Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 78 of 203
Found at i:24695550 original size:7 final size:7
Alignment explanation
Indices: 24695427--24695550 Score: 58
Period size: 7 Copynumber: 17.0 Consensus size: 7
24695417 TATATGATTA
24695427 TTAGGGT
1 TTAGGGT
24695434 TT-GGGAT
1 TTAGGG-T
* *
24695441 ATAAGGT
1 TTAGGGT
24695448 TTAAGGG-
1 TT-AGGGT
24695455 TTATGGG-
1 TTA-GGGT
24695462 TTAGGGAT
1 TTAGGG-T
*
24695470 TTAGGGG
1 TTAGGGT
24695477 TTAGGAGT
1 TTAGG-GT
*
24695485 TAAGGG-
1 TTAGGGT
*
24695491 TTAGGAAT
1 TTAGG-GT
*
24695499 TTAGGGA
1 TTAGGGT
*
24695506 CTAGGAGAT
1 TTAGG-G-T
*
24695515 TTAGGGG
1 TTAGGGT
*
24695522 TTAGGGG
1 TTAGGGT
24695529 TTAGGGAT
1 TTAGGG-T
24695537 TTAGGGT
1 TTAGGGT
24695544 TTAGGGT
1 TTAGGGT
24695551 GTCAATTAAG
Statistics
Matches: 89, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
6 11 0.12
7 45 0.51
8 29 0.33
9 4 0.04
ACGTcount: A:0.23, C:0.01, G:0.42, T:0.34
Consensus pattern (7 bp):
TTAGGGT
Found at i:24697688 original size:67 final size:67
Alignment explanation
Indices: 24697580--24697715 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
24697570 TTCATATATA
24697580 TGTTCAATTTTAGTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTCCTGTTTTTTTTAGTTT
1 TGTTCAATTTTAGTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTCCTGTTTTTTTTAGTTT
24697645 TT
66 TT
*
24697647 TGTTCAATTTTAGTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTCTTGTTTTTTTTAGTTT
1 TGTTCAATTTTAGTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTCCTGTTTTTTTTAGTTT
24697712 TT
66 TT
24697714 TG
1 TG
24697716 GCTTTAATTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (67 bp):
TGTTCAATTTTAGTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTCCTGTTTTTTTTAGTTT
TT
Found at i:24703844 original size:21 final size:21
Alignment explanation
Indices: 24703818--24703904 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
24703808 CAACTTAAAA
* *
24703818 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGCCGCAGCGAGAGAAG
** *
24703839 CAGAGGCTACAGCAAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
* *
24703860 CAGATGCCGCAGTGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
*
24703881 CAGATGCCGCAGCGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
24703902 CAG
1 CAG
24703905 TGAGAGAAGC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.34, C:0.21, G:0.40, T:0.05
Consensus pattern (21 bp):
CAGAGGCCGCAGCGAGAGAAG
Found at i:24704403 original size:43 final size:42
Alignment explanation
Indices: 24704348--24704634 Score: 207
Period size: 43 Copynumber: 7.0 Consensus size: 42
24704338 GGTGTTTCTG
*
24704348 AAATAAGCGCCGCTAAAGCACACT-A-CTTTTAGCGGCGTTTGT
1 AAATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTGT
* *
24704390 AAATAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 AAAT-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTGT
**** *
24704434 TCCCAAGCGCCGCTAAAGAACACGATCTTTA-----GTTT-T
1 AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGT
* * * *
24704470 --CTTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTT
1 AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGT
*** * * *
24704510 TTCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTT
1 AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTGT
** * * *
24704553 GCACAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTT
1 AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGT
*** * *
24704595 TTCTAAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
1 AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
24704635 TTTCTGTAAG
Statistics
Matches: 206, Mismatches: 26, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
34 26 0.13
36 1 0.00
37 3 0.01
38 1 0.00
39 4 0.02
40 1 0.00
42 78 0.38
43 87 0.42
44 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGT
Found at i:24704477 original size:34 final size:35
Alignment explanation
Indices: 24704439--24704541 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 35
24704429 TTTTTTCCCA
*
24704439 AGCGCCGCTAAAGAACACGATCTTTAG-TTTTCTT
1 AGCGCCGCTAAAGAACATGATCTTTAGTTTTTCTT
24704473 AGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTTCTT
1 AGCGCCGCTAAAGAACATGATCTTTA-----G--TTTTTCTT
24704515 AGCGCCGCTAAAGAACATGATCTTTAG
1 AGCGCCGCTAAAGAACATGATCTTTAG
24704542 CGGTGTTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
34 25 0.42
37 1 0.02
39 1 0.02
42 33 0.55
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (35 bp):
AGCGCCGCTAAAGAACATGATCTTTAGTTTTTCTT
Found at i:24704521 original size:42 final size:42
Alignment explanation
Indices: 24704466--24704650 Score: 255
Period size: 42 Copynumber: 4.4 Consensus size: 42
24704456 CGATCTTTAG
*
24704466 TTTTCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTT
1 TTTTCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
*
24704508 TTTTCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTT
1 TTTTCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
* ** *
24704550 TTTGCACAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTT
1 TTTTC-TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
* * *
24704593 TTTTCTAAACGCCGCTAAAGAACATGACCTTTAGCGGCG-TT
1 TTTTCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
24704634 TTTTCTGTAAGCGCCGC
1 TTTTCT-T-AGCGCCGC
24704651 AAAAAGTTAG
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
41 8 0.06
42 76 0.59
43 44 0.34
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
TTTTCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
Found at i:24704616 original size:85 final size:85
Alignment explanation
Indices: 24704473--24704637 Score: 276
Period size: 85 Copynumber: 1.9 Consensus size: 85
24704463 TAGTTTTCTT
* * * * *
24704473 AGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTTCTTAGCGCCGCTAAAGAACATGATCT
1 AGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGACCT
*
24704538 TTAGCGGTGTTTTTTGCACA
66 TTAGCGGCGTTTTTTGCACA
24704558 AGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGACCT
1 AGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGACCT
24704623 TTAGCGGCGTTTTTT
66 TTAGCGGCGTTTTTT
24704638 CTGTAAGCGC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (85 bp):
AGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGACCT
TTAGCGGCGTTTTTTGCACA
Found at i:24704646 original size:85 final size:84
Alignment explanation
Indices: 24704466--24704650 Score: 273
Period size: 85 Copynumber: 2.2 Consensus size: 84
24704456 CGATCTTTAG
* * * *
24704466 TTTTCTT-AGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTTCTTAGCGCCGCTAAAGAA
1 TTTTCTTAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAA
* *
24704530 CATGATCTTTAGCGGTGTT
66 CATGACCTTTAGCGGCGTT
**
24704549 TTTTGCACAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGA
1 TTTT-CTTAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGA
24704614 ACATGACCTTTAGCGGCGTT
65 ACATGACCTTTAGCGGCGTT
24704634 TTTTCTGTAAGCGCCGC
1 TTTTCT-TAAGCGCCGC
24704651 AAAAAGTTAG
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
83 4 0.04
84 2 0.02
85 83 0.93
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (84 bp):
TTTTCTTAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTCTAAACGCCGCTAAAGAA
CATGACCTTTAGCGGCGTT
Found at i:24714478 original size:58 final size:58
Alignment explanation
Indices: 24714413--24714529 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
24714403 ACATTCATTA
*
24714413 ATGAAGCATTGAAAAGTAATACAAAACCTAGATGCATCTTTAAAATGAACTTCATAAC
1 ATGAAGCATTGAAAAGTAATACAAAACCTAGATGCATCTTTAAAATAAACTTCATAAC
24714471 ATGAAGCATTGAAAAGTAATACAAAACCTAGATGCATCTTTAAAATAAACTTCATAAC
1 ATGAAGCATTGAAAAGTAATACAAAACCTAGATGCATCTTTAAAATAAACTTCATAAC
24714529 A
1 A
24714530 GTGTTTTATA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (58 bp):
ATGAAGCATTGAAAAGTAATACAAAACCTAGATGCATCTTTAAAATAAACTTCATAAC
Found at i:24720101 original size:29 final size:29
Alignment explanation
Indices: 24720043--24720109 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
24720033 GATTTCGCGG
*
24720043 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
24720072 AAACCGGCCCATTTCGGTAAAT-TTTGAAA
1 AAAACGGCCCATTCCGGTAAATAATT-AAA
24720101 AAAACGGCC
1 AAAACGGCC
24720110 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:24726596 original size:5 final size:5
Alignment explanation
Indices: 24726586--24726611 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24726576 TTCTTCGTGT
24726586 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
24726612 ATATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:24726918 original size:30 final size:29
Alignment explanation
Indices: 24726845--24726947 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 29
24726835 AATTTTCTTT
* * *
24726845 AAATTGCATTTTGGACCCTAAACTTTC-CT
1 AAATTTCATTTT-GACCCTTAACTTTCTCA
* *
24726874 ATATTTACACTTTGACCCTTTAACTTTCTCA
1 AAATTT-CATTTTGACCC-TTAACTTTCTCA
*
24726905 AAATTTCATTTTGACCCCTTAAATTTCT-A
1 AAATTTCATTTTGA-CCCTTAACTTTCTCA
*
24726934 GAAATTACATTTTG
1 -AAATTTCATTTTG
24726948 GCCCCATGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
29 10 0.17
30 41 0.68
31 9 0.15
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTTAACTTTCTCA
Found at i:24727540 original size:18 final size:17
Alignment explanation
Indices: 24727483--24727560 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 17
24727473 GGGGGTTACC
*
24727483 GAAATAGAAGAGAAA-G
1 GAAAAAGAAGAGAAAGG
*
24727499 AAAAAAG-AG-GAAA-G
1 GAAAAAGAAGAGAAAGG
*
24727513 G--AAAGGAGAGAAAGG
1 GAAAAAGAAGAGAAAGG
*
24727528 GAAAAAAGAAGAGAAA-A
1 G-AAAAAGAAGAGAAAGG
24727545 GAAAAAGAAGA-AAAGG
1 GAAAAAGAAGAGAAAGG
24727561 AGGAAGGAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
12 4 0.08
13 2 0.04
14 9 0.18
15 7 0.14
16 15 0.31
17 1 0.02
18 11 0.22
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (17 bp):
GAAAAAGAAGAGAAAGG
Found at i:24727555 original size:19 final size:18
Alignment explanation
Indices: 24727514--24727556 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24727504 AGAGGAAAGG
* * *
24727514 AAAGGAGAGAAAGGGAAA
1 AAAGAAGAGAAAAGAAAA
24727532 AAAGAAGAGAAAAGAAAA
1 AAAGAAGAGAAAAGAAAA
24727550 AGAAGAA
1 A-AAGAA
24727557 AAGGAGGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGAAGAGAAAAGAAAA
Found at i:24727678 original size:6 final size:6
Alignment explanation
Indices: 24727664--24727714 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
24727654 GTTTGAAAGG
* ** *
24727664 AAGAAA AAGAGA AAGTTA AAG-AA AAGAAG AAGAAA AAGGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AA-GAAA AAGAAA
24727712 AAG
1 AAG
24727715 GAGAGAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:24727730 original size:24 final size:24
Alignment explanation
Indices: 24727681--24727731 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
24727671 AGAGAAAGTT
*
24727681 AAAGAAAAGAAGAAGAAAAAGGAA
1 AAAGAAAAGAAGAAGAAAAAGAAA
* *
24727705 AAAGAAAA-AGGAGAGAAAAATAAA
1 AAAGAAAAGAAGA-AGAAAAAGAAA
24727729 AAA
1 AAA
24727732 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (24 bp):
AAAGAAAAGAAGAAGAAAAAGAAA
Found at i:24728529 original size:16 final size:17
Alignment explanation
Indices: 24728510--24728547 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
24728500 AATACTGTAC
24728510 GTTTTAAAAACTT-CGT
1 GTTTTAAAAACTTCCGT
* *
24728526 GTTTCAAAAATTTCCGT
1 GTTTTAAAAACTTCCGT
24728543 GTTTT
1 GTTTT
24728548 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (17 bp):
GTTTTAAAAACTTCCGT
Found at i:24728571 original size:18 final size:17
Alignment explanation
Indices: 24728547--24728619 Score: 65
Period size: 18 Copynumber: 4.2 Consensus size: 17
24728537 TTCCGTGTTT
24728547 TTTAAAAAAATTTTGTG
1 TTTAAAAAAATTTTGTG
* *
24728564 TTTAAAAAAAATCTCGTG
1 TTT-AAAAAAATTTTGTG
**
24728582 TTTTCAAAAATTTTCGTG
1 TTTAAAAAAATTTT-GTG
* * *
24728600 TTTTAGAAATTTTTGTG
1 TTTAAAAAAATTTTGTG
24728617 TTT
1 TTT
24728620 CTAAAATTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
17 16 0.36
18 29 0.64
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (17 bp):
TTTAAAAAAATTTTGTG
Found at i:24728659 original size:18 final size:17
Alignment explanation
Indices: 24728510--24728694 Score: 85
Period size: 17 Copynumber: 10.5 Consensus size: 17
24728500 AATACTGTAC
* *
24728510 GTTTTAAAAACTT-CGT
1 GTTTCAAAAATTTCCGT
24728526 GTTTCAAAAATTTCCGT
1 GTTTCAAAAATTTCCGT
* *
24728543 GTTTTTTAAAAAAATTT-TGT
1 G---TTT-CAAAAATTTCCGT
* **
24728563 GTTTAAAAAAAATCTCGT
1 GTTTCAAAAATTTC-CGT
*
24728581 GTTTTCAAAAATTTTCGT
1 G-TTTCAAAAATTTCCGT
* * **
24728599 GTTTTAGAAATTTTTGT
1 GTTTCAAAAATTTCCGT
*
24728616 GTTTCTAAAA-TTCTCGT
1 GTTTCAAAAATTTC-CGT
*
24728633 ATTTCAAAAATTTCCGT
1 GTTTCAAAAATTTCCGT
*
24728650 GTTCTCAAAAAATTAT-TGT
1 GTT-TC-AAAAATT-TCCGT
24728669 GTTTC-AAAATTCTCGCGT
1 GTTTCAAAAATT-TC-CGT
24728687 -TTTCAAAA
1 GTTTCAAAA
24728695 CAAAAAACTT
Statistics
Matches: 128, Mismatches: 25, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
16 27 0.21
17 46 0.36
18 19 0.15
19 21 0.16
20 7 0.05
21 8 0.06
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (17 bp):
GTTTCAAAAATTTCCGT
Found at i:24730153 original size:25 final size:26
Alignment explanation
Indices: 24729985--24730178 Score: 129
Period size: 25 Copynumber: 7.8 Consensus size: 26
24729975 AGCTCTTCCA
* *
24729985 AGCCATATAA-AGGGAAGCTCATGTG
1 AGCCATATAATCGGGAAGCTCATGAG
** * * *
24730010 AGCTGTATAA-CGGGAAGTTCTTGCG
1 AGCCATATAATCGGGAAGCTCATGAG
* *
24730035 AGCCAAAT-ATCGGAAAGCTCAT-ACG
1 AGCCATATAATCGGGAAGCTCATGA-G
* * **
24730060 AGCCATA-AA-CAGGAAGCTTAAAAG
1 AGCCATATAATCGGGAAGCTCATGAG
24730084 AGCCAT-TAATCGGGAAGCTCATGAG
1 AGCCATATAATCGGGAAGCTCATGAG
* *
24730109 AGCCAAAT-ATCGAGAAGCTCATGAG
1 AGCCATATAATCGGGAAGCTCATGAG
* *
24730134 AGCCATATAAT-GGGATGCTCATAAG
1 AGCCATATAATCGGGAAGCTCATGAG
* * *
24730159 AGCTAAATAA-CGGGACGCTC
1 AGCCATATAATCGGGAAGCTC
24730179 TTGCGAGCTA
Statistics
Matches: 129, Mismatches: 31, Indels: 18
0.72 0.17 0.10
Matches are distributed among these distances:
24 18 0.14
25 108 0.84
26 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
AGCCATATAATCGGGAAGCTCATGAG
Found at i:24741440 original size:26 final size:27
Alignment explanation
Indices: 24741401--24741453 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
24741391 TTTACTTGCT
*
24741401 TTTATTATTATTTAA-TATTATATTAA
1 TTTATTATTATTTAAGTATTAAATTAA
*
24741427 TTTATTATTTTTTAAGTATTAAATTAA
1 TTTATTATTATTTAAGTATTAAATTAA
24741454 AATATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTATTATTATTTAAGTATTAAATTAA
Found at i:24741459 original size:27 final size:26
Alignment explanation
Indices: 24741403--24741460 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
24741393 TACTTGCTTT
* **
24741403 TATTATTATTTAATATTATATTAATT
1 TATTATTATTTAATATTAAATTAAAA
*
24741429 TATTATTTTTTAAGTATTAAATTAAAA
1 TATTATTATTTAA-TATTAAATTAAAA
24741456 TATTA
1 TATTA
24741461 AATTTTGTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TATTATTATTTAATATTAAATTAAAA
Found at i:24744485 original size:21 final size:21
Alignment explanation
Indices: 24744460--24744520 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
24744450 TAACTATCAT
24744460 ATTTAGGGT-TTGAGTTTAAGG
1 ATTTAGGGTCTTGAGTTTAA-G
* * *
24744481 GTTTAGAGTCTTGGGTTTAAG
1 ATTTAGGGTCTTGAGTTTAAG
24744502 ATTTAGGGTCTCT-AGTTTA
1 ATTTAGGGTCT-TGAGTTTA
24744521 GGTTTTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.44
Consensus pattern (21 bp):
ATTTAGGGTCTTGAGTTTAAG
Found at i:24744554 original size:20 final size:20
Alignment explanation
Indices: 24744529--24744566 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24744519 TAGGTTTTAT
24744529 ATTTTAGAGG-TTTAACTTAC
1 ATTTTAG-GGTTTTAACTTAC
24744549 ATTTTAGGGTTTTAACTT
1 ATTTTAGGGTTTTAACTT
24744567 TTAATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (20 bp):
ATTTTAGGGTTTTAACTTAC
Found at i:24746392 original size:24 final size:24
Alignment explanation
Indices: 24746377--24746430 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
24746367 AATCAAAGTC
24746377 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
24746401 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
24746425 AAATAT
1 AAATAT
24746431 TCTAGAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:24746613 original size:22 final size:21
Alignment explanation
Indices: 24746583--24746627 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
24746573 ACACCAAAAC
* *
24746583 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCAGCG-TTTTTT
24746605 AGGCCTTTAGCAGCGTTTTTT
1 AGGCCTTTAGCAGCGTTTTTT
24746626 AG
1 AG
24746628 CGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.13, C:0.18, G:0.27, T:0.42
Consensus pattern (21 bp):
AGGCCTTTAGCAGCGTTTTTT
Found at i:24746772 original size:43 final size:43
Alignment explanation
Indices: 24746697--24747182 Score: 695
Period size: 43 Copynumber: 11.3 Consensus size: 43
24746687 GCGTCGCTAA
* *
24746697 CTTTAGCGGCGC-TTTCCCACAAACGCCACTAAAGACCATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
24746739 CTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAGACCATGAT
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
24746782 CTTTAGCGACGCTTTTCCGACAAACGTCGCTAAAGACCATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
24746825 CTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAGACCATGAT
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
24746868 CTTTAGCGACGCTTTTCCGACAAACGTCGCTAAAGACCATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
24746911 CTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAGACCATGAT
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
24746954 CTTTAGCGACGCTTTTCCGACAAACGTCGCTAAAGACCATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
24746997 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGAT
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
24747040 CTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGACGATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * * *
24747083 TTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCCTGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* **
24747126 CTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCACAAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
24747169 CTTTAGCGACGCTT
1 CTTTAGCGACGCTT
24747183 AAACAACAAA
Statistics
Matches: 399, Mismatches: 44, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
42 12 0.03
43 387 0.97
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:24747198 original size:86 final size:86
Alignment explanation
Indices: 24746697--24747182 Score: 767
Period size: 86 Copynumber: 5.7 Consensus size: 86
24746687 GCGTCGCTAA
* * *
24746697 CTTTAGCGGCGC-TTTCCCACAAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
24746761 AACGACGCTAAAGACCATGAT
66 AACGACGCTAAAGACCATGAT
*
24746782 CTTTAGCGACGCTTTTCCGACAAACGTCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
24746847 AACGACGCTAAAGACCATGAT
66 AACGACGCTAAAGACCATGAT
*
24746868 CTTTAGCGACGCTTTTCCGACAAACGTCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
24746933 AACGACGCTAAAGACCATGAT
66 AACGACGCTAAAGACCATGAT
*
24746954 CTTTAGCGACGCTTTTCCGACAAACGTCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
* *
24747019 AACGCCGCTATAGACCATGAT
66 AACGACGCTAAAGACCATGAT
* * * * *
24747040 CTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGACGATGACTTTTAGCGACGCTTTTCCGACA
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
* * * *
24747105 AACGCCACTAAAGACCCTGAC
66 AACGACGCTAAAGACCATGAT
* * ** *
24747126 CTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCTT
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTT
24747183 AAACAACAAA
Statistics
Matches: 377, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
85 11 0.03
86 366 0.97
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (86 bp):
CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
AACGACGCTAAAGACCATGAT
Found at i:24758803 original size:14 final size:14
Alignment explanation
Indices: 24758786--24758820 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
24758776 TTAAAACCAA
24758786 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
24758800 AAAAAAAAAAGAAG
1 AAAAAAAAAAAAAG
24758814 AAGAAAA
1 AA-AAAA
24758821 GGAAAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:24758804 original size:17 final size:17
Alignment explanation
Indices: 24758784--24758820 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
24758774 CATTAAAACC
24758784 AAAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAGA
* *
24758801 AAAAAAAAAGAAGAAGA
1 AAAAAAAAAAAAAAAGA
24758818 AAA
1 AAA
24758821 GGAAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGA
Found at i:24758810 original size:11 final size:11
Alignment explanation
Indices: 24758784--24758826 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
24758774 CATTAAAACC
24758784 AAAAA-AAAAA
1 AAAAAGAAAAA
24758794 AAAAAGAAAAA
1 AAAAAGAAAAA
*
24758805 AAAAAGAAGAAG
1 AAAAAGAA-AAA
*
24758817 AAAAGGAAAA
1 AAAAAGAAAA
24758827 CAATCGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 5 0.17
11 15 0.52
12 9 0.31
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:24764822 original size:15 final size:15
Alignment explanation
Indices: 24764802--24764831 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24764792 TTATAGGCCA
*
24764802 AAACATCAAGTAAAT
1 AAACATCAAATAAAT
24764817 AAACATCAAATAAAT
1 AAACATCAAATAAAT
24764832 TCTAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.20
Consensus pattern (15 bp):
AAACATCAAATAAAT
Found at i:24766916 original size:23 final size:23
Alignment explanation
Indices: 24766877--24766941 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
24766867 CATGACATCT
*
24766877 TAATTTGAT-TTAATTTTTATAAA
1 TAATTT-ATATTATTTTTTATAAA
24766900 TAATTTATATTATTTTTT-TAAA
1 TAATTTATATTATTTTTTATAAA
* * * *
24766922 TTACTAATATCATTTTTTAT
1 TAATTTATATTATTTTTTAT
24766942 GTTGTATCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (23 bp):
TAATTTATATTATTTTTTATAAA
Found at i:24770703 original size:18 final size:18
Alignment explanation
Indices: 24770649--24770703 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
24770639 ATAATTAATA
24770649 TAAAATAATATTT-TTTAT
1 TAAAAT-ATATTTATTTAT
* * *
24770667 TCAAAT-TATTGAATCTAT
1 TAAAATATATT-TATTTAT
24770685 TAAAATATATTTATTTAT
1 TAAAATATATTTATTTAT
24770703 T
1 T
24770704 TAATATTTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 4 0.14
18 20 0.71
19 4 0.14
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TAAAATATATTTATTTAT
Found at i:24771211 original size:8 final size:7
Alignment explanation
Indices: 24771184--24771210 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24771174 AAAGTCTTCT
24771184 TTTTTTC
1 TTTTTTC
24771191 TTTTTTC
1 TTTTTTC
24771198 TTTTTTC
1 TTTTTTC
24771205 TTTTTT
1 TTTTTT
24771211 TGTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:24773118 original size:19 final size:20
Alignment explanation
Indices: 24773090--24773128 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24773080 TCCCATTATT
24773090 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
24773109 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
24773129 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:24773146 original size:25 final size:23
Alignment explanation
Indices: 24773109--24773154 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
24773099 TTTGTTTTAA
*
24773109 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
24773132 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
24773155 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:24776878 original size:123 final size:123
Alignment explanation
Indices: 24776716--24776961 Score: 316
Period size: 123 Copynumber: 2.0 Consensus size: 123
24776706 TATATTTTAG
* * * *
24776716 TTTTATTATGCATATTTTATTACTTCCATCAATTATATATCAATATTATTATTTAACCATTAGTT
1 TTTTATCATGCACACTTTATTACTTCCATCAATTATATATCAATATTATTATTTAACCATGA-TT
* * *
24776781 GAGTTAGTGTCA-AGTCAATCGGACACCAACTCAACCAAAACCAATTAAAATTTTATAA
65 GAGTTAGTGTCAGAATCAATCAGACACCAACTCAACCAAAACCAAATAAAATTTTATAA
* * ** *
24776839 TTTTATCATGCACACTTTATTA-TATCTATCAATTGTATATTTATATTATTATTTAACCCTGATT
1 TTTTATCATGCACACTTTATTACT-TCCATCAATTATATATCAATATTATTATTTAACCATGATT
* * *
24776903 GAGTTGGTGTCATGAATCAATCAGACATCAACTCAACCAAAACCAAATATAATTTTATA
65 GAGTTAGTGTCA-GAATCAATCAGACACCAACTCAACCAAAACCAAATAAAATTTTATA
24776962 TATGAAATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
122 14 0.13
123 51 0.49
124 40 0.38
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (123 bp):
TTTTATCATGCACACTTTATTACTTCCATCAATTATATATCAATATTATTATTTAACCATGATTG
AGTTAGTGTCAGAATCAATCAGACACCAACTCAACCAAAACCAAATAAAATTTTATAA
Found at i:24785950 original size:16 final size:17
Alignment explanation
Indices: 24785929--24785961 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24785919 AAAAAAGTCC
*
24785929 TCAATT-AGGGGCAAAT
1 TCAATTAAGGGGAAAAT
24785945 TCAATTAAGGGGAAAAT
1 TCAATTAAGGGGAAAAT
24785962 AATAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (17 bp):
TCAATTAAGGGGAAAAT
Found at i:24793089 original size:15 final size:16
Alignment explanation
Indices: 24793069--24793103 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
24793059 ATTAATTAAA
24793069 AGTATA-GGGGAAAAT
1 AGTATAGGGGGAAAAT
24793084 AGTATAGGGGGAAAAT
1 AGTATAGGGGGAAAAT
24793100 AGTA
1 AGTA
24793104 ATTTTTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (16 bp):
AGTATAGGGGGAAAAT
Found at i:24798911 original size:20 final size:21
Alignment explanation
Indices: 24798859--24798900 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24798849 TTTAAAAAAT
24798859 GATAAAAATTTAATTTAATTC
1 GATAAAAATTTAATTTAATTC
24798880 GATAAAAATTTAATTTAATTC
1 GATAAAAATTTAATTTAATTC
24798901 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
GATAAAAATTTAATTTAATTC
Found at i:24808323 original size:14 final size:14
Alignment explanation
Indices: 24808299--24808331 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24808289 TCCCTGCTTC
24808299 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
24808314 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
24808327 GTTTC
1 GTTTC
24808332 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:24808664 original size:15 final size:14
Alignment explanation
Indices: 24808646--24808676 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
24808636 TTAATTTATT
24808646 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
24808661 TAATAATAATCTAA
1 TAATAATAATCTAA
24808675 TA
1 TA
24808677 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:24808687 original size:21 final size:20
Alignment explanation
Indices: 24808663--24808731 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
24808653 AATGCTAATA
24808663 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
24808684 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
24808703 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
24808724 ATAATAAT
1 ATAATAAT
24808732 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:24809455 original size:35 final size:34
Alignment explanation
Indices: 24809404--24809476 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
24809394 TGTTACCGGT
*
24809404 TGGTCTGGCTCGTATGAGCAT-TTGTTGTGCTGGA
1 TGGTCTGGCTCGTATGAGCATCTAG-TGTGCTGGA
* *
24809438 TGGTACTGGCTCTTATGAGCATCTAGTGTGTTGGA
1 TGGT-CTGGCTCGTATGAGCATCTAGTGTGCTGGA
24809473 TGGT
1 TGGT
24809477 TAACCGTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 4 0.12
35 28 0.82
36 2 0.06
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (34 bp):
TGGTCTGGCTCGTATGAGCATCTAGTGTGCTGGA
Found at i:24814179 original size:7 final size:7
Alignment explanation
Indices: 24814167--24814195 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
24814157 ACTAAACCCA
24814167 CCTCCTC
1 CCTCCTC
24814174 CCTCCTC
1 CCTCCTC
24814181 CCTCCTC
1 CCTCCTC
24814188 CCTCCTC
1 CCTCCTC
24814195 C
1 C
24814196 GTTTAGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (7 bp):
CCTCCTC
Found at i:24822101 original size:55 final size:54
Alignment explanation
Indices: 24822014--24822268 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
24822004 ATTAGGGTTT
*
24822014 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
24822069 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
24822124 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
24822177 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
24822226 AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
24822269 GTACCCGTGT
Statistics
Matches: 171, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
48 2 0.01
49 37 0.22
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:24822220 original size:108 final size:110
Alignment explanation
Indices: 24822021--24822221 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
24822011 TTTAAGGATA
*
24822021 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
24822086 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
24822131 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
24822193 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
24822222 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:24822481 original size:16 final size:16
Alignment explanation
Indices: 24822460--24822490 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24822450 ATAAATTTGA
24822460 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
24822476 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
24822491 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:24829482 original size:19 final size:19
Alignment explanation
Indices: 24829458--24829507 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
24829448 CTAAAATAAT
*
24829458 TTAAAATAACATTTATTTA
1 TTAAAATAACATTTACTTA
24829477 TTAAAATAACATTTACTTA
1 TTAAAATAACATTTACTTA
24829496 TTAAAATAACAT
1 TTAAAATAACAT
24829508 GGGTCCTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAATAACATTTACTTA
Found at i:24832400 original size:46 final size:46
Alignment explanation
Indices: 24832333--24832516 Score: 278
Period size: 46 Copynumber: 4.0 Consensus size: 46
24832323 TGAATGAATT
*
24832333 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
24832379 CTGATATGAAATGTATAAGACCATGTTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
24832425 GTGATATGAAATGTGTAAGACCATAGTTGAAAGACACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
24832471 ATGATATGAAATGTGTAAGACCATGATTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
24832517 GTGACAGAAA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:24835432 original size:21 final size:20
Alignment explanation
Indices: 24835369--24835432 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
24835359 CAACTTAAAC
*
24835369 AATAATATTTTAATAAAAATA
1 AATAATATTTTAATTAAAA-A
* * *
24835390 AATAAAATAATTAATTTTAAAA
1 AATAATAT-TTTAA-TTAAAAA
24835412 AATAATATTTTAATGTAAAAA
1 AATAATATTTTAAT-TAAAAA
24835433 GAGGTGAAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.03
21 16 0.48
22 12 0.36
23 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATAATATTTTAATTAAAAA
Found at i:24844894 original size:22 final size:21
Alignment explanation
Indices: 24844862--24844922 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
24844852 GGGGTTCGAG
*
24844862 TTTTTTCTATATTTTTTTAAGT
1 TTTTTTTTATATTTTTTT-AGT
*
24844884 TTTTTTTTATA-TTCTTTAGT
1 TTTTTTTTATATTTTTTTAGT
*
24844904 TTTTTTTAATAATTTTTTT
1 TTTTTTTTAT-ATTTTTTT
24844923 TAGATGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.36
21 6 0.18
22 15 0.45
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTTTTTATATTTTTTTAGT
Found at i:24844904 original size:20 final size:22
Alignment explanation
Indices: 24844862--24844910 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
24844852 GGGGTTCGAG
* *
24844862 TTTTTTCTATATTTTTTTAAGT
1 TTTTTTTTATATTTCTTTAAGT
24844884 TTTTTTTTATA-TTCTTT-AGT
1 TTTTTTTTATATTTCTTTAAGT
24844904 TTTTTTT
1 TTTTTTT
24844911 AATAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 5 0.20
22 10 0.40
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTTTTATATTTCTTTAAGT
Found at i:24846203 original size:28 final size:28
Alignment explanation
Indices: 24846172--24846228 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
24846162 TAATATTTTA
*
24846172 AACTTATTCAACAAATACATATTTACAC
1 AACTTATTCAACAAATACAGATTTACAC
*
24846200 AACTTATTCAACTAATACAGATTTACAC
1 AACTTATTCAACAAATACAGATTTACAC
24846228 A
1 A
24846229 CATACAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (28 bp):
AACTTATTCAACAAATACAGATTTACAC
Found at i:24846442 original size:22 final size:22
Alignment explanation
Indices: 24846417--24846459 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24846407 GCACTATTGA
*
24846417 ACAGAAAGCACTAAAGTGCTAT
1 ACAGAAAGCACGAAAGTGCTAT
* *
24846439 ACAGAGAGCACGAATGTGCTA
1 ACAGAAAGCACGAAAGTGCTA
24846460 AAAGGAGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (22 bp):
ACAGAAAGCACGAAAGTGCTAT
Found at i:24849910 original size:2 final size:2
Alignment explanation
Indices: 24849903--24849933 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24849893 TTTCGTGTTT
24849903 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24849934 TTATAGTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24849975 original size:16 final size:16
Alignment explanation
Indices: 24849954--24850001 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
24849944 TCCATGACAG
24849954 GATTTGTGTTTTAATT
1 GATTTGTGTTTTAATT
*
24849970 GATTTG-GAATTTGAATT
1 GATTTGTG--TTTTAATT
*
24849987 AATTTGTGTTTTAAT
1 GATTTGTGTTTTAAT
24850002 GTTATAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 12 0.46
18 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (16 bp):
GATTTGTGTTTTAATT
Found at i:24854517 original size:43 final size:43
Alignment explanation
Indices: 24854456--24854540 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
24854446 TTCAAATCTG
*
24854456 CATATACAAACCAACATTAATTTAATTGTTCAGATGGAATAGA
1 CATATACAAACCAACATTAATTTAATTGTTCAAATGGAATAGA
*
24854499 CATATAGAAACCAACATTAATTTAATTGTTCAAATGGAATAG
1 CATATACAAACCAACATTAATTTAATTGTTCAAATGGAATAG
24854541 GAGGAGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (43 bp):
CATATACAAACCAACATTAATTTAATTGTTCAAATGGAATAGA
Found at i:24856394 original size:49 final size:49
Alignment explanation
Indices: 24856291--24856395 Score: 151
Period size: 50 Copynumber: 2.2 Consensus size: 49
24856281 AAAAAACCTC
* *
24856291 CTGGG-TTTTGCCTACAAAACGCTGTCGTTAATTAGTAGGGGAACTTTG
1 CTGGGTTTTTGCCTAAAAAACGCTGTCATTAATTAGTAGGGGAACTTTG
* *
24856339 CAGGGTTTTTGCCTATAAAAACGCTGTCATTAATTCGTAGGGGAACTTTG
1 CTGGGTTTTTGCCTA-AAAAACGCTGTCATTAATTAGTAGGGGAACTTTG
24856389 -TGGGTTT
1 CTGGGTTT
24856396 GGGCCTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 4 0.08
49 15 0.30
50 31 0.62
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (49 bp):
CTGGGTTTTTGCCTAAAAAACGCTGTCATTAATTAGTAGGGGAACTTTG
Found at i:24859451 original size:22 final size:22
Alignment explanation
Indices: 24859426--24859467 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24859416 TTTCTGAACT
24859426 TTAAAATATTCTAA-TTATATTA
1 TTAAAATATTC-AAGTTATATTA
*
24859448 TTAAATTATTCAAGTTATAT
1 TTAAAATATTCAAGTTATAT
24859468 CAATTAGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAAAATATTCAAGTTATATTA
Found at i:24860672 original size:14 final size:15
Alignment explanation
Indices: 24860653--24860684 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24860643 CCACATTTAG
24860653 ATGGAT-ATTATCAA
1 ATGGATAATTATCAA
24860667 ATGGATAATTATCAA
1 ATGGATAATTATCAA
24860682 ATG
1 ATG
24860685 ATCGCCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (15 bp):
ATGGATAATTATCAA
Found at i:24861209 original size:24 final size:24
Alignment explanation
Indices: 24861177--24861223 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
24861167 AACCATTTAA
24861177 GCTTAATTCAATGATAAAAAAATT
1 GCTTAATTCAATGATAAAAAAATT
24861201 GCTTAATTCAATGATAAAAAAAT
1 GCTTAATTCAATGATAAAAAAAT
24861224 AGTAATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (24 bp):
GCTTAATTCAATGATAAAAAAATT
Found at i:24883486 original size:18 final size:18
Alignment explanation
Indices: 24883463--24883505 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24883453 GAATAATTAT
*
24883463 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
* *
24883481 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAA
24883499 TTATTCA
1 TTATTCA
24883506 ATAATAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:24883505 original size:36 final size:36
Alignment explanation
Indices: 24883463--24883733 Score: 156
Period size: 36 Copynumber: 7.3 Consensus size: 36
24883453 GAATAATTAT
*
24883463 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * * **
24883499 TTATTCAATAATA-ACTAGTTATTCAGTATTGATCAATTGATCGG
1 TTATTCAGTAACAGTC-AGTTATTCAGTA---A-C-A---ATCAA
* *
24883543 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCA-A
* * *
24883579 -TATTCAGTAACTATTAAGTTATTCAGTAACAGTC-A
1 TTATTCAGTAAC-AGTCAGTTATTCAGTAACAATCAA
* * * * **
24883614 TTCATTCAGTGACAATTAATTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * * *
24883651 TTATTCAATAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATC-AA
* * * * *
24883688 -TATCCAGTAACAGTCAATTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
24883723 TTATTCAGTAA
1 TTATTCAGTAA
24883734 TAATAAGTTA
Statistics
Matches: 175, Mismatches: 42, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
35 17 0.10
36 111 0.63
37 17 0.10
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.01
44 24 0.14
45 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
Found at i:24883671 original size:72 final size:71
Alignment explanation
Indices: 24883544--24883745 Score: 246
Period size: 72 Copynumber: 2.8 Consensus size: 71
24883534 ATTGATCGGT
* *
24883544 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAA
1 TATCCAGTAACAATCAATTATTCAGTAATATCA-ATTATTCAGTAA-TATTAAGTTATTCAGTAA
*
24883608 CAGTC-AT
64 CAGTCTAA
* * * * *
24883615 TCATTCAGTGACAATTAATTATTCAGTAATGATCAATTATTCAATAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAAT-ATCAATTATTCAGTAATATTAAGTTATTCAGTAA
24883680 CAGTCTAA
64 CAGTCTAA
* * *
24883688 TATCCAGTAACAGTCAATTATCCAGTAATAGTCAATTATTCAGTAATAATAAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAATA-TCAATTATTCAGTAATATTAAGTTATT
24883746 TTCTACCTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
71 2 0.02
72 93 0.85
73 15 0.14
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAATATCAATTATTCAGTAATATTAAGTTATTCAGTAACA
GTCTAA
Found at i:24883735 original size:18 final size:18
Alignment explanation
Indices: 24883543--24883733 Score: 160
Period size: 18 Copynumber: 10.6 Consensus size: 18
24883533 AATTGATCGG
*
24883543 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
24883561 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
24883579 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
24883596 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
24883614 TTCATTCAGTGACAATTAA
1 TT-ATTCAGTAACAGTCAA
*
24883633 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * * *
24883651 TTATTCAATAATATTCAG
1 TTATTCAGTAACAGTCAA
24883669 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
24883688 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
24883705 TTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAA
24883723 TTATTCAGTAA
1 TTATTCAGTAA
24883734 TAATAAGTTA
Statistics
Matches: 139, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
17 19 0.14
18 103 0.74
19 17 0.12
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:24883984 original size:45 final size:45
Alignment explanation
Indices: 24883924--24884123 Score: 301
Period size: 45 Copynumber: 4.4 Consensus size: 45
24883914 TAACAGTAAC
* *
24883924 AATCGGTAACGGTAACAGTAACAATATTCGACACACACAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
*
24883969 AATCGGTAACAGTAACAGTAACAATATTCGACACACATAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
* * *
24884014 AATCGATAACGGTAACAGTAACAATACTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
* * * *
24884059 ATTTGATAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
*
24884104 AATCGGTAACAGTAGCAGTA
1 AATCGGTAACAGTAACAGTA
24884124 GCGTTAACAG
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 141 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (45 bp):
AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
Found at i:24884541 original size:5 final size:5
Alignment explanation
Indices: 24884532--24884588 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
24884522 ATTTAATCAT
* * *
24884532 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AATTC AACTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC
24884582 AAATTC A
1 -AATTC A
24884589 CTTTTCCACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
5 42 0.89
6 5 0.11
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTC
Found at i:24888400 original size:35 final size:35
Alignment explanation
Indices: 24888357--24888451 Score: 183
Period size: 35 Copynumber: 2.7 Consensus size: 35
24888347 AACACAGCAC
24888357 TAAT-ATTTATTAGTCAAAAGCATTAGCAATAATT
1 TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
24888391 TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
1 TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
24888426 TAATAATTTATTAGTCAAAAGCATTA
1 TAATAATTTATTAGTCAAAAGCATTA
24888452 TGCTGACGTG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 4 0.07
35 56 0.93
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (35 bp):
TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
Found at i:24894026 original size:29 final size:29
Alignment explanation
Indices: 24893994--24894052 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
24893984 ATTTATTAGA
*
24893994 TGTTTGTTTTTA-AGTCAAATCTAAATCTT
1 TGTTTGTTTTTAGA-TCAAATCCAAATCTT
*
24894023 TGTTTGTTTTTAGATTAAATCCAAATCTT
1 TGTTTGTTTTTAGATCAAATCCAAATCTT
24894052 T
1 T
24894053 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (29 bp):
TGTTTGTTTTTAGATCAAATCCAAATCTT
Found at i:24901551 original size:5 final size:6
Alignment explanation
Indices: 24901535--24901559 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24901525 TTATATTTGA
24901535 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
24901560 GATGTACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:24911290 original size:8 final size:8
Alignment explanation
Indices: 24911277--24911302 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24911267 TCCAGGTTCG
24911277 AACATGAA
1 AACATGAA
24911285 AACATGAA
1 AACATGAA
24911293 AACATGAA
1 AACATGAA
24911301 AA
1 AA
24911303 AAATCTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AACATGAA
Found at i:24912089 original size:22 final size:22
Alignment explanation
Indices: 24912064--24912108 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24912054 TTATAGCAGA
24912064 TAGCCTACTTCAAGAGCATAAG
1 TAGCCTACTTCAAGAGCATAAG
24912086 TAGCCTACTTCAAGAGCATAAG
1 TAGCCTACTTCAAGAGCATAAG
24912108 T
1 T
24912109 GATAGGTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (22 bp):
TAGCCTACTTCAAGAGCATAAG
Found at i:24913974 original size:18 final size:17
Alignment explanation
Indices: 24913940--24913972 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24913930 TATTTAATTT
24913940 TTTAAAATTAGTTTTTA
1 TTTAAAATTAGTTTTTA
*
24913957 TTTAAAATTAATTTTT
1 TTTAAAATTAGTTTTT
24913973 TAAATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTAAAATTAGTTTTTA
Found at i:24914105 original size:38 final size:40
Alignment explanation
Indices: 24914039--24914126 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 40
24914029 TAAAAAATAT
* *
24914039 TTATATTAAAAATACTACCATAAATATAATAAAAATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAAAATTTTA
* *
24914079 TTATATTAAAAACAC-A-AATAAGTATAATAAATATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAAAATTTTA
*
24914117 TTGTATTAAA
1 TTATATTAAA
24914127 TACCATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 28 0.65
39 1 0.02
40 14 0.33
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAAAAATTTTA
Found at i:24925215 original size:20 final size:20
Alignment explanation
Indices: 24925182--24925221 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24925172 ATATTCTTTA
** *
24925182 TTTTTTTTCCTTTTTAAGTT
1 TTTTTTTTAATTTTGAAGTT
24925202 TTTTTTTTAATTTTGAAGTT
1 TTTTTTTTAATTTTGAAGTT
24925222 AATCAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTTTTTAATTTTGAAGTT
Found at i:24927817 original size:52 final size:52
Alignment explanation
Indices: 24927756--24927909 Score: 220
Period size: 52 Copynumber: 2.9 Consensus size: 52
24927746 GATGGAAAAT
* *
24927756 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGAGCTATGTCATCGGTGCA
1 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
**
24927808 ATGTGATATGTGTTT-TCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGTTTCT-GTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * *
24927860 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTGTTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGT
24927910 ATGATATGTG
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
51 1 0.01
52 53 0.58
53 37 0.40
54 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (52 bp):
ATGTGATATGTGTTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
Found at i:24927884 original size:105 final size:98
Alignment explanation
Indices: 24927756--24927958 Score: 244
Period size: 105 Copynumber: 2.0 Consensus size: 98
24927746 GATGGAAAAT
* * *
24927756 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGAGCTATGTCATCGGTGCAATGTGATATGTGT
1 ATGTGATATGTGATTCTGTATAAGACCATAGCTGAGATATGGCATCGGT---A--TGATATGTG-
* * *
24927821 TTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
60 ATCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTG
* *
24927860 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGATCCG
1 ATGTGAT-ATGTGATTCTGTATAAGACCATAGCTGAGATATGGCATCGGTATGATATGTGATCCG
* * *
24927925 TGTAAGACCATAGCAGGGTTATGGCTTCGGTGTG
65 TATAAGACCATAGCAGGGCTATGGCATCGGTGTG
24927959 TGATAAGTGA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
99 33 0.38
100 9 0.10
102 1 0.01
104 7 0.08
105 37 0.43
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (98 bp):
ATGTGATATGTGATTCTGTATAAGACCATAGCTGAGATATGGCATCGGTATGATATGTGATCCGT
ATAAGACCATAGCAGGGCTATGGCATCGGTGTG
Found at i:24927896 original size:53 final size:51
Alignment explanation
Indices: 24927756--24927958 Score: 218
Period size: 52 Copynumber: 4.0 Consensus size: 51
24927746 GATGGAAAAT
* * **
24927756 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGAGCTATGTCATCGGTGCA
1 ATGTGATATGTG-TTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
*
24927808 ATGTGATATGTGTTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGTTCT-GTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* *
24927860 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATC-G-GT-
1 ATGTGAT-ATGTG-TTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * * * *
24927910 A--TGATATGTGATCCGTGTAAGACCATAGCAGGGTTATGGCTTCGGTGTG
1 ATGTGATATGTGTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
24927959 TGATAAGTGA
Statistics
Matches: 130, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
46 26 0.20
47 6 0.05
48 6 0.05
50 1 0.01
51 5 0.04
52 51 0.39
53 32 0.25
54 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (51 bp):
ATGTGATATGTGTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:24931238 original size:16 final size:16
Alignment explanation
Indices: 24931217--24931273 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
24931207 TTTGGTTCGC
*
24931217 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24931233 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24931249 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
24931265 TGTAATGGA
1 TGTAATGGA
24931274 AAAACTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:24931540 original size:18 final size:17
Alignment explanation
Indices: 24931519--24931553 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24931509 TTATTATTAA
*
24931519 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24931537 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24931554 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24943221 original size:16 final size:16
Alignment explanation
Indices: 24943190--24943226 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
24943180 TTTTGAATAA
24943190 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
24943206 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
24943222 TATTA
1 TATTA
24943227 AAATAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:24943278 original size:22 final size:22
Alignment explanation
Indices: 24943234--24943293 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
24943224 TTAAAATAGA
*
24943234 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
24943254 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
24943276 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
24943294 TATATGACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:24944344 original size:17 final size:18
Alignment explanation
Indices: 24944317--24944352 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24944307 TATTAAAATA
*
24944317 TTAAAATAAATTATATAT
1 TTAAAATAAATGATATAT
24944335 TTAAAA-AAATGATATAT
1 TTAAAATAAATGATATAT
24944352 T
1 T
24944353 CAAATCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAAATAAATGATATAT
Found at i:24970693 original size:176 final size:176
Alignment explanation
Indices: 24970399--24970889 Score: 822
Period size: 176 Copynumber: 2.8 Consensus size: 176
24970389 GTGACATCGG
* *
24970399 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
24970464 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTTGTAGAGAGCA
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTTGTAGAGAGCA
24970529 GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
131 GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * *
24970575 TGAAAATTACAGATCTTATCTCCATGTATCGGTTATGGAACAGATTGAAAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
24970640 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTTGTAGAGAGCA
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTTGTAGAGAGCA
24970705 GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
131 GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * *
24970751 TGAAAATTACAGATCTTATCTCTATGTATTGGCTATGGAGCAGATAAAAAATGACGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
* * * * * *
24970816 TCCATATATCGGCTATGGAGCAGATTTTAGCCA-CAGACCTTATCTCCCTGAAGTTGCAGTGGAA
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAG-CCTTATCTCTCTAAAGTTGTAG-AGAG
24970880 CAGGTTGAAG
129 CAGGTTGAAG
24970890 TCAAACATTA
Statistics
Matches: 296, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
175 3 0.01
176 281 0.95
177 12 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTTGTAGAGAGCA
GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
Found at i:24977219 original size:21 final size:20
Alignment explanation
Indices: 24977173--24977220 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
24977163 TTTTTATGAT
* *
24977173 TTTTAAAAAAATTTCATACG
1 TTTTATAAAAATTTAATACG
*
24977193 TATTTATAAAAATTTAAATATG
1 T-TTTATAAAAATTT-AATACG
24977215 TTTTAT
1 TTTTAT
24977221 TAATTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTATAAAAATTTAATACG
Found at i:24977249 original size:28 final size:30
Alignment explanation
Indices: 24977195--24977250 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
24977185 TTCATACGTA
**
24977195 TTTATAAAAATTTAAATATGTTTTATTAAT
1 TTTATAAAAATTTAAATATAATTTATTAAT
24977225 TTTAT-AAAATTT-AATATAATTTATTA
1 TTTATAAAAATTTAAATATAATTTATTA
24977251 GATTCATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 7 0.29
30 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTATAAAAATTTAAATATAATTTATTAAT
Found at i:24977353 original size:18 final size:18
Alignment explanation
Indices: 24977330--24977376 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
24977320 TTGATAATTT
*
24977330 TTTTTTATTTTTTTGTAA
1 TTTTTTATTTTTTTCTAA
*
24977348 TTTTTTAATTTTTTTCTGA
1 TTTTTT-ATTTTTTTCTAA
24977367 TTTTTTATTT
1 TTTTTTATTT
24977377 GAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTTATTTTTTTCTAA
Found at i:24977361 original size:21 final size:22
Alignment explanation
Indices: 24977318--24977375 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 22
24977308 TATTTAATAA
*
24977318 TTTTGATAATTTTTTTTTATTT
1 TTTTGATAATTTTTTATTATTT
24977340 TTTTG-TAATTTTTTA--ATTT
1 TTTTGATAATTTTTTATTATTT
* *
24977359 TTTT-CTGATTTTTTATT
1 TTTTGATAATTTTTTATT
24977376 TGAAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 17 0.55
21 9 0.29
22 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTGATAATTTTTTATTATTT
Found at i:24980834 original size:24 final size:22
Alignment explanation
Indices: 24980807--24980851 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24980797 TGTGTCCGTA
24980807 TTATATATTATAAAAATAATATAC
1 TTATATA-TA-AAAAATAATATAC
* *
24980831 TTATTTATAAAAAATATTATA
1 TTATATATAAAAAATAATATA
24980852 GTGTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATATATAAAAAATAATATAC
Found at i:24981869 original size:5 final size:5
Alignment explanation
Indices: 24981859--24981890 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24981849 TTGTGTGTTC
24981859 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24981891 TTCACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:24981873 original size:9 final size:9
Alignment explanation
Indices: 24981859--24981889 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
24981849 TTGTGTGTTC
24981859 TTTATTTTA
1 TTTATTTTA
24981868 TTTATTTTA
1 TTTATTTTA
24981877 TTTTATTTTA
1 -TTTATTTTA
24981887 TTT
1 TTT
24981890 TTTCACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:24988495 original size:5 final size:5
Alignment explanation
Indices: 24988485--24988516 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24988475 TTGTGTGTTC
24988485 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24988517 TTCACTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:24988504 original size:14 final size:14
Alignment explanation
Indices: 24988485--24988515 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24988475 TTGTGTGTTC
24988485 TTTATTTTATTTTA
1 TTTATTTTATTTTA
24988499 TTTATTTTATTTTA
1 TTTATTTTATTTTA
24988513 TTT
1 TTT
24988516 TTTCACTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:24996776 original size:19 final size:18
Alignment explanation
Indices: 24996732--24996777 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
24996722 GCTAATTTCT
*
24996732 AAAATTAAATTGAGAAAA
1 AAAATAAAATTGAGAAAA
*
24996750 AAATATAAAATTTAGAAAA
1 AAA-ATAAAATTGAGAAAA
24996769 ATAAATAAA
1 A-AAATAAA
24996778 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 19 0.79
20 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAATAAAATTGAGAAAA
Found at i:25011152 original size:39 final size:39
Alignment explanation
Indices: 25011108--25011185 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
25011098 AGTTTCAATC
*
25011108 CTCACTAAACTATAATTGTTAAATTTTGTTATCTTCAAA
1 CTCACTAAACTATAATTCTTAAATTTTGTTATCTTCAAA
*
25011147 CTCACTAAACTATAATTCTTAAATTTTGTTATTTTCAAA
1 CTCACTAAACTATAATTCTTAAATTTTGTTATCTTCAAA
25011186 ATCAGATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (39 bp):
CTCACTAAACTATAATTCTTAAATTTTGTTATCTTCAAA
Found at i:25013437 original size:21 final size:20
Alignment explanation
Indices: 25013403--25013456 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 20
25013393 TTTTTCCCAT
25013403 AAAAATAT-TAAAAAATCAG
1 AAAAATATATAAAAAATCAG
25013422 AAAAATATATATAAAAATCAG
1 AAAAATATATA-AAAAATCAG
25013443 AAAAAT-TATAAAAA
1 AAAAATATATAAAAA
25013457 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.36
20 6 0.18
21 15 0.45
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAATATATAAAAAATCAG
Found at i:25013455 original size:9 final size:9
Alignment explanation
Indices: 25013431--25013556 Score: 66
Period size: 9 Copynumber: 14.0 Consensus size: 9
25013421 GAAAAATATA
25013431 TATAAAAAT
1 TATAAAAAT
* *
25013440 CAGAAAAAT
1 TATAAAAAT
25013449 TATAAAAAT
1 TATAAAAAT
* *
25013458 AATTTAAAAT
1 TA-TAAAAAT
*
25013468 TA-AAATAT
1 TATAAAAAT
25013476 T-TAAATAAT
1 TATAAA-AAT
*
25013485 TATTAAAAT
1 TATAAAAAT
*
25013494 TAATATAAACT
1 T-ATA-AAAAT
*
25013505 TATAAATAT
1 TATAAAAAT
25013514 TATAAAAA-
1 TATAAAAAT
*
25013522 TA-ATAAAT
1 TATAAAAAT
*
25013530 CTA-ATAAAT
1 -TATAAAAAT
25013539 TA-AAAAAT
1 TATAAAAAT
25013547 ATATAAAAAT
1 -TATAAAAAT
25013557 CAATTAAAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
7 4 0.04
8 17 0.19
9 42 0.47
10 21 0.24
11 5 0.06
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (9 bp):
TATAAAAAT
Found at i:25013480 original size:26 final size:26
Alignment explanation
Indices: 25013443--25013496 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
25013433 TAAAAATCAG
25013443 AAAAATTATAAA-AATAATTTAAAATT
1 AAAAATTATAAATAATAA-TTAAAATT
*
25013469 AAAATATT-TAAATAATTATTAAAATT
1 AAAA-ATTATAAATAATAATTAAAATT
25013495 AA
1 AA
25013497 TATAAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAAATTATAAATAATAATTAAAATT
Found at i:25013527 original size:18 final size:18
Alignment explanation
Indices: 25013506--25013556 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
25013496 ATATAAACTT
25013506 ATAAATATTATAAAAATA
1 ATAAATATTATAAAAATA
* * *
25013524 ATAAATCTAAT-AAATTA
1 ATAAATATTATAAAAATA
*
25013541 AAAAATA-TATAAAAAT
1 ATAAATATTATAAAAAT
25013557 CAATTAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
16 2 0.08
17 14 0.56
18 9 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATATTATAAAAATA
Found at i:25014247 original size:10 final size:10
Alignment explanation
Indices: 25014228--25014282 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
25014218 TTTTGTAAAA
25014228 ATAA-TTTAT
1 ATAATTTTAT
25014237 ATAATTTTAT
1 ATAATTTTAT
25014247 ATTAATTTTA-
1 A-TAATTTTAT
*
25014257 ATAAATTT-T
1 ATAATTTTAT
25014266 ATAATTTTCA-
1 ATAATTTT-AT
25014276 ATAATTT
1 ATAATTT
25014283 GTTATGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 17 0.44
10 14 0.36
11 8 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
ATAATTTTAT
Found at i:25014254 original size:11 final size:11
Alignment explanation
Indices: 25014232--25014268 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
25014222 GTAAAAATAA
25014232 TTTATA-TAAT
1 TTTATATTAAT
25014242 TTTATATTAAT
1 TTTATATTAAT
*
25014253 TTTA-ATAAAT
1 TTTATATTAAT
25014263 TTTATA
1 TTTATA
25014269 ATTTTCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTATATTAAT
Found at i:25014272 original size:18 final size:20
Alignment explanation
Indices: 25014249--25014293 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
25014239 AATTTTATAT
25014249 TAATTTT-AATAAATT-TTA
1 TAATTTTCAATAAATTGTTA
*
25014267 TAATTTTCAATAATTTGTTA
1 TAATTTTCAATAAATTGTTA
*
25014287 TGATTTT
1 TAATTTT
25014294 TAAAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TAATTTTCAATAAATTGTTA
Found at i:25014353 original size:18 final size:19
Alignment explanation
Indices: 25014320--25014355 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25014310 CTTTTTATAG
25014320 AATTTTAAATTCTTTTATT
1 AATTTTAAATTCTTTTATT
*
25014339 AATTTT-AATTTTTTTAT
1 AATTTTAAATTCTTTTAT
25014356 ATCTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTAAATTCTTTTATT
Found at i:25017301 original size:87 final size:90
Alignment explanation
Indices: 25017178--25017345 Score: 204
Period size: 87 Copynumber: 1.9 Consensus size: 90
25017168 TGAGTTGTTA
* *
25017178 CAAATTGGGTTCTTAAACTTTCAAAATGCATCAAAAAGGT-CC-TCAAAC-CTTT-AAAAAAAGC
1 CAAATTGGGTGCTTAAACTTTCAAAATGCAT-AAAAA-ATACCTTCAAACTCTTTCAAAAAAAGC
*
25017239 AATTTAA-CCCTTACTTTTTTTTACACT
64 AA-TTAAGCCCCTACTTTTTTTTACACT
* ** *
25017266 CAAATT-GGTGCTTGAACTTTCAAAATTTATAAAAAATACCTTCAAACTTTTTCAAAAAAAGCAA
1 CAAATTGGGTGCTTAAACTTTCAAAATGCATAAAAAATACCTTCAAACTCTTTCAAAAAAAGCAA
25017330 TTAAGCCCCTACTTTT
66 TTAAGCCCCTACTTTT
25017346 ATTAAAAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
85 1 0.01
86 7 0.10
87 26 0.38
88 13 0.19
89 21 0.31
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.34
Consensus pattern (90 bp):
CAAATTGGGTGCTTAAACTTTCAAAATGCATAAAAAATACCTTCAAACTCTTTCAAAAAAAGCAA
TTAAGCCCCTACTTTTTTTTACACT
Found at i:25017362 original size:9 final size:9
Alignment explanation
Indices: 25017348--25017521 Score: 66
Period size: 9 Copynumber: 19.6 Consensus size: 9
25017338 CTACTTTTAT
25017348 TAAAAATTA
1 TAAAAATTA
25017357 TAAAAA-T-
1 TAAAAATTA
25017364 T-AAAATCTA
1 TAAAAAT-TA
25017373 T-AAAATCTA
1 TAAAAAT-TA
*
25017382 TAAATATTA
1 TAAAAATTA
*
25017391 T-AAAATTT
1 TAAAAATTA
25017399 TAATAAA-TA
1 TAA-AAATTA
*
25017408 TTCAAATATTA
1 -T-AAAAATTA
*
25017419 -AAAATTTA
1 TAAAAATTA
25017427 TTAAAAATTA
1 -TAAAAATTA
* *
25017437 -GAATA-TA
1 TAAAAATTA
*
25017444 TATAAA-TA
1 TAAAAATTA
*
25017452 GAAAAAATATA
1 -TAAAAAT-TA
*
25017463 AAAAAATTA
1 TAAAAATTA
*
25017472 TAAAATTTGA
1 TAAAAATT-A
*
25017482 TAAAAATCA
1 TAAAAATTA
25017491 TAAAAATTA
1 TAAAAATTA
25017500 T-AAAATATA
1 TAAAAAT-TA
*
25017509 TAGAAA-TA
1 TAAAAATTA
25017517 TAAAA
1 TAAAA
25017522 TTTTACAAAA
Statistics
Matches: 125, Mismatches: 22, Indels: 37
0.68 0.12 0.20
Matches are distributed among these distances:
6 4 0.03
7 3 0.02
8 32 0.26
9 46 0.37
10 34 0.27
11 6 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:25017436 original size:18 final size:17
Alignment explanation
Indices: 25017346--25017504 Score: 76
Period size: 18 Copynumber: 9.0 Consensus size: 17
25017336 CCCTACTTTT
25017346 ATTAAAAA-TTATAAAA
1 ATTAAAAATTTATAAAA
*
25017362 ATT-AAAATCTAT-AAA
1 ATTAAAAATTTATAAAA
*
25017377 ATCTATAAATATTATAAAA
1 AT-TAAAAAT-TTATAAAA
* * *
25017396 TTTTAATAAATATT-CAAAT
1 -ATTAA-AAAT-TTATAAAA
25017415 ATTAAAAATTTATTAAAA
1 ATTAAAAATTTA-TAAAA
* * *
25017433 ATTAGAATATATATAAAT
1 ATTA-AAAATTTATAAAA
** * *
25017451 AGAAAAAATATAAAAAA
1 ATTAAAAATTTATAAAA
25017468 ATTATAAAATTTGATAAAA
1 ATTA-AAAATTT-ATAAAA
25017487 ATCATAAAAA-TTATAAAA
1 AT--TAAAAATTTATAAAA
25017505 TATATAGAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
15 9 0.08
16 9 0.08
17 20 0.19
18 32 0.30
19 23 0.21
20 12 0.11
21 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (17 bp):
ATTAAAAATTTATAAAA
Found at i:25017441 original size:26 final size:28
Alignment explanation
Indices: 25017383--25017449 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 28
25017373 TAAAATCTAT
*
25017383 AAATATTATAAAATTTTAATAAATATTC
1 AAATATTATAAAATTTTAATAAAAATTC
*
25017411 AAATATTA-AAAA-TTTATTAAAAATT-
1 AAATATTATAAAATTTTAATAAAAATTC
25017436 AGAATATATATAAA
1 A-AATAT-TATAAA
25017450 TAGAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 16 0.47
27 6 0.18
28 11 0.32
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
AAATATTATAAAATTTTAATAAAAATTC
Found at i:25017486 original size:28 final size:27
Alignment explanation
Indices: 25017455--25017521 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
25017445 ATAAATAGAA
*
25017455 AAAATATAAAAAAATTATAAAATTTGAT
1 AAAATATAAAAAAATTATAAAATAT-AT
*
25017483 AAAA-ATCATAAAAATTATAAAATATAT
1 AAAATAT-AAAAAAATTATAAAATATAT
25017510 AGAAATATAAAA
1 A-AAATATAAAA
25017522 TTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
28 26 0.79
29 2 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAATATAAAAAAATTATAAAATATAT
Found at i:25017546 original size:46 final size:45
Alignment explanation
Indices: 25017454--25017567 Score: 124
Period size: 46 Copynumber: 2.4 Consensus size: 45
25017444 TATAAATAGA
*
25017454 AAAAATATAAAAAAATTATAAAATTTGATAAAAATCATAAAAATTAT
1 AAAAATATAAAGAAA-TATAAAATTT-ATAAAAATCATAAAAATTAT
* *
25017501 -AAAATATATAGAAATATAAAATTT-TACAAAATCTTAAGAAGATTAT
1 AAAAATATAAAGAAATATAAAATTTATA-AAAATCATAA-AA-ATTAT
*
25017547 ACAAAATGTAAAGAAATATAA
1 A-AAAATATAAAGAAATATAA
25017568 TGTAATACCC
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
43 2 0.04
44 9 0.16
45 12 0.21
46 17 0.30
48 17 0.30
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (45 bp):
AAAAATATAAAGAAATATAAAATTTATAAAAATCATAAAAATTAT
Found at i:25019131 original size:4 final size:4
Alignment explanation
Indices: 25019122--25019158 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
25019112 CCCTTTTCCA
25019122 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
25019159 TTCTCCCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:25020159 original size:18 final size:17
Alignment explanation
Indices: 25020113--25020167 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
25020103 ATTTTAATTT
25020113 TTTATT-TTTTATTAAAA
1 TTTATTATTTT-TTAAAA
* *
25020130 TTTAATAATTTTCTAAAA
1 TTT-ATTATTTTTTAAAA
*
25020148 TTTATTATTTTTTATAA
1 TTTATTATTTTTTAAAA
25020165 TTT
1 TTT
25020168 TTTTTCTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 17 0.55
18 10 0.32
19 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTATTTTTTAAAA
Found at i:25020281 original size:85 final size:87
Alignment explanation
Indices: 25020185--25020361 Score: 241
Period size: 87 Copynumber: 2.0 Consensus size: 87
25020175 AATTTTTAAT
* * * *
25020185 AAAAGCGGGAGCTTAATTG-TTTTTTTAAAAAATTTTAAGGGTCTTTTTGATGCATTTTGAAAAT
1 AAAAGCAGGAGCTTAATTGTTTTTTTTAAAAAAGTTTAAGGGCCTTTCTGATGCATTTTGAAAAT
25020249 TCAAGTACCCAATTGAGTG-AA
66 TCAAGTACCCAATTGAGTGCAA
* * * * *
25020270 AAAAGCAGGAGCTTAATTGTTTTTTTTTTAAGAAGTTTGAGGGCCTTTCTGATGTATTTTGAAAG
1 AAAAGCAGGAGCTTAATTG-TTTTTTTTAAAAAAGTTTAAGGGCCTTTCTGATGCATTTTGAAAA
*
25020335 TTCAAGTACTCAATTGAGTGCAA
65 TTCAAGTACCCAATTGAGTGCAA
25020358 AAAA
1 AAAA
25020362 AATGAGGGAC
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
85 18 0.23
87 55 0.70
88 6 0.08
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (87 bp):
AAAAGCAGGAGCTTAATTGTTTTTTTTAAAAAAGTTTAAGGGCCTTTCTGATGCATTTTGAAAAT
TCAAGTACCCAATTGAGTGCAA
Found at i:25020384 original size:87 final size:87
Alignment explanation
Indices: 25020222--25020385 Score: 188
Period size: 87 Copynumber: 1.9 Consensus size: 87
25020212 AAAAATTTTA
* * * **
25020222 AGGGTCTTTTTGATGCATTTTGAAAATTCAAGTACCCAATTGAGTGAAAAAAGCAGGAGCTTAAT
1 AGGGCCTTTCTGATGCATTTTGAAAATTCAAGTACCCAATTGAGTGAAAAAAGAAGGAGCGGAAT
**
25020287 TGTTTTTTTTTTAAGAAGTTTG
66 TGTTGCTTTTTTAAGAAGTTTG
* * * * *
25020309 AGGGCCTTTCTGATGTATTTTGAAAGTTCAAGTACTCAATTGAGTGCAAAAAA-AATGAG-GGAC
1 AGGGCCTTTCTGATGCATTTTGAAAATTCAAGTACCCAATTGAGTG-AAAAAAGAAGGAGCGGAA
25020372 TTGATTGCTTTTTT
65 TTG-TTGCTTTTTT
25020386 TTTAAAAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
86 4 0.06
87 53 0.84
88 6 0.10
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (87 bp):
AGGGCCTTTCTGATGCATTTTGAAAATTCAAGTACCCAATTGAGTGAAAAAAGAAGGAGCGGAAT
TGTTGCTTTTTTAAGAAGTTTG
Found at i:25021117 original size:20 final size:19
Alignment explanation
Indices: 25021088--25021131 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
25021078 TGAAAAATGA
*
25021088 TTTCTCGAAAATGTTTTACT
1 TTTCTCG-AAATGATTTACT
*
25021108 TTTCTGGAAATGATTTACT
1 TTTCTCGAAATGATTTACT
25021127 TTTCT
1 TTTCT
25021132 AGTGTTTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTCTCGAAATGATTTACT
Found at i:25026371 original size:11 final size:11
Alignment explanation
Indices: 25026344--25026386 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
25026334 TGACCTTTCC
25026344 AAGGTATGGG-
1 AAGGTATGGGA
*
25026354 TAGGTATGGGA
1 AAGGTATGGGA
*
25026365 AAGGTATGGGC
1 AAGGTATGGGA
25026376 AAGGTATGGGA
1 AAGGTATGGGA
25026387 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:25026383 original size:22 final size:21
Alignment explanation
Indices: 25026344--25026386 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25026334 TGACCTTTCC
*
25026344 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
25026365 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
25026387 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:25029480 original size:21 final size:22
Alignment explanation
Indices: 25029454--25029495 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
25029444 TGACCTTTCC
*
25029454 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
25029475 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
25029496 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:25029481 original size:11 final size:10
Alignment explanation
Indices: 25029454--25029495 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
25029444 TGACCTTTCC
25029454 AAGGTATGGG
1 AAGGTATGGG
*
25029464 TAGGTATGGG
1 AAGGTATGGG
25029474 AAAGGTATGGG
1 -AAGGTATGGG
25029485 CAAGGTATGGG
1 -AAGGTATGGG
25029496 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Done.