Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 67 of 221
Found at i:19467755 original size:17 final size:18
Alignment explanation
Indices: 19467724--19467775 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
19467714 AGAAAATCCA
*
19467724 TTAATGTTTTATCTATATT
1 TTAAT-TTTTTTCTATATT
*
19467743 TT-ATTTTTTTCTACATT
1 TTAATTTTTTTCTATATT
19467760 TTAATTATTTTT-TATA
1 TTAATT-TTTTTCTATA
19467776 CCCTGCGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 13 0.46
18 8 0.29
19 7 0.25
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (18 bp):
TTAATTTTTTTCTATATT
Found at i:19474770 original size:133 final size:133
Alignment explanation
Indices: 19474531--19474790 Score: 434
Period size: 133 Copynumber: 2.0 Consensus size: 133
19474521 CAAACTCTGA
19474531 TAACCCTCATGCAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
1 TAACCCTCATGCAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
* *
19474596 TTAAAACATCTAACATGCAGAGCTATAATACTTACCTAGAGATGGAATGATCACTAATTAAAACC
66 TTAAAACATCTAACATACAGAGCTATAATACTTACCTAGAGATAGAATGATCACTAATTAAAACC
19474661 TAG
131 TAG
* *
19474664 TAACCCTCATGCAAAGCCTTATACTTACAACTTGTTGTTCATATACCACATATAGACTCATT-TT
1 TAACCCTCATGCAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
* *
19474728 TTCAAATCATCTAACATACAGAGCTGTAATACTTA-CTCAGAGATAGAATGATCACTAATTAAA
66 TT-AAAACATCTAACATACAGAGCTATAATACTTACCT-AGAGATAGAATGATCACTAATTAAA
19474791 CCAAGAATCC
Statistics
Matches: 119, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
132 6 0.05
133 113 0.95
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (133 bp):
TAACCCTCATGCAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
TTAAAACATCTAACATACAGAGCTATAATACTTACCTAGAGATAGAATGATCACTAATTAAAACC
TAG
Found at i:19483506 original size:32 final size:32
Alignment explanation
Indices: 19483470--19483532 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
19483460 ACCCTAGGAC
19483470 GAAATGCCTATAAAAATCCAAAGGATGAAGCT
1 GAAATGCCTATAAAAATCCAAAGGATGAAGCT
19483502 GAAATGCCTATAAAAATCCAAAGGATGAAGC
1 GAAATGCCTATAAAAATCCAAAGGATGAAGC
19483533 CCTAAGGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (32 bp):
GAAATGCCTATAAAAATCCAAAGGATGAAGCT
Found at i:19498944 original size:39 final size:39
Alignment explanation
Indices: 19498901--19498975 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
19498891 GATGTTTTTC
* *
19498901 AGTATTGGGATATATGCTTG-AGTGTTATGTGATTATTTG
1 AGTATTGAGATATATGCTTGTA-TGTTAGGTGATTATTTG
19498940 AGTATTGAGATATATGCTTGTATGTTAGGTGATTAT
1 AGTATTGAGATATATGCTTGTATGTTAGGTGATTAT
19498976 ATGTGTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (39 bp):
AGTATTGAGATATATGCTTGTATGTTAGGTGATTATTTG
Found at i:19501202 original size:42 final size:42
Alignment explanation
Indices: 19501143--19501300 Score: 185
Period size: 42 Copynumber: 3.8 Consensus size: 42
19501133 AAACAATGAG
* * *
19501143 TCACATGGCCTGGACACATGCCCATGTCCTAGCCCGTGTGGC
1 TCACACGGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGC
19501185 TCACACGGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGC
1 TCACACGGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGC
* * * * *
19501227 TCACATGGCTTGGGCACACGCCCATGTCCTTTCTCACGTG-AGC
1 TCACACGGCCTGGACACACGCCCATGTCCTTGC-C-CGTGTGGC
* * *
19501270 -CACACGACCTGGGCACATGCCCATGTCCTTG
1 TCACACGGCCTGGACACACGCCCATGTCCTTG
19501301 GCCATATGGC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 94 0.93
43 3 0.03
44 4 0.04
ACGTcount: A:0.16, C:0.37, G:0.25, T:0.22
Consensus pattern (42 bp):
TCACACGGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGC
Found at i:19503366 original size:146 final size:146
Alignment explanation
Indices: 19503102--19503382 Score: 490
Period size: 146 Copynumber: 1.9 Consensus size: 146
19503092 TTGTAACCAG
*
19503102 ATTAAAGACATAGATTTAGCGAGCCATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
1 ATTAAAGACATAGATTTAGCGAGACATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
**
19503167 CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGGTAGTAAGACAATTGTGAACGG
66 CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGACAGTAAGACAATTGTGAACGG
19503232 AGATTTTATTATGCAA
131 AGATTTTATTATGCAA
* * * *
19503248 ATTAAAGACATAGCTTTAGCGAGACATGGATTATTATGTAGGTTTTATTTCATTCTTAGGTTTTA
1 ATTAAAGACATAGATTTAGCGAGACATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
*
19503313 CTTAGTTTATTTTATGTTCGCTTAACCAGAGGTTTCTATTTCGACAGTAAGACAATTGTGAACGG
66 CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGACAGTAAGACAATTGTGAACGG
19503378 AGATT
131 AGATT
19503383 GTTCCAAATC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
146 127 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (146 bp):
ATTAAAGACATAGATTTAGCGAGACATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGACAGTAAGACAATTGTGAACGG
AGATTTTATTATGCAA
Found at i:19505560 original size:101 final size:102
Alignment explanation
Indices: 19505431--19505615 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 102
19505421 AAAGTGATGG
* * *
19505431 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTA-C-CAAAATGATAGGTCGCATGTGTAGT
1 TCACGTATGTAGTACTATGTGCAAGCTACTACATGTATCGCAAAATGAT-GGTCACATGTGTAGT
19505494 ACTATGTGCAAGCTACTATGCATACCGGATAGCTTCGA
65 ACTATGTGCAAGCTACTATGCATACCGGATAGCTTCGA
* * * * *
19505532 TCACGTATGTAGTACTATGTGTAGGCTACTACATGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGCAAGCTACTACATGTATCGCAAAATGATGGTCACATGTGTAGTA
* *
19505597 CTATGTGTAGGCTACTATG
66 CTATGTGCAAGCTACTATG
19505616 TGAACCTGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
101 33 0.46
102 33 0.46
103 6 0.08
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAAGCTACTACATGTATCGCAAAATGATGGTCACATGTGTAGTA
CTATGTGCAAGCTACTATGCATACCGGATAGCTTCGA
Found at i:19505561 original size:51 final size:51
Alignment explanation
Indices: 19505488--19505615 Score: 138
Period size: 51 Copynumber: 2.5 Consensus size: 51
19505478 AGGTCGCATG
* * *
19505488 TGTAGTACTATGTGCAAGCTACTATGCA-TACCGGATAGCT-TCGATCACGTA
1 TGTAGTACTATGTGTAGGCTACTATGCAGTACCGGATAG-TAT-GATCACATA
* * *
19505539 TGTAGTACTATGTGTAGGCTACTA--CATGTATCGGATAGTGATGGTCACATG
1 TGTAGTACTATGTGTAGGCTACTATGCA-GTACCGGATAGT-ATGATCACATA
19505590 TGTAGTACTATGTGTAGGCTACTATG
1 TGTAGTACTATGTGTAGGCTACTATG
19505616 TGAACCTGTA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
49 2 0.03
50 1 0.02
51 61 0.94
52 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (51 bp):
TGTAGTACTATGTGTAGGCTACTATGCAGTACCGGATAGTATGATCACATA
Found at i:19505816 original size:16 final size:16
Alignment explanation
Indices: 19505795--19505826 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19505785 TGATTGAAAG
*
19505795 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
19505811 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
19505827 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:19508408 original size:27 final size:26
Alignment explanation
Indices: 19508377--19508554 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
19508367 TAAATTGTAC
*
19508377 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
19508404 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
19508430 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
19508458 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
19508486 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
19508513 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
19508540 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19508555 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:19508492 original size:82 final size:81
Alignment explanation
Indices: 19508378--19508533 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
19508368 AAATTGTACA
* *
19508378 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19508442 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
19508459 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19508524 TGCGAGTTGA
65 TGCGAATTGA
19508534 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19508545 original size:82 final size:81
Alignment explanation
Indices: 19508374--19508554 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
19508364 GATTAAATTG
* * *
19508374 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19508439 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
19508455 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19508519 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19508537 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19508555 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19508565 original size:27 final size:27
Alignment explanation
Indices: 19508459--19508565 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
19508449 TGACCATGCG
* * * *
19508459 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
19508487 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
19508514 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
19508541 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
19508566 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:19526347 original size:19 final size:20
Alignment explanation
Indices: 19526314--19526353 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19526304 TTCTTTGTCC
* *
19526314 TTTTTCGTTTTTTTAGTTTT
1 TTTTTCGTTTATTTACTTTT
19526334 TTTTTC-TTTATTTACTTTT
1 TTTTTCGTTTATTTACTTTT
19526353 T
1 T
19526354 CAGTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTTCGTTTATTTACTTTT
Found at i:19526389 original size:13 final size:13
Alignment explanation
Indices: 19526371--19526395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19526361 TTTATTTGTC
19526371 ATTTATTTGTTTT
1 ATTTATTTGTTTT
19526384 ATTTATTTGTTT
1 ATTTATTTGTTT
19526396 ATTGTTAGTT
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:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
ATTTATTTGTTTT
Found at i:19526480 original size:21 final size:20
Alignment explanation
Indices: 19526437--19526539 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 20
19526427 TTTTACATGT
**
19526437 TTTATAATATTATTTTTAAAAA
1 TTTA-AATA-TATTTTTTTAAA
*
19526459 TTTTACATATATTTTTTTAAA
1 -TTTAAATATATTTTTTTAAA
19526480 -TT--AT-TA-TTTTTTATAA
1 TTTAAATATATTTTTTTA-AA
19526496 TTTAAATATTATTTTTTTTAAA
1 TTTAAATA-TA-TTTTTTTAAA
*
19526518 TTTAAATATAATTTTTTAAA
1 TTTAAATATATTTTTTTAAA
19526538 TT
1 TT
19526540 ATTTTTAAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
15 7 0.10
16 4 0.06
17 4 0.06
19 4 0.06
20 11 0.16
21 14 0.21
22 13 0.19
23 11 0.16
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAAATATATTTTTTTAAA
Found at i:19526485 original size:37 final size:38
Alignment explanation
Indices: 19526436--19526519 Score: 102
Period size: 37 Copynumber: 2.2 Consensus size: 38
19526426 ATTTTACATG
*
19526436 TTTTATAA-TATTATTTTTAAAAATTTTACATA-TA-TTT
1 TTTTA-AATTATTATTTTTAAAAA-TTTAAATATTATTTT
* *
19526473 TTTTAAATTATTATTTTTTATAATTTAAATATTATTTT
1 TTTTAAATTATTATTTTTAAAAATTTAAATATTATTTT
19526511 TTTTAAATT
1 TTTTAAATT
19526520 TAAATATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 9 0.22
37 20 0.49
38 12 0.29
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTTAAATTATTATTTTTAAAAATTTAAATATTATTTT
Found at i:19526502 original size:22 final size:21
Alignment explanation
Indices: 19526474--19526539 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 21
19526464 CATATATTTT
19526474 TTTAAATTATTATTTTTTATAA
1 TTTAAA-TATTATTTTTTATAA
*
19526496 TTTAAATATTATTTTTTTTAAA
1 TTTAAATATTATTTTTTAT-AA
*
19526518 TTTAAATATAATTTTTTA-AA
1 TTTAAATATTATTTTTTATAA
19526538 TT
1 TT
19526540 ATTTTTAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.10
21 12 0.30
22 24 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAAATATTATTTTTTATAA
Found at i:19526513 original size:24 final size:23
Alignment explanation
Indices: 19526479--19526534 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
19526469 ATTTTTTTAA
*
19526479 ATTATTATTTTTTATAATTTAAAT
1 ATTATTTTTTTTTA-AATTTAAAT
19526503 ATTA-TTTTTTTTAAATTTAAAT
1 ATTATTTTTTTTTAAATTTAAAT
*
19526525 ATAATTTTTT
1 ATTATTTTTT
19526535 AAATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.41
23 13 0.45
24 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTATTTTTTTTTAAATTTAAAT
Found at i:19532182 original size:17 final size:18
Alignment explanation
Indices: 19532142--19532176 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19532132 AAATGCTATA
19532142 ATTTTTAACAAATAAATG
1 ATTTTTAACAAATAAATG
*
19532160 ATTTTTAATAAATAAAT
1 ATTTTTAACAAATAAAT
19532177 CTTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTTTTAACAAATAAATG
Found at i:19532182 original size:18 final size:18
Alignment explanation
Indices: 19532142--19532184 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
19532132 AAATGCTATA
*
19532142 ATTTTTAACAAATAAATG
1 ATTTTTAACAAATAAATC
*
19532160 ATTTTTAATAAATAAATC
1 ATTTTTAACAAATAAATC
*
19532178 TTTTTTA
1 ATTTTTA
19532185 TTTTTTTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTTTTAACAAATAAATC
Found at i:19532226 original size:10 final size:9
Alignment explanation
Indices: 19532213--19532246 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
19532203 AATTTTCACT
19532213 TTTTTTCTTA
1 TTTTTT-TTA
*
19532223 TTTTTTTAA
1 TTTTTTTTA
19532232 TTTTTTTTA
1 TTTTTTTTA
19532241 TTTTTT
1 TTTTTT
19532247 GGTCCTCCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:19532538 original size:23 final size:22
Alignment explanation
Indices: 19532512--19532585 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 22
19532502 ATTATTTTTT
19532512 AAAAATTTTAAATATAATTTAAA
1 AAAAATTTTAAATAT-ATTTAAA
* *
19532535 AAAACA-TTTGAATATCTTTAAA
1 AAAA-ATTTTAAATATATTTAAA
*
19532557 AATAATTTTCAAAATAATGATTTAAA
1 AAAAATTTT--AAAT-AT-ATTTAAA
19532583 AAA
1 AAA
19532586 TTATATTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 1 0.03
22 12 0.31
23 12 0.31
24 4 0.10
25 2 0.05
26 8 0.21
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (22 bp):
AAAAATTTTAAATATATTTAAA
Found at i:19532740 original size:21 final size:21
Alignment explanation
Indices: 19532709--19532761 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
19532699 AAAATTTTTA
*
19532709 TAATA-TT-AAAAATTAGATT
1 TAATATTTAAAAAATAAGATT
*
19532728 TAATATTTAAAAAATAATATT
1 TAATATTTAAAAAATAAGATT
19532749 TAA-ATTTAAAAAA
1 TAATATTTAAAAAA
19532762 AAATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 5 0.17
20 12 0.40
21 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATATTTAAAAAATAAGATT
Found at i:19532761 original size:22 final size:21
Alignment explanation
Indices: 19532716--19532797 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
19532706 TTATAATATT
* *
19532716 AAAAATTAGATTTAATATTT-A
1 AAAAATAATATTTAA-ATTTAA
19532737 AAAAATAATATTTAAATTTAA
1 AAAAATAATATTTAAATTTAA
* *
19532758 AAAAAAATATATTTAAGATTTTA
1 AAAAATA-ATATTTAA-ATTTAA
*
19532781 AATAATAATATTATAAA
1 AAAAATAATATT-TAAA
19532798 ACATATAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.08
21 20 0.39
22 14 0.27
23 13 0.25
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAATAATATTTAAATTTAA
Found at i:19532762 original size:21 final size:21
Alignment explanation
Indices: 19532738--19532792 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
19532728 TAATATTTAA
19532738 AAAATAATATTTAA-ATTTAAA
1 AAAATAATATTTAAGATTT-AA
*
19532759 AAAAAATATATTTAAGATTTTAA
1 AAAATA-ATATTTAAGA-TTTAA
*
19532782 ATAATAATATT
1 AAAATAATATT
19532793 ATAAAACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 7 0.25
24 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATAATATTTAAGATTTAA
Found at i:19532824 original size:19 final size:19
Alignment explanation
Indices: 19532781--19532827 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
19532771 TAAGATTTTA
19532781 AATAATAATATTATAAAAC
1 AATAATAATATTATAAAAC
19532800 ATATAA-AATATTATAAAACC
1 A-ATAATAATATTATAAAA-C
19532820 AATAATAA
1 AATAATAA
19532828 ACAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAATAATATTATAAAAC
Found at i:19534876 original size:23 final size:23
Alignment explanation
Indices: 19534827--19534876 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
19534817 AGTGGAACTT
* *
19534827 GTAATATCCCGAAAATTACTACT
1 GTAATATCCCGAAAATTACCACA
19534850 GTAATA-CCTCGAAAATTACCACA
1 GTAATATCC-CGAAAATTACCACA
19534873 GTAA
1 GTAA
19534877 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (23 bp):
GTAATATCCCGAAAATTACCACA
Found at i:19537012 original size:16 final size:15
Alignment explanation
Indices: 19536988--19537021 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19536978 GCTCACTATT
*
19536988 AAAATAAATAATAATA
1 AAAACAAATAA-AATA
19537004 AAAACAAATAAAATA
1 AAAACAAATAAAATA
19537019 AAA
1 AAA
19537022 GTCCAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAACAAATAAAATA
Found at i:19538094 original size:19 final size:19
Alignment explanation
Indices: 19538070--19538110 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19538060 TTATTAATAA
*
19538070 ATTTATTGTTACTATTATT
1 ATTTATTATTACTATTATT
**
19538089 ATTTATTATTGGTATTATT
1 ATTTATTATTACTATTATT
19538108 ATT
1 ATT
19538111 ACACTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (19 bp):
ATTTATTATTACTATTATT
Found at i:19543076 original size:27 final size:27
Alignment explanation
Indices: 19543038--19543097 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
19543028 GTTCAGATTA
19543038 AAAAAAATCAAAATCAAAAACAAAAAC
1 AAAAAAATCAAAATCAAAAACAAAAAC
* * *
19543065 AAAAAAATCAAAGTCAAAAGCAAAAGC
1 AAAAAAATCAAAATCAAAAACAAAAAC
19543092 AAAAAA
1 AAAAAA
19543098 GAGAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.75, C:0.13, G:0.05, T:0.07
Consensus pattern (27 bp):
AAAAAAATCAAAATCAAAAACAAAAAC
Found at i:19544704 original size:55 final size:55
Alignment explanation
Indices: 19544615--19544724 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
19544605 TATTGTTTAG
*
19544615 AACGCACCAGGTAAAGGTTGGAAATTTGAGAAGGAAGAGTCTAAATTTGGACTTT
1 AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
19544670 AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
1 AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
19544725 CTCTTTGGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.25
Consensus pattern (55 bp):
AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
Found at i:19545458 original size:44 final size:43
Alignment explanation
Indices: 19545321--19545458 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 43
19545311 AGACACAAAC
* *
19545321 CTTGCCTCCATTGGTTGTAGTGGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTCCA-TGGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
* * * * * * *
19545365 CTTGCCTTCC-TGCATTGACAGTGAAGCAGATCAAA-A-A-CAAAGC
1 CTTGCC-TCCATG-GTTG-CAGTGGAGCTGGTTAAAGATAGCAGA-T
19545408 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCCAT-GGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
19545452 CTTGCCT
1 CTTGCCT
19545459 TCTTGCATTG
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
42 19 0.28
43 14 0.20
44 19 0.28
45 17 0.25
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTGCCTCCATGGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
Found at i:19545466 original size:87 final size:87
Alignment explanation
Indices: 19545304--19545748 Score: 568
Period size: 87 Copynumber: 5.1 Consensus size: 87
19545294 AGATCAGTGA
* *
19545304 AGATCGAAGACACAAA-CCTTGCCTCCATTGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTT
1 AGATCGAA-A-ACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTT
*
19545368 GCCTTCCTGCATTGACAGTGAAGC
64 GCCTTCCTGCATTGACAGCGAAGC
* *
19545392 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
19545457 CTTCTTGCATTGACAGCGAAGA
66 CTTCCTGCATTGACAGCGAAGC
* * * *
19545479 AGATCGCAAACAAAGCCTTGCCTCTATCGGTTGTAGTGGAGCTAGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
19545544 CTTCCTGCATTGACAACGAAGC
66 CTTCCTGCATTGACAGCGAAGC
* * * ** **
19545566 AGATCGCAAACAAAGCCTTGCCTCCCTCAGTTGCGGTGGAGCAAGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
**
19545631 CTTCCTGCGCTGACAGCGAAGC
66 CTTCCTGCATTGACAGCGAAGC
* * * * * * * *
19545653 AAATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTAGAGCAGGTTGAAGACAGCAAATCTTG
1 AGATCGAAAACA-AAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* * *
19545718 CCTACCTGCATCGACAGTGAAGC
65 CCTTCCTGCATTGACAGCGAAGC
19545741 AGATCGAA
1 AGATCGAA
19545749 GATGGCGAAT
Statistics
Matches: 312, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
86 5 0.02
87 231 0.74
88 76 0.24
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTGACAGCGAAGC
Found at i:19545981 original size:44 final size:44
Alignment explanation
Indices: 19545888--19546005 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
19545878 ATGGCAAATA
* * * * *
19545888 TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTCATAATC
1 TTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCTAATAATC
* *
19545932 CTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAG-TAATAGATC
1 TTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCTAATA-ATC
* * *
19545976 TTATCTCTCTGAATTTGCAGTAGAGTGGAT
1 TTATCTCCCTGAAGTTGCAGTAGAGCGGAT
19546006 CGCATCAGGT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 4 0.07
44 57 0.93
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCTAATAATC
Found at i:19546079 original size:85 final size:85
Alignment explanation
Indices: 19545933--19546092 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
19545923 CTCATAATCC
* * * ** * * * *
19545933 TATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAATTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAAAAACAAATCTTATCTCCCCGAATTTGCAGTA
*
19545998 GAGTGGATCGCATCAGGTCT
66 GAGAGGATCGCATCAGGTCT
*
19546018 TATCTCCCTGAGGTTGCAGTAGAGCAGACTAAAAAAACAAATCTTATCTCCCCG-ATGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAAAAACAAATCTTATCTCCCCGAAT-TTGCAGT
*
19546082 GGAGAGGATCG
65 AGAGAGGATCG
19546093 AAGCAATTCC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
84 2 0.03
85 60 0.97
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAAAAACAAATCTTATCTCCCCGAATTTGCAGTA
GAGAGGATCGCATCAGGTCT
Found at i:19546290 original size:12 final size:12
Alignment explanation
Indices: 19546273--19546304 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
19546263 GGCCCGCTAT
*
19546273 TAAAATAAATAA
1 TAAAATAAAAAA
19546285 TAAAATAAAAAA
1 TAAAATAAAAAA
19546297 TAAAATAA
1 TAAAATAA
19546305 CAGTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:19547391 original size:19 final size:19
Alignment explanation
Indices: 19547367--19547407 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19547357 TTATTAATAA
*
19547367 ATTTATTGTTACTATTATT
1 ATTTATTATTACTATTATT
**
19547386 ATTTATTATTGGTATTATT
1 ATTTATTATTACTATTATT
19547405 ATT
1 ATT
19547408 ACACTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (19 bp):
ATTTATTATTACTATTATT
Found at i:19549615 original size:16 final size:17
Alignment explanation
Indices: 19549594--19549626 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19549584 TTTCAAAGAT
*
19549594 TAATTTTGT-AATTAAA
1 TAATTTAGTAAATTAAA
19549610 TAATTTAGTAAATTAAA
1 TAATTTAGTAAATTAAA
19549627 ACAAAAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TAATTTAGTAAATTAAA
Found at i:19554677 original size:21 final size:23
Alignment explanation
Indices: 19554642--19554684 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19554632 CCAAAACACT
*
19554642 ATAAATGATAGGAAAAC-TAAAG
1 ATAAATGACAGGAAAACATAAAG
19554664 ATAAAT-ACAGGAAAACATAAA
1 ATAAATGACAGGAAAACATAAA
19554685 AAACAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (23 bp):
ATAAATGACAGGAAAACATAAAG
Found at i:19556859 original size:24 final size:23
Alignment explanation
Indices: 19556815--19556859 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
19556805 GTTTTATGGC
*
19556815 TTTTAGGGTTTAGGGTGTAGGCT
1 TTTTAGGGTTTAGGGTCTAGGCT
19556838 TTTTAGGAG-TTAGGGGTCTAGG
1 TTTTAGG-GTTTA-GGGTCTAGG
19556860 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.04, G:0.40, T:0.40
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCTAGGCT
Found at i:19557123 original size:125 final size:124
Alignment explanation
Indices: 19556901--19557140 Score: 356
Period size: 125 Copynumber: 1.9 Consensus size: 124
19556891 AAATAGTGGG
** * * * *
19556901 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
19556966 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTTGACGTTTTCTGAGGAGGTAGTATA
66 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTTGACG-TTTCTGAGGAGGTAGTATA
* *
19557026 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
*
19557091 TCGTTACAGTTGGTCATGT-AGGAAATAATTTTTTTTTTGACGTTTCTGAG
66 TCGCTACAG-TGGTCATGTGA-GAAATAA-TTTTTTTTTGACGTTTCTGAG
19557141 CAAATAGTGT
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
125 66 0.64
126 24 0.23
127 13 0.13
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTTGACGTTTCTGAGGAGGTAGTATA
Found at i:19557262 original size:84 final size:85
Alignment explanation
Indices: 19557066--19557270 Score: 367
Period size: 84 Copynumber: 2.4 Consensus size: 85
19557056 AGAAATTGTG
*
19557066 AAATCGCGCCCTCGTGGACGCGATTTCGTTACAGTTGGTCATGTAGGAAATAATTTTTTTTTTGA
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAA-TTTTTTTTTGA
*
19557131 CGTTTCTGAGCAAATAGTGTC
65 CGTTTCTGAGAAAATAGTGTC
19557152 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAA-TTTTTTTTGAC
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTGAC
19557216 GTTTCTGAGAAAATAGTGTC
66 GTTTCTGAGAAAATAGTGTC
*
19557236 AAATCGCGCCCTCGTGGATGCGATTTCGCTACAGT
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
19557271 AGCAAGTTTG
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
84 64 0.55
86 52 0.45
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (85 bp):
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTGAC
GTTTCTGAGAAAATAGTGTC
Found at i:19560449 original size:28 final size:28
Alignment explanation
Indices: 19560417--19561560 Score: 908
Period size: 28 Copynumber: 43.5 Consensus size: 28
19560407 AATTAGGGTT
19560417 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560445 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560473 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19560496 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19560524 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560552 --T--TT--A--AGGTTAGGGCTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19560572 -TTA----AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560595 TTTAATTAAATTATGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560623 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* ** * *
19560646 TTAAATTAGGTTAGGGTAGGGTTAGAGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
19560675 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560703 TTTAATTTAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560731 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19560754 TTAAATTAGGTTAGGGTAGGGTTAGGGTTTTTAA
1 TTTAATTA----A-ATTA-GGTTAGGGTTTTTAA
19560788 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560816 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19560839 TTAAATTAGGTTAGGGTAGGGTTAGGGTTTTTAA
1 TTTAATTA----A-ATTA-GGTTAGGGTTTTTAA
*
19560873 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
19560901 --T--TT-AAGTAGGTTAGAGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19560924 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19560952 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19560980 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAATTAGGTTAGGGTTTTTAA
19561009 --T--TT-AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19561032 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAATTAGGTTAGGGTTTTTAA
19561061 --T--TT-AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561084 --T--TT--A--AGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19561104 -T----TAAATTAGGTTAGGATTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561127 TTTAATTAAATTAGGTTA-GGTTTTT-A
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
19561153 -CT--TT-AATTAGGTTAGGG-TTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561176 -TT--T---A--AGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561196 -T----TAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561219 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19561247 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19561275 TTTAAGTAGGTTAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561298 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19561326 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* ** *
19561354 TTTAAGTAGGTTAGGTTAAGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561377 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19561405 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
19561433 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
19561461 TTTAATTAAAATAAAGTTAGGGTTTTTAA
1 TTTAATT-AAATTAGGTTAGGGTTTTTAA
**
19561490 TTTAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
**
19561518 TTTAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
19561546 TTTAATTAAATTAGG
1 TTTAATTAAATTAGG
19561561 GTTTTTATTT
Statistics
Matches: 929, Mismatches: 94, Indels: 186
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.01
20 38 0.04
21 5 0.01
22 15 0.02
23 220 0.24
24 16 0.02
25 10 0.01
26 13 0.01
27 20 0.02
28 443 0.48
29 83 0.09
30 2 0.00
31 2 0.00
32 2 0.00
33 6 0.01
34 44 0.05
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.47
Consensus pattern (28 bp):
TTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:19560485 original size:51 final size:51
Alignment explanation
Indices: 19560409--19561592 Score: 1018
Period size: 51 Copynumber: 22.7 Consensus size: 51
19560399 CTACAATTAA
* * *
19560409 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* **
19560460 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
**** *
19560511 TTAGGGTTTTTAATTTAAGTAGGTTA-GG-TTAGGGTTT--TTAATTTAAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATT-AGG
* * * *
19560559 TTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATTATG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* **
19560610 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTA----A-ATTA-GG
* * * *
19560667 TTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTTAATTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* **
19560718 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTA----A-ATTA-GG
* *
19560775 TTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAA--T--TT-AAGTAGG
1 TTAGGGTTTTTAA--T--TT-AAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
*
19560826 TTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGGTTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGGTTTTTAA-T---TTA----A--GTA-GGTTAGGGTTTTTAATTTAATTAAATTAGG
* * **
19560888 TTAGGGTTTTTAATTTAAGTAGGTTAGAGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
*
19560939 TTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTTTTTAATTTAATTAAAATAAGG
1 TTAGGGTTTTTAATTT-A--A-G-TAGGTTAGGGTTTTTAATTTAATT-AAATTAGG
* *
19560996 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAAAATAAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATT-AAATTAGG
*
19561048 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAA--T--TT--A--AGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* * *
19561091 TTAGGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTTAATTAAATTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* *
19561142 TTA-GGTTTTTACTTTAATTAGGTTAGGG-TTTTAA--T--TT--A--AGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* *
19561183 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* **
19561234 TTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTTTTTAATTTAAGTAGGTTAGG
1 TTAGGGTTTTTAATTT-A--A-G-TAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* * * **
19561290 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
*
19561341 TTAGGGTTTTTAATTTAAGTAGGTTA-GGTTAAGGTT--TTTAATTAAATTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTT---TTTAATTTAATTAAATTAGG
* * **
19561392 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAAGTAGGTTAGG
1 TTAGGGTTTTTAA-T---TTAAG-TAGGTTAGGGTTTTTAATTTAATTAAATTAGG
* * **
19561448 TTAGGGTTTTTAATTTAATTAAAATAAAGTTAGGGTTTTTAATTTAATTAGGTTAGG
1 TTAGGGTTTTTAA--T--TT-AAGT-AGGTTAGGGTTTTTAATTTAATTAAATTAGG
19561505 TTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTTTTAATTTAATT-AA--A--
1 TTAGGGTTTTTAATTT-A--A-G-TAGGTTAGGGTTTTTAATTTAATTAAATTAGG
*
19561556 TTAGGGTTTTT-ATTTAAGTAGGGTTAGGGATTTTAAT
1 TTAGGGTTTTTAATTTAAGTA-GGTTAGGGTTTTTAAT
19561593 CAAATAATGT
Statistics
Matches: 954, Mismatches: 96, Indels: 171
0.78 0.08 0.14
Matches are distributed among these distances:
41 6 0.01
42 23 0.02
43 44 0.05
45 7 0.01
46 16 0.02
47 11 0.01
48 28 0.03
49 15 0.02
50 41 0.04
51 328 0.34
52 86 0.09
53 10 0.01
54 7 0.01
55 10 0.01
56 132 0.14
57 141 0.15
58 5 0.01
59 2 0.00
61 5 0.01
62 37 0.04
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (51 bp):
TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
Found at i:19560505 original size:18 final size:21
Alignment explanation
Indices: 19560455--19560497 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
19560445 TTTAATTAAA
19560455 TAAG-GTTAGGGTTTTTAATT
1 TAAGAGTTAGGGTTTTTAATT
19560475 TAAGTAGGTTAGGGTTTTTAATT
1 TAAG-A-GTTAGGGTTTTTAATT
19560498 AAATTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
23 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TAAGAGTTAGGGTTTTTAATT
Found at i:19560655 original size:18 final size:21
Alignment explanation
Indices: 19560538--19560647 Score: 78
Period size: 23 Copynumber: 4.8 Consensus size: 21
19560528 AGTAGGTTAG
19560538 GTTAGGGTTTTTAATTTAAG-
1 GTTAGGGTTTTTAATTTAAGA
* * *
19560558 GTTAGGGCTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTTAA-GA
*
19560580 GGTTAGGGTTTTTAATTTAATTAAATTA
1 -GTTAGGGTTTTTAA--T--TT-AA-GA
19560608 TGTTAGGGTTTTTAATTTAAGTA
1 -GTTAGGGTTTTTAATTTAAG-A
19560631 GGTTAGGGTTTTTAATT
1 -GTTAGGGTTTTTAATT
19560648 AAATTAGGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
20 17 0.23
23 32 0.44
24 2 0.03
25 1 0.01
26 1 0.01
27 1 0.01
28 19 0.26
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.50
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTTAAGA
Found at i:19560670 original size:34 final size:34
Alignment explanation
Indices: 19560631--19560696 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
19560621 AATTTAAGTA
*
19560631 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAG
1 GGTTAGAGTTTTTAATTAAATTAGGTTAGGGTAG
19560665 GGTTAGAGTTTTTAATTAAATTAGGTTAGGGT
1 GGTTAGAGTTTTTAATTAAATTAGGTTAGGGT
19560697 TTTTAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.42
Consensus pattern (34 bp):
GGTTAGAGTTTTTAATTAAATTAGGTTAGGGTAG
Found at i:19560731 original size:18 final size:18
Alignment explanation
Indices: 19560708--19560756 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 18
19560698 TTTAATTTAA
19560708 TTTAATTAGGTTAGGGTT
1 TTTAATTAGGTTAGGGTT
19560726 TTTAATTTAAGTAGGTTAGGGTT
1 TTTAA--T---TAGGTTAGGGTT
19560749 TTTAATTA
1 TTTAATTA
19560757 AATTAGGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 7 0.27
20 1 0.04
21 1 0.04
23 17 0.65
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (18 bp):
TTTAATTAGGTTAGGGTT
Found at i:19560779 original size:62 final size:61
Alignment explanation
Indices: 19560618--19560832 Score: 215
Period size: 62 Copynumber: 3.7 Consensus size: 61
19560608 TGTTAGGGTT
* * *
19560618 TTTAATTTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGGTTA--G-AGTT-
1 TTTAATTAAAGTAGGTTAGGGTTTTTAATTAAAGTAGGTTAGGGTAGGGTTAGGGTTGTTA
* * **
19560675 TTTAATTAAATTAGGTTAGGGTTTTTAATTTAA-T---TTA-ATTA-GGTTA-GG--GTT-
1 TTTAATTAAAGTAGGTTAGGGTTTTTAATTAAAGTAGGTTAGGGTAGGGTTAGGGTTGTTA
* * *
19560726 TTTAATTTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGGTTAGGGTTTTTAA
1 TTTAATTAAAGTAGGTTAGGGTTTTTAATTAAAGTAGGTTAGGGTAGGGTTAGGGTTGTT-A
* *
19560788 TTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGTAGGTTAGGGT
1 TTTAATTAAAGTAGGTTAGGGTTTTTAATTAAAGTAGGTTAGGGT
19560833 TTTTAATTAA
Statistics
Matches: 131, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
51 38 0.29
52 4 0.03
53 3 0.02
55 3 0.02
56 3 0.02
57 35 0.27
58 2 0.02
60 2 0.02
62 41 0.31
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (61 bp):
TTTAATTAAAGTAGGTTAGGGTTTTTAATTAAAGTAGGTTAGGGTAGGGTTAGGGTTGTTA
Found at i:19561185 original size:19 final size:20
Alignment explanation
Indices: 19561139--19561223 Score: 84
Period size: 23 Copynumber: 4.0 Consensus size: 20
19561129 TAATTAAATT
*
19561139 AGGTTA-GGTTTTTACTTTAA
1 AGGTTAGGGTTTTTAATTT-A
19561159 TTAGGTTAGGG-TTTTAATTTA
1 --AGGTTAGGGTTTTTAATTTA
*
19561180 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATT---TA
19561203 AGGTTAGGGTTTTTAATTTA
1 AGGTTAGGGTTTTTAATTTA
19561223 A
1 A
19561224 TTAAATTAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
19 9 0.16
20 10 0.18
21 1 0.02
22 14 0.25
23 21 0.38
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.49
Consensus pattern (20 bp):
AGGTTAGGGTTTTTAATTTA
Found at i:19563991 original size:22 final size:22
Alignment explanation
Indices: 19563961--19564002 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19563951 ATTTGGAGAT
*
19563961 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
19563983 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
19564003 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:19564029 original size:22 final size:23
Alignment explanation
Indices: 19564004--19564095 Score: 104
Period size: 22 Copynumber: 4.2 Consensus size: 23
19563994 ATTTGAGAGT
19564004 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
19564026 TTGATG-GAAATTTT-GAAGGGAA
1 TTGA-GAGAAATTTTGGAAGGAAA
*
19564048 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
19564070 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
19564092 TTGA
1 TTGA
19564096 TATTGAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.17
22 39 0.65
23 11 0.18
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:19564044 original size:52 final size:51
Alignment explanation
Indices: 19563952--19564054 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
19563942 TTAATATGTA
* * *
19563952 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAG
19564003 TTTGAGAGAATTTTGGAAGGAAATTGATG-GAAATTTT-GAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGA-GAG-AATTTTGGAAGGGAATTGAGAG
19564055 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 4 0.09
52 31 0.69
53 10 0.22
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:19564052 original size:44 final size:44
Alignment explanation
Indices: 19564004--19564095 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
19563994 ATTTGAGAGT
* * *
19564004 TTGAGAG-AATTTTGGAAGGAAATTGATG-GAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGG-AATTGA-GAGAAATTTTGAAAGAAA
*
19564048 TTGAGAGAAATTTTGAAAGGAATTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
19564092 TTGA
1 TTGA
19564096 TATTGAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (44 bp):
TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
Found at i:19566219 original size:26 final size:27
Alignment explanation
Indices: 19566177--19566230 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
19566167 GGGTTTATGG
19566177 TTAGGGTTAGGGTTTTTGAAAAAA-AAA
1 TTAGGGTTAGGGTTTTT-AAAAAATAAA
*
19566204 TTAGGTTTAGGG-TTTTAAAAAATAAA
1 TTAGGGTTAGGGTTTTTAAAAAATAAA
19566230 T
1 T
19566231 AAATGAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 8 0.32
27 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (27 bp):
TTAGGGTTAGGGTTTTTAAAAAATAAA
Found at i:19566225 original size:27 final size:30
Alignment explanation
Indices: 19566177--19566248 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
19566167 GGGTTTATGG
* **
19566177 TTAGGGTTAGGGTTTT-TGAAA-AAA-AAA
1 TTAGGTTTAGGGTTTTAAAAAATAAATAAA
19566204 TTAGGTTTAGGGTTTTAAAAAATAAATAAA
1 TTAGGTTTAGGGTTTTAAAAAATAAATAAA
* *
19566234 TGAGGTTTAAGGTTT
1 TTAGGTTTAGGGTTT
19566249 AGTGTTTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.41
28 3 0.08
29 3 0.08
30 16 0.43
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.38
Consensus pattern (30 bp):
TTAGGTTTAGGGTTTTAAAAAATAAATAAA
Found at i:19566250 original size:37 final size:38
Alignment explanation
Indices: 19566206--19566282 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
19566196 AAAAAAAATT
19566206 AGGTTTAG-GGTTTTAAAAAATAAATAAATGA-GGTTTA
1 AGGTTTAGTGGTTTTAAAAAA-AAATAAATGAGGGTTTA
* * *
19566243 AGGTTTAGTGTTTTTGAAAAAAAATAAATTAGGGTTTA
1 AGGTTTAGTGGTTTTAAAAAAAAATAAATGAGGGTTTA
19566281 AG
1 AG
19566283 ATTTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 17 0.49
38 18 0.51
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (38 bp):
AGGTTTAGTGGTTTTAAAAAAAAATAAATGAGGGTTTA
Found at i:19570000 original size:59 final size:60
Alignment explanation
Indices: 19569889--19570018 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 60
19569879 TGTATTGTCT
* ** *
19569889 TATTCAAAAAAAACTTTTATTTTATTAAATGGCACAATATAAAAATAATTTGTACAAAAG
1 TATTCAAAAAAAACTTCTATTTTATTAAATGAAACAATATAAAAACAATTTGTACAAAAG
* * * * *
19569949 TATTC-AAAACAACTTCTGTTTTATTAAATGAAACAATATAAAAGCAGTTTGTATAAATA-
1 TATTCAAAAAAAACTTCTATTTTATTAAATGAAACAATATAAAAACAATTTGTACAAA-AG
19570008 TATT-AAAAAAA
1 TATTCAAAAAAA
19570019 CAATGCATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
59 52 0.90
60 6 0.10
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (60 bp):
TATTCAAAAAAAACTTCTATTTTATTAAATGAAACAATATAAAAACAATTTGTACAAAAG
Found at i:19573153 original size:21 final size:21
Alignment explanation
Indices: 19573114--19573165 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
19573104 TATTTCTGAT
*
19573114 GTTAGGGTTTTGTACTTTAAG
1 GTTAAGGTTTTGTACTTTAAG
** *
19573135 GTTAAGGTTTTGTGTTTTAGG
1 GTTAAGGTTTTGTACTTTAAG
19573156 GTTTAAGGTT
1 G-TTAAGGTT
19573166 AGGGTTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (21 bp):
GTTAAGGTTTTGTACTTTAAG
Found at i:19576057 original size:41 final size:41
Alignment explanation
Indices: 19576010--19576110 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 41
19576000 ACCAACATGG
19576010 GTATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTT-
1 GTATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTTA
* * **
19576050 GCTATGTAATCGTCACTATTAAAGATTCTTTGAAATTTTTTA
1 G-TATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTTA
19576092 GTATGTAATCGCCACTATT
1 GTATGTAATCGCCACTATT
19576111 CACTTCTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.02
41 52 0.96
42 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.42
Consensus pattern (41 bp):
GTATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTTA
Found at i:19584819 original size:17 final size:16
Alignment explanation
Indices: 19584799--19584834 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
19584789 ATAACAATTG
19584799 AAAAACACAAACAGAGA
1 AAAAACACAAA-AGAGA
*
19584816 AAAAACATAAAAGAGA
1 AAAAACACAAAAGAGA
19584832 AAA
1 AAA
19584835 TTGAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.75, C:0.11, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAACACAAAAGAGA
Found at i:19587939 original size:22 final size:22
Alignment explanation
Indices: 19587914--19587955 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19587904 GTCTTTTACC
*
19587914 ACCCTTAAAGGGCTTTCATACT
1 ACCCGTAAAGGGCTTTCATACT
19587936 ACCCGTAAAGGGCTTTCATA
1 ACCCGTAAAGGGCTTTCATA
19587956 ACTATGTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (22 bp):
ACCCGTAAAGGGCTTTCATACT
Found at i:19589057 original size:16 final size:16
Alignment explanation
Indices: 19589034--19589082 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
19589024 TGTTTGGTTC
*
19589034 GCTGTAATAGAATAGA
1 GCTGTAATGGAATAGA
*
19589050 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
19589066 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
19589082 G
1 G
19589083 GCGTAATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.27
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:19589088 original size:16 final size:16
Alignment explanation
Indices: 19589037--19589089 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
19589027 TTGGTTCGCT
* **
19589037 GTAATAGAATAGAGTT
1 GTAATGGAATAGAGGC
19589053 GTAATGGAATAGA-GC
1 GTAATGGAATAGAGGC
19589068 TGTAATGGAATAGAGGC
1 -GTAATGGAATAGAGGC
19589085 GTAAT
1 GTAAT
19589090 AGTAATTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.30, T:0.26
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:19589367 original size:18 final size:18
Alignment explanation
Indices: 19589319--19589354 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19589309 AATTATTATT
19589319 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
19589337 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
19589355 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATAATTTAATAAAA
Found at i:19589438 original size:120 final size:120
Alignment explanation
Indices: 19589301--19589774 Score: 834
Period size: 120 Copynumber: 4.0 Consensus size: 120
19589291 TTAATCATAT
* *
19589301 TTTAACATAATTATTATTATATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
19589366 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
19589421 TTTAAAATAATTATTATTAAATATAATTTAA-CAAAATATATAATTTAAT--AATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
19589483 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
19589538 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTAAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
19589603 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
19589658 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC--AATA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
19589720 AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATATA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTAT-AAAATATA
19589775 TATAATCTAC
Statistics
Matches: 340, Mismatches: 10, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
117 144 0.42
118 28 0.08
119 17 0.05
120 151 0.44
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:19589552 original size:13 final size:12
Alignment explanation
Indices: 19589528--19589568 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
19589518 TATAATACTA
19589528 TAAAATATAATT
1 TAAAATATAATT
19589540 TAAAATAATAATT
1 TAAAAT-ATAATT
*
19589553 ATTAAATATAATT
1 -TAAAATATAATT
19589566 TAA
1 TAA
19589569 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:19589561 original size:26 final size:28
Alignment explanation
Indices: 19589530--19589608 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 28
19589520 TAATACTATA
* *
19589530 AAATATAATTTAA-AATAATA-ATTATT
1 AAATATAATTTAATAAAAATATATAATT
19589556 AAATATAATTTAATAAAAATATATAATT
1 AAATATAATTTAATAAAAATATATAATT
*
19589584 AAATAAAATTCTTAATAATAAATAT
1 AAATATAA-T-TTAATAA-AAATAT
19589609 TCTTATATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 13 0.29
27 6 0.13
28 12 0.27
29 1 0.02
30 7 0.16
31 6 0.13
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATATAATTTAATAAAAATATATAATT
Found at i:19589713 original size:10 final size:10
Alignment explanation
Indices: 19589651--19589723 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
19589641 AATACTATAA
19589651 AATATAATTT
1 AATATAATTT
*
19589661 AAAATAA-TT
1 AATATAATTT
*
19589670 -AT-T-ATTA
1 AATATAATTT
19589677 AATATAATTT
1 AATATAATTT
**
19589687 AATA-AAAAT
1 AATATAATTT
19589696 -ATATAATTT
1 AATATAATTT
* *
19589705 AATAAAATTC
1 AATATAATTT
19589715 AATATAATT
1 AATATAATT
19589724 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:19589729 original size:237 final size:237
Alignment explanation
Indices: 19589301--19589774 Score: 828
Period size: 237 Copynumber: 2.0 Consensus size: 237
19589291 TTAATCATAT
* * * * *
19589301 TTTAACATAATTATTATTATATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTAAATAAAATTCTTAATAAT
19589366 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
*
19589431 TTATTATTAAATATAATTTAACAAAATATATAATTTAATAATTCTTAATATTAAATATTCTTATA
131 TTATTATTAAATATAATTTAAAAAAATATATAATTTAATAATTC-TAATATTAAATATTCTTATA
19589496 TGAATTTACTAAAATCATAATATATAATACTAT-AAAATATAA
195 TGAATTTACTAAAATCATAATATATAATACTATAAAAATATAA
19589538 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTAAATAAAATTCTTAATAAT
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTAAATAAAATTCTTAATAAT
19589603 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
*
19589668 TTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-AATA-TAATTATTCTTA
131 TTATTATTAAATATAATTTAA-AAAAATATATAATTTAAT--AATTCTAATATTAAATATTCTTA
19589731 TATGAATTTACTAAAATCATAATATATAATACTATAAAAATATA
193 TATGAATTTACTAAAATCATAATATATAATACTATAAAAATATA
19589775 TATAATCTAC
Statistics
Matches: 226, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
237 192 0.85
238 29 0.13
240 5 0.02
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (237 bp):
TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTAAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
TTATTATTAAATATAATTTAAAAAAATATATAATTTAATAATTCTAATATTAAATATTCTTATAT
GAATTTACTAAAATCATAATATATAATACTATAAAAATATAA
Found at i:19591238 original size:49 final size:49
Alignment explanation
Indices: 19591166--19591269 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
19591156 AAAAAAAAAC
* * * *
19591166 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACATTATA
19591215 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACATTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACATTATA
19591264 AAATTA
1 AAATTA
19591270 TAACATATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACATTATA
Found at i:19593626 original size:16 final size:16
Alignment explanation
Indices: 19593607--19593640 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
19593597 AATAAATTGG
19593607 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
19593623 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
19593639 AA
1 AA
19593641 ATAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATATTAAAAATAAAA
Found at i:19595954 original size:50 final size:50
Alignment explanation
Indices: 19595896--19596178 Score: 302
Period size: 50 Copynumber: 5.7 Consensus size: 50
19595886 CATTGAGATT
* *
19595896 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
19595946 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
19595996 ATGAGAGGTCCCATGTAAGACGATGTCTGGGACATGGCGTTGGTACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* ** * * * * *
19596046 ATAAGAGGTCCCCCGTAAGACCAT-TATGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * * *
19596095 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AG
* * ** *
19596144 AAGAAACATCCCATGTAAGACTATGTCTGGGACAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACAT
19596179 AACTTTGGCA
Statistics
Matches: 195, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
49 65 0.33
50 130 0.67
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:19596175 original size:99 final size:99
Alignment explanation
Indices: 19595904--19596178 Score: 252
Period size: 99 Copynumber: 2.8 Consensus size: 99
19595894 TTATGAGAGG
* * * * * * * *
19595904 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGTACCAAGATAACA-GTCCCATGTAAGACCA
** * **
19595969 TGTCTGGGACATGGTGTTGGCACCGAGATGAGAGG
65 TGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * * **
19596004 TCCCATGTAAGACGATGTCTGGGACATGGCGTTGGTACCAAGATAAGAGGTCCCCCGTAAGACCA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGTACCAAGATAACA-GTCCCATGTAAGACCA
* * *
19596069 T-TATGGGACATGGCATGGGCACCTATATGAGAAC
65 TGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
19596103 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCAGTA-CAAGA-AACA-TCCCATGTAAGAC
1 TCCCATGTAAGACCATATCTGGGACATGGCATT-G--GTACCAAGATAACAGTCCCATGTAAGAC
*
19596165 TATGTCTGGGACAT
63 CATGTCTGGGACAT
19596179 AACTTTGGCA
Statistics
Matches: 145, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
98 13 0.09
99 62 0.43
100 62 0.43
101 5 0.03
102 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (99 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGTACCAAGATAACAGTCCCATGTAAGACCAT
GTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:19597791 original size:78 final size:78
Alignment explanation
Indices: 19597647--19597793 Score: 206
Period size: 78 Copynumber: 1.9 Consensus size: 78
19597637 GGGGTTAACA
* * **
19597647 AGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCTATTGATAAGGCAGTGACA
1 AGGAGTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCTATTGATAAGACAGCAACA
19597712 CTCGGGATTAATG
66 CTCGGGATTAATG
* * * *
19597725 AGGATTGAATTTGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCT-TTGGTAAGACAGCAAC
1 AGGAGTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTT-CTATTGATAAGACAGCAAC
19597789 ACTCG
65 ACTCG
19597794 AAACTTGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 58 0.97
79 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (78 bp):
AGGAGTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCTATTGATAAGACAGCAACA
CTCGGGATTAATG
Found at i:19598714 original size:20 final size:19
Alignment explanation
Indices: 19598685--19598732 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
19598675 GATAAAATGG
*
19598685 AAAA-AAGAAAAGAAACGT
1 AAAAGAAGAAAAGAAAAGT
19598703 AAATAGAAGAAAAGAAAAGT
1 AAA-AGAAGAAAAGAAAAGT
*
19598723 ACAAGAAGAA
1 AAAAGAAGAA
19598733 GAAGCAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 8 0.31
20 15 0.58
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (19 bp):
AAAAGAAGAAAAGAAAAGT
Found at i:19599509 original size:17 final size:16
Alignment explanation
Indices: 19599484--19599535 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19599474 TGAACTTGGA
*
19599484 TCAGGTTTTCTTCGGAT
1 TCAGATTTTCTTCGG-T
*
19599501 TCAGATTTT-TTCGGGC
1 TCAGATTTTCTTC-GGT
*
19599517 TCAAATTTTCTTCGGT
1 TCAGATTTTCTTCGGT
19599533 TCA
1 TCA
19599536 TTCGGGTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (16 bp):
TCAGATTTTCTTCGGT
Found at i:19610800 original size:30 final size:30
Alignment explanation
Indices: 19610764--19610859 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
19610754 ATTAGCTTAC
*
19610764 ATTTGTATATGGATAT-TCATTTCCGAATTG
1 ATTTGTATATGGATATAT-ATTGCCGAATTG
* *
19610794 ATTTGTATATAGATATATATTGCCGAATTC
1 ATTTGTATATGGATATATATTGCCGAATTG
*
19610824 AGTTCGTATATGGATATATATTGCCGAATTG
1 A-TTTGTATATGGATATATATTGCCGAATTG
19610855 ATTTG
1 ATTTG
19610860 AGCATTGGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 29 0.51
31 28 0.49
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (30 bp):
ATTTGTATATGGATATATATTGCCGAATTG
Found at i:19610840 original size:31 final size:30
Alignment explanation
Indices: 19610763--19610853 Score: 112
Period size: 31 Copynumber: 3.0 Consensus size: 30
19610753 TATTAGCTTA
* *
19610763 CATTTGTATATGGATAT-TCATTTCCGAATT
1 CATTCGTATATGGATATAT-ATTGCCGAATT
* * *
19610793 GATTTGTATATAGATATATATTGCCGAATT
1 CATTCGTATATGGATATATATTGCCGAATT
19610823 CAGTTCGTATATGGATATATATTGCCGAATT
1 CA-TTCGTATATGGATATATATTGCCGAATT
19610854 GATTTGAGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 26 0.49
31 27 0.51
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (30 bp):
CATTCGTATATGGATATATATTGCCGAATT
Found at i:19622213 original size:2 final size:2
Alignment explanation
Indices: 19622206--19622230 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19622196 ATTGGATCAA
19622206 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
19622231 TATACTATTG
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:19624661 original size:7 final size:7
Alignment explanation
Indices: 19624649--19624692 Score: 79
Period size: 7 Copynumber: 6.3 Consensus size: 7
19624639 ACATCTCATC
19624649 TCACATA
1 TCACATA
19624656 TCACATA
1 TCACATA
19624663 TCACATA
1 TCACATA
19624670 TCACATA
1 TCACATA
*
19624677 TTACATA
1 TCACATA
19624684 TCACATA
1 TCACATA
19624691 TC
1 TC
19624693 GATGGTATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (7 bp):
TCACATA
Found at i:19629121 original size:16 final size:16
Alignment explanation
Indices: 19629096--19629138 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
19629086 TTGAATTTTT
19629096 GTTA-TAAGAATATTG
1 GTTATTAAGAATATTG
19629111 GTTATTAAGAATATTG
1 GTTATTAAGAATATTG
*
19629127 ATTATTAAGAAT
1 GTTATTAAGAAT
19629139 TTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
GTTATTAAGAATATTG
Found at i:19629165 original size:18 final size:17
Alignment explanation
Indices: 19629137--19629171 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19629127 ATTATTAAGA
*
19629137 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19629154 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19629172 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19629213 original size:59 final size:61
Alignment explanation
Indices: 19629130--19629311 Score: 178
Period size: 59 Copynumber: 3.0 Consensus size: 61
19629120 AATATTGATT
*
19629130 ATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
1 ATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
* * * * ** * * *
19629191 ATT-A-TATTTTA-TAGTATCATATATTATGATTTTAGTAAATTTATATAAGAA-TATTGATT--
1 ATTAAGAATTTTATTA-AATCATATATTTTAATTAAAATATATTTA-ATAATAATTA-TG-TTAA
* *
19629250 ATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAATAATTATGTTAA
1 ATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
19629311 A
1 A
19629312 ATATGATTAA
Statistics
Matches: 90, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
58 2 0.02
59 34 0.38
60 18 0.20
61 34 0.38
62 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
Found at i:19629511 original size:44 final size:45
Alignment explanation
Indices: 19629448--19629544 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
19629438 CTATTACACC
*
19629448 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* * *
19629492 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTTTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
19629537 TCCATTAC
1 TCCATTAC
19629545 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:19629545 original size:16 final size:16
Alignment explanation
Indices: 19629524--19629556 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19629514 TTGAATTGCT
*
19629524 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
19629540 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
19629556 A
1 A
19629557 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:19629769 original size:26 final size:25
Alignment explanation
Indices: 19629700--19629778 Score: 95
Period size: 26 Copynumber: 3.1 Consensus size: 25
19629690 AATCACTTTA
*
19629700 TTATTAAATTAATATAATATTTATC
1 TTATTAAATTAATATAATATTAATC
* *
19629725 TTATTAGATTAAATTTAATATTAAATC
1 TTATTAAATT-AATATAATATT-AATC
* *
19629752 TTATTAAAATAATATAATATTTATC
1 TTATTAAATTAATATAATATTAATC
19629777 TT
1 TT
19629779 GCAGATAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
25 14 0.31
26 20 0.44
27 11 0.24
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (25 bp):
TTATTAAATTAATATAATATTAATC
Found at i:19629810 original size:52 final size:52
Alignment explanation
Indices: 19629700--19629800 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
19629690 AATCACTTTA
* ** *
19629700 TTATTAAATTAATATAATATTTATCTTATTAGATTAAATTTAATATTAAATC
1 TTATTAAAATAATATAATATTTATCTTAGCAGATTAAAATTAATATTAAATC
19629752 TTATTAAAATAATATAATATTTATCTT-GCAGA-TAAACATTAA-ATTAAAT
1 TTATTAAAATAATATAATATTTATCTTAGCAGATTAAA-ATTAATATTAAAT
19629801 TAAATATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 11 0.25
51 7 0.16
52 26 0.59
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (52 bp):
TTATTAAAATAATATAATATTTATCTTAGCAGATTAAAATTAATATTAAATC
Found at i:19631603 original size:18 final size:18
Alignment explanation
Indices: 19631582--19631619 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19631572 TTCCAAAATA
*
19631582 TTATTC-ATTTACAAATCG
1 TTATTCAATTT-CAAAACG
19631600 TTATTCAATTTCAAAACG
1 TTATTCAATTTCAAAACG
19631618 TT
1 TT
19631620 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (18 bp):
TTATTCAATTTCAAAACG
Found at i:19632179 original size:23 final size:24
Alignment explanation
Indices: 19632135--19632179 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
19632125 AAAATCCTAC
*
19632135 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
19632159 CCATCCAACC-CTACACCCCAT
1 CCATCCAACCTCTACACACCAT
19632180 GTGAGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.53, G:0.02, T:0.18
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:19636095 original size:21 final size:20
Alignment explanation
Indices: 19636070--19636110 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19636060 CCGGCCCGAT
*
19636070 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACAAAAAAAATA
*
19636091 TTTTAAAAATAAAAAAAATA
1 TTTTAAAAACAAAAAAAATA
19636111 AAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAATA
Found at i:19641157 original size:41 final size:40
Alignment explanation
Indices: 19641078--19641315 Score: 287
Period size: 41 Copynumber: 5.8 Consensus size: 40
19641068 TTTCTACCTT
* * *
19641078 TCGGGACTTTAGCGGTGTTTTTAAAAAGCGCCGGTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGC
* * *
19641118 TTGAGGCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGC
* *
19641159 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGT
1 TCGGGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGC
* *
19641200 TCGGGTCTTTAACGGCGTTTTTAAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTAAA-AAGCGCCGCTAATGC
* * * * *
19641241 TCGGGGCTTTAACGGCATTTTCCAAGAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTT-TAAAAAGCGCCGCTAATGC
* *
19641282 TCGGGGCTTTAGCGGTGTTTTTGAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGC
19641316 AAAAGCATTT
Statistics
Matches: 167, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 29 0.17
41 136 0.81
42 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
TCGGGGCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGC
Found at i:19641295 original size:123 final size:121
Alignment explanation
Indices: 19641077--19641315 Score: 325
Period size: 123 Copynumber: 2.0 Consensus size: 121
19641067 TTTTCTACCT
* * * * * * **
19641077 TTCGGGACTTTAGCGGTGTTTTTAAAAAGCGCCGGTAATGCTTGAGGCTTTAGCGGCGTTTTTGA
1 TTCGGGACTTTAACGGCGTTTTTAAAAAGCGCCGCTAATGCTCGAGGCTTTAACGGCATTTTCCA
19641142 AAAAGCACCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATG
66 AAAAGCACCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTCAA-AAGCGCCGCTAATG
* *
19641199 TTCGGGTCTTTAACGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGGCTTTAACGGCATTTTCC
1 TTCGGGACTTTAACGGCGTTTTTAAA-AAGCGCCGCTAATGCTCGAGGCTTTAACGGCATTTTCC
* ** * *
19641264 AAGAAGCGTCGCTAATGCTCGGGGCTTTAGCGGTGTTTTTGAAAAGCGCCGC
65 AAAAAGCACCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTCAAAAGCGCCGC
19641316 AAAAGCATTT
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
122 32 0.32
123 69 0.68
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (121 bp):
TTCGGGACTTTAACGGCGTTTTTAAAAAGCGCCGCTAATGCTCGAGGCTTTAACGGCATTTTCCA
AAAAGCACCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTCAAAAGCGCCGCTAATG
Found at i:19641667 original size:20 final size:21
Alignment explanation
Indices: 19641630--19641673 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
19641620 TATCATTATA
*
19641630 GTTTAGGGTTTAATATATATG
1 GTTTAGGGTATAATATATATG
19641651 GTTTAGGGTAT-ATATATATG
1 GTTTAGGGTATAATATATATG
19641671 GTT
1 GTT
19641674 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
GTTTAGGGTATAATATATATG
Found at i:19641754 original size:14 final size:15
Alignment explanation
Indices: 19641722--19641754 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
19641712 AAGGTTTATA
19641722 GATTATGGAATTAGC
1 GATTATGGAATTAGC
*
19641737 GATTATGG-ATTAGG
1 GATTATGGAATTAGC
19641751 GATT
1 GATT
19641755 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGC
Found at i:19641773 original size:14 final size:14
Alignment explanation
Indices: 19641756--19641782 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19641746 TTAGGGATTC
19641756 TGATTTAAGGGTTG
1 TGATTTAAGGGTTG
19641770 TGATTTAAGGGTT
1 TGATTTAAGGGTT
19641783 ATGGGTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TGATTTAAGGGTTG
Found at i:19641790 original size:7 final size:7
Alignment explanation
Indices: 19641778--19641828 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
19641768 TGTGATTTAA
*
19641778 GGGTTAT
1 GGGTTAG
19641785 GGGTTAG
1 GGGTTAG
19641792 GGGTTAG
1 GGGTTAG
*
19641799 AGGTTAG
1 GGGTTAG
19641806 GGGTTAG
1 GGGTTAG
* *
19641813 AGGTTAA
1 GGGTTAG
*
19641820 GAGTTAG
1 GGGTTAG
19641827 GG
1 GG
19641829 ATTTAGGGTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:19641795 original size:14 final size:14
Alignment explanation
Indices: 19641786--19641818 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
19641776 AAGGGTTATG
19641786 GGTTAGGGGTTAGA
1 GGTTAGGGGTTAGA
19641800 GGTTAGGGGTTAGA
1 GGTTAGGGGTTAGA
19641814 GGTTA
1 GGTTA
19641819 AGAGTTAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.30
Consensus pattern (14 bp):
GGTTAGGGGTTAGA
Found at i:19641803 original size:21 final size:21
Alignment explanation
Indices: 19641779--19641828 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
19641769 GTGATTTAAG
* *
19641779 GGTTATGGGTTAGGGGTTAGA
1 GGTTAGGGGTTAGAGGTTAGA
19641800 GGTTAGGGGTTAGAGGTTA-A
1 GGTTAGGGGTTAGAGGTTAGA
19641820 GAGTTAGGG
1 G-GTTAGGG
19641829 ATTTAGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.22, C:0.00, G:0.48, T:0.30
Consensus pattern (21 bp):
GGTTAGGGGTTAGAGGTTAGA
Found at i:19641838 original size:21 final size:20
Alignment explanation
Indices: 19641779--19641838 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
19641769 GTGATTTAAG
*
19641779 GGTTATGGGTTAGGGGTTAGA
1 GGTTAGGGGTTA-GGGTTAGA
19641800 GGTTAGGGGTTAGAGGTTA-A
1 GGTTAGGGGTTAG-GGTTAGA
*
19641820 GAGTTAGGGATTTAGGGTT
1 G-GTTAGGG-GTTAGGGTT
19641839 TATGGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 3 0.09
21 27 0.79
22 4 0.12
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (20 bp):
GGTTAGGGGTTAGGGTTAGA
Found at i:19641865 original size:26 final size:24
Alignment explanation
Indices: 19641831--19641878 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
19641821 AGTTAGGGAT
19641831 TTAGGGTTTATGGATTTAGTATTAGG
1 TTAGGGTTTA-GGATTTAG-ATTAGG
*
19641857 TTAGGGTTTAGGGTTTAGATTA
1 TTAGGGTTTAGGATTTAGATTA
19641879 ATTAGCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 7 0.33
26 10 0.48
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (24 bp):
TTAGGGTTTAGGATTTAGATTAGG
Found at i:19641943 original size:96 final size:96
Alignment explanation
Indices: 19641843--19642017 Score: 269
Period size: 96 Copynumber: 1.8 Consensus size: 96
19641833 AGGGTTTATG
* * *
19641843 GATTTAGTATTAGGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
1 GATTTAGGATCAGGTTACGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
*
19641908 AATGTTTAGGGGTTAAGGGTTAGGGGTTAGA
66 AAGGTTTAGGGGTTAAGGGTTAGGGGTTAGA
* * * * *
19641939 GATTTGGGGTCGGGTTACGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAAT
1 GATTTAGGATCAGGTTACGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
19642004 AAGGTTTAGGGGTT
66 AAGGTTTAGGGGTT
19642018 TGGGGTATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (96 bp):
GATTTAGGATCAGGTTACGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
AAGGTTTAGGGGTTAAGGGTTAGGGGTTAGA
Found at i:19642112 original size:14 final size:15
Alignment explanation
Indices: 19642084--19642116 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19642074 AAGGTTTATA
19642084 GATTATGGAATTAGG
1 GATTATGGAATTAGG
19642099 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
19642113 GATT
1 GATT
19642117 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:19642153 original size:14 final size:14
Alignment explanation
Indices: 19642134--19642166 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
19642124 AAGGTTTATG
19642134 GGTTAGGGGTTAGA
1 GGTTAGGGGTTAGA
19642148 GGTTAGGGGTTAGA
1 GGTTAGGGGTTAGA
19642162 GGTTA
1 GGTTA
19642167 AGAGTTAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.30
Consensus pattern (14 bp):
GGTTAGGGGTTAGA
Found at i:19642158 original size:21 final size:21
Alignment explanation
Indices: 19642133--19642176 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19642123 TAAGGTTTAT
*
19642133 GGGTTAGGGGTTAGAG-GTTAG
1 GGGTTAGAGGTTA-AGAGTTAG
19642154 GGGTTAGAGGTTAAGAGTTAG
1 GGGTTAGAGGTTAAGAGTTAG
19642175 GG
1 GG
19642177 ATTTAGGGTT
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:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (21 bp):
GGGTTAGAGGTTAAGAGTTAG
Found at i:19642177 original size:348 final size:347
Alignment explanation
Indices: 19641737--19642371 Score: 1157
Period size: 348 Copynumber: 1.8 Consensus size: 347
19641727 TGGAATTAGC
* *
19641737 GATTATGGATTAGGGATTCTGATTTAAGGGTTGTGATTTAAGGGTTATGGGTTAGGGGTTAGAGG
1 GATTATGGATTAGGGATTATGATTTAAGGGTTCTGATTTAAGGGTTATGGGTTAGGGGTTAGAGG
19641802 TTAGGGGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTATGGATTTAGTATTAGGTTAGGGTTTA
66 TTAGGGGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTATGGATTTAGTATTAGGTTAGGGTTTA
*
19641867 GGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAAGGGTTAGG
131 GGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAAGGGCTAGG
19641932 GGTTAGAGATTTGGGGTCGGGTTACGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATAT
196 GGTTAGAGATTTGGGGTCGGGTTACGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATAT
*
19641997 ATTAAATAAGGTTTAGGGGTTTGGGGTATATATATGGTTAATTTAGGATTTAGGGCCGGTTTAAG
261 ATTAAATAAGGTTTAAGGGTTTGGGGTATATATATGGTTAATTTAGGATTTAGGGCCGGTTTAAG
19642062 AGTTACAATTTTAAGGTTTATA
326 AGTTACAATTTTAAGGTTTATA
*
19642084 GATTATGGAATTAGGGATTATGGA-TT-AGGGATTCTGATTTAAGGTTTATGGGTTAGGGGTTAG
1 GATTATGG-ATTAGGGATTAT-GATTTAAGGG-TTCTGATTTAAGGGTTATGGGTTAGGGGTTAG
*
19642147 AGGTTAGGGGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTATGGATTTAGTGTTAGGTTAGGGT
63 AGGTTAGGGGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTATGGATTTAGTATTAGGTTAGGGT
19642212 TTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAAGGGCT
128 TTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAAGGGCT
* *
19642277 AGGGGTTAGAGATTTGGGGTCGGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTA
193 AGGGGTTAGAGATTTGGGGTCGGGTTACGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTA
19642342 TATATTAAATAAGGTTTAAGGGTTTGGGGT
258 TATATTAAATAAGGTTTAAGGGTTTGGGGT
19642372 TAAGAGTTAG
Statistics
Matches: 277, Mismatches: 8, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
347 12 0.04
348 263 0.95
349 2 0.01
ACGTcount: A:0.26, C:0.02, G:0.31, T:0.41
Consensus pattern (347 bp):
GATTATGGATTAGGGATTATGATTTAAGGGTTCTGATTTAAGGGTTATGGGTTAGGGGTTAGAGG
TTAGGGGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTATGGATTTAGTATTAGGTTAGGGTTTA
GGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAAGGGCTAGG
GGTTAGAGATTTGGGGTCGGGTTACGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATAT
ATTAAATAAGGTTTAAGGGTTTGGGGTATATATATGGTTAATTTAGGATTTAGGGCCGGTTTAAG
AGTTACAATTTTAAGGTTTATA
Found at i:19642188 original size:7 final size:7
Alignment explanation
Indices: 19642121--19642222 Score: 54
Period size: 7 Copynumber: 14.7 Consensus size: 7
19642111 GGGATTCTGA
*
19642121 TTTAAGG
1 TTTAGGG
19642128 TTTATGGG
1 TTTA-GGG
19642136 -TTAGGG
1 TTTAGGG
*
19642142 GTTAGAGG
1 TTTAG-GG
19642150 -TTAGGG
1 TTTAGGG
*
19642156 GTTAGAGG
1 TTTAG-GG
* *
19642164 TTAAGAG
1 TTTAGGG
19642171 -TTAGGG
1 TTTAGGG
19642177 ATTTAGGG
1 -TTTAGGG
*
19642185 TTTATGGA
1 TTTA-GGG
*
19642193 TTTAGTG
1 TTTAGGG
19642200 -TTA-GG
1 TTTAGGG
19642205 -TTAGGG
1 TTTAGGG
19642211 TTTAGGG
1 TTTAGGG
19642218 TTTAG
1 TTTAG
19642223 ATTAATTAGC
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.05
6 14 0.19
7 36 0.48
8 21 0.28
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (7 bp):
TTTAGGG
Found at i:19642381 original size:96 final size:96
Alignment explanation
Indices: 19642203--19642392 Score: 272
Period size: 96 Copynumber: 2.0 Consensus size: 96
19642193 TTTAGTGTTA
* *
19642203 GGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAAGGTTTAAGGG
* * *
19642268 TTAAGGGCTAGGGGTTAGAGATTTGGGGTCG
66 TTAAGGGCTAAGAGTTAGAGATTTAGGGTCG
** *
19642299 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAAGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAAGGTTTAAGGG
** * *
19642364 TTTGGGGTTAAGAGTTAGTGATTTAGGGT
66 TTAAGGGCTAAGAGTTAGAGATTTAGGGT
19642393 TTAGAGATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.42
Consensus pattern (96 bp):
GGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAAGGTTTAAGGG
TTAAGGGCTAAGAGTTAGAGATTTAGGGTCG
Found at i:19643407 original size:145 final size:147
Alignment explanation
Indices: 19643247--19643511 Score: 444
Period size: 147 Copynumber: 1.8 Consensus size: 147
19643237 TTTTTTGTGG
**
19643247 AAGGTAAGCAATAGCGGCATTTTAATAAAAAATGCCAC-AAAAA-AATTTTACTTTAAAAAAATA
1 AAGGTAAGCAATAGCGGCATTTTAATAAAAAACACCACAAAAAATAATTTTACTTTAAAAAAATA
* *
19643310 GCACCATTTTGTATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTT
66 GCACCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTT
19643375 TATGAAAAACGCCGCAA
131 TATGAAAAACGCCGCAA
* * *
19643392 AAGGTAAGCAATAGCGGCGTTTTTATGAAAAACACCACAAAAAATAATTTTACTTTAAAAAAATA
1 AAGGTAAGCAATAGCGGCATTTTAATAAAAAACACCACAAAAAATAATTTTACTTTAAAAAAATA
*
19643457 GCATCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTT
66 GCACCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTT
19643512 ACGACGATAG
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
145 33 0.30
146 5 0.05
147 72 0.65
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (147 bp):
AAGGTAAGCAATAGCGGCATTTTAATAAAAAACACCACAAAAAATAATTTTACTTTAAAAAAATA
GCACCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTT
TATGAAAAACGCCGCAA
Found at i:19643619 original size:21 final size:22
Alignment explanation
Indices: 19643593--19643657 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
19643583 TAAAATCCTC
19643593 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTGAAATCCCCAACTT
* *
19643614 TCCCCCCTAAAATCCCTAA--T
1 TCCCCCCTGAAATCCCCAACTT
19643634 TCCCCCCTTGAAATCCCCAACTT
1 TCCCCCC-TGAAATCCCCAACTT
19643657 T
1 T
19643658 ACAAACATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 8 0.22
21 17 0.47
22 9 0.25
23 2 0.06
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.25
Consensus pattern (22 bp):
TCCCCCCTGAAATCCCCAACTT
Found at i:19645988 original size:13 final size:13
Alignment explanation
Indices: 19645970--19645999 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
19645960 CCATGCCTTT
19645970 AAACACAATGCTC
1 AAACACAATGCTC
19645983 AAACACAATGCTC
1 AAACACAATGCTC
19645996 AAAC
1 AAAC
19646000 TAGGAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.30, G:0.07, T:0.13
Consensus pattern (13 bp):
AAACACAATGCTC
Found at i:19650820 original size:43 final size:43
Alignment explanation
Indices: 19650758--19650981 Score: 263
Period size: 43 Copynumber: 5.2 Consensus size: 43
19650748 CCCTAAAGGT
* * *
19650758 GCGGCGTTTATAGTAGAAGCGCTGCTAAAGGTTATGATTTTTA
1 GCGGCGTTTGTAGTAGAAGCGCCGCTAAAGGTCATGATTTTTA
* * *
19650801 GCGGCGTTTGTTGTTGAAGCGCCGCTAAAGGTCATGATCTTTA
1 GCGGCGTTTGTAGTAGAAGCGCCGCTAAAGGTCATGATTTTTA
* * *
19650844 CCGGCGTTTGTAGTAGAAGCGCCGCTAACGGTCTTG-TTCTTTA
1 GCGGCGTTTGTAGTAGAAGCGCCGCTAAAGGTCATGATT-TTTA
* * *
19650887 GCGGCGTTTGTGAG-AGAAGCGCCGCTAAAGATCATGATCTATA
1 GCGGCGTTTGT-AGTAGAAGCGCCGCTAAAGGTCATGATTTTTA
* * * * *
19650930 GCGGCGTTTATGGGATAAGCGCCGCTAAAGGTCATGACTTTTA
1 GCGGCGTTTGTAGTAGAAGCGCCGCTAAAGGTCATGATTTTTA
19650973 GCGGCGTTT
1 GCGGCGTTT
19650982 ATTTTTAAAA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.01
43 147 0.97
44 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTGTAGTAGAAGCGCCGCTAAAGGTCATGATTTTTA
Found at i:19656315 original size:13 final size:13
Alignment explanation
Indices: 19656297--19656327 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19656287 AAATATTTTT
19656297 AATTAATTATGAA
1 AATTAATTATGAA
*
19656310 AATTAATTATGAG
1 AATTAATTATGAA
19656323 AATTA
1 AATTA
19656328 TATAGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (13 bp):
AATTAATTATGAA
Found at i:19661824 original size:42 final size:42
Alignment explanation
Indices: 19661777--19661986 Score: 269
Period size: 42 Copynumber: 5.0 Consensus size: 42
19661767 GAAGCGCAAA
* * *
19661777 CACTTAAGCTCACATGGGGAGCTTTGCTGATACACAGCTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
** *
19661819 CACTTAAGCTTGCATGGGGAGCTTCACTAATACACAACTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
* * *
19661861 CATTTAAGCTCACGA-GGGGAGCTTCGCTGATGCACAACTTGT
1 CACTTAAGCTCAC-ATGGGGAGCTTCGCTAATACACAACTTGT
* * *
19661903 CACTTAAGCTCACGTGAGGAACTTCGCTAATACACAACTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
* * *
19661945 CACTTAAGCTCACGTAGAGAGCTTCGCTAATACACAACTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
19661987 AAAATCATTT
Statistics
Matches: 144, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 143 0.99
43 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (42 bp):
CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
Found at i:19666423 original size:23 final size:23
Alignment explanation
Indices: 19666393--19666439 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
19666383 AAGAGAAGAG
*
19666393 TCACTCGAGTTAGACTTAACGGT
1 TCACTCGAGTTAAACTTAACGGT
19666416 TCACTCGAGTTAAACTTAACGGT
1 TCACTCGAGTTAAACTTAACGGT
19666439 T
1 T
19666440 TTGAAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
TCACTCGAGTTAAACTTAACGGT
Found at i:19668235 original size:12 final size:12
Alignment explanation
Indices: 19668220--19668251 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
19668210 AAAAGAGAGA
19668220 AAAATCTCTGTT
1 AAAATCTCTGTT
19668232 AAAATCTCTGTT
1 AAAATCTCTGTT
19668244 AAAATCTC
1 AAAATCTC
19668252 AAGAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (12 bp):
AAAATCTCTGTT
Found at i:19668381 original size:15 final size:15
Alignment explanation
Indices: 19668346--19668381 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19668336 CATTAGTAGG
*
19668346 AAGGATGTACCTCGA
1 AAGGATGTACCTAGA
19668361 AAGGATGTACCTAGA
1 AAGGATGTACCTAGA
*
19668376 ATGGAT
1 AAGGAT
19668382 CTAAGACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (15 bp):
AAGGATGTACCTAGA
Found at i:19673858 original size:30 final size:30
Alignment explanation
Indices: 19673797--19673859 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
19673787 CAAGCAAGGG
* *
19673797 AGAAATCCAAGGGATCTCTATGCTATTTTT
1 AGAAATCCAAGGGATCTCCATGCTATATTT
19673827 AGAAATCCAAGGGATCTCCATGCT-TAATTT
1 AGAAATCCAAGGGATCTCCATGCTAT-ATTT
19673857 AGA
1 AGA
19673860 TCCTAATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (30 bp):
AGAAATCCAAGGGATCTCCATGCTATATTT
Found at i:19674267 original size:15 final size:16
Alignment explanation
Indices: 19674235--19674268 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
19674225 TTTTCAACTC
19674235 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
19674251 ATTTGCATTTA-GTTA
1 ATTTGCATTTAGGTTA
19674266 ATT
1 ATT
19674269 AATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Done.