Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 65 of 106
Found at i:24756153 original size:22 final size:22
Alignment explanation
Indices: 24756110--24756162 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
24756100 TTTCTCACTA
* *
24756110 CAGCGAGAAAGCATTCTTGCTG
1 CAGCGAGAAAGCATGCTCGCTG
24756132 CAGCGAGAAAGCATGCTCGCTG
1 CAGCGAGAAAGCATGCTCGCTG
*
24756154 CAGTGAGAA
1 CAGCGAGAA
24756163 GCAAGGCACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (22 bp):
CAGCGAGAAAGCATGCTCGCTG
Found at i:24762966 original size:37 final size:37
Alignment explanation
Indices: 24762908--24762980 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
24762898 CTCTCTTTCC
24762908 TAAGTTTGTTTCAGTTCCTAAATCAATTTAATTGGTA
1 TAAGTTTGTTTCAGTTCCTAAATCAATTTAATTGGTA
*
24762945 TAAGTTTGTTT-AGGTTTCTAAATCAATTTAATTGGT
1 TAAGTTTGTTTCA-GTTCCTAAATCAATTTAATTGGT
24762981 GATCAATCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (37 bp):
TAAGTTTGTTTCAGTTCCTAAATCAATTTAATTGGTA
Found at i:24763983 original size:21 final size:21
Alignment explanation
Indices: 24763959--24764005 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
24763949 CTCTTAAAGT
24763959 AATTAAAAC-AAAATAACATAA
1 AATTAAAACTAAAATAAC-TAA
* *
24763980 AATT-TAACTAAAATAACTTA
1 AATTAAAACTAAAATAACTAA
24764000 AATTAA
1 AATTAA
24764006 CTACTCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
AATTAAAACTAAAATAACTAA
Found at i:24771815 original size:2 final size:2
Alignment explanation
Indices: 24771808--24771842 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24771798 CTGGTATGCA
24771808 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24771843 TCTTGTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:24780734 original size:22 final size:22
Alignment explanation
Indices: 24780707--24780773 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
24780697 AGCTATAATA
24780707 AATATTATAAAGAATATTATTT
1 AATATTATAAAGAATATTATTT
** *
24780729 AATATTATTATTTGAATA-TA-AT
1 AATATTA-TA-AAGAATATTATTT
*
24780751 AATATAATAAAGAATATTATTT
1 AATATTATAAAGAATATTATTT
24780773 A
1 A
24780774 GTAATATTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
22 16 0.47
23 4 0.12
24 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
AATATTATAAAGAATATTATTT
Found at i:24780782 original size:41 final size:44
Alignment explanation
Indices: 24780687--24780791 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
24780677 TTAATATATT
** *
24780687 TATATTATTTAGCTATAATAAATATTATAAAGAATATTATTTAA
1 TATATTATTTAAATATAATAAATATAATAAAGAATATTATTTAA
* *
24780731 TATTATTATTTGAATATAAT-AATATAATAAAGAATATTATTTAG
1 TA-TATTATTTAAATATAATAAATATAATAAAGAATATTATTTAA
*
24780775 TA-A-TATTTAAATTTAAT
1 TATATTATTTAAATATAAT
24780792 GAAGAATATA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 12 0.23
42 1 0.02
44 26 0.49
45 14 0.26
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (44 bp):
TATATTATTTAAATATAATAAATATAATAAAGAATATTATTTAA
Found at i:24787598 original size:3 final size:3
Alignment explanation
Indices: 24787590--24787619 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
24787580 TGAGTATTTG
*
24787590 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24787620 ATAGATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:24790363 original size:14 final size:14
Alignment explanation
Indices: 24790338--24790375 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24790328 AAGAGAACAA
*
24790338 ATTATATATGTGT-
1 ATTATATGTGTGTC
24790351 ATATATATGTGTGTC
1 AT-TATATGTGTGTC
24790366 ATTATATGTG
1 ATTATATGTG
24790376 CAGTGATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (14 bp):
ATTATATGTGTGTC
Found at i:24809785 original size:68 final size:69
Alignment explanation
Indices: 24809674--24809860 Score: 218
Period size: 68 Copynumber: 2.7 Consensus size: 69
24809664 GCACTTCGAT
* * * * *
24809674 TGAAAGGTTATATATTTTCATATGTAAAGTTGTCTCTTGATAAAGTGACTATTGTAAA-GATACT
1 TGAAAGGTTATATCTTATCATATGTAAAGTTGTCTTTTAATAAAGTGACTATTG-AAATAATACT
24809738 ACAAC
65 ACAAC
*
24809743 TGAAAGGTTATATCTTAT-ATATGTAAAGTTGTCTTTTAATAAAGTGACTATTGAAATAATACTT
1 TGAAAGGTTATATCTTATCATATGTAAAGTTGTCTTTTAATAAAGTGACTATTGAAATAATACTA
*
24809807 CAAT
66 CAAC
* * * * * * *
24809811 TCAAAGCTTATGTC-TATGATATGAAAAGTTGTCTTTTTATAAGGTGACTA
1 TGAAAGGTTATATCTTATCATATGTAAAGTTGTCTTTTAATAAAGTGACTA
24809861 CTAGAAAAAC
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
67 6 0.06
68 81 0.79
69 16 0.16
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (69 bp):
TGAAAGGTTATATCTTATCATATGTAAAGTTGTCTTTTAATAAAGTGACTATTGAAATAATACTA
CAAC
Found at i:24811078 original size:15 final size:15
Alignment explanation
Indices: 24811058--24811105 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
24811048 TAAATCATTA
24811058 TAAGTTGTTTTAATT
1 TAAGTTGTTTTAATT
* *
24811073 TAAGTTATTTTATTT
1 TAAGTTGTTTTAATT
* *
24811088 TAAATTGCTTTTAGTT
1 TAAGTTG-TTTTAATT
24811104 TA
1 TA
24811106 GTTTAGTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.60
Consensus pattern (15 bp):
TAAGTTGTTTTAATT
Found at i:24811641 original size:15 final size:13
Alignment explanation
Indices: 24811623--24811656 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
24811613 AAATCTTTAG
24811623 TTTTCTATTCTTTT
1 TTTTCTATT-TTTT
24811637 CTTTTCTATTTTTT
1 -TTTTCTATTTTTT
24811651 TTTTCT
1 TTTTCT
24811657 TGAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 4 0.21
15 9 0.47
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTATTTTTT
Found at i:24814958 original size:42 final size:42
Alignment explanation
Indices: 24814890--24815015 Score: 198
Period size: 42 Copynumber: 3.0 Consensus size: 42
24814880 TGTAATGATA
*
24814890 TTGACCCGGCTATGTGCGAGTAGGAGTGCGTATAAGCCGTTG
1 TTGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
* *
24814932 TTGACCCGGCTATGTGTGAGTGGGAGTGCGCATAAGCCGTTG
1 TTGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
* * *
24814974 CTAACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
1 TTGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
24815016 CATATGAGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (42 bp):
TTGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTG
Found at i:24823695 original size:22 final size:22
Alignment explanation
Indices: 24823670--24823715 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24823660 ATTTCTATGC
24823670 ATTACTA-CAAAAATTAAGCCAA
1 ATTACTATC-AAAATTAAGCCAA
*
24823692 ATTATTATCAAAATTAAGCCAA
1 ATTACTATCAAAATTAAGCCAA
24823714 AT
1 AT
24823716 AACTCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (22 bp):
ATTACTATCAAAATTAAGCCAA
Found at i:24833315 original size:13 final size:13
Alignment explanation
Indices: 24833297--24833321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24833287 GGAGAAATTG
24833297 TGATTTTATAAAA
1 TGATTTTATAAAA
24833310 TGATTTTATAAA
1 TGATTTTATAAA
24833322 TTTTTTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:24834536 original size:15 final size:14
Alignment explanation
Indices: 24834509--24834559 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 14
24834499 TTTAAAGATC
24834509 AAAGATTTTGATTTT
1 AAAG-TTTTGATTTT
24834524 AAAGTTTTGGATTTT
1 AAAGTTTT-GATTTT
24834539 AAAGTTTTCGATTTT
1 AAAGTTTT-GATTTT
24834554 AAAGTT
1 AAAGTT
24834560 GTTTTAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 4 0.12
15 30 0.88
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (14 bp):
AAAGTTTTGATTTT
Found at i:24844005 original size:28 final size:28
Alignment explanation
Indices: 24843956--24844193 Score: 289
Period size: 28 Copynumber: 8.3 Consensus size: 28
24843946 GGGCAGCTTT
* *
24843956 AACATGTTTTGTTTTAATTTAGATAAGAA
1 AACATG-TTTGTCTTAATTTAGACAAGAA
*
24843985 AACATGTTTATCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* * *
24844013 AACATATACTGTCTTAATTTAGATAAGAA
1 AACATGT-TTGTCTTAATTTAGACAAGAA
* *
24844042 AACATGTTTATCTTAATTTAGACAAAAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
24844070 AACATGTTTTGTCTTCATTTAGACAAGAA
1 AACATG-TTTGTCTTAATTTAGACAAGAA
*
24844099 AACATGCTTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* *
24844129 AATATGTTTTGTCTTGATTTAGACAAG-A
1 AACATG-TTTGTCTTAATTTAGACAAGAA
* *
24844157 AACATATTTGTCTTAATTTAGACAAGAT
1 AACATGTTTGTCTTAATTTAGACAAGAA
24844185 AACATGTTT
1 AACATGTTT
24844194 TACCTTAATT
Statistics
Matches: 178, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
27 19 0.11
28 72 0.40
29 62 0.35
30 14 0.08
31 11 0.06
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:24844044 original size:57 final size:57
Alignment explanation
Indices: 24843956--24844203 Score: 293
Period size: 57 Copynumber: 4.3 Consensus size: 57
24843946 GGGCAGCTTT
* * *
24843956 AACATGTTTTGTTTTAATTTAGATAAGAAAACATGTTTATCTTAATTTAGACAAGAA
1 AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTTAGACAAGAA
** * *
24844013 AACATATACTGTCTTAATTTAGATAAGAAAACATGTTTATCTTAATTTAGACAAAAA
1 AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTTAGACAAGAA
* * * *
24844070 AACATGTTTTGTCTTCATTTAGACAAGAAAACATGCTTGTCTTAATTTAAGACAAGAA
1 AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTT-AGACAAGAA
* * * *
24844128 AA-ATATGTTTTGTCTTGATTTAGACAAG-AAACATATTTGTCTTAATTTAGACAAGAT
1 AACATA--TTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTTAGACAAGAA
* **
24844185 AACATGTTTTACCTTAATT
1 AACATATTTTGTCTTAATT
24844204 AAAGATAAGA
Statistics
Matches: 165, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
56 10 0.06
57 105 0.64
58 30 0.18
59 20 0.12
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (57 bp):
AACATATTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTTAGACAAGAA
Found at i:24844101 original size:86 final size:89
Alignment explanation
Indices: 24843956--24844189 Score: 284
Period size: 86 Copynumber: 2.7 Consensus size: 89
24843946 GGGCAGCTTT
* * * * *
24843956 AACATGTTTTGTTTTAATTTAGATAAGAAAACATGTTTATCTTAATTTAGACAAGAAAACATATA
1 AACATGTTTTATCTTAATTTAGACAAAAAAACATGTTTGTCTTAATTTAGACAAGAAAACATATA
*
24844021 C-TGTCTTAATTT-AGATAAG-AA
66 CTTGTCTTAATTTAAGACAAGAAA
*
24844042 AACATG-TTTATCTTAATTTAGACAAAAAAACATGTTTTGTCTTCATTTAGACAAGAAAAC--AT
1 AACATGTTTTATCTTAATTTAGACAAAAAAACATG-TTTGTCTTAATTTAGACAAGAAAACATAT
*
24844104 GCTTGTCTTAATTTAAGACAAGAAA
65 ACTTGTCTTAATTTAAGACAAGAAA
* * * * * *
24844129 AATATGTTTTGTCTTGATTTAGAC-AAGAAACATATTTGTCTTAATTTAGACAAGATAACAT
1 AACATGTTTTATCTTAATTTAGACAAAAAAACATGTTTGTCTTAATTTAGACAAGAAAACAT
24844190 GTTTTACCTT
Statistics
Matches: 126, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
84 3 0.02
85 35 0.28
86 58 0.46
87 15 0.12
88 15 0.12
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (89 bp):
AACATGTTTTATCTTAATTTAGACAAAAAAACATGTTTGTCTTAATTTAGACAAGAAAACATATA
CTTGTCTTAATTTAAGACAAGAAA
Found at i:24851730 original size:36 final size:36
Alignment explanation
Indices: 24851648--24851831 Score: 164
Period size: 36 Copynumber: 5.2 Consensus size: 36
24851638 AATTGGTTAA
* * *
24851648 TTTAATCAATTAGGCCCAATAACTTAATTAAATAA-
1 TTTAATCAATTAAGCCCAATCACTTAATTAAACAAT
* * * *
24851683 TTTAATTAATTAAGCCTAACCATTTAATTAAACAAT
1 TTTAATCAATTAAGCCCAATCACTTAATTAAACAAT
* *
24851719 TTTAATCAATT-AGACCCCATGACTTAATTAAACAAT
1 TTTAATCAATTAAG-CCCAATCACTTAATTAAACAAT
* * * *
24851755 TTTAATCAACTAGGCCCAATGACTTAATTAAATAA-
1 TTTAATCAATTAAGCCCAATCACTTAATTAAACAAT
* * * *
24851790 TTTAATTAAGT-AG-AC-ATAACTTAATTAAACAAT
1 TTTAATCAATTAAGCCCAATCACTTAATTAAACAAT
24851823 TTTAATCAA
1 TTTAATCAA
24851832 GTGCTTAAGA
Statistics
Matches: 121, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
32 15 0.12
33 9 0.07
34 1 0.01
35 39 0.32
36 56 0.46
37 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (36 bp):
TTTAATCAATTAAGCCCAATCACTTAATTAAACAAT
Found at i:24851794 original size:71 final size:71
Alignment explanation
Indices: 24851645--24851831 Score: 211
Period size: 71 Copynumber: 2.7 Consensus size: 71
24851635 CTTAATTGGT
* * * * * * *
24851645 TAATTTAATCAATTAGGCCCAATAACTTAATTAAATAA-TTTAATTAATTAAGCCTAACCATTTA
1 TAATTTAATCAATTAGACCCCATAACTTAATTAAACAATTTTAATCAACTAAGCCCAACCACTTA
24851709 ATTAAA
66 ATTAAA
* * * **
24851715 CAATTTTAATCAATTAGACCCCATGACTTAATTAAACAATTTTAATCAACTAGGCCCAATGACTT
1 TAA-TTTAATCAATTAGACCCCATAACTTAATTAAACAATTTTAATCAACTAAGCCCAACCACTT
24851780 AATTAAA
65 AATTAAA
* *
24851787 TAATTTAATTAAGTAGA---CATAACTTAATTAAACAATTTTAATCAA
1 TAATTTAATCAATTAGACCCCATAACTTAATTAAACAATTTTAATCAA
24851832 GTGCTTAAGA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
68 27 0.27
70 2 0.02
71 43 0.43
72 27 0.27
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.35
Consensus pattern (71 bp):
TAATTTAATCAATTAGACCCCATAACTTAATTAAACAATTTTAATCAACTAAGCCCAACCACTTA
ATTAAA
Found at i:24854299 original size:12 final size:13
Alignment explanation
Indices: 24854277--24854318 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
24854267 CTTACTGAAA
24854277 AAAAACTAATTAT
1 AAAAACTAATTAT
*
24854290 AAAAAC-AATTAG
1 AAAAACTAATTAT
24854302 AAATAACTAAATTAT
1 AAA-AACT-AATTAT
24854317 AA
1 AA
24854319 TTGAAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 8 0.33
13 9 0.38
15 7 0.29
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAAACTAATTAT
Found at i:24859332 original size:25 final size:25
Alignment explanation
Indices: 24859303--24859360 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
24859293 ATTCAACCTT
24859303 TTGATCAATTGAACATAATTCATAA
1 TTGATCAATTGAACATAATTCATAA
24859328 TTGATCAATTGAACATAATTCATAA
1 TTGATCAATTGAACATAATTCATAA
24859353 TTGATCAA
1 TTGATCAA
24859361 ATATCATTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (25 bp):
TTGATCAATTGAACATAATTCATAA
Found at i:24859367 original size:17 final size:17
Alignment explanation
Indices: 24859323--24859356 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24859313 GAACATAATT
*
24859323 CATAATTGATCAATTGAA
1 CATAATTCAT-AATTGAA
24859341 CATAATTCATAATTGA
1 CATAATTCATAATTGA
24859357 TCAAATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (17 bp):
CATAATTCATAATTGAA
Found at i:24862077 original size:29 final size:29
Alignment explanation
Indices: 24862021--24862251 Score: 279
Period size: 29 Copynumber: 8.0 Consensus size: 29
24862011 TAACAGCTTT
*
24862021 AACATGTTTTGTCTTAATTTAGACAAAAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* * *
24862050 AACATG-TTTGTCTTAATTAAGATAAAAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
24862078 AACATGTTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* * *
24862107 ACCATATTTTGTGTTAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
*
24862136 AACATG-TTTGTCTTAATTTAAGATAAGAAA
1 AACATGTTTTGTCTTAATTT-AGACAAG-AA
* * * *
24862166 AATATGTTTTGGCTTGATCTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* *
24862195 AACATG-TTTGTCTCAATTTAGACAAGAT
1 AACATGTTTTGTCTTAATTTAGACAAGAA
*
24862223 AACATGTTTTGTCTTAATTAAAGACAAGA
1 AACATGTTTTGTCTTAATT-TAGACAAGA
24862252 GTTGTCTTAA
Statistics
Matches: 171, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
28 61 0.36
29 79 0.46
30 21 0.12
31 10 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (29 bp):
AACATGTTTTGTCTTAATTTAGACAAGAA
Found at i:24862146 original size:57 final size:57
Alignment explanation
Indices: 24862021--24862251 Score: 254
Period size: 57 Copynumber: 4.0 Consensus size: 57
24862011 TAACAGCTTT
* * * *
24862021 AACATGTTTTGTCTTAATTTAGACAAAAAAACAT-GTTTGTCTTAATTAAGATAAAAA
1 AACATGTTTTGTCTTAATTTAGAC-AAGAAACATATTTTGTCTTAATTAAGACAAGAA
* *
24862078 AACATGTTTTGTCTTAATTTAGACAAGAAACCATATTTTGTGTTAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAAA-CATATTTTGTCTTAATTAAGACAAGAA
* * * *
24862136 AACATG-TTTGTCTTAATTTAAGATAAGAAAAATATGTTTTGGCTTGATCT-AGACAAGAA
1 AACATGTTTTGTCTTAATTT-AGACAAGAAACATA--TTTTGTCTTAAT-TAAGACAAGAA
* *
24862195 AACATG-TTTGTCTCAATTTAGACAAGATAACATGTTTTGTCTTAATTAAAGACAAGA
1 AACATGTTTTGTCTTAATTTAGACAAGA-AACATATTTTGTCTTAATT-AAGACAAGA
24862252 GTTGTCTTAA
Statistics
Matches: 148, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
56 6 0.04
57 53 0.36
58 48 0.32
59 40 0.27
60 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (57 bp):
AACATGTTTTGTCTTAATTTAGACAAGAAACATATTTTGTCTTAATTAAGACAAGAA
Found at i:24869941 original size:82 final size:82
Alignment explanation
Indices: 24869804--24869963 Score: 239
Period size: 82 Copynumber: 2.0 Consensus size: 82
24869794 TAACCAATTA
* * ** * *
24869804 AAAAAAATTCTATTTTCAAACTTTTCCAAGTAGTAATCTTCCTTTAATTGATTAGTCCTCCCTTT
1 AAAAAAATTCTATTTTCAAACTTCTACAACCAATAATCTTCCATTAATTGATTAGTCCTCCCTTT
*
24869869 AACTGATTGAGACGATT
66 AACTAATTGAGACGATT
* *
24869886 AAAAACATTCTATTTTCAAACTTCTACATCCAATAATCTTCCATTAATTGATTAGTCCTCCCTTT
1 AAAAAAATTCTATTTTCAAACTTCTACAACCAATAATCTTCCATTAATTGATTAGTCCTCCCTTT
24869951 AACTAATTGAGAC
66 AACTAATTGAGAC
24869964 TTCTCTTACT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (82 bp):
AAAAAAATTCTATTTTCAAACTTCTACAACCAATAATCTTCCATTAATTGATTAGTCCTCCCTTT
AACTAATTGAGACGATT
Found at i:24878867 original size:43 final size:43
Alignment explanation
Indices: 24878693--24878854 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 43
24878683 GTAATTATGT
* * *
24878693 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
24878736 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
24878779 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* **
24878822 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCAT
24878855 GAGCTGGTGA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.20
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:24878878 original size:20 final size:20
Alignment explanation
Indices: 24878853--24878915 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
24878843 GGGAGTGCGC
24878853 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
24878873 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
24878893 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
24878912 ATGA
1 ATGA
24878916 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:24891319 original size:21 final size:21
Alignment explanation
Indices: 24891277--24891319 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
24891267 CCTGTACCGG
*
24891277 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
24891298 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
24891319 T
1 T
24891320 TGACCAATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:24894286 original size:28 final size:27
Alignment explanation
Indices: 24894250--24894302 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
24894240 ATATCCTGGT
*
24894250 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
24894277 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
24894303 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:24894370 original size:20 final size:20
Alignment explanation
Indices: 24894347--24894392 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
24894337 CTTCTAAACC
24894347 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
24894367 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
24894387 TCAAAT
1 TCAAAT
24894393 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:24902324 original size:28 final size:27
Alignment explanation
Indices: 24902288--24902340 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
24902278 ATATCCTGGT
*
24902288 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
24902315 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
24902341 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:24902408 original size:20 final size:20
Alignment explanation
Indices: 24902385--24902430 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
24902375 CTTCTAAACC
24902385 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
24902405 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
24902425 TCAAAT
1 TCAAAT
24902431 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:24910366 original size:28 final size:27
Alignment explanation
Indices: 24910327--24910379 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
24910317 ATATCCTGGT
*
24910327 GGTGGAAAATTACAATTTTGCCCTTGG
1 GGTGGAAAATTACAATTTTACCCTTGG
*
24910354 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
24910380 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTGG
Found at i:24910449 original size:20 final size:20
Alignment explanation
Indices: 24910432--24910469 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24910422 CCTCAAATCT
24910432 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
24910452 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
24910470 GGGGCCAAAA
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:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:24924282 original size:27 final size:28
Alignment explanation
Indices: 24924252--24924427 Score: 116
Period size: 32 Copynumber: 6.2 Consensus size: 28
24924242 CATTAAAGTA
* * * *
24924252 TAACAA-AATGTTTTTGAATATGTCGTG
1 TAACAACAATATTTTTCAACATGGCGTG
*
24924279 TAACAATAATATTTTTTCAACATGGCGTG
1 TAACAACAATA-TTTTTCAACATGGCGTG
24924308 TAACAACAATATTTTTTTTTCAACATGGCGTG
1 TAACAACAATA----TTTTTCAACATGGCGTG
*
24924340 TAACAAC-CT-TTTTT-AACCATGGCGTG
1 TAACAACAATATTTTTCAA-CATGGCGTG
* **
24924366 T---AAC-ATGTTTTTTTACATGGCGTG
1 TAACAACAATATTTTTCAACATGGCGTG
* *
24924390 TAACAATAGTATTTTTTTTCAACATGGCGTG
1 TAACAACA--A-TATTTTTCAACATGGCGTG
24924421 TAACAAC
1 TAACAAC
24924428 CTAACCATGG
Statistics
Matches: 121, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.03
24 15 0.12
25 3 0.02
26 15 0.12
27 8 0.07
28 3 0.02
29 24 0.20
30 1 0.01
31 23 0.19
32 25 0.21
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (28 bp):
TAACAACAATATTTTTCAACATGGCGTG
Found at i:24924307 original size:29 final size:29
Alignment explanation
Indices: 24924275--24924426 Score: 142
Period size: 26 Copynumber: 5.3 Consensus size: 29
24924265 TTGAATATGT
24924275 CGTGTAACAATAATATTTTTTCAACATGG
1 CGTGTAACAATAATATTTTTTCAACATGG
*
24924304 CGTGTAACAACAATATTTTTTTTTCAACATGG
1 CGTGTAACAATAATA---TTTTTTCAACATGG
**
24924336 CGTGTAAC---AACCTTTTTT-AACCATGG
1 CGTGTAACAATAATATTTTTTCAA-CATGG
*
24924362 CGTGTAAC-AT-GT-TTTTTT--ACATGG
1 CGTGTAACAATAATATTTTTTCAACATGG
*
24924386 CGTGTAACAATAGTATTTTTTTTCAACATGG
1 CGTGTAACAATA--ATATTTTTTCAACATGG
24924417 CGTGTAACAA
1 CGTGTAACAA
24924427 CCTAACCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
24 13 0.12
25 5 0.05
26 25 0.24
28 1 0.01
29 22 0.21
31 16 0.15
32 22 0.21
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (29 bp):
CGTGTAACAATAATATTTTTTCAACATGG
Found at i:24924326 original size:32 final size:30
Alignment explanation
Indices: 24924275--24924427 Score: 141
Period size: 32 Copynumber: 5.4 Consensus size: 30
24924265 TTGAATATGT
* *
24924275 CGTGTAACAATA-ATATTTTTTCAACATGG
1 CGTGTAACAACATATTTTTTTTCAACATGG
24924304 CGTGTAACAACAATATTTTTTTTTCAACATGG
1 CGTGTAACAAC-ATA-TTTTTTTTCAACATGG
*
24924336 CGTGTAACAAC----CTTTTTT-AACCATGG
1 CGTGTAACAACATATTTTTTTTCAA-CATGG
*
24924362 CGTGT---AACAT-GTTTTTTT--ACATGG
1 CGTGTAACAACATATTTTTTTTCAACATGG
*
24924386 CGTGTAACAATAGTATTTTTTTTCAACATGG
1 CGTGTAACAACA-TATTTTTTTTCAACATGG
24924417 CGTGTAACAAC
1 CGTGTAACAAC
24924428 CTAACCATGG
Statistics
Matches: 103, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
23 3 0.03
24 10 0.10
25 3 0.03
26 22 0.21
27 3 0.03
28 1 0.01
29 17 0.17
30 1 0.01
31 17 0.17
32 26 0.25
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (30 bp):
CGTGTAACAACATATTTTTTTTCAACATGG
Found at i:24924384 original size:24 final size:24
Alignment explanation
Indices: 24924321--24924394 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 24
24924311 CAACAATATT
24924321 TTTTTTTCAACATGGCGTGTAACAACC
1 TTTTTTT--ACATGGCGTGTAAC-ACC
* **
24924348 TTTTTTAACCATGGCGTGTAACATG
1 TTTTTTTA-CATGGCGTGTAACACC
24924373 TTTTTTTACATGGCGTGTAACA
1 TTTTTTTACATGGCGTGTAACA
24924395 ATAGTATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 14 0.33
25 9 0.21
26 13 0.31
27 6 0.14
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (24 bp):
TTTTTTTACATGGCGTGTAACACC
Found at i:24924468 original size:45 final size:45
Alignment explanation
Indices: 24924411--24924507 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
24924401 TTTTTTTTCA
* * * *
24924411 ACATGGCGTGTAACAACCTAACCATGGTTTGTTACAAGTTTTTGT
1 ACATGGCGTGTAACAACCTAACCATAGCTTGTCACAAGATTTTGT
*
24924456 ACATGGCGTGTAACAACCTAACCATAGCTTGTCACAGGATTTTGT
1 ACATGGCGTGTAACAACCTAACCATAGCTTGTCACAAGATTTTGT
*
24924501 ACTTGGC
1 ACATGGC
24924508 TTGTCACATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
ACATGGCGTGTAACAACCTAACCATAGCTTGTCACAAGATTTTGT
Found at i:24924468 original size:76 final size:78
Alignment explanation
Indices: 24924298--24924472 Score: 237
Period size: 76 Copynumber: 2.2 Consensus size: 78
24924288 TATTTTTTCA
24924298 ACATGGCGTGTAACAACAATATTTTTTTTTCAACATGGCGTGTAACAACCTTTTTTAACCATGGC
1 ACATGGCGTGTAACAACAATATTTTTTTTTCAACATGGCGTGTAACAACC----TTAACCATGGC
* *
24924363 GTGTAACATGTTTTTTT
62 GTGTAACAAGTTTTTGT
* * **
24924380 ACATGGCGTGTAACAATAGTA-TTTTTTTTCAACATGGCGTGTAACAACC-TAACCATGGTTTGT
1 ACATGGCGTGTAACAACAATATTTTTTTTTCAACATGGCGTGTAACAACCTTAACCATGGCGTGT
*
24924443 TACAAGTTTTTGT
66 AACAAGTTTTTGT
24924456 ACATGGCGTGTAACAAC
1 ACATGGCGTGTAACAAC
24924473 CTAACCATAG
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
76 38 0.45
81 28 0.33
82 19 0.22
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (78 bp):
ACATGGCGTGTAACAACAATATTTTTTTTTCAACATGGCGTGTAACAACCTTAACCATGGCGTGT
AACAAGTTTTTGT
Found at i:24924560 original size:69 final size:70
Alignment explanation
Indices: 24924449--24924649 Score: 293
Period size: 69 Copynumber: 2.9 Consensus size: 70
24924439 TTGTTACAAG
* * *
24924449 TTTTTGTACATGGCGTGTAACAAC-CTAACCATAGCTTGTCACAGGATTTTGTACTTGGCT-TGT
1 TTTTTGTACATAGCGTGTAAC-ACGCTAACCATAGCTTGTCACAGGTTTTTGTACATGGCTGTGT
24924512 CACATA
65 CACATA
* * *
24924518 TTTTTATACATAGCATGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGG-TGTGTC
1 TTTTTGTACATAGCGTGTAACACGCTAACCATAGCTTGTCACAGGTTTTTGTACATGGCTGTGTC
24924582 ACATA
66 ACATA
* *
24924587 TTTTTGTATATAGCGTGTAACACGCTAACCACAGCTTGTCACAGGTTTTTGTACATGGC-GTGT
1 TTTTTGTACATAGCGTGTAACACGCTAACCATAGCTTGTCACAGGTTTTTGTACATGGCTGTGT
24924650 AACAAGTTAA
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
68 3 0.03
69 115 0.97
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (70 bp):
TTTTTGTACATAGCGTGTAACACGCTAACCATAGCTTGTCACAGGTTTTTGTACATGGCTGTGTC
ACATA
Found at i:24924604 original size:24 final size:24
Alignment explanation
Indices: 24924554--24924604 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
24924544 AACCATGGCT
* * *
24924554 TGTCACAGGTTTTTGTACATGGTG
1 TGTCACAGATTTTTGTACATAGCG
* *
24924578 TGTCACATATTTTTGTATATAGCG
1 TGTCACAGATTTTTGTACATAGCG
24924602 TGT
1 TGT
24924605 AACACGCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.45
Consensus pattern (24 bp):
TGTCACAGATTTTTGTACATAGCG
Found at i:24924624 original size:114 final size:114
Alignment explanation
Indices: 24924506--24924767 Score: 398
Period size: 114 Copynumber: 2.3 Consensus size: 114
24924496 TTTGTACTTG
** * * * * * *
24924506 GCTTGTCACATATTTTTATACATAGCATGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTA
1 GCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTA
* * *
24924571 CATGGTGTGTCACATATTTTTGTATATAGCGTGTAACACGCTAACCACA
66 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACACTAACCACA
* *
24924620 GCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGTTAACCATAGCTTGTCATAGATTTTTGTA
1 GCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTA
*
24924685 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACACTAACCATA
66 CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACACTAACCACA
24924734 GCTTGTCACAGGTTTTTGTACATGGCGTGTAACA
1 GCTTGTCACAGGTTTTTGTACATGGCGTGTAACA
24924768 TCATAGCGTG
Statistics
Matches: 134, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 134 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (114 bp):
GCTTGTCACAGGTTTTTGTACATGGCGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTA
CATGGCGTGTCACATATTTTTGTACATAGCGTGTAACACACTAACCACA
Found at i:24924648 original size:45 final size:45
Alignment explanation
Indices: 24924578--24924694 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 45
24924568 GTACATGGTG
* * * *
24924578 TGTCACATATTTTTGTATATAGCGTGTAACACGCTAACCACAGCT
1 TGTCACAGATTTTTGTACATGGCGTGTAACAAGCTAACCACAGCT
* * *
24924623 TGTCACAGGTTTTTGTACATGGCGTGTAACAAGTTAACCATAGCT
1 TGTCACAGATTTTTGTACATGGCGTGTAACAAGCTAACCACAGCT
*
24924668 TGTCATAGATTTTTGTACATGGCGTGT
1 TGTCACAGATTTTTGTACATGGCGTGT
24924695 CACATATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (45 bp):
TGTCACAGATTTTTGTACATGGCGTGTAACAAGCTAACCACAGCT
Found at i:24924696 original size:69 final size:69
Alignment explanation
Indices: 24924623--24924763 Score: 212
Period size: 69 Copynumber: 2.0 Consensus size: 69
24924613 AACCACAGCT
* * * *
24924623 TGTCACAGGTTTTTGTACATGGCGTGTAACA-AGTTAACCATAGCTTGTCATAGATTTTTGTACA
1 TGTCACAGATTTTTGTACATAGCGTGTAACACA-CTAACCATAGCTTGTCACAGATTTTTGTACA
24924687 TGGCG
65 TGGCG
* *
24924692 TGTCACATATTTTTGTACATAGCGTGTAACACACTAACCATAGCTTGTCACAGGTTTTTGTACAT
1 TGTCACAGATTTTTGTACATAGCGTGTAACACACTAACCATAGCTTGTCACAGATTTTTGTACAT
24924757 GGCG
66 GGCG
24924761 TGT
1 TGT
24924764 AACATCATAG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 64 0.98
70 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (69 bp):
TGTCACAGATTTTTGTACATAGCGTGTAACACACTAACCATAGCTTGTCACAGATTTTTGTACAT
GGCG
Found at i:24929483 original size:13 final size:13
Alignment explanation
Indices: 24929461--24929528 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 13
24929451 AAGAAAATAG
24929461 AATA-TTTTATTT
1 AATATTTTTATTT
24929473 AATATTTTTATTT
1 AATATTTTTATTT
**** *
24929486 AATNA-GAAAATTG
1 AAT-ATTTTTATTT
*
24929499 AGTAT-TTTATTT
1 AATATTTTTATTT
24929511 AATATTTTTATTT
1 AATATTTTTATTT
24929524 AATAT
1 AATAT
24929529 GATTAGCCAT
Statistics
Matches: 41, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
12 12 0.29
13 28 0.68
14 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.57
Consensus pattern (13 bp):
AATATTTTTATTT
Found at i:24929485 original size:38 final size:38
Alignment explanation
Indices: 24929442--24929527 Score: 136
Period size: 38 Copynumber: 2.3 Consensus size: 38
24929432 TCTATAAATA
*
24929442 TTATTTTATAAGAAAATAGAATATTTTATTTAATATTT
1 TTATTTAATAAGAAAATAGAATATTTTATTTAATATTT
* * *
24929480 TTATTTAATNAGAAAATTGAGTATTTTATTTAATATTT
1 TTATTTAATAAGAAAATAGAATATTTTATTTAATATTT
24929518 TTATTTAATA
1 TTATTTAATA
24929528 TGATTAGCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (38 bp):
TTATTTAATAAGAAAATAGAATATTTTATTTAATATTT
Found at i:24931173 original size:19 final size:19
Alignment explanation
Indices: 24931146--24931182 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24931136 GCCTCGAACT
24931146 AGATCAAATAGAGAATTTA
1 AGATCAAATAGAGAATTTA
* *
24931165 AGATGAAATTGAGAATTT
1 AGATCAAATAGAGAATTT
24931183 TAAAGTCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (19 bp):
AGATCAAATAGAGAATTTA
Found at i:24939937 original size:2 final size:2
Alignment explanation
Indices: 24939930--24939998 Score: 104
Period size: 2 Copynumber: 35.0 Consensus size: 2
24939920 GATATAACAA
*
24939930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
24939972 AT AT AT AT TT A- AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24939999 TCTTTATCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24942680 original size:30 final size:30
Alignment explanation
Indices: 24942644--24942707 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
24942634 CAAGAAGTTA
24942644 ATGAAGAGATTCAAAATGACCATAGAAATC
1 ATGAAGAGATTCAAAATGACCATAGAAATC
**
24942674 ATGAAGAGATTCAAAATGATTATAGAAATC
1 ATGAAGAGATTCAAAATGACCATAGAAATC
24942704 ATGA
1 ATGA
24942708 TGAAGAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.09, G:0.17, T:0.23
Consensus pattern (30 bp):
ATGAAGAGATTCAAAATGACCATAGAAATC
Found at i:24956875 original size:9 final size:9
Alignment explanation
Indices: 24956861--24956886 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
24956851 TTTGACATCT
24956861 ATTCTTCTC
1 ATTCTTCTC
24956870 ATTCTTCTC
1 ATTCTTCTC
24956879 ATTCTTCT
1 ATTCTTCT
24956887 TCTAACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.31, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTCTTCTC
Found at i:24959416 original size:20 final size:23
Alignment explanation
Indices: 24959379--24959423 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
24959369 TATTTAACTA
24959379 TTTATATTTTATGTATTAT-AGT
1 TTTATATTTTATGTATTATAAGT
24959401 TTTATA-TTTA-GTATTATAAGT
1 TTTATATTTTATGTATTATAAGT
24959422 TT
1 TT
24959424 AAATAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (23 bp):
TTTATATTTTATGTATTATAAGT
Found at i:24959915 original size:2 final size:2
Alignment explanation
Indices: 24959908--24959951 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
24959898 AAGTAAAAGA
24959908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24959949 AT A
1 AT A
24959952 ATTAGGGGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24960038 original size:2 final size:2
Alignment explanation
Indices: 24960031--24960056 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24960021 ACTCGGGTAC
24960031 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
24960057 GAGGCTTCTT
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:24960257 original size:2 final size:2
Alignment explanation
Indices: 24960250--24960301 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
24960240 TAAGTTATTG
* *
24960250 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TG 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 TA
*
24960291 TA TA TA CA TA T
1 TA TA TA TA TA T
24960302 TTTTGTGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24961054 original size:12 final size:12
Alignment explanation
Indices: 24961030--24961067 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24961020 TATATTTGTA
24961030 TATTTTT-TATT
1 TATTTTTATATT
*
24961041 TATTTTTATTTT
1 TATTTTTATATT
*
24961053 TATTTTTAAATT
1 TATTTTTATATT
24961065 TAT
1 TAT
24961068 AATTTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATATT
Found at i:24970284 original size:22 final size:24
Alignment explanation
Indices: 24970259--24970305 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
24970249 TACCTTTTGT
24970259 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
24970281 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
24970305 C
1 C
24970306 CTATGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:24979141 original size:43 final size:43
Alignment explanation
Indices: 24979013--24979144 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
24979003 GTAATGACAT
*
24979013 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAG-TCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCT-G-GTGA
** * * *
24979056 TGACCCGATTATGTGCGAGTAAGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
* *
24979099 TGACCCGGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
24979142 TGA
1 TGA
24979145 TGATGATGGG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
Found at i:24979600 original size:60 final size:60
Alignment explanation
Indices: 24979507--24979633 Score: 209
Period size: 60 Copynumber: 2.1 Consensus size: 60
24979497 TTCTTGCTGT
* *
24979507 AGCGAAATTCATTCTTGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTGCAATTACGCTAC
1 AGCGAAATTCATTCTCGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTACGCTAC
* * *
24979567 AGCGAAATTTATTCTCGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTTCGCTGC
1 AGCGAAATTCATTCTCGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTACGCTAC
24979627 AGCGAAA
1 AGCGAAA
24979634 AACTTTCTGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (60 bp):
AGCGAAATTCATTCTCGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTACGCTAC
Found at i:24982329 original size:37 final size:37
Alignment explanation
Indices: 24982274--24982349 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
24982264 TCTCGTTTGG
* *
24982274 GTAGAGATCATGTAATGAGAGAGGAACAATTAGTGGT
1 GTAGAGATCATGTAATGAGAAAGGAACAATTAATGGT
*
24982311 GTAGAGATCATGTTATGAGAAAGGAACAATTAATGGT
1 GTAGAGATCATGTAATGAGAAAGGAACAATTAATGGT
24982348 GT
1 GT
24982350 CTACTCCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.26
Consensus pattern (37 bp):
GTAGAGATCATGTAATGAGAAAGGAACAATTAATGGT
Found at i:24987021 original size:43 final size:43
Alignment explanation
Indices: 24986903--24987024 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
24986893 TGACTCGGCT
* * **
24986903 ATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCTAGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
24986946 ATGTACGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
24986989 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
24987025 TGATGATGGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:24987472 original size:123 final size:123
Alignment explanation
Indices: 24987253--24987540 Score: 465
Period size: 123 Copynumber: 2.3 Consensus size: 123
24987243 GATGCCCTAT
* **
24987253 TTCTCGCTGCAGCGAGAATCATTTTCACTGCAGCGAGAAACTCTTGGGTTTGGAGGGGTAGATTG
1 TTCTCGCTGCAGCGAGAATCATTTTCGCTGCAGCGAGAAACTCTTGGGTTTGGAGGGGTAGACCG
24987318 GTCGAAAACTCGCTGCAGCAAGAATGAATTTTCGCTGCAGCGAGAATGACACTATAGC
66 GTCGAAAACTCGCTGCAGCAAGAATGAATTTTCGCTGCAGCGAGAATGACACTATAGC
24987376 TTCTCGCTGCAGCGAGAATCATTTTCGCTGCAGCGAGAAACTCTTGGGTTTGGAGGGGTAGACCG
1 TTCTCGCTGCAGCGAGAATCATTTTCGCTGCAGCGAGAAACTCTTGGGTTTGGAGGGGTAGACCG
* * *
24987441 G-CAGAAAACTCGCTGCAGCGAGAATGAATTTTTGTTGCAGCGAGAATGACACTATAGC
66 GTC-GAAAACTCGCTGCAGCAAGAATGAATTTTCGCTGCAGCGAGAATGACACTATAGC
*
24987499 TTCTCGCTACAGCGA-AATTCATTCTT-GCTGCAGCGAGAAACT
1 TTCTCGCTGCAGCGAGAA-TCATT-TTCGCTGCAGCGAGAAACT
24987541 TTCTGTTTCT
Statistics
Matches: 155, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
122 3 0.02
123 150 0.97
124 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (123 bp):
TTCTCGCTGCAGCGAGAATCATTTTCGCTGCAGCGAGAAACTCTTGGGTTTGGAGGGGTAGACCG
GTCGAAAACTCGCTGCAGCAAGAATGAATTTTCGCTGCAGCGAGAATGACACTATAGC
Found at i:24987595 original size:60 final size:60
Alignment explanation
Indices: 24987502--24987668 Score: 217
Period size: 60 Copynumber: 2.8 Consensus size: 60
24987492 CTATAGCTTC
* * *
24987502 TCGCTACAGCGAAATTCATTCTTGCTGCAGCGAGAAACTTTCTGTTTCTAGGTTGCAATT
1 TCGCTGCAGCGAAATTCATTCTCGCTGCAGCGAGAAACTTTCTGTTTCTAGGTTACAATT
** * * *
24987562 TCGCTGCAGCGAAATTCATTCTCATTGCAGCGAGAAACTTTCTATTTTTGGGTTACAATT
1 TCGCTGCAGCGAAATTCATTCTCGCTGCAGCGAGAAACTTTCTGTTTCTAGGTTACAATT
* * * * *
24987622 TCGTTGCAGCGAGATTCAATCTCGCTGCAACGAAAAACTTTCTGTTT
1 TCGCTGCAGCGAAATTCATTCTCGCTGCAGCGAGAAACTTTCTGTTT
24987669 GGTCTCCTAT
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 91 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (60 bp):
TCGCTGCAGCGAAATTCATTCTCGCTGCAGCGAGAAACTTTCTGTTTCTAGGTTACAATT
Found at i:24987895 original size:22 final size:22
Alignment explanation
Indices: 24987841--24987895 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
24987831 AATCCCAACG
* *
24987841 TCGCTACAACGGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
* * *
24987863 TAGTTGTAGCGGAAAGGCATTC
1 TCGCTGCAGCGGAAAGGCATTC
24987885 TCGCTGCAGCG
1 TCGCTGCAGCG
24987896 AAGATTCGTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (22 bp):
TCGCTGCAGCGGAAAGGCATTC
Found at i:24992663 original size:19 final size:19
Alignment explanation
Indices: 24992639--24992695 Score: 114
Period size: 19 Copynumber: 3.0 Consensus size: 19
24992629 ACTTCTAAAC
24992639 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
24992658 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
24992677 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
24992696 AGTCAAATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:25005398 original size:18 final size:19
Alignment explanation
Indices: 25005361--25005398 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
25005351 CACATAAGTT
*
25005361 TAAAGATATGTTGCAAATA
1 TAAAGATATCTTGCAAATA
*
25005380 TAAAGAT-TCTTGGAAATA
1 TAAAGATATCTTGCAAATA
25005398 T
1 T
25005399 TGGTCTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (19 bp):
TAAAGATATCTTGCAAATA
Found at i:25009095 original size:21 final size:21
Alignment explanation
Indices: 25009070--25009139 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
25009060 GGGGAATGCA
25009070 CACGATGACTCCAGTTATGTG
1 CACGATGACTCCAGTTATGTG
25009091 CACGATGACTCCAGTTATGTG
1 CACGATGACTCCAGTTATGTG
*
25009112 CACGATGACTCCGGTTATGTG
1 CACGATGACTCCAGTTATGTG
*
25009133 CATGATG
1 CACGATG
25009140 TGGGGGGATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (21 bp):
CACGATGACTCCAGTTATGTG
Found at i:25015450 original size:22 final size:20
Alignment explanation
Indices: 25015412--25015455 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
25015402 ATGGTGAAAT
25015412 TTTACAAGCTTTCACCAAGC
1 TTTACAAGCTTTCACCAAGC
*
25015432 TTTACAATGGCTTTTACCAAGC
1 TTTACAA--GCTTTCACCAAGC
25015454 TT
1 TT
25015456 AGCCAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
22 14 0.67
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTACAAGCTTTCACCAAGC
Found at i:25018321 original size:13 final size:13
Alignment explanation
Indices: 25018303--25018329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25018293 GGGTCGTACA
25018303 AGATGGTTCCCTC
1 AGATGGTTCCCTC
25018316 AGATGGTTCCCTC
1 AGATGGTTCCCTC
25018329 A
1 A
25018330 AAACTAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (13 bp):
AGATGGTTCCCTC
Found at i:25020908 original size:328 final size:325
Alignment explanation
Indices: 25020314--25020967 Score: 952
Period size: 328 Copynumber: 2.0 Consensus size: 325
25020304 ATCAAAGTGC
*
25020314 ATACATAAACTGGATCATAATGCACATGGGGTACTCCAACCCTTAATATCTCCAGTGGTATTCCT
1 ATACATAAACTGGATCATAATGCACATGGGGTACTCCAAACCTTAATATCTCCAGTGGTATTCCT
* * * * * **
25020379 CCTCTCTACCAAGGCAATACATTTCAGGTACTTCATTTACTCTAGTGGTATTATTTTACCCCATT
66 CCTCCCCACCAAGGCAATACATTTCAAGTACTTCACTTACTCTAGTGGTATTATTCTACCCCACA
* * * *
25020444 AAGGCCATGCAATTCGGGTGTTCTGACTTTTTTCTCTAGTGGTATTACTCCGCCTCATTGACACC
131 AAGGCCATGCAATTCGGGTATTCTAACTTTTTTCTCTAGTGGTATTACTCCACCCCATTGACACC
* * * * *
25020509 ATGCTATCCATCATAAAACATAACAGCAGCATCAGATTGCATTCTTATTGTACAACATAACATAA
196 ATGCTATCCATCACAAAACATAACAGCAGCATCACATTGCATTATCATTATACAACATAACATAA
* * *
25020574 TGCCTACGTAACATAGCTTCTAGTCATAAATCATTATATATATCCACATGACATGTAGCTTAACT
261 TGCCTACATAACATAGCATCTAGTCATAAATCATTATATATATCCACATGACATGTAGCTCAACT
* *
25020639 ATACATAAACTTGATCATAATGCACATGGGGTACTCCAAACCTTGATATCTCCAGTGGTATTCCT
1 ATACATAAACTGGATCATAATGCACATGGGGTACTCCAAACCTTAATATCTCCAGTGGTATTCCT
* * *
25020704 -CTGCCCCGCCAAGGCAATATATTTCAAGTACTCTGACCCTTACTCTAGTGGTATT-TCTCTACC
66 CCT-CCCCACCAAGGCAATACATTTCAAGTACT-T--CACTTACTCTAGTGGTATTAT-TCTACC
* *
25020767 CCACAAAGGCCATGCAATTCGGGTATTGTAACTTTTTTCTCTAGTGGTATTACTCTACCCCATTG
126 CCACAAAGGCCATGCAATTCGGGTATTCTAACTTTTTTCTCTAGTGGTATTACTCCACCCCATTG
** * * * *
25020832 AGGCCATGCTATGCGTCACAAAACATAACAGTAGCATCACATTGGATTATCATTATACAACATAA
191 ACACCATGCTATCCATCACAAAACATAACAGCAGCATCACATTGCATTATCATTATACAACATAA
25020897 CATAATGCCTACATAACATAGCATCTAGTCATAAATCATTATATATATCCACATGACATGTAGCT
256 CATAATGCCTACATAACATAGCATCTAGTCATAAATCATTATATATATCCACATGACATGTAGCT
25020962 CAACT
321 CAACT
25020967 A
1 A
25020968 CCATGCCCCT
Statistics
Matches: 291, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
324 2 0.01
325 86 0.30
326 1 0.00
327 1 0.00
328 201 0.69
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (325 bp):
ATACATAAACTGGATCATAATGCACATGGGGTACTCCAAACCTTAATATCTCCAGTGGTATTCCT
CCTCCCCACCAAGGCAATACATTTCAAGTACTTCACTTACTCTAGTGGTATTATTCTACCCCACA
AAGGCCATGCAATTCGGGTATTCTAACTTTTTTCTCTAGTGGTATTACTCCACCCCATTGACACC
ATGCTATCCATCACAAAACATAACAGCAGCATCACATTGCATTATCATTATACAACATAACATAA
TGCCTACATAACATAGCATCTAGTCATAAATCATTATATATATCCACATGACATGTAGCTCAACT
Found at i:25023279 original size:49 final size:54
Alignment explanation
Indices: 25023222--25023361 Score: 166
Period size: 55 Copynumber: 2.6 Consensus size: 54
25023212 CGTGCATCTA
* * *
25023222 CGGTGTGGGAGTGCACATGCCGGTGATGA-C-G-GG-T-T-ATTCTAGCTATGTG
1 CGGTGTGGGAGTGCACATG-AGCTGATGACCGGTGGATATGATTCCAGCTATGTG
*
25023271 CGGTGTGGGAGTGCACACGAGCTGATGACCGGTGGATGATGATTCCAGCTATGTG
1 CGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGAT-ATGATTCCAGCTATGTG
*
25023326 CGGTGTGGGAGTGCACATGAGCTAATGAGCCGGTGG
1 CGGTGTGGGAGTGCACATGAGCTGATGA-CCGGTGG
25023362 TTGTATAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
48 7 0.09
49 19 0.25
50 1 0.01
51 2 0.03
52 1 0.01
54 1 0.01
55 39 0.51
56 7 0.09
ACGTcount: A:0.19, C:0.17, G:0.40, T:0.24
Consensus pattern (54 bp):
CGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATATGATTCCAGCTATGTG
Found at i:25023328 original size:55 final size:56
Alignment explanation
Indices: 25023257--25023361 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 56
25023247 ATGACGGGTT
* *
25023257 ATTCTAGCTATGTGCGGTGTGGGAGTGCACACGAGCTGATGA-CCGGTGGATGATG
1 ATTCCAGCTATGTGCGGTGTGGGAGTGCACACGAGCTAATGAGCCGGTGGATGATG
*
25023312 ATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGAGCCGGTGG
1 ATTCCAGCTATGTGCGGTGTGGGAGTGCACACGAGCTAATGAGCCGGTGG
25023362 TTGTATAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 39 0.85
56 7 0.15
ACGTcount: A:0.20, C:0.17, G:0.38, T:0.25
Consensus pattern (56 bp):
ATTCCAGCTATGTGCGGTGTGGGAGTGCACACGAGCTAATGAGCCGGTGGATGATG
Found at i:25023348 original size:28 final size:28
Alignment explanation
Indices: 25023262--25023349 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
25023252 GGGTTATTCT
*
25023262 AGCTATGTGCGGTGTGGGAGTGCACACG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
** * * *
25023290 AGCTGATGACCGGTG-GATGA-TG-A-TTCC
1 AGCT-ATGTGCGGTGTG-GGAGTGCACAT-G
25023317 AGCTATGTGCGGTGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
25023345 AGCTA
1 AGCTA
25023350 ATGAGCCGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
26 10 0.24
27 8 0.19
28 13 0.31
29 11 0.26
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (28 bp):
AGCTATGTGCGGTGTGGGAGTGCACATG
Found at i:25024877 original size:31 final size:31
Alignment explanation
Indices: 25024831--25024934 Score: 138
Period size: 31 Copynumber: 3.4 Consensus size: 31
25024821 ATATTTTTTC
*
25024831 TTTTCAATTTGGTCCTCCAAA-TTTGTCATTT
1 TTTTCAATTTGGTCCTTCAAACTTT-TCATTT
* * *
25024862 TTTTCAAATTAGTCCTTCAAACTTTTCATTC
1 TTTTCAATTTGGTCCTTCAAACTTTTCATTT
* *
25024893 TTTTCGATTTGGTCCTTTAAACTTTTCATTT
1 TTTTCAATTTGGTCCTTCAAACTTTTCATTT
25024924 TTTTCAATTTG
1 TTTTCAATTTG
25024935 ATCCCTTAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
31 59 0.95
32 3 0.05
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (31 bp):
TTTTCAATTTGGTCCTTCAAACTTTTCATTT
Found at i:25024958 original size:31 final size:32
Alignment explanation
Indices: 25024875--25024963 Score: 96
Period size: 31 Copynumber: 2.8 Consensus size: 32
25024865 TCAAATTAGT
* *
25024875 CCTTCAAACTTTTCATTC-TTTTCGATTTGGTC
1 CCTT-AAACTTTTCATTCTTTTTCAATTTGATC
*
25024907 CTTTAAACTTTTCATT-TTTTTCAATTTGATC
1 CCTTAAACTTTTCATTCTTTTTCAATTTGATC
*
25024938 CCTT-AACATTTT-ATTCTTTTTAAATT
1 CCTTAAAC-TTTTCATTCTTTTTCAATT
25024964 AAGTCCCTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 6 0.12
31 40 0.82
32 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.55
Consensus pattern (32 bp):
CCTTAAACTTTTCATTCTTTTTCAATTTGATC
Found at i:25025246 original size:44 final size:44
Alignment explanation
Indices: 25025192--25025311 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 44
25025182 CCATAGATTA
25025192 AAGGATTCTGTTTATTATCCTTGGAAACTTAAAATCATAGTTCC
1 AAGGATTCTGTTTATTATCCTTGGAAACTTAAAATCATAGTTCC
* * *
25025236 AAGGATTCTGTTTATTATCATTGGTAACTTAACATCATAGTTCC
1 AAGGATTCTGTTTATTATCCTTGGAAACTTAAAATCATAGTTCC
* ** *
25025280 AAGCATTCTACTTATTATCCTTGAAAACTTAA
1 AAGGATTCTGTTTATTATCCTTGGAAACTTAA
25025312 CATTATAAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (44 bp):
AAGGATTCTGTTTATTATCCTTGGAAACTTAAAATCATAGTTCC
Found at i:25035730 original size:67 final size:67
Alignment explanation
Indices: 25035622--25035757 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
25035612 CTAGGAAGTG
*
25035622 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATGTTATTAATGATAGCAATA
1 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATGTTATTAATGATAGCAAAA
25035687 TA
66 TA
* *
25035689 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATGTTTTTGATGATAGCAAAA
1 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATGTTATTAATGATAGCAAAA
25035754 TA
66 TA
25035756 TT
1 TT
25035758 CTCATTCATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.35
Consensus pattern (67 bp):
TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATGTTATTAATGATAGCAAAA
TA
Found at i:25036561 original size:35 final size:33
Alignment explanation
Indices: 25036522--25036640 Score: 118
Period size: 32 Copynumber: 3.5 Consensus size: 33
25036512 TAATCCCGGT
25036522 AAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTG
1 AAAAACCATT-TTG-AGGTTGTGGTTGAGCCTTTG
* * **
25036557 AAAAACCACTTTG-GGTTTTGGTTGAGCCCATG
1 AAAAACCATTTTGAGGTTGTGGTTGAGCCTTTG
*
25036589 AAAAACCATTATGAAAGGTTGTGGTTGA-CCTTTTG
1 AAAAACCATTTTG--AGGTTGTGGTTGAGCC-TTTG
*
25036624 AAAAACCACTTT-AGGTT
1 AAAAACCATTTTGAGGTT
25036641 TTAGTTTAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
32 32 0.46
34 5 0.07
35 32 0.46
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (33 bp):
AAAAACCATTTTGAGGTTGTGGTTGAGCCTTTG
Found at i:25036578 original size:67 final size:67
Alignment explanation
Indices: 25036500--25036642 Score: 184
Period size: 67 Copynumber: 2.1 Consensus size: 67
25036490 AAGTTGGTTG
* * * *
25036500 TTGGGTTTTGGTTAATCCC-GGTAAAAACCATTGTTG-TAGGTTGTGGTTGAGCC-TTTGAAAAA
1 TTGGGTTTTGGTTAAGCCCATG-AAAAACCATT-ATGAAAGGTTGTGGTTGA-CCTTTTGAAAAA
25036562 CCACT
63 CCACT
*
25036567 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTATGAAAGGTTGTGGTTGACCTTTTGAAAAACCA
1 TTGGGTTTTGGTTAAGCCCATGAAAAACCATTATGAAAGGTTGTGGTTGACCTTTTGAAAAACCA
25036632 CT
66 CT
*
25036634 TTAGGTTTT
1 TTGGGTTTT
25036643 AGTTTAGCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
66 4 0.06
67 62 0.93
68 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (67 bp):
TTGGGTTTTGGTTAAGCCCATGAAAAACCATTATGAAAGGTTGTGGTTGACCTTTTGAAAAACCA
CT
Found at i:25036673 original size:67 final size:68
Alignment explanation
Indices: 25036537--25036698 Score: 188
Period size: 67 Copynumber: 2.4 Consensus size: 68
25036527 CCATTGTTGT
* * *
25036537 AGGTTGTGGTTGAGCC-TTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCATGAAAAACCATTAT
1 AGGTTGTGGTTGAGCCTTTTGAAAAACCACTTTAGGTTTTAGTTGAGCCCATGAAAAACCAGTAT
*
25036601 GAA
66 AAA
* * * *
25036604 AGGTTGTGGTTGA-CCTTTTGAAAAACCACTTTAGGTTTTAGTTTAG-CTAGTGAAAAACTAGTG
1 AGGTTGTGGTTGAGCCTTTTGAAAAACCACTTTAGGTTTTAGTTGAGCCCA-TGAAAAACCAGTA
25036667 TAAA
65 TAAA
* * *
25036671 AGGTTTTGGCTGAGCCTTGT-AAAAACCA
1 AGGTTGTGGTTGAGCCTTTTGAAAAACCA
25036699 TTGTAAAGCT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
66 4 0.05
67 72 0.89
68 5 0.06
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (68 bp):
AGGTTGTGGTTGAGCCTTTTGAAAAACCACTTTAGGTTTTAGTTGAGCCCATGAAAAACCAGTAT
AAA
Found at i:25040731 original size:20 final size:20
Alignment explanation
Indices: 25040686--25040723 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25040676 TTTTGGCCCC
25040686 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
25040706 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
25040724 AGATTTGAGG
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:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:25042982 original size:28 final size:29
Alignment explanation
Indices: 25042941--25043000 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
25042931 GTCTATGGGC
*
25042941 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
25042969 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
25042999 AA
1 AA
25043001 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:25046498 original size:15 final size:16
Alignment explanation
Indices: 25046478--25046518 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
25046468 CAGATATTTT
25046478 GATTTTAAAG-CATTG
1 GATTTTAAAGTCATTG
*
25046493 GATTTTAAAGTCTTTG
1 GATTTTAAAGTCATTG
25046509 G-TTTTAAAGT
1 GATTTTAAAGT
25046519 TGTTTTAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (16 bp):
GATTTTAAAGTCATTG
Found at i:25052072 original size:3 final size:3
Alignment explanation
Indices: 25052059--25052140 Score: 84
Period size: 3 Copynumber: 28.7 Consensus size: 3
25052049 AAGGGAAAAG
*
25052059 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AGT AA- AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
25052103 AAT AA- AAT AAA AAT AAA AAT AAA AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25052141 ACCAAAACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
2 9 0.14
3 53 0.82
4 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:25052100 original size:28 final size:29
Alignment explanation
Indices: 25052066--25052141 Score: 102
Period size: 28 Copynumber: 2.6 Consensus size: 29
25052056 AAGAATATAT
*
25052066 AATAATAATAATAATAATAATAATAAAGT-AA
1 AATAATAATAA-AATAAAAATAA-AAA-TAAA
25052097 AATAATAATAAAATAAAAATAAAAATAAA
1 AATAATAATAAAATAAAAATAAAAATAAA
25052126 AATAA-AATAAAATAAA
1 AATAATAATAAAATAAA
25052142 CCAAAACTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
28 12 0.28
29 10 0.23
30 10 0.23
31 11 0.26
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (29 bp):
AATAATAATAAAATAAAAATAAAAATAAA
Found at i:25066971 original size:67 final size:67
Alignment explanation
Indices: 25066863--25066998 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
25066853 CTAAGAAGTG
*
25066863 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATATTTTTGATGATAGCAATA
1 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATATTTTTGATGATAGCAAAA
25066928 TA
66 TA
* *
25066930 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATGTTTTTTATGATAGCAAAA
1 TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATATTTTTGATGATAGCAAAA
25066995 TA
66 TA
25066997 TT
1 TT
25066999 CCCATTCATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (67 bp):
TTTTGTCATCATCAAAAATAAGAGAAAGAGAATGTTGACTCTATATATTTTTGATGATAGCAAAA
TA
Found at i:25070748 original size:35 final size:34
Alignment explanation
Indices: 25070709--25070815 Score: 105
Period size: 35 Copynumber: 3.1 Consensus size: 34
25070699 TGATTTCGGT
*
25070709 AAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTA
1 AAAAACCATTGTTG-AGGTTGTGGTTGAGCCTTTG
* *
25070744 AAAAACCACT-TTG-GGTTTTGGTTGAG-CTTGTG
1 AAAAACCATTGTTGAGGTTGTGGTTGAGCCTT-TG
* *
25070776 AAAAACTATTG-TGAAAGGTTGTGGTTGTGCCTTTG
1 AAAAACCATTGTTG--AGGTTGTGGTTGAGCCTTTG
25070811 AAAAA
1 AAAAA
25070816 TCACTTTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
31 3 0.05
32 23 0.39
34 3 0.05
35 27 0.46
36 3 0.05
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (34 bp):
AAAAACCATTGTTGAGGTTGTGGTTGAGCCTTTG
Found at i:25070766 original size:67 final size:67
Alignment explanation
Indices: 25070687--25070881 Score: 171
Period size: 67 Copynumber: 2.9 Consensus size: 67
25070677 AAGTTGGTTG
* *
25070687 TTGGGTTTTGGTTGA-TTTCG-GTAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTAAAAAA
1 TTGGGTTTTGGTTGAGCTT-GTG-AAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTAAAAAA
25070749 CCACT
63 CCACT
* * * *
25070754 TTGGGTTTTGGTTGAGCTTGTGAAAAACTATTGTGAAAGGTTGTGGTTGTGCCTTTGAAAAATCA
1 TTGGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTAAAAAACCA
25070819 CT
66 CT
* * * * ** * * * * * *
25070821 TTCGATTTTAGTTTAGCCCGTGAAAAACTAGTGTAAAAAGTTTTGGCTGAGCCTTGTAAAA
1 TTGGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT-TAAAA
25070882 GCCAATGTAA
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
66 2 0.02
67 96 0.91
68 7 0.07
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.37
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTAAAAAACCA
CT
Found at i:25072449 original size:189 final size:194
Alignment explanation
Indices: 25072160--25072666 Score: 520
Period size: 189 Copynumber: 2.6 Consensus size: 194
25072150 TGGCCAAAAC
* * **
25072160 TTTTGGTAAGATTTTAA-A-AATTTTCCTCACCTATTAA-TTTTATAGAAAATTATCACTTATAA
1 TTTTGGT-AGAATTTAAGAGAATTTTTCTCACCTAGAAATTTTTA-AGAAAATTAT-ACTTATAA
*
25072222 TTTTC-TAACAGTTCCATCATCGGAGAATTCTTATTTTATTTGTGTTTTATTTATTTATTTA-TT
63 TTTTCTTAA-AATTCCATCATCGGAGAATTCTTATTTTATTTGT-TTTTATTTATTTATTTATTT
* * * * *
25072285 -TTTATT-TCT-TTTTCACAT-A-AAAGA-AACT-ATTTGATATCAAAATCTCTCCCAAATTCCT
126 ATTTATTCT-TATTTTCAAATAATAAAAATAAATAAATGGATATCAAAATCTCTCCCAAATTCC-
*
25072343 CAGCACT
189 CACCA-T
* * * *
25072350 TTTTGGTAGAGTTTAAGAGAATTTTTCTCACCTAGGAATTTTTAAAAAAATTAT-CTAATAATTT
1 TTTTGGTAGAATTTAAGAGAATTTTTCTCACCTAGAAATTTTTAAGAAAATTATACTTATAATTT
* ** * * *
25072414 TCTTAAAATTCCATCATTGGAGAATTCCCATTTTATTTGTATTTTTTTTGCTTTGTTTATTTATT
66 TCTTAAAATTCCATCATCGGAGAATTCTTATTTTATTTGT-TTTTATTT-ATTTATTTATTTATT
* * * *
25072479 TATTCTTAATTTTTAAATAGATAAAAATAAATAAAAAATGGATATCGAAATCTCTCTCAAATTTC
129 TATTCTT-ATTTTCAAATA-ATAAAAATAAAT---AAATGGATATCAAAATCTCTCCCAAATTCC
25072544 CACCAT
189 CACCAT
*
25072550 TTTTGGTAGAATTTAAGAGAA-TTTTCTCACCTAGAAATTTTCAAGAAAATTATCACTTATAATT
1 TTTTGGTAGAATTTAAGAGAATTTTTCTCACCTAGAAATTTTTAAGAAAATTAT-ACTTATAATT
* *
25072614 TTCTTAAAATTCCATCATCGGAGAATTCTTATTTTACTTGTATTTATTTATTT
65 TTCTTAAAATTCCATCATCGGAGAATTCTTATTTTATTTGTTTTTATTTATTT
25072667 TTGAAGCTAA
Statistics
Matches: 261, Mismatches: 36, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
189 56 0.21
190 18 0.07
191 27 0.10
192 12 0.05
193 1 0.00
194 7 0.03
196 1 0.00
197 4 0.02
198 3 0.01
199 32 0.12
200 27 0.10
201 49 0.19
202 24 0.09
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (194 bp):
TTTTGGTAGAATTTAAGAGAATTTTTCTCACCTAGAAATTTTTAAGAAAATTATACTTATAATTT
TCTTAAAATTCCATCATCGGAGAATTCTTATTTTATTTGTTTTTATTTATTTATTTATTTATTTA
TTCTTATTTTCAAATAATAAAAATAAATAAATGGATATCAAAATCTCTCCCAAATTCCCACCAT
Found at i:25072962 original size:3 final size:3
Alignment explanation
Indices: 25072954--25073004 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
25072944 AACTTTCCCT
* * *
25072954 TTA TTA TTA TTA TTA TTA TTA TT- TTA TGA TTA TTA TT- TAA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25073000 TTA TT
1 TTA TT
25073005 TTTTATTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 3 0.08
3 37 0.93
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25072985 original size:14 final size:14
Alignment explanation
Indices: 25072954--25073011 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
25072944 AACTTTCCCT
25072954 TTATTATTATTATTA
1 TTATTATT-TTATTA
*
25072969 TTATTATTTTATGA
1 TTATTATTTTATTA
* *
25072983 TTATTATTTAATTT
1 TTATTATTTTATTA
25072997 TTATTATTTT-TTA
1 TTATTATTTTATTA
25073010 TT
1 TT
25073012 TATATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
13 4 0.11
14 25 0.68
15 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:25073000 original size:11 final size:11
Alignment explanation
Indices: 25072986--25073028 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 11
25072976 TTTATGATTA
25072986 TTATTTAATTT
1 TTATTTAATTT
*
25072997 TTA-TTATTTT
1 TTATTTAATTT
25073007 TTATTTATATTT
1 TTATTTA-ATTT
25073019 TTATCTTAAT
1 TTAT-TTAAT
25073029 CATTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 9 0.33
11 6 0.22
12 9 0.33
13 3 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTAATTT
Found at i:25073002 original size:17 final size:17
Alignment explanation
Indices: 25072960--25073028 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 17
25072950 CCCTTTATTA
*
25072960 TTATTATTATTATTATTT
1 TTATTATTATT-TAATTT
25072978 TATGATTATTATTTAATTT
1 T-T-ATTATTATTTAATTT
*
25072997 TTATTATT-TTTTATTT
1 TTATTATTATTTAATTT
* *
25073013 ATATTTTTATCTTAAT
1 TTATTATTAT-TTAAT
25073029 CATTTTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 13 0.31
17 7 0.17
18 6 0.14
19 7 0.17
20 9 0.21
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (17 bp):
TTATTATTATTTAATTT
Found at i:25073013 original size:14 final size:14
Alignment explanation
Indices: 25072953--25073048 Score: 58
Period size: 14 Copynumber: 6.7 Consensus size: 14
25072943 CAACTTTCCC
*
25072953 TTTATTA-TTATTA
1 TTTATTATTTTTTA
25072966 -TTATTATTATTTTA
1 TTTATTATT-TTTTA
*
25072980 TGATTATTATTTAATT-
1 T--TTATTATTT-TTTA
25072996 TTTATTATTTTTTA
1 TTTATTATTTTTTA
25073010 TTTA-TA-TTTTTA
1 TTTATTATTTTTTA
*
25073022 TCTTAATCATTTTTTTA
1 T-TT-ATTA-TTTTTTA
*
25073039 TTTATCATTT
1 TTTATTATTT
25073049 ATCTTTTTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 23
0.71 0.04 0.24
Matches are distributed among these distances:
12 13 0.19
13 7 0.10
14 21 0.31
15 5 0.07
16 4 0.06
17 17 0.25
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (14 bp):
TTTATTATTTTTTA
Found at i:25073014 original size:28 final size:28
Alignment explanation
Indices: 25072953--25073064 Score: 79
Period size: 29 Copynumber: 3.9 Consensus size: 28
25072943 CAACTTTCCC
*
25072953 TTTATTA-TT-ATTATTATTATTATTTTA
1 TTTATTATTTAATTTTTATTATT-TTTTA
25072980 TGATTATTATTTAATTTTTATTATTTTTTA
1 T--TTATTATTTAATTTTTATTATTTTTTA
* * * *
25073010 TTTA-TATTTTTATCTTAATCATTTTTTTA
1 TTTATTA-TTTAATTTTTATTA-TTTTTTA
* *
25073039 TTTATCATTTATCTTTTTA-TATTTTT
1 TTTATTATTTA-ATTTTTATTATTTTT
25073065 GTTTCGCATA
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
27 3 0.05
28 18 0.27
29 21 0.32
30 13 0.20
31 11 0.17
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.71
Consensus pattern (28 bp):
TTTATTATTTAATTTTTATTATTTTTTA
Found at i:25073042 original size:21 final size:21
Alignment explanation
Indices: 25073018--25073062 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
25073008 TATTTATATT
*
25073018 TTTATC-TTAATCATTTTTTTA
1 TTTATCATTAATC-TTTTTATA
*
25073039 TTTATCATTTATCTTTTTATA
1 TTTATCATTAATCTTTTTATA
25073060 TTT
1 TTT
25073063 TTGTTTCGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATCATTAATCTTTTTATA
Found at i:25073045 original size:15 final size:15
Alignment explanation
Indices: 25073003--25073048 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
25072993 ATTTTTATTA
25073003 TTTTTTATTTAT-AT
1 TTTTTTATTTATCAT
* * *
25073017 TTTTATCTTAATCAT
1 TTTTTTATTTATCAT
25073032 TTTTTTATTTATCAT
1 TTTTTTATTTATCAT
25073047 TT
1 TT
25073049 ATCTTTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTATTTATCAT
Found at i:25076798 original size:42 final size:44
Alignment explanation
Indices: 25076694--25076807 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
25076684 AATATATTTA
** * *
25076694 TATTATTTAGCTATAATAAATATTATAAAGAATATTATTTAATAT
1 TATTATTTAAATATAATAAATAATATAAAGAATATTATTT-ATAG
*
25076739 TATTATTTGAATATAATAATATAATA-AAAGAATATTATTT-T-G
1 TATTATTTAAATATAATAA-ATAATATAAAGAATATTATTTATAG
* *
25076781 TATTATTTAAATTTAATAAAGAATATA
1 TATTATTTAAATATAATAAATAATATA
25076808 TTTGGTCTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.08
42 18 0.31
43 1 0.02
45 30 0.51
46 5 0.08
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (44 bp):
TATTATTTAAATATAATAAATAATATAAAGAATATTATTTATAG
Found at i:25076895 original size:22 final size:22
Alignment explanation
Indices: 25076826--25076897 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
25076816 TTTAGTATTC
*
25076826 AATATTATTTAATTATAATAAA
1 AATATTATTAAATTATAATAAA
** * *
25076848 AGAT-TTAATTATCTTCTAATACA
1 A-ATATT-ATTAAATTATAATAAA
*
25076871 AATATTATTAAATTATAACAAA
1 AATATTATTAAATTATAATAAA
25076893 AATAT
1 AATAT
25076898 GTTTGTATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
22 21 0.57
23 16 0.43
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (22 bp):
AATATTATTAAATTATAATAAA
Found at i:25080604 original size:2 final size:2
Alignment explanation
Indices: 25080580--25080672 Score: 107
Period size: 2 Copynumber: 47.0 Consensus size: 2
25080570 CAGACAGAAA
* * * * *
25080580 AT AT A- AT AT AT TT AT AC AA AT AT AT AT AT TT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
25080621 AT AT AT AT AT AG AT AT AT AT AT AT AG AT AT AT AT AG 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
25080663 AT AT AT AT AT
1 AT AT AT AT AT
25080673 TTGTCACAGA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:25083339 original size:77 final size:79
Alignment explanation
Indices: 25083238--25083397 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 79
25083228 TTGAGACTTA
* *
25083238 ATTATGTAAAATAAATATTTTTG-TTGAGTTTTTTTGGGCAC-TTTTTTTACTTTGTTTTTAGGC
1 ATTATGTAAAATAAATATTTTTGTTTGAGTTTTCTTCGGCACTTTTTTTTACTTTGTTTTTAGGC
25083301 ATAGCATACATGTC
66 ATAGCATACATGTC
* * * *
25083315 ATTATGTAAAATTACTATTTTTGTTTTGAGTTTTCTTCGGTACTTTTTTTTTATTTTGTTTTTAG
1 ATTATGTAAAATAAATATTTTTG-TTTGAGTTTTCTTCGGCAC-TTTTTTTTACTTTGTTTTTAG
*
25083380 GCATAGGATACATGTC
64 GCATAGCATACATGTC
25083396 AT
1 AT
25083398 GGATCCATGT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 21 0.29
79 15 0.21
81 36 0.50
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (79 bp):
ATTATGTAAAATAAATATTTTTGTTTGAGTTTTCTTCGGCACTTTTTTTTACTTTGTTTTTAGGC
ATAGCATACATGTC
Found at i:25084366 original size:17 final size:17
Alignment explanation
Indices: 25084344--25084405 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
25084334 AAGATAAAAC
*
25084344 AATTATATTTCAAAGAT
1 AATTATATTTAAAAGAT
* * *
25084361 AATTATATATGAAAGAC
1 AATTATATTTAAAAGAT
* *
25084378 AATTATATGTAAAAGTT
1 AATTATATTTAAAAGAT
25084395 AATTAATATTT
1 AATT-ATATTT
25084406 TAATTATGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 31 0.86
18 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (17 bp):
AATTATATTTAAAAGAT
Found at i:25090963 original size:25 final size:24
Alignment explanation
Indices: 25090935--25090996 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 24
25090925 GACCTCCGGT
25090935 GCTCCCTTGAAAAAGAAGCACGATA
1 GCTCCCTT-AAAAAGAAGCACGATA
25090960 GCTCCCTTAAAAAAGAAGCACGATA
1 GCTCCCTT-AAAAAGAAGCACGATA
25090985 GCTCCCTTAAAA
1 GCTCCCTTAAAA
25090997 GGGTGTTCCG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 4 0.11
25 32 0.89
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (24 bp):
GCTCCCTTAAAAAGAAGCACGATA
Found at i:25092550 original size:12 final size:12
Alignment explanation
Indices: 25092533--25092568 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25092523 TTTTTGATGA
25092533 ACATGTATCGAT
1 ACATGTATCGAT
25092545 ACATGT-TC-AT
1 ACATGTATCGAT
25092555 A-ATGTATCGAT
1 ACATGTATCGAT
25092566 ACA
1 ACA
25092569 ATTTTTCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.19
10 5 0.24
11 5 0.24
12 7 0.33
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (12 bp):
ACATGTATCGAT
Found at i:25095892 original size:44 final size:43
Alignment explanation
Indices: 25095842--25095952 Score: 150
Period size: 44 Copynumber: 2.6 Consensus size: 43
25095832 GAGTTTTGTG
*
25095842 GATGTGGATTGAGAAGGTCTCCACATTCCCATGATTGGTGTTAT
1 GATGTGGATTGAGAAGGTCTCCACATTCCCATGATT-ATGTTAT
* *
25095886 GATGTGGATTGAGAAGGTCTCCACATTCTCATGATTATGTTGT
1 GATGTGGATTGAGAAGGTCTCCACATTCCCATGATTATGTTAT
* * * *
25095929 AAAGTGGATTGAAAAGGTTTCCAC
1 GATGTGGATTGAGAAGGTCTCCAC
25095953 TCTCTATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
43 25 0.42
44 35 0.58
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
GATGTGGATTGAGAAGGTCTCCACATTCCCATGATTATGTTAT
Found at i:25098218 original size:16 final size:16
Alignment explanation
Indices: 25098190--25098232 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
25098180 AATTAATTAT
25098190 ATTAAAAATATATAAAA
1 ATTAAAAA-ATATAAAA
*
25098207 ATTAAAAAATATAAAC
1 ATTAAAAAATATAAAA
25098223 A-TAAAAAATA
1 ATTAAAAAATA
25098233 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTAAAAAATATAAAA
Found at i:25100625 original size:13 final size:13
Alignment explanation
Indices: 25100600--25100652 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
25100590 TTTTGGAACA
25100600 AAAATTATTCCAAC
1 AAAATT-TTCCAAC
*
25100614 CAAATTTTCCAAC
1 AAAATTTTCCAAC
* *
25100627 AAAATTTTCTAGC
1 AAAATTTTCCAAC
*
25100640 AAAAATTTCCAAC
1 AAAATTTTCCAAC
25100653 GGAATCATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 27 0.84
14 5 0.16
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (13 bp):
AAAATTTTCCAAC
Found at i:25102032 original size:21 final size:21
Alignment explanation
Indices: 25102007--25102053 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
25101997 AATTTTTAAT
* *
25102007 ATAAATA-TATTTAATTTATA
1 ATAAATATTACTTAACTTATA
25102027 CATAAATATTACTTAACTTATA
1 -ATAAATATTACTTAACTTATA
25102049 ATAAA
1 ATAAA
25102054 CTTCAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAATATTACTTAACTTATA
Found at i:25111262 original size:110 final size:110
Alignment explanation
Indices: 25111134--25111366 Score: 346
Period size: 110 Copynumber: 2.1 Consensus size: 110
25111124 AAATGGCATG
* ** * *
25111134 TTTTTGTTAACATTTTTTATTGTAAACATGTGTGGGACTTAGTCTTGATTCTTACATTTTGATGA
1 TTTTTGTTAATATTTTTTATTGTAAACATGAATGGGAATTAGTCTTAATTCTTACATTTTGATGA
* * *
25111199 TGATTTTGATAGTTTGTTTTAATTTCTTTTAGCTTA-TATGACATA
66 TGATTTTGATAGTTTATTTCAATCTCTTTTAGCTTAGTATGA-ATA
*
25111244 TTTTTGTTAATATTTTTTATTGTAAACATGAATGGGAATTAGTCTTAATTCTTATATTTTGATGA
1 TTTTTGTTAATATTTTTTATTGTAAACATGAATGGGAATTAGTCTTAATTCTTACATTTTGATGA
25111309 TGATTTTGATAGTTTATTTCAATCTCTTTTAGCTTATGTATGAATA
66 TGATTTTGATAGTTTATTTCAATCTCTTTTAGCTTA-GTATGAATA
25111355 -TTTTGTT-ATATT
1 TTTTTGTTAATATT
25111367 GTAGGAATAA
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
109 5 0.04
110 99 0.88
111 3 0.03
112 5 0.04
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (110 bp):
TTTTTGTTAATATTTTTTATTGTAAACATGAATGGGAATTAGTCTTAATTCTTACATTTTGATGA
TGATTTTGATAGTTTATTTCAATCTCTTTTAGCTTAGTATGAATA
Found at i:25120250 original size:42 final size:42
Alignment explanation
Indices: 25120198--25120281 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
25120188 CAACTTCTAT
*
25120198 GCATCGGCTTATGTGCACTCCCACTCGCACATAGTCGGGTCA
1 GCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* *
25120240 GCATTGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
1 GCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
25120282 ATATCATTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.25
Consensus pattern (42 bp):
GCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:25122311 original size:18 final size:18
Alignment explanation
Indices: 25122288--25122332 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
25122278 ATTTAGTTTC
25122288 TCATCAAATCACACGTCA
1 TCATCAAATCACACGTCA
* *
25122306 TCATCAAATCATATGTCA
1 TCATCAAATCACACGTCA
25122324 TCATCAAAT
1 TCATCAAAT
25122333 TAAGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (18 bp):
TCATCAAATCACACGTCA
Found at i:25129554 original size:28 final size:28
Alignment explanation
Indices: 25129523--25129628 Score: 140
Period size: 28 Copynumber: 3.6 Consensus size: 28
25129513 GGGGGATGTG
25129523 TATTGCAATAAAACTATTTGAAGAAGTA
1 TATTGCAATAAAACTATTTGAAGAAGTA
*
25129551 TATTACAATAAAACTATAATCTTTGAAGAAGTA
1 TATTGCAATAAAAC--T-A--TTTGAAGAAGTA
* *
25129584 TATTGCAATAAAATTGTTTGAAGAAGTA
1 TATTGCAATAAAACTATTTGAAGAAGTA
25129612 TATTGCAATAAAACTAT
1 TATTGCAATAAAACTAT
25129629 AATCTTTGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
28 40 0.60
30 1 0.01
31 2 0.03
33 24 0.36
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (28 bp):
TATTGCAATAAAACTATTTGAAGAAGTA
Found at i:25129581 original size:33 final size:33
Alignment explanation
Indices: 25129539--25129653 Score: 168
Period size: 33 Copynumber: 3.6 Consensus size: 33
25129529 AATAAAACTA
*
25129539 TTTGAAGAAGTATATTACAATAAAACTATAATC
1 TTTGAAGAAGTATATTGCAATAAAACTATAATC
*
25129572 TTTGAAGAAGTATATTGCAAT-AAA--AT--TG
1 TTTGAAGAAGTATATTGCAATAAAACTATAATC
25129600 TTTGAAGAAGTATATTGCAATAAAACTATAATC
1 TTTGAAGAAGTATATTGCAATAAAACTATAATC
*
25129633 TTTGAAGAGGTATATTGCAAT
1 TTTGAAGAAGTATATTGCAAT
25129654 TGGTATTACA
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
28 22 0.30
29 3 0.04
30 2 0.03
31 2 0.03
32 3 0.04
33 41 0.56
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (33 bp):
TTTGAAGAAGTATATTGCAATAAAACTATAATC
Found at i:25129621 original size:61 final size:61
Alignment explanation
Indices: 25129523--25129653 Score: 226
Period size: 61 Copynumber: 2.1 Consensus size: 61
25129513 GGGGGATGTG
25129523 TATTGCAATAAAACTATTTGAAGAAGTATATTACAATAAAACTATAATCTTTGAAGAAGTA
1 TATTGCAATAAAACTATTTGAAGAAGTATATTACAATAAAACTATAATCTTTGAAGAAGTA
* * * *
25129584 TATTGCAATAAAATTGTTTGAAGAAGTATATTGCAATAAAACTATAATCTTTGAAGAGGTA
1 TATTGCAATAAAACTATTTGAAGAAGTATATTACAATAAAACTATAATCTTTGAAGAAGTA
25129645 TATTGCAAT
1 TATTGCAAT
25129654 TGGTATTACA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (61 bp):
TATTGCAATAAAACTATTTGAAGAAGTATATTACAATAAAACTATAATCTTTGAAGAAGTA
Found at i:25130680 original size:35 final size:36
Alignment explanation
Indices: 25130590--25130686 Score: 142
Period size: 36 Copynumber: 2.7 Consensus size: 36
25130580 TTGGTAGCAA
*
25130590 TTTGAGAAGTGCTCTTTATAATGGCACTTGTCAATCC
1 TTTGAG-AGTGCTCTTTATAATAGCACTTGTCAATCC
* * *
25130627 TTTGAGGGTGCTTTTTATAATAGCACTTGTCAATCT
1 TTTGAGAGTGCTCTTTATAATAGCACTTGTCAATCC
25130663 TTTG-GAGTGCTCTTTATAATAGCA
1 TTTGAGAGTGCTCTTTATAATAGCA
25130687 TAAGATTTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 18 0.33
36 30 0.56
37 6 0.11
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (36 bp):
TTTGAGAGTGCTCTTTATAATAGCACTTGTCAATCC
Found at i:25134069 original size:73 final size:73
Alignment explanation
Indices: 25133943--25134209 Score: 313
Period size: 73 Copynumber: 3.7 Consensus size: 73
25133933 CAAACAGAAT
* * * *
25133943 GCTCTTAATCGACTAACT-ATACTTCTTAGTAGACTAAGTCGTCTCTGTTTTTGAACCCAGTTTC
1 GCTCTTAATCGACTAA-TAATACTTCTTAGTTGATTAAGTCGTCTCTGTCTTTGAACCCAATTTC
* *
25134007 TGACAGTGA
65 TGGCAGTAA
* * * *
25134016 GCTCTTAGTCGACTATTAATACTTCTTAGTTGATTAAGTCGTCTTTGTCTTTGAACCCAATTTTT
1 GCTCTTAATCGACTAATAATACTTCTTAGTTGATTAAGTCGTCTCTGTCTTTGAACCCAATTTCT
25134081 GGCAGTAA
66 GGCAGTAA
* * * * * * *
25134089 GCTCTTAATCAACTAACAATGCTTCTTAATTGATTAAGTCGTCTCTGTCTCTAAACTCAATTTCT
1 GCTCTTAATCGACTAATAATACTTCTTAGTTGATTAAGTCGTCTCTGTCTTTGAACCCAATTTCT
*
25134154 GGCAATAA
66 GGCAGTAA
* * *
25134162 GCTCTTAGTCGACCAATAATGCTTCTTAGTTGATTAAGTAC-TCTCTGT
1 GCTCTTAATCGACTAATAATACTTCTTAGTTGATTAAGT-CGTCTCTGT
25134210 TTCTAAATCA
Statistics
Matches: 165, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
72 1 0.01
73 163 0.99
74 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (73 bp):
GCTCTTAATCGACTAATAATACTTCTTAGTTGATTAAGTCGTCTCTGTCTTTGAACCCAATTTCT
GGCAGTAA
Found at i:25136914 original size:49 final size:48
Alignment explanation
Indices: 25136861--25137077 Score: 272
Period size: 49 Copynumber: 4.4 Consensus size: 48
25136851 TAATGTTGTG
*
25136861 TGATGATATTGACTCGGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
1 TGATGATA-TGACCCGGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
* * *
25136910 TGATGATGATGACCCGGCTATGTGCGAGTAAGGAGTGCGCATAAGCCAA
1 TGATGAT-ATGACCCGGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
** * * * *
25136959 TGATGATATTGACCTAGCTATGTGCAAGTAGGGAGGGCACATAAGCCGA
1 TGATGATA-TGACCCGGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
*
25137008 TGATGATGATGACCCAGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
1 TGATGAT-ATGACCCGGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
* *
25137057 TGATGCTAATGACTCGGCTAT
1 TGATGAT-ATGACCCGGCTAT
25137078 GATGATGAAT
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 142 0.98
50 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (48 bp):
TGATGATATGACCCGGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
Found at i:25137078 original size:98 final size:98
Alignment explanation
Indices: 25136861--25137078 Score: 321
Period size: 98 Copynumber: 2.2 Consensus size: 98
25136851 TAATGTTGTG
* * * * *
25136861 TGATGATATTGACTCGGCTATATGCGAGTAGGGAGTGCGCATAAGCCGATGATGATGATGACCCG
1 TGATGATATTGACTCGGCTATGTGCAAGTAGGGAGGGCACATAAGCCGATGATGATGATGACCCA
*
25136926 GCTATGTGCGAGTAAGGAGTGCGCATAAGCCAA
66 GCTATATGCGAGTAAGGAGTGCGCATAAGCCAA
*
25136959 TGATGATATTGAC-CTAGCTATGTGCAAGTAGGGAGGGCACATAAGCCGATGATGATGATGACCC
1 TGATGATATTGACTC-GGCTATGTGCAAGTAGGGAGGGCACATAAGCCGATGATGATGATGACCC
* *
25137023 AGCTATATGCGAGTAGGGAGTGCGCATAAGCCGA
65 AGCTATATGCGAGTAAGGAGTGCGCATAAGCCAA
* *
25137057 TGATGCTAATGACTCGGCTATG
1 TGATGATATTGACTCGGCTATG
25137079 ATGATGAATG
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
97 1 0.01
98 104 0.98
99 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (98 bp):
TGATGATATTGACTCGGCTATGTGCAAGTAGGGAGGGCACATAAGCCGATGATGATGATGACCCA
GCTATATGCGAGTAAGGAGTGCGCATAAGCCAA
Found at i:25137374 original size:21 final size:20
Alignment explanation
Indices: 25137350--25137426 Score: 50
Period size: 21 Copynumber: 3.8 Consensus size: 20
25137340 CAGCCTTGTT
25137350 TCTCGCTGCAGCGAGATTGAA
1 TCTCGCTGCAGCGAGA-TGAA
** * *
25137371 TCTCATTGCAG-TA-AGGAAA
1 TCTCGCTGCAGCGAGATG-AA
* * *
25137390 TTTCGCTGCAGCGAAAATAAA
1 TCTCGCTGCAGCG-AGATGAA
25137411 TCTCGCTGCAGCGAGA
1 TCTCGCTGCAGCGAGA
25137427 AACTCTCAGG
Statistics
Matches: 40, Mismatches: 12, Indels: 9
0.66 0.20 0.15
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
20 3 0.08
21 24 0.60
22 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (20 bp):
TCTCGCTGCAGCGAGATGAA
Done.