Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 65 of 93
Found at i:24740267 original size:38 final size:38
Alignment explanation
Indices: 24740214--24740288 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
24740204 TCAGATTCTT
* *
24740214 CTCTTCTTTTTCCTAGAATTTATAAGGGAAATCTGATA
1 CTCTTCTCTTCCCTAGAATTTATAAGGGAAATCTGATA
* * *
24740252 CTCTTCTCTTCCCTAGAATTTGTAATGGAAATTTGAT
1 CTCTTCTCTTCCCTAGAATTTATAAGGGAAATCTGAT
24740289 GATGCTGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (38 bp):
CTCTTCTCTTCCCTAGAATTTATAAGGGAAATCTGATA
Found at i:24741993 original size:28 final size:28
Alignment explanation
Indices: 24741962--24742103 Score: 176
Period size: 29 Copynumber: 4.9 Consensus size: 28
24741952 AAATATTTTA
* *
24741962 TCTTGTCTAAATTGAGACAAATATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* * *
24741990 TCTTGACTAAATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACAT-GTTT
* **
24742020 TCTTGTCTTAAATTAAGGCAAACATAATT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
24742049 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
24742078 TCTTGTCTAAATTAAGACAAACATGT
1 TCTTGTCTAAATTAAGACAAACATGT
24742104 CAAAGCTGCC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 34 0.35
29 40 0.41
30 14 0.14
31 10 0.10
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:24742032 original size:59 final size:58
Alignment explanation
Indices: 24741939--24742103 Score: 215
Period size: 59 Copynumber: 2.8 Consensus size: 58
24741929 TCTTGTATGT
* *
24741939 AATTAAGACAAAAAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGACTA
1 AATTAAGAC-AAAAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTTGACTA
* ** *
24741999 AATTAAGACAAAAAATATTTTTCTTGTCTTAAATTAAGGCAAACATAATTTCTTGTCTA
1 AATTAAGACAAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTTTCTTGACTA
* * *
24742058 AATTAAGACCAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATGT
1 AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGT
24742104 CAAAGCTGCC
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 16 0.17
58 17 0.18
59 50 0.54
60 9 0.10
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (58 bp):
AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGACTA
Found at i:24747447 original size:17 final size:17
Alignment explanation
Indices: 24747380--24747456 Score: 55
Period size: 17 Copynumber: 4.3 Consensus size: 17
24747370 TTTTTTTTCT
* *
24747380 TTTTTTTAATTCATTTA
1 TTTTTTTATTTTATTTA
* ** *
24747397 TTTATTTGGTTTAGTTA
1 TTTTTTTATTTTATTTA
*
24747414 TTATATTTCATTATTATTTA
1 TT-T-TTTTATT-TTATTTA
24747434 TTTTTTTATTTTATTTTA
1 TTTTTTTATTTTA-TTTA
24747452 TTTTT
1 TTTTT
24747457 GAAATAGGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
17 17 0.38
18 16 0.36
19 4 0.09
20 8 0.18
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTTTTTATTTTATTTA
Found at i:24747841 original size:59 final size:58
Alignment explanation
Indices: 24747756--24748530 Score: 872
Period size: 59 Copynumber: 13.2 Consensus size: 58
24747746 AAAATTGGAA
* * *
24747756 TTGACAAATTGAAATTTCTAGACTTGATCTAGGCTCGACCTATCTCACAATAGGTTCGAT
1 TTGA-AAATTGAAA-TTCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
* * * * * * *
24747816 TTAAAAATTAAAATTCATAAACTTGACCTAGGCTCGATCTATTTTAGAACATGTTCGATT
1 TTGAAAATTGAAATTC-TAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGA-T
* *
24747876 TTGAAAATTGAATTTCCTAGACTTGATCTAGGCTCGACCTATTTTAGAACAGGTTCGAT
1 TTGAAAATTGAAATT-CTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
* *
24747935 TTGAAAATTGAAATTCCT-GAACTTGATCTAGGCTCGACCTATTTTTA-AACAGGTTTGAT
1 TTGAAAATTGAAATT-CTAG-ACTTGATCTAGGCTCGACCTA-TCTTAGAACAGGTTCGAT
* *
24747994 TTCGAAAAATTGAATTTTCTAGACTTGATCTAGGCTCGACCTATCTTAGAATAGGTTCGAT
1 TT-G-AAAATTGAA-ATTCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
* * * *
24748055 TTGAAAATTGAAATTCCTAAACTTGATCTAGGCTTGACCTATCTTAGGACAGGTTAGAT
1 TTGAAAATTGAAATT-CTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
*
24748114 TT-AAAACTTGAAATTGCTAGACTTGATCTAGGCTCGACCTATCTTAGAATAGGTTCGAT
1 TTGAAAA-TTGAAATT-CTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
* ** *
24748173 TTGAAAATTGAAATTCTTAGACTTGATCTGGGCTCGACCTATCTTAGAACAATTTAGAT
1 TTGAAAATTGAAATTC-TAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
* ** *
24748232 TT-AAAACTTGAAATTTCTAAACTTGATCTAGGCTCGACCTATCTTTTAATAGGTTCGAT
1 TTGAAAA-TTGAAA-TTCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
*
24748291 TTGAAAATTGAAATTCCTAGACTTGATCTAGGCTCGACCTATCTTAGGACAGGTTCGAT
1 TTGAAAATTGAAATT-CTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
* * *
24748350 TTGAAACTTGAAATTCTTAGACATGATCTAGGCTCGACTTATCTTAGAACAGGTTC---
1 TTGAAAATTGAAATTC-TAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
* * *
24748406 -----AATTGAAATTCTTAGACTTAATCTAGGCTCGACCTATCTTAAAACAGGTTTGATT
1 TTGAAAATTGAAATTC-TAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGA-T
* * * * * **
24748461 TTGAAAATTGAAGTTTCTAGACTTAATCTAGGTTCGACCTATCTCAAAACAAATTCGAT
1 TTGAAAATTGAA-ATTCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
*
24748520 TTAAAAATTGA
1 TTGAAAATTGA
24748531 TGCCAACTTA
Statistics
Matches: 616, Mismatches: 70, Indels: 59
0.83 0.09 0.08
Matches are distributed among these distances:
51 45 0.07
58 18 0.03
59 384 0.62
60 118 0.19
61 48 0.08
62 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (58 bp):
TTGAAAATTGAAATTCTAGACTTGATCTAGGCTCGACCTATCTTAGAACAGGTTCGAT
Found at i:24748433 original size:51 final size:51
Alignment explanation
Indices: 24748357--24748455 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
24748347 GATTTGAAAC
* * *
24748357 TTGAAATTCTTAGACATGATCTAGGCTCGACTTATCTTAGAACAGGTTCAA
1 TTGAAATTCTTAGACATAATCTAGGCTCGACCTATCTTAAAACAGGTTCAA
*
24748408 TTGAAATTCTTAGACTTAATCTAGGCTCGACCTATCTTAAAACAGGTT
1 TTGAAATTCTTAGACATAATCTAGGCTCGACCTATCTTAAAACAGGTT
24748456 TGATTTTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (51 bp):
TTGAAATTCTTAGACATAATCTAGGCTCGACCTATCTTAAAACAGGTTCAA
Found at i:24748521 original size:60 final size:59
Alignment explanation
Indices: 24748418--24748530 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 59
24748408 TTGAAATTCT
* ** * *
24748418 TAGACTTAATCTAGGCTCGACCTATCTTAAAACAGGTTTGATTTTGAAAATTGAAGTTTC
1 TAGACTTAATCTAGGCTCGACCTATCTCAAAACAAATTCGA-TTTAAAAATTGAAGTTTC
*
24748478 TAGACTTAATCTAGGTTCGACCTATCTCAAAACAAATTCGATTTAAAAATTGA
1 TAGACTTAATCTAGGCTCGACCTATCTCAAAACAAATTCGATTTAAAAATTGA
24748531 TGCCAACTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 11 0.23
60 36 0.77
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (59 bp):
TAGACTTAATCTAGGCTCGACCTATCTCAAAACAAATTCGATTTAAAAATTGAAGTTTC
Found at i:24762229 original size:13 final size:13
Alignment explanation
Indices: 24762211--24762235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24762201 TTTCAAAAAA
24762211 TTTATAAAATCAT
1 TTTATAAAATCAT
24762224 TTTATAAAATCA
1 TTTATAAAATCA
24762236 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:24766959 original size:36 final size:36
Alignment explanation
Indices: 24766878--24766959 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
24766868 GCAAAATCTG
*
24766878 AATCTTATCCCCTTAAACCAGCGGCAGCAAGACCCA
1 AATCTTATCCCCCTAAACCAGCGGCAGCAAGACCCA
* *
24766914 AATCCTATCCCCCTAAATC-GACGGCAGCAAGACCCA
1 AATCTTATCCCCCTAAACCAG-CGGCAGCAAGACCCA
**
24766950 TCTCTTATCC
1 AATCTTATCC
24766960 TCTCTAACTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.30, C:0.38, G:0.12, T:0.20
Consensus pattern (36 bp):
AATCTTATCCCCCTAAACCAGCGGCAGCAAGACCCA
Found at i:24767574 original size:21 final size:21
Alignment explanation
Indices: 24767550--24767593 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
24767540 CCTTCCTCTC
*
24767550 TTTTTTCTTTTTTTTATT-TA
1 TTTTTTCGTTTTTTTATTATA
*
24767570 TTTTTTGGTTTTTTTATTATA
1 TTTTTTCGTTTTTTTATTATA
24767591 TTT
1 TTT
24767594 CATTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (21 bp):
TTTTTTCGTTTTTTTATTATA
Found at i:24767652 original size:71 final size:71
Alignment explanation
Indices: 24767538--24767677 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
24767528 TTTTTTTCAA
24767538 TTCCTTCCTCTCTTTTTTCTTTTTTTTATTTATTTTTTGGTTTTTTTA-TTATATTTCATTATTA
1 TTCCTTCCTCTCTTTTTTCTTTTTTTTATTTATTTTTTGGTTTTTTTATTTATATTTCATTATTA
24767602 TTTANCC
66 TTTA-CC
*
24767609 TTCCTTCTTCT-TTTTTTCTTTTTTTTATTTTATTTTTTGGTTTTTTTATTTATATTTCATTATT
1 TTCCTTCCTCTCTTTTTTCTTTTTTTTA-TTTATTTTTTGGTTTTTTTATTTATATTTCATTATT
24767673 ATTTA
65 ATTTA
24767678 TTTTTTATTT
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
70 16 0.24
71 30 0.45
72 20 0.30
ACGTcount: A:0.13, C:0.11, G:0.03, T:0.72
Consensus pattern (71 bp):
TTCCTTCCTCTCTTTTTTCTTTTTTTTATTTATTTTTTGGTTTTTTTATTTATATTTCATTATTA
TTTACC
Found at i:24767676 original size:17 final size:16
Alignment explanation
Indices: 24767652--24767691 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
24767642 TTTTTGGTTT
24767652 TTTTATTTATATTTCA
1 TTTTATTTATATTTCA
* *
24767668 TTATTATTTATTTTTTA
1 TT-TTATTTATATTTCA
24767685 TTTTATT
1 TTTTATT
24767692 ATTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTATATTTCA
Found at i:24767684 original size:7 final size:7
Alignment explanation
Indices: 24767620--24767698 Score: 54
Period size: 7 Copynumber: 10.9 Consensus size: 7
24767610 TCCTTCTTCT
*
24767620 TTTTTTC
1 TTTTTTA
24767627 TTTTTT-
1 TTTTTTA
24767633 TTATTTTA
1 TT-TTTTA
*
24767641 TTTTTTGG
1 TTTTTT-A
24767649 TTTTTT-
1 TTTTTTA
*
24767655 TATTTATA
1 T-TTTTTA
*
24767663 TTTCATTA
1 TTT-TTTA
*
24767671 TTATTTA
1 TTTTTTA
24767678 TTTTTTA
1 TTTTTTA
24767685 TTTTATTA
1 TTTT-TTA
24767693 TTTTTT
1 TTTTTT
24767699 TTTGAAATAG
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
6 3 0.05
7 35 0.60
8 20 0.34
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:24769006 original size:21 final size:21
Alignment explanation
Indices: 24768980--24769019 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24768970 CATGTGTACC
24768980 TTGTCTAAATTAAGACAACTT
1 TTGTCTAAATTAAGACAACTT
*
24769001 TTGTCTTAATTAAGACAAC
1 TTGTCTAAATTAAGACAAC
24769020 ATCCAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
TTGTCTAAATTAAGACAACTT
Found at i:24771366 original size:37 final size:37
Alignment explanation
Indices: 24771314--24771459 Score: 197
Period size: 37 Copynumber: 3.9 Consensus size: 37
24771304 TAATGTTGTG
*
24771314 TGATGATGTTTAAGTGTGCGAGTAAGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACACA
* * *
24771351 TGGTGATCTTGAAGTGTACGAGT-AGAGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAAG-GAGTGCACACA
*
24771388 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAAGGAGTGCACACA
* *
24771425 TGATGATGTTGAAGTGTCCGAGTAGGGAGTGCACA
1 TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACA
24771460 TGACGATGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
36 3 0.03
37 91 0.95
38 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACACA
Found at i:24771437 original size:74 final size:74
Alignment explanation
Indices: 24771314--24771459 Score: 231
Period size: 74 Copynumber: 2.0 Consensus size: 74
24771304 TAATGTTGTG
*
24771314 TGATGATGTTTAAGTGTGCGAGTAAGGAGTGCACACATGGTGATCTTGAAGTGTACGAGTAGAGA
1 TGATGATGTTTAAGTGTGCGAGTAAGGAGTGCACACATGATGATCTTGAAGTGTACGAGTAGAGA
24771379 GTGCACACA
66 GTGCACACA
* * * *
24771388 TGATGATG-TTAGAGTGTGCGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTCCGAGTAGGG
1 TGATGATGTTTA-AGTGTGCGAGTAAGGAGTGCACACATGATGATCTTGAAGTGTACGAGTAGAG
24771452 AGTGCACA
65 AGTGCACA
24771460 TGACGATGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 3 0.05
74 63 0.95
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (74 bp):
TGATGATGTTTAAGTGTGCGAGTAAGGAGTGCACACATGATGATCTTGAAGTGTACGAGTAGAGA
GTGCACACA
Found at i:24776972 original size:35 final size:34
Alignment explanation
Indices: 24776903--24776972 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
24776893 TTCCACCAAG
* *
24776903 CTTTACAATGGCTTTTACCAAGCTCAGCCAAAAC
1 CTTTACAATGGCTTTTACCAAGATCAACCAAAAC
* *
24776937 CTTTCACAATGGTTTTTACCAAGATCAACCGAAAC
1 CTTT-ACAATGGCTTTTACCAAGATCAACCAAAAC
24776972 C
1 C
24776973 CAACAACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (34 bp):
CTTTACAATGGCTTTTACCAAGATCAACCAAAAC
Found at i:24777518 original size:73 final size:74
Alignment explanation
Indices: 24777437--24777615 Score: 213
Period size: 73 Copynumber: 2.5 Consensus size: 74
24777427 TTTTCTGATC
* * * *
24777437 CCAG-TTTCTGGCAGTGAG-CACTTAGTCGACTAATTTCCTTCTTAATCGATTAAGTTGTTTCTA
1 CCAGATTTCTGGCAGTGAGACTCTTAGTCGACTAATTTACTTCTTAATCAATTAAGTTGATTCTA
24777500 TCTTAAAGT
66 TCTTAAAGT
* * * * ** *
24777509 CTAGATTTCTAGCAGT-AGACTCTTTGTCAACTAATTTACTTCTTGGTCAATTAAGTTGATTCTG
1 CCAGATTTCTGGCAGTGAGACTCTTAGTCGACTAATTTACTTCTTAATCAATTAAGTTGATTCTA
*
24777573 TCTTGAAGT
66 TCTTAAAGT
*
24777582 CCAGATTTTTGGCAGTG-GACTCTTAGTCGACTAA
1 CCAGATTTCTGGCAGTGAGACTCTTAGTCGACTAA
24777616 CTCATTTCTT
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
72 5 0.06
73 82 0.94
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (74 bp):
CCAGATTTCTGGCAGTGAGACTCTTAGTCGACTAATTTACTTCTTAATCAATTAAGTTGATTCTA
TCTTAAAGT
Found at i:24777637 original size:73 final size:73
Alignment explanation
Indices: 24777482--24777637 Score: 186
Period size: 73 Copynumber: 2.1 Consensus size: 73
24777472 TCCTTCTTAA
* * * * *
24777482 TCGATTAAGTTGTTTCTATCTTAAAGTCTAGATTTCTAGCAGTAGACTCTTTGTCAACTAATTTA
1 TCGATTAAGTTGATTCTATCTTAAAGTCCAGATTTCTAGCAGTAGACTCTTAGTCAACTAACTCA
24777547 CTTCTTGG
66 CTTCTTGG
* * * * * * *
24777555 TCAATTAAGTTGATTCTGTCTTGAAGTCCAGATTTTTGGCAGTGGACTCTTAGTCGACTAACTCA
1 TCGATTAAGTTGATTCTATCTTAAAGTCCAGATTTCTAGCAGTAGACTCTTAGTCAACTAACTCA
*
24777620 TTTCTTGG
66 CTTCTTGG
*
24777628 TCGACTAAGT
1 TCGATTAAGT
24777638 CTTTTCTGTT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (73 bp):
TCGATTAAGTTGATTCTATCTTAAAGTCCAGATTTCTAGCAGTAGACTCTTAGTCAACTAACTCA
CTTCTTGG
Found at i:24778009 original size:17 final size:17
Alignment explanation
Indices: 24777987--24778056 Score: 113
Period size: 17 Copynumber: 4.1 Consensus size: 17
24777977 ATGAGGATTT
*
24777987 CTCCCCCTAAGTGAGTG
1 CTCCCCCTTAGTGAGTG
24778004 CTCCCCCTTAGTGAGTG
1 CTCCCCCTTAGTGAGTG
*
24778021 CTCCCCCTTAGTGTGTG
1 CTCCCCCTTAGTGAGTG
*
24778038 CTCCCCCTTAGTGTGTG
1 CTCCCCCTTAGTGAGTG
24778055 CT
1 CT
24778057 TATTTTACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 51 1.00
ACGTcount: A:0.10, C:0.36, G:0.23, T:0.31
Consensus pattern (17 bp):
CTCCCCCTTAGTGAGTG
Found at i:24778533 original size:21 final size:21
Alignment explanation
Indices: 24778507--24778546 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24778497 CTGACAACAT
*
24778507 AAAAAAATAGTAGAAAAAGAA
1 AAAAAAATAGCAGAAAAAGAA
24778528 AAAAAAATAGCAGAAAAAG
1 AAAAAAATAGCAGAAAAAG
24778547 TAGTCATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.07
Consensus pattern (21 bp):
AAAAAAATAGCAGAAAAAGAA
Found at i:24786108 original size:73 final size:73
Alignment explanation
Indices: 24786031--24786190 Score: 221
Period size: 73 Copynumber: 2.2 Consensus size: 73
24786021 GTAGTGAGCA
* * * ** *
24786031 CTTAGTCGACTAACTTTCTTTTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTTTAGATTTATGGC
1 CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTATGAC
24786096 AGTAGACT
66 AGTAGACT
* * * *
24786104 CTTAGTCGACTAACTTACTTCTTGGTTGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTTTGAT
1 CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTATGAC
24786169 AGTAGACT
66 AGTAGACT
*
24786177 CTTAGTTGACTAAC
1 CTTAGTCGACTAAC
24786191 CCATTTCTTG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (73 bp):
CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTATGAC
AGTAGACT
Found at i:24786199 original size:73 final size:73
Alignment explanation
Indices: 24786031--24786211 Score: 209
Period size: 73 Copynumber: 2.5 Consensus size: 73
24786021 GTAGTGAGCA
*** * * * * ** *
24786031 CTTAGTCGACTAACTTTCTTTTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTTTAGATTTATGGC
1 CTTAGTCGACTAACCCACTTCTTGGTTGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTATGAC
24786096 AGTAGACT
66 AGTAGACT
** * *
24786104 CTTAGTCGACTAACTTACTTCTTGGTTGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTTTGAT
1 CTTAGTCGACTAACCCACTTCTTGGTTGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTATGAC
24786169 AGTAGACT
66 AGTAGACT
* * *
24786177 CTTAGTTGACTAACCCATTTCTTGGTTGACTAAGT
1 CTTAGTCGACTAACCCACTTCTTGGTTGATTAAGT
24786212 CTTTTTTGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 93 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (73 bp):
CTTAGTCGACTAACCCACTTCTTGGTTGATTAAGTTGATTCTGTCTTGAAGTCCAGATTTATGAC
AGTAGACT
Found at i:24787038 original size:16 final size:16
Alignment explanation
Indices: 24787017--24787055 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24787007 TTTTTGGTTT
*
24787017 ATTTCATTTGCATTTC
1 ATTTCATATGCATTTC
*
24787033 ATTTCACATGCATTTC
1 ATTTCATATGCATTTC
*
24787049 TTTTCAT
1 ATTTCAT
24787056 GCACCACCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.54
Consensus pattern (16 bp):
ATTTCATATGCATTTC
Found at i:24788533 original size:13 final size:14
Alignment explanation
Indices: 24788513--24788556 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
24788503 TATGACTATC
24788513 TCAACACATATATT
1 TCAACACATATATT
24788527 T-AACACATATATT
1 TCAACACATATATT
**
24788540 TCATGACATATATT
1 TCAACACATATATT
24788554 TCA
1 TCA
24788557 TAACCTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (14 bp):
TCAACACATATATT
Found at i:24788611 original size:80 final size:80
Alignment explanation
Indices: 24788520--24788729 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
24788510 ATCTCAACAC
* * * *
24788520 ATATATTTAACACATATATTTCATGACATATATTTCATAACCTCATAAATCACTTACATGCTTAG
1 ATATACTTAACACATACATCTCATGACATACATTTCATAACCTCATAAATCACTTACATGCTTAG
24788585 CCCATAGTATACATG
66 CCCATAGTATACATG
* * *
24788600 ATATACTTAACACATACATCTCATGGCATACATTTCATAACCTCATAAGTCACTTACATGTTTAG
1 ATATACTTAACACATACATCTCATGACATACATTTCATAACCTCATAAATCACTTACATGCTTAG
*
24788665 CCCATAGTGTACATG
66 CCCATAGTATACATG
* * * *
24788680 ATATACTTAACACATACATCCCATGGCATACATGTT-ACAATCTCATAAAT
1 ATATACTTAACACATACATCTCATGACATACAT-TTCATAACCTCATAAAT
24788730 GGAACTCATA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 115 0.98
81 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (80 bp):
ATATACTTAACACATACATCTCATGACATACATTTCATAACCTCATAAATCACTTACATGCTTAG
CCCATAGTATACATG
Found at i:24794126 original size:67 final size:67
Alignment explanation
Indices: 24794031--24794159 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 67
24794021 AAGTTAGTTG
* ** * * * *
24794031 TTGGGTTTTGGTTGATCTTGTGACAAACCATGGTTG-TAGGTTGTGGTTGGGCCTTTAAAAAACC
1 TTGGGTTTTGGTTGAGCTCATAAAAAACCATGG-TGAAAGGTTGTGGTTGAGCCTTTAAAAAACC
24794095 ACT
65 ACT
* *
24794098 TTGGGTTTTGGTTGAGCTCATAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAA
1 TTGGGTTTTGGTTGAGCTCATAAAAAACCATGGTGAAAGGTTGTGGTTGAGCCTTTAAAAAA
24794160 TCGCTTCGGG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 2 0.04
67 50 0.96
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.36
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCTCATAAAAAACCATGGTGAAAGGTTGTGGTTGAGCCTTTAAAAAACCA
CT
Found at i:24794159 original size:35 final size:33
Alignment explanation
Indices: 24794068--24794159 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 33
24794058 CCATGGTTGT
*
24794068 AGGTTGTGGTTGGGCCTTTAAAAAACCACTTTG
1 AGGTTGTGGTTGAGCCTTTAAAAAACCACTTTG
* *
24794101 -GGTTTTGGTTGAG-CTCATAAAAAACCA-TTGTG
1 AGGTTGTGGTTGAGCCT-TTAAAAAACCACTT-TG
*
24794133 AAAGGTTGTGGTTGAGCCTTTGAAAAA
1 --AGGTTGTGGTTGAGCCTTTAAAAAA
24794160 TCGCTTCGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
31 4 0.09
32 23 0.49
35 18 0.38
36 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (33 bp):
AGGTTGTGGTTGAGCCTTTAAAAAACCACTTTG
Found at i:24799106 original size:14 final size:15
Alignment explanation
Indices: 24799087--24799115 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24799077 AATTTCTATG
24799087 CCATGCTTTA-GAAA
1 CCATGCTTTATGAAA
24799101 CCATGCTTTATGAAA
1 CCATGCTTTATGAAA
24799116 TGATCCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (15 bp):
CCATGCTTTATGAAA
Found at i:24801906 original size:35 final size:35
Alignment explanation
Indices: 24801869--24801981 Score: 142
Period size: 35 Copynumber: 3.3 Consensus size: 35
24801859 AATTGTTTAA
* *
24801869 TTTAATCAATTAGGCCTAATAACTTAATTAAACAA-
1 TTTAATCAATTAAGCC-AACAACTTAATTAAACAAT
* *
24801904 TTTAATTAATTAAGCCCAACAATTTAATTAAACAAT
1 TTTAATCAATTAAG-CCAACAACTTAATTAAACAAT
*
24801940 TTTAATCAATTAAG--AACAACTTAATTGAACAAT
1 TTTAATCAATTAAGCCAACAACTTAATTAAACAAT
24801973 TTTAATCAA
1 TTTAATCAA
24801982 GTGCTTGAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
33 26 0.38
35 28 0.41
36 15 0.22
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.35
Consensus pattern (35 bp):
TTTAATCAATTAAGCCAACAACTTAATTAAACAAT
Found at i:24806930 original size:2 final size:2
Alignment explanation
Indices: 24806923--24806979 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
24806913 TATTGCATAA
*
24806923 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
24806965 AT AN AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
24806980 CACATACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24807243 original size:2 final size:2
Alignment explanation
Indices: 24807236--24807261 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24807226 GATAAGCAAC
24807236 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
24807262 CAGCATCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24816689 original size:23 final size:22
Alignment explanation
Indices: 24816642--24816689 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
24816632 AACTTAATTA
* *
24816642 AACAATTTAATTAATTAAGCCC
1 AACAATTTAATCAATTAAGCAC
*
24816664 AACAATTTTAATCAATTAGGCAC
1 AACAA-TTTAATCAATTAAGCAC
24816687 AAC
1 AAC
24816690 TTAATTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (22 bp):
AACAATTTAATCAATTAAGCAC
Found at i:24819807 original size:74 final size:75
Alignment explanation
Indices: 24819716--24819869 Score: 229
Period size: 74 Copynumber: 2.1 Consensus size: 75
24819706 ATTCTATCAT
* * * * * * *
24819716 AAAATCATAAGCATTCAACTATTGTTTATAACTCAGCATAAAAGATTGTTTCATAAACCATGCCA
1 AAAAACATAAGCATTCAACCATTGTTCATAACTCAACATAAAACATTGTCTCATAAACCATACCA
24819781 TAAAACATA-
66 TAAAACATAC
*
24819790 AAAAACATAAGCATTCAACCATTGTTCATAGCTCAACATAAAACATTGTCTCATAAACCATACCA
1 AAAAACATAAGCATTCAACCATTGTTCATAACTCAACATAAAACATTGTCTCATAAACCATACCA
24819855 TAAAACATAC
66 TAAAACATAC
24819865 AAAAA
1 AAAAA
24819870 AAAAAAGACA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 66 0.93
75 5 0.07
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.26
Consensus pattern (75 bp):
AAAAACATAAGCATTCAACCATTGTTCATAACTCAACATAAAACATTGTCTCATAAACCATACCA
TAAAACATAC
Found at i:24820014 original size:15 final size:16
Alignment explanation
Indices: 24819984--24820015 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24819974 TACATTTTAC
24819984 TCCTATTTTCCTACCT
1 TCCTATTTTCCTACCT
24820000 TCCTATTTT-CTACCT
1 TCCTATTTTCCTACCT
24820015 T
1 T
24820016 TTTTTGTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.12, C:0.34, G:0.00, T:0.53
Consensus pattern (16 bp):
TCCTATTTTCCTACCT
Found at i:24835833 original size:20 final size:20
Alignment explanation
Indices: 24835804--24835852 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
24835794 TTAGGAGAGA
*
24835804 GAAAGGAAGAAA-GAAGAAAG
1 GAAAGAAAGAAAGGAA-AAAG
24835824 GAAAGAAAGAAAGGAAAAAG
1 GAAAGAAAGAAAGGAAAAAG
24835844 GAACAGAAA
1 GAA-AGAAA
24835853 AGTTTGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGAAAGGAAAAAG
Found at i:24837035 original size:39 final size:39
Alignment explanation
Indices: 24837016--24837206 Score: 262
Period size: 39 Copynumber: 5.0 Consensus size: 39
24837006 AGCACACACC
*
24837016 GATGATATATGCCATGTGCGGTGTGGGGGAGCACATGAT
1 GATGATATATGCCATGTGCGGTGTGGGAGAGCACATGAT
*
24837055 GATGATATATGCCATGTGCTGTGTGGGAGAGCACATGAT
1 GATGATATATGCCATGTGCGGTGTGGGAGAGCACATGAT
* *
24837094 GATGATATATGCCATGTGTGGTGTGGGAGTGCACATGAT
1 GATGATATATGCCATGTGCGGTGTGGGAGAGCACATGAT
* * *
24837133 GATGATATATGCCATGTGTGGTGTGGGAGTGCACATGAG
1 GATGATATATGCCATGTGCGGTGTGGGAGAGCACATGAT
* * * *
24837172 GAT-AT-TA-GCTATGTACGATGTGGGAGTGCACATGA
1 GATGATATATGCCATGTGCGGTGTGGGAGAGCACATGA
24837207 GCTAAGTTAA
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
36 24 0.17
37 2 0.01
38 2 0.01
39 114 0.80
ACGTcount: A:0.25, C:0.12, G:0.36, T:0.28
Consensus pattern (39 bp):
GATGATATATGCCATGTGCGGTGTGGGAGAGCACATGAT
Found at i:24839707 original size:19 final size:19
Alignment explanation
Indices: 24839683--24839719 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
24839673 GCTGCAGCCA
24839683 AAATTTCGGGTCATGACCC
1 AAATTTCGGGTCATGACCC
24839702 AAATTTCGGGTCATGACC
1 AAATTTCGGGTCATGACC
24839720 GACGTATGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (19 bp):
AAATTTCGGGTCATGACCC
Found at i:24843602 original size:59 final size:58
Alignment explanation
Indices: 24843500--24843772 Score: 387
Period size: 59 Copynumber: 4.7 Consensus size: 58
24843490 TAGTTTTACG
* * * *
24843500 TGTTTATCTTAATTGAGACAAG-AAAATATG--TTGTCTTGATTTAGACAAGAATACA
1 TGTTTGTCTTAATTTAGACAAGAAAAATATGTTTTGTCTTAATTTAGACAAGAAAACA
24843555 TGTTTGTCTTAATTTAAGACAAGAAAAATATGTTTTGTCTTAATTTAGACAAGTAAAACA
1 TGTTTGTCTTAATTT-AGACAAGAAAAATATGTTTTGTCTTAATTTAGACAAG-AAAACA
*
24843615 TGTTTGTCTTAATTTATACAAGAAAACATA--TTTTGTCTTAATTTAGACAAGAAAACA
1 TGTTTGTCTTAATTTAGACAAGAAAA-ATATGTTTTGTCTTAATTTAGACAAGAAAACA
* *
24843672 TGTTTGTCTTAATTTAAGACAAGAAAAATATATTTTGTCCTAATTTAGACAAGAAAACA
1 TGTTTGTCTTAATTT-AGACAAGAAAAATATGTTTTGTCTTAATTTAGACAAGAAAACA
* *
24843731 TGTTTGTCTCAATTTAGACAAG-ATAATATGTTTTGTCTTAAT
1 TGTTTGTCTTAATTTAGACAAGAAAAATATGTTTTGTCTTAAT
24843773 AGAGTTGTCT
Statistics
Matches: 198, Mismatches: 11, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
55 13 0.07
56 7 0.04
57 49 0.25
58 38 0.19
59 68 0.34
60 23 0.12
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (58 bp):
TGTTTGTCTTAATTTAGACAAGAAAAATATGTTTTGTCTTAATTTAGACAAGAAAACA
Found at i:24843630 original size:29 final size:28
Alignment explanation
Indices: 24843500--24843772 Score: 332
Period size: 29 Copynumber: 9.5 Consensus size: 28
24843490 TAGTTTTACG
* * *
24843500 TGTTTATCTTAATTGAGACAAGAAAATA
1 TGTTTGTCTTAATTTAGACAAGAAAACA
* *
24843528 TG-TTGTCTTGATTTAGACAAGAATACA
1 TGTTTGTCTTAATTTAGACAAGAAAACA
*
24843555 TGTTTGTCTTAATTTAAGACAAGAAAAATA
1 TGTTTGTCTTAATTT-AGACAAG-AAAACA
24843585 TGTTTTGTCTTAATTTAGACAAGTAAAACA
1 TG-TTTGTCTTAATTTAGACAAG-AAAACA
*
24843615 TGTTTGTCTTAATTTATACAAGAAAACA
1 TGTTTGTCTTAATTTAGACAAGAAAACA
*
24843643 TATTTTGTCTTAATTTAGACAAGAAAACA
1 T-GTTTGTCTTAATTTAGACAAGAAAACA
*
24843672 TGTTTGTCTTAATTTAAGACAAGAAAAATA
1 TGTTTGTCTTAATTT-AGACAAG-AAAACA
* *
24843702 TATTTTGTCCTAATTTAGACAAGAAAACA
1 T-GTTTGTCTTAATTTAGACAAGAAAACA
* * *
24843731 TGTTTGTCTCAATTTAGACAAGATAATA
1 TGTTTGTCTTAATTTAGACAAGAAAACA
24843759 TGTTTTGTCTTAAT
1 TG-TTTGTCTTAAT
24843773 AGAGTTGTCT
Statistics
Matches: 212, Mismatches: 24, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.10
28 57 0.27
29 75 0.35
30 33 0.16
31 25 0.12
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (28 bp):
TGTTTGTCTTAATTTAGACAAGAAAACA
Found at i:24843677 original size:117 final size:115
Alignment explanation
Indices: 24843500--24843772 Score: 413
Period size: 117 Copynumber: 2.4 Consensus size: 115
24843490 TAGTTTTACG
* * * * *
24843500 TGTTTATCTTAATTGAGACAAG-AAAATATGTTGTCTTGATTTAGACAAGAATACATGTTTGTCT
1 TGTTTGTCTTAATTTAGACAAGAAAAATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCT
* *
24843564 TAATTTAAGACAAGAAAAATATGTTTTGTCTTAATTTAGACAAGTAAAACA
66 TAATTTAAGACAAGAAAAATATATTTTGTCCTAATTTAGACAAG-AAAACA
*
24843615 TGTTTGTCTTAATTTATACAAGAAAACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTC
1 TGTTTGTCTTAATTTAGACAAGAAAA-ATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTC
24843680 TTAATTTAAGACAAGAAAAATATATTTTGTCCTAATTTAGACAAGAAAACA
65 TTAATTTAAGACAAGAAAAATATATTTTGTCCTAATTTAGACAAGAAAACA
* * *
24843731 TGTTTGTCTCAATTTAGACAAGATAATATGTTTTGTCTTAAT
1 TGTTTGTCTTAATTTAGACAAGA-AAAATATTTTGTCTTAAT
24843773 AGAGTTGTCT
Statistics
Matches: 143, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
115 19 0.13
116 44 0.31
117 80 0.56
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (115 bp):
TGTTTGTCTTAATTTAGACAAGAAAAATATTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCT
TAATTTAAGACAAGAAAAATATATTTTGTCCTAATTTAGACAAGAAAACA
Found at i:24845259 original size:32 final size:32
Alignment explanation
Indices: 24845209--24845293 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 32
24845199 ATCACCTTGC
* * *
24845209 TGTGTGCTACTAGACAGCACAAAGCACACTAT
1 TGTGTGTTACTAGGCAGCACAAAGCACACCAT
* * **
24845241 TGTGTGTTGCTAGGCAGCACACAGTGCACCAT
1 TGTGTGTTACTAGGCAGCACAAAGCACACCAT
*
24845273 TGTGTGTTACTAGGCAACACA
1 TGTGTGTTACTAGGCAGCACA
24845294 CAAAGGTTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (32 bp):
TGTGTGTTACTAGGCAGCACAAAGCACACCAT
Found at i:24845663 original size:69 final size:68
Alignment explanation
Indices: 24845560--24845689 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 68
24845550 AAAGTTGTAG
24845560 TTTTTTTTTTTTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTANTGTA
1 TTTTTTTTTTTTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTA-TGTA
24845625 GTTT
65 GTTT
24845629 TTTTTTTTTTTTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTAT
1 TTTTTTTTTTTTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTAT
24845690 AAATGATATA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
68 1 0.02
69 60 0.98
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.55
Consensus pattern (68 bp):
TTTTTTTTTTTTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTATGTAG
TTT
Found at i:24845712 original size:69 final size:69
Alignment explanation
Indices: 24845570--24845713 Score: 173
Period size: 69 Copynumber: 2.1 Consensus size: 69
24845560 TTTTTTTTTT
* ** * * ****
24845570 TTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTANTGTAGTTTTTTTTT
1 TTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTAATAAAGATATAAGAT
* *
24845635 TTTT
66 ATTA
24845639 TTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGT-ATAAATGATATAAGA
1 TTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTAATAAA-GATATAAGA
24845703 TATTA
65 TATTA
24845708 TTTGTA
1 TTTGTA
24845714 TGCTTGAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 2 0.03
69 61 0.97
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (69 bp):
TTTGTAAGATGGACATTAATGTGGCTTATTATTATATACATTTATATGTAATAAAGATATAAGAT
ATTA
Found at i:24846196 original size:21 final size:19
Alignment explanation
Indices: 24846160--24846200 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
24846150 GTATGTTGAG
24846160 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
24846179 TAGTTCAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
24846200 T
1 T
24846201 CTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:24853894 original size:2 final size:2
Alignment explanation
Indices: 24853887--24853915 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24853877 ATGGACATAC
24853887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24853916 GATGATTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24862758 original size:114 final size:113
Alignment explanation
Indices: 24862558--24862784 Score: 445
Period size: 114 Copynumber: 2.0 Consensus size: 113
24862548 AAACGATAAT
24862558 TTTTCCATGAGCTTGGTCAAAGCTTCCTTTGGAAGCTTTGACTCTTTTCCTTCTTATCCATGGCC
1 TTTTCCATGAGCTTGGTCAAAGCTTCCTTTGGAAGCTTTGACTCTTTTCCTTCTTATCCATGGCC
24862623 GGTTCTTATCTTCTCCATAAGTCATTTTCTTCTTCTCCTCCAACCCAA
66 GGTTCTTATCTTCTCCATAAGTCATTTTCTTCTTCTCCTCCAACCCAA
24862671 NTTTTCCATGAGCTTGGTCAAAGCTTCCTTTGGAAGCTTTGACTCTTTTCCTTCTTATCCATGGC
1 -TTTTCCATGAGCTTGGTCAAAGCTTCCTTTGGAAGCTTTGACTCTTTTCCTTCTTATCCATGGC
24862736 CGGTTCTTATCTTCTCCATAAGTCATTTTCTTCTTCTCCTCCAACCCAA
65 CGGTTCTTATCTTCTCCATAAGTCATTTTCTTCTTCTCCTCCAACCCAA
24862785 CGCCATTTTC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.41
Consensus pattern (113 bp):
TTTTCCATGAGCTTGGTCAAAGCTTCCTTTGGAAGCTTTGACTCTTTTCCTTCTTATCCATGGCC
GGTTCTTATCTTCTCCATAAGTCATTTTCTTCTTCTCCTCCAACCCAA
Found at i:24863793 original size:39 final size:39
Alignment explanation
Indices: 24863730--24863867 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
24863720 GTGCCGGTAG
*
24863730 TGTGCGGTGTGGGAGAGCATATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
* * * *
24863769 TGTGTGGTGTGGGAAAGCACATGATGATGATATTTTCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
* * *
24863808 TGTGCGGTGTGGGAGTGCACATGAGGAT-AT-TA-GCTA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
* *
24863844 TGTACGGTGTGGGAGTGCACATGA
1 TGTGCGGTGTGGGAGAGCACATGA
24863868 GCTGAGTTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 25 0.29
37 1 0.01
38 2 0.02
39 58 0.67
ACGTcount: A:0.24, C:0.11, G:0.36, T:0.29
Consensus pattern (39 bp):
TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
Found at i:24865450 original size:25 final size:25
Alignment explanation
Indices: 24865417--24865470 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
24865407 CCCAACCATG
* *
24865417 TATATCAACTCATGGCCTTGCCACA
1 TATAGCAACCCATGGCCTTGCCACA
* *
24865442 TATAGCAACCCGTGGCCTTGCCACG
1 TATAGCAACCCATGGCCTTGCCACA
24865467 TATA
1 TATA
24865471 ATCACAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (25 bp):
TATAGCAACCCATGGCCTTGCCACA
Found at i:24869447 original size:43 final size:43
Alignment explanation
Indices: 24869388--24869534 Score: 222
Period size: 43 Copynumber: 3.4 Consensus size: 43
24869378 TTGTGTGATA
* *
24869388 ATGATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
*
24869431 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATTAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
* * *
24869474 ATGATGACCCAACTATGTACGGTGTGAGAATGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
* *
24869517 ATGATGACCTAGCTATGT
1 ATGATGACCCAACTATGT
24869535 TCGAGTAAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 95 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
Found at i:24869548 original size:86 final size:86
Alignment explanation
Indices: 24869388--24869552 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 86
24869378 TTGTGTGATA
* * * * *
24869388 ATGATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGACCCAACTATGTGCGG
1 ATGATGACCCAACTATGTACGGTGTGAGAATGCACATGAGCTGATGATGACCCAACTATGTGCGG
***
24869453 TGTGGGAGTGCACATTAGCTG
66 TGAAAGAGTGCACATTAGCTG
* * *
24869474 ATGATGACCCAACTATGTACGGTGTGAGAATGCACATGAGCTGATGATGACCTAGCTATGTTCGA
1 ATGATGACCCAACTATGTACGGTGTGAGAATGCACATGAGCTGATGATGACCCAACTATGTGCG-
24869539 GT-AAAGAGTGCACA
65 GTGAAAGAGTGCACA
24869553 AGATGATGAT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
86 65 0.97
87 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (86 bp):
ATGATGACCCAACTATGTACGGTGTGAGAATGCACATGAGCTGATGATGACCCAACTATGTGCGG
TGAAAGAGTGCACATTAGCTG
Found at i:24869878 original size:22 final size:21
Alignment explanation
Indices: 24869834--24869915 Score: 112
Period size: 21 Copynumber: 3.9 Consensus size: 21
24869824 ATCCATGCTC
*
24869834 TGAATTTCACTGCAGC-AAGAA
1 TGAATCTCACTGCAGCGAA-AA
* *
24869855 TGAATTCTCGCTACAGCGAAAA
1 TGAA-TCTCACTGCAGCGAAAA
24869877 TGAATCTCACTGCAGCGAAAA
1 TGAATCTCACTGCAGCGAAAA
24869898 TGAATCTCACTGCAGCGA
1 TGAATCTCACTGCAGCGA
24869916 GAAACTCTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 37 0.69
22 15 0.28
23 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
TGAATCTCACTGCAGCGAAAA
Found at i:24869900 original size:43 final size:42
Alignment explanation
Indices: 24869834--24869915 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
24869824 ATCCATGCTC
* *
24869834 TGAATTTCACTGCAGCAAGAATGAATTCTCGCTACAGCGAAAA
1 TGAATCTCACTGCAGCAAGAATGAA-TCTCACTACAGCGAAAA
*
24869877 TGAATCTCACTGCAGCGAA-AATGAATCTCACTGCAGCGA
1 TGAATCTCACTGCAGC-AAGAATGAATCTCACTACAGCGA
24869916 GAAACTCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 12 0.34
43 21 0.60
44 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
TGAATCTCACTGCAGCAAGAATGAATCTCACTACAGCGAAAA
Found at i:24873279 original size:43 final size:43
Alignment explanation
Indices: 24873158--24873265 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
24873148 TTTTGTGTGA
* *
24873158 TAATGATGACCCAGCTATGTGCGGTGTAGGAGTGTAAATGAGC
1 TAATGATGACCCAGTTATGTGCGGTGTAGGAGTGCAAATGAGC
* * *
24873201 TAATGATGACCTAGTTATGTGCGGTGTAAGAGTGCACATGAGC
1 TAATGATGACCCAGTTATGTGCGGTGTAGGAGTGCAAATGAGC
* *
24873244 TGATGATGACCCGGTTATGTGC
1 TAATGATGACCCAGTTATGTGC
24873266 AAGTAGGGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (43 bp):
TAATGATGACCCAGTTATGTGCGGTGTAGGAGTGCAAATGAGC
Found at i:24882056 original size:27 final size:27
Alignment explanation
Indices: 24882026--24882078 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
24882016 CAAAACATTT
* *
24882026 AAGAAAGATATGATCAATT-TAAAGCTC
1 AAGAAAGAAAAGA-CAATTATAAAGCTC
*
24882053 AAGAGAGAAAAGACAATTATAAAGCT
1 AAGAAAGAAAAGACAATTATAAAGCT
24882079 TGATGCTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (27 bp):
AAGAAAGAAAAGACAATTATAAAGCTC
Found at i:24890089 original size:14 final size:16
Alignment explanation
Indices: 24890060--24890091 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
24890050 ACTAGTTATC
24890060 ATCATTGGATAAAAAA
1 ATCATTGGATAAAAAA
24890076 ATCATT-GA-AAAAAA
1 ATCATTGGATAAAAAA
24890090 AT
1 AT
24890092 TAGCACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.25
Consensus pattern (16 bp):
ATCATTGGATAAAAAA
Found at i:24910712 original size:21 final size:22
Alignment explanation
Indices: 24910687--24910727 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24910677 CCTAGGTGGA
*
24910687 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAATAAGTGTG
24910708 AAAATTCAAGGAAATAAGTG
1 AAAATTCAAGGAAATAAGTG
24910728 AAAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.24, T:0.20
Consensus pattern (22 bp):
AAAATTCAAGGAAATAAGTGTG
Found at i:24910728 original size:20 final size:21
Alignment explanation
Indices: 24910687--24910731 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
24910677 CCTAGGTGGA
*
24910687 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
24910708 AAAATTCAA-GGAAATA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
24910728 AAAA
1 AAAA
24910732 AAATGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.04, G:0.22, T:0.18
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:24910732 original size:21 final size:20
Alignment explanation
Indices: 24910685--24910732 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
24910675 ACCCTAGGTG
*
24910685 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
24910705 GTGAAAATTCAAGGAAATAAGT
1 G-AAAAATTCAAGGAAA-AAGT
24910727 GAAAAA
1 GAAAAA
24910733 AATGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.04, G:0.23, T:0.17
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:24919270 original size:43 final size:42
Alignment explanation
Indices: 24919196--24919385 Score: 179
Period size: 42 Copynumber: 4.4 Consensus size: 42
24919186 CATACATCGT
* *
24919196 CATAGCTGGGTCATCATCATCGGTTTATGCGCACTCCCTACTCGCA
1 CATAGCTGGGTCATCATCA---GCTCATGCGCACTCCC-ACTCGCA
* * **
24919242 CATAG-TCGGGTCATCATCAGCTTATGCGCTCTCCCTACTCATA
1 CATAGCT-GGGTCATCATCAGCTCATGCGCACTCCC-ACTCGCA
*
24919285 CATAGCTGGGTCATTC-TCAGCTCATGTGCACTCCCACAT-GCA
1 CATAGCTGGGTCA-TCATCAGCTCATGCGCACTCCCAC-TCGCA
* * * *
24919327 CATAGCTGGGTCATCATTAGCTCATGTGCACTCCCACACTCA
1 CATAGCTGGGTCATCATCAGCTCATGCGCACTCCCACTCGCA
*
24919369 CATAGTTGGGTCATCAT
1 CATAGCTGGGTCATCAT
24919386 TATCACATAA
Statistics
Matches: 125, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 54 0.43
43 48 0.38
44 3 0.02
45 1 0.01
46 17 0.14
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (42 bp):
CATAGCTGGGTCATCATCAGCTCATGCGCACTCCCACTCGCA
Found at i:24919328 original size:85 final size:85
Alignment explanation
Indices: 24919226--24919382 Score: 196
Period size: 85 Copynumber: 1.8 Consensus size: 85
24919216 CGGTTTATGC
* * *
24919226 GCACTCCCTACTCGCACATAG-TCGGGTCATCATCAGCTTATGCGCTCTCCC-TACTCATACATA
1 GCACTCCCTACTCGCACATAGCT-GGGTCATCATCAGCTCATGCGCACTCCCACACTC--ACATA
24919289 GCTGGGTCATTCTCAGCTCATGT
63 GCTGGGTCATTCTCAGCTCATGT
* * *
24919312 GCACTCCC-ACAT-GCACATAGCTGGGTCATCATTAGCTCATGTGCACTCCCACACTCACATAGT
1 GCACTCCCTAC-TCGCACATAGCTGGGTCATCATCAGCTCATGCGCACTCCCACACTCACATAGC
24919375 TGGGTCAT
65 TGGGTCAT
24919383 CATTATCACA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
84 14 0.23
85 34 0.55
86 14 0.23
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (85 bp):
GCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGCGCACTCCCACACTCACATAGCT
GGGTCATTCTCAGCTCATGT
Found at i:24921239 original size:2 final size:2
Alignment explanation
Indices: 24921227--24921260 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
24921217 AACACTTTAC
*
24921227 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24921261 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24925671 original size:2 final size:2
Alignment explanation
Indices: 24925664--24925702 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24925654 TATAATGTTG
24925664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24925703 CTATGTCACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24925908 original size:54 final size:54
Alignment explanation
Indices: 24925843--24925996 Score: 211
Period size: 54 Copynumber: 2.9 Consensus size: 54
24925833 TGGTATTAAC
* * *
24925843 TGTGCATGATGTGGGGGGATGCACATGAGTTGGGTGAGATTGGGTGTCCAGCTA
1 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTGTCCAGCTA
* * *
24925897 TGTGCACGATGTGGGGGGATGCACATTG-GCTGGTTGAGATGGGGTGTCCGGGTA
1 TGTGCACGATGTGGGGGGATGCACA-TGAGCTGGGTGAGATGGGGTGTCCAGCTA
* * *
24925951 TGTGCACAATGTGGGGGGATGCACATAAGCTAGGTGAGATGGGGTG
1 TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
24925997 GTATACGAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 85 0.97
55 2 0.02
ACGTcount: A:0.19, C:0.12, G:0.44, T:0.25
Consensus pattern (54 bp):
TGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTGTCCAGCTA
Found at i:24933386 original size:2 final size:2
Alignment explanation
Indices: 24933379--24933407 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24933369 TATAATGTTG
24933379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24933408 CTATGTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24933578 original size:38 final size:38
Alignment explanation
Indices: 24933522--24933671 Score: 92
Period size: 38 Copynumber: 3.7 Consensus size: 38
24933512 CTGCCCGTGC
24933522 GCACGATGTGAGGGGATGCACATGATGGCATTAACTAT
1 GCACGATGTGAGGGGATGCACATGATGGCATTAACTAT
* * *
24933560 GCACTATGTG-GGAGGATGCGAGGGA-GATGG-ATGGTGATACTGCCCGT
1 GCACGATGTGAGG-GGATGC-A--CATGATGGCAT--T-A-ACT----AT
*
24933607 GCGCACGATGTGAGGGGATGCACACGATGGCATTAACTAT
1 G--CACGATGTGAGGGGATGCACATGATGGCATTAACTAT
*
24933647 GCACTATGTG-GGAGGATGCACATGA
1 GCACGATGTGAGG-GGATGCACATGA
24933672 GCTGGGTGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 36
0.66 0.06 0.28
Matches are distributed among these distances:
37 4 0.05
38 34 0.40
39 3 0.03
40 7 0.08
41 2 0.02
42 1 0.01
43 3 0.03
44 3 0.03
45 1 0.01
46 2 0.02
47 7 0.08
48 3 0.03
49 14 0.16
50 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (38 bp):
GCACGATGTGAGGGGATGCACATGATGGCATTAACTAT
Found at i:24933596 original size:87 final size:87
Alignment explanation
Indices: 24933492--24933665 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
24933482 TGATGGTGGT
*
24933492 GAGGGAGATGGACGGTGATACTGCCCGTGCGCACGATGTGAGGGGATGCACATGATGGCATTAAC
1 GAGGGAGATGGACGGTGATACTGCCCGTGCGCACGATGTGAGGGGATGCACACGATGGCATTAAC
24933557 TATGCACTATGTGGGAGGATGC
66 TATGCACTATGTGGGAGGATGC
*
24933579 GAGGGAGATGGATGGTGATACTGCCCGTGCGCACGATGTGAGGGGATGCACACGATGGCATTAAC
1 GAGGGAGATGGACGGTGATACTGCCCGTGCGCACGATGTGAGGGGATGCACACGATGGCATTAAC
24933644 TATGCACTATGTGGGAGGATGC
66 TATGCACTATGTGGGAGGATGC
24933666 ACATGAGCTG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (87 bp):
GAGGGAGATGGACGGTGATACTGCCCGTGCGCACGATGTGAGGGGATGCACACGATGGCATTAAC
TATGCACTATGTGGGAGGATGC
Found at i:24938023 original size:29 final size:29
Alignment explanation
Indices: 24937985--24938432 Score: 503
Period size: 29 Copynumber: 15.4 Consensus size: 29
24937975 CTTTTATATG
*
24937985 TTTGTCTTAATTTAGACAATAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGT
*
24938014 TTTGTCTTAATTTAGATAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGT
* * *
24938043 TTTGTCTTAACTTAGACTAGAAGACATG-
1 TTTGTCTTAATTTAGACAAGAAAACATGT
*
24938071 TTTGTCTTAATTTAAACAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGT
*
24938100 TTTGTTTTAATTTAGACAAGAAAACATG-
1 TTTGTCTTAATTTAGACAAGAAAACATGT
* ** *
24938128 TTTGTTTTCTTTTAGACAAGAAAACACGT
1 TTTGTCTTAATTTAGACAAGAAAACATGT
*
24938157 TTTGTCTTAATTTTGACAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGT
* *
24938186 TTTATCTTAACTTAGACAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGT
* * * *
24938215 TTTGTCTTGATTTGGATACGAAAACATG-
1 TTTGTCTTAATTTAGACAAGAAAACATGT
*
24938243 TTTGTCTTAATTTAGACAAGAAAACTTG-
1 TTTGTCTTAATTTAGACAAGAAAACATGT
*
24938271 TTTGTCTTAATTTAGACAAGAAAAATATGT
1 TTTGTCTTAATTTAGACAAG-AAAACATGT
* *
24938301 TTTGTCTTAATCTAGACAACAAAACATG-
1 TTTGTCTTAATTTAGACAAGAAAACATGT
* * *
24938329 TTAGTCTTAATTTAGACAAAAAATATATATATGT
1 TTTGTCTTAATTTAGAC--AAGA-A-A-ACATGT
* * *
24938363 TATGTCTTAATCTAAACAAGAAAACATG-
1 TTTGTCTTAATTTAGACAAGAAAACATGT
* * * *
24938391 GTTGTCTCAATATTAGACAAGATAACATCT
1 TTTGTCTTAAT-TTAGACAAGAAAACATGT
24938421 TTTGTCTTAATT
1 TTTGTCTTAATT
24938433 AAATACAAGA
Statistics
Matches: 349, Mismatches: 58, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
28 115 0.33
29 180 0.52
30 31 0.09
31 2 0.01
32 4 0.01
33 4 0.01
34 13 0.04
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (29 bp):
TTTGTCTTAATTTAGACAAGAAAACATGT
Found at i:24938082 original size:57 final size:58
Alignment explanation
Indices: 24937985--24938432 Score: 503
Period size: 57 Copynumber: 7.7 Consensus size: 58
24937975 CTTTTATATG
* *
24937985 TTTGTCTTAATTTAGACAATAAAACATGTTTTGTCTTAATTTAGATAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
* * * *
24938043 TTTGTCTTAACTTAGACTAGAAGACATG-TTTGTCTTAATTTAAACAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
* * ** *
24938100 TTTGTTTTAATTTAGACAAGAAAACATG-TTTGTTTTCTTTTAGACAAGAAAACACGT
1 TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
* * *
24938157 TTTGTCTTAATTTTGACAAGAAAACATGTTTTATCTTAACTTAGACAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
* * * * *
24938215 TTTGTCTTGATTTGGATACGAAAACATG-TTTGTCTTAATTTAGACAAGAAAACTTG-
1 TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
* * *
24938271 TTTGTCTTAATTTAGACAAGAAAAATATGTTTTGTCTTAATCTAGACAACAAAACATG-
1 TTTGTCTTAATTTAGACAAG-AAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
* * * * * *
24938329 TTAGTCTTAATTTAGACAAAAAATATATATATGTTATGTCTTAATCTAAACAAGAAAACATG-
1 TTTGTCTTAATTTAGAC--AAGA-A-A-ACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
* * * *
24938391 GTTGTCTCAATATTAGACAAGATAACATCTTTTGTCTTAATT
1 TTTGTCTTAAT-TTAGACAAGAAAACATGTTTTGTCTTAATT
24938433 AAATACAAGA
Statistics
Matches: 329, Mismatches: 52, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
56 16 0.05
57 133 0.40
58 126 0.38
59 2 0.01
60 3 0.01
61 4 0.01
62 39 0.12
63 6 0.02
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (58 bp):
TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGT
Found at i:24938127 original size:86 final size:86
Alignment explanation
Indices: 24937982--24938432 Score: 512
Period size: 86 Copynumber: 5.2 Consensus size: 86
24937972 TAACTTTTAT
* *
24937982 ATGTTTGTCTTAATTTAGACAATAAAACATGTTTTGTCTTAATTTAGATAAGAAAACATGTTTTG
1 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTTG
* * *
24938047 TCTTAACTTAGACTAGAAGAC
66 TCTTAATTTAGACAAGAAAAC
* *
24938068 ATGTTTGTCTTAATTTAAACAAGAAAACATGTTTTGTTTTAATTTAGACAAGAAAACATG-TTTG
1 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTTG
* **
24938132 TTTTCTTTTAGACAAGAAAAC
66 TCTTAATTTAGACAAGAAAAC
* * * *
24938153 ACGTTTTGTCTTAATTTTGACAAGAAAACATGTTTTATCTTAACTTAGACAAGAAAACATGTTTT
1 ATG-TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTT
* * * *
24938218 GTCTTGATTTGGATACGAAAAC
65 GTCTTAATTTAGACAAGAAAAC
* *
24938240 ATGTTTGTCTTAATTTAGACAAGAAAACTTG-TTTGTCTTAATTTAGACAAGAAAAATATGTTTT
1 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAG-AAAACATGTTTT
* *
24938304 GTCTTAATCTAGACAACAAAAC
65 GTCTTAATTTAGACAAGAAAAC
* * * * * *
24938326 ATGTTAGTCTTAATTTAGACAAAAAATATATATATGTTATGTCTTAATCTAAACAAGAAAACATG
1 ATGTTTGTCTTAATTTAGAC--AAGA-A-A-ACATGTTTTGTCTTAATTTAGACAAGAAAACATG
* * *
24938391 -GTTGTCTCAATATTAGACAAGATAAC
61 TTTTGTCTTAAT-TTAGACAAGAAAAC
*
24938417 ATCTTTTGTCTTAATT
1 AT-GTTTGTCTTAATT
24938433 AAATACAAGA
Statistics
Matches: 305, Mismatches: 49, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
85 39 0.13
86 180 0.59
87 21 0.07
88 3 0.01
89 1 0.00
90 10 0.03
91 23 0.08
92 28 0.09
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (86 bp):
ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTTG
TCTTAATTTAGACAAGAAAAC
Found at i:24939498 original size:23 final size:23
Alignment explanation
Indices: 24939472--24939516 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
24939462 TATGAGTATA
*
24939472 GATTAATCAATTAGAGAATTGAG
1 GATTAATCAAATAGAGAATTGAG
* *
24939495 GATTAATTAAATAGAGATTTGA
1 GATTAATCAAATAGAGAATTGA
24939517 TTAATCTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (23 bp):
GATTAATCAAATAGAGAATTGAG
Found at i:24940097 original size:2 final size:2
Alignment explanation
Indices: 24940090--24940129 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
24940080 GAGAACCAAG
*
24940090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24940130 ACATTCCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24941172 original size:36 final size:36
Alignment explanation
Indices: 24941100--24941236 Score: 127
Period size: 36 Copynumber: 3.7 Consensus size: 36
24941090 GCTCAACAGC
* * *
24941100 TCATGTGCACTCCTACACCGCACATAGC-TAAAATCA
1 TCATGTGCACTCCCACACCGCACATGGCAT-ATATCA
24941136 TCATGTGCACTCCCACACCGCACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
* * * * *
24941172 TTAGCGTGTGCACTCCCACACCGCACA--ACACCATCACCG
1 -T--CATGTGCACTCCCACACCGCACATGGCA-TAT-ATCA
24941211 TCATGTGCACTCCCACACCGCACATG
1 TCATGTGCACTCCCACACCGCACATG
24941237 TACGGTTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
36 53 0.63
37 4 0.05
38 3 0.04
39 24 0.29
ACGTcount: A:0.28, C:0.39, G:0.14, T:0.20
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATGGCATATATCA
Found at i:24948055 original size:21 final size:21
Alignment explanation
Indices: 24948005--24948057 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
24947995 AAGAGTTTCA
*
24948005 CGCTACAACGAGAATAAATTT
1 CGCTACAGCGAGAATAAATTT
24948026 CGCTACAGCGAGAATAAATTT
1 CGCTACAGCGAGAATAAATTT
*
24948047 CGCTGCAGCGA
1 CGCTACAGCGA
24948058 AAATCTGGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (21 bp):
CGCTACAGCGAGAATAAATTT
Found at i:24948098 original size:31 final size:31
Alignment explanation
Indices: 24948055--24948117 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
24948045 TTCGCTGCAG
24948055 CGAAAATCTGGGCTAGTCAAGCCCCCAACAC
1 CGAAAATCTGGGCTAGTCAAGCCCCCAACAC
* *
24948086 CGAAAATTTGGGCTAGTCAGGCCCCCAACAC
1 CGAAAATCTGGGCTAGTCAAGCCCCCAACAC
24948117 C
1 C
24948118 CAAGATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.35, G:0.21, T:0.14
Consensus pattern (31 bp):
CGAAAATCTGGGCTAGTCAAGCCCCCAACAC
Found at i:24948432 original size:35 final size:36
Alignment explanation
Indices: 24948349--24948463 Score: 126
Period size: 36 Copynumber: 3.2 Consensus size: 36
24948339 TCTCACCAGC
* * *
24948349 TCATGTGCACTTCCACACCTCACAAAGCTAGA-ATCA
1 TCATGTGCACTCCCACACCGCACAAGGC-AGATATCA
*
24948385 TCCTGTGCACTCCCACACCGCACAAGGCA-ATATCA
1 TCATGTGCACTCCCACACCGCACAAGGCAGATATCA
* * * *
24948420 TCATGTGTACTCCCACATCGCACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACAAGGCAGATATCA
24948456 TCAGTGTG
1 TCA-TGTG
24948464 TACACTCACA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
34 1 0.01
35 30 0.44
36 33 0.49
37 4 0.06
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACAAGGCAGATATCA
Found at i:24948516 original size:52 final size:52
Alignment explanation
Indices: 24948438--24948542 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
24948428 ACTCCCACAT
24948438 CGCACATGGCATATATCATCAGTGTGTACACTCACACAGCACACCACTATCA
1 CGCACATGGCATATATCATCAGTGTGTACACTCACACAGCACACCACTATCA
* *
24948490 CGCACATGGCATATATCATTAGTGTGTGCACTCACACAGCACACCACTATCA
1 CGCACATGGCATATATCATCAGTGTGTACACTCACACAGCACACCACTATCA
24948542 C
1 C
24948543 CGTCATGTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.22
Consensus pattern (52 bp):
CGCACATGGCATATATCATCAGTGTGTACACTCACACAGCACACCACTATCA
Found at i:24953226 original size:21 final size:23
Alignment explanation
Indices: 24953197--24953249 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
24953187 GAGGAGGAAA
* *
24953197 GCTGCAGTGCTGA-GAA-ACAAG
1 GCTGTAGTGCCGAGGAAGACAAG
*
24953218 GCTGTAGTGCCGAGGAAGCCAAG
1 GCTGTAGTGCCGAGGAAGACAAG
24953241 GCTGTAGTG
1 GCTGTAGTG
24953250 TTGGAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 11 0.41
22 3 0.11
23 13 0.48
ACGTcount: A:0.26, C:0.19, G:0.38, T:0.17
Consensus pattern (23 bp):
GCTGTAGTGCCGAGGAAGACAAG
Found at i:24954495 original size:49 final size:49
Alignment explanation
Indices: 24954404--24954498 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
24954394 GAAGAATCTT
* *
24954404 TCAAGATCAAGTCATAAGACCCTTGAAGGGAAATACCCAAATTGTTTAC
1 TCAAGATCAAGTCATAAGACCCTTGAAGCGAAATACACAAATTGTTTAC
* * * * *
24954453 TCAAGATTAAGTCATAAGATCCTTGAAGCGAAGTGCATAAATTGTT
1 TCAAGATCAAGTCATAAGACCCTTGAAGCGAAATACACAAATTGTT
24954499 CATTGTTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (49 bp):
TCAAGATCAAGTCATAAGACCCTTGAAGCGAAATACACAAATTGTTTAC
Found at i:24957559 original size:19 final size:18
Alignment explanation
Indices: 24957532--24957569 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
24957522 AAAATTTTGT
*
24957532 ACATTATCATAATAATGAA
1 ACATAATCATAAT-ATGAA
24957551 ACATAATCATAATATGAA
1 ACATAATCATAATATGAA
24957569 A
1 A
24957570 TTAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (18 bp):
ACATAATCATAATATGAA
Found at i:24958304 original size:30 final size:30
Alignment explanation
Indices: 24958270--24958344 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
24958260 GAGGATAAAA
* * *
24958270 ATAAAATATTTAATATTTAA-AGATGAAATT
1 ATAAAATATTTAAAAATTAAGA-ATAAAATT
*
24958300 ATAAAATTTTTAGAAAATTAAGAATAAAATT
1 ATAAAATATTTA-AAAATTAAGAATAAAATT
24958331 AT-AAATATTTAAAA
1 ATAAAATATTTAAAA
24958345 CAAAACAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 3 0.08
30 19 0.50
31 15 0.39
32 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.37
Consensus pattern (30 bp):
ATAAAATATTTAAAAATTAAGAATAAAATT
Found at i:24968469 original size:108 final size:108
Alignment explanation
Indices: 24968258--24968466 Score: 366
Period size: 107 Copynumber: 1.9 Consensus size: 108
24968248 TAAAATGACT
* *
24968258 AAATATGTTGATTTAGTTATAACTTTCACAATTTATAAATACACATTCTTTTGAAATTATTCAAC
1 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATTATTCAAC
24968323 TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAACG
66 TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAACG
* *
24968366 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATT-TTTTGCAATTATTCAGC
1 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATTATTCAAC
*
24968430 TCTTATCCAATTTACCTTTTATTTAAATTTACTCAAA
66 TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAA
24968467 ATTTCTTATA
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 51 0.53
108 45 0.47
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (108 bp):
AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATTATTCAAC
TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAACG
Found at i:24969279 original size:31 final size:31
Alignment explanation
Indices: 24969209--24969296 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
24969199 TATTTTTCAA
* *
24969209 ATATTTTTTTTCAATTTAGTCCCTGAACATTTC
1 ATATTTTTGTTCAATTTAGTCCCT--ATATTTC
24969242 A-A-TTTTGTTCAATTTAGTCCCTATATTAT-
1 ATATTTTTGTTCAATTTAGTCCCTATATT-TC
*
24969271 ATATTTTTGTTCAATTTAATCCCTAT
1 ATATTTTTGTTCAATTTAGTCCCTAT
24969297 GACGTGGTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
29 5 0.10
30 2 0.04
31 40 0.82
32 1 0.02
33 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (31 bp):
ATATTTTTGTTCAATTTAGTCCCTATATTTC
Found at i:24970143 original size:16 final size:16
Alignment explanation
Indices: 24970122--24970152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24970112 TGACCATGAT
24970122 AGTTATAAACTACAAG
1 AGTTATAAACTACAAG
*
24970138 AGTTATAATCTACAA
1 AGTTATAAACTACAA
24970153 TAACAGTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (16 bp):
AGTTATAAACTACAAG
Found at i:24971175 original size:22 final size:22
Alignment explanation
Indices: 24971132--24971180 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24971122 AATACCATTG
* *
24971132 ATAACTAAATTATAAATTTTAT
1 ATAATTAAATTATAAATATTAT
24971154 ATAATTAAATATATAAA-ATTAT
1 ATAATTAAAT-TATAAATATTAT
24971176 -TAATT
1 ATAATT
24971181 TCTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 13 0.54
23 6 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATTAAATTATAAATATTAT
Found at i:24972532 original size:2 final size:2
Alignment explanation
Indices: 24972525--24972549 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24972515 AAGCTGATAC
24972525 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24972550 TAATAACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24975485 original size:30 final size:30
Alignment explanation
Indices: 24975451--24975514 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
24975441 ACAATAGATG
24975451 GCCATTTTGTAACTAGTAAATTCCCGACAC
1 GCCATTTTGTAACTAGTAAATTCCCGACAC
24975481 GCCATTTTGTAACTAGTAAATTCCCGACAC
1 GCCATTTTGTAACTAGTAAATTCCCGACAC
24975511 GCCA
1 GCCA
24975515 CGGGTGCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (30 bp):
GCCATTTTGTAACTAGTAAATTCCCGACAC
Found at i:24983482 original size:33 final size:33
Alignment explanation
Indices: 24983445--24983511 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
24983435 ATAGAAAGTA
24983445 CTTAAAAAAAGGAAAAATAACTGAAGCATAGAG
1 CTTAAAAAAAGGAAAAATAACTGAAGCATAGAG
24983478 CTTAAAAAAAGGAAAAATAACTGAAGCATAGAG
1 CTTAAAAAAAGGAAAAATAACTGAAGCATAGAG
24983511 C
1 C
24983512 CAAACCTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.57, C:0.10, G:0.18, T:0.15
Consensus pattern (33 bp):
CTTAAAAAAAGGAAAAATAACTGAAGCATAGAG
Found at i:24991005 original size:21 final size:21
Alignment explanation
Indices: 24990981--24991021 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24990971 AGGAGAAGCG
* *
24990981 GGAGGAGTGGGAGTTTTGGGA
1 GGAGGAATGGGAATTTTGGGA
24991002 GGAGGAATGGGAATTTTGGG
1 GGAGGAATGGGAATTTTGGG
24991022 TGATTGGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.54, T:0.24
Consensus pattern (21 bp):
GGAGGAATGGGAATTTTGGGA
Found at i:25004717 original size:21 final size:21
Alignment explanation
Indices: 25004693--25004732 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
25004683 TTAAGAGATA
25004693 TCTTCCAACAATGAGAAAGGG
1 TCTTCCAACAATGAGAAAGGG
25004714 TCTTCCAACAATGAGAAAG
1 TCTTCCAACAATGAGAAAG
25004733 AAGTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
TCTTCCAACAATGAGAAAGGG
Found at i:25005599 original size:23 final size:23
Alignment explanation
Indices: 25005572--25005625 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
25005562 GTGAATATTT
25005572 TTAAGGCATTGCGTCACTGGATA
1 TTAAGGCATTGCGTCACTGGATA
* *
25005595 TTAAGGTA-T--GTGACTGGATA
1 TTAAGGCATTGCGTCACTGGATA
25005615 TT-AGGCATTGC
1 TTAAGGCATTGC
25005626 ATGACTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
22 1 0.04
23 7 0.28
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (23 bp):
TTAAGGCATTGCGTCACTGGATA
Found at i:25006061 original size:9 final size:9
Alignment explanation
Indices: 25006047--25006104 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
25006037 ATTTAGGTAT
25006047 TTTTATTTA
1 TTTTATTTA
25006056 TTTTA-TTA
1 TTTTATTTA
25006064 TTTTATTTA
1 TTTTATTTA
*
25006073 TTTTAGTT-
1 TTTTATTTA
**
25006081 TTACA-TTA
1 TTTTATTTA
25006089 TTTATATTTA
1 TTT-TATTTA
25006099 TTTTAT
1 TTTTAT
25006105 GTTTTTATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
7 2 0.05
8 13 0.32
9 19 0.47
10 6 0.15
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:25006091 original size:20 final size:20
Alignment explanation
Indices: 25006066--25006103 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25006056 TTTTATTATT
25006066 TTATTTAT-TTTAGTTTTACA
1 TTATTTATATTTA-TTTTACA
25006086 TTATTTATATTTATTTTA
1 TTATTTATATTTATTTTA
25006104 TGTTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATTTATATTTATTTTACA
Found at i:25007203 original size:49 final size:51
Alignment explanation
Indices: 25007146--25007330 Score: 198
Period size: 55 Copynumber: 3.5 Consensus size: 51
25007136 AACTTGTGGG
* *
25007146 GTGTGGGAGTACACATGCCGGTGATGA-C-GG-G-TGATTCCAGCTATGTGC
1 GTGTGGGAGTACACATG-AGCTGATGACCAGGAGATGATTCCAGCTATGTGC
* * *
25007194 AGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGATGATTCTAGCTATGTGC
1 -GTGTGGGAGTACACATGAGCTGATGACC--AGGA-GATGATTCCAGCTATGTGC
*
25007249 GATGTGGGAGTGCACATGAGCTGATGACCAATGGATGATGATTCCAGCTATGTGC
1 G-TGTGGGAGTACACATGAGCTGATGACC-A-GGA-GATGATTCCAGCTATGTGC
25007304 GGTGTGGGAGTACACATGAGCTGATGA
1 -GTGTGGGAGTACACATGAGCTGATGA
25007331 GTCGGTGGTT
Statistics
Matches: 118, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
48 7 0.06
49 17 0.14
52 2 0.02
54 2 0.02
55 89 0.75
56 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (51 bp):
GTGTGGGAGTACACATGAGCTGATGACCAGGAGATGATTCCAGCTATGTGC
Found at i:25007237 original size:55 final size:54
Alignment explanation
Indices: 25007177--25007330 Score: 245
Period size: 55 Copynumber: 2.8 Consensus size: 54
25007167 TGATGACGGG
**
25007177 TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
1 TGATTCCAGCTATGTGC-GTGTGGGAGTGCACATGAGCTGATGACCAATGGATGA
*
25007232 TGATTCTAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCAATGGATGA
1 TGATTCCAGCTATGTGCG-TGTGGGAGTGCACATGAGCTGATGACCAATGGATGA
*
25007287 TGATTCCAGCTATGTGCGGTGTGGGAGTACACATGAGCTGATGA
1 TGATTCCAGCTATGTGC-GTGTGGGAGTGCACATGAGCTGATGA
25007331 GTCGGTGGTT
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
54 1 0.01
55 90 0.98
56 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (54 bp):
TGATTCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTGATGACCAATGGATGA
Found at i:25009183 original size:16 final size:15
Alignment explanation
Indices: 25009144--25009195 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
25009134 TCAAACAACC
*
25009144 AAAATTAAAAATACT
1 AAAATTAAAAAAACT
*
25009159 GAAAGTTAAAGAAAACT
1 -AAAATTAAA-AAAACT
25009176 AAAATTAAACTAAAACT
1 AAAATTAAA--AAAACT
25009193 AAA
1 AAA
25009196 TACAAGAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAATTAAAAAAACT
Found at i:25009809 original size:12 final size:13
Alignment explanation
Indices: 25009781--25009821 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
25009771 TATAAGCATT
25009781 AAAACTATACAAG
1 AAAACTATACAAG
25009794 -AAACTATA-AAG
1 AAAACTATACAAG
* *
25009805 AAAACTAAAGAAG
1 AAAACTATACAAG
25009818 AAAA
1 AAAA
25009822 GAATTCCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 3 0.12
12 15 0.60
13 7 0.28
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (13 bp):
AAAACTATACAAG
Found at i:25016823 original size:20 final size:19
Alignment explanation
Indices: 25016794--25016832 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
25016784 AGAACCGTGA
25016794 AGCCCATCTATCGATAAAT
1 AGCCCATCTATCGATAAAT
*
25016813 AGCCGCATCTATCGGTAAAT
1 AGCC-CATCTATCGATAAAT
25016833 GATGGCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
AGCCCATCTATCGATAAAT
Found at i:25019877 original size:42 final size:42
Alignment explanation
Indices: 25019830--25019911 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
25019820 CATCTCATAT
*
25019830 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTTA
1 GCAACGACTTATGTGCACTCCCACTCGCACATAGCCGGGTTA
*
25019872 GCAACGACTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 GCAACGACTTATGTGCACTCCCACTCGCACATAGCCGGGT
25019912 CCACATCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (42 bp):
GCAACGACTTATGTGCACTCCCACTCGCACATAGCCGGGTTA
Found at i:25031776 original size:34 final size:37
Alignment explanation
Indices: 25031728--25031805 Score: 117
Period size: 34 Copynumber: 2.2 Consensus size: 37
25031718 CTTCCTTCCC
*
25031728 AAAAATCTAGCAGCACAAAGCCTCTCTTT-C-CTCTA
1 AAAAATCGAGCAGCACAAAGCCTCTCTTTCCTCTCTA
*
25031763 AAAAATCGA-CAGCACAAGGCCTCTCTTTCCTCTCTA
1 AAAAATCGAGCAGCACAAAGCCTCTCTTTCCTCTCTA
25031799 AAAAATC
1 AAAAATC
25031806 AACTCCTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
34 18 0.46
35 9 0.23
36 12 0.31
ACGTcount: A:0.36, C:0.31, G:0.09, T:0.24
Consensus pattern (37 bp):
AAAAATCGAGCAGCACAAAGCCTCTCTTTCCTCTCTA
Found at i:25032421 original size:26 final size:23
Alignment explanation
Indices: 25032378--25032429 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 23
25032368 ACCCTTCAAC
25032378 TTTCGTATTTTAAAATTC-AATCT
1 TTTCGTATTTTAAAATTCTAAT-T
25032401 TTTCGATATGTTTAAAAATTCTAATT
1 TTTCG-TAT-TTT-AAAATTCTAATT
25032427 TTT
1 TTT
25032430 ATCTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.20
24 3 0.12
25 3 0.12
26 11 0.44
27 3 0.12
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.54
Consensus pattern (23 bp):
TTTCGTATTTTAAAATTCTAATT
Found at i:25036799 original size:20 final size:20
Alignment explanation
Indices: 25036774--25036812 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25036764 CTATTAATTG
*
25036774 ATTCCTAAATTTATCGATAA
1 ATTCCTAAATCTATCGATAA
25036794 ATTCCTAAATCTATCGATA
1 ATTCCTAAATCTATCGATA
25036813 GATTTCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTCCTAAATCTATCGATAA
Found at i:25036913 original size:20 final size:20
Alignment explanation
Indices: 25036890--25036927 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25036880 GGGGAAACTA
25036890 TCAAATGTATCGATACATTC
1 TCAAATGTATCGATACATTC
25036910 TCAAATGTATCGATACAT
1 TCAAATGTATCGATACAT
25036928 CCCCGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
TCAAATGTATCGATACATTC
Found at i:25038610 original size:2 final size:2
Alignment explanation
Indices: 25038603--25038634 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
25038593 TGATAGTGCA
*
25038603 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25038635 CTGTATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25038615 original size:127 final size:130
Alignment explanation
Indices: 25038401--25038662 Score: 431
Period size: 127 Copynumber: 2.0 Consensus size: 130
25038391 AATTTGTGGA
*
25038401 ATACTTTTAGGGATGAATGATATGCCCCTAATGTTGGAGACGTTTGTTAAAACATTTTGTATGCA
1 ATACTTTTAGGGATGAATGATATGCCCCTAATGTTGAAGACGTTTGTTAAAACATTTTGTATGCA
*
25038466 TGATAGTGC-A-ATATATATATATATATACAT-ATATATGTGTATATGATTATCTACACTAATAT
66 TGATAGTGCAATATATATATATATATATACATAATATATCTGTATATGATTATCTACACTAATAT
* *
25038528 ATACTTTTAGGGATGAATGATATGCCCCTAATGTTGAAGATGTTTGTTAAAACATTTTGTATGCG
1 ATACTTTTAGGGATGAATGATATGCCCCTAATGTTGAAGACGTTTGTTAAAACATTTTGTATGCA
*
25038593 TGATAGTGCAATATATATATATATATATATATATACATATATCTGTATATGATTATCTACACTAA
66 TGATAGTGC-A-ATATATATATATATATATACATA-ATATATCTGTATATGATTATCTACACTAA
25038658 TAT
128 TAT
25038661 AT
1 AT
25038663 TTAAGTTATC
Statistics
Matches: 124, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
127 71 0.57
130 1 0.01
131 19 0.15
133 33 0.27
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (130 bp):
ATACTTTTAGGGATGAATGATATGCCCCTAATGTTGAAGACGTTTGTTAAAACATTTTGTATGCA
TGATAGTGCAATATATATATATATATATACATAATATATCTGTATATGATTATCTACACTAATAT
Found at i:25044102 original size:43 final size:43
Alignment explanation
Indices: 25044027--25044145 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 43
25044017 TTCCCAGCTC
* * * ** * *
25044027 ATGCACACTCCTTACTCGCACATGGCTAGGTCATCATCGAGTT
1 ATGCGCACTCCCTACTCACACATAACCAGGTCATCACCGAGTT
* * *
25044070 ATGCGCACTCCCTACTCACACTTAACCGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCACACATAACCAGGTCATCACCGAGTT
*
25044113 ATGCGCACTCCCTACTCGCACATAACCAGGTCA
1 ATGCGCACTCCCTACTCACACATAACCAGGTCA
25044146 ATATCATTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCACACATAACCAGGTCATCACCGAGTT
Found at i:25047698 original size:43 final size:43
Alignment explanation
Indices: 25047567--25047726 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
25047557 TTCCCAGCTC
* * **
25047567 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATC-ACTGGGTT
1 ATGCGTACTCCCTACTCGCACATAGCCGGGTCATCAAC-GGGTT
*
25047610 ATGC-TCACTCCCTACTCGCACATAACCGGGTCATCATA-GGGTT
1 ATGCGT-ACTCCCTACTCGCACATAGCCGGGTCATCA-ACGGGTT
* * *
25047653 ATGCGTACTCCCTACTCTCACATAGCCGGGTCAGCAACGGCTT
1 ATGCGTACTCCCTACTCGCACATAGCCGGGTCATCAACGGGTT
* * * * *
25047696 ATGTGCACT-CCTAGTCGGACATAGCCAGGTC
1 ATGCGTACTCCCTACTCGCACATAGCCGGGTC
25047727 CACATCAACA
Statistics
Matches: 97, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 19 0.20
43 76 0.78
44 1 0.01
45 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (43 bp):
ATGCGTACTCCCTACTCGCACATAGCCGGGTCATCAACGGGTT
Found at i:25049929 original size:2 final size:2
Alignment explanation
Indices: 25049890--25049917 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25049880 NNNNNNNNNN
25049890 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25049918 TGTACATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25062588 original size:8 final size:9
Alignment explanation
Indices: 25062563--25062593 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
25062553 AAGACAAAAA
25062563 TTATTTTATT
1 TTATTTT-TT
25062573 TTATTTTTT
1 TTATTTTTT
25062582 TTATTTTTT
1 TTATTTTTT
25062591 TTA
1 TTA
25062594 AAAGGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTATTTTTT
Found at i:25065731 original size:39 final size:39
Alignment explanation
Indices: 25065680--25065815 Score: 161
Period size: 39 Copynumber: 3.6 Consensus size: 39
25065670 GTGCCGGTAG
* *
25065680 TGTGCGGTGTGGGAGAGCACATGCCGATGATATATGCCA
1 TGTGCAGTGTGGGAGAGCACATGACGATGATATATGCCA
* *
25065719 TGTTCAGTGTGGGAGAGCACATGATGATGATATATGCCA
1 TGTGCAGTGTGGGAGAGCACATGACGATGATATATGCCA
* * *
25065758 TGTGCAGTGTGGGAGTGCACATGAAGAT-AT-TA-GCTA
1 TGTGCAGTGTGGGAGAGCACATGACGATGATATATGCCA
* * *
25065794 TATGCGGTGTGGGAGTGCACAT
1 TGTGCAGTGTGGGAGAGCACAT
25065816 AAGCTAAGTT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
36 23 0.26
37 2 0.02
38 2 0.02
39 60 0.69
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26
Consensus pattern (39 bp):
TGTGCAGTGTGGGAGAGCACATGACGATGATATATGCCA
Found at i:25071344 original size:20 final size:20
Alignment explanation
Indices: 25071315--25071363 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
25071305 CTAGGAGAGA
*
25071315 GAAAGGAAG-AAAGAAGAAAG
1 GAAAGAAAGAAAAGAA-AAAG
25071335 GAAAGAAAGAAAAGAAAAAG
1 GAAAGAAAGAAAAGAAAAAG
25071355 GAAGAGAAA
1 GAA-AGAAA
25071364 AGCTCAGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGAAAAGAAAAAG
Found at i:25074712 original size:38 final size:39
Alignment explanation
Indices: 25074661--25074763 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 39
25074651 NNNNNNNNNG
*
25074661 TGTGCACGATGTGGGGGGATGTACACGAT-AGCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGAGC-CGGATA
* * * *
25074699 TGTGCACGATGTGGGGGGATGCACATGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGAT-GAGCCGGATA
25074739 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
25074764 TGAGCCGGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 27 0.48
39 3 0.05
40 26 0.46
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGTACACGATGAGCCGGATA
Found at i:25074754 original size:40 final size:38
Alignment explanation
Indices: 25074661--25074766 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 38
25074651 NNNNNNNNNG
* *
25074661 TGTGCACGATGTGGGGGGATGTACACGATAGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATAGCACGGAT
* * *
25074699 TGTGCACGATGTGGGGGGATGCACATGATGGTGC-CGGCT
1 TGTGCACGATGTGGGGGGATGTACATGAT--AGCACGGAT
25074738 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
25074767 GCCGGAAGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 27 0.46
39 3 0.05
40 29 0.49
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.24
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATAGCACGGAT
Found at i:25078875 original size:28 final size:27
Alignment explanation
Indices: 25078844--25078896 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
25078834 TTTAAAGCAT
*
25078844 AAGGGCAAAATGGTAATTTTACCACCCC
1 AAGGGCAAAATAGTAATTTT-CCACCCC
25078872 AAGGGCAAAATAGTAATTTTCCACC
1 AAGGGCAAAATAGTAATTTTCCACC
25078897 ACCAGCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (27 bp):
AAGGGCAAAATAGTAATTTTCCACCCC
Found at i:25121296 original size:36 final size:38
Alignment explanation
Indices: 25121205--25121316 Score: 165
Period size: 36 Copynumber: 3.0 Consensus size: 38
25121195 TCAACTCAGC
* * *
25121205 TCATGTGCACTCCCACACCGCATATTGCATATATCATTA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCA-TA
*
25121244 TCATGTGCTCTTCCACACCGCACATGGCATATATCAT-
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATA
25121281 T-ATGTGCTCTCCCACACCGCACATGGCATATATCAT
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCAT
25121317 CGGCGTGTGC
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
36 34 0.50
37 1 0.01
38 1 0.01
39 32 0.47
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (38 bp):
TCATGTGCTCTCCCACACCGCACATGGCATATATCATA
Found at i:25122522 original size:15 final size:14
Alignment explanation
Indices: 25122487--25122528 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
25122477 TTTTCTCTCC
25122487 CTTTTTCCTTTCTT
1 CTTTTTCCTTTCTT
*
25122501 -TCTTTCCTTTCTT
1 CTTTTTCCTTTCTT
25122514 CTTTATTCCTTTCTT
1 CTTT-TTCCTTTCTT
25122529 TCTCCTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.50
14 2 0.08
15 10 0.42
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTTTCCTTTCTT
Found at i:25128313 original size:19 final size:19
Alignment explanation
Indices: 25128289--25128326 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25128279 TACTAGGGCG
25128289 TATAAAACCCTTGTCCACT
1 TATAAAACCCTTGTCCACT
25128308 TATAAAACCCTTGTCCACT
1 TATAAAACCCTTGTCCACT
25128327 AACTCTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (19 bp):
TATAAAACCCTTGTCCACT
Found at i:25137359 original size:20 final size:20
Alignment explanation
Indices: 25137334--25137389 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
25137324 GAAATTTCAA
25137334 AAATGTATCAATACATTCCC
1 AAATGTATCAATACATTCCC
25137354 AAATGTATCAATACATTCCC
1 AAATGTATCAATACATTCCC
25137374 AAATGTATCAATACAT
1 AAATGTATCAATACAT
25137390 CCCTGTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATGTATCAATACATTCCC
Found at i:25138983 original size:2 final size:2
Alignment explanation
Indices: 25138976--25139005 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25138966 TAATGCGATA
25138976 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
25139006 CATGATTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:25142108 original size:27 final size:29
Alignment explanation
Indices: 25142078--25142148 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 29
25142068 ATGTTTTAAT
25142078 TATAAATTATCAATATT-T-TAAATGAAA
1 TATAAATTATCAATATTCTATAAATGAAA
* * *
25142105 TATATATTATTAATATTCTATAAATTAAA
1 TATAAATTATCAATATTCTATAAATGAAA
*
25142134 -ATAAATAATC-ATATT
1 TATAAATTATCAATATT
25142149 AAAACTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 20 0.56
28 8 0.22
29 8 0.22
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (29 bp):
TATAAATTATCAATATTCTATAAATGAAA
Done.