Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 136 of 195
Found at i:22857436 original size:24 final size:23
Alignment explanation
Indices: 22857401--22857445 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
22857391 ATGTATATAC
22857401 ATTTATCTTTTATATTGATTTACT
1 ATTTATCTTTTAT-TTGATTTACT
*
22857425 ATTTAT-TATTTATTTGTTTTA
1 ATTTATCT-TTTATTTGATTTA
22857446 TTTATAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTATCTTTTATTTGATTTACT
Found at i:22858942 original size:55 final size:54
Alignment explanation
Indices: 22858862--22859097 Score: 221
Period size: 55 Copynumber: 4.3 Consensus size: 54
22858852 ATTTTTGTGG
*
22858862 AAAAAGTTAAATTATCAATCTTTCCTTAAATAAAAATAATTTCAAAATTTTAGGA
1 AAAAAGTTAAAGTATCAAT-TTTCCTTAAATAAAAATAATTTCAAAATTTTAGGA
* *
22858917 AAAAAGTTAAAGTATTAAATTTTCCTTAAATAAAAATAATTTC-AAATTTTAGGG
1 AAAAAGTTAAAGTA-TCAATTTTCCTTAAATAAAAATAATTTCAAAATTTTAGGA
* * * * * * **
22858971 GAAAAGTTGAAGTATCAATTTCCCTTAAAACAAAAATAAATTCAAAAAGTAAAGG-
1 AAAAAGTTAAAGTATCAATTTTCCTT-AAATAAAAATAATTTC-AAAATTTTAGGA
* * *
22859026 AAAGAGTTGAAA-TATCAATCTTTCCTTAAA-AGAAAATTATTTCAATATTTT-GAGA
1 AAAAAGTT-AAAGTATCAAT-TTTCCTTAAATA-AAAATAATTTCAAAATTTTAG-GA
* *
22859081 TAAAAGTTGAAGTATCA
1 AAAAAGTTAAAGTATCA
22859098 TGTTTTCTTT
Statistics
Matches: 146, Mismatches: 25, Indels: 20
0.76 0.13 0.10
Matches are distributed among these distances:
53 11 0.08
54 44 0.30
55 72 0.49
56 19 0.13
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.33
Consensus pattern (54 bp):
AAAAAGTTAAAGTATCAATTTTCCTTAAATAAAAATAATTTCAAAATTTTAGGA
Found at i:22858963 original size:27 final size:27
Alignment explanation
Indices: 22858882--22858966 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
22858872 ATTATCAATC
22858882 TTTCCTTAAATAAAAATAATTTCAAAAT
1 TTTCCTTAAATAAAAATAATTTC-AAAT
*** **
22858910 TTT-AGGAAA-AAAGTTAAAGTATT-AAAT
1 TTTCCTTAAATAAAAAT-AA-T-TTCAAAT
22858937 TTTCCTTAAATAAAAATAATTTCAAAT
1 TTTCCTTAAATAAAAATAATTTCAAAT
22858964 TTT
1 TTT
22858967 AGGGGAAAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 13
0.64 0.16 0.20
Matches are distributed among these distances:
26 6 0.15
27 20 0.49
28 9 0.22
29 6 0.15
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (27 bp):
TTTCCTTAAATAAAAATAATTTCAAAT
Found at i:22863125 original size:15 final size:14
Alignment explanation
Indices: 22863103--22863141 Score: 69
Period size: 15 Copynumber: 2.7 Consensus size: 14
22863093 AGCATAGAAA
22863103 AAAAATGAAATGTG
1 AAAAATGAAATGTG
22863117 AAAATATGAAATGTG
1 AAAA-ATGAAATGTG
22863132 AAAAATGAAA
1 AAAAATGAAA
22863142 AAATAACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.21
Consensus pattern (14 bp):
AAAAATGAAATGTG
Found at i:22864859 original size:17 final size:17
Alignment explanation
Indices: 22864824--22864881 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
22864814 CGTTCTTTCA
*
22864824 AATTTGAAATTC-AAGCG
1 AATTTGAAATTCTTA-CG
22864841 AATTTGAAATTCTTACG
1 AATTTGAAATTCTTACG
* * *
22864858 AATCTAAAATTCTTACA
1 AATTTGAAATTCTTACG
22864875 AATTTGA
1 AATTTGA
22864882 GTTCTTTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 33 0.97
18 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (17 bp):
AATTTGAAATTCTTACG
Found at i:22864868 original size:34 final size:34
Alignment explanation
Indices: 22864772--22864869 Score: 81
Period size: 34 Copynumber: 2.9 Consensus size: 34
22864762 GAGTTCTTGT
* *
22864772 GAATTTGAAATTCTTATGAATCTAATAA-TCTAGC
1 GAATTTGAAATTCTTACGAATCTAA-AATTCAAGC
* **** * * * *
22864806 AAATTTTTCGTTCTTTCAAATTTGAAATTCAAGC
1 GAATTTGAAATTCTTACGAATCTAAAATTCAAGC
22864840 GAATTTGAAATTCTTACGAATCTAAAATTC
1 GAATTTGAAATTCTTACGAATCTAAAATTC
22864870 TTACAAATTT
Statistics
Matches: 43, Mismatches: 20, Indels: 2
0.66 0.31 0.03
Matches are distributed among these distances:
33 2 0.05
34 41 0.95
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (34 bp):
GAATTTGAAATTCTTACGAATCTAAAATTCAAGC
Found at i:22866865 original size:53 final size:52
Alignment explanation
Indices: 22866799--22867053 Score: 232
Period size: 53 Copynumber: 4.8 Consensus size: 52
22866789 ATAATAATAA
* *
22866799 AAATTTTAGGAAAAAGTTGAATTATCAATTTTCCTTAAATAAAAATAATTTT
1 AAATTTTAGGAAAAAGTTGAAATATCAATTTTCCTTAAATAAAAATAATTTC
* *
22866851 AAACTTTTGGGAAAAAAAGTT-AAAGTATTAACTTTTCCTTAAATAAAAAT-ATTTC
1 AAA-TTTTAGG--AAAAAGTTGAAA-TATCAA-TTTTCCTTAAATAAAAATAATTTC
* * * *
22866906 AAATTTTAAGAGAAAAGTTGAAGTATTAA-TTT-CTTAAAACAAAAATAATTTC
1 AAATTTTAGGA-AAAAGTTGAAATATCAATTTTCCTT-AAATAAAAATAATTTC
* ** * * * *
22866958 AAAAAATAAAGGAAAGAGTTGAAATATCAATTTTTCTTTAA-AAAAATGATTTC
1 --AAATTTTAGGAAAAAGTTGAAATATCAATTTTCCTTAAATAAAAATAATTTC
22867011 AATATTTTAGGAAAAAGTTGAAATATCAATTTTTCCTTGAAAT
1 AA-ATTTTAGGAAAAAGTTGAAATATCAA-TTTTCCTT-AAAT
22867054 CAATTTTTTA
Statistics
Matches: 163, Mismatches: 23, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.02
51 14 0.09
52 31 0.19
53 51 0.31
54 23 0.14
55 23 0.14
56 18 0.11
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (52 bp):
AAATTTTAGGAAAAAGTTGAAATATCAATTTTCCTTAAATAAAAATAATTTC
Found at i:22868341 original size:15 final size:14
Alignment explanation
Indices: 22868316--22868372 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
22868306 TACTTTGCAT
*
22868316 AAAAGAAAAAAATG
1 AAAAGAAAAAAAAG
22868330 AAAAGAAAAAAAAAG
1 AAAAG-AAAAAAAAG
*
22868345 AAAA-AAACTAAAAAC
1 AAAAGAAA--AAAAAG
*
22868360 AAAATAAAAAAAA
1 AAAAGAAAAAAAA
22868373 ACAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 3 0.08
14 10 0.27
15 21 0.57
16 3 0.08
ACGTcount: A:0.84, C:0.04, G:0.07, T:0.05
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:22868345 original size:24 final size:25
Alignment explanation
Indices: 22868316--22868373 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
22868306 TACTTTGCAT
* *
22868316 AAAAGAAAAAAA-TGAAAAGAAAAA
1 AAAAGAAAAAAACTAAAAACAAAAA
*
22868340 AAAAGAAAAAAACTAAAAACAAAAT
1 AAAAGAAAAAAACTAAAAACAAAAA
22868365 AAAA-AAAAA
1 AAAAGAAAAA
22868374 CAAAAATAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.84, C:0.03, G:0.07, T:0.05
Consensus pattern (25 bp):
AAAAGAAAAAAACTAAAAACAAAAA
Found at i:22868357 original size:14 final size:13
Alignment explanation
Indices: 22868314--22868388 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 13
22868304 GATACTTTGC
22868314 ATAAAAGAAAAAA
1 ATAAAAGAAAAAA
22868327 ATGAAAAG--AAAA
1 AT-AAAAGAAAAAA
22868339 A-AAAAGAAAAAA
1 ATAAAAGAAAAAA
22868351 ACTAAAA-ACAAAATA
1 A-TAAAAGA-AAAA-A
*
22868366 A-AAAAAAACAAAA
1 ATAAAAGAA-AAAA
22868379 ATAAGAAGAA
1 ATAA-AAGAA
22868389 TCCAGGTTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 20
0.70 0.01 0.28
Matches are distributed among these distances:
10 5 0.10
12 10 0.20
13 10 0.20
14 19 0.38
15 6 0.12
ACGTcount: A:0.81, C:0.04, G:0.08, T:0.07
Consensus pattern (13 bp):
ATAAAAGAAAAAA
Found at i:22869034 original size:23 final size:22
Alignment explanation
Indices: 22869003--22869054 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
22868993 AAAAGGAGAG
* *
22869003 AGAAGAATGAATGAAATGATGAA
1 AGAATAATGAATGAAA-GATCAA
**
22869026 AGAATAATGGTTGAAAGATCAA
1 AGAATAATGAATGAAAGATCAA
22869048 AGAATAA
1 AGAATAA
22869055 ATGATAGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.56, C:0.02, G:0.23, T:0.19
Consensus pattern (22 bp):
AGAATAATGAATGAAAGATCAA
Found at i:22869754 original size:50 final size:50
Alignment explanation
Indices: 22869662--22870060 Score: 212
Period size: 50 Copynumber: 8.1 Consensus size: 50
22869652 CTTTCAAAAA
* ** * * *
22869662 TTTTCCAATT-AAGATTTTTTAAAAGTCATCTGTCTATATCTATGGGAGCAC
1 TTTTCAAATTGAA-ATTTTTTAAAA-TCATCTACCTATGTCTATAGGAGCAT
* * * *
22869713 TTTTCAAATTGAAATTTTTTAAAATCATCTATCAATGTCTATGGGAGTAT
1 TTTTCAAATTGAAATTTTTTAAAATCATCTACCTATGTCTATAGGAGCAT
* * * * * ** * *
22869763 TTTTTAAATTAAAATTTTTTAAAGTCA-CTTACCTTTCTCTATAATAGTAG
1 TTTTCAAATTGAAATTTTTTAAAATCATC-TACCTATGTCTATAGGAGCAT
* * * * *
22869813 TTTTCAAAATGAGATTTCTTAAAGTCACCTACCTATGTCTATAGGAGCAT
1 TTTTCAAATTGAAATTTTTTAAAATCATCTACCTATGTCTATAGGAGCAT
* * * *
22869863 TTTTCAAATTGAAGTCTTTTAAAATTAACTACCTATGTCTATAGGAGCAAT
1 TTTTCAAATTGAAATTTTTTAAAATCATCTACCTATGTCTATAGGAGC-AT
* * * * * * *
22869914 GTTT-AAATT-AAGATTTTTTTTAAGTCATTTGCCTATGTTTATATGAG---
1 TTTTCAAATTGAA-A-TTTTTTAAAATCATCTACCTATGTCTATAGGAGCAT
* * * * * * * *
22869961 -----AAATTGAGATTTTTTAAAGTCACCTGCCTATGTCTGTGGGACCAC
1 TTTTCAAATTGAAATTTTTTAAAATCATCTACCTATGTCTATAGGAGCAT
* * * * *
22870006 TTTTCAAATTGAGA-TTTTTAAAGTCACCCACCTATGTTTATAGGAGCACT
1 TTTTCAAATTGAAATTTTTTAAAATCATCTACCTATGTCTATAGGAGCA-T
22870056 TTTTC
1 TTTTC
22870061 CATTAAGATT
Statistics
Matches: 269, Mismatches: 63, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
42 25 0.09
43 6 0.02
44 1 0.00
49 31 0.12
50 154 0.57
51 50 0.19
52 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (50 bp):
TTTTCAAATTGAAATTTTTTAAAATCATCTACCTATGTCTATAGGAGCAT
Found at i:22870056 original size:49 final size:50
Alignment explanation
Indices: 22869961--22870058 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
22869951 TTTATATGAG
** * *
22869961 AAATTGAGATTTTTTAAAGTCACCTGCCTATGTCTGTGGGACCACTTTTC
1 AAATTGAGATTTTTTAAAGTCACCCACCTATGTCTATAGGACCACTTTTC
* *
22870011 AAATTGAGA-TTTTTAAAGTCACCCACCTATGTTTATAGGAGCACTTTT
1 AAATTGAGATTTTTTAAAGTCACCCACCTATGTCTATAGGACCACTTTT
22870059 TCCATTAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 33 0.79
50 9 0.21
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (50 bp):
AAATTGAGATTTTTTAAAGTCACCCACCTATGTCTATAGGACCACTTTTC
Found at i:22870070 original size:49 final size:49
Alignment explanation
Indices: 22869961--22870073 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 49
22869951 TTTATATGAG
* ** * *
22869961 AAATTGAGATTTTTTAAAGTCACCTGCCTATGTCTGTGGGACCACTTTTC
1 AAATTAAGA-TTTTTAAAGTCACCCACCTATGTCTATAGGACCACTTTTC
* * *
22870011 AAATTGAGATTTTTAAAGTCACCCACCTATGTTTATAGGAGCACTTTTTC
1 AAATTAAGATTTTTAAAGTCACCCACCTATGTCTATAGGACCAC-TTTTC
*
22870061 -CATTAAGATTTTT
1 AAATTAAGATTTTT
22870074 CTTTAAAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 40 0.74
50 14 0.26
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (49 bp):
AAATTAAGATTTTTAAAGTCACCCACCTATGTCTATAGGACCACTTTTC
Found at i:22872647 original size:13 final size:13
Alignment explanation
Indices: 22872577--22872768 Score: 65
Period size: 13 Copynumber: 14.9 Consensus size: 13
22872567 TAACCTTAAT
*
22872577 CCTAAACTCTAAAC
1 CCTAAACCCT-AAC
* **
22872591 CTTAAACTTTAAC
1 CCTAAACCCTAAC
*
22872604 CCTAAACCTTAAC
1 CCTAAACCCTAAC
* *
22872617 CC-AAAACCTAAA
1 CCTAAACCCTAAC
*
22872629 CTTAAACCCTAAC
1 CCTAAACCCTAAC
** * *
22872642 CCTAAATACAAAA
1 CCTAAACCCTAAC
* *
22872655 ACTAAACTCTAAAC
1 CCTAAACCCT-AAC
* *
22872669 CATAAA-CCAAAC
1 CCTAAACCCTAAC
* * *
22872681 TCTAAACCTTAAAA
1 CCTAAACCCT-AAC
*
22872695 CC-AAGCCCTAAAC
1 CCTAAACCCT-AAC
22872708 CCTAAA--CTAAAC
1 CCTAAACCCT-AAC
22872720 CC-AAACCCTAAC
1 CCTAAACCCTAAC
* *
22872732 TCTAAGCCCTAA-
1 CCTAAACCCTAAC
* *
22872744 ACTAAACACTAAC
1 CCTAAACCCTAAC
*
22872757 CTTAAACCCTAA
1 CCTAAACCCTAA
22872769 ATCGAACACT
Statistics
Matches: 127, Mismatches: 42, Indels: 19
0.68 0.22 0.10
Matches are distributed among these distances:
11 3 0.02
12 36 0.28
13 69 0.54
14 19 0.15
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (13 bp):
CCTAAACCCTAAC
Found at i:22872675 original size:19 final size:19
Alignment explanation
Indices: 22872653--22872719 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
22872643 CTAAATACAA
*
22872653 AAACTAAACTCTAAACCAT
1 AAACCAAACTCTAAACCAT
*
22872672 AAACCAAACTCTAAACCTT
1 AAACCAAACTCTAAACCAT
* * *
22872691 AAAACCAAGCCCTAAACCCT
1 -AAACCAAACTCTAAACCAT
*
22872711 AAACTAAAC
1 AAACCAAAC
22872720 CCAAACCCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 24 0.60
20 16 0.40
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.16
Consensus pattern (19 bp):
AAACCAAACTCTAAACCAT
Found at i:22872697 original size:20 final size:19
Alignment explanation
Indices: 22872559--22872726 Score: 108
Period size: 20 Copynumber: 8.7 Consensus size: 19
22872549 TAACTAAGCC
* *
22872559 CCAAA-CCTTAACCTTAAT
1 CCAAACCCTAAACCTTAAA
*
22872577 CCTAAACTCTAAACCTTAAA
1 CC-AAACCCTAAACCTTAAA
** *
22872597 CTTTAACCCTAAACCTTAAC
1 C-CAAACCCTAAACCTTAAA
*
22872617 CCAAAACCTAAA-CTTAAA
1 CCAAACCCTAAACCTTAAA
* * **
22872635 CCCTAACCCTAAATACAAAAA
1 -CCAAACCCTAAA-CCTTAAA
* * *
22872656 CTAAACTCTAAACCATAAA
1 CCAAACCCTAAACCTTAAA
*
22872675 CCAAACTCTAAACCTTAAAA
1 CCAAACCCTAAACCTT-AAA
* *
22872695 CCAAGCCCTAAACCCTAAA
1 CCAAACCCTAAACCTTAAA
*
22872714 CTAAACCC-AAACC
1 CCAAACCCTAAACC
22872727 CTAACTCTAA
Statistics
Matches: 116, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
18 12 0.10
19 49 0.42
20 51 0.44
21 4 0.03
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (19 bp):
CCAAACCCTAAACCTTAAA
Found at i:22872710 original size:7 final size:7
Alignment explanation
Indices: 22872577--22872769 Score: 85
Period size: 7 Copynumber: 29.9 Consensus size: 7
22872567 TAACCTTAAT
22872577 CCTAAAC
1 CCTAAAC
*
22872584 TCTAAAC
1 CCTAAAC
*
22872591 CTTAAA-
1 CCTAAAC
* *
22872597 CTTTAAC
1 CCTAAAC
22872604 CCTAAA-
1 CCTAAAC
*
22872610 CCTTAAC
1 CCTAAAC
*
22872617 CC-AAAA
1 CCTAAAC
22872623 CCTAAA-
1 CCTAAAC
*
22872629 CTTAAAC
1 CCTAAAC
22872636 CCT-AAC
1 CCTAAAC
*
22872642 CCTAAAT
1 CCTAAAC
* *
22872649 AC-AAAA
1 CCTAAAC
*
22872655 ACTAAAC
1 CCTAAAC
*
22872662 TCTAAAC
1 CCTAAAC
*
22872669 CATAAA-
1 CCTAAAC
22872675 CC-AAAC
1 CCTAAAC
*
22872681 TCTAAAC
1 CCTAAAC
* *
22872688 CTTAAAA
1 CCTAAAC
*
22872695 CC-AAGC
1 CCTAAAC
22872701 CCTAAAC
1 CCTAAAC
22872708 CCTAAA-
1 CCTAAAC
22872714 -CTAAAC
1 CCTAAAC
22872720 CC-AAAC
1 CCTAAAC
22872726 CCT-AAC
1 CCTAAAC
* *
22872732 TCTAAGC
1 CCTAAAC
22872739 CCTAAA-
1 CCTAAAC
22872745 -CTAAAC
1 CCTAAAC
*
22872751 ACT-AAC
1 CCTAAAC
*
22872757 CTTAAAC
1 CCTAAAC
22872764 CCTAAA
1 CCTAAA
22872770 TCGAACACTA
Statistics
Matches: 136, Mismatches: 34, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
5 13 0.10
6 51 0.38
7 72 0.53
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:22872833 original size:17 final size:19
Alignment explanation
Indices: 22872811--22872851 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
22872801 CCTAACATAG
*
22872811 ACCTTAAA-CCAA-CCCAA
1 ACCTTAAATCAAACCCCAA
22872828 ACCTTAAATCAAACCCCAA
1 ACCTTAAATCAAACCCCAA
22872847 ACCTT
1 ACCTT
22872852 GACCTAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (19 bp):
ACCTTAAATCAAACCCCAA
Found at i:22878948 original size:19 final size:19
Alignment explanation
Indices: 22878911--22878948 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22878901 ATCCAAATAT
*
22878911 AAATTATTTTGCTTTAAAA
1 AAATTATTTTGCTTCAAAA
22878930 AAATTA-TTTGCCTTCAAAA
1 AAATTATTTTG-CTTCAAAA
22878949 GGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (19 bp):
AAATTATTTTGCTTCAAAA
Found at i:22887342 original size:17 final size:17
Alignment explanation
Indices: 22887296--22887343 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
22887286 TGTAAACTTA
*
22887296 AAGAAAACTTATA-AAC
1 AAGAAAACTTAAAGAAC
* *
22887312 ATGAAAA-GTAAAGAAC
1 AAGAAAACTTAAAGAAC
22887328 AAGAAAACTTAAAGAA
1 AAGAAAACTTAAAGAA
22887344 GCTAACTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 3 0.12
16 15 0.60
17 7 0.28
ACGTcount: A:0.65, C:0.08, G:0.12, T:0.15
Consensus pattern (17 bp):
AAGAAAACTTAAAGAAC
Found at i:22896855 original size:28 final size:28
Alignment explanation
Indices: 22896788--22896857 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
22896778 CTAAAATTTG
* *
22896788 ATTTAACATGTCAAATAAATAAATAAATA
1 ATTT-ACATGTTAAATAAATAAAAAAATA
* *
22896817 AATTACATGTTAAATAAGTAAAAAAATA
1 ATTTACATGTTAAATAAATAAAAAAATA
22896845 ATTTACATGTTAA
1 ATTTACATGTTAA
22896858 TAGTTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (28 bp):
ATTTACATGTTAAATAAATAAAAAAATA
Found at i:22897643 original size:26 final size:26
Alignment explanation
Indices: 22897588--22897645 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
22897578 TTATACCACT
***
22897588 AATTTTTTAAAAAAATAATTAACTTT
1 AATTTTTTAAAAAAATAATTAACAAA
*
22897614 AATTTTTTAAAATAATAACTTAA-AAA
1 AATTTTTTAAAAAAATAA-TTAACAAA
22897640 AATTTT
1 AATTTT
22897646 AAAATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTTTTTAAAAAAATAATTAACAAA
Found at i:22898031 original size:17 final size:18
Alignment explanation
Indices: 22898001--22898034 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22897991 TAACATTTAT
22898001 AAAATTAATAAATTATTA
1 AAAATTAATAAATTATTA
*
22898019 AAAATT-ATTAATTATT
1 AAAATTAATAAATTATT
22898035 TTTAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTAATAAATTATTA
Found at i:22904903 original size:7 final size:7
Alignment explanation
Indices: 22904891--22904946 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
22904881 TAATATTATT
22904891 AAATACA
1 AAATACA
22904898 AAATACA
1 AAATACA
22904905 AAATACA
1 AAATACA
*
22904912 CAAA-AAA
1 -AAATACA
22904919 AATATAAACA
1 AA-AT--ACA
22904929 ATAATACA
1 A-AATACA
22904937 AAATACA
1 AAATACA
22904944 AAA
1 AAA
22904947 AAAAAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
6 2 0.05
7 26 0.63
8 7 0.17
10 5 0.12
11 1 0.02
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATACA
Found at i:22906444 original size:31 final size:30
Alignment explanation
Indices: 22906409--22906500 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 30
22906399 ATTCTTAATT
*
22906409 TCCAAAATCCTAAAGTCCAAAACTCCTAAAA
1 TCCAAAATCCTAAA-TCCAAAACCCCTAAAA
22906440 TCCAAAATCCCTTAAATCC-AAACCCCTAAAA
1 TCCAAAAT-CC-TAAATCCAAAACCCCTAAAA
** *
22906471 TCCGAAACCCCTAAAATCC-AAACCCTTAAA
1 TCC-AAAATCCT-AAATCCAAAACCCCTAAA
22906501 TCAAAACCCC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 1 0.02
31 40 0.75
32 8 0.15
33 4 0.08
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (30 bp):
TCCAAAATCCTAAATCCAAAACCCCTAAAA
Found at i:22906471 original size:15 final size:16
Alignment explanation
Indices: 22906417--22906510 Score: 106
Period size: 16 Copynumber: 6.1 Consensus size: 16
22906407 TTTCCAAAAT
* *
22906417 CCTAAAGTCCAAAACT
1 CCTAAAATCCAAAACC
*
22906433 CCTAAAATCCAAAATC
1 CCTAAAATCCAAAACC
*
22906449 CCTTAAATCC-AAACC
1 CCTAAAATCCAAAACC
*
22906464 CCTAAAATCCGAAACC
1 CCTAAAATCCAAAACC
22906480 CCTAAAATCC-AAA-C
1 CCTAAAATCCAAAACC
*
22906494 CCTTAAAT-CAAAACC
1 CCTAAAATCCAAAACC
22906509 CC
1 CC
22906511 AAACCTCAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
13 1 0.01
14 11 0.16
15 19 0.28
16 37 0.54
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (16 bp):
CCTAAAATCCAAAACC
Found at i:22907886 original size:14 final size:14
Alignment explanation
Indices: 22907863--22907904 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
22907853 TGCATGTTAG
22907863 TTGTTATTTTGATT
1 TTGTTATTTTGATT
*
22907877 TTGTTCTTTTGATT
1 TTGTTATTTTGATT
*
22907891 TAT-TTATTTGGATT
1 T-TGTTATTTTGATT
22907905 AATACATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 23 0.96
15 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.69
Consensus pattern (14 bp):
TTGTTATTTTGATT
Found at i:22912866 original size:21 final size:21
Alignment explanation
Indices: 22912842--22912886 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22912832 GATGGGGCAT
22912842 AAAAAA-AACAAAAAAATTAAA
1 AAAAAAGAACAAAAAAA-TAAA
* *
22912863 AAAAAAGGAGAAAAAAATAAA
1 AAAAAAGAACAAAAAAATAAA
22912884 AAA
1 AAA
22912887 GGGACATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAAAAGAACAAAAAAATAAA
Found at i:22914809 original size:22 final size:22
Alignment explanation
Indices: 22914761--22914829 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
22914751 TTAAAATTTG
*
22914761 TAAGACCTTTGGGCATAATCTC
1 TAAGACCTTCGGGCATAATCTC
*
22914783 TAAGACCTTCGGGCATAA-CTT
1 TAAGACCTTCGGGCATAATCTC
* **
22914804 TCAAGACCTCCAAGCATAATCTC
1 T-AAGACCTTCGGGCATAATCTC
22914827 TAA
1 TAA
22914830 AGCCTCTGCG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 3 0.08
22 33 0.85
23 3 0.08
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (22 bp):
TAAGACCTTCGGGCATAATCTC
Found at i:22915083 original size:88 final size:88
Alignment explanation
Indices: 22914925--22915093 Score: 266
Period size: 88 Copynumber: 1.9 Consensus size: 88
22914915 CAAAGATTTT
* * * *
22914925 GATTTTGTAAGACCTCTGCGCATAAATTCGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTT
1 GATTCTGTAAGACCTCCGAGCATAAATTCGATTCACGGTGTTATCCCAATCGATTCTTTATCTTT
*
22914990 TGACTTGTGGTGTTATCCTAGTC
66 CGACTTGTGGTGTTATCCTAGTC
* * *
22915013 GATTCTGTAAGACCTCCGAGTATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTTATCTTT
1 GATTCTGTAAGACCTCCGAGCATAAATTCGATTCACGGTGTTATCCCAATCGATTCTTTATCTTT
22915078 CGACTTGTGGTGTTAT
66 CGACTTGTGGTGTTAT
22915094 TCGGGCATGA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (88 bp):
GATTCTGTAAGACCTCCGAGCATAAATTCGATTCACGGTGTTATCCCAATCGATTCTTTATCTTT
CGACTTGTGGTGTTATCCTAGTC
Found at i:22915146 original size:22 final size:23
Alignment explanation
Indices: 22915098--22915146 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
22915088 TGTTATTCGG
**
22915098 GCATGATTCTATAAGACCTCCGG
1 GCATGATTCTATAAGACCTCCAA
* *
22915121 GCATGATT-TCTAGGACCTCCAA
1 GCATGATTCTATAAGACCTCCAA
22915143 GCAT
1 GCAT
22915147 AAATTTGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (23 bp):
GCATGATTCTATAAGACCTCCAA
Found at i:22915316 original size:110 final size:111
Alignment explanation
Indices: 22915013--22915341 Score: 421
Period size: 111 Copynumber: 3.0 Consensus size: 111
22915003 TATCCTAGTC
*
22915013 GATTCTGTAAGACCTCCGAGTATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTTATCTTT
1 GATTCTGTAAGACCTCCGAGCATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTTATCTTT
* * ** * * * *
22915078 CGACTTGTGGTGTTATTCGGGCATGATTCTATAAGACCTCCGGGCAT
66 CAACTTGTGGTGTTATCCCAG-TTGATTCTGTAAGACCTCTGGACAT
* * * *
22915125 GATT-TCTAGGACCTCCAAGCATAAATTTGATTCACGGTGTTATCCTGATCGATTCTTTATCTTT
1 GATTCTGTAAGACCTCCGAGCATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTTATCTTT
* * * *
22915189 TAACTTATGGTGGTATCCTAGTTGATTCTGTAAGACCTCTGGACAT
66 CAACTTGTGGTGTTATCCCAGTTGATTCTGTAAGACCTCTGGACAT
* * * *
22915235 GATTCTGTAAGACCTCCGGGCAT-AATTTCGATTCGCAGTGTTATCCCGATCAATTCTTTAT-TT
1 GATTCTGTAAGACCTCCGAGCATAAATTT-GATTCACGGTGTTATCCCGATCGATTCTTTATCTT
*
22915298 TCAACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTCTGGA
65 TCAACTTGTGGTGTTATCCCAGTTGATTCTGTAAGACCTCTGGA
22915342 TATAATTTCG
Statistics
Matches: 186, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
110 71 0.38
111 111 0.60
112 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (111 bp):
GATTCTGTAAGACCTCCGAGCATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTTATCTTT
CAACTTGTGGTGTTATCCCAGTTGATTCTGTAAGACCTCTGGACAT
Found at i:22915383 original size:87 final size:87
Alignment explanation
Indices: 22915235--22915425 Score: 256
Period size: 87 Copynumber: 2.2 Consensus size: 87
22915225 CTCTGGACAT
* * * *
22915235 GATTCTGTAAGACCTCCGGGCATAATTTCGATTCGCAGTGTTATCCCGATCAATTCTTTATTTTC
1 GATTCTGTAAGACCTCCGGACATAATTTCGATTCGCAATATTATCCCGATCAATTCATTATTTTC
* *
22915300 AACTTGTGGTGTTATCCCAGTC
66 AACTGGCGGTGTTATCCCAGTC
* * * * *
22915322 GATTCTGTAAGACCTCTGGATATAATTTCGATTCGTAATATTATCCCGATCGATTCATTATTTTT
1 GATTCTGTAAGACCTCCGGACATAATTTCGATTCGCAATATTATCCCGATCAATTCATTATTTTC
*
22915387 AACTGGCGGTGTTATCCCAGTT
66 AACTGGCGGTGTTATCCCAGTC
* *
22915409 GATTCTATAAAACCTCC
1 GATTCTGTAAGACCTCC
22915426 AGGCATGATT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (87 bp):
GATTCTGTAAGACCTCCGGACATAATTTCGATTCGCAATATTATCCCGATCAATTCATTATTTTC
AACTGGCGGTGTTATCCCAGTC
Found at i:22915451 original size:22 final size:23
Alignment explanation
Indices: 22915408--22915465 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
22915398 TTATCCCAGT
*
22915408 TGATTCTATAAAACCTCCAGGCA
1 TGATTCTATAAGACCTCCAGGCA
*
22915431 TGATTCT-TAAGACCTCTAGGCA
1 TGATTCTATAAGACCTCCAGGCA
*
22915453 TGATT-TCTAAGAC
1 TGATTCTATAAGAC
22915466 TTTTAGACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.75
23 7 0.22
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (23 bp):
TGATTCTATAAGACCTCCAGGCA
Found at i:22915605 original size:34 final size:34
Alignment explanation
Indices: 22915562--22915650 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 34
22915552 TTTGACTCGT
* * *
22915562 GGTTTAATCTCAATCTTTTTATTCTCCGATTCGC
1 GGTTCAATCTCGATCTTTTTATTCTCCGATTCAC
* *
22915596 GGTTCAATCTCGATCTTTTTATTCTCTGATTCAT
1 GGTTCAATCTCGATCTTTTTATTCTCCGATTCAC
* *
22915630 AGTTCAATCTCGATCTCTTTA
1 GGTTCAATCTCGATCTTTTTA
22915651 ATTTAAAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.47
Consensus pattern (34 bp):
GGTTCAATCTCGATCTTTTTATTCTCCGATTCAC
Found at i:22915811 original size:174 final size:174
Alignment explanation
Indices: 22915592--22915986 Score: 540
Period size: 174 Copynumber: 2.3 Consensus size: 174
22915582 ATTCTCCGAT
* **
22915592 TCGCGGTTCAATCTCGATCTTTTTATTCTCTGATTCATAGTTCAATCTCGATCTCTTTAATTTAA
1 TCGCGGTTCAATCTCGATCTTTTTATTCTCTGATTAACGGTTCAATCTCGATCTCTTTAATTTAA
* * * *
22915657 AATCGTAGTTTAATCTCGATTATTGTTGTTAA-CTCCTGACTTGTGGTTTATTCTCGGTCTTCTT
66 AATCGTAGTTTAATCTCGATTATTGTTATTAACCT-CTGACTAGTGATTTATTCTCGATCTTCTT
***
22915721 ATTTTTTGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTGAC
130 ATTTTTTGACTTACAATTCAATCCAAGTTAACGTCATTTTCTGAC
* * * *
22915766 TCGTGGTTCAATTTCGATCTTTTTATTCTCTGATTTACGGTTCAATCTTGATCTCTTTAATTTAA
1 TCGCGGTTCAATCTCGATCTTTTTATTCTCTGATTAACGGTTCAATCTCGATCTCTTTAATTTAA
* * *
22915831 AATCGTAGTTTAATCTCGATTGTTGTTATTAACCTCTGACTAGTGATTTATTCTCGATCTTTTTT
66 AATCGTAGTTTAATCTCGATTATTGTTATTAACCTCTGACTAGTGATTTATTCTCGATCTTCTTA
* * * * *
22915896 TTTTTTTACTTACAATTCAATCCATGTTAATGTCATTTTTTGAT
131 TTTTTTGACTTACAATTCAATCCAAGTTAACGTCATTTTCTGAC
* * * *
22915940 TCGCAGTTTAATCCCGATCTTTTTATTCTCTGATTAACGGTTTAATC
1 TCGCGGTTCAATCTCGATCTTTTTATTCTCTGATTAACGGTTCAATC
22915987 CTGATCCTTA
Statistics
Matches: 192, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
174 190 0.99
175 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (174 bp):
TCGCGGTTCAATCTCGATCTTTTTATTCTCTGATTAACGGTTCAATCTCGATCTCTTTAATTTAA
AATCGTAGTTTAATCTCGATTATTGTTATTAACCTCTGACTAGTGATTTATTCTCGATCTTCTTA
TTTTTTGACTTACAATTCAATCCAAGTTAACGTCATTTTCTGAC
Found at i:22916377 original size:10 final size:10
Alignment explanation
Indices: 22916364--22916402 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
22916354 TGAAATACAC
22916364 AAAAAAATACA
1 AAAAAAATA-A
*
22916375 AAAAAAAGAA
1 AAAAAAATAA
*
22916385 CAAAAAATAA
1 AAAAAAATAA
22916395 AAAAAAAT
1 AAAAAAAT
22916403 CGAGGATGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.85, C:0.05, G:0.03, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:22917807 original size:15 final size:15
Alignment explanation
Indices: 22917773--22917963 Score: 91
Period size: 15 Copynumber: 13.0 Consensus size: 15
22917763 ATAAAGTCTA
*
22917773 AAACCCCTAAAATCC
1 AAACCCTTAAAATCC
*
22917788 AAAACCCTTAAAATTC
1 -AAACCCTTAAAATCC
22917804 AAACCCTTAAAATCC
1 AAACCCTTAAAATCC
*
22917819 AAACCCTT-AAATCA
1 AAACCCTTAAAATCC
* *
22917833 AAACCC--CAAACCTC
1 AAACCCTTAAAATC-C
** **
22917847 AAA-TTTTAAAATTG
1 AAACCCTTAAAATCC
*
22917861 AAACCC-TCAAATCTTC
1 AAACCCTTAAAATC--C
* *
22917877 AAACTC-TAAAATCA
1 AAACCCTTAAAATCC
*
22917891 AAACCC-TAAACCTCCC
1 AAACCCTTAAA-AT-CC
*
22917907 ATA-CCTTAAAA-CC
1 AAACCCTTAAAATCC
22917920 AAACCC-TAAAACTCTC
1 AAACCCTTAAAA-TC-C
*
22917936 AAA-ACTT-AAATCC
1 AAACCCTTAAAATCC
22917949 AAACCCTTAAAATCC
1 AAACCCTTAAAATCC
22917964 GAATCTTCAA
Statistics
Matches: 130, Mismatches: 28, Indels: 35
0.67 0.15 0.18
Matches are distributed among these distances:
13 17 0.13
14 38 0.29
15 39 0.30
16 36 0.28
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.21
Consensus pattern (15 bp):
AAACCCTTAAAATCC
Found at i:22917894 original size:58 final size:57
Alignment explanation
Indices: 22917795--22917904 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
22917785 TCCAAAACCC
*
22917795 TTAAAATTCAAACCCTTAAAATCCAAACCCTTAAATCAAAACCCCAAACCTCAAATT
1 TTAAAATTCAAACCCTTAAAATCCAAACCCTAAAATCAAAACCCCAAACCTCAAATT
* * * *
22917852 TTAAAATTGAAACCC-TCAAATCTTCAAACTCTAAAATCAAAACCCTAAACCTC
1 TTAAAATTCAAACCCTTAAAATC--CAAACCCTAAAATCAAAACCCCAAACCTC
22917905 CCATACCTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 6 0.13
57 14 0.30
58 26 0.57
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (57 bp):
TTAAAATTCAAACCCTTAAAATCCAAACCCTAAAATCAAAACCCCAAACCTCAAATT
Found at i:22917917 original size:30 final size:30
Alignment explanation
Indices: 22917877--22917960 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 30
22917867 TCAAATCTTC
* *
22917877 AAACTCTAAAATCAAAACCCTAAACCTCCCA
1 AAACT-TAAAATCCAAACCCTAAAACTCCCA
* * *
22917908 TACCTTAAAA-CCAAACCCTAAAACTCTCA
1 AAACTTAAAATCCAAACCCTAAAACTCCCA
22917937 AAACTT-AAATCCAAACCCTTAAAA
1 AAACTTAAAATCCAAACCC-TAAAA
22917961 TCCGAATCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 3 0.07
29 28 0.64
30 10 0.23
31 3 0.07
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (30 bp):
AAACTTAAAATCCAAACCCTAAAACTCCCA
Found at i:22920877 original size:186 final size:186
Alignment explanation
Indices: 22920639--22921003 Score: 579
Period size: 186 Copynumber: 2.0 Consensus size: 186
22920629 AAATATGTGT
* * *
22920639 TCAAGTTAGAATGATAGAAAATATTTTCTTCTCTGATGTAACTTTCAATAGCATCTATTTTGTAG
1 TCAAATTAGAATGATAGAAAATATTTTCTTCGCTGATGTAACTATCAATAGCATCTATTTTGTAG
* * * *
22920704 CTTCCATATATATTATTGACGTTACATTGT-GGTTAATTTGTTTTGAAATTCAGGAAAATGCTAA
66 CTTCCATATATATTATTAACGTTACATT-TCGGTTAATTTATTTTGAAATACAGGAAAATACTAA
* * *
22920768 CCTGGTGAGCAATGTTGTCAATGCCTCTATGGCACAAACTGTATGTTCATCTTAAAA
130 CATGGTGAGCAATGATGTCAATGCCTATATGGCACAAACTGTATGTTCATCTTAAAA
*
22920825 TCAAATTAGAATGGTAGAAAATATTTTCTTCGCTGATGTAACTATCAATAGCATCTATTTTGTAG
1 TCAAATTAGAATGATAGAAAATATTTTCTTCGCTGATGTAACTATCAATAGCATCTATTTTGTAG
* *
22920890 CTTCCATATATATTATTAACGTTACATTTCGGTTAATTTATTTTGAAATACTGGTAAATACTAAC
66 CTTCCATATATATTATTAACGTTACATTTCGGTTAATTTATTTTGAAATACAGGAAAATACTAAC
* *
22920955 ATGGTGAGCAATGATGTCAATGCCTATATTGCACAGACTGTATGTTCAT
131 ATGGTGAGCAATGATGTCAATGCCTATATGGCACAAACTGTATGTTCAT
22921004 TGCAAAATGA
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
185 1 0.01
186 162 0.99
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (186 bp):
TCAAATTAGAATGATAGAAAATATTTTCTTCGCTGATGTAACTATCAATAGCATCTATTTTGTAG
CTTCCATATATATTATTAACGTTACATTTCGGTTAATTTATTTTGAAATACAGGAAAATACTAAC
ATGGTGAGCAATGATGTCAATGCCTATATGGCACAAACTGTATGTTCATCTTAAAA
Found at i:22921116 original size:14 final size:14
Alignment explanation
Indices: 22921097--22921124 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22921087 AGGCGTAGTG
22921097 GAGGGTGGTGAAGT
1 GAGGGTGGTGAAGT
22921111 GAGGGTGGTGAAGT
1 GAGGGTGGTGAAGT
22921125 TATCTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.57, T:0.21
Consensus pattern (14 bp):
GAGGGTGGTGAAGT
Found at i:22923432 original size:21 final size:21
Alignment explanation
Indices: 22923389--22923466 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
22923379 TTTTAATAGG
* * *
22923389 ATTAAAAATAATAA-AAAAAA
1 ATTAAATATTATAATAATAAA
**
22923409 ATTATTTATTATAATAATAAA
1 ATTAAATATTATAATAATAAA
* *
22923430 ATTAAATATTATAATGATAAG
1 ATTAAATATTATAATAATAAA
22923451 ATTAAA-ATTAATAATA
1 ATTAAATATT-ATAATA
22923467 TAATATATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 13 0.28
21 33 0.72
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
ATTAAATATTATAATAATAAA
Found at i:22923606 original size:20 final size:19
Alignment explanation
Indices: 22923560--22923602 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
22923550 TATATTGATA
*
22923560 AAAATTT-T-AAATTATTT
1 AAAATTTATAAAATTAATT
*
22923577 AACATTTATAAAATTAATT
1 AAAATTTATAAAATTAATT
22923596 AAAATTT
1 AAAATTT
22923603 TATATTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTTATAAAATTAATT
Found at i:22923658 original size:22 final size:21
Alignment explanation
Indices: 22923609--22923659 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
22923599 ATTTTATATT
22923609 TTATTA-TATAATAAATAAAA
1 TTATTATTATAATAAATAAAA
22923629 TTATTTATTATAATAAATTAATAA
1 TTA-TTATTATAATAAA-TAA-AA
22923653 -TATTATT
1 TTATTATT
22923660 TTATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.11
21 3 0.11
22 14 0.52
23 5 0.19
24 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTATTATAATAAATAAAA
Found at i:22923663 original size:24 final size:25
Alignment explanation
Indices: 22923605--22923666 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
22923595 TAAAATTTTA
*
22923605 TATTTTATTATATAATAAATAAAAT
1 TATTTTATAATATAATAAATAAAAT
* *
22923630 TATTTATTATAATA-AATTAATAATAT
1 TA-TT-TTATAATATAATAAATAAAAT
22923656 TATTTTATAAT
1 TATTTTATAAT
22923667 TTTTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 7 0.22
25 4 0.12
26 14 0.44
27 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTTATAATATAATAAATAAAAT
Found at i:22925998 original size:14 final size:14
Alignment explanation
Indices: 22925976--22926015 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
22925966 AAAAAGTTGC
22925976 TTAAATTAATTTAA
1 TTAAATTAATTTAA
* *
22925990 TTCAATTAATCTAA
1 TTAAATTAATTTAA
22926004 TTAAATTGAATT
1 TTAAATT-AATT
22926016 GAAAAATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (14 bp):
TTAAATTAATTTAA
Found at i:22927076 original size:17 final size:17
Alignment explanation
Indices: 22927054--22927087 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22927044 TTCTATATTA
22927054 TAATAT-AATATAAAAAT
1 TAATATGAAT-TAAAAAT
22927071 TAATATGAATTAAAAAT
1 TAATATGAATTAAAAAT
22927088 AATTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TAATATGAATTAAAAAT
Found at i:22927986 original size:23 final size:24
Alignment explanation
Indices: 22927936--22927988 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
22927926 ATATTTCTTG
*
22927936 AATTTTTTTGAAAAATTAGATTTC
1 AATTTTTTGGAAAAATTAGATTTC
22927960 -ATTTTTTGGAAAAA-TA-ATTTTC
1 AATTTTTTGGAAAAATTAGA-TTTC
22927982 AATTTTT
1 AATTTTT
22927989 ACAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 6 0.23
23 19 0.73
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
AATTTTTTGGAAAAATTAGATTTC
Found at i:22927987 original size:22 final size:23
Alignment explanation
Indices: 22927939--22927997 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
22927929 TTTCTTGAAT
* *
22927939 TTTTTTGAAAAATTAGATTTCAT
1 TTTTTGGAAAAATTAGATTTCAA
22927962 TTTTTGGAAAAA-TA-ATTTTCAA
1 TTTTTGGAAAAATTAGA-TTTCAA
**
22927984 TTTTTACAAAAATT
1 TTTTTGGAAAAATT
22927998 TGAAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 17 0.57
23 12 0.40
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTTTGGAAAAATTAGATTTCAA
Found at i:22928071 original size:26 final size:26
Alignment explanation
Indices: 22928024--22928073 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
22928014 ATCTCATTTC
**
22928024 TTTTTAAAAAATAATTTTTTTTAATT
1 TTTTTAAAAAATAATTAATTTTAATT
22928050 TTTTTAAGAAAATAA-TAATTTTAA
1 TTTTTAA-AAAATAATTAATTTTAA
22928074 ATAAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTTAAAAAATAATTAATTTTAATT
Found at i:22928438 original size:22 final size:21
Alignment explanation
Indices: 22928408--22928489 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 21
22928398 AATTTGAAAA
* *
22928408 TTTTCAAAAAATTTAAAATTAT
1 TTTTTAAAAAA-TTAAAATAAT
* *
22928430 TTTTT-AAAAATTGAAATCAGAA
1 TTTTTAAAAAATTAAAAT-A-AT
22928452 TTTTTAAAAAA-TAAAATAAT
1 TTTTTAAAAAATTAAAATAAT
22928472 ATTTTTAAAAAAATTAAA
1 -TTTTT-AAAAAATTAAA
22928490 TATCTGAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
20 7 0.15
21 11 0.23
22 21 0.44
23 9 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTTTAAAAAATTAAAATAAT
Found at i:22928490 original size:22 final size:21
Alignment explanation
Indices: 22928407--22928491 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 21
22928397 AAATTTGAAA
* *
22928407 ATTTTCAAAAAATTTAAA-ATT
1 ATTTTTAAAAAA-TTAAATAAT
*
22928428 ATTTTTTAAAAATTGAAATCAGA-
1 ATTTTTAAAAAATT-AAAT-A-AT
*
22928451 ATTTTTAAAAAATAAAATAAT
1 ATTTTTAAAAAATTAAATAAT
22928472 ATTTTTAAAAAAATTAAATA
1 ATTTTT-AAAAAATTAAATA
22928492 TCTGAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.06
21 20 0.38
22 16 0.31
23 13 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTTTAAAAAATTAAATAAT
Found at i:22936780 original size:484 final size:484
Alignment explanation
Indices: 22935279--22937684 Score: 3498
Period size: 484 Copynumber: 5.0 Consensus size: 484
22935269 GATCAAGTCA
22935279 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
* *
22935344 ACAAGATTTCAAGATAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
66 ACGAGATTTCAAGACAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
* * * * * ** *
22935409 TGGATTGATTCCCAAGCAAAATAGATCGATTAGGTCATACCCAAAATGCTTTCAATAACTAGTTT
131 TGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTCAGCAGCTAGTTT
* *
22935474 TTTGAAGGAACAATGGCTATTTCCATTTTCCCAACATCCCTAATGGATACAAACTCATATTCTTT
196 TTTGAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTCT
* * * * *
22935539 ATAAATTGGGCACTCCAACACATCATTGAAGCCAAAAGAAAGAAGAGAACAATCACCAACAAGCT
261 ATAAATTGGGCACTCTAACACACCATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGCC
* *
22935604 TTACATTCATTTT-TTTAGAATTCAAGAGTTTTGTAAAGATTAGAGTTATAATTATTCCCATTCT
326 TTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCCCATTCT
*
22935668 TGTATCCAAGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACATTTACC
391 TGTATCCAAGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTACC
22935733 TATTAGAGGTCTTTACAAAATGGAGGTCT
456 TATTAGAGGTCTTTACAAAATGGAGGTCT
* * *
22935762 AAGGTTTCACAAAAGGGATCAATTCCTTATAAAACAAGATCAATCGATTTTTTATCTAGAAAGCC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
* * * * *
22935827 ATGAGATTTCAAGACAGCTAAAATAGATCAATCCCCCAGAGTAATGGATCAATCAAGTCCAAAAA
66 ACGAGATTTCAAGACAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
* * * * * *
22935892 TGGATTGATTCCCTACTAAAACAAATCGATTAGGTCTTGCCTAAAATAC-TTCTAACAGTTAGTT
131 TGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTC-AGCAGCTAGTT
* *
22935956 TTTTGAAAGAACAATGGCTATTTCCATTCTCCAAACATCCCTAATGGATACAAACTCATATTCTC
195 TTTTGAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTC
* * *
22936021 TATAAATTGGGCACTCTAACACACCATTGAAGCAAAAAAAAAGAAGAAGAGAACAAGTACCAACA
260 TATAAATTGGGCACTCTAACACACCATTGAAGCCAAAAGAAAGAAG-A-A-AACAAGCACCAACA
*
22936086 AGCCTTACATTCATTTTCTTAAGAATTCAAGAGTTTTATAAAGATTAGAGCTATAATTATTCCCA
322 AGCCTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCCCA
* * * *
22936151 TTCTTGTTTCCAAGCTATTTTTGTCTTTCTTGTATCATTCTTTATACTTAATCTTAGTAAACACT
387 TTCTTGTATCCAAGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACT
* **
22936216 TACCTATTAAAGGTCTTTACAAAATAAAGGAT-T
452 TACCTATTAGAGGTCTTTACAAAATGGAGG-TCT
* *
22936249 AAGGTTTCACAAAATGGATCAATTCTTTATAAAACAAGATCAATTGATTTTTTATCTA-AAAGGC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAA-GC
** * * * * *
22936313 CACGAGATTTTTAGATAGCCAAAATAGATCAATCCCTCAGAGTAATGGATTAATCAGGTCTAAAA
65 CACGAGATTTCAAGACAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAA
22936378 ATGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTCAGCAGCTAGTT
130 ATGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTCAGCAGCTAGTT
* * * * * *
22936443 TTTTTAAAGAACAATGGCTATTTCCATTTTCCAAATATTCGTAATGGATACAAACTCATATTCTA
195 TTTTGAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTC
* * * * *
22936508 GATAAATTGGGCACTCCAACACACCATTGAAGCTAAAAAAAAGAAGAAAACAAGCACCGACAAGC
260 TATAAATTGGGCACTCTAACACACCATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGC
* * *
22936573 CTTACATTCATTTTCTTAAGAATTTAAGAGTTTTGTAAATATTAGAGCTATAATTATTCCTATTC
325 CTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCCCATTC
* *
22936638 TTGTATCTACGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTAC
390 TTGTATCCAAGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTAC
22936703 CTATTAGAGGTCTTTACAAAATGGAGGTCT
455 CTATTAGAGGTCTTTACAAAATGGAGGTCT
*
22936733 AGGGTTTCAAAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
* * * * *
22936798 ATGAGATTTCAACACAGCCAAAATAGATTGATCCTCCAGAGTAATGGATCAATTAGGTCAAAAAA
66 ACGAGATTTCAAGACAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
* * * * *
22936863 TGGGTGGATTCCCTATCGAAACAGATCGATTAAGTCTTGCCCAAAATGCTTTCAGCAGCTAGTTT
131 TGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTCAGCAGCTAGTTT
* * *
22936928 TTTTAAGGAACAATGGCTATTTCCATTTTCCAAACATCCTTAATGGATCCAAACTCATATTCTCT
196 TTTGAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTCT
* * *
22936993 ATAAATTGGGCATTCTAACACACCATTGAAGCTC-AAAGAAAGAAGAGAACAAGCACCAATAAGC
261 ATAAATTGGGCACTCTAACACACCATTGAAGC-CAAAAGAAAGAAGAAAACAAGCACCAACAAGC
* **
22937057 CTTACATTTATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCTTATTC
325 CTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCCCATTC
* * * * ** * *
22937122 TTCTATCTAGGTTATTTTTACCTTTCTTGTATCATTCTTTATACTTAATCTTAGTTAACACTTAC
390 TTGTATCCAAGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTAC
*
22937187 CTATTAGAAGTCTTTACAAAATGGAGGTCT
455 CTATTAGAGGTCTTTACAAAATGGAGGTCT
* * * * * *
22937217 AGGGTTTCACAAAATGGATTAATTCCCTATAAAACAAAATCAA-TCAATTTTTATCTAGAAAGGC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
* * * * *
22937281 ACAAGATTTTAAGA-AACCAAAATGGATCGATCCCCCAGAGTAATGGATCAATCAGGTCCAAAAA
66 ACGAGATTTCAAGACAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
* * * *
22937345 TGGATTGATTCCCTGCCAAAACAGATTGATTAGGTCTTACCCAAAATGC-TTCTAGCAACTAGTT
131 TGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTC-AGCAGCTAGTT
* * *
22937409 TTTTCAAGGAACAATGGCTACTTCCATTTTTCAAACATCCCTAATGGATACAAACTCATATTCTC
195 TTTTGAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTC
* *
22937474 TATAAATTGGGTACTCTAACACACTATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGC
260 TATAAATTGGGCACTCTAACACACCATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGC
* * *
22937539 CTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAAAGCTATAATTATTCACATTT
325 CTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCCCATTC
** * *
22937604 TTGTATCGGA-TTATCTTTATCTTTCTTGTCTCATTCTTTATACTTAACCTTAGTAAACACTTAC
390 TTGTATCCAAGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTAC
* * *
22937668 ATATTGGAGCTCTTTAC
455 CTATTAGAGGTCTTTAC
22937685 TAGTTTGCAT
Statistics
Matches: 1723, Mismatches: 187, Indels: 28
0.89 0.10 0.01
Matches are distributed among these distances:
481 66 0.04
482 282 0.16
483 300 0.17
484 633 0.37
485 4 0.00
486 32 0.02
487 402 0.23
488 4 0.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (484 bp):
AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
ACGAGATTTCAAGACAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
TGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTCAGCAGCTAGTTT
TTTGAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTCT
ATAAATTGGGCACTCTAACACACCATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGCC
TTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCCCATTCT
TGTATCCAAGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTACC
TATTAGAGGTCTTTACAAAATGGAGGTCT
Found at i:22937626 original size:971 final size:970
Alignment explanation
Indices: 22935279--22937684 Score: 3597
Period size: 971 Copynumber: 2.5 Consensus size: 970
22935269 GATCAAGTCA
*
22935279 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGCC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGGC
*
22935344 ACAAGATTTCAAGATAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
66 ACAAGATTTTAAGATAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
* * * **
22935409 TGGATTGATTCCCAAG-CAAAATAGATCGATTAGGTCATACCCAAAATGCTTTCAATAACTAGTT
131 TGGATTGATTCCC-TGCCAAAACAGATCGATTAGGTCTTACCCAAAATGCTTTCAGCAACTAGTT
* * *
22935473 TTTTGAAGGAACAATGGCTATTTCCATTTTCCCAACATCCCTAATGGATACAAACTCATATTCTT
195 TTTTCAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTA
* *
22935538 TATAAATTGGGCACTCCAACACA-TCATTGAAGCCAAAAGAAAGAAGAGAACAATCACCAACAAG
260 TATAAATTGGGCACTCCAACACACT-ATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAG
* * *
22935602 CTTTACATTCATTTT-TTTAGAATTCAAGAGTTTTGTAAAGATTAGAGTTATAATTATTCCCATT
324 CCTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATT-CCATT
*
22935666 CTTGTATCCA-A-GTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACATT
388 CTTGTAT-CATACGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACT
*
22935729 TACCTATTAGAGGTCTTTACAAAATGGAGGTCTAAGGTTTCACAAAAGGGATCAATTCCTTATAA
452 TACCTATTAGAGGTCTTTACAAAATGGAGGTCTAAGGTTTCAAAAAAGGGATCAATTCCTTATAA
* *
22935794 AACAAGATCAATCGATTTTTTATCTAGAAAGCCATGAGATTTCAAGACAGCTAAAATAGATCAAT
517 AACAAGATCAATCGATTTTTTATCTAGAAAGCCATGAGATTTCAACACAGCCAAAATAGATCAAT
* *
22935859 CCCCCAGAGTAATGGATCAATCAAGTCCAAAAATGGATTGATTCCCTACTAAAACAAATCGATTA
582 CCCCCAGAGTAATGGATCAATCAAGTCAAAAAATGGATGGATTCCCTACTAAAACAAATCGATTA
* * *
22935924 GGTCTTGCCTAAAATACTTCTAACAGTTAGTTTTTTGAAAGAACAATGGCTATTTCCATTCTCCA
647 AGTCTTGCCCAAAATACTTCTAACAGCTAGTTTTTTGAAAGAACAATGGCTATTTCCATTCTCCA
22935989 AACATCCCTAATGGATACAAACTCATATTCTCTATAAATTGGGCACTCTAACACACCATTGAAGC
712 AACATCCCTAATGGATACAAACTCATATTCTCTATAAATTGGGCACTCTAACACACCATTGAAGC
*
22936054 AAAAAAAAAGAAGAAGAGAACAAGTACCAACAAGCCTTACATTCATTTTCTTAAGAATTCAAGAG
777 -AAAAAAAAGAAGAAGAGAACAAGCACCAACAAGCCTTACATTCATTTTCTTAAGAATTCAAGAG
* * **
22936119 TTTTATAAAGATTAGAGCTATAATTATTCCCATTCTTGTTTCCAAGCTATTTTTGTCTTTCTTGT
841 TTTTATAAAGATTAGAGCTATAATTATTCCCATTCTTCTATCCAAGCTATTTTTACCTTTCTTGT
22936184 ATCATTCTTTATACTTAATCTTAGTAAACACTTACCTATTAAAGGTCTTTACAAAATAAAGGATT
906 ATCATTCTTTATACTTAATCTTAGTAAACACTTACCTATTAAAGGTCTTTACAAAATAAAGGATT
* *
22936249 AAGGTTTCACAAAATGGATCAATTCTTTATAAAACAAGATCAATTGATTTTTTATCTA-AAAGGC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGG-
* * * * * *
22936313 CACGAGATTTTTAGATAGCCAAAATAGATCAATCCCTCAGAGTAATGGATTAATCAGGTCTAAAA
65 CACAAGATTTTAAGATAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAA
* * *
22936378 ATGGATTGATTCCCTACCAAAACAGATCGATTAGGTCTTGCCCAAAATGCTTTCAGCAGCTAGTT
130 ATGGATTGATTCCCTGCCAAAACAGATCGATTAGGTCTTACCCAAAATGCTTTCAGCAACTAGTT
* * * * *
22936443 TTTTTAAAGAACAATGGCTATTTCCATTTTCCAAATATTCGTAATGGATACAAACTCATATTCTA
195 TTTTCAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTA
* * * * *
22936508 GATAAATTGGGCACTCCAACACACCATTGAAGCTAAAAAAAAGAAGAAAACAAGCACCGACAAGC
260 TATAAATTGGGCACTCCAACACACTATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGC
* *
22936573 CTTACATTCATTTTCTTAAGAATTTAAGAGTTTTGTAAATATTAGAGCTATAATTATTCCTATTC
325 CTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCC-ATTC
22936638 TTGTATC-TACGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTA
389 TTGTATCATACGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTA
* *
22936702 CCTATTAGAGGTCTTTACAAAATGGAGGTCTAGGGTTTCAAAAAATGGATCAATTCCTTATAAAA
454 CCTATTAGAGGTCTTTACAAAATGGAGGTCTAAGGTTTCAAAAAAGGGATCAATTCCTTATAAAA
* **
22936767 CAAGATCAATTGATTTTTTATCTAGAAAGCCATGAGATTTCAACACAGCCAAAATAGATTGATCC
519 CAAGATCAATCGATTTTTTATCTAGAAAGCCATGAGATTTCAACACAGCCAAAATAGATCAATCC
* * * * * *
22936832 TCCAGAGTAATGGATCAATTAGGTCAAAAAATGGGTGGATTCCCTA-TCGAAACAGATCGATTAA
584 CCCAGAGTAATGGATCAATCAAGTCAAAAAATGGATGGATTCCCTACT-AAAACAAATCGATTAA
* * * * *
22936896 GTCTTGCCCAAAATGCTT-TCAGCAGCTAGTTTTTTTAAGGAACAATGGCTATTTCCATTTTCCA
648 GTCTTGCCCAAAATACTTCT-AACAGCTAGTTTTTTGAAAGAACAATGGCTATTTCCATTCTCCA
* * *
22936960 AACATCCTTAATGGATCCAAACTCATATTCTCTATAAATTGGGCATTCTAACACACCATTGAAGC
712 AACATCCCTAATGGATACAAACTCATATTCTCTATAAATTGGGCACTCTAACACACCATTGAAGC
** * * *
22937025 -TCAAAGA-AAGAAGAGAACAAGCACCAATAAGCCTTACATTTATTTTCTTAAGAATTCAAGAGT
777 AAAAAAAAGAAGAAGAGAACAAGCACCAACAAGCCTTACATTCATTTTCTTAAGAATTCAAGAGT
* ** * * *
22937088 TTTGTAAAGATTAGAGCTATAATTATTCTTATTCTTCTATCTAGGTTATTTTTACCTTTCTTGTA
842 TTTATAAAGATTAGAGCTATAATTATTCCCATTCTTCTATCCAAGCTATTTTTACCTTTCTTGTA
* **
22937153 TCATTCTTTATACTTAATCTTAGTTAACACTTACCTATTAGAA-GTCTTTACAAAATGGAGG-TC
907 TCATTCTTTATACTTAATCTTAGTAAACACTTACCTATTA-AAGGTCTTTACAAAATAAAGGAT-
22937216 T
970 T
* * * * *
22937217 AGGGTTTCACAAAATGGATTAATTCCCTATAAAACAAAATCAA-TCAATTTTTATCTAGAAAGGC
1 AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGGC
* * *
22937281 ACAAGATTTTAAGA-AACCAAAATGGATCGATCCCCCAGAGTAATGGATCAATCAGGTCCAAAAA
66 ACAAGATTTTAAGATAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
*
22937345 TGGATTGATTCCCTGCCAAAACAGATTGATTAGGTCTTACCCAAAATGC-TTCTAGCAACTAGTT
131 TGGATTGATTCCCTGCCAAAACAGATCGATTAGGTCTTACCCAAAATGCTTTC-AGCAACTAGTT
* * *
22937409 TTTTCAAGGAACAATGGCTACTTCCATTTTTCAAACATCCCTAATGGATACAAACTCATATTCTC
195 TTTTCAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTA
* *
22937474 TATAAATTGGGTACTCTAACACACTATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGC
260 TATAAATTGGGCACTCCAACACACTATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGC
* *
22937539 CTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAAAGCTATAATTATTCACATTT
325 CTTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTC-CATTC
** * *
22937604 TTGTATCGGA--TTATCTTTATCTTTCTTGTCTCATTCTTTATACTTAACCTTAGTAAACACTTA
389 TTGTATCATACGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTA
* * *
22937667 CATATTGGAGCTCTTTAC
454 CCTATTAGAGGTCTTTAC
22937685 TAGTTTGCAT
Statistics
Matches: 1293, Mismatches: 128, Indels: 35
0.89 0.09 0.02
Matches are distributed among these distances:
965 69 0.05
966 281 0.22
967 28 0.02
968 207 0.16
969 10 0.01
970 304 0.24
971 394 0.30
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (970 bp):
AGGGTTTCACAAAATGGATCAATTCCTTATAAAACAAGATCAATTGATTTTTTATCTAGAAAGGC
ACAAGATTTTAAGATAGCCAAAATAGATCGATCCCCCAGAGTAATGGATCAATCAGGTCAAAAAA
TGGATTGATTCCCTGCCAAAACAGATCGATTAGGTCTTACCCAAAATGCTTTCAGCAACTAGTTT
TTTCAAGGAACAATGGCTATTTCCATTTTCCAAACATCCCTAATGGATACAAACTCATATTCTAT
ATAAATTGGGCACTCCAACACACTATTGAAGCCAAAAGAAAGAAGAAAACAAGCACCAACAAGCC
TTACATTCATTTTCTTAAGAATTCAAGAGTTTTGTAAAGATTAGAGCTATAATTATTCCATTCTT
GTATCATACGTTATCTTTGTCTTTCTTGTATCATTCTTTATACTTAACCTTAGTAAACACTTACC
TATTAGAGGTCTTTACAAAATGGAGGTCTAAGGTTTCAAAAAAGGGATCAATTCCTTATAAAACA
AGATCAATCGATTTTTTATCTAGAAAGCCATGAGATTTCAACACAGCCAAAATAGATCAATCCCC
CAGAGTAATGGATCAATCAAGTCAAAAAATGGATGGATTCCCTACTAAAACAAATCGATTAAGTC
TTGCCCAAAATACTTCTAACAGCTAGTTTTTTGAAAGAACAATGGCTATTTCCATTCTCCAAACA
TCCCTAATGGATACAAACTCATATTCTCTATAAATTGGGCACTCTAACACACCATTGAAGCAAAA
AAAAGAAGAAGAGAACAAGCACCAACAAGCCTTACATTCATTTTCTTAAGAATTCAAGAGTTTTA
TAAAGATTAGAGCTATAATTATTCCCATTCTTCTATCCAAGCTATTTTTACCTTTCTTGTATCAT
TCTTTATACTTAATCTTAGTAAACACTTACCTATTAAAGGTCTTTACAAAATAAAGGATT
Found at i:22937751 original size:33 final size:33
Alignment explanation
Indices: 22937714--22937783 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
22937704 TATTCAAAAA
*
22937714 GGAATTAGAGAA-CAAAAGGTATAGTATCATTTT
1 GGAATTAGA-AAGCAAAAGGTATAGTATCATCTT
*
22937747 GGAATTAGAAAGCAAAATGTATAGTATCATCTT
1 GGAATTAGAAAGCAAAAGGTATAGTATCATCTT
22937780 GGAA
1 GGAA
22937784 GCTTTATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (33 bp):
GGAATTAGAAAGCAAAAGGTATAGTATCATCTT
Found at i:22939289 original size:19 final size:19
Alignment explanation
Indices: 22939265--22939305 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22939255 TCTAATTATT
* *
22939265 TTTCCTATTTAGATTTGGA
1 TTTCCTATATAGATTAGGA
*
22939284 TTTCCTATATGGATTAGGA
1 TTTCCTATATAGATTAGGA
22939303 TTT
1 TTT
22939306 GGTATTCTTA
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:0.22, C:0.10, G:0.17, T:0.51
Consensus pattern (19 bp):
TTTCCTATATAGATTAGGA
Found at i:22949379 original size:15 final size:16
Alignment explanation
Indices: 22949355--22949387 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22949345 TAAAATCTCG
22949355 TTTTATTATTTATTAT
1 TTTTATTATTTATTAT
*
22949371 TTTTA-TATTTGTTAT
1 TTTTATTATTTATTAT
22949386 TT
1 TT
22949388 AAAAAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTATTATTTATTAT
Found at i:22949616 original size:19 final size:19
Alignment explanation
Indices: 22949571--22949617 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
22949561 GGTTTCTCAC
*
22949571 TTAGGGTTTCACTTAGAGT
1 TTAGGGTTTCACCTAGAGT
* *
22949590 TTAAGGTTTCACCTAGGGT
1 TTAGGGTTTCACCTAGAGT
*
22949609 TTTGGGTTT
1 TTAGGGTTT
22949618 TATGATTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.45
Consensus pattern (19 bp):
TTAGGGTTTCACCTAGAGT
Found at i:22949632 original size:34 final size:36
Alignment explanation
Indices: 22949589--22949655 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
22949579 TCACTTAGAG
22949589 TTTAAGGTTT-CACCTAGGGTTTT-GGGTTTTATGA
1 TTTAAGGTTTGCACCTAGGGTTTTAGGGTTTTATGA
*
22949623 TTTAAGGTTTGCACCTAGGTTTTTAGGGTTTTA
1 TTTAAGGTTTGCACCTAGGGTTTTAGGGTTTTA
22949656 CACTTAGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 10 0.33
35 12 0.40
36 8 0.27
ACGTcount: A:0.18, C:0.09, G:0.25, T:0.48
Consensus pattern (36 bp):
TTTAAGGTTTGCACCTAGGGTTTTAGGGTTTTATGA
Found at i:22951534 original size:3 final size:3
Alignment explanation
Indices: 22951528--22951558 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
22951518 CATCATCATC
22951528 ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
22951559 TAGCCAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22952028 original size:6 final size:6
Alignment explanation
Indices: 22952012--22952045 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
22952002 TGTTTTCTCA
22952012 TTTTGTG TTTTTG TTTTTG TTTTTG TTTTT- TTTT
1 TTTT-TG TTTTTG TTTTTG TTTTTG TTTTTG TTTT
22952046 CATTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 4 0.15
6 19 0.70
7 4 0.15
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:22952051 original size:8 final size:8
Alignment explanation
Indices: 22952040--22952102 Score: 76
Period size: 8 Copynumber: 7.8 Consensus size: 8
22952030 GTTTTTGTTT
22952040 TTTTTTCA
1 TTTTTTCA
22952048 TTTTTTCA
1 TTTTTTCA
22952056 TTTCTTTTC-
1 -TT-TTTTCA
*
22952065 GTTTTTCA
1 TTTTTTCA
22952073 TTTTTTTCA
1 -TTTTTTCA
22952082 TTTTTTCA
1 TTTTTTCA
22952090 -TTTTTCA
1 TTTTTTCA
22952097 TTTTTT
1 TTTTTT
22952103 TGTGTGTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
7 12 0.25
8 22 0.46
9 9 0.19
10 5 0.10
ACGTcount: A:0.10, C:0.13, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:22952085 original size:6 final size:7
Alignment explanation
Indices: 22952041--22952101 Score: 50
Period size: 7 Copynumber: 7.7 Consensus size: 7
22952031 TTTTTGTTTT
22952041 TTTTTCA
1 TTTTTCA
22952048 TTTTTTCA
1 -TTTTTCA
*
22952056 TTTCTTTTCG
1 --T-TTTTCA
22952066 TTTTTCA
1 TTTTTCA
22952073 TTTTTTTCA
1 --TTTTTCA
22952082 TTTTTTCA
1 -TTTTTCA
22952090 TTTTTCA
1 TTTTTCA
22952097 TTTTT
1 TTTTT
22952102 TTGTGTGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
7 17 0.36
8 16 0.34
9 9 0.19
10 5 0.11
ACGTcount: A:0.10, C:0.13, G:0.02, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:22952103 original size:17 final size:18
Alignment explanation
Indices: 22952038--22952094 Score: 82
Period size: 17 Copynumber: 3.3 Consensus size: 18
22952028 TTGTTTTTGT
22952038 TTTTTTTTCATTTTTTCA
1 TTTTTTTTCATTTTTTCA
* *
22952056 TTTCTTTTC-GTTTTTCA
1 TTTTTTTTCATTTTTTCA
22952073 -TTTTTTTCATTTTTTCA
1 TTTTTTTTCATTTTTTCA
22952090 TTTTT
1 TTTTT
22952095 CATTTTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.21
17 14 0.42
18 12 0.36
ACGTcount: A:0.09, C:0.12, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTTTTCATTTTTTCA
Found at i:22952103 original size:24 final size:26
Alignment explanation
Indices: 22952041--22952103 Score: 96
Period size: 24 Copynumber: 2.5 Consensus size: 26
22952031 TTTTTGTTTT
*
22952041 TTTTTCA-TTTTTTCATTTCTTTTCG
1 TTTTTCATTTTTTTCATTTCTTTTCA
22952066 TTTTTCATTTTTTTCA-TT-TTTTCA
1 TTTTTCATTTTTTTCATTTCTTTTCA
22952090 TTTTTCATTTTTTT
1 TTTTTCATTTTTTT
22952104 GTGTGTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
24 19 0.53
25 9 0.25
26 8 0.22
ACGTcount: A:0.10, C:0.13, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTTCATTTTTTTCATTTCTTTTCA
Found at i:22952403 original size:36 final size:36
Alignment explanation
Indices: 22952324--22952422 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
22952314 AACGAACAAC
* *
22952324 CAAA-ACAACACTACAAGTCAAATAATAAAGGATGA
1 CAAAGACAACACCATAAGTCAAATAATAAAGGATGA
*** * * *
22952359 CCGGGACAACACCGTAAGTCAAATAGTGAAGGATGA
1 CAAAGACAACACCATAAGTCAAATAATAAAGGATGA
*
22952395 CAAAGACAACACCATAAGTGAAA-AATAA
1 CAAAGACAACACCATAAGTCAAATAATAA
22952423 CAAATGACTG
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
35 4 0.08
36 44 0.92
ACGTcount: A:0.52, C:0.18, G:0.17, T:0.13
Consensus pattern (36 bp):
CAAAGACAACACCATAAGTCAAATAATAAAGGATGA
Found at i:22955923 original size:54 final size:54
Alignment explanation
Indices: 22955836--22955943 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
22955826 CAATCACTCA
*
22955836 AAAAAACTCTTCACCTCTTTTTATATGTGTGGAGCTACTAAATTTTGAATGGCT
1 AAAAAACTCTTCACCTCTTTTTATATGTATGGAGCTACTAAATTTTGAATGGCT
* *
22955890 AAAAAACTTTTCACCTCTTTTTATGTGTATGGAGCTACTAAATTTTGAATGGCT
1 AAAAAACTCTTCACCTCTTTTTATATGTATGGAGCTACTAAATTTTGAATGGCT
22955944 TGAATTTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (54 bp):
AAAAAACTCTTCACCTCTTTTTATATGTATGGAGCTACTAAATTTTGAATGGCT
Found at i:22960896 original size:13 final size:13
Alignment explanation
Indices: 22960878--22960903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22960868 TATTGCTATC
22960878 ATTATTATTATTA
1 ATTATTATTATTA
22960891 ATTATTATTATTA
1 ATTATTATTATTA
22960904 TTAATAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:22960899 original size:16 final size:16
Alignment explanation
Indices: 22960878--22960908 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22960868 TATTGCTATC
22960878 ATTATTATTATTAATT
1 ATTATTATTATTAATT
22960894 ATTATTATTATTAAT
1 ATTATTATTATTAAT
22960909 AATTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTATTATTAATT
Found at i:22964952 original size:3 final size:3
Alignment explanation
Indices: 22964944--22965007 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
22964934 ACCATTTAGC
22964944 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22964992 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
22965008 ATGTTCTATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22966657 original size:22 final size:22
Alignment explanation
Indices: 22966630--22966671 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
22966620 TTTTCATTTG
22966630 TTTTTATAAAAATTATTAAAGT
1 TTTTTATAAAAATTATTAAAGT
22966652 TTTTTATAAAAATTATTAAA
1 TTTTTATAAAAATTATTAAA
22966672 AGTCAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTATAAAAATTATTAAAGT
Found at i:22970266 original size:105 final size:106
Alignment explanation
Indices: 22970140--22970473 Score: 286
Period size: 105 Copynumber: 3.2 Consensus size: 106
22970130 ATTTGTTAAA
* * * * *
22970140 ATCTTATTTGAAAATGGCTCCCCTTAAATAGA-AGCTTTGAAATTTTTTTGAAAAATCTTATTTG
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGA-CTTTGAAAATCTTTTGAAAAATCTTATTTG
* * *** *
22970204 GAAACAACTCCCCCTAAATAGAGGTTTTGAAACTTT-AAAAG
65 AAAACAACTCCCCCTAAATAGAAGCACTAAAACTTTAAAAAG
* * * *
22970245 ATCTTGTTTAAAAATAGCTCCCCCTAAATAGAGATTTTGAAAATCTTTTGATAGATCTTATTTGA
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGACTTTGAAAATCTTTTGAAAAATCTTATTTGA
***
22970310 AAATGGCTCCCCCTAAATAGAAGCACTAAAACTTTAAAAAG
66 AAACAACTCCCCCTAAATAGAAGCACTAAAACTTTAAAAAG
* * * * * * *
22970351 ATCTTGTTTGAAAATTGCTCCCTCTAAAGAGAGGC-TTCAAAA-C-TTT-AAAGATCTTGTTTGA
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGACTTTGAAAATCTTTTGAAAAATCTTATTTGA
** * * ** * * *
22970412 AAATGACTCCCCTTAAATAGAGGCGTTGAAACTTT-AGAAT
66 AAACAACTCCCCCTAAATAGAAGCACTAAAACTTTAAAAAG
* *
22970452 ATTTTGCTTGAAAATAGCTCCC
1 ATCTTGTTTGAAAATAGCTCCC
22970474 TTAAACAGAG
Statistics
Matches: 189, Mismatches: 38, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
101 22 0.12
102 42 0.22
103 3 0.02
104 1 0.01
105 86 0.46
106 35 0.19
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (106 bp):
ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGACTTTGAAAATCTTTTGAAAAATCTTATTTGA
AAACAACTCCCCCTAAATAGAAGCACTAAAACTTTAAAAAG
Found at i:22970271 original size:51 final size:51
Alignment explanation
Indices: 22970140--22970565 Score: 335
Period size: 50 Copynumber: 8.3 Consensus size: 51
22970130 ATTTGTTAAA
* * * * *
22970140 ATCTTATTTGAAAATGGCTCCCCTTAAATAGAAGCTTTGAAATTTTTTTGAAAA-
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTTGAAA---CTTT-AAAAG
* * * * *
22970194 ATCTTATTTGGAAACAACTCCCCCTAAATAGAGGTTTTGAAACTTTAAAAG
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAG
* ** * *
22970245 ATCTTGTTTAAAAATAGCTCCCCCTAAATAGAGATTTTGAAAATCTTTTGATAG
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTTG-AAA-C-TTTAAAAG
* * * ** *
22970299 ATCTTATTTGAAAATGGCTCCCCCTAAATAGAAGCACTAAAACTTTAAAAAG
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTTGAAACTTT-AAAAG
* * * **
22970351 ATCTTGTTTGAAAATTGCTCCCTCTAAAGAGAGGCTTCAAAACTTT-AAAG
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAG
* * * *
22970401 ATCTTGTTTGAAAAT-GACTCCCCTTAAATAGAGGCGTTGAAACTTTAGAAT
1 ATCTTGTTTGAAAATAG-CTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAG
* * * * *
22970452 ATTTTGCTTGAAAATAGCT-CCCTTAAACAGAGG-TTTGGAAACTTTAGAA-
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTT-GAAACTTTAAAAG
* * * * *
22970501 ATCTTGTTTGAAAATGGCTTCTCCTAAACAAAGGCTTTG-AACTTTAAAAG
1 ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAG
* *
22970551 ATCTAGTTTGGAAAT
1 ATCTTGTTTGAAAAT
22970566 GCCTCATGAC
Statistics
Matches: 304, Mismatches: 56, Indels: 28
0.78 0.14 0.07
Matches are distributed among these distances:
49 28 0.09
50 96 0.32
51 59 0.19
52 46 0.15
53 4 0.01
54 71 0.23
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (51 bp):
ATCTTGTTTGAAAATAGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAG
Found at i:22970325 original size:54 final size:54
Alignment explanation
Indices: 22970093--22970433 Score: 226
Period size: 54 Copynumber: 6.4 Consensus size: 54
22970083 ATTTTTGTTC
* * * *
22970093 GAAAATAGCTCCTCCC-AAACAGAGACTTTGAAACTATATTTGTTAAA-ATCTTATTT
1 GAAAATAGCTCC-CCCTAAATAGAGATTTTGAAA--ATCTTT-TGAAAGATCTTATTT
* * * * * *
22970149 GAAAATGGCTCCCCTTAAATAGA-AGCTTTGAAATTTTTTTGAAAAATCTTATTT
1 GAAAATAGCTCCCCCTAAATAGAGA-TTTTGAAAATCTTTTGAAAGATCTTATTT
* * * * * *
22970203 GGAAACAACTCCCCCTAAATAGAGGTTTTG-AAA-C-TTTAAAAGATCTTGTTT
1 GAAAATAGCTCCCCCTAAATAGAGATTTTGAAAATCTTTTGAAAGATCTTATTT
* *
22970254 AAAAATAGCTCCCCCTAAATAGAGATTTTGAAAATCTTTTGATAGATCTTATTT
1 GAAAATAGCTCCCCCTAAATAGAGATTTTGAAAATCTTTTGAAAGATCTTATTT
* * ** *
22970308 GAAAATGGCTCCCCCTAAATAGAAGCA--CT-AAAA-CTTTAAAAAGATCTTGTTT
1 GAAAATAGCTCCCCCTAAATAG-AG-ATTTTGAAAATCTTTTGAAAGATCTTATTT
* * * ** * *
22970360 GAAAATTGCTCCCTCTAAAGAGAG-GCTTCAAAA-C-TTT-AAAGATCTTGTTT
1 GAAAATAGCTCCCCCTAAATAGAGATTTTGAAAATCTTTTGAAAGATCTTATTT
*
22970410 GAAAAT-GACTCCCCTTAAATAGAG
1 GAAAATAG-CTCCCCCTAAATAGAG
22970434 GCGTTGAAAC
Statistics
Matches: 231, Mismatches: 41, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
49 1 0.00
50 32 0.14
51 44 0.19
52 42 0.18
53 11 0.05
54 70 0.30
55 5 0.02
56 26 0.11
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (54 bp):
GAAAATAGCTCCCCCTAAATAGAGATTTTGAAAATCTTTTGAAAGATCTTATTT
Found at i:22970431 original size:102 final size:101
Alignment explanation
Indices: 22970210--22970516 Score: 312
Period size: 102 Copynumber: 3.0 Consensus size: 101
22970200 TTTGGAAACA
* *** * * * *
22970210 ACTCCCCCTAAATAGAGGTTTTGAAACTTTAAAAGATCTTGTTTAAAAATAGCTCCCCCTAAATA
1 ACTCCCCCTAAATAGAAGCACTAAAACTTTAAAAGATCTTGTTTGAAAATAGCTCCCTCTAAACA
* * *
22970275 GAGATTTTGAAAATCTTTTGATAGATCTTATTTGAAAATG
66 GAG-GTTTGAAAA-C-TTT-AAAGATCTTGTTTGAAAATG
* * *
22970315 GCTCCCCCTAAATAGAAGCACTAAAACTTTAAAAAGATCTTGTTTGAAAATTGCTCCCTCTAAAG
1 ACTCCCCCTAAATAGAAGCACTAAAACTTT-AAAAGATCTTGTTTGAAAATAGCTCCCTCTAAAC
* *
22970380 AGAGGCTTCAAAACTTTAAAGATCTTGTTTGAAAATG
65 AGAGGTTTGAAAACTTTAAAGATCTTGTTTGAAAATG
* * ** * * * * *
22970417 ACTCCCCTTAAATAGAGGCGTTGAAACTTTAGAATATTTTGCTTGAAAATAGCTCCCT-TAAACA
1 ACTCCCCCTAAATAGAAGCACTAAAACTTTAAAAGATCTTGTTTGAAAATAGCTCCCTCTAAACA
*
22970481 GAGGTTTGGAAACTTTAGAA-ATCTTGTTTGAAAATG
66 GAGGTTTGAAAACTTTA-AAGATCTTGTTTGAAAATG
22970517 GCTTCTCCTA
Statistics
Matches: 170, Mismatches: 30, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
100 35 0.21
101 25 0.15
102 42 0.25
103 3 0.02
104 1 0.01
105 30 0.18
106 34 0.20
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (101 bp):
ACTCCCCCTAAATAGAAGCACTAAAACTTTAAAAGATCTTGTTTGAAAATAGCTCCCTCTAAACA
GAGGTTTGAAAACTTTAAAGATCTTGTTTGAAAATG
Found at i:22971512 original size:13 final size:13
Alignment explanation
Indices: 22971496--22971526 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
22971486 TTCATTCATC
22971496 TTTTTTTTT-TTG
1 TTTTTTTTTGTTG
22971508 TTTTTTTTTGTTG
1 TTTTTTTTTGTTG
22971521 TTTTTT
1 TTTTTT
22971527 GTCTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTGTTG
Found at i:22971513 original size:10 final size:10
Alignment explanation
Indices: 22971498--22971534 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
22971488 CATTCATCTT
22971498 TTTTTTTTTG
1 TTTTTTTTTG
22971508 TTTTTTTTTG
1 TTTTTTTTTG
*
22971518 TTGTTTTTTG
1 TTTTTTTTTG
*
22971528 TCTTTTT
1 TTTTTTT
22971535 ATCAATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:22977658 original size:25 final size:25
Alignment explanation
Indices: 22977617--22977684 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
22977607 TGGCTACTCT
*
22977617 TAAAATCAAGGGATTACATAATTCC
1 TAAAATTAAGGGATTACATAATTCC
* *
22977642 TAGAATTAAGGGATTACATAATTTC
1 TAAAATTAAGGGATTACATAATTCC
*
22977667 TAAAATTAAAGGATTACA
1 TAAAATTAAGGGATTACA
22977685 CATTAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (25 bp):
TAAAATTAAGGGATTACATAATTCC
Found at i:22978475 original size:59 final size:58
Alignment explanation
Indices: 22978410--22978687 Score: 310
Period size: 58 Copynumber: 4.7 Consensus size: 58
22978400 TTGTGCAGGA
* * *
22978410 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTGAAACTTTATTTTCAAGG
* * * *
22978469 AAAATTGGTACTTTCAA-TTTTTCCCCAAAAACA-TTTTTAGAAACTTTTATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTT-CCCAAAAATATTTTTTTGAAAC-TTTATTTTCAAGG
* *
22978527 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAGAACTTTGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGA-AACTTT-ATTTTCAAGG
*** * * * *
22978586 AAAATTGATACTTTCAACTTTTCTTAAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAAC-TTT-TTCCCAAAAATA--TTTTTTTGAAACTTTATTTTCAAGG
22978648 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
22978688 TGCATTTTAT
Statistics
Matches: 187, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
57 10 0.05
58 59 0.32
59 57 0.30
60 11 0.06
61 10 0.05
62 27 0.14
63 5 0.03
64 8 0.04
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTATTTTCAAGG
Found at i:22978526 original size:58 final size:58
Alignment explanation
Indices: 22978410--22978686 Score: 297
Period size: 59 Copynumber: 4.7 Consensus size: 58
22978400 TTGTGCAGGA
** *
22978410 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTTGAAAC-TTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAACTTTTATTTTCGAGG
* * * *
22978469 AAAATTGGTACTTTCAATTTTTCCCCAAAAACATTTTTAGAAACTTTTATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTTATTTTCGAGG
* **
22978527 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAGAACTTTGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGA-AACTTTTATTTTCGAGG
*** * * ** *
22978586 AAAATTGATACTTTCAACTTTTCTTAAAAAAAAAACCTTTTTTTGAAA-ATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTC--CCCAAAAATA---TTTTTTGAAACTTTTATTTTCGAGG
*
22978648 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
22978687 TTGCATTTTA
Statistics
Matches: 185, Mismatches: 26, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
57 16 0.09
58 49 0.26
59 65 0.35
60 6 0.03
61 6 0.03
62 33 0.18
63 2 0.01
64 8 0.04
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTTATTTTCGAGG
Found at i:22978747 original size:34 final size:34
Alignment explanation
Indices: 22978709--22978777 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
22978699 TAAAGAAAAT
* * *
22978709 AAAATAATAAAA-CAAAATAAAAATGAGAAATAAA
1 AAAATAAAAAAAGCAAAACAAAAAT-AAAAATAAA
*
22978743 AAAATAAAAAAAGTAAAACAAAAATAAAAATAAA
1 AAAATAAAAAAAGCAAAACAAAAATAAAAATAAA
22978777 A
1 A
22978778 TAAAGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 20 0.67
35 10 0.33
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (34 bp):
AAAATAAAAAAAGCAAAACAAAAATAAAAATAAA
Found at i:22978748 original size:21 final size:20
Alignment explanation
Indices: 22978722--22978781 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
22978712 ATAATAAAAC
22978722 AAAATAAAAATGAGAAATAAA
1 AAAATAAAAAT-AGAAATAAA
* *
22978743 AAAATAAAAAAAGTAAA-ACA
1 AAAATAAAAATAG-AAATAAA
22978763 AAAATAAAAATA-AAATAAA
1 AAAATAAAAATAGAAATAAA
22978782 GTTAAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 15 0.45
21 13 0.39
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAATAAAAATAGAAATAAA
Found at i:22978764 original size:40 final size:39
Alignment explanation
Indices: 22978699--22978782 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 39
22978689 GCATTTTATT
*
22978699 TAAAGAAAATAAAATAATAAAAC-AAAATAAAAATGAGAAA
1 TAAAGAAAATAAAAAAATAAAACAAAAATAAAAAT-A-AAA
22978739 TAAA-AAAATAAAAAAAGTAAAACAAAAATAAAAATAAAA
1 TAAAGAAAATAAAAAAA-TAAAACAAAAATAAAAATAAAA
22978778 TAAAG
1 TAAAG
22978783 TTAAAAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
39 18 0.45
40 11 0.28
41 11 0.28
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.14
Consensus pattern (39 bp):
TAAAGAAAATAAAAAAATAAAACAAAAATAAAAATAAAA
Found at i:22978788 original size:11 final size:11
Alignment explanation
Indices: 22978704--22978781 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 11
22978694 TTATTTAAAG
22978704 AAAATAAAATAA
1 AAAATAAAAT-A
*
22978716 TAAAACAAAATA
1 -AAAATAAAATA
22978728 AAAATGAGAAATA
1 AAAAT-A-AAATA
22978741 AAAA-AATAA-A
1 AAAATAA-AATA
*
22978751 AAAAGTAAAACA
1 AAAA-TAAAATA
22978763 AAAATAAAA-A
1 AAAATAAAATA
22978773 TAAAATAAA
1 -AAAATAAA
22978782 GTTAAAAAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
10 7 0.12
11 22 0.39
12 9 0.16
13 18 0.32
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:22978819 original size:4 final size:4
Alignment explanation
Indices: 22978812--22978851 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
22978802 AACCTAATCT
22978812 AATA AATAA AATA AATA AATA AATA AATA AATA AATA AAT
1 AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AAT
22978852 TCAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:22979413 original size:10 final size:10
Alignment explanation
Indices: 22979400--22979424 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22979390 ATTCCAAGAA
22979400 AAAAATCTCC
1 AAAAATCTCC
22979410 AAAAATCTCC
1 AAAAATCTCC
22979420 AAAAA
1 AAAAA
22979425 ATTTCTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:22979948 original size:13 final size:12
Alignment explanation
Indices: 22979930--22979973 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
22979920 GATATAAAGG
22979930 AAAATATATACAT
1 AAAATATA-ACAT
*
22979943 AAAATATAAAAT
1 AAAATATAACAT
22979955 AAAA-ATAACA-
1 AAAATATAACAT
22979965 AAAATATAA
1 AAAATATAA
22979974 AACAAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.14
11 9 0.32
12 7 0.25
13 8 0.29
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATATAACAT
Found at i:22979958 original size:25 final size:25
Alignment explanation
Indices: 22979907--22979981 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
22979897 ATAAATAAAT
* ** **
22979907 AATAAATACATAGGATATAAAGGAA
1 AATATATACATAAAATATAAAACAA
*
22979932 AATATATACATAAAATATAAAATAA
1 AATATATACATAAAATATAAAACAA
22979957 AA-ATA-ACA-AAAATATAAAACAA
1 AATATATACATAAAATATAAAACAA
22979979 AAT
1 AAT
22979982 TGGGCTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
22 15 0.35
23 3 0.07
24 3 0.07
25 22 0.51
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (25 bp):
AATATATACATAAAATATAAAACAA
Found at i:22980148 original size:16 final size:15
Alignment explanation
Indices: 22980127--22980160 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22980117 AACATTTTCA
22980127 TTTTTTATTTTTTATT
1 TTTTTTATTTTTT-TT
*
22980143 TTTTTTGTTTTTTTT
1 TTTTTTATTTTTTTT
22980158 TTT
1 TTT
22980161 ACCAAAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (15 bp):
TTTTTTATTTTTTTT
Found at i:22980343 original size:42 final size:42
Alignment explanation
Indices: 22980188--22980548 Score: 518
Period size: 42 Copynumber: 8.6 Consensus size: 42
22980178 CAGAGGCTTA
* * * * * *
22980188 ACGACTTTGAGAAACATAAATGGCTCCTTTAATCAGAGGCTCA
1 ACGACTTTGAGAAA-GTAAATTGCTCCTCTAAACAGAGGCACC
* *
22980231 ACGACTTTG-GAAAATAAATTACTCCTCTAAACAGAGGCACC
1 ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
22980272 ACGACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACC
1 ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
22980313 ACGACTTTGAGAAAGTAAATTGCTCATCTAAACAGAGGCACC
1 ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
* *
22980355 ACGACTTTTGA-AAAGTAAATTACTCCTCTAAATAGAGGCACC
1 ACGAC-TTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
22980397 ACGACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACC
1 ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
22980438 ACGACTTTTGA-AAAGTAAATTGCTCCTCTAAACAAAGGCACC
1 ACGAC-TTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
22980480 ACGACTTTGAGAAAGTAAATTACTCCTCTAAACAGAGGCACC
1 ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
22980522 ATGACTTTTGA-AAAGTAAATTGCTCCT
1 ACGAC-TTTGAGAAAGTAAATTGCTCCT
22980549 TGACAATCAT
Statistics
Matches: 292, Mismatches: 19, Indels: 15
0.90 0.06 0.05
Matches are distributed among these distances:
41 113 0.39
42 160 0.55
43 19 0.07
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (42 bp):
ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
Found at i:22980359 original size:83 final size:83
Alignment explanation
Indices: 22980204--22980548 Score: 539
Period size: 83 Copynumber: 4.1 Consensus size: 83
22980194 TTGAGAAACA
* * * * * *
22980204 TAAATGGCTCCTTTAATCAGAGGCTCAACGACTTTGGAAAATAAATTACTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTACTCCTCTAAACAGAGGC
*
22980269 ACCACGAC-TTTGGAAAG
66 ACCACGACTTTTGAAAAG
* *
22980286 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCATCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATTACTCCTCTAAACAGAGG
22980351 CACCACGACTTTTGAAAAG
65 CACCACGACTTTTGAAAAG
* * *
22980370 TAAATTACTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTACTCCTCTAAACAGAGGC
22980435 ACCACGACTTTTGAAAAG
66 ACCACGACTTTTGAAAAG
*
22980453 TAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAGAAAGTAAATTACTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATTACTCCTCTAAACAGAGG
*
22980518 CACCATGACTTTTGAAAAG
65 CACCACGACTTTTGAAAAG
22980537 TAAATTGCTCCT
1 TAAATTGCTCCT
22980549 TGACAATCAT
Statistics
Matches: 243, Mismatches: 17, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
82 31 0.13
83 113 0.47
84 99 0.41
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (83 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTACTCCTCTAAACAGAGGC
ACCACGACTTTTGAAAAG
Found at i:22980394 original size:125 final size:125
Alignment explanation
Indices: 22980188--22980548 Score: 557
Period size: 125 Copynumber: 2.9 Consensus size: 125
22980178 CAGAGGCTTA
* * * * * * *
22980188 ACGACTTTGAGAAACATAAATGGCTCCTTTAATCAGAGGCTCAACGACTTTGGAAAA-TAAATTA
1 ACGACTTTGAGAAA-GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTA
22980252 CTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
65 CTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
22980313 ACGACTTTGAGAAAGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTAC
1 ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTAC
*
22980378 TCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
66 TCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
22980438 ACGACTTTTGA-AAAGTAAATTGCTCCTCTAAACAAAGGCACCACGAC-TTTGAGAAAGTAAATT
1 ACGAC-TTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGA-AAAGTAAATT
* *
22980501 ACTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATTGCTCCT
64 ACTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCT
22980549 TGACAATCAT
Statistics
Matches: 218, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
124 39 0.18
125 154 0.71
126 25 0.11
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (125 bp):
ACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTAC
TCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACC
Found at i:22985821 original size:59 final size:57
Alignment explanation
Indices: 22985758--22986207 Score: 578
Period size: 59 Copynumber: 7.7 Consensus size: 57
22985748 TTGTGCAAGC
* *
22985758 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAGAACTTTGATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGA-AAATTT-ATTTTTAAGG
* **
22985817 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTATTTTTAAGG
* * * * * *
22985876 AAAATTGATACTTTTAACTTTTTCTCAAAAACTCTCTTTTGAAAATTTATTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTA-TTTTTAAGG
* ** *
22985935 AAAATTGATACTTTCAACTTTTCCCTAAAAACCCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTATTTTTAAGG
*
22985993 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
* * * **
22986049 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTGGAAATTTTGATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTT-ATTTTTAAGG
*
22986107 AAAATTGATACTTTCAACTTTTCCTCCAAAAAAAACCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CC-AAAAATA---TTTTTTGAAAATTTATTTTTAAGG
22986169 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
22986208 TTGGATTTTA
Statistics
Matches: 347, Mismatches: 34, Indels: 22
0.86 0.08 0.05
Matches are distributed among these distances:
56 53 0.15
57 16 0.05
58 87 0.25
59 120 0.35
60 17 0.05
61 10 0.03
62 32 0.09
63 12 0.03
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
Found at i:22986143 original size:176 final size:174
Alignment explanation
Indices: 22985753--22986206 Score: 609
Period size: 176 Copynumber: 2.6 Consensus size: 174
22985743 TGTTTTTGTG
* * *
22985753 CAAGCAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAGAACTTTGATTTTTAAG
1 CAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAAACCTTTTTTGA-AAATTT-ATTTTTAAG
*
22985816 AAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCT-TTTTTGAAAATTTATTTTTAAGGAAAA
64 AAAAATTGATACTTTCAACTTTTCCCCAAAAA----TATTTTTGAAAATTTATTTTTAAGGAAAA
* * *
22985880 TTGATACTTTTAACTTTTTCTCAAAAACTCTCTTTTGAAAATTTATTTTT
125 TTGATACTTTCAACTTTTCCTCAAAAACTATCTTTTGAAAATTTATTTTT
* * *
22985930 TAAGAAAAATTGATACTTTCAACTTTT-CCCTAAAAACCCTTTTTTGAAAATTTATTTTTAAGAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGAA
*
22985994 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTGGAAATTTATTTTTAAGGAAAATTGATA
66 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTGAAAATTTATTTTTAAGGAAAATTGATA
*
22986059 CTTTCAACTTTTCC-CTAAAAA-TAT-TTTTGGAAATTT-TGATTTT
131 CTTTCAACTTTTCCTC-AAAAACTATCTTTTGAAAATTTAT--TTTT
* *
22986102 CGAGGAAAATTGATACTTTCAACTTTTCCTCCAAAAAAAACCTTTTTTTGAAAATTTATTTTTAA
1 CAAGAAAAATTGATACTTTCAACTTTTCC-CC-AAAAAAACC-TTTTTTGAAAATTTATTTTTAA
*
22986167 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT
63 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT
22986207 TTTGGATTTT
Statistics
Matches: 249, Mismatches: 18, Indels: 21
0.86 0.06 0.07
Matches are distributed among these distances:
170 1 0.00
171 11 0.04
172 32 0.13
173 50 0.20
174 2 0.01
175 7 0.03
176 108 0.43
177 30 0.12
178 8 0.03
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (174 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGAA
AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTGAAAATTTATTTTTAAGGAAAATTGATA
CTTTCAACTTTTCCTCAAAAACTATCTTTTGAAAATTTATTTTT
Found at i:22986251 original size:5 final size:5
Alignment explanation
Indices: 22986235--22986319 Score: 61
Period size: 6 Copynumber: 16.4 Consensus size: 5
22986225 AAAATAAACT
*
22986235 AATAA AACAA AATAAA AATGAGA AATAA AAT-A AAT-A AAT-A AAT-A
1 AATAA AATAA AAT-AA AAT-A-A AATAA AATAA AATAA AATAA AATAA
*
22986279 AATAA AAGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AA-TAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
22986320 AGAATATTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
4 16 0.24
5 22 0.32
6 26 0.38
7 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:22986271 original size:4 final size:4
Alignment explanation
Indices: 22986257--22986378 Score: 58
Period size: 4 Copynumber: 29.0 Consensus size: 4
22986247 TAAAAATGAG
22986257 AAAT AAAAT AAAT AAAT AAAT AAAT AAAAGT AAA- ACAA- AAAT -AA-
1 AAAT -AAAT AAAT AAAT AAAT AAAT -AAA-T AAAT A-AAT AAAT AAAT
* * *
22986301 AAAT AAAAT AAAGAT AAAA AGAAT -ATT AAAT AAACCT -AAT CTAAT AAAT
1 AAAT -AAAT -AA-AT AAAT A-AAT AAAT AAAT AAA--T AAAT -AAAT AAAT
*
22986350 AAAAT AAAT AAAT AAAC AAAT AAAT AAAT
1 -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
22986379 TCAAAAAAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 31
0.71 0.05 0.23
Matches are distributed among these distances:
3 10 0.11
4 51 0.54
5 30 0.32
6 4 0.04
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:22986276 original size:44 final size:44
Alignment explanation
Indices: 22986226--22986373 Score: 115
Period size: 44 Copynumber: 3.3 Consensus size: 44
22986216 TATTTAAAGA
* *
22986226 AAATAAACT-AATAAAA-CAAAATAAAAATGAGAAATAAAATAAAT
1 AAATAAA-TAAATAAAAGCAAAACAAAAAT-AAAAATAAAATAAAT
* *
22986270 AAATAAATAAATAAAAGTAAAACAAAAATAAAAATAAAATAAAG
1 AAATAAATAAATAAAAGCAAAACAAAAATAAAAATAAAATAAAT
* * * * * **
22986314 ATAA-AAAGAATATTAAA-TAAACCTAATCTAATAAATAAAATAAAT
1 A-AATAAATAA-ATAAAAGCAAAACAAAAATAA-AAATAAAATAAAT
*
22986359 AAATAAACAAATAAA
1 AAATAAATAAATAAA
22986374 TAAATTCAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 49 0.58
45 35 0.41
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (44 bp):
AAATAAATAAATAAAAGCAAAACAAAAATAAAAATAAAATAAAT
Found at i:22986279 original size:17 final size:17
Alignment explanation
Indices: 22986257--22986378 Score: 64
Period size: 17 Copynumber: 7.2 Consensus size: 17
22986247 TAAAAATGAG
22986257 AAATAAA-ATAAATAAAT
1 AAATAAATA-AAATAAAT
22986274 AAATAAATAAAAGTAAA-
1 AAATAAATAAAA-TAAAT
22986291 ACAA-AAATAAAAATAAA-
1 A-AATAAAT-AAAATAAAT
*
22986308 ATAA-AGATAAAA-AGAAT
1 A-AATAAATAAAATA-AAT
* *
22986325 -ATTAAATAAACCT-AAT
1 AAATAAATAAA-ATAAAT
*
22986341 CTAATAAATAAAATAAAT
1 -AAATAAATAAAATAAAT
*
22986359 AAATAAA-CAAATAAAT
1 AAATAAATAAAATAAAT
22986375 AAAT
1 AAAT
22986379 TCAAAAAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.02
16 27 0.32
17 32 0.38
18 23 0.27
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATAAATAAAATAAAT
Found at i:22986317 original size:11 final size:11
Alignment explanation
Indices: 22986238--22986319 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 11
22986228 ATAAACTAAT
*
22986238 AAAACAAAATA
1 AAAATAAAATA
22986249 AAAATGAGAAATA
1 AAAAT-A-AAATA
*
22986262 AAATAAATAAATAA
1 AAA-ATA-AAAT-A
22986276 ATAAATAAAAGTA
1 A-AAATAAAA-TA
22986289 AAACA-AAAATA
1 AAA-ATAAAATA
22986300 AAAATAAAATA
1 AAAATAAAATA
*
22986311 AAGATAAAA
1 AAAATAAAA
22986320 AGAATATTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
10 1 0.02
11 23 0.40
12 7 0.12
13 19 0.33
14 6 0.10
15 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:22986331 original size:50 final size:50
Alignment explanation
Indices: 22986237--22986334 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
22986227 AATAAACTAA
*
22986237 TAAAACAAAATAAAAATGAGAAATAAAATAAATAAATAAATAAATAAAAG
1 TAAAACAAAATAAAAATGAGAAATAAAATAAAAAAATAAATAAATAAAAG
*
22986287 TAAAACAAAAATAAAAAT-A-AAATAAAGATAAAAAGAAT-ATTAAATAAA
1 TAAAAC-AAAATAAAAATGAGAAATAAA-ATAAAAA-AATAAATAAATAAA
22986335 CCTAATCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
49 7 0.16
50 22 0.51
51 14 0.33
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.18
Consensus pattern (50 bp):
TAAAACAAAATAAAAATGAGAAATAAAATAAAAAAATAAATAAATAAAAG
Found at i:22987364 original size:21 final size:22
Alignment explanation
Indices: 22987320--22987365 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
22987310 AAAAAATAAC
* *
22987320 AAATAACAAATAAATATGAGAT
1 AAATAACAAATAAATATAAAAT
*
22987342 AAATAA-AAATACATATAAAAT
1 AAATAACAAATAAATATAAAAT
22987363 AAA
1 AAA
22987366 ATGAAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAACAAATAAATATAAAAT
Found at i:22987466 original size:13 final size:12
Alignment explanation
Indices: 22987448--22987491 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
22987438 GATATAAAGG
22987448 AAAATATATACAT
1 AAAATATA-ACAT
*
22987461 AAAATATAAAAT
1 AAAATATAACAT
22987473 AAAA-ATAACA-
1 AAAATATAACAT
22987483 AAAATATAA
1 AAAATATAA
22987492 AACAAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.14
11 9 0.32
12 7 0.25
13 8 0.29
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATATAACAT
Found at i:22987476 original size:25 final size:25
Alignment explanation
Indices: 22987425--22987499 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
22987415 ATAAATAAAT
* ** **
22987425 AATAAATACATAGGATATAAAGGAA
1 AATATATACATAAAATATAAAACAA
*
22987450 AATATATACATAAAATATAAAATAA
1 AATATATACATAAAATATAAAACAA
22987475 AA-ATA-ACA-AAAATATAAAACAA
1 AATATATACATAAAATATAAAACAA
22987497 AAT
1 AAT
22987500 TGGGCTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
22 15 0.35
23 3 0.07
24 3 0.07
25 22 0.51
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (25 bp):
AATATATACATAAAATATAAAACAA
Found at i:22992045 original size:3 final size:3
Alignment explanation
Indices: 22992039--22992073 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22992029 ATTATTATTA
22992039 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
22992074 ATTATTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:22999400 original size:21 final size:21
Alignment explanation
Indices: 22999354--22999399 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22999344 TTTTTCTTCA
* *
22999354 AAAACCAACCAAACAAACATT
1 AAAATCAACCAAACAAACACT
*
22999375 AAAATCAACCAAACAACCTACT
1 AAAATCAACCAAACAAAC-ACT
22999397 AAA
1 AAA
22999400 TTATTCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.28, G:0.00, T:0.11
Consensus pattern (21 bp):
AAAATCAACCAAACAAACACT
Found at i:23001754 original size:25 final size:25
Alignment explanation
Indices: 23001726--23001780 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
23001716 AATATATAAC
23001726 AAATGACACAATTAAAATATGAATG
1 AAATGACACAATTAAAATATGAATG
* * *
23001751 AAATAACATAATTAAAATATGCATG
1 AAATGACACAATTAAAATATGAATG
23001776 AAATG
1 AAATG
23001781 TAAAACACGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.25
Consensus pattern (25 bp):
AAATGACACAATTAAAATATGAATG
Found at i:23001919 original size:19 final size:18
Alignment explanation
Indices: 23001877--23001920 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23001867 TAAATTTAAA
23001877 ACTTTTTTTCATAATTTC
1 ACTTTTTTTCATAATTTC
*
23001895 AATTTTTTTC-TCAATTTC
1 ACTTTTTTTCAT-AATTTC
23001913 TACTTTTT
1 -ACTTTTT
23001921 AAGAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (18 bp):
ACTTTTTTTCATAATTTC
Found at i:23003257 original size:12 final size:12
Alignment explanation
Indices: 23003242--23003287 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
23003232 CACCAAGGAT
23003242 TTTTTTTCTTTC
1 TTTTTTTCTTTC
23003254 TTTTTTTCTTTC
1 TTTTTTTCTTTC
* *
23003266 ATGATTTTTCTTCC
1 -T-TTTTTTCTTTC
23003280 TTTTTTTC
1 TTTTTTTC
23003288 CTCCCCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 18 0.62
13 2 0.07
14 9 0.31
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:23003322 original size:11 final size:11
Alignment explanation
Indices: 23003308--23003337 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23003298 TTTCCCACAA
23003308 TTTTTTTTCCT
1 TTTTTTTTCCT
*
23003319 TTTTTTCTCCT
1 TTTTTTTTCCT
23003330 TTTTTTTT
1 TTTTTTTT
23003338 TGTTTCTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCCT
Found at i:23006213 original size:30 final size:30
Alignment explanation
Indices: 23006177--23006237 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
23006167 TGACAGTACC
*
23006177 ATTAAGATGTAAATGAAATGGAATGCATGT
1 ATTAAGATGTAAATGAAATAGAATGCATGT
***
23006207 ATTAAGATGTGTGTGAAATAGAATGCATGT
1 ATTAAGATGTAAATGAAATAGAATGCATGT
23006237 A
1 A
23006238 CTATTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (30 bp):
ATTAAGATGTAAATGAAATAGAATGCATGT
Found at i:23006354 original size:38 final size:37
Alignment explanation
Indices: 23006206--23006361 Score: 136
Period size: 38 Copynumber: 4.1 Consensus size: 37
23006196 GGAATGCATG
** *
23006206 TATTAAGATGTGTGTGAAATAGAATGCATGTACTATT
1 TATTAAGATGTGCATGAGATAGAATGCATGTACTATT
* * * * *
23006243 TATTAAGATATGCAGGAGATGGAATGCATTTATTATTT
1 TATTAAGATGTGCATGAGATAGAATGCATGTACTA-TT
* *
23006281 TATTAAGATGTGCCAAG-GATA-AAGTGCATGCACTATCT
1 TATTAAGATGTG-CATGAGATAGAA-TGCATGTACTAT-T
* * *
23006319 TATTAAGATGTGCATGAGATGGAGTGTATGTACTATGT
1 TATTAAGATGTGCATGAGATAGAATGCATGTACTAT-T
23006357 TATTA
1 TATTA
23006362 TTTTCACCTT
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
37 33 0.35
38 56 0.60
39 4 0.04
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (37 bp):
TATTAAGATGTGCATGAGATAGAATGCATGTACTATT
Found at i:23006583 original size:20 final size:20
Alignment explanation
Indices: 23006560--23006603 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23006550 AAAAAATTTA
*
23006560 TTTTTGT-TTTTATTT-TGGT
1 TTTTTGTGTGTTATTTAT-GT
23006579 TTTTTGTGTGTTATTTATGT
1 TTTTTGTGTGTTATTTATGT
23006599 TTTTT
1 TTTTT
23006604 TTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 14 0.64
21 1 0.05
ACGTcount: A:0.07, C:0.00, G:0.16, T:0.77
Consensus pattern (20 bp):
TTTTTGTGTGTTATTTATGT
Found at i:23007354 original size:18 final size:17
Alignment explanation
Indices: 23007315--23007357 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23007305 TTTTTTTTAA
*
23007315 ATTTTTAAAAATTGTTT
1 ATTTTTAAAAATTGTTC
23007332 ATTTTTAAAAAGTT-TTC
1 ATTTTTAAAAA-TTGTTC
23007349 ACTTTTTAA
1 A-TTTTTAA
23007358 GAAAACGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTTTTAAAAATTGTTC
Found at i:23007422 original size:19 final size:22
Alignment explanation
Indices: 23007390--23007442 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
23007380 TGGAATTAAG
23007390 ATTAAA-CAATAA-TTAGGA-A
1 ATTAAACCAATAATTTAGGATA
23007409 ATTAAACCAA-AATTTAGGATA
1 ATTAAACCAATAATTTAGGATA
23007430 ATATACAACCAAT
1 AT-TA-AACCAAT
23007443 CTTTTGCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 3 0.11
22 2 0.07
23 6 0.21
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (22 bp):
ATTAAACCAATAATTTAGGATA
Found at i:23007921 original size:24 final size:24
Alignment explanation
Indices: 23007889--23007940 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
23007879 TTTTTAATTT
* *
23007889 TTTTTTTAAAGCAAATCATTTTAA
1 TTTTTTTAAAGCAAAACAATTTAA
23007913 TTTTTTTAAAGCAAAACAATTTAA
1 TTTTTTTAAAGCAAAACAATTTAA
23007937 TTTT
1 TTTT
23007941 GGATTAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (24 bp):
TTTTTTTAAAGCAAAACAATTTAA
Found at i:23008387 original size:18 final size:18
Alignment explanation
Indices: 23008350--23008391 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23008340 TATGGTTTGG
*
23008350 GGGTTAGTTCAAGGTTTA
1 GGGTTAGTTCAAGGTCTA
* *
23008368 GGGTTAGTTTAGGGTCTA
1 GGGTTAGTTCAAGGTCTA
23008386 -GGTTAG
1 GGGTTAG
23008392 GGTTTAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (18 bp):
GGGTTAGTTCAAGGTCTA
Found at i:23008431 original size:7 final size:7
Alignment explanation
Indices: 23008362--23008502 Score: 88
Period size: 7 Copynumber: 21.7 Consensus size: 7
23008352 GTTAGTTCAA
23008362 GGTTTAG
1 GGTTTAG
23008369 GG-TTA-
1 GGTTTAG
23008374 -GTTTAG
1 GGTTTAG
*
23008380 GGTCTA-
1 GGTTTAG
23008386 GG-TTAG
1 GGTTTAG
23008392 GGTTTA-
1 GGTTTAG
* *
23008398 AGTTTAA
1 GGTTTAG
*
23008405 GGTTTTG
1 GGTTTAG
* * *
23008412 GATTAAA
1 GGTTTAG
23008419 GGTTTAG
1 GGTTTAG
23008426 GGTTTA-
1 GGTTTAG
*
23008432 GGTTTAC
1 GGTTTAG
23008439 GGTTT-G
1 GGTTTAG
23008445 GGTTTAG
1 GGTTTAG
*
23008452 GGTATA-
1 GGTTTAG
*
23008458 GGTTTAT
1 GGTTTAG
23008465 GGTTT-G
1 GGTTTAG
* *
23008471 GATTTAA
1 GGTTTAG
*
23008478 GGTTTAA
1 GGTTTAG
23008485 GGTTTA-
1 GGTTTAG
23008491 GGTTTAG
1 GGTTTAG
23008498 GGTTT
1 GGTTT
23008503 GAGATTTGGG
Statistics
Matches: 103, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
4 1 0.01
5 5 0.05
6 38 0.37
7 59 0.57
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:23008434 original size:13 final size:13
Alignment explanation
Indices: 23008361--23008515 Score: 101
Period size: 13 Copynumber: 12.0 Consensus size: 13
23008351 GGTTAGTTCA
23008361 AGGTTTAGGG-TT
1 AGGTTTAGGGTTT
*
23008373 A-GTTTAGGGTCT
1 AGGTTTAGGGTTT
23008385 AGG-TTAGGGTTT
1 AGGTTTAGGGTTT
* *
23008397 AAGTTTAAGGTTT
1 AGGTTTAGGGTTT
* * *
23008410 TGGATTAAAGGTTT
1 AGG-TTTAGGGTTT
23008424 AGGGTTTA-GGTTT
1 A-GGTTTAGGGTTT
23008437 ACGGTTT-GGGTTT
1 A-GGTTTAGGGTTT
*
23008450 AGGGTATA-GGTTT
1 A-GGTTTAGGGTTT
*
23008463 ATGGTTT-GGATTT
1 A-GGTTTAGGGTTT
*
23008476 AAGGTTTAAGGTTT
1 -AGGTTTAGGGTTT
23008490 AGGTTTAGGGTTT
1 AGGTTTAGGGTTT
*
23008503 GAGATTT-GGGTTT
1 -AGGTTTAGGGTTT
23008516 CGATTTTGTA
Statistics
Matches: 113, Mismatches: 19, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
11 8 0.07
12 13 0.12
13 68 0.60
14 22 0.19
15 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (13 bp):
AGGTTTAGGGTTT
Done.