Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold185
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: 1073966
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 182459 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:775585 original size:2 final size:2
Alignment explanation
Indices: 775578--775603 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
775568 AACACAATTA
775578 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
775604 TTTAAGTATG
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:781326 original size:14 final size:14
Alignment explanation
Indices: 781303--781411 Score: 62
Period size: 14 Copynumber: 8.3 Consensus size: 14
781293 ATATAAATGG
781303 ATTTAATATTTA-A
1 ATTTAATATTTATA
781316 ATTTAAATATTTATA
1 ATTT-AATATTTATA
781331 ATTT--T-TTT-TA
1 ATTTAATATTTATA
781341 ATTTTAGAT-TTTA-A
1 A-TTTA-ATATTTATA
*
781355 ATTTTAATATATATA
1 A-TTTAATATTTATA
781370 ATTT--T-TTT-TA
1 ATTTAATATTTATA
* *
781380 TTTTAAAATTTA-A
1 ATTTAATATTTATA
781393 ATCTTAATATTTATA
1 AT-TTAATATTTATA
781408 ATTT
1 ATTT
781412 TTTTTTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 29
0.68 0.05 0.26
Matches are distributed among these distances:
10 8 0.11
11 8 0.11
12 2 0.03
13 11 0.15
14 36 0.48
15 10 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (14 bp):
ATTTAATATTTATA
Found at i:781354 original size:39 final size:37
Alignment explanation
Indices: 781304--781444 Score: 165
Period size: 41 Copynumber: 3.6 Consensus size: 37
781294 TATAAATGGA
*
781304 TTTAATATTTAAATTTAAATATTTATAATTTTTTTTAAT
1 TTTAAAATTTAAATTT-AATATTTATAATTTTTTTT-AT
* * *
781343 TTTAGATTTTAAATTTTAATATATATAATTTTTTTTAT
1 TTTAAAATTTAAA-TTTAATATTTATAATTTTTTTTAT
781381 TTTAAAATTTAAATCTTAATATTTATAATTTTTTTTTTTAT
1 TTTAAAATTTAAAT-TTAATATTTATAA---TTTTTTTTAT
*
781422 TTCAAAATTTAAATCTTAATATT
1 TTTAAAATTTAAAT-TTAATATT
781445 CATTATTATT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
37 1 0.01
38 25 0.28
39 28 0.31
40 3 0.03
41 32 0.36
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (37 bp):
TTTAAAATTTAAATTTAATATTTATAATTTTTTTTAT
Found at i:781384 original size:38 final size:39
Alignment explanation
Indices: 781304--781444 Score: 176
Period size: 39 Copynumber: 3.6 Consensus size: 39
781294 TATAAATGGA
* *
781304 TTTAATATTTAAATTTAAATATTTATAATTTTTTTTAAT
1 TTTAAAATTTAAATTTTAATATTTATAATTTTTTTTAAT
* * *
781343 TTTAGATTTTAAATTTTAATATATATAATTTTTTTT-AT
1 TTTAAAATTTAAATTTTAATATTTATAATTTTTTTTAAT
* *
781381 TTTAAAATTTAAATCTTAATATTTATAATTTTTTTTTTTAT
1 TTTAAAATTTAAATTTTAATATTTATAA--TTTTTTTTAAT
* *
781422 TTCAAAATTTAAATCTTAATATT
1 TTTAAAATTTAAATTTTAATATT
781445 CATTATTATT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 26 0.29
39 31 0.35
40 8 0.09
41 24 0.27
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (39 bp):
TTTAAAATTTAAATTTTAATATTTATAATTTTTTTTAAT
Found at i:781902 original size:13 final size:13
Alignment explanation
Indices: 781886--781931 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
781876 AATTCGATAC
*
781886 AAAAATATTATAT
1 AAAAATAATATAT
781899 AAAAATAATATAT
1 AAAAATAATATAT
**
781912 -TTAATAA-ATAT
1 AAAAATAATATAT
781923 AAAAATAAT
1 AAAAATAAT
781932 TTAATTAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
11 4 0.15
12 10 0.38
13 12 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAAATAATATAT
Found at i:782295 original size:29 final size:30
Alignment explanation
Indices: 782241--782299 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
782231 AAATATCTAT
782241 TTTTTACTTGAAAATAACTATCTACTTTTA
1 TTTTTACTTGAAAATAACTATCTACTTTTA
782271 TTTTTA-TATGAAAA-AACGTA-CTACTTTTA
1 TTTTTACT-TGAAAATAAC-TATCTACTTTTA
782300 AAAAGATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (30 bp):
TTTTTACTTGAAAATAACTATCTACTTTTA
Found at i:784437 original size:74 final size:74
Alignment explanation
Indices: 784342--784482 Score: 237
Period size: 74 Copynumber: 1.9 Consensus size: 74
784332 GTTAACAAGG
* * * *
784342 TTTATTACATTTATAAATAATAATTCTAATTTTATTGAAAGACTTTGATTAAATAAATTTATTTG
1 TTTATCACATTTATAAATAATAATTCTAATTTAATTAAAAGACTTTGATCAAATAAATTTATTTG
784407 ATCGTAGAA
66 ATCGTAGAA
*
784416 TTTATCACATTTATAAATAATAATTCTAATTTAATTAAAAGACTTTTATCAAATAAATTTATTTG
1 TTTATCACATTTATAAATAATAATTCTAATTTAATTAAAAGACTTTGATCAAATAAATTTATTTG
784481 AT
66 AT
784483 AAAAATAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (74 bp):
TTTATCACATTTATAAATAATAATTCTAATTTAATTAAAAGACTTTGATCAAATAAATTTATTTG
ATCGTAGAA
Found at i:785940 original size:42 final size:41
Alignment explanation
Indices: 785859--785962 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 41
785849 AAATTAGTAT
* * **
785859 GATTTTTAATTAAACTTTTTATTTTAACTAGGTTTAATAGG
1 GATTTTTAGTTAAACTTTTTAATTTAACTAGGTCAAATAGG
**
785900 AGATTTTTAGTTAAACTTTTTAATTTATTTAGAG-CAAATAGG
1 -GATTTTTAGTTAAACTTTTTAATTTAACTAG-GTCAAATAGG
** *
785942 TTTTTTTAGTTAGACTTTTTA
1 GATTTTTAGTTAAACTTTTTA
785963 TCGAAGTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 18 0.35
42 33 0.63
43 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (41 bp):
GATTTTTAGTTAAACTTTTTAATTTAACTAGGTCAAATAGG
Found at i:789872 original size:63 final size:63
Alignment explanation
Indices: 789804--789931 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
789794 ATTCTTAAGG
*
789804 AATTTCAGGATTGAAGATTAAAAAGGCTTCTATCTTTATCTTTTATCCACCATTCACAAAGAA
1 AATTTCAGGATTAAAGATTAAAAAGGCTTCTATCTTTATCTTTTATCCACCATTCACAAAGAA
789867 AATTTCAGGATTAAAGATTAAAAAGGCTTCTATCTTTATCTTTTATCCACCATTCACAAAGAA
1 AATTTCAGGATTAAAGATTAAAAAGGCTTCTATCTTTATCTTTTATCCACCATTCACAAAGAA
789930 AA
1 AA
789932 GAAGAGAGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (63 bp):
AATTTCAGGATTAAAGATTAAAAAGGCTTCTATCTTTATCTTTTATCCACCATTCACAAAGAA
Found at i:789947 original size:18 final size:18
Alignment explanation
Indices: 789924--789971 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
789914 CACCATTCAC
*
789924 AAAGAAAAGAAGAGAGAA
1 AAAGAAAAGAAAAGAGAA
*
789942 AAAG-AAAGAAAATAGAA
1 AAAGAAAAGAAAAGAGAA
789959 AATA-AAAAGAAAA
1 AA-AGAAAAGAAAA
789972 AAAGAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (18 bp):
AAAGAAAAGAAAAGAGAA
Found at i:790698 original size:62 final size:62
Alignment explanation
Indices: 790598--790798 Score: 235
Period size: 62 Copynumber: 3.3 Consensus size: 62
790588 GTATAATTCA
* *
790598 TTACAATATTT-AA-ATATGTCTTACTCTTAACATGTTTATTTACATATTGTGTTTTTGTCG
1 TTACAATATTTAAATATATATCTTACTCTTAACATGTTTATTTACATATTGTGTTTTTGTTG
* * *
790658 TTACAATGTTTAAATATATATCTTGCTCTTAACATGTTTATTTACATATTGCGTTTTTGTTG
1 TTACAATATTTAAATATATATCTTACTCTTAACATGTTTATTTACATATTGTGTTTTTGTTG
* * * * * * * * *
790720 TTACTATATTTAAATGTATATCTTACTTTTATCATATTTATTAACTTATTGTGTTCTTGTTT
1 TTACAATATTTAAATATATATCTTACTCTTAACATGTTTATTTACATATTGTGTTTTTGTTG
** *
790782 TTATTATGTTTAAATAT
1 TTACAATATTTAAATAT
790799 TAATTTTGTT
Statistics
Matches: 119, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
60 10 0.08
61 2 0.02
62 107 0.90
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54
Consensus pattern (62 bp):
TTACAATATTTAAATATATATCTTACTCTTAACATGTTTATTTACATATTGTGTTTTTGTTG
Found at i:791282 original size:78 final size:76
Alignment explanation
Indices: 791145--791306 Score: 186
Period size: 78 Copynumber: 2.1 Consensus size: 76
791135 TTTAACTTTT
* *
791145 ATGTCAAAATAGTTCTTAAGGTTGTTTTTGCATTTCCATGTTAAAATCGAATCCATAGGGTTATT
1 ATGTCAAAATAGTTCTTAAGGTTGTTTTTGCATTTCCAGGTCAAAATCGAATCCATAGGGTTATT
*
791210 T-TCTCAATTTC
66 TAT-GCAATTTC
** **
791221 ATGTCAAAATCAAGTTCTT-AGGTTCGTTTTTGCATTTTTAGGTCAAAATCGGGTCTC-TAGGGT
1 ATGTCAAAAT--AGTTCTTAAGGTT-GTTTTTGCATTTCCAGGTCAAAATCGAATC-CATAGGGT
*
791284 TATTTATGCACTTTC
62 TATTTATGCAATTTC
791299 ATGTCAAA
1 ATGTCAAA
791307 GCTGAGTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
76 10 0.14
77 5 0.07
78 56 0.77
79 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (76 bp):
ATGTCAAAATAGTTCTTAAGGTTGTTTTTGCATTTCCAGGTCAAAATCGAATCCATAGGGTTATT
TATGCAATTTC
Found at i:791349 original size:63 final size:63
Alignment explanation
Indices: 791259--791385 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
791249 TTTGCATTTT
* *
791259 TAGGTCAAAATCGGGTCTCTAGGGTTATTTATGCACTTTCATGTCAAAGCTGAGTTTTTAGGG
1 TAGGTCAAAATCGGGTCTCTAGGGTTATTTATGCACTTTCATATCAAAACTGAGTTTTTAGGG
* * *
791322 TAGGTTAAAATTGGGTCTCTAGGGTTATTTATGCACTTTCATATCAAAATTGAGTTTTTAGGG
1 TAGGTCAAAATCGGGTCTCTAGGGTTATTTATGCACTTTCATATCAAAACTGAGTTTTTAGGG
791385 T
1 T
791386 TATTTTTGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (63 bp):
TAGGTCAAAATCGGGTCTCTAGGGTTATTTATGCACTTTCATATCAAAACTGAGTTTTTAGGG
Found at i:791654 original size:78 final size:78
Alignment explanation
Indices: 791471--791655 Score: 196
Period size: 78 Copynumber: 2.4 Consensus size: 78
791461 GGTCGTTTTC
* * * *
791471 GTACTTTTATGACAAAATTGAGGC-CTAAGATTATTTAAGTACTTTTACATCAAAATAGAGTCTT
1 GTACTTTTATGTCAAAATTGAGTCTTTAAGATTATTTAAGTACTTTTACATCAAAATAGAGTATT
*
791535 TATGGTCATTATA
66 TAAGGTCATTATA
* * * * * * * * *
791548 GTACTTTTATATCAAAATAT-AGTATTTAAGATTATTTTATTATTTTTGCTTCAATATTGAGTAT
1 GTACTTTTATGTCAAAAT-TGAGTCTTTAAGATTATTTAAGTACTTTTACATCAAAATAGAGTAT
*
791612 TTAAGTTCACTT-TA
65 TTAAGGTCA-TTATA
791626 GTACTTTTATGTCAAAATTGAGTCTTTAAG
1 GTACTTTTATGTCAAAATTGAGTCTTTAAG
791656 GTCATTTTGG
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
77 19 0.22
78 66 0.76
79 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (78 bp):
GTACTTTTATGTCAAAATTGAGTCTTTAAGATTATTTAAGTACTTTTACATCAAAATAGAGTATT
TAAGGTCATTATA
Found at i:791669 original size:39 final size:39
Alignment explanation
Indices: 791434--791669 Score: 158
Period size: 39 Copynumber: 6.1 Consensus size: 39
791424 TCGTTTTTGC
* * * * * *
791434 ACTTTTAAGTCAAAACAT-AGTTTTTAGGGTCGTTTTCGT
1 ACTTTTATGTCAAAA-TTGAGTCTTTAAGGTCATTTTAGT
* * * * * *
791473 ACTTTTATGACAAAATTGAGGC-CTAAGATTATTTAAGT
1 ACTTTTATGTCAAAATTGAGTCTTTAAGGTCATTTTAGT
** * * *
791511 ACTTTTACATCAAAATAGAGTCTTTATGGTCATTATAGT
1 ACTTTTATGTCAAAATTGAGTCTTTAAGGTCATTTTAGT
* * * * *
791550 ACTTTTATATCAAAATAT-AGTATTTAAGATTATTTTATT
1 ACTTTTATGTCAAAAT-TGAGTCTTTAAGGTCATTTTAGT
* * * *
791589 A-TTTT-TGCTTCAATATTGAGTATTTAAGTTCACTTTAGT
1 ACTTTTATG--TCAAAATTGAGTCTTTAAGGTCATTTTAGT
*
791628 ACTTTTATGTCAAAATTGAGTCTTTAAGGTCATTTTGGT
1 ACTTTTATGTCAAAATTGAGTCTTTAAGGTCATTTTAGT
791667 ACT
1 ACT
791670 AATAAGTCAA
Statistics
Matches: 147, Mismatches: 42, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
37 1 0.01
38 32 0.22
39 108 0.73
40 4 0.03
41 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.45
Consensus pattern (39 bp):
ACTTTTATGTCAAAATTGAGTCTTTAAGGTCATTTTAGT
Found at i:791679 original size:39 final size:39
Alignment explanation
Indices: 791598--791681 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 39
791588 TATTTTTGCT
* * ** *
791598 TCAATATTGAGTATTTAAGTTCACTTTAGTACTTTTATG
1 TCAAAATTGAGTATTTAAGGTCACTTTAGTACTAATAAG
* * *
791637 TCAAAATTGAGTCTTTAAGGTCATTTTGGTACTAATAAG
1 TCAAAATTGAGTATTTAAGGTCACTTTAGTACTAATAAG
791676 TCAAAA
1 TCAAAA
791682 CCAAGTTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (39 bp):
TCAAAATTGAGTATTTAAGGTCACTTTAGTACTAATAAG
Found at i:792729 original size:21 final size:20
Alignment explanation
Indices: 792678--792733 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 20
792668 TTATAATAAT
792678 TTAATATAATTTACATATGA
1 TTAATATAATTTACATATGA
792698 --AATA-AATTTTACATGAT-A
1 TTAATATAA-TTTACAT-ATGA
792716 CTTAATATAATTTA-ATAT
1 -TTAATATAATTTACATAT
792734 AATGCAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
17 2 0.07
18 12 0.40
19 4 0.13
20 2 0.07
21 8 0.27
22 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (20 bp):
TTAATATAATTTACATATGA
Found at i:795861 original size:49 final size:48
Alignment explanation
Indices: 795768--795867 Score: 121
Period size: 49 Copynumber: 2.1 Consensus size: 48
795758 TGTCAGTTTG
** * *
795768 AAATGCTTAAAGACCAAATCAATTTATTAGAAACCTTTAGAATGTAAGA
1 AAATGCTTAAAGACCAAATCAATCAATTAGAAAACTTTAAAATGTAA-A
* *
795817 AAATGCTTAGAGACCAAATCAATCAATT-GAAAATTCTTAAAATGTAAA
1 AAATGCTTAAAGACCAAATCAATCAATTAGAAAACT-TTAAAATGTAAA
795865 AAA
1 AAA
795868 CAAATGTATC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 9 0.20
49 35 0.80
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (48 bp):
AAATGCTTAAAGACCAAATCAATCAATTAGAAAACTTTAAAATGTAAA
Found at i:795938 original size:19 final size:20
Alignment explanation
Indices: 795899--795938 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
795889 ATTCATGAAG
*
795899 ATGTATTGATACACCTCATTA
1 ATGTATCGATACA-CTCATTA
795920 ATGTATCGATACA-TCATTA
1 ATGTATCGATACACTCATTA
795939 GGTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACACTCATTA
Found at i:796710 original size:9 final size:8
Alignment explanation
Indices: 796678--796736 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
796668 GCTAATTCTT
796678 AATAGAAAA
1 AATA-AAAA
796687 AACT-AAAA
1 AA-TAAAAA
*
796695 AAGAAAAA
1 AATAAAAA
*
796703 GATAAAAA
1 AATAAAAA
*
796711 AA-AAGAA
1 AATAAAAA
796718 AATAAAAAA
1 AAT-AAAAA
796727 AATAAAAA
1 AATAAAAA
796735 AA
1 AA
796737 AGAGAGAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 6 0.15
8 24 0.60
9 9 0.22
10 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.08
Consensus pattern (8 bp):
AATAAAAA
Found at i:796714 original size:18 final size:17
Alignment explanation
Indices: 796691--796739 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
796681 AGAAAAAACT
796691 AAAAAAGAAAAAGATAAA
1 AAAAAAGAAAAAGA-AAA
796709 AAAAAAGAAAATA-AAAA
1 AAAAAAGAAAA-AGAAAA
796726 AAATAAA-AAAAAGA
1 AAA-AAAGAAAAAGA
796740 GAGAGTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 15 0.54
19 1 0.04
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (17 bp):
AAAAAAGAAAAAGAAAA
Found at i:796727 original size:15 final size:14
Alignment explanation
Indices: 796683--796734 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
796673 TTCTTAATAG
*
796683 AAAAAACTAAAAAA
1 AAAAAAATAAAAAA
*
796697 GAAAAAGATAAAAAA
1 -AAAAAAATAAAAAA
796712 AAAGAAAATAAAAAA
1 AAA-AAAATAAAAAA
796727 AATAAAAA
1 AA-AAAAA
796735 AAAGAGAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 3 0.09
15 28 0.88
16 1 0.03
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.08
Consensus pattern (14 bp):
AAAAAAATAAAAAA
Found at i:797905 original size:21 final size:20
Alignment explanation
Indices: 797875--797913 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
797865 CACATTTTTG
797875 TCCAAATGTATCGATACATT
1 TCCAAATGTATCGATACATT
797895 TCCAGAATGTATCGATACA
1 TCCA-AATGTATCGATACA
797914 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (20 bp):
TCCAAATGTATCGATACATT
Found at i:798071 original size:13 final size:13
Alignment explanation
Indices: 798053--798080 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
798043 TATTATTTAA
798053 TGTATCGATACAT
1 TGTATCGATACAT
798066 TGTATCGATACAT
1 TGTATCGATACAT
798079 TG
1 TG
798081 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:801440 original size:58 final size:58
Alignment explanation
Indices: 801304--801446 Score: 166
Period size: 58 Copynumber: 2.5 Consensus size: 58
801294 ATTTCGGTGT
* * *
801304 CATTTAGCTCATTTTTCATGATCCA-GGACTTGGATGCAATTTTATGAATTTTGATGT
1 CATTTAGATCATTTTTCATGATCTAGGGACTTGGATGCAATTTTATGAATTTTGATGC
* *** * *
801361 CATTTAGACCA-TCAACGATGATCTAGGGACTTGGATGTAATTTTGTGAATTTTGATGC
1 CATTTAGATCATTTTTC-ATGATCTAGGGACTTGGATGCAATTTTATGAATTTTGATGC
801419 CATTTA-AGTCATTTTTCATGATCTAGGG
1 CATTTAGA-TCATTTTTCATGATCTAGGG
801447 GCTTTTATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
56 2 0.03
57 17 0.25
58 48 0.70
59 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (58 bp):
CATTTAGATCATTTTTCATGATCTAGGGACTTGGATGCAATTTTATGAATTTTGATGC
Found at i:802465 original size:79 final size:78
Alignment explanation
Indices: 802350--802737 Score: 403
Period size: 79 Copynumber: 5.0 Consensus size: 78
802340 AAAAGAGACA
* * *
802350 GGGTTGGAATGTCCCCTC-GAAAT-ATGGGGTTGGAGTATCCTCGAGATGAAATATTTAATATTT
1 GGGTTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCCTCGAGATGAAA-ATTTAATATTT
802413 TTGAAATAAAAATG
65 TTGAAATAAAAATG
* * * * *
802427 AGGTTGGAGTATCTCCTCGGAAATAATGGGGTTAGAGTATCC-CCATGATGAAAAATTGATATTT
1 GGGTTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCCTCGA-GATGAAAATTTAATATTT
*
802491 TTGGAAATAAAAACG
65 TT-GAAATAAAAATG
* * * * *
802506 GGGCTGGAGTATCT-CTCGAAAATAACGAGGTTGGAGTACCCTCGAGA--AAAATTTAATATTTT
1 GGGTTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTAATATTTT
*
802568 GGAAATAAAAACT-
66 TGAAATAAAAA-TG
* * * * * *
802581 GGGTTGGAGCATCTTCTCGGAATTGATGGGGTTGGAGAATCCTAGAGATGAAAATTTTAATATTT
1 GGGTTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCCTCGAGATGAAAA-TTTAATATTT
*
802646 TTGAAATACAAATG
65 TTGAAATAAAAATG
* * * * * * *
802660 GGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAATATCCCCGAGATAAAAAATTGATATTTT
1 GGGTTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTAATATTTT
*
802725 TGGAAAGAAAAAT
66 T-GAAATAAAAAT
802738 TTAGAAATTT
Statistics
Matches: 251, Mismatches: 48, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
75 22 0.09
76 38 0.15
77 14 0.06
78 57 0.23
79 120 0.48
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (78 bp):
GGGTTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTAATATTTT
TGAAATAAAAATG
Found at i:802586 original size:154 final size:155
Alignment explanation
Indices: 802361--802737 Score: 399
Period size: 154 Copynumber: 2.4 Consensus size: 155
802351 GGTTGGAATG
* * * *
802361 TCCCCTCG-AAAT-ATGGGGTTGGAGTATCCTCGAGATGAAATATTTAATATTTTTGAAATAAAA
1 TCCCCTCGAAAATAACGAGGTTGGAGTACCCTCGAGA--AAA-ATTTAATATTTTGGAAATAAAA
* * * *
802424 ATGAGGTTGGAGTATCTCCTCGGAAATAATGGGGTTAGAGTATCCCCA-TGATGAAAA-ATTGAT
63 ATGAGGTTGGAGCATCTCCTCGGAAATAATGGGGTTAGAGAAT-CCCAGAGATGAAAATATTAAT
802487 ATTTTTGGAAATAAAAACGGGGCTGGAGTA
127 ATTTTT-GAAATAAAAACGGGGCTGGAGTA
*
802517 T-CTCTCGAAAATAACGAGGTTGGAGTACCCTCGAGAAAAATTTAATATTTTGGAAATAAAAACT
1 TCCCCTCGAAAATAACGAGGTTGGAGTACCCTCGAGAAAAATTTAATATTTTGGAAATAAAAA-T
* * * * * *
802581 G-GGTTGGAGCATCTTCTCGGAATTGATGGGGTTGGAGAATCCTAGAGATGAAAATTTTAATATT
65 GAGGTTGGAGCATCTCCTCGGAAATAATGGGGTTAGAGAATCCCAGAGATGAAAATATTAATATT
* * *
802645 TTTGAAATACAAATGGGGTTGGAGTA
130 TTTGAAATAAAAACGGGGCTGGAGTA
* * * * * *
802671 TCCCCTCGAAAATAATGGGGTTGGAATATCCC-CGAGATAAAAAATTGATATTTTTGGAAAGAAA
1 TCCCCTCGAAAATAACGAGGTTGGAGTA-CCCTCGAG--AAAAATTTAATA-TTTTGGAAATAAA
802735 AAT
62 AAT
802738 TTAGAAATTT
Statistics
Matches: 186, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
153 3 0.02
154 84 0.45
155 46 0.25
156 8 0.04
157 31 0.17
158 14 0.08
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (155 bp):
TCCCCTCGAAAATAACGAGGTTGGAGTACCCTCGAGAAAAATTTAATATTTTGGAAATAAAAATG
AGGTTGGAGCATCTCCTCGGAAATAATGGGGTTAGAGAATCCCAGAGATGAAAATATTAATATTT
TTGAAATAAAAACGGGGCTGGAGTA
Found at i:803870 original size:24 final size:24
Alignment explanation
Indices: 803842--803899 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
803832 AGATTTTGGC
803842 GCACAAAGCAAGCATTTTACACAA
1 GCACAAAGCAAGCATTTTACACAA
803866 GCACAAAGCAAGCATTTTACACAA
1 GCACAAAGCAAGCATTTTACACAA
*
803890 GTACAAAGCA
1 GCACAAAGCA
803900 GCAAACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.16
Consensus pattern (24 bp):
GCACAAAGCAAGCATTTTACACAA
Found at i:805187 original size:20 final size:21
Alignment explanation
Indices: 805162--805215 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
805152 CATTTTAGGC
*
805162 ATGTATTGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
*
805182 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
*
805203 TTGTATCGATACA
1 ATGTATCGATACA
805216 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:805209 original size:21 final size:21
Alignment explanation
Indices: 805142--805215 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
805132 AGGGTAGTTT
* *
805142 TGTATCGATACATTTTA-GGCA
1 TGTATCGATACA-TTTACTGTA
* *
805163 TGTATTGATACATTCACT-TA
1 TGTATCGATACATTTACTGTA
*
805183 TGTATCGATACATTTACTGTT
1 TGTATCGATACATTTACTGTA
805204 TGTATCGATACA
1 TGTATCGATACA
805216 AATTGTAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 20 0.45
21 24 0.55
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTACTGTA
Found at i:805665 original size:58 final size:58
Alignment explanation
Indices: 805538--805676 Score: 149
Period size: 58 Copynumber: 2.4 Consensus size: 58
805528 TTCATACATT
* * * *
805538 TTGATATCA-TTAGGTCATTTTTCATGATTTAGGGACTTTTATGCAAATTTATGTATG
1 TTGAAATCATTTAGGTCATTTTTCATGATCTAGGGACTTTCATGCAAATTTATCTATG
** * * *
805595 TTGAGGTCATTTAGGTCATTTTTTATGATCTAGGGACTTTCATG-TAATTTCATCTATT
1 TTGAAATCATTTAGGTCATTTTTCATGATCTAGGGACTTTCATGCAAATTT-ATCTATG
*
805653 TTAGAAAT-ATTTAAGTCATTTTTC
1 TT-GAAATCATTTAGGTCATTTTTC
805677 TTGACTTAGG
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 12 0.18
58 52 0.78
59 3 0.04
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (58 bp):
TTGAAATCATTTAGGTCATTTTTCATGATCTAGGGACTTTCATGCAAATTTATCTATG
Found at i:808108 original size:26 final size:25
Alignment explanation
Indices: 808055--808144 Score: 135
Period size: 26 Copynumber: 3.5 Consensus size: 25
808045 TTAAAAACAT
808055 GGTTGGAGTATCCCTCGGAAGGATG
1 GGTTGGAGTATCCCTCGGAAGGATG
*
808080 GGTTGGAGTATCCTCTCTGAAGGATG
1 GGTTGGAGTATCC-CTCGGAAGGATG
*
808106 GGTTGGAGTATCCCCTCGGAAGGACAG
1 GGTTGGAGTAT-CCCTCGGAAGGA-TG
808133 GGTTGGAGTATC
1 GGTTGGAGTATC
808145 TCCATGAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
25 13 0.22
26 32 0.54
27 14 0.24
ACGTcount: A:0.20, C:0.17, G:0.38, T:0.26
Consensus pattern (25 bp):
GGTTGGAGTATCCCTCGGAAGGATG
Found at i:809705 original size:163 final size:162
Alignment explanation
Indices: 809322--809909 Score: 681
Period size: 162 Copynumber: 3.6 Consensus size: 162
809312 TAATATATAC
* * * * * * *
809322 AAAAAAATTCAAAATTCATG-AAATAATTTG-ATTTTCAAAAACTGATATAATATGAATTTAATT
1 AAAAAAATTCAAAACTCATGAAAATAA-ATGAATTTTTAAAAATTGATTTAATATGAATTAAATA
* * ** *
809385 ACAATATTAGATGAATTTTAAAAATTTTAAACCGAGAAAAATCCTCCCAAAAATATT-TACGAAG
65 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CTCCCAAAAA-ATTATA-G-AG
*
809449 TAGAAAACTCGGTTTTTC-A-AAAATAGAGAAATTTCA
126 TAGAAAACTCAGTTTTTCGAGAAAA-AGAGAAATTTCA
* * *
809485 AGGAAAAAATTGAGAAACTCATGAAAATAAATGAATTTTTAAAAATTGATCTAATATGAAATAAA
1 A--AAAAAATTCA-AAACTCATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAA
* *
809550 TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATATCCCTAAAAAATTATTGAGT
63 TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCC-AAAAAATTATAGAGT
*
809615 AGAAAACTCAGTTTTTCGAGAAAAATAG-AATTTCA
127 AGAAAACTCAGTTTTTCGAGAAAAAGAGAAATTTCA
* * * *
809650 AATAAAAATTCAAAACTCATGAAGATTATTGAATTTTTTAAAATTGATTTAATATGAATTAAATA
1 AA-AAAAATTCAAAACTCATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAATA
*
809715 ATAATATTTGATGAATTTTAAAAATTAAAAA-TAA-AAAAATCTCCCAAAAAAATTTATAGAGTA
65 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCC-AAAAAA-TTATAGAGTA
* * * * *
809778 GAAAACTCTATTTTTTAG-GGAAAAGGGAAATTTAA
128 GAAAACTC-AGTTTTTCGAGAAAAAGAGAAATTTCA
* * * * *
809813 AAAAAAATTTAAAACTCATAAAAATGAATGAATTTTTCAAAATTGATTTAATATGAATTAAATGA
1 AAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAA
809878 TAATATTTGATGAATTTTAAAAATTAAAAACC
66 TAATATTTGATGAATTTTAAAAATTAAAAACC
809910 CATGAAAATC
Statistics
Matches: 368, Mismatches: 43, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
161 16 0.04
162 111 0.30
163 95 0.26
164 8 0.02
165 36 0.10
166 22 0.06
167 80 0.22
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (162 bp):
AAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAA
TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCAAAAAATTATAGAGTAGAA
AACTCAGTTTTTCGAGAAAAAGAGAAATTTCA
Found at i:815744 original size:18 final size:19
Alignment explanation
Indices: 815717--815755 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
815707 AAGTCTGCTA
815717 TTTTA-ATTTTTAGAAATT
1 TTTTATATTTTTAGAAATT
* *
815735 TTTTATTTTTTTTGAAATT
1 TTTTATATTTTTAGAAATT
815754 TT
1 TT
815756 ATAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTATATTTTTAGAAATT
Found at i:816068 original size:18 final size:18
Alignment explanation
Indices: 816045--816091 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
816035 TTTATTAATG
816045 AAAATTATATTAGCATAT
1 AAAATTATATTAGCATAT
* *
816063 AAAATT-TATT-TCATGT
1 AAAATTATATTAGCATAT
816079 ACAAATTATATTA
1 A-AAATTATATTA
816092 AAATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (18 bp):
AAAATTATATTAGCATAT
Found at i:816547 original size:23 final size:23
Alignment explanation
Indices: 816541--816596 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
816531 ATAAATTTAT
*
816541 AATTTATAATTTATATTTAAATA
1 AATTTTTAATTTATATTTAAATA
816564 AATTTTTAATTTATATTTAAATA
1 AATTTTTAATTTATATTTAAATA
816587 AATTTTTAAT
1 AATTTTTAAT
816597 ATAGAGAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTTTTAATTTATATTTAAATA
Found at i:817116 original size:20 final size:19
Alignment explanation
Indices: 817084--817139 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
817074 AAAATAAAAT
*
817084 AAATA-TAACATAATTAAA
1 AAATATTAATATAATTAAA
* *
817102 AATATATTTATATAA-TATA
1 AA-ATATTAATATAATTAAA
817121 AAATATTAATAT-ATTAAA
1 AAATATTAATATAATTAAA
817139 A
1 A
817140 TTTATATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 1 0.03
18 15 0.50
19 8 0.27
20 6 0.20
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATTAATATAATTAAA
Found at i:817384 original size:27 final size:27
Alignment explanation
Indices: 817348--817403 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
817338 TTCGACATAA
*
817348 TTAATCAAATTAATATTATATATTAAAT
1 TTAATCAAATTAATATAATATA-TAAAT
*
817376 TTAAT-AAATTATTATAATATATAAAT
1 TTAATCAAATTAATATAATATATAAAT
817402 TT
1 TT
817404 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAATCAAATTAATATAATATATAAAT
Found at i:824137 original size:155 final size:155
Alignment explanation
Indices: 823855--824170 Score: 596
Period size: 155 Copynumber: 2.0 Consensus size: 155
823845 ATGCATGGAA
* *
823855 AATTTTGGACGATGAACTGCCTAGTGGTGTGTCAGTATTTAACTTGGTAGTTTTAGGCTTAACCC
1 AATTTTGGACGATGAACTGCCTAGTGATGCGTCAGTATTTAACTTGGTAGTTTTAGGCTTAACCC
*
823920 TAGTGAGTATATAAGTTTTTGGTAGTCTATTGTGTAGTTGCTTGAATATTTTCGCATGTACTGGA
66 TAGTGAGTATATAAGTTTGTGGTAGTCTATTGTGTAGTTGCTTGAATATTTTCGCATGTACTGGA
823985 CACATGCTTTTTGCCTAAATATTGC
131 CACATGCTTTTTGCCTAAATATTGC
*
824010 AATTTTGGACGATGAACTGCCTAGTGATGCGTCAGTATTTAACTTGGTAGTTTTGGGCTTAACCC
1 AATTTTGGACGATGAACTGCCTAGTGATGCGTCAGTATTTAACTTGGTAGTTTTAGGCTTAACCC
824075 TAGTGAGTATATAAGTTTGTGGTAGTCTATTGTGTAGTTGCTTGAATATTTTCGCATGTACTGGA
66 TAGTGAGTATATAAGTTTGTGGTAGTCTATTGTGTAGTTGCTTGAATATTTTCGCATGTACTGGA
824140 CACATGCTTTTTGCCTAAATATTGC
131 CACATGCTTTTTGCCTAAATATTGC
824165 AATTTT
1 AATTTT
824171 TGTCATATAT
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 157 1.00
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (155 bp):
AATTTTGGACGATGAACTGCCTAGTGATGCGTCAGTATTTAACTTGGTAGTTTTAGGCTTAACCC
TAGTGAGTATATAAGTTTGTGGTAGTCTATTGTGTAGTTGCTTGAATATTTTCGCATGTACTGGA
CACATGCTTTTTGCCTAAATATTGC
Found at i:826952 original size:2 final size:2
Alignment explanation
Indices: 826945--826978 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
826935 TTAGAAGCAG
826945 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
826979 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:828003 original size:11 final size:11
Alignment explanation
Indices: 827987--828013 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
827977 ACTCACATAG
827987 TATTTGAGATA
1 TATTTGAGATA
827998 TATTTGAGATA
1 TATTTGAGATA
828009 TATTT
1 TATTT
828014 TCAATAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (11 bp):
TATTTGAGATA
Found at i:829593 original size:16 final size:16
Alignment explanation
Indices: 829569--829599 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
829559 ACATTTCCTT
*
829569 TTTTCCTTTTTTTATA
1 TTTTACTTTTTTTATA
829585 TTTTACTTTTTTTAT
1 TTTTACTTTTTTTAT
829600 TTTCATCGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTACTTTTTTTATA
Found at i:830759 original size:2 final size:2
Alignment explanation
Indices: 830748--830787 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
830738 CTAAATTAGA
830748 TC TC -C 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 TC TC TC T
830788 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:830792 original size:2 final size:2
Alignment explanation
Indices: 830787--830813 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
830777 TCTCTCTCTC
830787 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
830814 GGAGCACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:833096 original size:6 final size:6
Alignment explanation
Indices: 833085--833117 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
833075 TTTCTTGAAC
833085 AACCAT AACCAT AACCAT AACCAT AACCAT AAC
1 AACCAT AACCAT AACCAT AACCAT AACCAT AAC
833118 AGAAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCAT
Found at i:834200 original size:31 final size:31
Alignment explanation
Indices: 834162--834238 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
834152 TATATTTTTC
*
834162 AATGTATCGATACATCTAGGTAAAAACATAA
1 AATGTATCGATACATCTAGGTAAAAACACAA
* *
834193 AATGTATCGATACATCTTGGTAAAAACACAG
1 AATGTATCGATACATCTAGGTAAAAACACAA
*
834224 AATGTATCGACACAT
1 AATGTATCGATACAT
834239 TGAAAAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (31 bp):
AATGTATCGATACATCTAGGTAAAAACACAA
Found at i:834246 original size:51 final size:50
Alignment explanation
Indices: 834191--834308 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 50
834181 GTAAAAACAT
* * * *
834191 AAAATGTATCGATACATCTTGGTAAAAACACAGAATGTATCGACACATTG
1 AAAATGTATCGATACATCTGGGTAAAAAAACAAAATATATCGACACATTG
* *
834241 AAAAATGTATCGATACATCTGGGTAAAAAAATAAAATATATCGATACATTG
1 -AAAATGTATCGATACATCTGGGTAAAAAAACAAAATATATCGACACATTG
*
834292 AAAATGTATCAATACAT
1 AAAATGTATCGATACAT
834309 TCACACATGT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 16 0.27
51 44 0.73
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.27
Consensus pattern (50 bp):
AAAATGTATCGATACATCTGGGTAAAAAAACAAAATATATCGACACATTG
Found at i:834301 original size:19 final size:19
Alignment explanation
Indices: 834273--834329 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
834263 GTAAAAAAAT
* *
834273 AAAATATATCGATACATTG
1 AAAATGTATCGATACATTC
*
834292 AAAATGTATCAATACATTC
1 AAAATGTATCGATACATTC
* *
834311 ACACATGTATCGTTACATT
1 A-AAATGTATCGATACATT
834330 TACTATTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (19 bp):
AAAATGTATCGATACATTC
Found at i:838448 original size:21 final size:23
Alignment explanation
Indices: 838424--838474 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
838414 AATGAAATGT
838424 TTTGATGAAAA-A-TTGATA-AAA
1 TTTGATGAAAAGATTTGA-AGAAA
838445 TTTGA--AAAAGATTTGAAGAAA
1 TTTGATGAAAAGATTTGAAGAAA
838466 TTTGATGAA
1 TTTGATGAA
838475 TGAATCGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.16
20 2 0.08
21 17 0.68
23 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (23 bp):
TTTGATGAAAAGATTTGAAGAAA
Found at i:843152 original size:15 final size:15
Alignment explanation
Indices: 843134--843168 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
843124 TGAGTCAACT
843134 TCATCATTATCATCA
1 TCATCATTATCATCA
*
843149 TCATCATTATCTTCA
1 TCATCATTATCATCA
843164 TCATC
1 TCATC
843169 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:843320 original size:26 final size:26
Alignment explanation
Indices: 843284--843335 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
843274 TAAGGATAGA
843284 GTGTTGGGATCCTTAGGCTCTTCGAT
1 GTGTTGGGATCCTTAGGCTCTTCGAT
*
843310 GTGTTGGGATCCTTAGGCTTTTCGAT
1 GTGTTGGGATCCTTAGGCTCTTCGAT
843336 TACGGTGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (26 bp):
GTGTTGGGATCCTTAGGCTCTTCGAT
Found at i:846754 original size:32 final size:32
Alignment explanation
Indices: 846709--846781 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
846699 AAAGCTCCCT
*
846709 TAAAAAAAACAAAAGCACAAAAATGAGAAA-CA
1 TAAAAAAAGCAAAAGCACAAAAATGA-AAAGCA
*
846741 TAAAAAAAGCAAAAGCACAGAAATGAAAAGCA
1 TAAAAAAAGCAAAAGCACAAAAATGAAAAGCA
*
846773 CAAAAAAAG
1 TAAAAAAAG
846782 GGAGAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 3 0.08
32 34 0.92
ACGTcount: A:0.70, C:0.12, G:0.12, T:0.05
Consensus pattern (32 bp):
TAAAAAAAGCAAAAGCACAAAAATGAAAAGCA
Found at i:848220 original size:30 final size:31
Alignment explanation
Indices: 848187--849063 Score: 308
Period size: 30 Copynumber: 28.8 Consensus size: 31
848177 CAACCCCTAA
* * *
848187 TGGCATCTC-TTCTCAAAGTCTACGACTTAA
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
*
848217 TGGCATCTCTTTTTCAAAGTCCAC-ATTTAG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* * *
848247 TGGCATC-CTTTCTT-AAAGTCTACTACTTAA
1 TGGCATCTCTTT-TTCAAAGTCCACGACTTAG
* * *
848277 TGGCATC-CTTTTTTCAAAGTCTACGAGTCAG
1 TGGCATCTC-TTTTTCAAAGTCCACGACTTAG
* *
848308 TGGTATCCCTTTTTCAAAGTCCAC-ACTTAG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
848338 TGGCATC-CTTTCTT-AAAGTCCACGACTTAG
1 TGGCATCTCTTT-TTCAAAGTCCACGACTTAG
* *
848368 TGGCATCTC-TTTTCAAAGTCCATGACTCAG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* *
848398 TGGCAT-TCCTTTTCAAAGT-C-C-A-TTCCG
1 TGGCATCTCTTTTTCAAAGTCCACGACTT-AG
* *
848425 TGGCATC-CTTCTTCAAAGTCCACGACTCAG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* * * *
848455 TGGCCTCCCTTTTT-AAAGTCCACAACTTCG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* * * * ** **
848485 TGGTACCTGTTTCTTCAAAGTCTATAACTCCG
1 TGGCATCTCTTT-TTCAAAGTCCACGACTTAG
* * **
848517 TGGCATCCCTTTTT-AAAGTCCACAACTCCG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* * *
848547 T-GCATCTC-TTTT-AAAGTCCACAACGTCG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* * * * *
848575 TGACACCTTTTTATTTAAAGTCCACAACTCT-G
1 TGGCATCTCTTT-TTCAAAGTCCACGACT-TAG
* * * * *
848607 TGCCACCTTTTTATTTAAAGTCCACAACTCT-G
1 TGGCATCTCTTT-TTCAAAGTCCACGACT-TAG
* * * * * * *
848639 TGCCACCTTTTTCTTCAAAGTCTACAATTTCG
1 TGGCATCTCTTT-TTCAAAGTCCACGACTTAG
* * *
848671 TGGCA-CTTTTTTCTTCAAAGTCCACAACTCCA-
1 TGGCATC-TCTTT-TTCAAAGTCCACGACT-TAG
* * * **
848703 TGGCACCCCTTTTT-AAAGTCCACAACTCCG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* **
848733 TGGCATCTC-TTTT-AAAGTCCACAACTCCG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* * * * **
848762 TGGCACCTTTTTTTTCAAAGTTCACAACTCCG
1 TGGCATC-TCTTTTTCAAAGTCCACGACTTAG
* * * * **
848794 TGGCA-CCCTTTTTTAAAGTTCACAACTCCG
1 TGGCATCTCTTTTTCAAAGTCCACGACTTAG
* * *
848824 TGGCA-CCCTTTTTCAAAGTCCACAACTCCA-
1 TGGCATCTCTTTTTCAAAGTCCACGACT-TAG
* * *
848854 CGGCA-CTTTTTTCTTCAAAGTCCACAACTCT-G
1 TGGCATC-TCTTT-TTCAAAGTCCACGACT-TAG
* * **
848886 TGGCACCTTTTTCTTCAAAGTCCATAACTCT-G
1 TGGCATCTCTTT-TTCAAAGTCCACGACT-TAG
* *
848918 TGGCA-CATTTTTCTTCAAAGTCCACAACTCTA-
1 TGGCATC-TCTTT-TTCAAAGTCCACGACT-TAG
* * * *
848950 TGGCACCCCTTTTT-AAAGTCCACAACTCCA-
1 TGGCATCTCTTTTTCAAAGTCCACGACT-TAG
**
848980 TGGCATCTC-TTTT-AAAGTCCATAACTCT-G
1 TGGCATCTCTTTTTCAAAGTCCACGACT-TAG
* * * *
849009 TGGCACCTTTTTCTTCAAAGTCCACAACTCCA-
1 TGGCATCTCTTT-TTCAAAGTCCACGACT-TAG
* *
849041 TGGCA-CCCTTTTTTAAAGTCCAC
1 TGGCATCTCTTTTTCAAAGTCCAC
849064 AACTCTGTGA
Statistics
Matches: 705, Mismatches: 96, Indels: 92
0.79 0.11 0.10
Matches are distributed among these distances:
26 1 0.00
27 18 0.03
28 20 0.03
29 92 0.13
30 245 0.35
31 82 0.12
32 243 0.34
33 4 0.01
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (31 bp):
TGGCATCTCTTTTTCAAAGTCCACGACTTAG
Found at i:848354 original size:91 final size:90
Alignment explanation
Indices: 848184--848474 Score: 340
Period size: 91 Copynumber: 3.3 Consensus size: 90
848174 CAACAACCCC
* * * * *
848184 TAATGGCATCTCTTCTCAAAGTCTACGACTTAATGGCATCTCTTTTTCAAAGTCCACATTTAGTG
1 TAATGGCATCTCTTTTCAAAGTCTACGACTCAGTGGCATCCCTTTTTCAAAGTCCACACTTAGTG
* *
848249 GCATCCTTTCTTAAAGTCTACTACT
66 GCATCCTTTCTTAAAGTCCACGACT
* * *
848274 TAATGGCATCCTTTTTTCAAAGTCTACGAGTCAGTGGTATCCCTTTTTCAAAGTCCACACTTAGT
1 TAATGGCAT-CTCTTTTCAAAGTCTACGACTCAGTGGCATCCCTTTTTCAAAGTCCACACTTAGT
848339 GGCATCCTTTCTTAAAGTCCACGACT
65 GGCATCCTTTCTTAAAGTCCACGACT
* * * * *
848365 TAGTGGCATCTCTTTTCAAAGTCCATGACTCAGTGGCATTCC-TTTTCAAAGT-C-CA-TTCCGT
1 TAATGGCATCTCTTTTCAAAGTCTACGACTCAGTGGCATCCCTTTTTCAAAGTCCACACTT-AGT
848426 GGCATCC-TTCTTCAAAGTCCACGACT
65 GGCATCCTTTCTT-AAAGTCCACGACT
* * * * *
848452 CAGTGGCCTCCCTTTTTAAAGTC
1 TAATGGCATCTCTTTTCAAAGTC
848475 CACAACTTCG
Statistics
Matches: 176, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
86 7 0.04
87 43 0.24
88 1 0.01
89 10 0.06
90 36 0.20
91 79 0.45
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (90 bp):
TAATGGCATCTCTTTTCAAAGTCTACGACTCAGTGGCATCCCTTTTTCAAAGTCCACACTTAGTG
GCATCCTTTCTTAAAGTCCACGACT
Found at i:848519 original size:32 final size:31
Alignment explanation
Indices: 848317--849301 Score: 713
Period size: 32 Copynumber: 32.1 Consensus size: 31
848307 GTGGTATCCC
**
848317 TTTTTCAAAGTCCAC-ACTTAGTGGCATCC-T
1 TTTTTCAAAGTCCACAACTCCGTGGCA-CCTT
* * ** *
848347 TTCTT-AAAGTCCACGACTTAGTGGCATC-T
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* ** *
848376 CTTTTCAAAGTCCATGACTCAGTGGCA--TT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* *
848405 CCTTTTCAAAGT-C-C-ATTCCGTGGCATCC--
1 -TTTTTCAAAGTCCACAACTCCGTGGCA-CCTT
* * * **
848433 TTCTTCAAAGTCCACGACTCAGTGGC-CTCCC
1 TTTTTCAAAGTCCACAACTCCGTGGCAC-CTT
* *
848464 TTTTT-AAAGTCCACAACTTCGTGGTACCTGT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCT-T
* * * *
848495 TTCTTCAAAGTCTATAACTCCGTGGCATCC-C
1 TTTTTCAAAGTCCACAACTCCGTGGCA-CCTT
*
848526 TTTTT-AAAGTCCACAACTCCGT-GCATC-T
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* *
848554 CTTTT-AAAGTCCACAACGT-CGTGACACCTT
1 TTTTTCAAAGTCCACAAC-TCCGTGGCACCTT
* * *
848584 TTTATTTAAAGTCCACAACTCTGTGCCACCTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
* * *
848616 TTTATTTAAAGTCCACAACTCTGTGCCACCTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
* * * *
848648 TTTCTTCAAAGTCTACAATTTCGTGGCACTTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
* **
848680 TTTCTTCAAAGTCCACAACTCCATGGCACCCC
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
*
848712 TTTTT-AAAGTCCACAACTCCGTGGCATC-T
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
*
848741 CTTTT-AAAGTCCACAACTCCGTGGCACCTTT
1 TTTTTCAAAGTCCACAACTCCGTGGCACC-TT
* *
848772 TTTTTCAAAGTTCACAACTCCGTGGCACCCT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* *
848803 TTTTT-AAAGTTCACAACTCCGTGGCACC-C
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
** *
848832 TTTTTCAAAGTCCACAACTCCACGGCACTTT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
*
848863 TTTCTTCAAAGTCCACAACTCTGTGGCACCTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
* * *
848895 TTTCTTCAAAGTCCATAACTCTGTGGCACATT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
** **
848927 TTTCTTCAAAGTCCACAACTCTATGGCACCCC
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
* *
848959 TTTTT-AAAGTCCACAACTCCATGGCATC-T
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* * *
848988 CTTTT-AAAGTCCATAACTCTGTGGCACCTT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* *
849018 TTTCTTCAAAGTCCACAACTCCATGGCACCCT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCTT
* *
849050 TTTTT-AAAGTCCACAACTCTGTGACACCTT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* ** **
849080 TTTCGTT-AAAGTCCATAACTTTGTGGCAATTT
1 TTT--TTCAAAGTCCACAACTCCGTGGCACCTT
* ** **
849112 TTTTTTAAAGTCCACAACTCCGTGATAATTT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* *
849143 TTTCTTTAAAGTCCACAACTCCATGGCACCCTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCA-CCTT
* * * *
849176 TTTTT-TAAGTCTACAACTTCGTGACACCTTT
1 TTTTTCAAAGTCCACAACTCCGTGGCACC-TT
* * *
849207 TTTTTAAAAGTCCACAACTCTGTGGCACCCT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* **
849238 TTTTT-AAAGTCCATAACTCTATGGCA-C-T
1 TTTTTCAAAGTCCACAACTCCGTGGCACCTT
* * * *
849266 CTTTTCTAAAGTCCATAACTCCATGGCACCAT
1 TTTTTC-AAAGTCCACAACTCCGTGGCACCTT
849298 TTTT
1 TTTT
849302 AAAGCCCACA
Statistics
Matches: 787, Mismatches: 125, Indels: 84
0.79 0.13 0.08
Matches are distributed among these distances:
27 18 0.02
28 27 0.03
29 80 0.10
30 242 0.31
31 91 0.12
32 322 0.41
33 7 0.01
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (31 bp):
TTTTTCAAAGTCCACAACTCCGTGGCACCTT
Found at i:848520 original size:62 final size:62
Alignment explanation
Indices: 848320--849301 Score: 626
Period size: 62 Copynumber: 16.0 Consensus size: 62
848310 GTATCCCTTT
** * * ** * *
848320 TTCAAAGTCCAC-ACTTAGTGGCA-TCCTTTCTTAAAGTCCACGACTTAGTGGCATC-TCTT-
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTT-TTAAAGTCCACAACTCCGTGGCACCTTTTTC
** * ** * *
848379 TTCAAAGTCCATGACTCAGTGGCATTCCTTTTCAAAGT-C-C-ATTCCGTGGCATCC---TTC
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTC
* * * * *
848436 TTCAAAGTCCACGACTCAGTGGC-CTCCCTTTTTAAAGTCCACAACTTCGTGGTACCTGTTTC
1 TTCAAAGTCCACAACTCCGTGGCAC-CCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTC
* * * * *
848498 TTCAAAGTCTATAACTCCGTGGCATCCCTTTTTAAAGTCCACAACTCCGT-GCATC-TCTT-
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTC
* ** * * *
848557 TT-AAAGTCCACAACGT-CGTGACACCTTTTTATTTAAAGTCCACAACTCTGTGCCACCTTTTTA
1 TTCAAAGTCCACAAC-TCCGTGGCACC-CCTT-TTTAAAGTCCACAACTCCGTGGCACCTTTTTC
* * * ** * * * *
848620 TTTAAAGTCCACAACTCTGTGCCACCTTTTTCTTCAAAGTCTACAATTTCGTGGCACTTTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTT-TT-AAAGTCCACAACTCCGTGGCACCTTTTTC
* * *
848684 TTCAAAGTCCACAACTCCATGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCATC-TCTT-
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTC
** * *
848744 TT-AAAGTCCACAACTCCGTGGCACCTTTTTTTTCAAAGTTCACAACTCCGTGGCACCCTTTT-
1 TTCAAAGTCCACAACTCCGTGGCACC-CCTTTTT-AAAGTCCACAACTCCGTGGCACCTTTTTC
* ** *
848806 TT-AAAGTTCACAACTCCGTGGCA-CCCTTTTTCAAAGTCCACAACTCCACGGCACTTTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTTTT-AAAGTCCACAACTCCGTGGCACCTTTTTC
* ** * * *
848867 TTCAAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTCCATAACTCTGTGGCACATTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTT-TT-AAAGTCCACAACTCCGTGGCACCTTTTTC
** * * *
848931 TTCAAAGTCCACAACTCTATGGCACCCCTTTTTAAAGTCCACAACTCCATGGCATC-TCTT-
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTC
* * ** * *
848991 TT-AAAGTCCATAACTCTGTGGCACCTTTTTCTTCAAAGTCCACAACTCCATGGCACCCTTTT-
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTT-TT-AAAGTCCACAACTCCGTGGCACCTTTTTC
* * ** * ** * *
849053 TT-AAAGTCCACAACTCTGTGACACCTTTTTCGTTAAAGTCCATAACTTTGTGGCA-ATTTTTT
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTT--TTAAAGTCCACAACTCCGTGGCACCTTTTTC
* ** **** *
849115 TTTAAAGTCCACAACTCCGTGATAATTTTTTCTTTAAAGTCCACAACTCCATGGCACCCTTTTT-
1 TTCAAAGTCCACAACTCCGTG-GCACCCCTT-TTTAAAGTCCACAACTCCGTGGCA-CCTTTTTC
* * * * ** * *
849179 TT-TAAGTCTACAACTTCGTGACACCTTTTTTTTAAAAGTCCACAACTCTGTGGCACCCTTTT-
1 TTCAAAGTCCACAACTCCGTGGCACC-CCTTTTT-AAAGTCCACAACTCCGTGGCACCTTTTTC
* ** * * *
849241 TT-AAAGTCCATAACTCTATGGCA-CTCTTTTCTAAAGTCCATAACTCCATGGCACCATTTTT
1 TTCAAAGTCCACAACTCCGTGGCACCCCTTTT-TAAAGTCCACAACTCCGTGGCACC-TTTTT
849302 AAAGCCCACA
Statistics
Matches: 746, Mismatches: 134, Indels: 84
0.77 0.14 0.09
Matches are distributed among these distances:
56 2 0.00
57 41 0.05
58 20 0.03
59 66 0.09
60 110 0.15
61 74 0.10
62 206 0.28
63 93 0.12
64 128 0.17
65 6 0.01
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (62 bp):
TTCAAAGTCCACAACTCCGTGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTTC
Found at i:848879 original size:247 final size:243
Alignment explanation
Indices: 848433--849311 Score: 907
Period size: 247 Copynumber: 3.6 Consensus size: 243
848423 CGTGGCATCC
* * * *
848433 TTCTTCAAAGTCCACGACT-CAGTGGC-CTCCCTTTTTAAAGTCCACAACTTCGTGGTACCTGTT
1 TTCTTCAAAGTCCACAACTCCA-TGGCAC-CCCTTTTTAAAGTCCACAACTCCGTGGCACCT-CT
* * * * *
848496 TCTTCAAAGTCTATAACTCCGTGGCATCC--CTTTTTAAAGTCCACAACTCCGT-GCATCTCTTT
63 T-TT-AAAGTCCATAACTCCGTGGCA-CCTTTTTTTTAAAGTCCACAACTCCATGGCACCTTTTT
* * * *
848558 TAAAGTCCACAACGT-CGTGACACCTTTTTATTTAAAGTCCACAACTCTGTGCCACCTTTTTATT
125 TAAAGTCCACAAC-TCCGTGACACC-CTTT-TTCAAAGTCCACAACTCTGTGGCA-CTTTTTTTT
* *
848622 TAAAGTCCACAACTCTGTGCCACCTTTTTCTTCAAAGTCTACAATTTCGTGGCACTTTT
186 TAAAGTCCACAACTCTGTGACACCTTTTTCTTCAAAGTCCACAA-TTCGTGGCACTTTT
*
848681 TTCTTCAAAGTCCACAACTCCATGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCATCTCTTTT
1 TTCTTCAAAGTCCACAACTCCATGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCACCTCTTTT
* * *
848746 AAAGTCCACAACTCCGTGGCACCTTTTTTTTCAAAGTTCACAACTCCGTGGCACCCTTTTTTAAA
66 AAAGTCCATAACTCCGTGGCACCTTTTTTTT-AAAGTCCACAACTCCATGGCA-CCTTTTTTAAA
* * *** *
848811 GTTCACAACTCCGTGGCACCCTTTTTCAAAGTCCACAACTCCACGGCACTTTTTTCTTCAAAGTC
129 GTCCACAACTCCGTGACACCCTTTTTCAAAGTCCACAACTCTGTGGCACTTTTTT-TTTAAAGTC
* * * *
848876 CACAACTCTGTGGCACCTTTTTCTTCAAAGTCCATAACTCTGTGGCACATTT
193 CACAACTCTGTGACACCTTTTTCTTCAAAGTCCACAATTC-GTGGCACTTTT
* * *
848928 TTCTTCAAAGTCCACAACTCTATGGCACCCCTTTTTAAAGTCCACAACTCCATGGCATCTCTTTT
1 TTCTTCAAAGTCCACAACTCCATGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCACCTCTTTT
* *
848993 AAAGTCCATAACTCTGTGGCACCTTTTTCTTCAAAGTCCACAACTCCATGGCACCCTTTTTTAAA
66 AAAGTCCATAACTCCGTGGCACCTTTTT-TTTAAAGTCCACAACTCCATGGCA-CCTTTTTTAAA
* * * *
849058 GTCCACAACTCTGTGACA-CCTTTTTCGTTAAAGTCCATAACTTTGTGGCAATTTTTTTTTAAAG
129 GTCCACAACTCCGTGACACCCTTTTTC---AAAGTCCACAACTCTGTGGCACTTTTTTTTTAAAG
* * ** * * *
849122 TCCACAACTCCGTGATAATTTTTTCTTTAAAGTCCACAACTCCATGGCACCCTTTT
191 TCCACAACTCTGTGACACCTTTTTCTTCAAAGTCCACAA-TTCGTGGCA--CTTTT
* * * * ** * *
849178 TT-TT--AAGTCTACAACTTCGTGACACCTTTTTTTTAAAAGTCCACAACTCTGTGGCACCCTTT
1 TTCTTCAAAGTCCACAACTCCATGGCACC-CCTTTTT-AAAGTCCACAACTCCGTGGCA-CCTCT
** * * * *
849240 TTTAAAGTCCATAACTCTATGGCA-CTCTTTTCTAAAGTCCATAACTCCATGGCACCATTTTTAA
63 TTTAAAGTCCATAACTCCGTGGCACCTTTTTTTTAAAGTCCACAACTCCATGGCACCTTTTTTAA
*
849304 AGCCCACA
128 AGTCCACA
849312 CAAGTCGGTG
Statistics
Matches: 539, Mismatches: 72, Indels: 41
0.83 0.11 0.06
Matches are distributed among these distances:
244 2 0.00
245 19 0.04
246 23 0.04
247 257 0.48
248 129 0.24
249 77 0.14
250 32 0.06
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.35
Consensus pattern (243 bp):
TTCTTCAAAGTCCACAACTCCATGGCACCCCTTTTTAAAGTCCACAACTCCGTGGCACCTCTTTT
AAAGTCCATAACTCCGTGGCACCTTTTTTTTAAAGTCCACAACTCCATGGCACCTTTTTTAAAGT
CCACAACTCCGTGACACCCTTTTTCAAAGTCCACAACTCTGTGGCACTTTTTTTTTAAAGTCCAC
AACTCTGTGACACCTTTTTCTTCAAAGTCCACAATTCGTGGCACTTTT
Found at i:849411 original size:33 final size:31
Alignment explanation
Indices: 849289--849648 Score: 264
Period size: 33 Copynumber: 11.2 Consensus size: 31
849279 CATAACTCCA
849289 TGGC-ACCATTTT-TAAAGCCCACACAAGTCGG
1 TGGCAACC-TTTTCTAAAG-CCACACAAGTCGG
* * * *
849320 TGGCAACCCTTT-AAAAGCCCATACAAGTCAG
1 TGGCAACCTTTTCTAAAG-CCACACAAGTCGG
* * *
849351 TGGCACCCTTTTTTTTAAAGCCTACACAAGTTGG
1 TGGCAACC--TTTTCTAAAGCC-ACACAAGTCGG
849385 TGGCAACCTTTCTCTAAAGGCCACACAAGTCGG
1 TGGCAACCTTT-TCTAAA-GCCACACAAGTCGG
* **
849418 TGGCAACC-TTTCTAAAACTCACACAAGTCAA
1 TGGCAACCTTTTCTAAAGC-CACACAAGTCGG
*
849449 TGGCAACTTTTCTCTAAAGCTCACACAAGTCGG
1 TGGCAACCTTT-TCTAAAGC-CACACAAGTCGG
* * **
849482 TTGCAACCCTTCTCTAAAGCCGACACAAGTCAA
1 TGGCAA-CCTTTTCTAAAGCC-ACACAAGTCGG
* * *
849515 TGGCAACGTTTTTCTAAAGCCCACATAAGTCGA
1 TGGCAAC-CTTTTCTAAAG-CCACACAAGTCGG
* * * *
849548 TAGCAAACCCTTTCTAAAACCTGCACAAGTCGG
1 TGGC-AACCTTTTCTAAAGCC-ACACAAGTCGG
* *
849581 TGGCAACCCTTTCT-AAGCTCACACAAGTCGA
1 TGGCAACCTTTTCTAAAGC-CACACAAGTCGG
* *
849612 TGGCAA-CTCTCTCAAAAGTCCACACAAGTCGG
1 TGGCAACCT-TTTCTAAAG-CCACACAAGTCGG
849644 TGGCA
1 TGGCA
849649 TCTCCTTCTA
Statistics
Matches: 264, Mismatches: 45, Indels: 39
0.76 0.13 0.11
Matches are distributed among these distances:
30 2 0.01
31 74 0.28
32 44 0.17
33 114 0.43
34 30 0.11
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (31 bp):
TGGCAACCTTTTCTAAAGCCACACAAGTCGG
Found at i:849497 original size:97 final size:95
Alignment explanation
Indices: 849301--849641 Score: 314
Period size: 97 Copynumber: 3.5 Consensus size: 95
849291 GCACCATTTT
* * * * *
849301 TAAAGCCCACACAAGTCGGTGGCAACCCTT-TAAAAGCCCATACAAGTCAGTGGCACCCTTTTTT
1 TAAAG-CCACACAAGTCGATGGCAACCTTTCTAAAA-CCCACACAAGTCAATGGCA-AC-TTTTT
* * *
849365 TTAAAGCCTACACAAGTTGGTGGCAACCTTTCTC
62 CTAAAGCCTACACAAGTCGGTGGCAACCCTTCTC
* *
849399 TAAAGGCCACACAAGTCGGTGGCAACCTTTCTAAAACTCACACAAGTCAATGGCAACTTTTCTCT
1 TAAA-GCCACACAAGTCGATGGCAACCTTTCTAAAACCCACACAAGTCAATGGCAACTTTT-TCT
*
849464 AAAG-CTCACACAAGTCGGTTGCAACCCTTCTC
64 AAAGCCT-ACACAAGTCGGTGGCAACCCTTCTC
* * * * * * **
849496 TAAAGCCGACACAAGTCAATGGCAACGTTTTTCTAAAGCCCACATAAGTCGATAGCAAACCCTTT
1 TAAAGCC-ACACAAGTCGATGGCAAC--CTTTCTAAAACCCACACAAGTCAATGGC-AACTTTTT
* *
849561 CTAAAACCTGCACAAGTCGGTGGCAACCCTT-TC
62 CTAAAGCCTACACAAGTCGGTGGCAACCCTTCTC
* *
849594 T-AAGCTCACACAAGTCGATGGCAA-CTCTCTCAAAAGTCCACACAAGTC
1 TAAAGC-CACACAAGTCGATGGCAACCTTTCT-AAAA-CCCACACAAGTC
849642 GGTGGCATCT
Statistics
Matches: 203, Mismatches: 28, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
94 4 0.02
95 3 0.01
96 19 0.09
97 69 0.34
98 47 0.23
99 54 0.27
100 7 0.03
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (95 bp):
TAAAGCCACACAAGTCGATGGCAACCTTTCTAAAACCCACACAAGTCAATGGCAACTTTTTCTAA
AGCCTACACAAGTCGGTGGCAACCCTTCTC
Found at i:849803 original size:112 final size:112
Alignment explanation
Indices: 849648--849937 Score: 321
Period size: 112 Copynumber: 2.7 Consensus size: 112
849638 AGTCGGTGGC
* *
849648 ATCTCCTTCTAAGCCCAATGTTGTTGGCCTTGAATCTATACATTGGCATTTATCAAATCTTCTTT
1 ATCTCCTTCTAAGCCCAATGTTGTTGGCCTTGAATCAACACATTGGCATTTATCAAATCTTCTTT
* ** *
849713 CTTTAAGTCCGATATCATTGACCTTGAATCAGCATATTGGCACATTT
66 CTTTAAGTCCGATATCACTGACCTCAAATCAGCATATTAGCACATTT
*
849760 ATCTCCTTTTAAGCCCAATGTTGTTGGCCTTGAATCAACACATTGGCACCTTTATC--A------
1 ATCTCCTTCTAAGCCCAATGTTGTTGGCCTTGAATCAACACATTGGCA--TTTATCAAATCTTCT
* * * *
849817 TT-TTTAAGTCCGATATCGCTGGCCTCAAATCAGCGTATTAGCACTTTT
64 TTCTTTAAGTCCGATATCACTGACCTCAAATCAGCATATTAGCACATTT
* * * * * * * *
849865 ATTTTC-TCTACGCCCAATGTCGTTGGCCTTAAATTAACATATTGGCATTTGTCAAATCTTCTTT
1 ATCTCCTTCTAAGCCCAATGTTGTTGGCCTTGAATCAACACATTGGCATTTATCAAATCTTCTTT
849929 CTTTAAGTC
66 CTTTAAGTC
849938 TAATGTCGAT
Statistics
Matches: 147, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
102 5 0.03
104 36 0.24
105 42 0.29
106 2 0.01
110 2 0.01
111 8 0.05
112 46 0.31
114 6 0.04
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (112 bp):
ATCTCCTTCTAAGCCCAATGTTGTTGGCCTTGAATCAACACATTGGCATTTATCAAATCTTCTTT
CTTTAAGTCCGATATCACTGACCTCAAATCAGCATATTAGCACATTT
Found at i:850008 original size:52 final size:52
Alignment explanation
Indices: 849928--850176 Score: 209
Period size: 52 Copynumber: 4.8 Consensus size: 52
849918 AAATCTTCTT
* * * *
849928 TCTTTAAGTCTAATGTCGATGGCCTTGAATCAGAACATTGGCACCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA
* * * * * *
849980 TCTTTAAGTCCAATATTGCTGGCATTGAATTAGCATATTAGCACCTTTATCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA
* * * * * *
850032 TTTTTAAG-CCTAATGTCACTGGCCTTTAATCAGCACGTTGGCA-TTCTTCTCA
1 TCTTTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTATCA
* * *
850084 TTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCATTCTTCT-T-A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-TATCA
* * * * * *
850136 CCTTTAAGTCTAATGTCACTGGCCATGAATTAGTACATTGG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
850177 TACTCTTATC
Statistics
Matches: 156, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
51 3 0.02
52 147 0.94
53 4 0.03
54 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (52 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA
Found at i:850142 original size:104 final size:103
Alignment explanation
Indices: 849920--850176 Score: 279
Period size: 104 Copynumber: 2.5 Consensus size: 103
849910 CATTTGTCAA
*
849920 ATCTTCTT-TCTTTAAGTCTAATGTCGA-TGGCCTTGAATCAGAACATTGGCACCTTTGTCATCT
1 ATCTTCTTATCTTTAAGTCTAATGTC-ACTGGCCTTGAATCAGAACATTGGCACCTTTCTCATCT
* * *
849983 TTAAGTCCAATATTGCTGGCATTGAATTAGCATATTAGC
65 TTAAGTCCAATATCGCTGGCATTGAATCAGCACATTAGC
* * * * * * *
850022 ACCTT-TATCATTTTTAAGCCTAATGTCACTGGCCTTTAATCAGCACGTTGGCA-TTCTTCTCAT
1 ATCTTCT-T-ATCTTTAAGTCTAATGTCACTGGCCTTGAATCAGAACATTGGCACCT-TTCTCAT
* * *
850085 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGC
63 CTTTAAGTCCAATATCGCTGGCATTGAATCAGCACATTAGC
* * * *
850126 ATTCTTCTTACCTTTAAGTCTAATGTCACTGGCCATGAATTAGTACATTGG
1 A-TCTTCTTATCTTTAAGTCTAATGTCACTGGCCTTGAATCAGAACATTGG
850177 TACTCTTATC
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
101 1 0.01
102 5 0.04
103 2 0.02
104 112 0.90
105 4 0.03
106 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (103 bp):
ATCTTCTTATCTTTAAGTCTAATGTCACTGGCCTTGAATCAGAACATTGGCACCTTTCTCATCTT
TAAGTCCAATATCGCTGGCATTGAATCAGCACATTAGC
Found at i:850808 original size:20 final size:21
Alignment explanation
Indices: 850758--850808 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
850748 TTTTACAATT
850758 TGTATCGATACAACAAATGAA
1 TGTATCGATACAACAAATGAA
* * * *
850779 TGTATTGATAC-ATAAGTGAG
1 TGTATCGATACAACAAATGAA
850799 TGTATCGATA
1 TGTATCGATA
850809 TATTTTTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAACAAATGAA
Found at i:850951 original size:51 final size:51
Alignment explanation
Indices: 850867--850985 Score: 159
Period size: 52 Copynumber: 2.3 Consensus size: 51
850857 TCTGGAAAGA
* * * * *
850867 AAATGTATCGATGCATTTTCATTGCATCGATACATT-TTGGGTTTTGATCC
1 AAATGTATCGATACATTTTCATTGCATCAATACATTCTAGAGTTTTGACCC
* *
850917 AAATGTATCGATACATTATTCATTGTATCAATACATTCTAGATTTTTGACCC
1 AAATGTATCGATACATT-TTCATTGCATCAATACATTCTAGAGTTTTGACCC
850969 AAATGTATCGATACATT
1 AAATGTATCGATACATT
850986 CTAGGTTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 16 0.27
51 17 0.28
52 27 0.45
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (51 bp):
AAATGTATCGATACATTTTCATTGCATCAATACATTCTAGAGTTTTGACCC
Found at i:850983 original size:32 final size:32
Alignment explanation
Indices: 850940--851051 Score: 188
Period size: 32 Copynumber: 3.5 Consensus size: 32
850930 CATTATTCAT
* *
850940 TGTATCAATACATTCTAGATTTTTGACCCAAA
1 TGTATCGATACATTCTAGGTTTTTGACCCAAA
850972 TGTATCGATACATTCTAGGTTTTTGACCCAAA
1 TGTATCGATACATTCTAGGTTTTTGACCCAAA
*
851004 TGTATTGATACATTCTAGGTTTTTGACCCAAA
1 TGTATCGATACATTCTAGGTTTTTGACCCAAA
*
851036 TGTATTGATACATTCT
1 TGTATCGATACATTCT
851052 TCAATGTATC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATTCTAGGTTTTTGACCCAAA
Found at i:859007 original size:50 final size:50
Alignment explanation
Indices: 858948--859043 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
858938 TAAATTTCTA
* *
858948 GATTTTTCATCTCGGGAATACTTCAACCCCGGCTTTATTTCTAAAATATT
1 GATTTTTCATCTCGGGAATACTCCAACCCCGGCTTTATTTCCAAAATATT
* *
858998 GATTTTTCATCTCGGGGATACTCCAACCCCGGTTTTATTTCCAAAA
1 GATTTTTCATCTCGGGAATACTCCAACCCCGGCTTTATTTCCAAAA
859044 CATCAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (50 bp):
GATTTTTCATCTCGGGAATACTCCAACCCCGGCTTTATTTCCAAAATATT
Found at i:859055 original size:50 final size:50
Alignment explanation
Indices: 858951--859068 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 50
858941 ATTTCTAGAT
* * * * ** *
858951 TTTTCATCTCGGGAATACTTCAACCCCGGCTTTATTTCTAAAATATTGAT
1 TTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCCAAAACATCAAA
*
859001 TTTTCATCTCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAAA
1 TTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCCAAAACATCAAA
*
859051 TTTTCATAATCGGGGATA
1 TTTTCAT-CTCGGGGATA
859069 TTCAATCCCG
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 49 0.84
51 9 0.16
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (50 bp):
TTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCCAAAACATCAAA
Found at i:859140 original size:78 final size:76
Alignment explanation
Indices: 859011--859386 Score: 342
Period size: 79 Copynumber: 4.8 Consensus size: 76
859001 TTTTCATCTC
* * *
859011 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAAATTTTCATAATCGGGGATA-TTCAAT
1 GGGGATACTCCAACCCC-GTTTTATTTCTAAAACATC-GATTTTCATAATCGGGGATACTCCAA-
*
859075 CCCGTTATTTTCGA
63 CCCGTTATTTTTGA
* *
859089 GGGGATACTCCAACCCCTGTTTTATTTCTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCC-GTTTTATTTCTAAAACATCGATTT-TCATAATCGGGGATACTCCAA-
* *
859154 CCCGTTATTTTGGT
63 CCCGTTATTTTTGA
* ** * *
859168 GGGGATACTCCAACCCTGGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCC-CGTTTTATTTCTAAAACATCGA-TTTTCATAATCGGGGATACTCCAAC
*
859233 CCTGTTATTTTTTA
64 CC-GTTATTTTTGA
* * ** ** *
859247 GGGGATACTCTAACCTCGATTTTATTT-TCAAAAGGTTAATTTTCTATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCG-TTTTATTTCT-AAAACATCGATTTTC-ATAATCGGGGATACTCCAA
*
859311 CCTTGTTATTTTTGA
63 CC-CGTTATTTTTGA
* * * * * * *
859326 AGGGATATTCTAACCCCGATTTTATTTCCAGAATATCGATTTTCCATAATCGAGGATACTC
1 GGGGATACTCCAACCCCG-TTTTATTTCTAAAACATCGATTTT-CATAATCGGGGATACTC
859387 TAGCTCTGTT
Statistics
Matches: 243, Mismatches: 44, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
77 4 0.02
78 58 0.24
79 177 0.73
80 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (76 bp):
GGGGATACTCCAACCCCGTTTTATTTCTAAAACATCGATTTTCATAATCGGGGATACTCCAACCC
GTTATTTTTGA
Found at i:859351 original size:158 final size:157
Alignment explanation
Indices: 859012--859386 Score: 409
Period size: 158 Copynumber: 2.4 Consensus size: 157
859002 TTTCATCTCG
* * *
859012 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAAATTTTCATAATCGGGGATA-TTCAATC
1 GGGATACTCCAACCCCGGTTTTATTTCC-AAACATCGATTTTTCATAATCGGGGATACTCCAATC
* * *
859076 CCGTTATTTTCGAGGGGATACTCCAACCCCTGTTTTATTTCTAAAATATTGATTTCTCATAATCG
65 CCGTTATTTTCGAGGGGATACTCCAACCCCTGTTTTATTTCTAAAAGATTAATTTCTCATAATCA
**
859141 GGGATACTCCAACCCCGTTATTTTGGTG
130 GGGATACTCCAACCCCGTTATTTTGGAA
* ** * *
859169 GGGATACTCCAACCCTGGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAA-C
1 GGGATACTCCAACCCCGGTTTTATTTCCAAA-CATCGATTTTTCATAATCGGGGATACTCCAATC
** * * *
859233 CCTGTTATTTTTTAGGGGATACTCTAACCTC-GATTTTATTT-TCAAAAGGTTAATTT-TCTATA
65 CC-GTTATTTTCGAGGGGATACTCCAACCCCTG-TTTTATTTCT-AAAAGATTAATTTCTC-ATA
** *
859295 ATCAGGGATACTCCAACCTTGTTATTTTTGAA
126 ATCAGGGATACTCCAACCCCGTTATTTTGGAA
* * * * * *
859327 GGGATATTCTAACCCCGATTTTATTTCCAGAATATCGATTTTCCATAATCGAGGATACTC
1 GGGATACTCCAACCCCGGTTTTATTTCCA-AACATCGATTTTTCATAATCGGGGATACTC
859387 TAGCTCTGTT
Statistics
Matches: 179, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
156 3 0.02
157 53 0.30
158 121 0.68
159 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (157 bp):
GGGATACTCCAACCCCGGTTTTATTTCCAAACATCGATTTTTCATAATCGGGGATACTCCAATCC
CGTTATTTTCGAGGGGATACTCCAACCCCTGTTTTATTTCTAAAAGATTAATTTCTCATAATCAG
GGATACTCCAACCCCGTTATTTTGGAA
Found at i:866226 original size:41 final size:41
Alignment explanation
Indices: 866174--866253 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
866164 CAACAACTAG
*
866174 CAAAGATCTCTTTACTAACTCTGCTGCTCAAATTTGAACAA
1 CAAAGATCTCTTTACTAACTCTGCTACTCAAATTTGAACAA
* * * *
866215 CAAAGATCTCTTTGCTAATTTTGCTACTCAATTTTGAAC
1 CAAAGATCTCTTTACTAACTCTGCTACTCAAATTTGAAC
866254 TATATTGGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (41 bp):
CAAAGATCTCTTTACTAACTCTGCTACTCAAATTTGAACAA
Found at i:872354 original size:44 final size:44
Alignment explanation
Indices: 872286--872673 Score: 297
Period size: 44 Copynumber: 8.8 Consensus size: 44
872276 ATTTTACCTG
* *
872286 GTCAAACTCCTTTCA-TTTCTATTTGATGTGATGGTTCTGCCCTA
1 GTCAAACTTCTTTCACTTTC-ATTTGACGTGATGGTTCTGCCCTA
* *
872330 GTCAAACTTCTTTCACTTTCATTTGACGTAATGGTTTTGCCCTA
1 GTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCCTA
* ** * *
872374 GTCAAA-TTCCATTCACTTTTGTTTCACGTGATGGTT-TAGCCCTG
1 GTCAAACTT-CTTTCACTTTCATTTGACGTGATGGTTCT-GCCCTA
** * * * * * *
872418 GTTGAACTCCTTTCATCCTT-GTTTAACATGATGGTTTTGCCCTA
1 GTCAAACTTCTTTCA-CTTTCATTTGACGTGATGGTTCTGCCCTA
* * * * * *
872462 GTCAAACTCCTTTCACTTTCATGTAACATGATGGTTATGCCCTG
1 GTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCCTA
* *
872506 GTCAAA-TTCCGTTCACTTTCATTTGACGTGATGGTTCTGCCTTA
1 GTCAAACTT-CTTTCACTTTCATTTGACGTGATGGTTCTGCCCTA
* * * *
872550 GTCAAAC-TCATTTCACTCTT-GTTTGACTTGATGGTTCTACCCTG
1 GTCAAACTTC-TTTCACT-TTCATTTGACGTGATGGTTCTGCCCTA
* * * * *
872594 GTCAAACTTCTTTCAGTATCATTTGACATGATGGTTATGCCCCA
1 GTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCCTA
* * * * *
872638 ATCAAAC-TCTATTCATTTTCGTTTGATGTAATGGTT
1 GTCAAACTTCT-TTCACTTTCATTTGACGTGATGGTT
872674 TAACCCTGGT
Statistics
Matches: 276, Mismatches: 54, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
43 12 0.04
44 251 0.91
45 13 0.05
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (44 bp):
GTCAAACTTCTTTCACTTTCATTTGACGTGATGGTTCTGCCCTA
Found at i:872463 original size:132 final size:132
Alignment explanation
Indices: 872314--872700 Score: 447
Period size: 132 Copynumber: 2.9 Consensus size: 132
872304 CTATTTGATG
* * *
872314 TGATGGTTCTGCCCTAGTCAAACTTCTTTCACTTTCATTTGACGTAATGGTTTTGCCCTAGTCAA
1 TGATGGTTCTGCCCTAGTCAAACTTCTTTCACTTTCATTTGACATGATGGTTATGCCCTAGTCAA
* * *
872379 ATTCCATTCACTTTTGTTTCACGTGATGGTTTAGCCCTGGTTGAACTCCTTTCATCCTTGTTTAA
66 ATTCCATTCACTTTTGTTTGACGTGATGGTTTAGCCCTGGTCGAACTCATTTCATCCTTGTTTAA
872444 CA
131 CA
* * * * *
872446 TGATGGTTTTGCCCTAGTCAAACTCCTTTCACTTTCATGTAACATGATGGTTATGCCCTGGTCAA
1 TGATGGTTCTGCCCTAGTCAAACTTCTTTCACTTTCATTTGACATGATGGTTATGCCCTAGTCAA
* ** * * *
872511 ATTCCGTTCACTTTCATTTGACGTGATGGTTCT-GCCTTAGTCAAACTCATTTCA-CTCTTGTTT
66 ATTCCATTCACTTTTGTTTGACGTGATGGTT-TAGCCCTGGTCGAACTCATTTCATC-CTTGTTT
* *
872574 GACT
129 AACA
* * * * * *
872578 TGATGGTTCTACCCTGGTCAAACTTCTTTCAGTATCATTTGACATGATGGTTATGCCCCAATCAA
1 TGATGGTTCTGCCCTAGTCAAACTTCTTTCACTTTCATTTGACATGATGGTTATGCCCTAGTCAA
* * * * * *
872643 ACTCTATTCA-TTTTCGTTTGATGTAATGGTTTAACCCTGGTCGAACTCTTTTCATCCT
66 ATTCCATTCACTTTT-GTTTGACGTGATGGTTTAGCCCTGGTCGAACTCATTTCATCCT
872701 CATTCAATGT
Statistics
Matches: 208, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
131 5 0.02
132 201 0.97
133 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (132 bp):
TGATGGTTCTGCCCTAGTCAAACTTCTTTCACTTTCATTTGACATGATGGTTATGCCCTAGTCAA
ATTCCATTCACTTTTGTTTGACGTGATGGTTTAGCCCTGGTCGAACTCATTTCATCCTTGTTTAA
CA
Found at i:873283 original size:31 final size:31
Alignment explanation
Indices: 873225--873283 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
873215 TCCTAGTAGT
* *
873225 TTTAGTTATTTGAGACTAAGAAAATAGTTGC
1 TTTAGTAATTTGAGACTAAAAAAATAGTTGC
873256 TTTAGTAATTTGAGAC-AAAAAATATAGT
1 TTTAGTAATTTGAGACTAAAAAA-ATAGT
873284 CGCTACCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTAGTAATTTGAGACTAAAAAAATAGTTGC
Found at i:874230 original size:15 final size:14
Alignment explanation
Indices: 874201--874243 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
874191 TAAATTTTCA
*
874201 ATTAATTTTTTATT
1 ATTAATTTTTAATT
874215 ATTAATATTTTAATT
1 ATTAAT-TTTTAATT
*
874230 ATT-CTTTTTAATT
1 ATTAATTTTTAATT
874243 A
1 A
874244 AATAAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 9 0.35
14 7 0.27
15 10 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTAATTTTTAATT
Found at i:877664 original size:16 final size:16
Alignment explanation
Indices: 877610--877678 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 16
877600 ACATCCATGA
* *
877610 GCATTCACGCTCACCT
1 GCATTCACACTCACGT
*
877626 GCATTTGCAC-CT-ATGT
1 GCA-TT-CACACTCACGT
* *
877642 GCTTTCACATTCACGT
1 GCATTCACACTCACGT
*
877658 GCATTCACACTCACGA
1 GCATTCACACTCACGT
877674 GCATT
1 GCATT
877679 TTCACCCACA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
14 3 0.07
15 3 0.07
16 28 0.68
17 4 0.10
18 3 0.07
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (16 bp):
GCATTCACACTCACGT
Found at i:877678 original size:48 final size:48
Alignment explanation
Indices: 877590--877684 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
877580 ATTCATGTTC
* * * *
877590 ATGTGCTTTTACATCCATGAGCATTCACGCTCACCTGCATTTGCACCT
1 ATGTGCTTTCACATCCACGAGCATTCACACTCACCAGCATTTGCACCT
* * * *
877638 ATGTGCTTTCACATTCACGTGCATTCACACTCACGAGCATTTTCACC
1 ATGTGCTTTCACATCCACGAGCATTCACACTCACCAGCATTTGCACC
877685 CACATAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.33
Consensus pattern (48 bp):
ATGTGCTTTCACATCCACGAGCATTCACACTCACCAGCATTTGCACCT
Found at i:878540 original size:36 final size:35
Alignment explanation
Indices: 878500--878578 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
878490 AATTTTATCA
878500 AAAACTTCCAAAACCTCTCTTAAGGATATTTCACCC
1 AAAACTT-CAAAACCTCTCTTAAGGATATTTCACCC
* * **
878536 AAAACGTTTAAAGCCTCTCTTAAGGATATTTCACTT
1 AAAAC-TTCAAAACCTCTCTTAAGGATATTTCACCC
878572 AAAACTT
1 AAAACTT
878579 TTAAATCCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 2 0.05
36 34 0.89
37 2 0.05
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (35 bp):
AAAACTTCAAAACCTCTCTTAAGGATATTTCACCC
Found at i:878582 original size:36 final size:36
Alignment explanation
Indices: 878513--878608 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 36
878503 ACTTCCAAAA
878513 CCTCTCTTAAGGATATTTCACCCAAAACGTTTAAAG
1 CCTCTCTTAAGGATATTTCACCCAAAACGTTTAAAG
** * *
878549 CCTCTCTTAAGGATATTTCACTTAAAACTTTTAAAT
1 CCTCTCTTAAGGATATTTCACCCAAAACGTTTAAAG
* *
878585 CCTCTTTTTGAGGATATTTTCACC
1 CCTC-TCTTAAGGATA-TTTCACC
878609 ATGCACTGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 36 0.71
37 9 0.18
38 6 0.12
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (36 bp):
CCTCTCTTAAGGATATTTCACCCAAAACGTTTAAAG
Found at i:878765 original size:61 final size:59
Alignment explanation
Indices: 878602--878783 Score: 163
Period size: 59 Copynumber: 3.1 Consensus size: 59
878592 TTGAGGATAT
* * * * *
878602 TTTCACCATGCACTGTAAAGCCTCTTTCAAAGATATCCCAAAAGC-CTCTCTCGAAGATG
1 TTTCACCATGCACTAT-AAGCCTCTTTCAAAGATATCTCGAAAGCTCTTTCTCAAAGATG
* * * * *
878661 TTTCACCATGCACTATAGAGCCTCTCTT-GAGGACATTTTGAAAGTCTCTTTCTCAAAGATG
1 TTTCACCATGCACTATA-AGCCTCT-TTCAAAGATATCTCGAAAG-CTCTTTCTCAAAGATG
** * * *
878722 TTTCTTCATGCACTTTCAAGCCTCTTTCAAAGATATCTCGAAAGCT-TTTCTTAAAGGTG
1 TTTCACCATGCACTAT-AAGCCTCTTTCAAAGATATCTCGAAAGCTCTTTCTCAAAGATG
878781 TTT
1 TTT
878784 TAATCAAGAT
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
58 1 0.01
59 45 0.46
60 7 0.07
61 43 0.44
62 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (59 bp):
TTTCACCATGCACTATAAGCCTCTTTCAAAGATATCTCGAAAGCTCTTTCTCAAAGATG
Found at i:882160 original size:13 final size:13
Alignment explanation
Indices: 882142--882166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
882132 ATATTGCTTA
882142 GTATCGATACATT
1 GTATCGATACATT
882155 GTATCGATACAT
1 GTATCGATACAT
882167 ATTCTTGGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:882183 original size:32 final size:33
Alignment explanation
Indices: 882121--882184 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
882111 CACACCCAGA
*
882121 TGTATCGATGCATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
*
882154 TGTATCGATACATATT-CTTGGTATCGATACA
1 TGTATCGATACATATTGCTTAGTATCGATACA
882185 CAGTGAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:884349 original size:21 final size:21
Alignment explanation
Indices: 884312--884352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
884302 CGATGTATTT
*
884312 GAAAAGAAAGTAGATGAATTA
1 GAAAAGAAAGTAAATGAATTA
884333 GAAAAGAGAA-TAAATGAATT
1 GAAAAGA-AAGTAAATGAATT
884353 GCAAGAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAGTAAATGAATTA
Found at i:894428 original size:21 final size:21
Alignment explanation
Indices: 894404--894449 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
894394 GCCTTGTTTT
*
894404 AATACATTGAT-GAAATGTATC
1 AATACACTGATAG-AATGTATC
894425 AATACACTGATAGAATGTATC
1 AATACACTGATAGAATGTATC
894446 AATA
1 AATA
894450 AACATCCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (21 bp):
AATACACTGATAGAATGTATC
Found at i:895958 original size:15 final size:15
Alignment explanation
Indices: 895919--895960 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
895909 AAATTTATGA
* *
895919 ATTATTATTTTATTT
1 ATTATAATTTTATAT
*
895934 A-TATATTTTTATAT
1 ATTATAATTTTATAT
895948 ATTATAATTTTAT
1 ATTATAATTTTAT
895961 TTAACATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTATAATTTTATAT
Found at i:895975 original size:29 final size:29
Alignment explanation
Indices: 895919--895981 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
895909 AAATTTATGA
* * *
895919 ATTATTATTTTATTTATATATTTTTATAT
1 ATTATAATTTTATTTACATATTTATATAT
895948 ATTATAATTTTATTTAACATA-TTATATAT
1 ATTATAATTTTATTT-ACATATTTATATAT
895977 -TTATA
1 ATTATA
895982 TAAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.17
29 21 0.70
30 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTATAATTTTATTTACATATTTATATAT
Found at i:896025 original size:38 final size:39
Alignment explanation
Indices: 895977--896052 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
895967 TATTATATAT
895977 TTATATAAATTTTAATA-AGTTAA-AAATTTATATTTTTA
1 TTATATAAATTTTAATATA-TTAATAAATTTATATTTTTA
* *
896015 TTATATAAATTTTGATATATTAATATATTTATATTTTT
1 TTATATAAATTTTAATATATTAATAAATTTATATTTTT
896053 TAATCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 20 0.59
39 14 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (39 bp):
TTATATAAATTTTAATATATTAATAAATTTATATTTTTA
Found at i:896984 original size:2 final size:2
Alignment explanation
Indices: 896977--897021 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
896967 TCCCGACGTG
896977 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
897019 TA T
1 TA T
897022 TTAAATTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:897259 original size:18 final size:18
Alignment explanation
Indices: 897217--897259 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
897207 TTTATATTAT
*
897217 TATTTATTAATAATAATA
1 TATTTATTAATAATAAAA
*
897235 TAATTATTAAT-ATAAAAA
1 TATTTATTAATAAT-AAAA
897253 TATTTAT
1 TATTTAT
897260 ATTTATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTATTAATAATAAAA
Found at i:898244 original size:174 final size:172
Alignment explanation
Indices: 897900--898264 Score: 421
Period size: 174 Copynumber: 2.1 Consensus size: 172
897890 CTATACTTAT
* * ** * *
897900 ATATATAGTTATACTAATTCTATTTTAAATTGGGGATTAGTAATACAATTGATGTTATCTATATT
1 ATATATAGTTACACTAATTCTACTTTAAATTAAGGATTAGTAATACAATTGATGTTATATATACT
* * * * *
897965 GTTACCCTAATTCTAATTGAAATTGATCATTACTTGTCCACATAGTCCAATTTAATTATACACTT
66 ATTACACTAATTCTAATTGAAATCGATCATCACTTGTCCACATAATCCAATTTAATTATACACTT
898030 ACACTAGTCCTAATTAAAATTGGTTCTTACTACTCCAATTGC
131 ACACTAGTCCTAATTAAAATTGGTTCTTACTACTCCAATTGC
* ** * *
898072 ATATATAATTACACTAATTCTACTTTAAATTAATTATTAGTAGTATAATTGATGAATTCATATAT
1 ATATATAGTTACACTAATTCTACTTTAAATTAAGGATTAGTAATACAATTGATG--TT-ATATAT
* * *
898137 ACTATTACACTAATTCTAATTGAAATCGGTTATCACTTGTCTA-AGTAATCCAATTTAA-TATAC
63 ACTATTACACTAATTCTAATTGAAATCGATCATCACTTGTCCACA-TAATCCAATTTAATTATAC
* *** * *
898200 ATTTGTGCTAGTCCTAA-TAGATATTGGTTGTTACTACTCCAATTGC
127 ACTTACACTAGTCCTAATTA-AAATTGGTTCTTACTACTCCAATTGC
* *
898246 ATTTATAGTTGCACTAATT
1 ATATATAGTTACACTAATT
898265 ATTTTTAATT
Statistics
Matches: 160, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
172 45 0.28
173 2 0.01
174 61 0.38
175 52 0.32
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.42
Consensus pattern (172 bp):
ATATATAGTTACACTAATTCTACTTTAAATTAAGGATTAGTAATACAATTGATGTTATATATACT
ATTACACTAATTCTAATTGAAATCGATCATCACTTGTCCACATAATCCAATTTAATTATACACTT
ACACTAGTCCTAATTAAAATTGGTTCTTACTACTCCAATTGC
Found at i:898297 original size:26 final size:26
Alignment explanation
Indices: 898261--898345 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
898251 TAGTTGCACT
898261 AATTATTTTTAATTAATTAATTTTAA
1 AATTATTTTTAATTAATTAATTTTAA
898287 AATTATTTTTAATTAATTAATTTTAA
1 AATTATTTTTAATTAATTAATTTTAA
*
898313 AATTATTTTTAATTAATTTAAAATTTAA
1 AATTATTTTTAATTAA-TT-AATTTTAA
898341 AATTA
1 AATTA
898346 ATATTTAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 42 0.75
27 2 0.04
28 12 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTATTTTTAATTAATTAATTTTAA
Found at i:898346 original size:22 final size:21
Alignment explanation
Indices: 898297--898354 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
898287 AATTATTTTT
*
898297 AATTAATTAATTTTAAAATTAT
1 AATTAATTAA-TTTAAAATTAA
**
898319 TTTTAATTAATTTAAAATTTAA
1 AATTAATTAATTTAAAA-TTAA
898341 AATTAA-T-ATTTAAA
1 AATTAATTAATTTAAA
898355 TTTTTATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 7 0.23
21 8 0.27
22 15 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTAATTAATTTAAAATTAA
Found at i:898353 original size:20 final size:20
Alignment explanation
Indices: 898328--898396 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
898318 TTTTTAATTA
*
898328 ATTTAAAATTTAAAATTAAT
1 ATTTAAATTTTAAAATTAAT
* *
898348 ATTTAAATTTTTATATTAAT
1 ATTTAAATTTTAAAATTAAT
*
898368 ATTTATATATTTTATAATTAA-
1 ATTTA-A-ATTTTAAAATTAAT
898389 ATTTAAAT
1 ATTTAAAT
898397 AAAATTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.05
20 23 0.56
21 6 0.15
22 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAAATTTTAAAATTAAT
Found at i:898744 original size:31 final size:31
Alignment explanation
Indices: 898637--898767 Score: 106
Period size: 32 Copynumber: 4.2 Consensus size: 31
898627 ATTAATATAT
* *
898637 TTATAATATATTAATATTTTTTATTATATTATAA
1 TTATAAAATA-TAATATTTTATATTATA-TA-AA
** *
898671 TTAT-AGTTAAAATATTTTATATTTATATAAA
1 TTATAAAATATAATATTTTATA-TTATATAAA
* * * *
898702 TGATGATATATAATAATTTATATTATATAAA
1 TTATAAAATATAATATTTTATATTATATAAA
*
898733 TTTTAAAATAT-AT-TTTTATATTATATCAAA
1 TTATAAAATATAATATTTTATATTATAT-AAA
898763 TTATA
1 TTATA
898768 TTTTATTTAT
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
29 12 0.15
30 9 0.11
31 21 0.27
32 25 0.32
33 8 0.10
34 4 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (31 bp):
TTATAAAATATAATATTTTATATTATATAAA
Found at i:899485 original size:17 final size:17
Alignment explanation
Indices: 899452--899484 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
899442 AATATTTAAC
*
899452 TTAAATTTATATTAAAA
1 TTAAAATTATATTAAAA
899469 TTAAAATTAT-TTAAAA
1 TTAAAATTATATTAAAA
899485 AATAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAAATTATATTAAAA
Found at i:904440 original size:24 final size:23
Alignment explanation
Indices: 904377--904434 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
904367 TTAAGGTATG
904377 ATTTATTT-TTATTTATAAAATTA
1 ATTTATTTATT-TTTATAAAATTA
*
904400 ATTTAATTTATTTTTATAAAATTT
1 ATTT-ATTTATTTTTATAAAATTA
904424 ATTT-TTTATTT
1 ATTTATTTATTT
904435 GATTATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.22
23 4 0.12
24 19 0.59
25 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTATTTATTTTTATAAAATTA
Found at i:904793 original size:23 final size:23
Alignment explanation
Indices: 904763--904806 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
904753 TTTAAAGTTA
*
904763 TTTTATTT-TAAGGTATAATTTAT
1 TTTTATTTATAAGAT-TAATTTAT
904786 TTTTATTTATAAGATTAATTT
1 TTTTATTTATAAGATTAATTT
904807 GATTAGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTTATTTATAAGATTAATTTAT
Found at i:904896 original size:71 final size:71
Alignment explanation
Indices: 904820--905032 Score: 236
Period size: 74 Copynumber: 2.9 Consensus size: 71
904810 TAGAGTTATT
* *
904820 ATTTATTTCTATTTGTGAAAGTTTAAATTTATTTTTTATTTGATTATATGGA-TTAAAATTTTTA
1 ATTTATTT-TATTTGTAAAAATTTAAATTTATTTTTTATTTGATTATATGGACTTAAAATTTTTA
904884 AGGTATA
65 AGGTATA
* * * * *
904891 ATTTATTTTGATTTGTAAAAATTTAACTGTATTTTTTATTAGATATGATAT-GAGTTTAAATTTT
1 ATTTATTTT-ATTTGTAAAAATTTAAATTTATTTTTTATTTGAT-T-ATATGGACTTAAAATTTT
904955 TATTA-GTATA
63 TA--AGGTATA
* *
904965 ATTTAATTTTATTTATAAAAATTTAATATTTATTTTTTAATTTGATTATA-GAACTTAAAATTTT
1 ATTT-ATTTTATTTGTAAAAATTTAA-ATTTATTTTTT-ATTTGATTATATGGACTTAAAATTTT
905029 TAAG
63 TAAG
905033 AATGGTTTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
70 1 0.01
71 37 0.31
72 4 0.03
73 15 0.13
74 39 0.33
75 16 0.14
76 6 0.05
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.54
Consensus pattern (71 bp):
ATTTATTTTATTTGTAAAAATTTAAATTTATTTTTTATTTGATTATATGGACTTAAAATTTTTAA
GGTATA
Found at i:905094 original size:23 final size:23
Alignment explanation
Indices: 905064--905119 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
905054 TATGAATTTT
905064 AAAGAAGAAATAAAGGAAAAAAG
1 AAAGAAGAAATAAAGGAAAAAAG
*
905087 AAAGAAGAAATAAAGGTAAAAAG
1 AAAGAAGAAATAAAGGAAAAAAG
905110 AAAGAAGAAA
1 AAAGAAGAAA
905120 AAAAAGGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.05
Consensus pattern (23 bp):
AAAGAAGAAATAAAGGAAAAAAG
Found at i:909224 original size:110 final size:110
Alignment explanation
Indices: 909022--909242 Score: 327
Period size: 110 Copynumber: 2.0 Consensus size: 110
909012 AATTCATGTC
* * *
909022 GATACACATTAGATATAATCTCCAATCTATAAACATTGTCGATATATTCTATGCAATCTATATGG
1 GATACACATTAGATATAATCTCCAATCTATAAACATTGTCGATATATACCATGCAATCTATATAG
* * * *
909087 ACATGAGCACAAGCAACAACAATATGTGAACATGGAAACTTTTGT
66 ACAAGAGCACAAGCAACAACAACATGTGAACATGAAAACCTTTGT
*
909132 GATACACATTGGATA-ATATCTCCAATCTATAAACATTGTCGATATATACCATGCAATCTATATA
1 GATACACATTAGATATA-ATCTCCAATCTATAAACATTGTCGATATATACCATGCAATCTATATA
* * *
909196 GACAAGAGCACAAGTAGCAATAACATGTGAACATGAAAACCTTTGT
65 GACAAGAGCACAAGCAACAACAACATGTGAACATGAAAACCTTTGT
909242 G
1 G
909243 CTTGAAACTT
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 1 0.01
110 98 0.99
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (110 bp):
GATACACATTAGATATAATCTCCAATCTATAAACATTGTCGATATATACCATGCAATCTATATAG
ACAAGAGCACAAGCAACAACAACATGTGAACATGAAAACCTTTGT
Found at i:915755 original size:157 final size:159
Alignment explanation
Indices: 915526--915834 Score: 426
Period size: 156 Copynumber: 2.0 Consensus size: 159
915516 ACTTTTCTGC
* * *
915526 TTTTCTATCAAAAGAAATCCGATTCTGAAAATATAATTTATGCATTAATTTAATCTTTATAGTTT
1 TTTTCTATCAAAAGAAATCCGATTCTGAAAATATAATTCATGCATTAATCTAATCTTTATAGTCT
* * * *
915591 GATATTTATAATCAATCAACTTTTCTTTTTTTCTACAAAAAAGAATCCAATTCTCAGATACAATT
66 GACATTTACAATCAATCAACTTTTC-TTTTTTCTACAAAAAAGAATCCAATTCTCAAACACAATT
* *
915656 TATGCATTAATCTAATCTTTGCACTCTTTT
130 CATGCATTAATCTAATCCTTGCACTCTTTT
* * * *
915686 TTTTCTAT-AAAAGAAGT-CGATTCT-CAAATATAATTCATGCATTAGTCTAATCTTTGTAGTCT
1 TTTTCTATCAAAAGAAATCCGATTCTGAAAATATAATTCATGCATTAATCTAATCTTTATAGTCT
* * * *
915748 GACATTTACAATCAATCAATTTTTCTTTTTTCTATAAAAAAGAATCCGATTCTCAAACATAATTC
66 GACATTTACAATCAATCAACTTTTCTTTTTTCTACAAAAAAGAATCCAATTCTCAAACACAATTC
*
915813 ATGCATTAGTCTAATCCTTGCA
131 ATGCATTAATCTAATCCTTGCA
915835 GTCTGAGATT
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
156 54 0.41
157 54 0.41
158 7 0.05
159 8 0.06
160 8 0.06
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (159 bp):
TTTTCTATCAAAAGAAATCCGATTCTGAAAATATAATTCATGCATTAATCTAATCTTTATAGTCT
GACATTTACAATCAATCAACTTTTCTTTTTTCTACAAAAAAGAATCCAATTCTCAAACACAATTC
ATGCATTAATCTAATCCTTGCACTCTTTT
Found at i:915838 original size:91 final size:89
Alignment explanation
Indices: 915682--916040 Score: 360
Period size: 91 Copynumber: 3.9 Consensus size: 89
915672 CTTTGCACTC
* * * * **
915682 TTTTTTTTCTATAAAAGAAGTCGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGTAGTC
1 TTTTTTTTATAAAAAAGAA-TCGATTCTCAAATATAATTCATACATTAGTCTAATCCTTACAGTC
915747 TGACATTTACAATCAATCAA-TTTT
65 TGACATTTACAATCAATCAACTTTT
* * *
915771 TCTTTTTTCTATAAAAAAGAATCCGATTCTCAAACATAATTCATGCATTAGTCTAATCCTTGCAG
1 T-TTTTTT-TATAAAAAAGAAT-CGATTCTCAAATATAATTCATACATTAGTCTAATCCTTACAG
* * *
915836 TCTGAGATTTACACTCAAACAACTTTT
63 TCTGACATTTACAATCAATCAACTTTT
* *
915863 TTTTGTTTAATAAAAAAGAATCCGAAATCTGATTCTCAAATATAATTCATACATTAATCTAATCC
1 TTTT-TTT--TATAAAA-AA---G-AATC-GATTCTCAAATATAATTCATACATTAGTCTAATCC
* *
915928 TTACAGTCTAATATTTACAATCAATCAACTTCTT
57 TTACAGTCTGACATTTACAATCAATCAACTT-TT
* * * * * * * *
915962 TTTTTTTTAATAAAAAAGAATCTATTCTCAGATATAATTAATATATTAGTCTAATCATTATAATT
1 TTTTTTTT-ATAAAAAAGAATCGATTCTCAAATATAATTCATACATTAGTCTAATCCTTACAGTC
916027 TGACATTTACAATC
65 TGACATTTACAATC
916041 CATGCATTGC
Statistics
Matches: 226, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
89 1 0.00
90 7 0.03
91 117 0.52
92 12 0.05
93 7 0.03
94 2 0.01
96 3 0.01
97 7 0.03
98 64 0.28
99 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (89 bp):
TTTTTTTTATAAAAAAGAATCGATTCTCAAATATAATTCATACATTAGTCTAATCCTTACAGTCT
GACATTTACAATCAATCAACTTTT
Found at i:916424 original size:39 final size:37
Alignment explanation
Indices: 916366--916514 Score: 149
Period size: 38 Copynumber: 3.9 Consensus size: 37
916356 GTTCAAAAAC
* * *
916366 AAAATTCATATATCAGTCATATC-TTTACAATTTGAACA
1 AAAATTTATATATTAGTCATATCTTTTA-AATTT-AATA
916404 AAAATTTTATATATTAGTCATATCTTTTAAATTCTAATA
1 AAAA-TTTATATATTAGTCATATCTTTTAAATT-TAATA
* * * *
916443 AATAATCTATA-ATTACTAATATCTTTTAAAATCTAATA
1 AA-AATTTATATATTAGTCATATCTTTT-AAATTTAATA
*
916481 AAAATTTATACATTAGTCATATCTTTTAGAATTT
1 AAAATTTATATATTAGTCATATCTTTTA-AATTT
916515 GATTAACGCT
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
37 8 0.09
38 43 0.46
39 35 0.38
40 7 0.08
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAATTTATATATTAGTCATATCTTTTAAATTTAATA
Found at i:916988 original size:29 final size:27
Alignment explanation
Indices: 916944--917003 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
916934 TTTTAAACTT
*
916944 AATTAAATATTATTTTTATTTTATTAAA
1 AATTAAATATTATTTTT-TTTAATTAAA
*
916972 AATTATAATAATT-TTTTTTTTAATTTAA
1 AATTA-AAT-ATTATTTTTTTTAATTAAA
917000 AATT
1 AATT
917004 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 17 0.61
29 8 0.29
30 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
AATTAAATATTATTTTTTTTAATTAAA
Found at i:917026 original size:46 final size:49
Alignment explanation
Indices: 916955--917057 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 49
916945 ATTAAATATT
* *
916955 ATTTTTATTTTATTAAAAATTATAAT-AAT-TTTT-TTT-TTAATTTAAA
1 ATTTTTATTTTATAAAAAATAATAATAAATATTTTATTTATTAATTT-AA
917001 ATTTTTATTTTA-AAAAACATAATAATAAATATTTTAATTTATTAATTTAA
1 ATTTTTATTTTATAAAAA-ATAATAATAAATATTTT-ATTTATTAATTTAA
917051 ATTTTTA
1 ATTTTTA
917058 AACTTAATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
45 4 0.08
46 19 0.39
47 3 0.06
48 4 0.08
50 12 0.24
51 7 0.14
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (49 bp):
ATTTTTATTTTATAAAAAATAATAATAAATATTTTATTTATTAATTTAA
Found at i:917036 original size:43 final size:41
Alignment explanation
Indices: 916989--917158 Score: 119
Period size: 43 Copynumber: 4.2 Consensus size: 41
916979 ATAATTTTTT
916989 TTTTAATTTAAAATTTTTATTTTAAAAAACATAATAATAAATA
1 TTTTAATTTAAAATTTTTATTTT-AAAAA-ATAATAATAAATA
* ** * **
917032 TTTTAATTTATTAATTTAAATTTTTAAACTTAAT--TAAATA
1 TTTTAATTTA-AAATTTTTATTTTAAAAAATAATAATAAATA
* *
917072 -CTT--TTT---A-TTTTA--TTAAAAAATAATAATAATATTT
1 TTTTAATTTAAAATTTTTATTTTAAAAAATAATAATAA-A-TA
*
917106 TTTTAATTTAAAATTTTTATTTTAAAAATAATAATAATTAATA
1 TTTTAATTTAAAATTTTTATTTT-AAAA-AATAATAATAAATA
917149 TTTTAATTTA
1 TTTTAATTTA
917159 TTAATGTAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 32
0.66 0.11 0.22
Matches are distributed among these distances:
30 9 0.09
32 6 0.06
33 2 0.02
34 1 0.01
35 2 0.02
37 6 0.06
39 2 0.02
40 7 0.07
41 5 0.05
42 4 0.04
43 26 0.27
44 15 0.16
45 10 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (41 bp):
TTTTAATTTAAAATTTTTATTTTAAAAAATAATAATAAATA
Found at i:917122 original size:117 final size:119
Alignment explanation
Indices: 916754--917226 Score: 641
Period size: 117 Copynumber: 3.9 Consensus size: 119
916744 CCTTTTTATT
* *
916754 TTTTTAATTTTAAAAAAATATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTTTAAACTT
1 TTTTT-ATTTT-AAAAAACATAATAATTAATATTTTAATTTATTAATGTAAA-TTTTTTAAACTT
* ***
916819 AATTAAATATTTATTTTTATTTTATTAAAAATTATAATAA-AAAACTCTTTTTTAATTTATTT
63 AATTAAATA--TATTTTTATTTTATTAAAAA--ATAATAATAATA-T-TTTTTTAATTTAAAA
* *
916881 TTTTTATTTTAAACAAACATAATAATTAATATTTTAGTTTTTTAATGTAAATTTTTTAAACTTAA
1 TTTTTATTTTAAA-AAACATAATAATTAATATTTTAATTTATTAATGTAAATTTTTTAAACTTAA
* *
916946 TTAAATATTATTTTTATTTTATT-AAAAATTATAATAATTTTTTTTTTAATTTAAAA
65 TTAAATA-TATTTTTATTTTATTAAAAAATAATAATAA-TATTTTTTTAATTTAAAA
* *
917002 TTTTTATTTTAAAAAACATAATAATAAATATTTTAATTTATTAATTTAAA-TTTTTAAACTTAAT
1 TTTTTATTTTAAAAAACATAATAATTAATATTTTAATTTATTAATGTAAATTTTTTAAACTTAAT
*
917066 TAAATA-CTTTTTATTTTATTAAAAAATAATAATAATATTTTTTTAATTTAAAA
66 TAAATATATTTTTATTTTATTAAAAAATAATAATAATATTTTTTTAATTTAAAA
917119 TTTTTATTTTAAAAATA-ATAATAATTAATATTTTAATTTATTAATGTAAATTTTTTAAAACTTA
1 TTTTTATTTTAAAAA-ACATAATAATTAATATTTTAATTTATTAATGTAAATTTTTT-AAACTTA
917183 ATTAAATATTATTTTTTATTTTATTAAAAAATAATAATTAATAT
64 ATTAAATA-TA-TTTTTATTTTATTAAAAAATAATAA-TAATAT
917227 ATTATTTATT
Statistics
Matches: 316, Mismatches: 19, Indels: 26
0.88 0.05 0.07
Matches are distributed among these distances:
117 76 0.24
118 19 0.06
119 35 0.11
120 33 0.10
121 31 0.10
122 28 0.09
123 10 0.03
124 16 0.05
125 24 0.08
126 39 0.12
127 5 0.02
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (119 bp):
TTTTTATTTTAAAAAACATAATAATTAATATTTTAATTTATTAATGTAAATTTTTTAAACTTAAT
TAAATATATTTTTATTTTATTAAAAAATAATAATAATATTTTTTTAATTTAAAA
Found at i:917139 original size:42 final size:42
Alignment explanation
Indices: 917079--917158 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
917069 ATACTTTTTA
* *
917079 TTTTATTAAAAAATAATAATAA-TATTTTTTTAATTTAAAAT
1 TTTTATTAAAAAATAATAATAATTAATATTTTAATTTAAAAT
*
917120 TTTTATTTTAAAAATAATAATAATTAATATTTTAATTTA
1 TTTTA-TTAAAAAATAATAATAATTAATATTTTAATTTA
917159 TTAATGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 5 0.15
42 16 0.47
43 13 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (42 bp):
TTTTATTAAAAAATAATAATAATTAATATTTTAATTTAAAAT
Found at i:917244 original size:9 final size:9
Alignment explanation
Indices: 917230--917267 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
917220 TTAATATATT
917230 ATTTATTAA
1 ATTTATTAA
917239 ATTTATTAA
1 ATTTATTAA
917248 ATTTAATT-A
1 ATTT-ATTAA
917257 ATTTATATAA
1 ATTTAT-TAA
917267 A
1 A
917268 AAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 2 0.08
9 19 0.73
10 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATTTATTAA
Found at i:917255 original size:34 final size:35
Alignment explanation
Indices: 917156--917258 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 35
917146 ATATTTTAAT
* * *
917156 TTATTAATGTAAATTTTTTAAAACTTAATTAA-ATA
1 TTATTTAT-TAAATTTATTAAAATTTAATTAATATA
* * *
917191 TTATTT-TTTATTTTATTAAAAAATAATAATTAATATA
1 TTATTTATTAAATTTATT--AAAAT-TTAATTAATATA
917228 TTATTTATTAAATTTATT-AAATTTAATTAAT
1 TTATTTATTAAATTTATTAAAATTTAATTAAT
917259 TTATATAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
33 7 0.13
34 9 0.17
35 13 0.24
36 7 0.13
37 9 0.17
38 9 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (35 bp):
TTATTTATTAAATTTATTAAAATTTAATTAATATA
Found at i:917259 original size:18 final size:18
Alignment explanation
Indices: 917217--917267 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
917207 TAAAAAATAA
*
917217 TAATTAATATATT--ATT
1 TAATTAATTTATTAAATT
917233 T-ATTAAATTTATTAAATT
1 TAATT-AATTTATTAAATT
917251 TAATTAATTTATATAAA
1 TAATTAATTTAT-TAAA
917268 AAATAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.10
16 8 0.28
18 11 0.38
19 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTTATTAAATT
Found at i:917853 original size:18 final size:19
Alignment explanation
Indices: 917830--917865 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
917820 TTGAAAAAAA
917830 TAATAT-TTTTAATTAAAG
1 TAATATATTTTAATTAAAG
*
917848 TAATATATTTTATTTAAA
1 TAATATATTTTAATTAAA
917866 TTTATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATATATTTTAATTAAAG
Found at i:921063 original size:2 final size:2
Alignment explanation
Indices: 921056--921102 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
921046 AAAGTAATAA
921056 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
921098 TC TC T
1 TC TC T
921103 TTTCTTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:922443 original size:150 final size:153
Alignment explanation
Indices: 922169--922466 Score: 460
Period size: 150 Copynumber: 2.0 Consensus size: 153
922159 ATTTTCTGCC
* * * **
922169 ATATATGATAACTGCTCTTAGCCAACTTTGTTCTTAACTTGAAAAGTGTTTCAGACAAATAAATT
1 ATATATGATAACTGCTCTTAGCCAACGTTGCTCTTAACATGAAAAGTACTTCAGACAAATAAATT
* * * * *
922234 CTACTTATTTGAACACTAGTAGCTTCCTAAAAGCCAATTTGCTATGTTGATATATTGCCAAAACT
66 CTACTTATGTGAACACTACTAACTTCCTAAAAGCCAATTGGCTATGTTGATATATTGCCAAAACG
*
922299 CTAGAAAAGGGCTGCTTATGTTG
131 CTAGAAAAGGGCCGCTTATGTTG
922322 ATATATGATAACTGCTCTTAG-CAA-GTT-CTCTTAACATGAAAAGTACTTCAGACAAATAAATT
1 ATATATGATAACTGCTCTTAGCCAACGTTGCTCTTAACATGAAAAGTACTTCAGACAAATAAATT
922384 CTACTTATGTGAACACTACTAACTTCCTAAACA-CCAATTGGCTATGTTGATATATTGCCAAAAC
66 CTACTTATGTGAACACTACTAACTTCCTAAA-AGCCAATTGGCTATGTTGATATATTGCCAAAAC
922448 GCTAGAAAAGGGCCGCTTA
130 GCTAGAAAAGGGCCGCTTA
922467 CGTTTTCCTG
Statistics
Matches: 133, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
150 106 0.80
151 3 0.02
152 3 0.02
153 21 0.16
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (153 bp):
ATATATGATAACTGCTCTTAGCCAACGTTGCTCTTAACATGAAAAGTACTTCAGACAAATAAATT
CTACTTATGTGAACACTACTAACTTCCTAAAAGCCAATTGGCTATGTTGATATATTGCCAAAACG
CTAGAAAAGGGCCGCTTATGTTG
Found at i:927730 original size:22 final size:24
Alignment explanation
Indices: 927703--927759 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
927693 ATAAATATAA
927703 AATATA-TTAA-AATTT-TAATTTT
1 AATATATTTAATAATTTAT-ATTTT
927725 AATATATTTAATAATTTATATTTT
1 AATATATTTAATAATTTATATTTT
*
927749 ATTTATATTTA
1 A-ATATATTTA
927760 TATGTCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.20
23 4 0.13
24 11 0.37
25 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
AATATATTTAATAATTTATATTTT
Found at i:928379 original size:10 final size:10
Alignment explanation
Indices: 928364--928415 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 10
928354 TAATATTTTA
928364 TTTATATATT
1 TTTATATATT
928374 TTTATATATT
1 TTTATATATT
928384 ATAATTATATAAATT
1 -T--TTATAT--ATT
*
928399 TTAATATATT
1 TTTATATATT
928409 TTTATAT
1 TTTATAT
928416 TACACCTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
10 19 0.54
11 1 0.03
12 5 0.14
13 6 0.17
14 1 0.03
15 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTATATATT
Found at i:928391 original size:23 final size:24
Alignment explanation
Indices: 928353--928408 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
928343 GATTAAAATA
*
928353 TTAATAT-TT-TATTTATAT-ATT
1 TTAATATATTATAATTATATAATT
*
928374 TTTATATATTATAATTATATAAATT
1 TTAATATATTATAATTATAT-AATT
928399 TTAATATATT
1 TTAATATATT
928409 TTTATATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 6 0.21
22 2 0.07
23 8 0.29
25 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTAATATATTATAATTATATAATT
Found at i:929360 original size:25 final size:23
Alignment explanation
Indices: 929311--929361 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
929301 CTTCATTATT
* *
929311 TTATTTATTTTAAAAATATATAA
1 TTATATATTTTAAAAATATAAAA
*
929334 TTATATATTTTATAAATAATTAAAA
1 TTATATATTTTAAAAAT-A-TAAAA
929359 TTA
1 TTA
929362 ATAAATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 1 0.04
25 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATATATTTTAAAAATATAAAA
Found at i:929534 original size:14 final size:14
Alignment explanation
Indices: 929515--929566 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
929505 AGATTAACAT
929515 AAAATAAAACTCCA
1 AAAATAAAACTCCA
**
929529 AAAATAAAA-TAATA
1 AAAATAAAACT-CCA
929543 TAAAATAAAACTCCA
1 -AAAATAAAACTCCA
929558 AAAATAAAA
1 AAAATAAAA
929567 TAATTTAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.61
15 10 0.32
16 1 0.03
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATAAAACTCCA
Found at i:929582 original size:34 final size:29
Alignment explanation
Indices: 929513--929570 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
929503 TAAGATTAAC
929513 ATAAAATAAAACTCCAAAAATAAAATAAT
1 ATAAAATAAAACTCCAAAAATAAAATAAT
929542 ATAAAATAAAACTCCAAAAATAAAATAAT
1 ATAAAATAAAACTCCAAAAATAAAATAAT
929571 TTAATGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (29 bp):
ATAAAATAAAACTCCAAAAATAAAATAAT
Found at i:933972 original size:20 final size:20
Alignment explanation
Indices: 933947--933985 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
933937 ACAAGGCTAT
933947 GTTGTATCGATACAATGCCC
1 GTTGTATCGATACAATGCCC
933967 GTTGTATCGATACAATGCC
1 GTTGTATCGATACAATGCC
933986 TATTGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (20 bp):
GTTGTATCGATACAATGCCC
Done.