Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 89 of 206
Found at i:25734122 original size:40 final size:41
Alignment explanation
Indices: 25734070--25734147 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
25734060 TTTTGAAAAC
* *
25734070 AAAGTCTTAGAACTTAAAAACAAGGTTTTGTC-AAAAACTT
1 AAAGTCTCAGAACTTAAAAACAAGGTTTTATCGAAAAACTT
*
25734110 AAAGTCTCAGAACTTGAAAACAAGGTTTTATCGAAAAA
1 AAAGTCTCAGAACTTAAAAACAAGGTTTTATCGAAAAA
25734148 TTTCTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 29 0.85
41 5 0.15
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (41 bp):
AAAGTCTCAGAACTTAAAAACAAGGTTTTATCGAAAAACTT
Found at i:25737103 original size:22 final size:22
Alignment explanation
Indices: 25737052--25737105 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
25737042 TTTAATTTGA
*
25737052 AGGATTTAGGATTTTAAGGTCT
1 AGGATTTAAGATTTTAAGGTCT
*
25737074 AGTG-TTTAAGATTTT-AGGATTT
1 AG-GATTTAAGATTTTAAGG-TCT
25737096 AGGATTTAAG
1 AGGATTTAAG
25737106 GTCCAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.15
22 22 0.81
23 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (22 bp):
AGGATTTAAGATTTTAAGGTCT
Found at i:25737135 original size:36 final size:37
Alignment explanation
Indices: 25737046--25737138 Score: 111
Period size: 36 Copynumber: 2.5 Consensus size: 37
25737036 TTAATGTTTA
*
25737046 ATTTGAAGGATTTAGGATTTTAAGGTCTAGTGTTTAAG
1 ATTTGAAGGATTTAGGA-TTTAAGGTCCAGTGTTTAAG
* *
25737084 ATTT-TAGGATTTAGGATTTAAGGTCCAGTGTTTACTG
1 ATTTGAAGGATTTAGGATTTAAGGTCCAGTGTTTA-AG
*
25737121 -TTTGAAGG-TCTAGGATTT
1 ATTTGAAGGATTTAGGATTT
25737139 CAATTGTTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
36 29 0.60
37 15 0.31
38 4 0.08
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.43
Consensus pattern (37 bp):
ATTTGAAGGATTTAGGATTTAAGGTCCAGTGTTTAAG
Found at i:25740936 original size:57 final size:57
Alignment explanation
Indices: 25740867--25740977 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
25740857 CGTTTTATTT
* *
25740867 AAATTGTTCCCACAGAATCTCAGCCAAGGCTATCACAACCTACATTCAAAAGAACAG
1 AAATTGTTCCCACAGAACCTCAGCCAAGGCCATCACAACCTACATTCAAAAGAACAG
* *
25740924 AAATTGTTCCCACAGAACCTCAGTCAAGGCCATCATAACCTACATTCAAAAGAA
1 AAATTGTTCCCACAGAACCTCAGCCAAGGCCATCACAACCTACATTCAAAAGAA
25740978 TTGAAGTGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.20
Consensus pattern (57 bp):
AAATTGTTCCCACAGAACCTCAGCCAAGGCCATCACAACCTACATTCAAAAGAACAG
Found at i:25744769 original size:48 final size:48
Alignment explanation
Indices: 25744704--25744805 Score: 204
Period size: 48 Copynumber: 2.1 Consensus size: 48
25744694 AAGCTACCAC
25744704 TATTATGCTATTCTATGGAGCTTTTTTTTTTTGTTCATTATGCTATTA
1 TATTATGCTATTCTATGGAGCTTTTTTTTTTTGTTCATTATGCTATTA
25744752 TATTATGCTATTCTATGGAGCTTTTTTTTTTTGTTCATTATGCTATTA
1 TATTATGCTATTCTATGGAGCTTTTTTTTTTTGTTCATTATGCTATTA
25744800 TATTAT
1 TATTAT
25744806 CAGTCTTGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.59
Consensus pattern (48 bp):
TATTATGCTATTCTATGGAGCTTTTTTTTTTTGTTCATTATGCTATTA
Found at i:25746062 original size:16 final size:16
Alignment explanation
Indices: 25746038--25746075 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
25746028 GGAAATTAGA
*
25746038 ATCACTTATTTTAATC
1 ATCAATTATTTTAATC
25746054 ATCAATTATTTTAATC
1 ATCAATTATTTTAATC
25746070 ATCAAT
1 ATCAAT
25746076 GTTTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (16 bp):
ATCAATTATTTTAATC
Found at i:25746084 original size:16 final size:16
Alignment explanation
Indices: 25746038--25746084 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
25746028 GGAAATTAGA
* *
25746038 ATCACTTATTTTAATC
1 ATCAATTATTATAATC
*
25746054 ATCAATTATTTTAATC
1 ATCAATTATTATAATC
25746070 ATCAATGT-TTATAAT
1 ATCAAT-TATTATAAT
25746085 TTTTGTCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (16 bp):
ATCAATTATTATAATC
Found at i:25753098 original size:52 final size:54
Alignment explanation
Indices: 25753036--25753156 Score: 126
Period size: 52 Copynumber: 2.3 Consensus size: 54
25753026 TATGAAAGTG
* * * * * *
25753036 ATTATCTTAATATTAAA-TTAA-ATTTAATGTTTATCTTA-TGGATAAGTATTTT
1 ATTATTTTAATATTAAATTTAATATTAAAT-TTAATCTAACTGGATAAATATTAT
*
25753088 ATTATTTTAATA--AAATTTAATATTAAATTTAATCTAACTTGATAAATATTAT
1 ATTATTTTAATATTAAATTTAATATTAAATTTAATCTAACTGGATAAATATTAT
*
25753140 ATTAATTTAATATTAAA
1 ATTATTTTAATATTAAA
25753157 GTGATTAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
50 3 0.05
51 11 0.20
52 39 0.70
54 3 0.05
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (54 bp):
ATTATTTTAATATTAAATTTAATATTAAATTTAATCTAACTGGATAAATATTAT
Found at i:25753445 original size:30 final size:30
Alignment explanation
Indices: 25753409--25753469 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
25753399 GCCCACACTC
25753409 GGCAGACGTGAGCTTGAGGATAGCAGATAA
1 GGCAGACGTGAGCTTGAGGATAGCAGATAA
25753439 GGCAGACGTGAGCTTGAGGATAGCAGATAA
1 GGCAGACGTGAGCTTGAGGATAGCAGATAA
25753469 G
1 G
25753470 ACTACTCCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.38, T:0.16
Consensus pattern (30 bp):
GGCAGACGTGAGCTTGAGGATAGCAGATAA
Found at i:25757923 original size:13 final size:13
Alignment explanation
Indices: 25757905--25757934 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25757895 AAACTAGATT
*
25757905 TTAACTAAGTAAA
1 TTAACTAAGAAAA
25757918 TTAACTAAGAAAA
1 TTAACTAAGAAAA
25757931 TTAA
1 TTAA
25757935 AAAGGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:25786519 original size:24 final size:24
Alignment explanation
Indices: 25786485--25786540 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
25786475 TCCCAAGGGC
*
25786485 TACAGTAGATTGAACCTTGAGGAT
1 TACAGTAGATTGAACCTTGAAGAT
*
25786509 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTAGATTGAACCTTGAAGAT
25786533 TACAGTAG
1 TACAGTAG
25786541 GGGCAATCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
TACAGTAGATTGAACCTTGAAGAT
Found at i:25786923 original size:24 final size:24
Alignment explanation
Indices: 25786869--25786924 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
25786859 TCCCAAGGGC
*
25786869 TACAGTAGATTAAACCTTAAGGAT
1 TACAGTGGATTAAACCTTAAGGAT
*
25786893 TACAGTGGATTGAACCTTGAA-GAT
1 TACAGTGGATTAAACCTT-AAGGAT
25786917 TACAGTGG
1 TACAGTGG
25786925 GGGCAATCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (24 bp):
TACAGTGGATTAAACCTTAAGGAT
Found at i:25787258 original size:45 final size:46
Alignment explanation
Indices: 25787189--25787433 Score: 207
Period size: 41 Copynumber: 5.6 Consensus size: 46
25787179 TGAAAAAGTT
* **
25787189 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTTAAAACCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCATCA
* *
25787234 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA--T----CGCATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAAC-CATCA
* ** *
25787275 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAA-AATC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCATCA
* * *
25787319 AATCCTATGTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCATCA
* * * *
25787364 GATCTTATCTCTCTGAAGTTGCAGT--AG-AG---CAAATCGCATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAAC-CATCA
*
25787405 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
25787434 TGGATTAAAC
Statistics
Matches: 160, Mismatches: 26, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
39 5 0.03
40 4 0.03
41 56 0.35
42 2 0.01
43 5 0.03
44 35 0.22
45 53 0.33
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (46 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCATCA
Found at i:25787261 original size:384 final size:383
Alignment explanation
Indices: 25786408--25787186 Score: 1326
Period size: 384 Copynumber: 2.0 Consensus size: 383
25786398 CGGTAGGAGA
* * * ** *
25786408 AGATTGAGAAAGAGCCAGATCTTATACTCCTAAATTACAGTAGGAAAAATATAATTCAAATTTTA
1 AGATTGAGAAAGAGCCAGATCCTATACTCCTAAATTACAGTAGGAAGAAGATAACACAAATCTTA
* * *
25786473 TGTCCCAAGGGCTACAGTAGATTGAACCTTGAGGATTACAGTGGATTGAACCTTGAAGATTACAG
66 TCTCCCAA-GGCTACAGTAGATTAAACCTTAAGGATTACAGTGGATTGAACCTTGAAGATTACAG
*
25786538 TAGGGGCAATCGGATTAAGTAAGATATGGGTGTTACCAGGAAAATAAAGATAACGTTTTGACGTG
130 TAGGGGCAATCCGATTAAGTAAGATATGGGTGTTACCAGGAAAATAAAGATAACGTTTTGACGTG
25786603 TTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCATG
195 TTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCATG
*
25786668 ACATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCTATCATAACATCC
260 ACATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATAACATCC
25786733 TAATCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
325 TAATCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
* ** *
25786792 AGATTGAGAAAGAGCCAGATCTTATACTCCTAAATTACAGTAGGAAGAAGATAATTCAAATTTTA
1 AGATTGAGAAAGAGCCAGATCCTATACTCCTAAATTACAGTAGGAAGAAGATAACACAAATCTTA
*
25786857 TGTCCCAAGGGCTACAGTAGATTAAACCTTAAGGATTACAGTGGATTGAACCTTGAAGATTACAG
66 TCTCCCAA-GGCTACAGTAGATTAAACCTTAAGGATTACAGTGGATTGAACCTTGAAGATTACAG
* * *
25786922 TGGGGGCAATCCGATTATGTAAGATATGTGTGTTACCAGGAAAATAAAGATAACGTTTTGACGTG
130 TAGGGGCAATCCGATTAAGTAAGATATGGGTGTTACCAGGAAAATAAAGATAACGTTTTGACGTG
25786987 TTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCATG
195 TTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCATG
* *
25787052 GCA-TTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATATCATCC
260 ACATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATAACATCC
*
25787116 TAATCACTAGACATAAATAGGCCATGTAAAAATATTACAGGTCATGTTCCCCAGAGAAC
325 TAATCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
*
25787175 AGATTGAAAAAG
1 AGATTGAGAAAG
25787187 TTAATCCTAT
Statistics
Matches: 382, Mismatches: 13, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
383 128 0.34
384 254 0.66
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (383 bp):
AGATTGAGAAAGAGCCAGATCCTATACTCCTAAATTACAGTAGGAAGAAGATAACACAAATCTTA
TCTCCCAAGGCTACAGTAGATTAAACCTTAAGGATTACAGTGGATTGAACCTTGAAGATTACAGT
AGGGGCAATCCGATTAAGTAAGATATGGGTGTTACCAGGAAAATAAAGATAACGTTTTGACGTGT
TGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCATGA
CATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATAACATCCT
AATCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
Found at i:25787407 original size:130 final size:130
Alignment explanation
Indices: 25787174--25787433 Score: 457
Period size: 130 Copynumber: 2.0 Consensus size: 130
25787164 CCCCAGAGAA
* * * *
25787174 CAGATTGAAAAAGTTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTTAAAACCACAAATCT
1 CAGATAGAAAAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAAATCT
*
25787239 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
25787304 CAGATAGAAAAAATCAATCCTATGTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCT
1 CAGATAGAAAAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAAATCT
25787369 TATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
25787434 TGGATTAAAC
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (130 bp):
CAGATAGAAAAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAAATCT
TATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:25787467 original size:85 final size:86
Alignment explanation
Indices: 25787328--25787489 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 86
25787318 CAATCCTATG
* * * *
25787328 TCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAG
1 TCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAAAACTTATCCCTCAGAAGTTGCAGTAGAG
25787393 CAAATCGCATCAAGTCTTATC
66 CAAATCGCATCAAGTCTTATC
* * *
25787414 TCCCTGAAGTTGCAGTGGAGTGGA-TT-AAACTGATAAAACTTATCCCTCAGAAGTTGCAGTAGA
1 TCCCTGAAGTTGCAGTGGAGTAGATTTAAAAC-CACAAAACTTATCCCTCAGAAGTTGCAGTAGA
**
25787477 GCAGGTCGCATCA
65 GCAAATCGCATCA
25787490 GAATTTTCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
84 4 0.06
85 39 0.59
86 23 0.35
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (86 bp):
TCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAAAACTTATCCCTCAGAAGTTGCAGTAGAG
CAAATCGCATCAAGTCTTATC
Found at i:25790434 original size:42 final size:43
Alignment explanation
Indices: 25790365--25790450 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 43
25790355 TTTTACCCTA
*
25790365 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATA-TTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAA-ACTAGGGTTGTT
**
25790408 GAAAAAAGAATTTAAAAA-ATTAGAAGATAAACTAGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACTAGGGTTGTT
25790450 G
1 G
25790451 GATTTACCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 1 0.03
42 20 0.51
43 18 0.46
ACGTcount: A:0.50, C:0.01, G:0.23, T:0.26
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACTAGGGTTGTT
Found at i:25792692 original size:34 final size:34
Alignment explanation
Indices: 25792654--25792739 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
25792644 CTTATATCGA
* * *
25792654 CGATAGGGTTGTTTCAATAATAGGGTT-GCTTTGG
1 CGATAGGGTTGCTTCAACAATA-GGTTCGCTCTGG
* *
25792688 CGATAGGGTTGCTCCGACAATAGGTTCGCTCTGG
1 CGATAGGGTTGCTTCAACAATAGGTTCGCTCTGG
*
25792722 CGATAGGGCTGCTTCAAC
1 CGATAGGGTTGCTTCAAC
25792740 GAGAAGATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 4 0.09
34 39 0.91
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (34 bp):
CGATAGGGTTGCTTCAACAATAGGTTCGCTCTGG
Found at i:25792727 original size:17 final size:16
Alignment explanation
Indices: 25792677--25792728 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
25792667 TCAATAATAG
*
25792677 GGTTGCTTTGGCGATA
1 GGTTGCTCTGGCGATA
* * *
25792693 GGGTTGCTCCGACAATA
1 -GGTTGCTCTGGCGATA
25792710 GGTTCGCTCTGGCGATA
1 GGTT-GCTCTGGCGATA
25792727 GG
1 GG
25792729 GCTGCTTCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (16 bp):
GGTTGCTCTGGCGATA
Found at i:25793160 original size:6 final size:6
Alignment explanation
Indices: 25793151--25793192 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
25793141 TTAAACATAA
* *
25793151 AAAAAT -AAAAT TAAAAT GAAAAAC AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
25793193 TTTCTAGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:25799776 original size:34 final size:34
Alignment explanation
Indices: 25799733--25799800 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
25799723 GTTAAGCTTG
*
25799733 GTAAGATATTCATTGCAATTTAATGCATCGACAA
1 GTAAGATATTCATTGCAATTTAATGCATCAACAA
25799767 GTAAGATATTCATTGCAATTTAATGCATCAACAA
1 GTAAGATATTCATTGCAATTTAATGCATCAACAA
25799801 TCATCTATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (34 bp):
GTAAGATATTCATTGCAATTTAATGCATCAACAA
Found at i:25801405 original size:21 final size:20
Alignment explanation
Indices: 25801359--25801416 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
25801349 ATCAGCACAC
*
25801359 TCAGATGCATCCACAACAAA
1 TCAGATGCATCCACATCAAA
25801379 TCCAGATGCATCCACATCAAAA
1 T-CAGATGCATCCACATC-AAA
* *
25801401 TCAGACGCAACCACAT
1 TCAGATGCATCCACAT
25801417 TACTCTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.85
22 4 0.12
ACGTcount: A:0.41, C:0.33, G:0.10, T:0.16
Consensus pattern (20 bp):
TCAGATGCATCCACATCAAA
Found at i:25804444 original size:15 final size:15
Alignment explanation
Indices: 25804424--25804462 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
25804414 ACGAAGAAAA
25804424 TACTGAGAAAGAAGC
1 TACTGAGAAAGAAGC
* *
25804439 TGCTGAGAAAGAATC
1 TACTGAGAAAGAAGC
25804454 TACTGAGAA
1 TACTGAGAA
25804463 CATTGTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.18
Consensus pattern (15 bp):
TACTGAGAAAGAAGC
Found at i:25817194 original size:10 final size:10
Alignment explanation
Indices: 25817179--25817217 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
25817169 AGCACATATA
*
25817179 AATCACATTT
1 AATCACATTC
25817189 AATCACATTC
1 AATCACATTC
25817199 AATCACATTC
1 AATCACATTC
*
25817209 ATTCACATT
1 AATCACATT
25817218 TTATGATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (10 bp):
AATCACATTC
Found at i:25824594 original size:15 final size:15
Alignment explanation
Indices: 25824574--25824611 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
25824564 CACAATCACA
25824574 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
*
25824589 ACAAGTAGTAAAGTG
1 ACAAGTAATAAAGTG
25824604 ACAAGTAA
1 ACAAGTAA
25824612 ATGTCGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.18
Consensus pattern (15 bp):
ACAAGTAATAAAGTG
Found at i:25835458 original size:40 final size:40
Alignment explanation
Indices: 25835376--25835458 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
25835366 TAAGTCTTAC
* **
25835376 AGAAAAGAAGAAAAACCATCTAAACATTCCCAGGTCCTAT
1 AGAAAAGAAGAAAAACCATCCAAACATTCCCAAATCCTAT
*
25835416 AGAAGAGAAGAAAAACCATCCAAACATTCCCAAATACC-AT
1 AGAAAAGAAGAAAAACCATCCAAACATTCCCAAAT-CCTAT
25835456 AGA
1 AGA
25835459 TGAGGCCCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.51, C:0.23, G:0.12, T:0.14
Consensus pattern (40 bp):
AGAAAAGAAGAAAAACCATCCAAACATTCCCAAATCCTAT
Found at i:25838093 original size:18 final size:19
Alignment explanation
Indices: 25838052--25838093 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
25838042 ACTTGAGTAC
*
25838052 AGAAATAAAAAGAAAATAA
1 AGAAATAAAAAGAAAAGAA
*
25838071 A-AAATAAAAA-AAGAGAA
1 AGAAATAAAAAGAAAAGAA
25838088 AGAAAT
1 AGAAAT
25838094 GTATCCCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 13 0.65
19 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (19 bp):
AGAAATAAAAAGAAAAGAA
Found at i:25839219 original size:19 final size:19
Alignment explanation
Indices: 25839174--25839222 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
25839164 TACGATGTAG
25839174 AATAAAAATAAATAAATAT
1 AATAAAAATAAATAAATAT
**
25839193 TGTAAAAATAAATAAATA-
1 AATAAAAATAAATAAATAT
25839211 AATAGAAAATAA
1 AATA-AAAATAA
25839223 TCACTTTACG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
AATAAAAATAAATAAATAT
Found at i:25840604 original size:25 final size:26
Alignment explanation
Indices: 25840531--25840604 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 26
25840521 ATATAATACT
* *
25840531 TATTAAGATAAATATTAGATTAAATTTAA
1 TATTAATA-AAATATT--ATTAAAATTAA
* *
25840560 TATTAATATAATCACT-TTAAAATTAA
1 TATTAATAAAAT-ATTATTAAAATTAA
25840586 -ATTAATAAAATATTATTAA
1 TATTAATAAAATATTATTAA
25840605 GATAAGTACT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
24 2 0.05
25 14 0.38
26 9 0.24
28 3 0.08
29 9 0.24
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (26 bp):
TATTAATAAAATATTATTAAAATTAA
Found at i:25840625 original size:68 final size:69
Alignment explanation
Indices: 25840502--25840633 Score: 212
Period size: 68 Copynumber: 1.9 Consensus size: 69
25840492 TTAATTTTAG
* * * *
25840502 TCACTTTAATATTAAATTAATATAATACTTATTAAGATAAATATTAGATTAAATTTAATATTAAT
1 TCACTTTAAAATTAAATTAATAAAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAAT
25840567 ATAA
66 ATAA
*
25840571 TCACTTTAAAATTAAATTAATAAAATA-TTATTAAGATAAGTACTAAATTAAATTTAATATTAA
1 TCACTTTAAAATTAAATTAATAAAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAA
25840634 ATCTATTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 33 0.57
69 25 0.43
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (69 bp):
TCACTTTAAAATTAAATTAATAAAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAAT
ATAA
Found at i:25842615 original size:28 final size:28
Alignment explanation
Indices: 25842575--25842650 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
25842565 TTGTGGGCAA
* *
25842575 TGGCAGTTGGAGCGCAATTTGCGAGCAT
1 TGGCAATTGGAGCGCAATTTGCGACCAT
*
25842603 TGGCAATTGGAGCGCAATTTGTGACCAT
1 TGGCAATTGGAGCGCAATTTGCGACCAT
25842631 TGGCAATTGGAGCGCAATTT
1 TGGCAATTGGAGCGCAATTT
25842651 TTAAGCAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (28 bp):
TGGCAATTGGAGCGCAATTTGCGACCAT
Found at i:25847423 original size:76 final size:74
Alignment explanation
Indices: 25847255--25847444 Score: 278
Period size: 76 Copynumber: 2.6 Consensus size: 74
25847245 AAAAAATTTG
*
25847255 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTAAGAAAAAATAAAATATTATT
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTAAGAAAAAATAAAATAATATT
* *
25847318 TGTATTTTA
66 TATATTGTA
*
25847327 TTCTATTGTATTTTATATCAATAATATATACTTATTTACAATCTACAG-AAAAATGAAAAATAAT
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTA-AGAAAAAAT--AAAATAAT
*
25847391 GTTTATATTGTA
63 ATTTATATTGTA
*
25847403 TTCTATTGTATTTTACATCAATAATATATCCTTATTTACAAT
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAAT
25847445 TCCCTAAAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
72 21 0.20
73 1 0.01
74 26 0.25
75 2 0.02
76 56 0.53
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (74 bp):
TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATCTAAGAAAAAATAAAATAATATT
TATATTGTA
Found at i:25850654 original size:34 final size:31
Alignment explanation
Indices: 25850603--25850694 Score: 116
Period size: 34 Copynumber: 2.9 Consensus size: 31
25850593 GCTACCTAAG
*
25850603 TTACAATAAGTAATGATTCGACATAACCTC-
1 TTACAAGAAGTAATGATTCGACATAACCTCA
25850633 TCTACATA-ACCTAGTAATGATTCGACATAACCTCA
1 T-TACA-AGA---AGTAATGATTCGACATAACCTCA
25850668 TTACAAGAAGTAATGATTCGACATAAC
1 TTACAAGAAGTAATGATTCGACATAAC
25850695 TTTCAAATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
30 1 0.02
31 24 0.44
32 1 0.02
33 1 0.02
34 27 0.49
35 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (31 bp):
TTACAAGAAGTAATGATTCGACATAACCTCA
Found at i:25852631 original size:16 final size:16
Alignment explanation
Indices: 25852610--25852669 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
25852600 TTAATCACTT
25852610 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
25852626 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* *
25852641 TAAATATTAGATTAATT
1 T-AATATTAAATTAATA
*
25852658 TAACATTAAATT
1 TAATATTAAATT
25852670 TTATTAAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
15 6 0.18
16 22 0.67
17 5 0.15
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:25860594 original size:11 final size:12
Alignment explanation
Indices: 25860569--25860618 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
25860559 ATAATTATTA
**
25860569 AAAAAATATCTT
1 AAAAAATATGAT
25860581 AAAAAATA-GAT
1 AAAAAATATGAT
*
25860592 AAAAAA-ATTAT
1 AAAAAATATGAT
25860603 AAAAAATATG-T
1 AAAAAATATGAT
25860614 AAAAA
1 AAAAA
25860619 TAAACGATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 21 0.66
12 10 0.31
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (12 bp):
AAAAAATATGAT
Found at i:25860595 original size:22 final size:22
Alignment explanation
Indices: 25860570--25860620 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
25860560 TAATTATTAA
25860570 AAAAATATCT-TAAAAAATA-GAT
1 AAAAATAT-TATAAAAAATATG-T
*
25860592 AAAAAAATTATAAAAAATATGT
1 AAAAATATTATAAAAAATATGT
25860614 AAAAATA
1 AAAAATA
25860621 AACGATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAAATATTATAAAAAATATGT
Found at i:25860596 original size:12 final size:12
Alignment explanation
Indices: 25860567--25860618 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
25860557 AAATAATTAT
*
25860567 TAAAAAAATATC
1 TAAAAAAATATA
* *
25860579 TTAAAAAATAGA
1 TAAAAAAATATA
25860591 TAAAAAAAT-TA
1 TAAAAAAATATA
*
25860602 T-AAAAAATATG
1 TAAAAAAATATA
25860613 TAAAAA
1 TAAAAA
25860619 TAAACGATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 7 0.22
11 4 0.12
12 21 0.66
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (12 bp):
TAAAAAAATATA
Found at i:25862923 original size:18 final size:18
Alignment explanation
Indices: 25862900--25862942 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25862890 TGCCAGGTGC
* *
25862900 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
25862918 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
25862936 GTTTCCT
1 GTATCCT
25862943 TCTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:25863409 original size:49 final size:49
Alignment explanation
Indices: 25863353--25863571 Score: 384
Period size: 49 Copynumber: 4.5 Consensus size: 49
25863343 GTTTATATTA
*
25863353 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
25863402 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
25863451 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
* * **
25863500 AAGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTCC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
*
25863549 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
25863572 AATATTCTTA
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 163 1.00
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
Found at i:25863428 original size:29 final size:29
Alignment explanation
Indices: 25863395--25863478 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
25863385 TATTTTGATA
25863395 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
***
25863424 TTATTT--TG-AAT--AAT--TTGATA--
1 TTATTTGATGTAATAAAATACAAAATAGT
25863444 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
25863473 TTATTT
1 TTATTT
25863479 TGAATAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
20 6 0.15
22 5 0.12
23 3 0.08
24 3 0.08
25 3 0.08
26 3 0.08
27 5 0.12
29 12 0.30
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (29 bp):
TTATTTGATGTAATAAAATACAAAATAGT
Found at i:25865539 original size:29 final size:29
Alignment explanation
Indices: 25865497--25865555 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
25865487 AGATTTAACC
25865497 ACGTGATAGTTAACGCCGTTATTGATGCT
1 ACGTGATAGTTAACGCCGTTATTGATGCT
25865526 ACGTGATAGTTAACGCCGTTATTGATGCT
1 ACGTGATAGTTAACGCCGTTATTGATGCT
25865555 A
1 A
25865556 TGTTATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (29 bp):
ACGTGATAGTTAACGCCGTTATTGATGCT
Found at i:25867175 original size:125 final size:124
Alignment explanation
Indices: 25867016--25867245 Score: 379
Period size: 125 Copynumber: 1.8 Consensus size: 124
25867006 GGCTCCCGCT
* ** *
25867016 CATCCTGTTTGAAGCGTTTTTATACTATTTGCTCAGAAATTTCAACTCGAAATTATTTTTTCAGG
1 CATCCTGCTTGAAGCGTTTTTATACTATTTGCTCAGAAACATCAACTCAAAATTATTTTTTCAGG
* *
25867081 ACCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAG
66 ACCTAATATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAG
* *
25867140 CATCCTGCTTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAACTCAAAATTATTTTTTTAG
1 CATCCTGCTTGAAGC-GTTTTTATACTATTTGCTCAGAAACATCAACTCAAAATTATTTTTTCAG
25867205 GACCTAATATAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
65 GACCTAATATAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
25867246 CTTAATAAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
124 14 0.14
125 83 0.86
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (124 bp):
CATCCTGCTTGAAGCGTTTTTATACTATTTGCTCAGAAACATCAACTCAAAATTATTTTTTCAGG
ACCTAATATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAG
Found at i:25867443 original size:7 final size:7
Alignment explanation
Indices: 25867431--25867479 Score: 50
Period size: 6 Copynumber: 7.3 Consensus size: 7
25867421 CAAATCCTAA
25867431 AAACCCT
1 AAACCCT
25867438 AAACCCT
1 AAACCCT
25867445 -AACCCT
1 AAACCCT
25867451 -AACCCT
1 AAACCCT
25867457 -AACCCT
1 AAACCCT
*
25867463 AAAACCCC
1 -AAACCCT
*
25867471 AAAACCT
1 AAACCCT
25867478 AA
1 AA
25867480 CGTGGGGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 18 0.49
7 14 0.38
8 5 0.14
ACGTcount: A:0.45, C:0.43, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:25867450 original size:6 final size:6
Alignment explanation
Indices: 25867432--25867464 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
25867422 AAATCCTAAA
25867432 AACCCT AAACCCT AACCCT AACCCT AACCCT AA
1 AACCCT -AACCCT AACCCT AACCCT AACCCT AA
25867465 AACCCCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:25869564 original size:24 final size:24
Alignment explanation
Indices: 25869536--25869587 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
25869526 TAGCACCCAT
*
25869536 TAAAT-TTAAAATTTTA-AAAATCTA
1 TAAATATT-AAATTATATAAAAT-TA
25869560 TAAATATTAAATTATATAAAATTA
1 TAAATATTAAATTATATAAAATTA
25869584 TAAA
1 TAAA
25869588 GAATTTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAATATTAAATTATATAAAATTA
Found at i:25869592 original size:10 final size:9
Alignment explanation
Indices: 25869568--25869620 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 9
25869558 TATAAATATT
25869568 AAATTATATA
1 AAATTATA-A
25869578 AAATTATAA
1 AAATTATAA
25869587 AGAATTTACTAA
1 A-AA-TTA-TAA
25869599 AAGATTATTAA
1 AA-ATTA-TAA
25869610 AAATTATAA
1 AAATTATAA
25869619 AA
1 AA
25869621 TACAATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
9 7 0.18
10 14 0.37
11 12 0.32
12 5 0.13
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:25869619 original size:20 final size:18
Alignment explanation
Indices: 25869568--25869620 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 18
25869558 TATAAATATT
25869568 AAATTATATAAAATTATAA
1 AAATTATA-AAAATTATAA
25869587 AGAATTTACTAAAAGATTATTAA
1 A-AA-TTA-TAAAA-ATTA-TAA
25869610 AAATTATAAAA
1 AAATTATAAAA
25869621 TACAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 1 0.03
20 7 0.24
21 9 0.31
22 8 0.28
23 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (18 bp):
AAATTATAAAAATTATAA
Found at i:25870991 original size:13 final size:13
Alignment explanation
Indices: 25870973--25870997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25870963 TATAAATTTA
25870973 AAGAAGAAGAAAG
1 AAGAAGAAGAAAG
25870986 AAGAAGAAGAAA
1 AAGAAGAAGAAA
25870998 TTCATGGGGT
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAAG
Found at i:25874802 original size:26 final size:26
Alignment explanation
Indices: 25874720--25874803 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
25874710 AGCGAGCCGT
* *
25874720 ATCGGGAAGC-TCCGGAGAGCCATTA
1 ATCGGGAAGCTTACGAAGAGCCATTA
* * * *
25874745 ATCAGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTTACGAAGAGCCATTA
25874771 ATCGGGAAGCTTACGAAGAGCCATATA
1 ATCGGGAAGCTTACGAAGAGCCAT-TA
25874798 A-CGGGA
1 ATCGGGA
25874804 CGCTCATAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 9 0.19
26 35 0.74
27 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
ATCGGGAAGCTTACGAAGAGCCATTA
Found at i:25874948 original size:24 final size:25
Alignment explanation
Indices: 25874865--25874948 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
25874855 GAGCTATTAA
*
25874865 CGGGAAGCTTGCATGA-A-CCATATAG
1 CGGGAAGC-T-CATGAGAGCCATATAT
*
25874890 CGGGAAGCTCATGAGAGCCATTTAT
1 CGGGAAGCTCATGAGAGCCATATAT
* * *
25874915 CGAGATGCTCATGAGAGCTA-ATAT
1 CGGGAAGCTCATGAGAGCCATATAT
*
25874939 CGGGACGCTC
1 CGGGAAGCTC
25874949 TTTCGAGCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.10
24 13 0.27
25 31 0.63
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCATATAT
Found at i:25879919 original size:15 final size:16
Alignment explanation
Indices: 25879886--25879940 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
25879876 TACATTTAGA
* *
25879886 TTATATATTATGAATTT
1 TTATATATTTTTAA-TT
25879903 TTATATATTTTT-ATT
1 TTATATATTTTTAATT
* *
25879918 TTAT-TTTTTTTAATA
1 TTATATATTTTTAATT
25879933 TTATATAT
1 TTATATAT
25879941 ATTTGATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.19
15 12 0.39
16 3 0.10
17 10 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATATATTTTTAATT
Found at i:25883041 original size:16 final size:15
Alignment explanation
Indices: 25883020--25883071 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
25883010 AGAGTGAAAA
25883020 GAAAATTGGAAGGATG
1 GAAAATT-GAAGGATG
* *
25883036 GAAAATTGAAGGGTA
1 GAAAATTGAAGGATG
* *
25883051 GAAAACTAGATGGATG
1 GAAAA-TTGAAGGATG
25883067 GAAAA
1 GAAAA
25883072 CATAATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.48, C:0.02, G:0.33, T:0.17
Consensus pattern (15 bp):
GAAAATTGAAGGATG
Found at i:25884677 original size:18 final size:18
Alignment explanation
Indices: 25884635--25884688 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
25884625 AAAGAGCAAG
* *
25884635 GACAGGGACAGGGAAAGG
1 GACAGGGACAGAGAAAGA
*
25884653 GAGAGGGACAGAGAAAGA
1 GACAGGGACAGAGAAAGA
*
25884671 GACAGGGAGAGAGCAAAG
1 GACAGGGACAGAG-AAAG
25884689 GCCCGGGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.44, C:0.09, G:0.46, T:0.00
Consensus pattern (18 bp):
GACAGGGACAGAGAAAGA
Found at i:25888486 original size:29 final size:29
Alignment explanation
Indices: 25888430--25888488 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
25888420 ATGACTTTCA
* *
25888430 CTATTTGCATATTTTACTATCCCAGGTGG
1 CTATTTGCATATTCTACCATCCCAGGTGG
* *
25888459 CTATTTGCATATTCTACCATCTCGGGTGG
1 CTATTTGCATATTCTACCATCCCAGGTGG
25888488 C
1 C
25888489 CCGACAACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (29 bp):
CTATTTGCATATTCTACCATCCCAGGTGG
Found at i:25888531 original size:49 final size:48
Alignment explanation
Indices: 25888459--25888555 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 48
25888449 TCCCAGGTGG
* * *
25888459 CTATTTGCATATTCTACCATCTCGGGTGGCCCGACAACGATGGCTTTTA
1 CTATTTGCAAATTCTACCATCTCGAGTAGCCCGACAACGATGG-TTTTA
25888508 CTATTTGCAAATTCTACCATCTCGAGTAGCCCGACAACGATGGTTTTA
1 CTATTTGCAAATTCTACCATCTCGAGTAGCCCGACAACGATGGTTTTA
25888556 AATCACTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 5 0.11
49 40 0.89
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (48 bp):
CTATTTGCAAATTCTACCATCTCGAGTAGCCCGACAACGATGGTTTTA
Found at i:25890254 original size:28 final size:28
Alignment explanation
Indices: 25890195--25890254 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
25890185 GACAGTACAG
* *
25890195 TGTGGGCCTTAGCCCAATACAAAATTAG
1 TGTGGGCCTTAGCCCAATACAAAATCAA
*
25890223 TGTGGGCCTTAGCCCAATACAGAATCAA
1 TGTGGGCCTTAGCCCAATACAAAATCAA
25890251 TGTG
1 TGTG
25890255 TAGCCCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAAAATCAA
Found at i:25890685 original size:27 final size:26
Alignment explanation
Indices: 25890655--25890710 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
25890645 TATCTCCTAG
25890655 GGGTATAACAGTCATTTTACCCTATGA
1 GGGTATAACAGTCATTTTACCCTAT-A
** * *
25890682 GGGTATTTCGGTCATTTTATCCTATA
1 GGGTATAACAGTCATTTTACCCTATA
25890708 GGG
1 GGG
25890711 GTATTTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (26 bp):
GGGTATAACAGTCATTTTACCCTATA
Found at i:25890712 original size:27 final size:27
Alignment explanation
Indices: 25890665--25891134 Score: 376
Period size: 27 Copynumber: 17.4 Consensus size: 27
25890655 GGGTATAACA
*
25890665 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25890692 GTCATTTTATCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25890719 GTTATTTTACTCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25890746 ATCATTTTGCCCT-TCGGGAGTATTTCG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * * *
25890773 GTCATTTTACCTTATGAGAGTATTTAG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25890800 ATCATTTTA-CCTTTCGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* *
25890827 ATCATTTTACCCT-TCGAGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * * * *
25890854 ATAATTTTA-CCTTTCGAGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * * * * *
25890881 ATAATTTTACCCTTTGAGGGTAATTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25890908 GTCATTTTACCCTTTGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
25890935 ATCGTTTTACCCTTTGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25890962 GTCATTTTACCCT-TCGAGGGTAATTT-G
1 GTCATTTTACCCTAT-GGGGGT-ATTTCG
* * *
25890989 ATCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25891016 GTCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25891043 GTAATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25891070 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** *
25891097 GTTATTTTACCCTTTAAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25891124 GTCATTATACC
1 GTCATTTTACC
25891135 ATTCGAATGT
Statistics
Matches: 374, Mismatches: 59, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
26 12 0.03
27 349 0.93
28 13 0.03
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:25891454 original size:13 final size:13
Alignment explanation
Indices: 25891436--25891460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25891426 TATTTTAATA
25891436 TTATTTTGTGTGT
1 TTATTTTGTGTGT
25891449 TTATTTTGTGTG
1 TTATTTTGTGTG
25891461 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:25893251 original size:40 final size:41
Alignment explanation
Indices: 25893155--25893298 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 41
25893145 GGCTTTACGT
* *
25893155 CTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAAGT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
* *
25893196 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAA-C
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
25893236 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
* * *
25893277 TTACCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
25893299 ATATGTTAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 37 0.40
41 56 0.60
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
Found at i:25898987 original size:13 final size:13
Alignment explanation
Indices: 25898969--25898993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25898959 TATTTTAATA
25898969 TTATTTTGTGTGT
1 TTATTTTGTGTGT
25898982 TTATTTTGTGTG
1 TTATTTTGTGTG
25898994 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:25900107 original size:114 final size:114
Alignment explanation
Indices: 25899981--25900202 Score: 408
Period size: 114 Copynumber: 1.9 Consensus size: 114
25899971 CAGCATATAT
*
25899981 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
*
25900046 TAGGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
* *
25900095 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
25900160 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
25900203 GTATATATGA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.41
Consensus pattern (114 bp):
ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
Found at i:25900740 original size:41 final size:41
Alignment explanation
Indices: 25900689--25900835 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
25900679 CGGGCTTTAC
*
25900689 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
25900730 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
** *
25900771 ACCTAGCAGGCTAAGTGCCGGTAATCTGAATCAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
25900812 G-CTTAGCAGGTTAAGTGCCGGTGA
1 GTC-TAGCAGGCTAAGTGCCGGTGA
25900836 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 95 0.99
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:25904541 original size:16 final size:16
Alignment explanation
Indices: 25904520--25904553 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25904510 CCAATATCCA
* *
25904520 ATTATCATATTTGCAC
1 ATTATCAAATTTACAC
25904536 ATTATCAAATTTACAC
1 ATTATCAAATTTACAC
25904552 AT
1 AT
25904554 ATATGTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCAAATTTACAC
Found at i:25904599 original size:20 final size:20
Alignment explanation
Indices: 25904574--25904613 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25904564 ATTCATTTCA
25904574 ATTCAAATAATCAACACATT
1 ATTCAAATAATCAACACATT
25904594 ATTCAAATAATCAACACATT
1 ATTCAAATAATCAACACATT
25904614 CATAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (20 bp):
ATTCAAATAATCAACACATT
Found at i:25905993 original size:5 final size:5
Alignment explanation
Indices: 25905983--25906014 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
25905973 ACATTTTGGT
25905983 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
25906015 ATCAAATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:25913430 original size:411 final size:405
Alignment explanation
Indices: 25912615--25913897 Score: 1856
Period size: 411 Copynumber: 3.1 Consensus size: 405
25912605 AAGCCTTTTG
* *
25912615 TTATTAAGTTAGTTTTCAATCCCTGTAAAAGTAATACATTTTC-AGGTCAAGGAAAAATTTAATT
1 TTATTAAGTTAGTTTTCAATCCCTGTACAAGTAATACATTTTCAAGGTCAA-GAAAACTTTAATT
* * * * * * * * *
25912679 GTGTTATTACTTGTGGCAAAATTAGATGAGACAACACGTGCTGTTTACCCAAAATACAATCTCTA
65 GTGTCACTACTTGTGGCAAAATTAGATG-GTCACCATGTGTTGTTTCCCCAAAACACAATCTCCA
* * * * * *
25912744 CAAGGTCTGATCACAACACATTCAACTTTTGAAAATCTTCTAATTGCATCATATTGATCAAGTCT
129 CAAGGTTTGGTCACAACACTTTCGAGTTTTGAAAGTCTTCTAATTGCATCATATTGATCAAGTCT
* * *
25912809 TTGTAAGTTTCGATAGTTCACATCACCAATCTTTTGATGTAACACCTCCAGATCTTGCATAGTAG
194 TTGTAAGTTTCGATAATTCACATCACCAATCTTTTGATGTCACACCTCTAGATCTTGCATAGTAG
* * **
25912874 CTTTATTGCAAATAACTTCATTAAAAACTTTGTAACAAGTTTCAAATTTTTTTGCTCCTCTTATT
259 CTTTATTGCAAATAACTTCATTAAAAACTTTGTAGCAATTTTCAAAAATTTTTGCTCCTCTTATT
*
25912939 ATAAGAATTTTTTTCATTAATTACATCACAACTATTTTTGTTAAATCTCATATTAAGCCTTTGGT
324 ATAA-AATTTTTTTCATTAATTACATCACAACTATTTTTGTTAAATATCATATTAAGCCTTTGGT
*
25913004 CACATATTTGACTTATGC
388 CACATAGTTGACTTATGC
* *
25913022 TTATTAAGTTAGTTTTCAATCCCTGTACAAGTAGTACATTATCAAGGTCAAGAAAATCTTTAATT
1 TTATTAAGTTAGTTTTCAATCCCTGTACAAGTAATACATTTTCAAGGTCAAGAAAA-CTTTAATT
25913087 GTGTCACTACTTGTGGCAAAATTAGATAGGTCACCATGTGTTGTTTCCCCAAAACACAATCTCCA
65 GTGTCACTACTTGTGGCAAAATTAGAT-GGTCACCATGTGTTGTTTCCCCAAAACACAATCTCCA
* * * *
25913152 CAAGGTTTGGTCACAACACTTTTGAGTTTTGAAAGTATTCTAATTACATCATATTGATAAAGTCT
129 CAAGGTTTGGTCACAACACTTTCGAGTTTTGAAAGTCTTCTAATTGCATCATATTGATCAAGTCT
*
25913217 TTGTAAGTTTCGATAATTCACATCACCAATCTTTTGATATTGTCACACCTTTAGATCTTGCATAG
194 TTGTAAGTTTCGATAATTCACATCACCAATCTTTTG--A-TGTCACACCTCTAGATCTTGCATAG
*
25913282 TAGCTTTATTGCAAATAACTTCATTAAAAACTTTGTAGCAATTTTCAAAAATTTTTGCTCCTCCT
256 TAGCTTTATTGCAAATAACTTCATTAAAAACTTTGTAGCAATTTTCAAAAATTTTTGCTCCTCTT
* *
25913347 ATTATAACAATTCTTTTCATTAATTACATCCCAACTATTTTTGTTAAATATCATATTAAGCCTTT
321 ATTATAA-AATTTTTTTCATTAATTACATCACAACTATTTTTGTTAAATATCATATTAAGCCTTT
*
25913412 GGTCATATAGTTGACTTATGC
385 GGTCACATAGTTGACTTATGC
* * * * *
25913433 TTATTAACTTAGCTTTCAATCCAC-ATACAAGTAATATATTTTAAAGGTCAAGAAAACCTTTAAT
1 TTATTAAGTTAGTTTTCAATCC-CTGTACAAGTAATACATTTTCAAGGTCAAGAAAA-CTTTAAT
*
25913497 TGTGTCACTACTTGTGGCAAAATTAGATGGGTCACCATGTGTTGTCTCCCCAAAACACAATCTCC
64 TGTGTCACTACTTGTGGCAAAATTAGAT-GGTCACCATGTGTTGTTTCCCCAAAACACAATCTCC
* * *
25913562 ACAACGTTTGGTCACAACACTTTCGAGTTTTAAAAGTCTTCTAATTGCATCATATTGATCAATTC
128 ACAAGGTTTGGTCACAACACTTTCGAGTTTTGAAAGTCTTCTAATTGCATCATATTGATCAAGTC
* * *
25913627 TTTGTAAGCTTCGATAATTCACACCACCAATCTTTTGATGTCACACATCTAGATCTTGCATAGTA
193 TTTGTAAGTTTCGATAATTCACATCACCAATCTTTTGATGTCACACCTCTAGATCTTGCATAGTA
* * * *
25913692 GCTTTATTGAAAATAACTTCATTAAAAACTTTGTAGCAATTATCAAAAGTTTTTGCTCTTCTTAT
258 GCTTTATTGCAAATAACTTCATTAAAAACTTTGTAGCAATTTTCAAAAATTTTTGCTCCTCTTAT
** *
25913757 TCCAAAATTTTTTTTCATTAATTACATCACAACTATTTTTGTTAAATCA-CATATTAAGTCTTTG
323 TATAAAA-TTTTTTTCATTAATTACATCACAACTATTTTTGTTAAAT-ATCATATTAAGCCTTTG
*
25913821 GTCACAT-GCTTGATTTATGC
386 GTCACATAG-TTGACTTATGC
**
25913841 TTATTACA-TTAGTTTTCAATCATTGTACAAGTAATACATTTTCAAGGTCAAGAAAAC
1 TTATTA-AGTTAGTTTTCAATCCCTGTACAAGTAATACATTTTCAAGGTCAAGAAAAC
25913898 CCTTAATAAA
Statistics
Matches: 787, Mismatches: 77, Indels: 24
0.89 0.09 0.03
Matches are distributed among these distances:
407 49 0.06
408 360 0.46
409 4 0.01
410 1 0.00
411 372 0.47
412 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (405 bp):
TTATTAAGTTAGTTTTCAATCCCTGTACAAGTAATACATTTTCAAGGTCAAGAAAACTTTAATTG
TGTCACTACTTGTGGCAAAATTAGATGGTCACCATGTGTTGTTTCCCCAAAACACAATCTCCACA
AGGTTTGGTCACAACACTTTCGAGTTTTGAAAGTCTTCTAATTGCATCATATTGATCAAGTCTTT
GTAAGTTTCGATAATTCACATCACCAATCTTTTGATGTCACACCTCTAGATCTTGCATAGTAGCT
TTATTGCAAATAACTTCATTAAAAACTTTGTAGCAATTTTCAAAAATTTTTGCTCCTCTTATTAT
AAAATTTTTTTCATTAATTACATCACAACTATTTTTGTTAAATATCATATTAAGCCTTTGGTCAC
ATAGTTGACTTATGC
Found at i:25917669 original size:20 final size:20
Alignment explanation
Indices: 25917640--25917682 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25917630 AAAATAAAAA
* **
25917640 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
25917660 TATAACTATTCAAATAATAT
1 TATAACTATTCAAATAATAT
25917680 TAT
1 TAT
25917683 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:25917677 original size:32 final size:32
Alignment explanation
Indices: 25917641--25917701 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
25917631 AAATAAAAAT
25917641 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
25917673 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
25917702 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:25926154 original size:32 final size:32
Alignment explanation
Indices: 25926118--25926178 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
25926108 AAATAAACAC
25926118 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
25926150 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
25926179 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:25927722 original size:5 final size:5
Alignment explanation
Indices: 25927712--25927737 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25927702 TTTATTCATC
25927712 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
25927738 TGAATAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:25928061 original size:10 final size:9
Alignment explanation
Indices: 25928043--25928076 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
25928033 AAAGGGGAAG
25928043 AAAAAAGAA
1 AAAAAAGAA
25928052 AAATAAAGAA
1 AAA-AAAGAA
25928062 ATAAAAAGAA
1 A-AAAAAGAA
25928072 AAAAA
1 AAAAA
25928077 TTAAATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.30
10 14 0.61
11 2 0.09
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:25931076 original size:6 final size:6
Alignment explanation
Indices: 25931065--25931101 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
25931055 TGAAGTTCTT
* *
25931065 GGGTTA GGGTTA GGGTTT GGGTTA GGGTTA GGATTA G
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA G
25931102 TTTGAGGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.16, C:0.00, G:0.49, T:0.35
Consensus pattern (6 bp):
GGGTTA
Found at i:25934033 original size:31 final size:31
Alignment explanation
Indices: 25933998--25934057 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
25933988 TGGACATTGG
*
25933998 CATTACATACTTTTATCATTTTAGTCACTGT
1 CATTACATACTTTAATCATTTTAGTCACTGT
25934029 CATTACATACTTTAATCATTTTAGTCACT
1 CATTACATACTTTAATCATTTTAGTCACT
25934058 ATTGTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (31 bp):
CATTACATACTTTAATCATTTTAGTCACTGT
Found at i:25942880 original size:22 final size:22
Alignment explanation
Indices: 25942823--25942881 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
25942813 ATATTTAAAC
* *
25942823 AATAACAACAAAATAGTACCAA
1 AATAATAAAAAAATAGTACCAA
* ** *
25942845 TATAATAATGAAATAGTAGCAA
1 AATAATAAAAAAATAGTACCAA
*
25942867 AATAGTAAAAAAATA
1 AATAATAAAAAAATA
25942882 ACAAGAAAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAATAAAAAAATAGTACCAA
Found at i:25942890 original size:22 final size:21
Alignment explanation
Indices: 25942865--25942905 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
25942855 AAATAGTAGC
*
25942865 AAAATAGTAAAAAAATAACAAG
1 AAAATAGCAAAAAAA-AACAAG
25942887 AAAATAGCAAAAAAAAACA
1 AAAATAGCAAAAAAAAACA
25942906 GCTAAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAATAGCAAAAAAAAACAAG
Found at i:25943288 original size:12 final size:12
Alignment explanation
Indices: 25943267--25943306 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
25943257 TTTTATCATT
*
25943267 AAGTCTTGAATC
1 AAGTCATGAATC
25943279 AAGTCATGAATC
1 AAGTCATGAATC
*
25943291 AAGTCATTAATC
1 AAGTCATGAATC
25943303 AAGT
1 AAGT
25943307 TTTTAATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (12 bp):
AAGTCATGAATC
Found at i:25945106 original size:12 final size:11
Alignment explanation
Indices: 25945081--25945119 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
25945071 TTCTCTTCTT
25945081 AAAAAGAAAAAG
1 AAAAA-AAAAAG
25945093 AAAAAAAAAGAG
1 AAAAAAAAA-AG
25945105 AAAAAAAAGAAG
1 AAAAAAAA-AAG
25945117 AAA
1 AAA
25945120 TGAATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 20 0.80
13 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:25948331 original size:27 final size:24
Alignment explanation
Indices: 25948282--25948352 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 24
25948272 TCTAATAAAA
*
25948282 TAATAA-ATAATTTAATCAT-ATTT
1 TAATAATATTATTTAAT-ATAATTT
25948305 TAATATAATTATTATTTAATATAA-TT
1 T-A-ATAA-TATTATTTAATATAATTT
25948331 TAATAATATT-TTTAATATAATT
1 TAATAATATTATTTAATATAATT
25948353 ATTTTTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 5 0.12
25 5 0.12
26 5 0.12
27 10 0.24
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
TAATAATATTATTTAATATAATTT
Found at i:25948331 original size:37 final size:37
Alignment explanation
Indices: 25948288--25948359 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
25948278 AAAATAATAA
*
25948288 ATAATTTAATCATA-TTTTAATATAATTATTATTTAAT
1 ATAATTTAATAATATTTTTAATATAATTATT-TTTAAT
25948325 ATAATTTAATAATATTTTTAATATAATTATTTTTA
1 ATAATTTAATAATATTTTTAATATAATTATTTTTA
25948360 TATTAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 17 0.52
38 16 0.48
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (37 bp):
ATAATTTAATAATATTTTTAATATAATTATTTTTAAT
Found at i:25948347 original size:22 final size:24
Alignment explanation
Indices: 25948291--25948352 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 24
25948281 ATAATAAATA
*
25948291 ATTTAATCATATTTTAATATAATTATT
1 ATTTAAT-ATAATTT-A-ATAATTATT
25948318 ATTTAATATAATTTAATAA-TATT
1 ATTTAATATAATTTAATAATTATT
25948341 -TTTAATATAATT
1 ATTTAATATAATT
25948353 ATTTTTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 12 0.35
23 4 0.12
24 4 0.12
25 1 0.03
26 6 0.18
27 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTAATATAATTTAATAATTATT
Found at i:25948370 original size:16 final size:15
Alignment explanation
Indices: 25948302--25948359 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
25948292 TTTAATCATA
25948302 TTTTAATATAATTAT
1 TTTTAATATAATTAT
25948317 TATTTAATAT-A--A-
1 T-TTTAATATAATTAT
25948329 -TTT-A-ATAA-TAT
1 TTTTAATATAATTAT
25948340 TTTTAATATAATTAT
1 TTTTAATATAATTAT
25948355 TTTTA
1 TTTTA
25948360 TATTAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.11
12 3 0.09
13 2 0.06
14 4 0.11
15 10 0.29
16 8 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTAATATAATTAT
Found at i:25951493 original size:22 final size:22
Alignment explanation
Indices: 25951468--25951512 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
25951458 AGCGTTTTGG
*
25951468 ACAAGAATCAGGTTTATATACA
1 ACAAGAATCACGTTTATATACA
25951490 ACAAGAATCACGTTTATATACA
1 ACAAGAATCACGTTTATATACA
25951512 A
1 A
25951513 TATTAAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (22 bp):
ACAAGAATCACGTTTATATACA
Found at i:25952718 original size:2 final size:2
Alignment explanation
Indices: 25952713--25952747 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
25952703 ACACGCAAAA
*
25952713 AT AT AT AT AT AT AT AT AT AA 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 A
25952748 ACTTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:25954327 original size:123 final size:126
Alignment explanation
Indices: 25954027--25954377 Score: 415
Period size: 123 Copynumber: 2.8 Consensus size: 126
25954017 TAATTTCGAG
* ** *
25954027 TTGACATTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * *
25954092 AAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCACGTAGACGCACTTTTGCTACAGTAGGTCACGGAAGAAATAATAATTTTT
* * *
25954153 TTGACGTTTTTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * **** **
25954218 AAATTGCGGCCACGTCAG-CGCACTTTTGCTACAGTAGGTC-TTTTA-ATCT-ATAATTTTT
66 AAATCGCGCCCACGT-AGACGCACTTTTGCTACAGTAGGTCACGGAAGAAATAATAATTTTT
* * *
25954276 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTATACCAGGATGCTATTTGGGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
25954341 AAATCGCGCCCTCGTGGAAGCGA-TTTTGCTACAGTAG
66 AAATCGCGCCCACGTAGACGC-ACTTTTGCTACAGTAG
25954378 CATGTTTGGG
Statistics
Matches: 191, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
122 1 0.01
123 95 0.50
124 3 0.02
125 1 0.01
126 90 0.47
127 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCACGTAGACGCACTTTTGCTACAGTAGGTCACGGAAGAAATAATAATTTTT
Found at i:25957614 original size:116 final size:116
Alignment explanation
Indices: 25957407--25957621 Score: 394
Period size: 116 Copynumber: 1.9 Consensus size: 116
25957397 TGATAAATTG
*
25957407 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATACAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTATTTGT
*
25957472 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTCCCAAATCTAACATTATGTGAATGTAAAAT
* *
25957523 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTATTTGT
25957588 TAGTACCAGTCAAAACATTTTCCCAAATCTAACA
66 TAGTACCAGTCAAAACATTTTCCCAAATCTAACA
25957622 GTACGTTAAG
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 95 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATATAAAATTATTATTTGT
TAGTACCAGTCAAAACATTTTCCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:25957680 original size:28 final size:29
Alignment explanation
Indices: 25957626--25957687 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
25957616 CTAACAGTAC
25957626 GTTAAGGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
*
25957655 GTTAGGGTTAGGGTTTTT-ATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
25957683 GTTAA
1 GTTAA
25957688 TGTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (29 bp):
GTTAAGGTTAGGGTTTTTAATTAAATTAG
Found at i:25957716 original size:72 final size:73
Alignment explanation
Indices: 25957640--25957808 Score: 223
Period size: 73 Copynumber: 2.3 Consensus size: 73
25957630 AGGTTAGGGT
** ** *
25957640 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTATTAAATTA-GGTTAATGTTTTTATTTAAGGG
1 TTTTAATTAAATTAGGTTAGGGTTAGGAATTGAATTAAATTAGGGTTAAGGTTTTTATTTAAGGG
25957704 TTTAGGAC
66 TTTAGGAC
* *** * *
25957712 TTTTAATTAAATTAGGTTAGAGTTTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGG
1 TTTTAATTAAATTAGGTTAGGGTTAGGAATTGAATTAAATTAGGGTTAAGGTTTTTATTTAAGGG
*
25957777 TTTAGGGC
66 TTTAGGAC
25957785 TTTTAATTAAATTAGGTTAGGGTT
1 TTTTAATTAAATTAGGTTAGGGTT
25957809 TTTAATTAAG
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 33 0.40
73 50 0.60
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (73 bp):
TTTTAATTAAATTAGGTTAGGGTTAGGAATTGAATTAAATTAGGGTTAAGGTTTTTATTTAAGGG
TTTAGGAC
Found at i:25957737 original size:22 final size:22
Alignment explanation
Indices: 25957660--25957754 Score: 61
Period size: 22 Copynumber: 4.3 Consensus size: 22
25957650 ATTAGGTTAG
* *
25957660 GGTTAGGGTTTTTATTAAATTA
1 GGTTAGAGTTTTAATTAAATTA
* * *
25957682 GGTTA-ATGTTTTTATTTAA--G
1 GGTTAGA-GTTTTAATTAAATTA
*
25957702 GGTTTAGGACTTTTAATTAAATTA
1 GG-TTA-GAGTTTTAATTAAATTA
*
25957726 GGTTAGAGTTTTTAATTGAATTA
1 GGTTAGAG-TTTTAATTAAATTA
*
25957749 GATTAG
1 GGTTAG
25957755 GGTTAGGGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
20 2 0.04
21 3 0.05
22 27 0.48
23 22 0.39
24 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.21, T:0.48
Consensus pattern (22 bp):
GGTTAGAGTTTTAATTAAATTA
Found at i:25957798 original size:50 final size:50
Alignment explanation
Indices: 25957735--25958218 Score: 669
Period size: 50 Copynumber: 9.8 Consensus size: 50
25957725 AGGTTAGAGT
25957735 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
1 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
* *
25957785 TTTTAATT--A--A-ATTA-GGTTAGGGTTTTTAATTAAGGGTTTAGGGT
1 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
*
25957829 TTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
1 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
*
25957879 TTTTAATTGAATTAGACTAGGGTTAGGGTTTTTTATTTAAGGGTTTAGGGC
1 TTTTAATTGAATTAGATTAGGGTTAGGG-TTTTTATTTAAGGGTTTAGGGC
* * * *
25957930 TTTTAATTAAATTTAG-TTAGGGTTAGGGTTTTTAATTAAGAGTTTAGGGT
1 TTTTAATTGAA-TTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
*
25957980 TTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
1 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
* *
25958030 TTTTAATTAAATTAGATTAGGGTTA-GGTTTTTATTTAAGGGTTTAGGGT
1 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
*
25958079 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAAGGC
1 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
* * ** ** *
25958129 TTTTAATTAAATTAGGTTAGGGTTAGGGTTATTGGTAGAAGGGTTTAGGGT
1 TTTTAATTGAATTAGATTAGGGTTAGGGTT-TTTATTTAAGGGTTTAGGGC
* * * * *
25958180 TTTTAAATGAATTAGGTTAGGATTAGTGTTTTTAATTAA
1 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAA
25958219 ATTAGGTTAG
Statistics
Matches: 384, Mismatches: 39, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
44 36 0.09
45 4 0.01
46 2 0.01
48 2 0.01
49 54 0.14
50 199 0.52
51 83 0.22
52 4 0.01
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (50 bp):
TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
Found at i:25957923 original size:21 final size:21
Alignment explanation
Indices: 25957897--25957983 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
25957887 GAATTAGACT
25957897 AGGGTTAGGGTTTTTTATTTA
1 AGGGTTAGGGTTTTTTATTTA
25957918 AGGGTTTAGGGCTTTTAATTAAATTTA
1 AGGG-TTAGGG-TTTT--TT--ATTTA
*
25957945 GTTAGGGTTAGGG-TTTTTAATTA
1 ---AGGGTTAGGGTTTTTTATTTA
*
25957968 AGAGTTTAGGGTTTTT
1 AG-GGTTAGGGTTTTT
25957984 AATTGAATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 21
0.70 0.03 0.28
Matches are distributed among these distances:
20 2 0.04
21 11 0.21
22 10 0.19
23 8 0.15
25 4 0.08
27 8 0.15
29 6 0.11
30 4 0.08
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTTATTTA
Found at i:25957984 original size:101 final size:99
Alignment explanation
Indices: 25957735--25958218 Score: 676
Period size: 101 Copynumber: 4.9 Consensus size: 99
25957725 AGGTTAGAGT
* *
25957735 TTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGCTTTTAATT--A--A-
1 TTTTAATTAAATTAG-TTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAATTGAATTAG
* *
25957795 ATTA-GGTTAGGGTTTTTAATTAAGGGTTTAGGGT
65 ATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
* *
25957829 TTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGCTTTTAATTGAATTAG
1 TTTTAATTAAATTA-GTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAATTGAATTAG
*
25957894 ACTAGGGTTAGGGTTTTTTATTTAAGGGTTTAGGGC
65 ATTAGGGTTAGGG-TTTTTATTTAAGGGTTTAGGGC
* *
25957930 TTTTAATTAAATTTAGTTAGGGTTAGGGTTTTTAATTAAGAGTTTAGGGTTTTTAATTGAATTAG
1 TTTTAATTAAA-TTAGTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAATTGAATTAG
*
25957995 GTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
65 ATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
25958030 TTTTAATTAAATTAGATTAGGGTTA-GGTTTTTATTTAAGGGTTTAGGGTTTTTAATTGAATTAG
1 TTTTAATTAAATTAG-TTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAATTGAATTAG
*
25958094 ATTAGGGTTAGGGTTTTTATTTAAGGGTTTAAGGC
65 ATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
** ** *
25958129 TTTTAATTAAATTAGGTTAGGGTTAGGGTTATTGGTAGAAGGGTTTAGGGTTTTTAAATGAATTA
1 TTTTAATTAAATTA-GTTAGGGTTAGGGTT-TTTATTTAAGGGTTTAGGGTTTTTAATTGAATTA
* * * *
25958194 GGTTAGGATTAGTGTTTTTAATTAA
64 GATTAGGGTTAGGGTTTTTATTTAA
25958219 ATTAGGTTAG
Statistics
Matches: 355, Mismatches: 22, Indels: 19
0.90 0.06 0.05
Matches are distributed among these distances:
94 56 0.16
95 1 0.00
96 1 0.00
98 1 0.00
99 100 0.28
100 55 0.15
101 138 0.39
102 3 0.01
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (99 bp):
TTTTAATTAAATTAGTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGTTTTTAATTGAATTAGA
TTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGC
Found at i:25958028 original size:21 final size:21
Alignment explanation
Indices: 25957998--25958083 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 21
25957988 GAATTAGGTT
25957998 AGGG-TTAGGGTTTTTATTTA
1 AGGGTTTAGGGTTTTTATTTA
*
25958018 AGGGTTTAGGGCTTTTAATTAAATTA
1 AGGGTTTAGGG--TTT--TT-ATTTA
* *
25958044 GATTAGGGTTA-GGTTTTTATTTA
1 -A--GGGTTTAGGGTTTTTATTTA
25958067 AGGGTTTAGGGTTTTTA
1 AGGGTTTAGGGTTTTTA
25958084 ATTGAATTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 19
0.67 0.08 0.25
Matches are distributed among these distances:
20 9 0.18
21 14 0.28
22 1 0.02
23 7 0.14
24 2 0.04
25 2 0.04
26 7 0.14
27 1 0.02
28 2 0.04
29 5 0.10
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (21 bp):
AGGGTTTAGGGTTTTTATTTA
Found at i:25958152 original size:250 final size:245
Alignment explanation
Indices: 25957728--25958218 Score: 750
Period size: 250 Copynumber: 2.0 Consensus size: 245
25957718 TTAAATTAGG
25957728 TTAGAGTTTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGCTTTTAATT
1 TTAGAGTTTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGCTTTTAATT
* *
25957793 AAATTAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGT
66 AAATTAGATTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTGAATTAGATTAGGGTTAGGGT
* * * * **
25957858 TTTTATTTAAGGGTTTAGGGCTTTTAATTGAATTAGACTAGGGTTAGGGTTTTTTATTTAAGGGT
131 TTTTATTTAAGGGTTTAAGGCTTTTAATTAAATTAGACTAGGGTTAGGGTTATTGATAGAAGGGT
* *
25957923 TTAGGGCTTTTAATTAAATTTA-GTTAGGGTTAGGGTTTTTAATTAAGAGT
196 TTAGGGCTTTTAAATAAA-TTAGGTTAGGATTAGGGTTTTTAATTAAGAGT
* *
25957973 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGCTTTTAATT
1 TTAGAGTTTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGCTTTTAATT
*
25958038 AAATTAGATTAGGGTTAGGTTTTTATTTAAGGGTTTAGGGTTTTTAATTGAATTAGATTAGGGTT
66 AAATTAGATTA--G---GGTTTTTAATTAAGGGTTTAGGGTTTTTAATTGAATTAGATTAGGGTT
** *
25958103 AGGGTTTTTATTTAAGGGTTTAAGGCTTTTAATTAAATTAGGTTAGGGTTAGGGTTATTGGTAGA
126 AGGGTTTTTATTTAAGGGTTTAAGGCTTTTAATTAAATTAGACTAGGGTTAGGGTTATTGATAGA
* * *
25958168 AGGGTTTAGGGTTTTTAAATGAATTAGGTTAGGATTAGTGTTTTTAATTAA
191 AGGGTTTAGGGCTTTTAAATAAATTAGGTTAGGATTAGGGTTTTTAATTAA
25958219 ATTAGGTTAG
Statistics
Matches: 221, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
245 73 0.33
247 1 0.00
249 3 0.01
250 144 0.65
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (245 bp):
TTAGAGTTTTTAATTGAATTAGATTAGGGTTAGGGTTTTTATTTAAGGGTTTAGGGCTTTTAATT
AAATTAGATTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTGAATTAGATTAGGGTTAGGGT
TTTTATTTAAGGGTTTAAGGCTTTTAATTAAATTAGACTAGGGTTAGGGTTATTGATAGAAGGGT
TTAGGGCTTTTAAATAAATTAGGTTAGGATTAGGGTTTTTAATTAAGAGT
Found at i:25958818 original size:18 final size:18
Alignment explanation
Indices: 25958795--25958829 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25958785 CGGAAAATGA
*
25958795 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
25958813 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
25958830 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:25959491 original size:7 final size:7
Alignment explanation
Indices: 25959481--25959505 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25959471 ATACATACAT
25959481 AATACTA
1 AATACTA
25959488 AATACTA
1 AATACTA
25959495 AATACTA
1 AATACTA
25959502 AATA
1 AATA
25959506 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:25960749 original size:22 final size:22
Alignment explanation
Indices: 25960724--25960774 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
25960714 AAATATAGAT
25960724 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
25960746 TTGAGAGAATTTTGGAAGGAAT
1 TTGAGAGAATTTTGGAAGGAAA
25960768 TTGAGAG
1 TTGAGAG
25960775 GAAATATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:25960752 original size:51 final size:51
Alignment explanation
Indices: 25960640--25960752 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
25960630 TTTAAAACAA
* * * * *
25960640 GAAATTGATAAGAAATTTAAATTAAATATGGATTTGAGAGAATTTTTGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
25960691 GAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
25960742 GAAATTGAGAG
1 GAAATTGAGAG
25960753 AATTTTGGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
Found at i:25961476 original size:31 final size:30
Alignment explanation
Indices: 25961441--25961509 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
25961431 AACCATTTGG
* *
25961441 AAAGATTTGA-CATTCATTTGAGCATTTTATA
1 AAAGATTTGACCATT-ATATGACCATTTTA-A
*
25961472 AAAGATTAGACCATTATATGACCATTTTAA
1 AAAGATTTGACCATTATATGACCATTTTAA
*
25961502 AAAAATTT
1 AAAGATTT
25961510 AACTTTACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 7 0.22
31 21 0.66
32 4 0.12
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (30 bp):
AAAGATTTGACCATTATATGACCATTTTAA
Found at i:25967428 original size:15 final size:15
Alignment explanation
Indices: 25967398--25967426 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25967388 CTCAAATAAT
25967398 TTTGAATCATAGAAA
1 TTTGAATCATAGAAA
25967413 TTTGAATC-TAGAAA
1 TTTGAATCATAGAAA
25967427 ATAAAGGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (15 bp):
TTTGAATCATAGAAA
Found at i:25970898 original size:9 final size:9
Alignment explanation
Indices: 25970879--25970924 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
25970869 ACCGAAGAAA
*
25970879 CATCATCCT
1 CATCGTCCT
*
25970888 CATTGTCCT
1 CATCGTCCT
25970897 CATCGTCCT
1 CATCGTCCT
*
25970906 CATCGTCTT
1 CATCGTCCT
25970915 CATCGTCCT
1 CATCGTCCT
25970924 C
1 C
25970925 TTTGCAACCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.13, C:0.41, G:0.09, T:0.37
Consensus pattern (9 bp):
CATCGTCCT
Found at i:25972716 original size:19 final size:19
Alignment explanation
Indices: 25972688--25972727 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
25972678 ATATATTATA
*
25972688 TATATTCATGTATTAAAAT
1 TATATACATGTATTAAAAT
25972707 TATATACATGTATTAAAAT
1 TATATACATGTATTAAAAT
25972726 TA
1 TA
25972728 AATAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TATATACATGTATTAAAAT
Found at i:25972743 original size:2 final size:2
Alignment explanation
Indices: 25972736--25972792 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
25972726 TAAATAATCT
* * * * *
25972736 TA TA TA TA TT TA TA TA CA TA TA AA TC T- TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
25972777 TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA
25972793 CATGTATTAA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:25972756 original size:12 final size:12
Alignment explanation
Indices: 25972736--25972792 Score: 69
Period size: 12 Copynumber: 4.3 Consensus size: 12
25972726 TAAATAATCT
25972736 TATATATATTTA
1 TATATATATTTA
25972748 TATACATATAAATCTTA
1 TAT--ATAT--AT-TTA
25972765 TATATATATTTA
1 TATATATATTTA
25972777 TATATATATTTA
1 TATATATATTTA
25972789 TATA
1 TATA
25972793 CATGTATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
12 22 0.55
13 2 0.05
14 4 0.10
15 4 0.10
16 2 0.05
17 6 0.15
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATATATTTA
Found at i:25976810 original size:21 final size:21
Alignment explanation
Indices: 25976769--25976811 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
25976759 AATAAAGTAG
*
25976769 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
25976790 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
25976811 A
1 A
25976812 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:25976905 original size:56 final size:56
Alignment explanation
Indices: 25976794--25976926 Score: 135
Period size: 56 Copynumber: 2.3 Consensus size: 56
25976784 TATAGTATTA
* * *
25976794 TATATTATGATTTTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAAC
1 TATA-TAT-ATTTTATTAAATTCATATAAGAATAATTATATTAAGAATATGATTAAAC
* * *
25976852 TATATATATTTTATTAAATT-ATATTTAATAATAATTATGTTAA-AATATGATTAAAT
1 TATATATATTTTATTAAATTCATA--TAAGAATAATTATATTAAGAATATGATTAAAC
*
25976908 TATTTATTATTTATATTAA
1 TATATA-TATTT-TATTAA
25976927 TAATCTTATT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 3 0.05
56 27 0.42
57 24 0.38
58 10 0.16
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (56 bp):
TATATATATTTTATTAAATTCATATAAGAATAATTATATTAAGAATATGATTAAAC
Found at i:25977198 original size:2 final size:2
Alignment explanation
Indices: 25977191--25977626 Score: 791
Period size: 2 Copynumber: 217.5 Consensus size: 2
25977181 NNNNNNNNNN
* *
25977191 AT AT AT AT AT AT AT AG AT AC 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
* * *
25977233 AT AT AT AT AT AT GT AT AT AT AT AT AG 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 AT AT AT AT AT
25977275 AT AT AT AT AT 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
25977317 AT AT AT AT AT 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
25977359 AT AT AT AT AT 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
25977401 AT AT AT AT AT 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
25977443 AT AT AT AT AT 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
25977485 AT AT AT AT AT 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
*
25977527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* *
25977570 AT AT AT AT AT AT AT AT AC AT AC 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
25977612 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
25977627 AAAGTTGCTT
Statistics
Matches: 417, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
2 415 1.00
3 2 0.00
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25978536 original size:72 final size:72
Alignment explanation
Indices: 25978402--25978597 Score: 233
Period size: 72 Copynumber: 2.7 Consensus size: 72
25978392 TAAACATTAC
*
25978402 CGGC-TTTTTAGGTACAGCGCCGCAAAAAACCT-AGCGCAACGACGCCGTTTCAAGAGCATTTGG
1 CGGCGTTTTTAAGTA-AGCGCCGCAAAAAACCTAAGCGCAACGACGCCGTTTCAAGAGCATTTGG
*
25978465 TGATTTAG
65 GGATTTAG
* * * *
25978473 CGGCGTTTTTAAGTAAGCGCCGCTAAAAACCCTAAGCCCAACGACACCGTTTC-TGAG-ATTTTG
1 CGGCGTTTTTAAGTAAGCGCCGC-AAAAAACCTAAGCGCAACGACGCCGTTTCAAGAGCA-TTTG
25978536 GGGATTTAG
64 GGGATTTAG
*
25978545 CGGCGTTTGTATAA--AAGCGCCGCAAAAAAAACTAAGCGCAACGACGCCGTTTC
1 CGGCGTTT-T-TAAGTAAGCGCCGC-AAAAAACCTAAGCGCAACGACGCCGTTTC
25978598 CCGAGCTATT
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
71 13 0.12
72 74 0.69
73 18 0.17
74 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (72 bp):
CGGCGTTTTTAAGTAAGCGCCGCAAAAAACCTAAGCGCAACGACGCCGTTTCAAGAGCATTTGGG
GATTTAG
Found at i:25978779 original size:113 final size:114
Alignment explanation
Indices: 25978558--25978780 Score: 249
Period size: 113 Copynumber: 2.0 Consensus size: 114
25978548 CGTTTGTATA
* *
25978558 AAAGCGCCGCAAAAAAAACTAAGCGCAACGACGCCGTTTCCCGAGCTATTCACGGAATTAGCGGC
1 AAAGCGCCGCAAAAAAAACTAAGCGCAACGACACCGTCTCCCGAGCTATTCACGGAATTAGCGGC
* * * *
25978623 GCTTCCTATAAAGCGCCGTTAATGCTCAGGTCTTTAGCGGCGTTTCTGGG
66 GCTT-CTATAAAGCGCCGCTAATGATCAGCTCTTTAGCAGCGTTTCTGGG
* * * * * *
25978673 AAAGCGCCGCAAAAAAATCT-AGCGTAACGACATCGTCTCGCC-AGCT-TTCAGGGATTTAGTGG
1 AAAGCGCCGCAAAAAAAACTAAGCGCAACGACACCGTCTC-CCGAGCTATTCACGGAATTAGCGG
*
25978735 CGCTT-TATAGGAAGCGCCGCTAATTATCAGC-CTTTTAGCAGCGTTT
65 CGCTTCTATA--AAGCGCCGCTAATGATCAGCTC-TTTAGCAGCGTTT
25978781 GTTGTAAAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
111 4 0.04
112 1 0.01
113 46 0.51
114 19 0.21
115 21 0.23
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (114 bp):
AAAGCGCCGCAAAAAAAACTAAGCGCAACGACACCGTCTCCCGAGCTATTCACGGAATTAGCGGC
GCTTCTATAAAGCGCCGCTAATGATCAGCTCTTTAGCAGCGTTTCTGGG
Found at i:25979138 original size:21 final size:20
Alignment explanation
Indices: 25979099--25979153 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
25979089 AGAATATGAA
* *
25979099 TTTAGGGTTTGAGATTTATGG
1 TTTAGGGTTT-AGGTTTATGC
25979120 TTTAGGGTTTAGGTGTTATGC
1 TTTAGGGTTTAGGT-TTATGC
* *
25979141 TTTTGGGGTTAGG
1 TTTAGGGTTTAGG
25979154 GGGATTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.15, C:0.02, G:0.36, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTAGGTTTATGC
Found at i:25979185 original size:8 final size:8
Alignment explanation
Indices: 25979172--25979230 Score: 77
Period size: 8 Copynumber: 7.6 Consensus size: 8
25979162 AGATCTAGGA
25979172 TTTAGGGG
1 TTTAGGGG
25979180 TTTAGGGG
1 TTTAGGGG
*
25979188 TTTAGGAG
1 TTTAGGGG
25979196 TTTAGGGG
1 TTTAGGGG
25979204 -TTAGGGG
1 TTTAGGGG
* *
25979211 TTTAGAGA
1 TTTAGGGG
25979219 TTT-GGGG
1 TTTAGGGG
25979226 TTTAG
1 TTTAG
25979231 AGTTTGAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
7 12 0.28
8 31 0.72
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (8 bp):
TTTAGGGG
Found at i:25979193 original size:23 final size:23
Alignment explanation
Indices: 25979167--25979230 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
25979157 ATTTAAGATC
25979167 TAGGATTTAGGGGTTTAGGGGTT
1 TAGGATTTAGGGGTTTAGGGGTT
25979190 TAGGAGTTTAGGGG-TTAGGGGTT
1 TAGGA-TTTAGGGGTTTAGGGGTT
25979213 TAGAGATTT-GGGGTTTAG
1 TAG-GATTTAGGGGTTTAG
25979231 AGTTTGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.11
23 24 0.63
24 10 0.26
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.38
Consensus pattern (23 bp):
TAGGATTTAGGGGTTTAGGGGTT
Found at i:25979213 original size:15 final size:15
Alignment explanation
Indices: 25979173--25979230 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
25979163 GATCTAGGAT
25979173 TTAGGGGTTTAGGGG
1 TTAGGGGTTTAGGGG
*
25979188 TTTAGGAGTTTAGGGG
1 -TTAGGGGTTTAGGGG
* *
25979204 TTAGGGGTTTAGAGA
1 TTAGGGGTTTAGGGG
*
25979219 TTTGGGGTTTAG
1 TTAGGGGTTTAG
25979231 AGTTTGAACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 23 0.62
16 14 0.38
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (15 bp):
TTAGGGGTTTAGGGG
Found at i:25979231 original size:15 final size:15
Alignment explanation
Indices: 25979170--25979236 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
25979160 TAAGATCTAG
*
25979170 GATTTAGGGGTTTAGG
1 GATTT-GGGGTTTAGA
* * *
25979186 GGTTTAGGAGTTTAGG
1 GATTT-GGGGTTTAGA
* *
25979202 GGTTAGGGGTTTAGA
1 GATTTGGGGTTTAGA
25979217 GATTTGGGGTTTAGA
1 GATTTGGGGTTTAGA
25979232 G-TTTG
1 GATTTG
25979237 AACGGTAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 4 0.09
15 22 0.50
16 18 0.41
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (15 bp):
GATTTGGGGTTTAGA
Found at i:25979556 original size:39 final size:40
Alignment explanation
Indices: 25979502--25979578 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
25979492 AATAAAATTT
25979502 TTTAGGGGTTTTGCTTT-AGGGATT-AGGGAGATTTAGGAG
1 TTTAGGGGTTTTGCTTTAAGGG-TTAAGGGAGATTTAGGAG
*
25979541 TTTA-GGGTTTATGCTTTAAGGGTTAAGGGGGATTTAGG
1 TTTAGGGGTTT-TGCTTTAAGGGTTAAGGGAGATTTAGG
25979579 GTTATGGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 6 0.18
39 12 0.35
40 16 0.47
ACGTcount: A:0.21, C:0.03, G:0.38, T:0.39
Consensus pattern (40 bp):
TTTAGGGGTTTTGCTTTAAGGGTTAAGGGAGATTTAGGAG
Found at i:25980401 original size:22 final size:23
Alignment explanation
Indices: 25980375--25980436 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
25980365 TTTTTATATT
*
25980375 AAATACTTAA-AAATATTACT-TA
1 AAATA-TTAATAAATATTAATGTA
*
25980397 AAATATTAATAATTATTAATGTA
1 AAATATTAATAAATATTAATGTA
25980420 AAAT-TTAAATTAAATAT
1 AAATATT-AA-TAAATAT
25980437 ACAAGAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.12
22 15 0.45
23 8 0.24
24 6 0.18
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATATTAATAAATATTAATGTA
Found at i:25980732 original size:82 final size:83
Alignment explanation
Indices: 25980634--25980799 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 83
25980624 TAAATATAAA
*
25980634 TAATTTAGTGGCGTTTTTTTAAAAAACGCCGC-AATAATATTTGAAAAATTGAATAAAACGGAGC
1 TAATTTAGTGGCGTTTTTGTAAAAAACGCCGCAAATAATATTTGAAAAATTGAATAAAACGGAGC
25980698 CGTTTCGTGAAATGAAAT
66 CGTTTCGTGAAATGAAAT
*
25980716 TAATTTAGTGGCGTTTTTGTAAAAAACGCCGCAAATAATATTTGAAAAATTGAATAAAACGTAGC
1 TAATTTAGTGGCGTTTTTGTAAAAAACGCCGCAAATAATATTTGAAAAATTGAATAAAACGGAGC
25980781 CGTTTCGTGAAATGAAAT
66 CGTTTCGTGAAATGAAAT
25980799 T
1 T
25980800 TAATAGATTT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 31 0.38
83 50 0.62
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (83 bp):
TAATTTAGTGGCGTTTTTGTAAAAAACGCCGCAAATAATATTTGAAAAATTGAATAAAACGGAGC
CGTTTCGTGAAATGAAAT
Found at i:25982305 original size:33 final size:31
Alignment explanation
Indices: 25982241--25982313 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 31
25982231 GGTTTTTGCA
* *
25982241 GCTAAGATGGTACCTTCTACTGGTTTTTGCT
1 GCTAAGATGGTACCTTCTACTGATTTCTGCT
*
25982272 GCTAAGATGGTACCGCTTCTATTGATTTCTGCT
1 GCTAAGATGGTA-C-CTTCTACTGATTTCTGCT
25982305 GCTAA-ATGG
1 GCTAAGATGG
25982314 GAAATAGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 12 0.32
32 5 0.14
33 20 0.54
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GCTAAGATGGTACCTTCTACTGATTTCTGCT
Found at i:25983420 original size:25 final size:25
Alignment explanation
Indices: 25983386--25983609 Score: 331
Period size: 25 Copynumber: 8.8 Consensus size: 25
25983376 NNNNNNNNNN
25983386 TAACTTACAACTTACATAATACATT
1 TAACTTACAACTTACATAATACATT
*
25983411 TAACTTACAACTTACATAATACATAA
1 TAACTTACAACTTACATAATACAT-T
* *
25983437 TAACTTACAACTTACATTATACACT
1 TAACTTACAACTTACATAATACATT
* *
25983462 TAACTTACAACTTACATTATAACACT
1 TAACTTACAACTTACATAAT-ACATT
25983488 TAACTTACAACTTACATAATACATT
1 TAACTTACAACTTACATAATACATT
*
25983513 TAACTTACAACTTACATAATACATAA
1 TAACTTACAACTTACATAATACAT-T
* *
25983539 TAACTTACAACTTACATTATACACT
1 TAACTTACAACTTACATAATACATT
25983564 TAACTTACAACTTACATAATACATT
1 TAACTTACAACTTACATAATACATT
25983589 TAACTTACATAACTTACATAA
1 TAACTTAC--AACTTACATAA
25983610 CTTACATAAT
Statistics
Matches: 182, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
25 103 0.57
26 68 0.37
27 11 0.06
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (25 bp):
TAACTTACAACTTACATAATACATT
Found at i:25983465 original size:51 final size:50
Alignment explanation
Indices: 25983386--25983609 Score: 333
Period size: 51 Copynumber: 4.4 Consensus size: 50
25983376 NNNNNNNNNN
*
25983386 TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAA
1 TAACTTACAACTTACATAATACACTTAACTTACAACTTACATAATACAT-A
* *
25983437 TAACTTACAACTTACATTATACACTTAACTTACAACTTACATTATAACACT-
1 TAACTTACAACTTACATAATACACTTAACTTACAACTTACATAAT-ACA-TA
*
25983488 TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAA
1 TAACTTACAACTTACATAATACACTTAACTTACAACTTACATAATACAT-A
* *
25983539 TAACTTACAACTTACATTATACACTTAACTTACAACTTACATAATACATT
1 TAACTTACAACTTACATAATACACTTAACTTACAACTTACATAATACATA
25983589 TAACTTACATAACTTACATAA
1 TAACTTAC--AACTTACATAA
25983610 CTTACATAAT
Statistics
Matches: 157, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
49 1 0.01
50 11 0.07
51 131 0.83
52 13 0.08
53 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (50 bp):
TAACTTACAACTTACATAATACACTTAACTTACAACTTACATAATACATA
Done.