATA
1 TATATAATATATAGTTTTTGAAAATATTTTGAAAAATA
*
214533 TATATAATATATAGTTTTTGAAAACATTTTGAAAAAATA
1 TATATAATATATAGTTTTTGAAAATATTTTG-AAAAATA
*
214572 TATATAATATATAGTTTTTGAAAATATTTTG-AAAGTA
1 TATATAATATATAGTTTTTGAAAATATTTTGAAAAATA
*
214609 TATAT--TATATAGTTTTTAAAAA
1 TATATAATATATAGTTTTTGAAAA
214631 ATATATTTAT
Statistics
Matches: 227, Mismatches: 15, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
35 16 0.07
37 111 0.49
39 61 0.27
40 3 0.01
41 7 0.03
42 25 0.11
43 4 0.02
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (38 bp):
TATATAATATATAGTTTTTGAAAATATTTTGAAAAATA
Found at i:214649 original size:36 final size:33
Alignment explanation
Indices: 214569--214657 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 33
214559 TTTTGAAAAA
*
214569 ATATATATAATATATAGTTTTTGAAAATATTTTG
1 ATATATAT-ATATATAGTTTTTAAAAATATTTTG
*
214603 AAAGTATATATTATATAGTTTTTAAAAAATATATTT-
1 ATA-TATATA-TATATAGTTTTT-AAAAATAT-TTTG
214639 ATATATTATATAGTATAGT
1 ATATA-TATATA-TATAGT
214658 ATTATATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
34 3 0.07
35 21 0.46
36 19 0.41
37 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (33 bp):
ATATATATATATATAGTTTTTAAAAATATTTTG
Found at i:214706 original size:6 final size:6
Alignment explanation
Indices: 214687--214742 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
214677 ATTTTATTCA
* *
214687 TTTTCT TTTAAT TTTTAT TTTTATT TATTTAT TTTTATT TATTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T T-TTTAT TTTTA-T T-TTTAT TTTTAT
214739 TTTT
1 TTTT
214743 TCTTTCTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
6 27 0.63
7 8 0.19
8 8 0.19
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:214715 original size:10 final size:10
Alignment explanation
Indices: 214697--214742 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
214687 TTTTCTTTTA
214697 ATTTTTATTT
1 ATTTTTATTT
214707 -TTATTTATTT
1 ATT-TTTATTT
214717 ATTTTTATTT
1 ATTTTTATTT
214727 ATTTATT-TTT
1 ATTT-TTATTT
214737 ATTTTT
1 ATTTTT
214743 TCTTTCTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 4 0.12
10 25 0.76
11 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:214719 original size:14 final size:14
Alignment explanation
Indices: 214678--214740 Score: 85
Period size: 14 Copynumber: 4.6 Consensus size: 14
214668 ATTTATAATA
*
214678 TTTTATTCATTT-T
1 TTTTATTTATTTAT
*
214691 CTTTTAATT-TTTAT
1 -TTTTATTTATTTAT
214705 TTTTATTTATTTAT
1 TTTTATTTATTTAT
214719 TTTTATTTATTTAT
1 TTTTATTTATTTAT
214733 TTTTATTT
1 TTTTATTT
214741 TTTCTTTCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
13 10 0.23
14 34 0.77
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:215911 original size:17 final size:17
Alignment explanation
Indices: 215889--215924 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
215879 CAAAGAAACT
215889 ACAGGGAATTAGAGCCC
1 ACAGGGAATTAGAGCCC
215906 ACAGGGAATTAGAGCCC
1 ACAGGGAATTAGAGCCC
215923 AC
1 AC
215925 CCCAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.25, G:0.28, T:0.11
Consensus pattern (17 bp):
ACAGGGAATTAGAGCCC
Found at i:216771 original size:13 final size:13
Alignment explanation
Indices: 216753--216784 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
216743 GTCATAAATC
216753 TATGACGCGCATT
1 TATGACGCGCATT
*
216766 TATGACGCTCATT
1 TATGACGCGCATT
216779 TATGAC
1 TATGAC
216785 AAGCATTGAA
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:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:216955 original size:2 final size:2
Alignment explanation
Indices: 216948--216992 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
216938 TTTCATAAAT
*
216948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
216990 TA T
1 TA T
216993 TGTAGATTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:228990 original size:72 final size:72
Alignment explanation
Indices: 228711--228991 Score: 276
Period size: 72 Copynumber: 3.9 Consensus size: 72
228701 CTTTCCTATT
** * * * * *
228711 AAGGGGAGTCATCCAAAGAATCAAGACCAACTTAAACCGTAAAGGGGAGTCATCTCACATGACTT
1 AAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACCGTGAAGGGGATTCATCTTACCTGGCTT
* *
228776 TCCCGCA
66 TTCCACA
* * ** ***
228783 AAGGGGAGTCATCCAGAGAATCAAGACTGGCTTAAACCGTGAAGATGATTCATCTTACCTATATT
1 AAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACCGTGAAGGGGATTCATCTTACCTGGCTT
228848 TTCCACA
66 TTCCACA
* * * * * * * * *
228855 AAGGGGAGCCATCCCAAGAATCAAGGCTGACTTAAATCATGGAGGGGATTCGTTTTACTTGGCTT
1 AAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACCGTGAAGGGGATTCATCTTACCTGGCTT
228920 TTCCACTA
66 TTCCAC-A
* * * * *
228928 AA-GGGAATCATCCAAAGAATTAATACTGACTTAAACTGTGAAGGGGATTCATCTTGCCTGGCTT
1 AAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACCGTGAAGGGGATTCATCTTACCTGGCTT
228992 AAACCCATGA
Statistics
Matches: 163, Mismatches: 45, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
72 160 0.98
73 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (72 bp):
AAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACCGTGAAGGGGATTCATCTTACCTGGCTT
TTCCACA
Found at i:229721 original size:22 final size:22
Alignment explanation
Indices: 229691--229736 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
229681 TTGGGTTTGA
229691 AAGCCAATACACAATCGACTAC
1 AAGCCAATACACAATCGACTAC
*
229713 AAGCTAATACACAATCGACTAC
1 AAGCCAATACACAATCGACTAC
229735 AA
1 AA
229737 TCTATCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.28, G:0.09, T:0.15
Consensus pattern (22 bp):
AAGCCAATACACAATCGACTAC
Found at i:230241 original size:17 final size:18
Alignment explanation
Indices: 230219--230259 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
230209 ATTATTTTAA
* *
230219 TATTATATACATA-GTTT
1 TATTATATAAATATATTT
230236 TATTATATAAATATATTT
1 TATTATATAAATATATTT
230254 TATTAT
1 TATTAT
230260 GGTTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATATAAATATATTT
Found at i:230414 original size:2 final size:2
Alignment explanation
Indices: 230364--230396 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
230354 ATATTTTTTA
230364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
230397 GTTTTGGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:230435 original size:45 final size:41
Alignment explanation
Indices: 230341--230446 Score: 99
Period size: 41 Copynumber: 2.5 Consensus size: 41
230331 AGTTTTTGAA
**
230341 AAAAATATATTATATA-TTTTTTAATATATATATATATATAT
1 AAAAATATA-TATATAGTTTTGGAATATATATATATATATAT
* * *
230382 ATATATATATATATAGTTTTGGAATATATATATTTATTATATTTT
1 AAAAATATATATATAGTTTTGGAATATATATA--TA-TATA-TAT
230427 AAAAATATATGA-ATAGTTTT
1 AAAAATATAT-ATATAGTTTT
230447 TTAAAAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
40 6 0.12
41 21 0.40
43 2 0.04
44 4 0.08
45 18 0.35
46 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (41 bp):
AAAAATATATATATAGTTTTGGAATATATATATATATATAT
Found at i:230503 original size:44 final size:46
Alignment explanation
Indices: 230453--230550 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 46
230443 TTTTTTAAAA
* *
230453 AATATATAGCATTA-TTA-TATATTATAGTTTTTGAAAA-ATTATAT
1 AATATATAGCA-TAGTAAGTATATTATAATTTTTGAAAATATTATAT
** * *
230497 AATATATATTATAGTAAGTATATTATAATTTTTGAAAATCTTGTAT
1 AATATATAGCATAGTAAGTATATTATAATTTTTGAAAATATTATAT
230543 AATATATA
1 AATATATA
230551 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 2 0.04
44 11 0.24
45 19 0.42
46 13 0.29
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (46 bp):
AATATATAGCATAGTAAGTATATTATAATTTTTGAAAATATTATAT
Found at i:236327 original size:21 final size:21
Alignment explanation
Indices: 236290--236329 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
236280 TAGGGAATTC
*
236290 TATTTTTATATTTTTAAAATA
1 TATTTTTATATTATTAAAATA
236311 TATTCTTTA-ATTATTAAAA
1 TATT-TTTATATTATTAAAA
236330 ATGTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTTATATTATTAAAATA
Found at i:236407 original size:14 final size:14
Alignment explanation
Indices: 236388--236435 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
236378 AAAACAAATA
*
236388 ATTATAAATATCTT
1 ATTATAAATATATT
236402 ATTATAAAATATATT
1 ATTAT-AAATATATT
*
236417 ATTTTAAA-ATATT
1 ATTATAAATATATT
*
236430 AATATA
1 ATTATA
236436 TTCAGATTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 9 0.31
14 8 0.28
15 12 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATAAATATATT
Found at i:236413 original size:15 final size:15
Alignment explanation
Indices: 236388--236428 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
236378 AAAACAAATA
*
236388 ATTAT-AAATATCTT
1 ATTATAAAATATATT
236402 ATTATAAAATATATT
1 ATTATAAAATATATT
*
236417 ATTTTAAAATAT
1 ATTATAAAATAT
236429 TAATATATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:241649 original size:15 final size:15
Alignment explanation
Indices: 241629--241658 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
241619 AAGCTATATG
241629 GATGAGAAGGATACT
1 GATGAGAAGGATACT
241644 GATGAGAAGGATACT
1 GATGAGAAGGATACT
241659 AAAGAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (15 bp):
GATGAGAAGGATACT
Found at i:241665 original size:15 final size:15
Alignment explanation
Indices: 241632--241665 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
241622 CTATATGGAT
* *
241632 GAGAAGGATACTGAT
1 GAGAAGGATACTAAA
241647 GAGAAGGATACTAAA
1 GAGAAGGATACTAAA
241662 GAGA
1 GAGA
241666 CTATGTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.32, T:0.15
Consensus pattern (15 bp):
GAGAAGGATACTAAA
Found at i:242699 original size:8 final size:8
Alignment explanation
Indices: 242686--242711 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
242676 AACATTACAA
242686 ACTTTATC
1 ACTTTATC
242694 ACTTTATC
1 ACTTTATC
242702 ACTTTATC
1 ACTTTATC
242710 AC
1 AC
242712 ATTACAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (8 bp):
ACTTTATC
Found at i:243390 original size:43 final size:43
Alignment explanation
Indices: 243329--243416 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
243319 CTATAGTCCA
243329 CATTCTTATATTATACACATTATATCAGTGAGCAAACTCCCAC
1 CATTCTTATATTATACACATTATATCAGTGAGCAAACTCCCAC
243372 CATTCTTATATTATACACATTATATCAGTGAGCAAACTCCCAC
1 CATTCTTATATTATACACATTATATCAGTGAGCAAACTCCCAC
243415 CA
1 CA
243417 AAGCAAAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (43 bp):
CATTCTTATATTATACACATTATATCAGTGAGCAAACTCCCAC
Done.