Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 5 of 295
Found at i:1422532 original size:12 final size:12
Alignment explanation
Indices: 1422441--1422532 Score: 62
Period size: 12 Copynumber: 7.7 Consensus size: 12
1422431 CTTACTTCCT
* *
1422441 TCATCATCCTCA
1 TCATCATCATCG
*
1422453 TCATCGTCATCG
1 TCATCATCATCG
*
1422465 TCATC-TCCATCT
1 TCATCAT-CATCG
* *
1422477 TCATCTTCATCC
1 TCATCATCATCG
*
1422489 TCATCATCCTCG
1 TCATCATCATCG
* *
1422501 TCCTCATCCTCG
1 TCATCATCATCG
*
1422513 TCCA-CATCATCA
1 T-CATCATCATCG
1422525 TCATCATC
1 TCATCATC
1422533 TCCTATCTCT
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
11 3 0.05
12 59 0.92
13 2 0.03
ACGTcount: A:0.20, C:0.41, G:0.04, T:0.35
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:1429630 original size:28 final size:28
Alignment explanation
Indices: 1429598--1429699 Score: 105
Period size: 28 Copynumber: 3.4 Consensus size: 28
1429588 AACTTAAGAA
1429598 ATTTTACATATTCAAATAGGACTCATAT
1 ATTTTACATATTCAAATAGGACTCATAT
* * * *
1429626 ATTTTACATATTTATACGATAAGGAACTTAAGAA
1 ATTTTACATATTCA-A--AT-AGG-AC-TCATAT
*
1429660 ATTTTACATATTCAAATAGGGCTCATAT
1 ATTTTACATATTCAAATAGGACTCATAT
1429688 ATTTTACATATT
1 ATTTTACATATT
1429700 TATACGATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
28 28 0.47
29 2 0.03
30 3 0.05
31 4 0.07
32 3 0.05
33 3 0.05
34 16 0.27
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (28 bp):
ATTTTACATATTCAAATAGGACTCATAT
Found at i:1429652 original size:62 final size:62
Alignment explanation
Indices: 1429582--1429707 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
1429572 TATTTGCAAA
1429582 ATAAGGAACTTAAGAAATTTTACATATTCAAATAGGACTCATATATTTTACATATTTATACG
1 ATAAGGAACTTAAGAAATTTTACATATTCAAATAGGACTCATATATTTTACATATTTATACG
*
1429644 ATAAGGAACTTAAGAAATTTTACATATTCAAATAGGGCTCATATATTTTACATATTTATACG
1 ATAAGGAACTTAAGAAATTTTACATATTCAAATAGGACTCATATATTTTACATATTTATACG
1429706 AT
1 AT
1429708 TGAGTCTTTG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (62 bp):
ATAAGGAACTTAAGAAATTTTACATATTCAAATAGGACTCATATATTTTACATATTTATACG
Found at i:1429669 original size:34 final size:31
Alignment explanation
Indices: 1429580--1429677 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 31
1429570 AATATTTGCA
1429580 AAATAAGGAACTTAAGAAATTTTACATATTC
1 AAATAAGGAACTTAAGAAATTTTACATATTC
* * * *
1429611 AAAT-AGG-AC-TCATATATTTTACATATTT
1 AAATAAGGAACTTAAGAAATTTTACATATTC
1429639 ATACGATAAGGAACTTAAGAAATTTTACATATTC
1 A-A--ATAAGGAACTTAAGAAATTTTACATATTC
1429673 AAATA
1 AAATA
1429678 GGGCTCATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
28 16 0.30
29 3 0.06
30 3 0.06
31 9 0.17
32 3 0.06
33 3 0.06
34 16 0.30
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (31 bp):
AAATAAGGAACTTAAGAAATTTTACATATTC
Found at i:1435436 original size:18 final size:18
Alignment explanation
Indices: 1435413--1435447 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1435403 ATATCTTGTC
* *
1435413 TATAAATAATTTTAAAAT
1 TATAAAAAATTATAAAAT
1435431 TATAAAAAATTATAAAA
1 TATAAAAAATTATAAAA
1435448 AATCATAAAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAAAAAATTATAAAAT
Found at i:1435439 original size:10 final size:10
Alignment explanation
Indices: 1435426--1435458 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
1435416 AAATAATTTT
1435426 AAAATTATAA
1 AAAATTATAA
1435436 AAAATTATAA
1 AAAATTATAA
*
1435446 AAAATCATAA
1 AAAATTATAA
1435456 AAA
1 AAA
1435459 TTAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATTATAA
Found at i:1439706 original size:54 final size:53
Alignment explanation
Indices: 1439648--1439761 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 53
1439638 ATTACAATGA
1439648 TATTTTCTAATTATGTAAAAAATAGACAAGATAAAAATGGGATTTCATATTTTT
1 TATTTTCTAATTATGTAAAAAATAGACAAGATAAAAATGGGATTTCATA-TTTT
* *
1439702 TATTTTCTAATTATGTAAAAAATAGACAAGATAGAAATGGTATTTCATATTTT
1 TATTTTCTAATTATGTAAAAAATAGACAAGATAAAAATGGGATTTCATATTTT
1439755 TATTTTC
1 TATTTTC
1439762 CAAAATTGAG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 11 0.19
54 47 0.81
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (53 bp):
TATTTTCTAATTATGTAAAAAATAGACAAGATAAAAATGGGATTTCATATTTT
Found at i:1440041 original size:47 final size:47
Alignment explanation
Indices: 1439967--1440056 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
1439957 AGTATTTTCT
* * *
1439967 GTCAAAATTTGCCATCAATACAGCTATGCTATCATACTAACTTTAGA
1 GTCAAAATTTACCATCAATACACCTATGCAATCATACTAACTTTAGA
* * *
1440014 GTCAAAATTTACCATCAATGCACCTATGCAATGATATTAACTT
1 GTCAAAATTTACCATCAATACACCTATGCAATCATACTAACTT
1440057 CCAGAAGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (47 bp):
GTCAAAATTTACCATCAATACACCTATGCAATCATACTAACTTTAGA
Found at i:1447263 original size:31 final size:31
Alignment explanation
Indices: 1447228--1447293 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
1447218 TTTTTAACTA
*
1447228 AATTTGATCC-TCAACCTTTTAAAAAGAATCG
1 AATTTGA-CCATCAACCTTTCAAAAAGAATCG
* *
1447259 AATTTGACCATCAATCTTTCAAAAAGAGTCG
1 AATTTGACCATCAACCTTTCAAAAAGAATCG
1447290 AATT
1 AATT
1447294 GTTGTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (31 bp):
AATTTGACCATCAACCTTTCAAAAAGAATCG
Found at i:1450586 original size:25 final size:25
Alignment explanation
Indices: 1450552--1450600 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1450542 ATATCGATAA
1450552 ATTTTATGTACAATTCATGAAAAAC
1 ATTTTATGTACAATTCATGAAAAAC
1450577 ATTTTATGTACAATTCATGAAAAA
1 ATTTTATGTACAATTCATGAAAAA
1450601 TATTAACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (25 bp):
ATTTTATGTACAATTCATGAAAAAC
Found at i:1452285 original size:28 final size:30
Alignment explanation
Indices: 1452245--1452300 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
1452235 TATATTATTA
* **
1452245 ATTTTATGTTTTATGATA-TAAAAATAAAT
1 ATTTTATGATTTAAAATAGTAAAAATAAAT
1452274 ATTTTAT-ATTTAAAATAGTAAAAATAA
1 ATTTTATGATTTAAAATAGTAAAAATAA
1452301 TTTAAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (30 bp):
ATTTTATGATTTAAAATAGTAAAAATAAAT
Found at i:1452679 original size:205 final size:205
Alignment explanation
Indices: 1452327--1452736 Score: 811
Period size: 205 Copynumber: 2.0 Consensus size: 205
1452317 TTGTTATATT
1452327 TTAAAAATATTAATGAAAAAATTCATAAAAAATTACCAGACAATATTAAATAAATTATAAAATAA
1 TTAAAAATATTAATGAAAAAATTCATAAAAAATTACCAGACAATATTAAATAAATTATAAAATAA
1452392 TGCTCATTTTATCAAAATAAATTTAAAAAATTAAAAAAAAAATTTAACCAACCCAACCTAATCCA
66 TGCTCATTTTATCAAAATAAATTTAAAAAATTAAAAAAAAAATTTAACCAACCCAACCTAATCCA
1452457 GTCAGCAAAAAAGGCAAAAGTCCACTCAGAAGCCATAAAAACAAAACGGTGCCGTATAAGTAACA
131 GTCAGCAAAAAAGGCAAAAGTCCACTCAGAAGCCATAAAAACAAAACGGTGCCGTATAAGTAACA
1452522 AGAAAAGAGA
196 AGAAAAGAGA
1452532 TTAAAAATATTAATGAAAAAATTCATAAAAAATTACCAGACAATATTAAATAAATTATAAAATAA
1 TTAAAAATATTAATGAAAAAATTCATAAAAAATTACCAGACAATATTAAATAAATTATAAAATAA
1452597 TGCTCATTTTATCAAAATAAATTTAAAAAATTAAAAAAAAAATTTAACCAACCCAACCTAATCCA
66 TGCTCATTTTATCAAAATAAATTTAAAAAATTAAAAAAAAAATTTAACCAACCCAACCTAATCCA
*
1452662 GTCAGCAAAAAAGGCAAAAGTCCACTCAGAAGCCATAAAAATAAAACGGTGCCGTATAAGTAACA
131 GTCAGCAAAAAAGGCAAAAGTCCACTCAGAAGCCATAAAAACAAAACGGTGCCGTATAAGTAACA
1452727 AGAAAAGAGA
196 AGAAAAGAGA
1452737 GGCAAATTTT
Statistics
Matches: 204, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 204 1.00
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.22
Consensus pattern (205 bp):
TTAAAAATATTAATGAAAAAATTCATAAAAAATTACCAGACAATATTAAATAAATTATAAAATAA
TGCTCATTTTATCAAAATAAATTTAAAAAATTAAAAAAAAAATTTAACCAACCCAACCTAATCCA
GTCAGCAAAAAAGGCAAAAGTCCACTCAGAAGCCATAAAAACAAAACGGTGCCGTATAAGTAACA
AGAAAAGAGA
Found at i:1453144 original size:10 final size:10
Alignment explanation
Indices: 1453129--1453164 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
1453119 CCCTCTCTAG
1453129 TATTTTTATT
1 TATTTTTATT
1453139 TATTTTT-TT
1 TATTTTTATT
*
1453148 AATTTTTATT
1 TATTTTTATT
1453158 TATTTTT
1 TATTTTT
1453165 CGTCGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TATTTTTATT
Found at i:1454439 original size:41 final size:42
Alignment explanation
Indices: 1454350--1454448 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
1454340 TGAATGAACC
*
1454350 ATACATCTTATTATTGATGATAAGATTGAACTTTGAGAAACT
1 ATACATCTTGTTATTGATGATAAGATTGAACTTTGAGAAACT
1454392 ATACATCTTGTTATTGATGATAAGATTGAAC-TTGAGAAACT
1 ATACATCTTGTTATTGATGATAAGATTGAACTTTGAGAAACT
*
1454433 ATACATCTCGTTATTG
1 ATACATCTTGTTATTG
1454449 GTTTAAAGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 25 0.45
42 30 0.55
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (42 bp):
ATACATCTTGTTATTGATGATAAGATTGAACTTTGAGAAACT
Found at i:1465864 original size:23 final size:22
Alignment explanation
Indices: 1465838--1465945 Score: 114
Period size: 21 Copynumber: 5.0 Consensus size: 22
1465828 GCTTTATCGA
* *
1465838 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTGTGTGTCGTA-T
*
1465861 TCAGGCACCTCGTGTGTCGTA-
1 TCAGGCACCTTGTGTGTCGTAT
*
1465882 TCAGACACCTTGTGTGTCGTA-
1 TCAGGCACCTTGTGTGTCGTAT
*
1465903 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACCTTGTGTGTCGTAT
* * *
1465924 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACCTTGTGTGTCGTAT
1465946 ACTGATCAGG
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
21 53 0.74
22 1 0.01
23 18 0.25
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAGGCACCTTGTGTGTCGTAT
Found at i:1465909 original size:42 final size:42
Alignment explanation
Indices: 1465837--1465945 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
1465827 AGCTTTATCG
* *
1465837 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGACACCTTATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
1465881 ATCAGACACCTTGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGACACCTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
1465923 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGACACCTTATGTGTCGTAT
1465946 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (42 bp):
ATCAGACACCTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:1471366 original size:51 final size:51
Alignment explanation
Indices: 1471288--1471391 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
1471278 AAATGTTGGG
*
1471288 TACATTTTAATTTGCATTAGAACCAGAAGGGAAATGCAGGGAGGTTTAGAA
1 TACATTTTAATTTGCATTAGAACCAGAAGGGAAAGGCAGGGAGGTTTAGAA
*
1471339 TACATTTTAATTTGCATTAGAATCAGAAGGGAAAGGCAGGGAGGTTTAGAA
1 TACATTTTAATTTGCATTAGAACCAGAAGGGAAAGGCAGGGAGGTTTAGAA
1471390 TA
1 TA
1471392 ATAGCTGTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (51 bp):
TACATTTTAATTTGCATTAGAACCAGAAGGGAAAGGCAGGGAGGTTTAGAA
Found at i:1474872 original size:21 final size:21
Alignment explanation
Indices: 1474846--1474887 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1474836 ATGAATCGCA
*
1474846 AAGGATCAGCAGATTAAAAAC
1 AAGGATCAGCAGATCAAAAAC
1474867 AAGGATCAGCAGATCAAAAAC
1 AAGGATCAGCAGATCAAAAAC
1474888 TTACTTAAAG
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:0.52, C:0.17, G:0.19, T:0.12
Consensus pattern (21 bp):
AAGGATCAGCAGATCAAAAAC
Found at i:1484231 original size:15 final size:15
Alignment explanation
Indices: 1484211--1484241 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1484201 ATCTAAATGC
1484211 GAAGAAGAAAGAAAA
1 GAAGAAGAAAGAAAA
*
1484226 GAAGAAGAAGGAAAA
1 GAAGAAGAAAGAAAA
1484241 G
1 G
1484242 TAGCTACGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAAGAAAA
Found at i:1493115 original size:46 final size:46
Alignment explanation
Indices: 1493060--1493415 Score: 384
Period size: 46 Copynumber: 7.8 Consensus size: 46
1493050 GCTTTCTGAA
* * *
1493060 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATAGGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAC
* * * * * * *
1493106 ATAAAATGTGTAAGGCCATGGTTGAAAGACACCATCGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAC
* *
1493152 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAC
* *
1493198 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-GTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAG-GAC
* * * *
1493244 ATGAAAAGAATAAGACAATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAC
* * * *
1493290 -GGAAATGAATAAGACCATGGTTG--A-ATACCATGGCAA-TGTAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAG-GAC
* * **
1493332 ATGAAATGAATAAGACCATGGTTGAAGGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAC
* * *
1493378 A-GAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
1493416 TCATGTTGAA
Statistics
Matches: 267, Mismatches: 35, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
42 14 0.05
43 23 0.09
45 53 0.20
46 177 0.66
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAC
Found at i:1494846 original size:15 final size:15
Alignment explanation
Indices: 1494798--1494849 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
1494788 ACTATAAAAC
*
1494798 ATTTAATATTAATAT
1 ATTTATTATTAATAT
*
1494813 ATTTATATTTGTTATATAT
1 A-TT-TA-TTATTA-ATAT
1494832 ATTTATTATTAATAT
1 ATTTATTATTAATAT
1494847 ATT
1 ATT
1494850 AATATATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 4 0.13
18 6 0.20
19 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:1494938 original size:15 final size:17
Alignment explanation
Indices: 1494895--1494948 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
1494885 TAAAATCTAT
*
1494895 TATTAAAATA-AAATTA
1 TATTAAAAAATAAATTA
* **
1494911 TAATATTAAAT-AATT-
1 TATTAAAAAATAAATTA
1494926 TATTAAAAAATAAATTA
1 TATTAAAAAATAAATTA
1494943 TATTAA
1 TATTAA
1494949 TCATTTATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
15 8 0.29
16 14 0.50
17 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATTAAAAAATAAATTA
Found at i:1494959 original size:27 final size:28
Alignment explanation
Indices: 1494894--1494974 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
1494884 TTAAAATCTA
* *
1494894 TTATTAAAATAAAATTATAATATTAAATAAT
1 TTATT-AAAT-AAATAATTATATT-AATAAT
*
1494925 TTATTAAA-AAATAAATTATATTAATCAT
1 TTATTAAATAAAT-AATTATATTAATAAT
*
1494953 TTA-TAAATAAATTATTATATTA
1 TTATTAAATAAATAATTATATTA
1494975 TTAAATATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 13 0.30
28 16 0.36
29 7 0.16
30 3 0.07
31 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
TTATTAAATAAATAATTATATTAATAAT
Found at i:1512388 original size:8 final size:8
Alignment explanation
Indices: 1512375--1512404 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1512365 CTTTTTCTTT
1512375 TATTTTTA
1 TATTTTTA
1512383 TATTTTTA
1 TATTTTTA
1512391 TATTTTTA
1 TATTTTTA
1512399 -ATTTTT
1 TATTTTT
1512405 TTTTTTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTTA
Found at i:1522034 original size:13 final size:13
Alignment explanation
Indices: 1522016--1522040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1522006 AGTTTGATTT
1522016 AGTTTTTGAGTCG
1 AGTTTTTGAGTCG
1522029 AGTTTTTGAGTC
1 AGTTTTTGAGTC
1522041 AAATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
AGTTTTTGAGTCG
Found at i:1522747 original size:3 final size:3
Alignment explanation
Indices: 1522739--1522792 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1522729 ATTAAGTTGG
1522739 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1522787 ATT ATT
1 ATT ATT
1522793 CACATCGACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1522975 original size:4 final size:4
Alignment explanation
Indices: 1522966--1522990 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1522956 TACACGACAA
1522966 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
1522991 CAGATCCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:1523610 original size:13 final size:13
Alignment explanation
Indices: 1523592--1523616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1523582 TATTTTAATA
1523592 TTATTTTGTGTGT
1 TTATTTTGTGTGT
1523605 TTATTTTGTGTG
1 TTATTTTGTGTG
1523617 CATTCGATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:1525354 original size:41 final size:41
Alignment explanation
Indices: 1525147--1525343 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
1525137 TTTATCGTTA
* * * *
1525147 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1525188 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1525229 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1525270 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
1525311 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
1525344 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:1525616 original size:33 final size:32
Alignment explanation
Indices: 1525560--1525623 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1525550 AGATATGTAT
1525560 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
1525592 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
1525624 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:1525640 original size:33 final size:33
Alignment explanation
Indices: 1525567--1525640 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
1525557 TATATATATA
* * **
1525567 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
1525599 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
1525632 TGTATGTAT
1 TATATGTAT
1525641 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:1531286 original size:13 final size:13
Alignment explanation
Indices: 1531268--1531292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1531258 TATTTTAATA
1531268 TTATTTTGTGTGT
1 TTATTTTGTGTGT
1531281 TTATTTTGTGTG
1 TTATTTTGTGTG
1531293 CATTCGATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:1533027 original size:41 final size:41
Alignment explanation
Indices: 1532820--1533016 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
1532810 TTTATCGTTA
* * * *
1532820 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
1532861 GTGA-A-ATTATTCAGACTATAAGTCTAGCAAGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1532902 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1532943 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
1532984 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
1533017 AAGAGCCGGT
Statistics
Matches: 146, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 141 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:1533289 original size:33 final size:32
Alignment explanation
Indices: 1533233--1533296 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1533223 AGATATGTAT
1533233 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
1533265 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
1533297 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:1533313 original size:33 final size:33
Alignment explanation
Indices: 1533240--1533313 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
1533230 TATATATATA
* * **
1533240 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
1533272 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
1533305 TGTATGTAT
1 TATATGTAT
1533314 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:1539730 original size:43 final size:45
Alignment explanation
Indices: 1539680--1539772 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 45
1539670 AAGTATAAAC
* *
1539680 TTAAAAAA-ATAATATTATTTTCTTCAATA-TAAAAATAAAATAA
1 TTAAAAAAGATAATATTATTTGCTTCAAGATTAAAAATAAAATAA
* * * *
1539723 TTAAAAAAGTTAATTTTATTTGCTTCAAGATTAAATATAAAATGA
1 TTAAAAAAGATAATATTATTTGCTTCAAGATTAAAAATAAAATAA
1539768 TTAAA
1 TTAAA
1539773 TTAAATTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 8 0.19
44 17 0.40
45 17 0.40
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (45 bp):
TTAAAAAAGATAATATTATTTGCTTCAAGATTAAAAATAAAATAA
Found at i:1540671 original size:60 final size:59
Alignment explanation
Indices: 1540616--1540736 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 59
1540606 TAAAAAAGAC
* *
1540616 AAAATA-GAATAGTTGAGTAATTATTTTTGTAATTTTTCATAATTGAGTGCTAAAAATAA
1 AAAATATGAATAGTTGAGTAATCA-TTTTATAATTTTTCATAATTGAGTGCTAAAAATAA
* * * * * *
1540675 AGATTATTAATTGTTGAGTAATCATTTTATAATTTTTCATAATT-AGGTACCAAAAATAA
1 AAAATATGAATAGTTGAGTAATCATTTTATAATTTTTCATAATTGA-GTGCTAAAAATAA
1540734 AAA
1 AAA
1540737 TAAAATCATA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 1 0.02
59 36 0.71
60 14 0.27
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (59 bp):
AAAATATGAATAGTTGAGTAATCATTTTATAATTTTTCATAATTGAGTGCTAAAAATAA
Found at i:1541012 original size:71 final size:71
Alignment explanation
Indices: 1540927--1541064 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 71
1540917 TAATTTGGTA
** *
1540927 AAAATTGTTTTTTAATCTCTTAAAATTTGTAAAATTATAACTAACAAAATGGTAAAATTTGAGTT
1 AAAATTGCCTTTTAATATCTTAAAATTTGTAAAATTATAACTAACAAAATGGTAAAATTTGAGTT
1540992 TTTAGT
66 TTTAGT
* * *
1540998 AAAATTGCCTTTTAATATCTTAAAATTTGTAAAATTATAACTAATAAAATGGTAAAGTTTGTGTT
1 AAAATTGCCTTTTAATATCTTAAAATTTGTAAAATTATAACTAACAAAATGGTAAAATTTGAGTT
1541063 TT
66 TT
1541065 AGCCCCCCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (71 bp):
AAAATTGCCTTTTAATATCTTAAAATTTGTAAAATTATAACTAACAAAATGGTAAAATTTGAGTT
TTTAGT
Found at i:1542319 original size:2 final size:2
Alignment explanation
Indices: 1542312--1542336 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1542302 AAGCTTCTGT
1542312 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1542337 TAATATGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1548981 original size:19 final size:18
Alignment explanation
Indices: 1548957--1548992 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1548947 ATTTTCAAAG
1548957 TATTATTTAAATATTTTTA
1 TATTATTT-AATATTTTTA
*
1548976 TATTATTTTATATTTTT
1 TATTATTTAATATTTTT
1548993 CACTCACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATTTAATATTTTTA
Found at i:1550030 original size:16 final size:16
Alignment explanation
Indices: 1550009--1550039 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1549999 GTTTAAAAAA
1550009 ATTGATACTAAAATAT
1 ATTGATACTAAAATAT
*
1550025 ATTGATACTAGAATA
1 ATTGATACTAAAATA
1550040 CACCAATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
ATTGATACTAAAATAT
Found at i:1557757 original size:18 final size:19
Alignment explanation
Indices: 1557734--1557772 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1557724 TCTTAATTAA
*
1557734 TTTAG-AATTTAGTTTTTT
1 TTTAGAAATTTAATTTTTT
1557752 TTTAGAAATTTAATTTTTT
1 TTTAGAAATTTAATTTTTT
1557771 TT
1 TT
1557773 ATTTTTCGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTAGAAATTTAATTTTTT
Found at i:1557773 original size:18 final size:18
Alignment explanation
Indices: 1557734--1557773 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1557724 TCTTAATTAA
*
1557734 TTTAGAATTTAGTTTTTT
1 TTTAGAATTTAGATTTTT
1557752 TTTAGAAATTTA-ATTTTT
1 TTTAG-AATTTAGATTTTT
1557770 TTTA
1 TTTA
1557774 TTTTTCGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTAGAATTTAGATTTTT
Found at i:1562257 original size:23 final size:23
Alignment explanation
Indices: 1562231--1562278 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1562221 AATAATCCGA
1562231 ACATAAAATAATCCAAATGAATG
1 ACATAAAATAATCCAAATGAATG
1562254 ACATAAAATAATCCAAATGAATG
1 ACATAAAATAATCCAAATGAATG
1562277 AC
1 AC
1562279 TTGAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.15, G:0.08, T:0.21
Consensus pattern (23 bp):
ACATAAAATAATCCAAATGAATG
Found at i:1562653 original size:19 final size:19
Alignment explanation
Indices: 1562612--1562656 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1562602 ATTGAATTGT
*
1562612 TTTAAAATTTAGACACTAC
1 TTTAAAATTTAGACACTAA
*
1562631 TTTAAAATTT-GACTCATAA
1 TTTAAAATTTAGACAC-TAA
1562650 TTTAAAA
1 TTTAAAA
1562657 CATTTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (19 bp):
TTTAAAATTTAGACACTAA
Found at i:1563278 original size:18 final size:17
Alignment explanation
Indices: 1563236--1563278 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
1563226 TATTTAAGTT
*
1563236 TGTAATGTTTTATATTA
1 TGTAATTTTTTATATTA
* *
1563253 TTTTATTTTTATATATTA
1 TGTAATTTTT-TATATTA
1563271 TGTAATTT
1 TGTAATTT
1563279 ATAACACGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:1566137 original size:29 final size:29
Alignment explanation
Indices: 1566087--1566144 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1566077 TTTGATTTAA
* *
1566087 TGTGTAATTGTATATACGAATTTTAATTT
1 TGTGTAATTGTATACACAAATTTTAATTT
* * *
1566116 TGTGTAATTTTATACATAAATTTTCATTT
1 TGTGTAATTGTATACACAAATTTTAATTT
1566145 GATCCAGTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.53
Consensus pattern (29 bp):
TGTGTAATTGTATACACAAATTTTAATTT
Found at i:1569857 original size:21 final size:20
Alignment explanation
Indices: 1569819--1569857 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1569809 ATATCCAATT
* *
1569819 AATTATTTTATTTTTCTTTG
1 AATTATTTTATGTGTCTTTG
1569839 AATTAGTTTTATGTGTCTT
1 AATTA-TTTTATGTGTCTT
1569858 ATCTGAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (20 bp):
AATTATTTTATGTGTCTTTG
Found at i:1572969 original size:60 final size:60
Alignment explanation
Indices: 1572876--1572993 Score: 236
Period size: 60 Copynumber: 2.0 Consensus size: 60
1572866 CGGCTTGACC
1572876 CAATTTGGATCAATTTAAATAAAATGGGTTTTTAGTGAAATATTTATTTAAAACCAAAGT
1 CAATTTGGATCAATTTAAATAAAATGGGTTTTTAGTGAAATATTTATTTAAAACCAAAGT
1572936 CAATTTGGATCAATTTAAATAAAATGGGTTTTTAGTGAAATATTTATTTAAAACCAAA
1 CAATTTGGATCAATTTAAATAAAATGGGTTTTTAGTGAAATATTTATTTAAAACCAAA
1572994 CCCAAAATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (60 bp):
CAATTTGGATCAATTTAAATAAAATGGGTTTTTAGTGAAATATTTATTTAAAACCAAAGT
Found at i:1581492 original size:23 final size:24
Alignment explanation
Indices: 1581440--1581492 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
1581430 TAATTGTTTG
* *
1581440 TAAATATGTTTAATTATATGTTTA
1 TAAACATGTTTAATTATATGTTCA
*
1581464 TGAACATG-TTAATCTA-ATGTTCA
1 TAAACATGTTTAAT-TATATGTTCA
1581487 TAAACA
1 TAAACA
1581493 AATCCTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (24 bp):
TAAACATGTTTAATTATATGTTCA
Found at i:1581556 original size:10 final size:10
Alignment explanation
Indices: 1581537--1581583 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
1581527 GTAATTTTAA
1581537 ATAAACAAAC
1 ATAAACAAAC
*
1581547 ATAAATAAAC
1 ATAAACAAAC
* *
1581557 TTAAA-AATAA
1 ATAAACAA-AC
1581567 ATAAACAAAC
1 ATAAACAAAC
1581577 ATAAACA
1 ATAAACA
1581584 GAGGCTTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (10 bp):
ATAAACAAAC
Found at i:1581909 original size:14 final size:14
Alignment explanation
Indices: 1581890--1581920 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1581880 CAAATTATTA
1581890 ATATATATACTGAT
1 ATATATATACTGAT
1581904 ATATATATACTGAT
1 ATATATATACTGAT
1581918 ATA
1 ATA
1581921 ATGTTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATATATACTGAT
Found at i:1587123 original size:17 final size:17
Alignment explanation
Indices: 1587101--1587136 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1587091 CTTAGATATG
* *
1587101 AAGTTAAAGAAATAAAA
1 AAGTTAAAAAAAGAAAA
1587118 AAGTTAAAAAAAGAAAA
1 AAGTTAAAAAAAGAAAA
1587135 AA
1 AA
1587137 AAAAAGGCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (17 bp):
AAGTTAAAAAAAGAAAA
Found at i:1589646 original size:24 final size:24
Alignment explanation
Indices: 1589618--1589664 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1589608 GACGTGATAA
1589618 ATATATTATCATATGTGTAATGCT
1 ATATATTATCATATGTGTAATGCT
1589642 ATATATTATCATATGTGTAATGC
1 ATATATTATCATATGTGTAATGC
1589665 CATGTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (24 bp):
ATATATTATCATATGTGTAATGCT
Found at i:1592022 original size:20 final size:20
Alignment explanation
Indices: 1591999--1592049 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
1591989 ATGTTATAAA
1591999 ATATATTATATTAATTATAT
1 ATATATTATATTAATTATAT
*
1592019 ATATTAATTA-A-GAATTATAT
1 ATA-T-ATTATATTAATTATAT
1592039 ATAT-TTATATT
1 ATATATTATATT
1592050 TAGATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
17 3 0.12
18 1 0.04
19 1 0.04
20 14 0.56
21 2 0.08
22 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATATTATATTAATTATAT
Found at i:1592023 original size:13 final size:14
Alignment explanation
Indices: 1592000--1592028 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1591990 TGTTATAAAA
1592000 TATATTATATTAAT
1 TATATTATATTAAT
1592014 TATA-TATATTAAT
1 TATATTATATTAAT
1592027 TA
1 TA
1592029 AGAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTATATTAAT
Found at i:1592240 original size:36 final size:37
Alignment explanation
Indices: 1592158--1592242 Score: 95
Period size: 36 Copynumber: 2.3 Consensus size: 37
1592148 AAAATTTATA
* * *
1592158 TTTAATACAATAAATATTTATTTATATTTGTTTGTGTT
1 TTTAATATAA-AAACATTTATTTATATTTGTTAGTGTT
1592196 TTTAATATAAAAACATTTA-TTATATTTGTGGTAGTG-T
1 TTTAATATAAAAACATTTATTTATATTTGT--TAGTGTT
1592233 TTT-ATATAAA
1 TTTAATATAAA
1592243 TATTTTTGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 17 0.40
37 12 0.29
38 13 0.31
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (37 bp):
TTTAATATAAAAACATTTATTTATATTTGTTAGTGTT
Found at i:1612050 original size:1 final size:1
Alignment explanation
Indices: 1612044--1612101 Score: 116
Period size: 1 Copynumber: 58.0 Consensus size: 1
1612034 ATAAACTCAT
1612044 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1612102 TTTTTTATCG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1617039 original size:17 final size:17
Alignment explanation
Indices: 1617017--1617052 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1617007 CTTAGATATG
* *
1617017 AAGTTAAAGAAATAAAA
1 AAGTTAAAAAAAGAAAA
1617034 AAGTTAAAAAAAGAAAA
1 AAGTTAAAAAAAGAAAA
1617051 AA
1 AA
1617053 AAAAAGGCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (17 bp):
AAGTTAAAAAAAGAAAA
Found at i:1619563 original size:24 final size:24
Alignment explanation
Indices: 1619535--1619581 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1619525 GACGTGATAA
1619535 ATATATTATCATATGTGTAATGCT
1 ATATATTATCATATGTGTAATGCT
1619559 ATATATTATCATATGTGTAATGC
1 ATATATTATCATATGTGTAATGC
1619582 CATGTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (24 bp):
ATATATTATCATATGTGTAATGCT
Found at i:1621943 original size:20 final size:20
Alignment explanation
Indices: 1621920--1621970 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
1621910 ATGTTATAAA
1621920 ATATATTATATTAATTATAT
1 ATATATTATATTAATTATAT
*
1621940 ATATTAATTA-A-GAATTATAT
1 ATA-T-ATTATATTAATTATAT
1621960 ATAT-TTATATT
1 ATATATTATATT
1621971 TAGATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
17 3 0.12
18 1 0.04
19 1 0.04
20 14 0.56
21 2 0.08
22 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATATTATATTAATTATAT
Found at i:1621944 original size:13 final size:14
Alignment explanation
Indices: 1621921--1621949 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1621911 TGTTATAAAA
1621921 TATATTATATTAAT
1 TATATTATATTAAT
1621935 TATA-TATATTAAT
1 TATATTATATTAAT
1621948 TA
1 TA
1621950 AGAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTATATTAAT
Found at i:1622159 original size:35 final size:36
Alignment explanation
Indices: 1622079--1622161 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
1622069 AAAATTTATA
* * *
1622079 TTTAATACAATAAATATTTATTTATATTTGTTTGTGT
1 TTTAATATAA-AAACATTTATTTATATTTGTTAGTGT
1622116 TTTAATATAAAAACATTTA-TTATATTTGTGGTAGTG-
1 TTTAATATAAAAACATTTATTTATATTTGT--TAGTGT
1622152 TTT-ATATAAA
1 TTTAATATAAA
1622162 TATTTTTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 17 0.41
36 11 0.27
37 13 0.32
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (36 bp):
TTTAATATAAAAACATTTATTTATATTTGTTAGTGT
Found at i:1635785 original size:21 final size:21
Alignment explanation
Indices: 1635761--1635815 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1635751 TAAAATTTTA
*
1635761 AATAAATCAAATTATTAATAT
1 AATAAATAAAATTATTAATAT
* *
1635782 AATAATATTAAATT-TTCATAT
1 AATAA-ATAAAATTATTAATAT
1635803 AA-AAATAAAATTA
1 AATAAATAAAATTA
1635816 CTTATAGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 7 0.24
20 2 0.07
21 13 0.45
22 7 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAAATAAAATTATTAATAT
Found at i:1642420 original size:21 final size:22
Alignment explanation
Indices: 1642394--1642434 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1642384 ACCAAGTGTG
1642394 GGCTT-AATTAGTAATTAAAAT
1 GGCTTAAATTAGTAATTAAAAT
1642415 GGCTTAAATTAGTAATTAAA
1 GGCTTAAATTAGTAATTAAA
1642435 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (22 bp):
GGCTTAAATTAGTAATTAAAAT
Found at i:1651188 original size:19 final size:19
Alignment explanation
Indices: 1651151--1651190 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1651141 TTGAGTGACT
*
1651151 AAATTAAAAAATAATTAAA
1 AAATTAAAAAATAACTAAA
1651170 AAATTAAAATAA-AACTAAA
1 AAATTAAAA-AATAACTAAA
1651189 AA
1 AA
1651191 CATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
AAATTAAAAAATAACTAAA
Found at i:1652002 original size:35 final size:35
Alignment explanation
Indices: 1651963--1652035 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
1651953 TTTAGGCATG
* *
1651963 TTTGTTAGGCCTTTGCCCGAAAAATGGGCTTAAAA
1 TTTGTTAGGCCTATGCCCGAAAAATGGGCCTAAAA
1651998 TTTGTTAGGCCTATGCCCGAAAAATGGGCCTAAAA
1 TTTGTTAGGCCTATGCCCGAAAAATGGGCCTAAAA
1652033 TTT
1 TTT
1652036 TTGCCCAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (35 bp):
TTTGTTAGGCCTATGCCCGAAAAATGGGCCTAAAA
Found at i:1666522 original size:83 final size:83
Alignment explanation
Indices: 1666383--1666548 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
1666373 AAAACACTTC
1666383 ACAACCATACCATTAGAATCCCTTAAAACAGCAGCAATACAAATTATTGACAAGCCCCAAAATTG
1 ACAACCATACCATTAGAATCCCTTAAAACAGCAGCAATACAAATTATTGACAAGCCCCAAAATTG
1666448 AATTTTAATTGACATCAT
66 AATTTTAATTGACATCAT
1666466 ACAACCATACCATTAGAATCCCTTAAAACAGCAGCAATACAAATTATTGACAAGCCCCAAAATTG
1 ACAACCATACCATTAGAATCCCTTAAAACAGCAGCAATACAAATTATTGACAAGCCCCAAAATTG
*
1666531 ATTTTTAATTGACATCAT
66 AATTTTAATTGACATCAT
1666549 TAACAAAATA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (83 bp):
ACAACCATACCATTAGAATCCCTTAAAACAGCAGCAATACAAATTATTGACAAGCCCCAAAATTG
AATTTTAATTGACATCAT
Found at i:1673379 original size:16 final size:16
Alignment explanation
Indices: 1673358--1673393 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1673348 TGGAGTATTA
*
1673358 TTATATTATATTAAAT
1 TTATATTACATTAAAT
*
1673374 TTATATTACATTATAT
1 TTATATTACATTAAAT
1673390 TTAT
1 TTAT
1673394 CTGTTAGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTACATTAAAT
Found at i:1681475 original size:103 final size:104
Alignment explanation
Indices: 1681291--1681494 Score: 356
Period size: 103 Copynumber: 2.0 Consensus size: 104
1681281 TTCATCAACT
*
1681291 AAATCTAATTTAAATTAGTGAAATTGAATTGCAAAGGAATTATTGATCTATTGGCTATTGTCATG
1 AAATCTAATTTAAATTAGTGAAATTGAATTGCAAAGGAACTATTGATCTATTGGCTATTGTCATG
*
1681356 TTCCAGTGTTATTAATTTATTTCTTT-TTTTTATAATTA
66 TTCCAATGTTATTAATTTATTTCTTTGTTTTTATAATTA
* * *
1681394 AAATTTAATTTAAATTAGTGAATTTGGATTGCAAAGGAACTATTGATCTATTGGCTATTGTCATG
1 AAATCTAATTTAAATTAGTGAAATTGAATTGCAAAGGAACTATTGATCTATTGGCTATTGTCATG
1681459 TTCCAATGTTATTAATTTATTTCTTTGTTTTTATAA
66 TTCCAATGTTATTAATTTATTTCTTTGTTTTTATAA
1681495 GCTTAATTAG
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
103 86 0.91
104 9 0.09
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (104 bp):
AAATCTAATTTAAATTAGTGAAATTGAATTGCAAAGGAACTATTGATCTATTGGCTATTGTCATG
TTCCAATGTTATTAATTTATTTCTTTGTTTTTATAATTA
Found at i:1684178 original size:24 final size:23
Alignment explanation
Indices: 1684151--1684200 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 23
1684141 TTTACGTGTT
1684151 TATTTTTA-AATTTATTAAATAATA
1 TATTTTTATAATTT-TTAAA-AATA
1684175 TATTTTTATAATTTTTAAAAATA
1 TATTTTTATAATTTTTAAAAATA
1684198 TAT
1 TAT
1684201 ATTTGCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 7 0.28
24 13 0.52
25 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTTTATAATTTTTAAAAATA
Found at i:1684210 original size:24 final size:25
Alignment explanation
Indices: 1684151--1684211 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
1684141 TTTACGTGTT
*
1684151 TATTTTTA-AATTTATTAAATAATA
1 TATTTTGATAATTTATTAAATAATA
*
1684175 TATTTTTATAATTT-TTAAA-AATA
1 TATTTTGATAATTTATTAAATAATA
*
1684198 TATATTTGCTAATT
1 TAT-TTTGATAATT
1684212 AAATGAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 7 0.21
24 21 0.64
25 5 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTTTGATAATTTATTAAATAATA
Found at i:1684568 original size:56 final size:56
Alignment explanation
Indices: 1684507--1684618 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
1684497 ACCTATGACT
1684507 AAAAATCTCAAATACAGAATAATTAATACTATATTATGTTTTTTTCTAAGTATAAA
1 AAAAATCTCAAATACAGAATAATTAATACTATATTATGTTTTTTTCTAAGTATAAA
1684563 AAAAATCTCAAATACAGAATAATTAATACTATATTATGTTTTTTTCTAAGTATAAA
1 AAAAATCTCAAATACAGAATAATTAATACTATATTATGTTTTTTTCTAAGTATAAA
1684619 TTTTTATTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.39
Consensus pattern (56 bp):
AAAAATCTCAAATACAGAATAATTAATACTATATTATGTTTTTTTCTAAGTATAAA
Found at i:1699529 original size:12 final size:13
Alignment explanation
Indices: 1699514--1699570 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
1699504 AATAGGGGTG
1699514 ATAATAATA-ATA
1 ATAATAATACATA
1699526 ATAATAATACA-A
1 ATAATAATACATA
*
1699538 ACAATAATACATA
1 ATAATAATACATA
*
1699551 CAT-ATATATATATA
1 -ATAATA-ATACATA
1699565 ATAATA
1 ATAATA
1699571 GTAGTCAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 20 0.54
13 7 0.19
14 10 0.27
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:1699671 original size:18 final size:18
Alignment explanation
Indices: 1699641--1699724 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
1699631 TGGAGAGGGC
1699641 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
1699659 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
* *
1699678 CAT-GAGA-AATAATAATA
1 -ATATAAATAATAATAATA
* *
1699695 ATATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
*
1699713 ATA-AAAAAATAA
1 ATATAAATAATAA
1699725 AAAAAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.04
17 15 0.28
18 29 0.55
19 5 0.09
20 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:1699675 original size:30 final size:32
Alignment explanation
Indices: 1699641--1699706 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
1699631 TGGAGAGGGC
1699641 ATATATA-AT-ATAATAATAATATAAATAATA
1 ATATATACATAATAATAATAATATAAATAATA
1699671 ATATATACATGAGAAATAATAATAATATAAATAATA
1 ATATATACAT----AATAATAATAATATAAATAATA
1699707 GTAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 7 0.23
31 2 0.07
36 21 0.70
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (32 bp):
ATATATACATAATAATAATAATATAAATAATA
Found at i:1700146 original size:13 final size:13
Alignment explanation
Indices: 1700113--1700177 Score: 74
Period size: 13 Copynumber: 5.6 Consensus size: 13
1700103 TTTATAGGCA
1700113 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
1700125 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
1700135 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
1700148 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
1700160 A---GAGTGGTTT
1 AGTGGAGTGGTTT
1700170 AGTGGAGT
1 AGTGGAGT
1700178 AAAGATATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
9 10 0.22
10 7 0.16
11 2 0.04
12 5 0.11
13 21 0.47
ACGTcount: A:0.15, C:0.00, G:0.49, T:0.35
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:1701509 original size:47 final size:47
Alignment explanation
Indices: 1701400--1701510 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
1701390 CCGGGATAAG
* * *
1701400 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
1701447 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
1701494 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
1701511 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:1703182 original size:3 final size:3
Alignment explanation
Indices: 1703176--1703200 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1703166 AAAAAAAAAA
1703176 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
1703201 TATCATCGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1706974 original size:15 final size:15
Alignment explanation
Indices: 1706950--1706984 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1706940 GTTTTGATAG
*
1706950 TAATAGTAATGGCAA
1 TAATACTAATGGCAA
*
1706965 TAATACTAATGGTAA
1 TAATACTAATGGCAA
1706980 TAATA
1 TAATA
1706985 AACGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (15 bp):
TAATACTAATGGCAA
Found at i:1707131 original size:14 final size:14
Alignment explanation
Indices: 1707112--1707153 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
1707102 AAAAATATAA
1707112 TAATAATATAATAG
1 TAATAATATAATAG
* *
1707126 TAATAATACAATGG
1 TAATAATATAATAG
1707140 TAATAATACTAATA
1 TAATAATA-TAATA
1707154 AAAGTTAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (14 bp):
TAATAATATAATAG
Found at i:1707226 original size:3 final size:3
Alignment explanation
Indices: 1707220--1707247 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1707210 AAGGTGGTGG
1707220 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1707248 GAAGACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1709875 original size:26 final size:26
Alignment explanation
Indices: 1709839--1709922 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
1709829 TGATACAAAT
1709839 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1709865 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1709891 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1709917 TGATAA
1 TGATAA
1709923 GAATTTCATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1715759 original size:23 final size:24
Alignment explanation
Indices: 1715712--1715759 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
1715702 AGGTGGAGAT
1715712 TGTTGAAAAGACAAATTAAAATGGG
1 TGTTGAAAAGACAAA-TAAAATGGG
*
1715737 TGTTGAAAAGTCAAA-AAAATGGG
1 TGTTGAAAAGACAAATAAAATGGG
1715760 AGGTGCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
25 14 0.64
ACGTcount: A:0.48, C:0.04, G:0.25, T:0.23
Consensus pattern (24 bp):
TGTTGAAAAGACAAATAAAATGGG
Found at i:1718484 original size:12 final size:12
Alignment explanation
Indices: 1718467--1718492 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1718457 AGAGATAGTG
1718467 ATAATAGTAATA
1 ATAATAGTAATA
1718479 ATAATAGTAATA
1 ATAATAGTAATA
1718491 AT
1 AT
1718493 GTAAATAATA
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:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGTAATA
Found at i:1718485 original size:21 final size:21
Alignment explanation
Indices: 1718461--1718504 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1718451 CATAAAAGAG
*
1718461 ATAGTGATAATAGT-AATAATA
1 ATAGTAATAAT-GTAAATAATA
1718482 ATAGTAATAATGTAAATAATA
1 ATAGTAATAATGTAAATAATA
1718503 AT
1 AT
1718505 GTATATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (21 bp):
ATAGTAATAATGTAAATAATA
Found at i:1718501 original size:12 final size:12
Alignment explanation
Indices: 1718486--1718541 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
1718476 ATAATAATAG
1718486 TAATAATGTAAA
1 TAATAATGTAAA
*
1718498 TAATAATGTATA
1 TAATAATGTAAA
* *
1718510 T-ATGTATG-AGA
1 TAAT-AATGTAAA
1718521 -AATAATGTAAA
1 TAATAATGTAAA
1718532 TAATAATGTA
1 TAATAATGTA
1718542 TATATGTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
10 3 0.09
11 8 0.23
12 24 0.69
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (12 bp):
TAATAATGTAAA
Found at i:1718550 original size:8 final size:8
Alignment explanation
Indices: 1718537--1718565 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1718527 GTAAATAATA
1718537 ATGTATAT
1 ATGTATAT
1718545 ATGTATAT
1 ATGTATAT
1718553 ATGTATAT
1 ATGTATAT
1718561 ATGTA
1 ATGTA
1718566 AAACGACGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (8 bp):
ATGTATAT
Found at i:1726454 original size:50 final size:50
Alignment explanation
Indices: 1726379--1726666 Score: 360
Period size: 50 Copynumber: 5.5 Consensus size: 50
1726369 CCATGGCAAC
* *
1726379 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
1726429 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
1726479 AAGTGATAAGTGATAGCTTTGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAATGA
1 AAGTG---A-T-A-A-----GTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1726540 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
1726590 AAGTGATAAGTGACAGCTTCAGCTACACTTATCTGTTCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
1726641 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
1726667 CTGATCAATG
Statistics
Matches: 209, Mismatches: 17, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
50 136 0.65
51 22 0.11
53 1 0.00
54 1 0.00
55 2 0.01
56 2 0.01
57 1 0.00
58 1 0.00
61 43 0.21
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:1726517 original size:111 final size:111
Alignment explanation
Indices: 1726388--1726608 Score: 388
Period size: 111 Copynumber: 2.0 Consensus size: 111
1726378 CAAGTGATAA
* *
1726388 GTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGAAAGTGATAAGTGATAGCTTCGGCT
1 GTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCGGCT
* *
1726453 ACACTTATCTGATTAAGGACAAATGAAAGTGATAAGTGATAGCTTT
66 ACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGACAGCTTT
* *
1726499 GTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAATGAAAGTGATAAGTGATAGCTTCGGCT
1 GTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCGGCT
1726564 ACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGACAGCTT
66 ACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGACAGCTT
1726609 CAGCTACACT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (111 bp):
GTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCGGCT
ACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGACAGCTTT
Found at i:1726684 original size:31 final size:31
Alignment explanation
Indices: 1726646--1726704 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
1726636 ATGGCAAGTA
1726646 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1726677 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
1726705 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:1726726 original size:46 final size:46
Alignment explanation
Indices: 1726659--1726750 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
1726649 AGTGGTAGCT
* *
1726659 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
1726705 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
1726751 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:1726754 original size:31 final size:31
Alignment explanation
Indices: 1726706--1726774 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
1726696 ACCTGATCAT
* * *
1726706 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
1726737 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
1726768 CGGCTAC
1 CGGCTAC
1726775 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:1730102 original size:38 final size:38
Alignment explanation
Indices: 1730039--1730117 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
1730029 TACTAAAATT
*
1730039 TTAAAAATATTTAAATTTTATATTTATATATTATAATA
1 TTAAAAATATTTAAATTTTAAATTTATATATTATAATA
* *
1730077 TTAAATATCATTTAAA-TTTAAATTTATGTATTATAATA
1 TTAAAAAT-ATTTAAATTTTAAATTTATATATTATAATA
1730115 TTA
1 TTA
1730118 GCAAATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 30 0.81
39 7 0.19
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (38 bp):
TTAAAAATATTTAAATTTTAAATTTATATATTATAATA
Found at i:1730903 original size:23 final size:23
Alignment explanation
Indices: 1730859--1730904 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1730849 CAAATTTTTT
**
1730859 GAATTTTTTATTTTGACTATTTA
1 GAATTTTTTATTTTGAAAATTTA
*
1730882 GAATTTTTTATTTTTAAAATTTA
1 GAATTTTTTATTTTGAAAATTTA
1730905 TTACAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
GAATTTTTTATTTTGAAAATTTA
Found at i:1732693 original size:14 final size:16
Alignment explanation
Indices: 1732669--1732700 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1732659 AAATTTTCTC
1732669 TTAAGCCCAAA-TAAA
1 TTAAGCCCAAATTAAA
1732684 TTAA-CCCAAATTAAA
1 TTAAGCCCAAATTAAA
1732699 TT
1 TT
1732701 CTCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (16 bp):
TTAAGCCCAAATTAAA
Found at i:1768392 original size:39 final size:39
Alignment explanation
Indices: 1768349--1768427 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
1768339 ATTGCTTATA
*
1768349 AATTCTAAATATAGCATTTATTATACTTTTACGTATTTT
1 AATTCTAAATATAGCATTTATTATACTTTTACATATTTT
1768388 AATTCTAAATATAGCATTTATTATACTTTTACATATTTT
1 AATTCTAAATATAGCATTTATTATACTTTTACATATTTT
1768427 A
1 A
1768428 TAAGTAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (39 bp):
AATTCTAAATATAGCATTTATTATACTTTTACATATTTT
Found at i:1769733 original size:13 final size:13
Alignment explanation
Indices: 1769715--1769774 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
1769705 ACTGAACTTG
1769715 AATTTAATAACAT
1 AATTTAATAACAT
1769728 AATTTAATAACAT
1 AATTTAATAACAT
* * *
1769741 --TGTACTGAACTT
1 AATTTAAT-AACAT
1769753 GAATTTAATAACAT
1 -AATTTAATAACAT
1769767 AATTTAAT
1 AATTTAAT
1769775 GGTTGAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 4 0.11
12 4 0.11
13 21 0.57
14 4 0.11
15 4 0.11
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (13 bp):
AATTTAATAACAT
Found at i:1769736 original size:39 final size:39
Alignment explanation
Indices: 1769693--1769774 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
1769683 TGAACTAAAA
1769693 TAATAACATTGTACTGAACTTGAATTTAATAACATAATT
1 TAATAACATTGTACTGAACTTGAATTTAATAACATAATT
1769732 TAATAACATTGTACTGAACTTGAATTTAATAACATAATT
1 TAATAACATTGTACTGAACTTGAATTTAATAACATAATT
1769771 TAAT
1 TAAT
1769775 GGTTGAAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (39 bp):
TAATAACATTGTACTGAACTTGAATTTAATAACATAATT
Found at i:1774670 original size:23 final size:21
Alignment explanation
Indices: 1774641--1774695 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
1774631 AATACTACTC
1774641 TAATATAAATAT-TAAAATAATGT
1 TAATATAAATATAT-AAA-AAT-T
*
1774664 TAATATAACTATATAAAAATT
1 TAATATAAATATATAAAAATT
1774685 TAATATAAATA
1 TAATATAAATA
1774696 AAATTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.38
22 3 0.10
23 14 0.48
24 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
TAATATAAATATATAAAAATT
Found at i:1775354 original size:23 final size:22
Alignment explanation
Indices: 1775314--1775359 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1775304 AACCGTTAAA
* **
1775314 TAAATATGTTCATGAATATATAT
1 TAAACATGTTCACAAATA-ATAT
1775337 TAAACATGTTCACAAATAATAT
1 TAAACATGTTCACAAATAATAT
1775359 T
1 T
1775360 TATGGATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (22 bp):
TAAACATGTTCACAAATAATAT
Found at i:1777412 original size:21 final size:21
Alignment explanation
Indices: 1777388--1777429 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1777378 GTGAGTTAGA
1777388 ATGGGATCTGTTGGCTTCTAT
1 ATGGGATCTGTTGGCTTCTAT
1777409 ATGGGATCTGTTGGCTTCTAT
1 ATGGGATCTGTTGGCTTCTAT
1777430 TCGTTCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (21 bp):
ATGGGATCTGTTGGCTTCTAT
Found at i:1780278 original size:152 final size:152
Alignment explanation
Indices: 1780002--1780304 Score: 570
Period size: 152 Copynumber: 2.0 Consensus size: 152
1779992 CTTCATCATA
* *
1780002 TAGTCATATTCCTAGTCGTGTAGTCGGTGAGGTGCAAGTTACCTTTGATTATGTTGTCAGTAGTC
1 TAGTCATATTCCTAGTAGTGTAGTCGGTGAGGTGCAAGTTACCTTTGATTATGTTGCCAGTAGTC
1780067 TCTCTTGCTTGTCTCTCTCCGTTTGAATCTTTAGATTTTGAATCTGTTGTTGTGATGATATTACT
66 TCTCTTGCTTGTCTCTCTCCGTTTGAATCTTTAGATTTTGAATCTGTTGTTGTGATGATATTACT
*
1780132 GATTAGTAAATAATTACCGCAC
131 GATCAGTAAATAATTACCGCAC
1780154 TAGTCATATTCCTAGTAGTGTAGTCGGTGAGGTGCAAGTTACCTTTGATTATGTTGCCAGTAGTC
1 TAGTCATATTCCTAGTAGTGTAGTCGGTGAGGTGCAAGTTACCTTTGATTATGTTGCCAGTAGTC
*
1780219 TCTCTTGCTTGTCTCTCTTCGTTTGAATCTTTAGATTTTGAATCTGTTGTTGTGATGATATTACT
66 TCTCTTGCTTGTCTCTCTCCGTTTGAATCTTTAGATTTTGAATCTGTTGTTGTGATGATATTACT
1780284 GATCAGTAAATAATTACCGCA
131 GATCAGTAAATAATTACCGCA
1780305 TTTCATCTTC
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 147 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.42
Consensus pattern (152 bp):
TAGTCATATTCCTAGTAGTGTAGTCGGTGAGGTGCAAGTTACCTTTGATTATGTTGCCAGTAGTC
TCTCTTGCTTGTCTCTCTCCGTTTGAATCTTTAGATTTTGAATCTGTTGTTGTGATGATATTACT
GATCAGTAAATAATTACCGCAC
Found at i:1782267 original size:12 final size:12
Alignment explanation
Indices: 1782250--1782309 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
1782240 ATAAATAAAA
1782250 TTTAATTTAATT
1 TTTAATTTAATT
1782262 TTTAATTTAATGT
1 TTTAATTTAAT-T
* * ** **
1782275 ATAAAAATAAAA
1 TTTAATTTAATT
1782287 TTTAATTTAATT
1 TTTAATTTAATT
1782299 TTTAATTTAAT
1 TTTAATTTAAT
1782310 GTATAAAAAT
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
12 28 0.80
13 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TTTAATTTAATT
Found at i:1782292 original size:37 final size:37
Alignment explanation
Indices: 1782242--1782319 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
1782232 AAAAATAAAT
1782242 AAATAAAATTTAATTTAATTTTTAATTTAATGTATAA
1 AAATAAAATTTAATTTAATTTTTAATTTAATGTATAA
1782279 AAATAAAATTTAATTTAATTTTTAATTTAATGTATAA
1 AAATAAAATTTAATTTAATTTTTAATTTAATGTATAA
1782316 AAAT
1 AAAT
1782320 TAATTTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (37 bp):
AAATAAAATTTAATTTAATTTTTAATTTAATGTATAA
Found at i:1783306 original size:31 final size:31
Alignment explanation
Indices: 1783270--1783372 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 31
1783260 AAAAATCTTC
*
1783270 ATTAAGCCCTTCAAAAATTTTGAAATTTTTA
1 ATTAAGCCCTTCAAATATTTTGAAATTTTTA
* ** * * *
1783301 CTTAAGATC-GCAATTTTTTTGAAATTTTTA
1 ATTAAGCCCTTCAAATATTTTGAAATTTTTA
* *
1783331 ATTAAGCCCTACAAATATTTTGAAACTTTTA
1 ATTAAGCCCTTCAAATATTTTGAAATTTTTA
*
1783362 ATTAAACCCTT
1 ATTAAGCCCTT
1783373 TAGAATTCCA
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
30 23 0.42
31 32 0.58
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTAAGCCCTTCAAATATTTTGAAATTTTTA
Found at i:1808160 original size:42 final size:42
Alignment explanation
Indices: 1808098--1808262 Score: 188
Period size: 42 Copynumber: 3.8 Consensus size: 42
1808088 CTTCGTTTTC
**
1808098 TCGATGCCATAGTTCAGCTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * * *
1808141 T-AATGCCATAGCCCAGCTATGGTCTTACATATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
1808182 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
1808231 TCGATGCCATAGCCCAACTATGGTCTTACACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACA
1808263 AATCACATAT
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 60 0.58
43 1 0.01
45 2 0.02
46 1 0.01
48 1 0.01
49 36 0.35
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:1808242 original size:49 final size:48
Alignment explanation
Indices: 1808143--1808351 Score: 181
Period size: 47 Copynumber: 4.5 Consensus size: 48
1808133 TCACATAATA
* *
1808143 ATGCCATAGCCCAGCTATGGTCTTACA--T-AT---AT-TCATATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA-ATCG
*
1808185 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA-ATCG
* * *
1808234 ATGCCATAGCCCA-ACTATGGTCTTACAC-AAATCACATATCTCACT-G
1 ATGCCATAGCCCAGA-TATGGTCTTACACGTAATCACATATCACAATCG
* * * * *
1808280 ATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-ACCG
1 ATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACAATCG
* *
1808327 CTGCCATATCCCAGATATGGTCTTA
1 ATGCCATAGCCCAGATATGGTCTTA
1808352 TACGGAAATC
Statistics
Matches: 141, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
42 27 0.19
44 1 0.01
45 2 0.01
46 25 0.18
47 36 0.26
48 15 0.11
49 35 0.25
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
ATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAATCG
Found at i:1808363 original size:95 final size:94
Alignment explanation
Indices: 1808143--1808351 Score: 225
Period size: 95 Copynumber: 2.3 Consensus size: 94
1808133 TCACATAATA
* * * * * *
1808143 ATGCCATAGCCCAGCTATGGTCTTACATATAT-TCATATAT--C-GATGCCATAGCCCAGCTATG
1 ATGCCATAGCCCAACTATGGTCTTACACAAATCACATATCTCACTGATGCCATAGCCCAGATATG
* *
1808204 GTCTTACACGTAATCACATATCACATATCG
66 GTCTTACACGTAAGCACATATCACA-ACCG
*
1808234 ATGCCATAGCCCAACTATGGTCTTACACAAATCACATATCTCACTGATGCCATATCCCAGATATG
1 ATGCCATAGCCCAACTATGGTCTTACACAAATCACATATCTCACTGATGCCATAGCCCAGATATG
* *
1808299 GTCTTATACAGT-AGCATATATCAC-ACCG
66 GTCTTACAC-GTAAGCACATATCACAACCG
* *
1808327 CTGCCATATCCCAGA-TATGGTCTTA
1 ATGCCATAGCCCA-ACTATGGTCTTA
1808352 TACGGAAATC
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
91 29 0.29
92 6 0.06
93 24 0.24
94 2 0.02
95 36 0.36
96 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (94 bp):
ATGCCATAGCCCAACTATGGTCTTACACAAATCACATATCTCACTGATGCCATAGCCCAGATATG
GTCTTACACGTAAGCACATATCACAACCG
Found at i:1808408 original size:31 final size:31
Alignment explanation
Indices: 1808373--1808459 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 31
1808363 CTTGTCACTT
*
1808373 GTAGCAGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1808404 GTAGCCAG-AGCTACCACTTTTCACTGATCAG
1 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
*
1808435 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
1808460 TGTCATTTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.04
31 47 0.90
32 3 0.06
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:1808541 original size:50 final size:51
Alignment explanation
Indices: 1808435--1808563 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
1808425 CACTGATCAG
* * * *
1808435 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAATT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
1808486 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGT-CTCTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCT-TGATCAGATAAGT
1808536 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
1808564 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
49 2 0.03
50 44 0.62
51 25 0.35
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:1812222 original size:89 final size:89
Alignment explanation
Indices: 1812068--1812940 Score: 575
Period size: 89 Copynumber: 10.0 Consensus size: 89
1812058 TATTGTCTGT
* * * * * * *
1812068 GGTCGGGGTTTTGT-T-TCGACTCTGCCTAGACTCC-GAT-AGGGTGACACAGTTGAGCGTCTTG
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTG-TCAGGATGACAGAGTTGAGTGTCTTG
* *
1812129 TAGTAACAGGTGAATCTATGTCTTC
65 TAGTAACAGGTGAAACTATGTCCTC
* ** *
1812154 GGTCGAGGTTTTGTCTCCCGCCTCTGTCGAGAATCCTGTCAGGATG-CTAGAGTTGAGTGTCTTG
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGAC-AGAGTTGAGTGTCTTG
* * * *
1812218 TAGTAGCAGTTGAATCTATATCCTC
65 TAGTAACAGGTGAAACTATGTCCTC
* * * * * * * * *
1812243 GGTGGAGCTTTTGTCTCCCGATTCTGCCGAGAATACTGTCAGGTTGATAGAGTCGAGTGTCTTGT
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGACAGAGTTGAGTGTCTTGT
*
1812308 AGTAACAGGTGAAACCATGTCGCT-
66 AGTAACAGGTGAAACTATGTC-CTC
* * * *
1812332 -GTCTAGG--TTGTCTTCCGACTCTACCGAGACTCCTGAT-AGGATGACAGAGTTGTGTGTCATG
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTG-TCAGGATGACAGAGTTGAGTGTCTTG
* *
1812393 TAGTAACAGGTGAAACTATATCCCC
65 TAGTAACAGGTGAAACTATGTCCTC
* * * * *
1812418 GGTCGAGGTTTTGTC-CACCGGCTCTACAGAGACTCCTGTTAGG-TGGACAAAGTTGAGTGTTTT
1 GGTCGAGGTTTTGTCTC-CCGACTCTACCGAGACTCCTGTCAGGAT-GACAGAGTTGAGTGTCTT
** * *
1812481 GCGGTAACAAGTGAAACTGTGTCC-C
64 GTAGTAACAGGTGAAACTATGTCCTC
** * * * * ** * *
1812506 TTTTGAGCTTTTGTCTCCCGACTCTATCAAGACTCCAATTAGGTTGACAGAGTTGAGTGTCTTGT
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGACAGAGTTGAGTGTCTTGT
* *
1812571 AGTAACAGGTGAAACCATGTCCTA
66 AGTAACAGGTGAAACTATGTCCTC
* * * ** * * *
1812595 GGTTGAGGTTTTGTCTCCTGACTCTACTGAGACTATTGT-AGGTTGACAGAATT--GTG--ATGT
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGACAGAGTTGAGTGTCTTGT
*
1812655 AGTAACAGGTGAAACCATGTTCCT-
66 AGTAACAGGTGAAACTATG-TCCTC
* * ** * * * * * *
1812679 GGTCGAAGTTTTATCTCCTAACTCTACCGAGACTCTTATTAGGTTGATAGAGTTGAGTTTCTTGT
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGACAGAGTTGAGTGTCTTGT
* * *
1812744 AGTAACAAGCGAAACCATGT-CTCC
66 AGTAACAGGTGAAACTATGTCCT-C
* * * * * * * * * * * *
1812768 TGTCAAGTTTTTGTTTCCCTACTTTACCGAGACTCATATTAGGTTGACAGAGTTGAGTGTTTTAT
1 GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGACAGAGTTGAGTGTCTTGT
* **
1812833 ACTAACAGGTG-AACCGTGTCC-C
66 AGTAACAGGTGAAACTATGTCCTC
* * * ** * * * * * *
1812855 TGGTCAAGGTTCTGTGTCCTAACTCTACCAAGAATCCTATCAGGTTGACAGAGTTGAATTTCTTG
1 -GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGACAGAGTTGAGTGTCTTG
* *
1812920 TAGTAACAGCTGAAACCATGT
65 TAGTAACAGGTGAAACTATGT
1812941 GAAACTAAAG
Statistics
Matches: 622, Mismatches: 136, Indels: 55
0.77 0.17 0.07
Matches are distributed among these distances:
84 54 0.09
85 17 0.03
86 78 0.13
87 13 0.02
88 169 0.27
89 289 0.46
90 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (89 bp):
GGTCGAGGTTTTGTCTCCCGACTCTACCGAGACTCCTGTCAGGATGACAGAGTTGAGTGTCTTGT
AGTAACAGGTGAAACTATGTCCTC
Found at i:1812432 original size:175 final size:175
Alignment explanation
Indices: 1812123--1812750 Score: 470
Period size: 175 Copynumber: 3.6 Consensus size: 175
1812113 ACAGTTGAGC
* * * * * * *
1812123 GTCTTGTAGTAACAGGTGAATCTATGTCTTCGGTCGAGGTTTTGTCTCCCGCCTCTGTCGAGAAT
1 GTCTTGTAGTAACAGGTGAAACTATGTC-CCTGTCTAGG--TTGTCTCCCGACTCTATCGAGACT
* * * * *
1812188 CCTG-TCAGGATG-CTAGAGTTGAGTGTCTTGTAGTAGCAGTTGAATCTATATCCTCGGTGGAGC
63 CCTGAT-AGGATGAC-AGAGTTGAGTGTCTTGTAGTAACAGGTGAAACTATATCCTCGGTCGAGG
* * * * * *
1812251 TTTTGTCTCCCGATTCTGCCGAGAATACTGTCAGGTTGATAGAGTCGAGT
126 TTTTGTCTCCCGACTCTACAGAGAATACTGTCAGGTGGACAAAGTCGAGT
* * * *
1812301 GTCTTGTAGTAACAGGTGAAACCATGTCGCTGTCTAGGTTGTCTTCCGACTCTACCGAGACTCCT
1 GTCTTGTAGTAACAGGTGAAACTATGTCCCTGTCTAGGTTGTCTCCCGACTCTATCGAGACTCCT
* * *
1812366 GATAGGATGACAGAGTTGTGTGTCATGTAGTAACAGGTGAAACTATATCCCCGGTCGAGGTTTTG
66 GATAGGATGACAGAGTTGAGTGTCTTGTAGTAACAGGTGAAACTATATCCTCGGTCGAGGTTTTG
* * * * *
1812431 TC-CACCGGCTCTACAGAGACTCCTGTTAGGTGGACAAAGTTGAGT
131 TCTC-CCGACTCTACAGAGAATACTGTCAGGTGGACAAAGTCGAGT
* ** * * * * *
1812476 GTTTTGCGGTAACAAGTGAAACTGTGTCCCT-TTTGAGCTTTTGTCTCCCGACTCTATCAAGACT
1 GTCTTGTAGTAACAGGTGAAACTATGTCCCTGTCT-AG--GTTGTCTCCCGACTCTATCGAGACT
* * * * * *
1812540 CC-AATTAGGTTGACAGAGTTGAGTGTCTTGTAGTAACAGGTGAAACCATGTCCTAGGTTGAGGT
63 CCTGA-TAGGATGACAGAGTTGAGTGTCTTGTAGTAACAGGTGAAACTATATCCTCGGTCGAGGT
* * * * *
1812604 TTTGTCTCCTGACTCTACTGAGACTATTGT-AGGTTGACAGAA-T----T
127 TTTGTCTCCCGACTCTACAGAGAATACTGTCAGGTGGACA-AAGTCGAGT
** * * * * * ** *
1812648 GTGATGTAGTAACAGGTGAAACCATGTTCCTGGTCGAAGTTTTATCTCCTAACTCTACCGAGACT
1 GTCTTGTAGTAACAGGTGAAACTATGTCCCT-GTC-TAG-GTTGTCTCCCGACTCTATCGAGACT
* * * *
1812713 -CTTATTAGGTTGATAGAGTTGAGTTTCTTGTAGTAACA
63 CCTGA-TAGGATGACAGAGTTGAGTGTCTTGTAGTAACA
1812751 AGCGAAACCA
Statistics
Matches: 363, Mismatches: 74, Indels: 31
0.78 0.16 0.07
Matches are distributed among these distances:
172 25 0.07
173 54 0.15
174 6 0.02
175 133 0.37
176 12 0.03
177 106 0.29
178 27 0.07
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (175 bp):
GTCTTGTAGTAACAGGTGAAACTATGTCCCTGTCTAGGTTGTCTCCCGACTCTATCGAGACTCCT
GATAGGATGACAGAGTTGAGTGTCTTGTAGTAACAGGTGAAACTATATCCTCGGTCGAGGTTTTG
TCTCCCGACTCTACAGAGAATACTGTCAGGTGGACAAAGTCGAGT
Found at i:1812910 original size:177 final size:173
Alignment explanation
Indices: 1812526--1812940 Score: 448
Period size: 173 Copynumber: 2.4 Consensus size: 173
1812516 TTGTCTCCCG
* * * * *
1812526 ACTCTATCAAGACTCCAATTAGGTTGACAGAGTTGAGTGTCTTGTAGTAACAGGTGAAACCATG-
1 ACTCTACCAAGACTCCTATTAGGTTGACAGAGTTGAGTTTCTTGTAGTAACAAGCGAAACCATGT
** * *
1812590 TCCTAGGTTGAGGTTTTGTCTCCTGACTCTACTGAGACTATTGTAGGTTGACAGAATTGTGATGT
66 TCCTA-GTCAAGGTTTTGTCTCCTGACTCTACCGAGACTATTGTAGGTTGACAGAATTGTGATAT
* * *
1812655 AGTAACAGGTGAAACCATGTTCCTGGTCGAAGTTTTATCTCCTA
130 ACTAACAGGTGAAACCATGTCCCTGGTCGAAGTTCTATCTCCTA
* * *
1812699 ACTCTACCGAGACTCTTATTAGGTTGATAGAGTTGAGTTTCTTGTAGTAACAAGCGAAACCATGT
1 ACTCTACCAAGACTCCTATTAGGTTGACAGAGTTGAGTTTCTTGTAGTAACAAGCGAAACCATGT
* * * *
1812764 CTCCT-GTCAAGTTTTTGTTTCCCT-ACTTTACCGAGACTCATAT-TAGGTTGACAGAGTTGAGT
66 -TCCTAGTCAAGGTTTTGTCT-CCTGACTCTACCGAGACT-AT-TGTAGGTTGACAGAATT--GT
* * * *
1812826 GTTTTATACTAACAGGTG-AACCGTGTCCCTGGTC-AAGGTTCTGTGTCCTA
125 G--ATATACTAACAGGTGAAACCATGTCCCTGGTCGAA-GTTCTATCTCCTA
* * *
1812876 ACTCTACCAAGAATCCTATCAGGTTGACAGAGTTGAATTTCTTGTAGTAAC-AGCTGAAACCATG
1 ACTCTACCAAGACTCCTATTAGGTTGACAGAGTTGAGTTTCTTGTAGTAACAAGC-GAAACCATG
1812940 T
65 T
1812941 GAAACTAAAG
Statistics
Matches: 202, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
173 79 0.39
174 19 0.09
175 5 0.02
176 8 0.04
177 79 0.39
178 12 0.06
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (173 bp):
ACTCTACCAAGACTCCTATTAGGTTGACAGAGTTGAGTTTCTTGTAGTAACAAGCGAAACCATGT
TCCTAGTCAAGGTTTTGTCTCCTGACTCTACCGAGACTATTGTAGGTTGACAGAATTGTGATATA
CTAACAGGTGAAACCATGTCCCTGGTCGAAGTTCTATCTCCTA
Found at i:1822124 original size:12 final size:13
Alignment explanation
Indices: 1822109--1822137 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1822099 GATTCATATT
1822109 TAATTTA-TTTAA
1 TAATTTATTTTAA
1822121 TAATTTATTTTAA
1 TAATTTATTTTAA
1822134 TAAT
1 TAAT
1822138 AAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAATTTATTTTAA
Found at i:1822219 original size:12 final size:12
Alignment explanation
Indices: 1822202--1822231 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1822192 GCCTAAAAGG
*
1822202 AAAAAAAAGTAT
1 AAAAAAAAGTAC
1822214 AAAAAAAAGTAC
1 AAAAAAAAGTAC
1822226 AAAAAA
1 AAAAAA
1822232 GAGCAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAAAAGTAC
Found at i:1825114 original size:16 final size:15
Alignment explanation
Indices: 1825069--1825115 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
1825059 TCTTAATTCT
1825069 TAATTAATTTTAT-AA
1 TAATT-ATTTTATAAA
*
1825084 TAATTATTATAATAAA
1 TAATTATT-TTATAAA
1825100 TAATTATTTTGATAAA
1 TAATTATTTT-ATAAA
1825116 AGAACCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 15 0.56
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TAATTATTTTATAAA
Found at i:1826113 original size:3 final size:3
Alignment explanation
Indices: 1826105--1826135 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1826095 AGTGTTATAT
1826105 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1826136 AGGAAATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1826844 original size:17 final size:17
Alignment explanation
Indices: 1826814--1826846 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1826804 AATATTAATT
1826814 ATTTTATTTTTATTATG
1 ATTTTATTTTTATTATG
1826831 ATTTT-TTTTGTATTAT
1 ATTTTATTTT-TATTAT
1826847 ATTAGATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTTATTATG
Found at i:1833099 original size:14 final size:13
Alignment explanation
Indices: 1833080--1833113 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1833070 ATTATCTTAT
1833080 TTTTTTTCAAATAA
1 TTTTTTTC-AATAA
*
1833094 TTTTTTTCAATGA
1 TTTTTTTCAATAA
1833107 TTTTTTT
1 TTTTTTT
1833114 ATGCTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTTTTCAATAA
Done.