Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 37 of 444
Found at i:9087841 original size:20 final size:21
Alignment explanation
Indices: 9087808--9087851 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
9087798 ATAAAATAAT
* *
9087808 AAACAAAAGTAAAATAAAAAG
1 AAACAAAAGCAAAAGAAAAAG
*
9087829 AAAC-AAAGCAAAAGAAACAG
1 AAACAAAAGCAAAAGAAAAAG
9087849 AAA
1 AAA
9087852 AGAAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.75, C:0.09, G:0.11, T:0.05
Consensus pattern (21 bp):
AAACAAAAGCAAAAGAAAAAG
Found at i:9088627 original size:22 final size:22
Alignment explanation
Indices: 9088582--9088629 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9088572 TGAATGATGA
* * **
9088582 ATATGTATTGAAATTGAATTGT
1 ATATGGATTGAAATGGAAAAGT
9088604 ATATGGATTGAAATGGAAAAGT
1 ATATGGATTGAAATGGAAAAGT
9088626 ATAT
1 ATAT
9088630 TGAATTGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATGGATTGAAATGGAAAAGT
Found at i:9089733 original size:21 final size:20
Alignment explanation
Indices: 9089709--9089760 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
9089699 TTATGCCACA
9089709 TCAGTATTCTTATCCTAAATT
1 TCAGTATT-TTATCCTAAATT
* *
9089730 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTAAATT
*
9089750 TTAGTATTTTA
1 TCAGTATTTTA
9089761 ATTTGGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTAAATT
Found at i:9090714 original size:16 final size:17
Alignment explanation
Indices: 9090680--9090718 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9090670 TAAGTAAATA
*
9090680 ATATT-ATATTATATTT
1 ATATTAATATTATATAT
9090696 ATATTAATATTATA-AT
1 ATATTAATATTATATAT
9090712 ATATTAA
1 ATATTAA
9090719 GTAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTAATATTATATAT
Found at i:9094488 original size:13 final size:13
Alignment explanation
Indices: 9094470--9094495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9094460 GTGTTCCCAA
9094470 AAAACCATTTGTT
1 AAAACCATTTGTT
9094483 AAAACCATTTGTT
1 AAAACCATTTGTT
9094496 TGCATAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:9102891 original size:35 final size:35
Alignment explanation
Indices: 9102845--9102916 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
9102835 CTTTCTCTTA
*
9102845 TTATTTTGATTTCTCTTTATAGTATCCAATAGATT
1 TTATTTTGATTTCTCTTTAAAGTATCCAATAGATT
9102880 TTATTTTGATTTCTCTTTAAAGTATCCAATAGATT
1 TTATTTTGATTTCTCTTTAAAGTATCCAATAGATT
9102915 TT
1 TT
9102917 CTCCTTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.54
Consensus pattern (35 bp):
TTATTTTGATTTCTCTTTAAAGTATCCAATAGATT
Found at i:9105298 original size:11 final size:11
Alignment explanation
Indices: 9105282--9105306 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9105272 AGTATACGGC
9105282 ATGCAATAATT
1 ATGCAATAATT
9105293 ATGCAATAATT
1 ATGCAATAATT
9105304 ATG
1 ATG
9105307 GAGCTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (11 bp):
ATGCAATAATT
Found at i:9105532 original size:43 final size:43
Alignment explanation
Indices: 9105468--9105552 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
9105458 AGGTGAGCTC
*
9105468 TATAATTGTTATACACTCTATACTAACGCTTCTCCAATAAATT
1 TATAATTATTATACACTCTATACTAACGCTTCTCCAATAAATT
* *
9105511 TATAATTATTATACA-TCCTATATTAACGTTTCTCCAATAAAT
1 TATAATTATTATACACT-CTATACTAACGCTTCTCCAATAAAT
9105553 CTTGTAGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (43 bp):
TATAATTATTATACACTCTATACTAACGCTTCTCCAATAAATT
Found at i:9107357 original size:24 final size:24
Alignment explanation
Indices: 9107325--9107372 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9107315 TTATGGATTG
9107325 CCAAAACCTTCAGTCCACTGCAGT
1 CCAAAACCTTCAGTCCACTGCAGT
9107349 CCAAAACCTTCAGTCCACTGCAGT
1 CCAAAACCTTCAGTCCACTGCAGT
9107373 TGGTTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (24 bp):
CCAAAACCTTCAGTCCACTGCAGT
Found at i:9108747 original size:22 final size:22
Alignment explanation
Indices: 9108696--9108756 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
9108686 ATAAGTAAAT
* *
9108696 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
9108717 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
9108739 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
9108757 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:9108856 original size:3 final size:3
Alignment explanation
Indices: 9108848--9108973 Score: 80
Period size: 3 Copynumber: 41.7 Consensus size: 3
9108838 AAAGTAGTGC
* * *
9108848 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-C TAT TAA GTTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * *
9108896 TAA TGAA -AA TAA TGA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * *
9108941 -AA TAA TAA GTAA CAA TGA TAAA TTA TAA TAA TA
1 TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TA
9108974 GTGATGAGAA
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
2 7 0.07
3 78 0.81
4 11 0.11
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9108994 original size:16 final size:16
Alignment explanation
Indices: 9108973--9109004 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9108963 TTATAATAAT
9108973 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
9108989 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
9109005 GTAACAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:9109019 original size:12 final size:12
Alignment explanation
Indices: 9108996--9109044 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
9108986 ACAAGTGATG
*
9108996 ATAATAACAGTA
1 ATAATAATAGTA
*
9109008 ACAATAATAGTA
1 ATAATAATAGTA
9109020 ATAATATATTAGTA
1 ATAATA-A-TAGTA
9109034 ATACATAATAG
1 ATA-ATAATAG
9109045 AGTAGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 15 0.48
13 4 0.13
14 9 0.29
15 3 0.10
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:9109137 original size:16 final size:15
Alignment explanation
Indices: 9109108--9109150 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
9109098 TATACGTATG
*
9109108 AAAAATAATTATAGT
1 AAAAATAATAATAGT
9109123 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
9109139 AATAATAATAAT
1 AAAAATAATAAT
9109151 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:9109257 original size:3 final size:3
Alignment explanation
Indices: 9109251--9109283 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9109241 CCATATTATT
9109251 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9109284 TAGAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9109393 original size:3 final size:3
Alignment explanation
Indices: 9109379--9109408 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
9109369 AAATATACAC
9109379 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
9109409 TTAAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:9109898 original size:30 final size:29
Alignment explanation
Indices: 9109862--9109940 Score: 124
Period size: 28 Copynumber: 2.7 Consensus size: 29
9109852 GATTTTTTGT
9109862 TCTTGAATCTCAAAAAAAAGAAAAATCCCC
1 TCTTGAATCTCAAAAAAAA-AAAAATCCCC
* *
9109892 TCTTGAATCTC-AAAAAAAAAAAATCTCT
1 TCTTGAATCTCAAAAAAAAAAAAATCCCC
9109920 TCTTGAATCTCAAAAAAAAAA
1 TCTTGAATCTCAAAAAAAAAA
9109941 TCTCTTTTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 19 0.41
29 16 0.35
30 11 0.24
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (29 bp):
TCTTGAATCTCAAAAAAAAAAAAATCCCC
Found at i:9119574 original size:51 final size:51
Alignment explanation
Indices: 9119502--9119605 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
9119492 GACAAGCAAC
* *
9119502 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTTACAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
*
9119553 AAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
9119604 AA
1 AA
9119606 ATATGATCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.34
Consensus pattern (51 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
Found at i:9124649 original size:126 final size:126
Alignment explanation
Indices: 9124467--9124730 Score: 474
Period size: 126 Copynumber: 2.1 Consensus size: 126
9124457 GAGAATGAGC
*
9124467 TTGCCTTTATTTGAAATTCATATATTTTGACCTTTTTAAAAGGGTATTCAATTATTTAGAGTAAA
1 TTGCCTTTATTTGAAATTCATATATTTTGACCTTTTTAAAAGGGTATTCAACTATTTAGAGTAAA
*
9124532 CGAGAGAAATCGAAACCCAGTAAGTTAGGGTACGTTTTCTCGAATTCTCAAATACCGAATG
66 CGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCAAATACCGAATG
* * *
9124593 TTGCATTTATTTGAAATTCATGTATTTTGACCTTTTTAAAAGGGTATTCGACTATTTAGAGTAAA
1 TTGCCTTTATTTGAAATTCATATATTTTGACCTTTTTAAAAGGGTATTCAACTATTTAGAGTAAA
*
9124658 CGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCAAATGCCGAATG
66 CGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCAAATACCGAATG
9124719 TTGCCTTTATTT
1 TTGCCTTTATTT
9124731 TAAACCAAAT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 131 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (126 bp):
TTGCCTTTATTTGAAATTCATATATTTTGACCTTTTTAAAAGGGTATTCAACTATTTAGAGTAAA
CGAGAGAAATCGAAACCCAGTAAGTTAGGGCACGTTTTCTCGAATTCTCAAATACCGAATG
Found at i:9125280 original size:3 final size:3
Alignment explanation
Indices: 9125272--9125414 Score: 105
Period size: 3 Copynumber: 48.3 Consensus size: 3
9125262 ATAAAAGACG
*
9125272 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA CATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * * *
9125320 ATG ATA CTA ATA ACA ATA ATA ATA AGA A-A ATTA ATA TTA GTA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* ** * * * *
9125365 ATA ATA ATG GGA A-A ATA ATA ATA ACA ATG ATG AT- ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9125411 ATA A
1 ATA A
9125415 AAGTGATATT
Statistics
Matches: 112, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
2 8 0.07
3 100 0.89
4 4 0.04
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9125444 original size:17 final size:18
Alignment explanation
Indices: 9125403--9125447 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
9125393 GATGATATAG
9125403 TAATAATAATAAAAGTGA
1 TAATAATAATAAAAGTGA
* * *
9125421 TATTAATAGT-AAATTGA
1 TAATAATAATAAAAGTGA
9125438 TAATAATAAT
1 TAATAATAAT
9125448 GTATGTTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
TAATAATAATAAAAGTGA
Found at i:9125540 original size:21 final size:21
Alignment explanation
Indices: 9125516--9125555 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9125506 GACAATAATA
9125516 TGATAATAA-GAATAATAGTGG
1 TGATAATAATG-ATAATAGTGG
9125537 TGATAATAATGATAATAGT
1 TGATAATAATGATAATAGT
9125556 AAGAATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
TGATAATAATGATAATAGTGG
Found at i:9125900 original size:23 final size:21
Alignment explanation
Indices: 9125872--9125957 Score: 66
Period size: 23 Copynumber: 3.9 Consensus size: 21
9125862 CTATTGATAA
9125872 ATATTATATAAATATATACATAT
1 ATATTA-A-AAATATATACATAT
* *
9125895 ATATTAAAAATAAATATATGAT
1 ATATTAAAAATATATACAT-AT
* *
9125917 AATATTAAAAGTATATACGTA-
1 -ATATTAAAAATATATACATAT
*
9125938 ATATATACACAATATATACA
1 ATAT-TA-AAAATATATACA
9125958 AAATGTACAT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.08
21 12 0.24
22 13 0.26
23 21 0.42
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (21 bp):
ATATTAAAAATATATACATAT
Found at i:9125909 original size:25 final size:23
Alignment explanation
Indices: 9125879--9125926 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
9125869 TAAATATTAT
9125879 ATAAATATATACATATATATTAAAA
1 ATAAATATAT-CATA-ATATTAAAA
*
9125904 ATAAATATATGATAATATTAAAA
1 ATAAATATATCATAATATTAAAA
9125927 GTATATACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 3 0.14
25 10 0.45
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
ATAAATATATCATAATATTAAAA
Found at i:9126762 original size:21 final size:20
Alignment explanation
Indices: 9126734--9126776 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
9126724 AAATATATAT
9126734 TTAATCTATTTTGGGTTTTA
1 TTAATCTATTTTGGGTTTTA
9126754 TTAACTCTATTTTGGGTTTTA
1 TTAA-TCTATTTTGGGTTTTA
9126775 TT
1 TT
9126777 TTTAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (20 bp):
TTAATCTATTTTGGGTTTTA
Found at i:9127676 original size:19 final size:17
Alignment explanation
Indices: 9127652--9127688 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9127642 TATCATGGTC
* *
9127652 TTTTTTCTATTTCTCTT
1 TTTTTTTTATTTATCTT
9127669 TTTTTTTTATTTATCTT
1 TTTTTTTTATTTATCTT
9127686 TTT
1 TTT
9127689 ACGTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTTATTTATCTT
Found at i:9127862 original size:62 final size:60
Alignment explanation
Indices: 9127795--9127918 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 60
9127785 CTAGATAACA
* * * *
9127795 TAAATAATACACAAGTTGATAGTTTAAATATCACA-TTGAACATTTTACGAAAGTACATGTAC
1 TAAATAATACACAAATTGATAGTTCAAATACCACATTTG-ACATTTT-C-AAAGTACAAGTAC
* * *
9127857 TAAATAATATACAAATTGATAGTTCATATACCACATTTGACATTTTCAAAGTATAAGTAC
1 TAAATAATACACAAATTGATAGTTCAAATACCACATTTGACATTTTCAAAGTACAAGTAC
9127917 TA
1 TA
9127919 CATTGAACTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 13 0.24
61 1 0.02
62 37 0.69
63 3 0.06
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (60 bp):
TAAATAATACACAAATTGATAGTTCAAATACCACATTTGACATTTTCAAAGTACAAGTAC
Found at i:9131895 original size:18 final size:19
Alignment explanation
Indices: 9131855--9131899 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9131845 ATTATTTTCA
* *
9131855 ATTTTTTTATATGAAAATC
1 ATTTTTTTAAAGGAAAATC
*
9131874 ATTTTTTTAAAGGAAAGT-
1 ATTTTTTTAAAGGAAAATC
9131892 ATTTTTTT
1 ATTTTTTT
9131900 TATTTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (19 bp):
ATTTTTTTAAAGGAAAATC
Found at i:9132647 original size:24 final size:22
Alignment explanation
Indices: 9132620--9132665 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9132610 TATTATACTT
9132620 TTAAATGCTTAATTAAGTTGTGAA
1 TTAAAT-CTTAATT-AGTTGTGAA
* *
9132644 TTAAATTTTAATTCGTTGTGAA
1 TTAAATCTTAATTAGTTGTGAA
9132666 ATTATCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (22 bp):
TTAAATCTTAATTAGTTGTGAA
Found at i:9133298 original size:30 final size:30
Alignment explanation
Indices: 9133262--9133318 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
9133252 AGAGAGATTG
*
9133262 ATTCCTTTGCTTTAATTATTACCAAAATTC
1 ATTCCTTTGCTTTAATCATTACCAAAATTC
*
9133292 ATTCCTTTGCTTTTATCATTACCAAAA
1 ATTCCTTTGCTTTAATCATTACCAAAA
9133319 GGTTATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.46
Consensus pattern (30 bp):
ATTCCTTTGCTTTAATCATTACCAAAATTC
Found at i:9133538 original size:11 final size:11
Alignment explanation
Indices: 9133522--9133560 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9133512 TTGAAAAAGA
9133522 AAACCAATCTT
1 AAACCAATCTT
*
9133533 AAACCAA--TA
1 AAACCAATCTT
9133542 AAACCAATCTT
1 AAACCAATCTT
9133553 AAACCAAT
1 AAACCAAT
9133561 GGGATATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.21
Consensus pattern (11 bp):
AAACCAATCTT
Found at i:9133546 original size:20 final size:20
Alignment explanation
Indices: 9133521--9133560 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9133511 ATTGAAAAAG
9133521 AAAACCAATCTTAAACCAAT
1 AAAACCAATCTTAAACCAAT
9133541 AAAACCAATCTTAAACCAAT
1 AAAACCAATCTTAAACCAAT
9133561 GGGATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAACCAATCTTAAACCAAT
Found at i:9135428 original size:18 final size:18
Alignment explanation
Indices: 9135405--9135447 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9135395 GAATAGGTTT
9135405 TTAATTAAATAATTTT-AA
1 TTAATTAAAT-ATTTTAAA
*
9135423 TTAATTAAATTTTTTAAA
1 TTAATTAAATATTTTAAA
9135441 TTAATTA
1 TTAATTA
9135448 CACCTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTAAATATTTTAAA
Found at i:9136760 original size:27 final size:28
Alignment explanation
Indices: 9136730--9136785 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
9136720 TCTAAAGTTA
9136730 AATCAA-TTTTTTATTTAAAAGCAATAT
1 AATCAATTTTTTTATTTAAAAGCAATAT
9136757 AATCAATTTTTTTTATTTAAAAGCAATAT
1 AATCAA-TTTTTTTATTTAAAAGCAATAT
9136786 TATTGTACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 6 0.22
29 21 0.78
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (28 bp):
AATCAATTTTTTTATTTAAAAGCAATAT
Found at i:9143645 original size:2 final size:2
Alignment explanation
Indices: 9143638--9143672 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9143628 GTGATGAATC
9143638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9143673 CTTTAGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9148307 original size:31 final size:31
Alignment explanation
Indices: 9148271--9148330 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
9148261 GCCAATCGAA
9148271 AACAAAAAACA-GTTTTTGTCTAAAACCCGAC
1 AACAAAAAA-ATGTTTTTGTCTAAAACCCGAC
9148302 AACAAAAAAATTGTTTTTGTCTAAAACCC
1 AACAAAAAAA-TGTTTTTGTCTAAAACCC
9148331 AACTTCTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 1 0.04
31 9 0.33
32 17 0.63
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (31 bp):
AACAAAAAAATGTTTTTGTCTAAAACCCGAC
Found at i:9154604 original size:61 final size:59
Alignment explanation
Indices: 9154435--9154604 Score: 182
Period size: 61 Copynumber: 2.9 Consensus size: 59
9154425 TTAATATAAT
* * ** *
9154435 ATTTGGTACCTAAACTTGGCT-TTTTTTCTAATTTGGTACCT-ATTCTTTTTTTGGTCCA
1 ATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTACCTAATT-TTTTTGAGGTCAA
* * * * * * **
9154493 ATTTGGTGCCCAAACTTGACACTTTTTCTTAAGTTGGTACTTAAACTTTTTGGGAGGTCAA
1 ATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTACCT-AA-TTTTTTTGAGGTCAA
9154554 ATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTACCTAATTTTTTT
1 ATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTACCTAATTTTTTT
9154605 TTGTTTAATT
Statistics
Matches: 87, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
58 17 0.20
59 21 0.24
60 2 0.02
61 45 0.52
62 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (59 bp):
ATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTACCTAATTTTTTTGAGGTCAA
Found at i:9155625 original size:2 final size:2
Alignment explanation
Indices: 9155618--9155658 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
9155608 ATTTTCTATT
*
9155618 TA TA TA TA TA TA AA 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 TA TA TA TA TA TA TA T
9155659 TACCGTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9159692 original size:25 final size:25
Alignment explanation
Indices: 9159663--9159710 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9159653 TTATAATATG
* * *
9159663 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
9159688 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
9159711 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:9159779 original size:20 final size:20
Alignment explanation
Indices: 9159754--9159812 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
9159744 TAAATATGGT
9159754 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
9159774 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
9159794 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
9159813 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:9159918 original size:24 final size:24
Alignment explanation
Indices: 9159862--9159956 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
9159852 GGAGGAAGTG
*
9159862 AAAAAGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
9159885 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9159909 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
9159933 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
9159957 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
23 22 0.35
24 30 0.48
25 11 0.17
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:9160220 original size:68 final size:69
Alignment explanation
Indices: 9160148--9160286 Score: 262
Period size: 68 Copynumber: 2.0 Consensus size: 69
9160138 CGTTTACAGT
9160148 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGG-CCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
9160212 ATGA
66 ATGA
*
9160216 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
9160281 ATGA
66 ATGA
9160285 AA
1 AA
9160287 TACGAAAAGG
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 49 0.71
69 20 0.29
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:9160239 original size:31 final size:31
Alignment explanation
Indices: 9160174--9160286 Score: 138
Period size: 38 Copynumber: 3.5 Consensus size: 31
9160164 TATTATGAAA
* *
9160174 TATGAAACATGAAAAGGCTTCGG-CCAGTAA
1 TATGAAATATGAAAAGGCTTCGGCCCAGTAT
9160204 TATGAAATATGAAAAGGCTTCGGCCCAGTAT
1 TATGAAATATGAAAAGGCTTCGGCCCAGTAT
9160235 TATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAT
1 TATG-AA-AT-----ATGAAAAGGCTTCGGCCCAGTAT
9160273 TATGAAATATGAAA
1 TATGAAATATGAAA
9160287 TACGAAAAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
30 22 0.30
31 16 0.22
32 2 0.03
33 2 0.03
36 2 0.03
37 2 0.03
38 27 0.37
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (31 bp):
TATGAAATATGAAAAGGCTTCGGCCCAGTAT
Found at i:9160254 original size:38 final size:38
Alignment explanation
Indices: 9160202--9160309 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
9160192 TTCGGCCAGT
9160202 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
9160240 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
* *
9160278 AATATGAAATACGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
9160310 GCATGATTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 52 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:9168046 original size:25 final size:25
Alignment explanation
Indices: 9168017--9168066 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
9168007 CCTTATAATA
* * *
9168017 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
9168042 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
9168067 GTTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:9168247 original size:25 final size:24
Alignment explanation
Indices: 9168178--9168249 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
9168168 GGGGAAGTGA
*
9168178 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* * *
9168202 GAAAGGGCTTTGGCCCTAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
9168226 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
9168250 ATGATAAAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 29 0.74
25 10 0.26
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:9168492 original size:38 final size:38
Alignment explanation
Indices: 9168441--9168603 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
9168431 CGTTTACAGT
9168441 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
9168479 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
9168510 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
9168548 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
9168586 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
9168604 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:9168503 original size:31 final size:31
Alignment explanation
Indices: 9168465--9168580 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
9168455 AGTATTATGA
9168465 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
9168496 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
9168532 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
9168565 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
9168581 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:9168517 original size:69 final size:69
Alignment explanation
Indices: 9168441--9168580 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
9168431 CGTTTACAGT
9168441 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
9168506 ATGA
66 ATGA
*
9168510 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
9168575 ATGA
66 ATGA
9168579 AA
1 AA
9168581 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:9170907 original size:12 final size:11
Alignment explanation
Indices: 9170879--9170914 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
9170869 AATTGAATTG
9170879 ATTAATTAAAA
1 ATTAATTAAAA
9170890 ATTAATTAAAA
1 ATTAATTAAAA
9170901 TATTAATTTAAAA
1 -ATTAA-TTAAAA
9170914 A
1 A
9170915 ATTTAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 6 0.26
13 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTAATTAAAA
Found at i:9170907 original size:23 final size:24
Alignment explanation
Indices: 9170879--9170939 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
9170869 AATTGAATTG
9170879 ATTAATTAAAAATTAATTAAAAT-
1 ATTAATTAAAAATTAATTAAAATA
* *
9170902 ATTAATTTAAAA--AATTTAAATCA
1 ATTAATTAAAAATTAATTAAAAT-A
9170925 ATTAAATTAAAAATT
1 ATT-AATTAAAAATT
9170940 GATACCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 8 0.27
23 14 0.47
24 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTAATTAAAAATTAATTAAAATA
Found at i:9170936 original size:22 final size:22
Alignment explanation
Indices: 9170902--9170956 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
9170892 TAATTAAAAT
* * *
9170902 ATTAATTTAAAAAATTTAAATCA
1 ATTAAATT-AAAAATTGAAACCA
*
9170925 ATTAAATTAAAAATTGATACCA
1 ATTAAATTAAAAATTGAAACCA
9170947 ATT-AATTAAA
1 ATTAAATTAAA
9170957 CCTGTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 7 0.25
22 14 0.50
23 7 0.25
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
ATTAAATTAAAAATTGAAACCA
Found at i:9183341 original size:62 final size:63
Alignment explanation
Indices: 9183198--9183388 Score: 303
Period size: 62 Copynumber: 3.0 Consensus size: 63
9183188 TAATTCATGC
* * * *
9183198 TAAGTTGTTGATATTCCATCCACTTATTTCGATAGCACTCTACTAGCAGAATTATAACTGATA
1 TAAGTTGTTGATATCCCATTCACTTATTTCGATAGCACTCTACCAGCAGAACTATAACTGATA
* * *
9183261 TAAGTTGTTGATAGCCCATTCACTTATTTAGATAGCACTCTACCAGCGGAACTAT-ACTGATA
1 TAAGTTGTTGATATCCCATTCACTTATTTCGATAGCACTCTACCAGCAGAACTATAACTGATA
*
9183323 TAAGTTGTTGATATCCCATTCACTTCTTTCGATAGCACTCTACCAGCAGAACTATAACTGATA
1 TAAGTTGTTGATATCCCATTCACTTATTTCGATAGCACTCTACCAGCAGAACTATAACTGATA
9183386 TAA
1 TAA
9183389 ATATTGAAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
62 58 0.50
63 58 0.50
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (63 bp):
TAAGTTGTTGATATCCCATTCACTTATTTCGATAGCACTCTACCAGCAGAACTATAACTGATA
Found at i:9188282 original size:31 final size:30
Alignment explanation
Indices: 9188247--9188336 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 30
9188237 ATATACTATA
9188247 TAGTACTTAAGATTGGCTTTAATATTCAATT
1 TAGTACTTAAGATTGG-TTTAATATTCAATT
*
9188278 TAGTACTTCAA-ATT--TTT-TTATCTCAATT
1 TAGTACTT-AAGATTGGTTTAATAT-TCAATT
* * *
9188306 TAGTACCTAAGTTTGGATTCAATATTCAATT
1 TAGTACTTAAGATTGG-TTTAATATTCAATT
9188337 CGGTACTCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
27 5 0.11
28 18 0.38
31 19 0.40
32 5 0.11
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (30 bp):
TAGTACTTAAGATTGGTTTAATATTCAATT
Found at i:9188977 original size:28 final size:30
Alignment explanation
Indices: 9188945--9189007 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 30
9188935 TATTAAATAA
*
9188945 TTTTATAACTTAAA-TTCAATATTTATT-T
1 TTTTAGAACTTAAATTTCAATATTTATTCT
* *
9188973 TTTTAGCACTTAAATTTTAATATTTATTCT
1 TTTTAGAACTTAAATTTCAATATTTATTCT
9189003 TTTTA
1 TTTTA
9189008 ACACTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 12 0.40
29 12 0.40
30 6 0.20
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTTAGAACTTAAATTTCAATATTTATTCT
Found at i:9189028 original size:29 final size:29
Alignment explanation
Indices: 9188952--9189013 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
9188942 TAATTTTATA
* *
9188952 ACTTAAA-TTCAATATTTATTTTTTTAGC
1 ACTTAAATTTTAATATTTATTTTTTTAAC
9188980 ACTTAAATTTTAATATTTATTCTTTTTAAC
1 ACTTAAATTTTAATATTTATT-TTTTTAAC
9189010 ACTT
1 ACTT
9189014 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 7 0.23
29 12 0.40
30 11 0.37
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (29 bp):
ACTTAAATTTTAATATTTATTTTTTTAAC
Found at i:9189264 original size:17 final size:17
Alignment explanation
Indices: 9189242--9189274 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9189232 AGCTTGAAAT
9189242 ATTTAGAACATATTTAA
1 ATTTAGAACATATTTAA
*
9189259 ATTTAGAATATATTTA
1 ATTTAGAACATATTTA
9189275 GGGATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
ATTTAGAACATATTTAA
Found at i:9189896 original size:25 final size:25
Alignment explanation
Indices: 9189868--9189917 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9189858 GGATCAAATT
9189868 GAACAAAAAAATGTATGAGTACTAA
1 GAACAAAAAAATGTATGAGTACTAA
9189893 GAACAAAAAAATGTATGAGTACTAA
1 GAACAAAAAAATGTATGAGTACTAA
9189918 AGTGAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (25 bp):
GAACAAAAAAATGTATGAGTACTAA
Found at i:9193579 original size:15 final size:15
Alignment explanation
Indices: 9193559--9193604 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
9193549 AGAAAAATGA
9193559 TATTTTCCATCTTTC
1 TATTTTCCATCTTTC
* *
9193574 TATTTTTCTATCCTTC
1 TA-TTTTCCATCTTTC
*
9193590 AATTTTCCATCTTTC
1 TATTTTCCATCTTTC
9193605 CAATTTTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTTCCATCTTTC
Found at i:9193594 original size:16 final size:16
Alignment explanation
Indices: 9193561--9193612 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
9193551 AAAAATGATA
* *
9193561 TTTTCCATCTTTCTAT
1 TTTTCCATCCTTCAAT
*
9193577 TTTTCTATCCTTCAA-
1 TTTTCCATCCTTCAAT
*
9193592 TTTTCCATCTTTCCAAT
1 TTTTCCATCCTT-CAAT
9193609 TTTT
1 TTTT
9193613 TCAACTCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 10 0.34
16 15 0.52
17 4 0.14
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTCCATCCTTCAAT
Found at i:9197843 original size:38 final size:38
Alignment explanation
Indices: 9197792--9197866 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
9197782 TATTTATTTG
9197792 TATAAATTTTGTTGTAGAATTTGTAAGAATTAAAAAGT
1 TATAAATTTTGTTGTAGAATTTGTAAGAATTAAAAAGT
9197830 TATAAATTTTGTTGTAGAATTTGTAAGAATTAAAAAG
1 TATAAATTTTGTTGTAGAATTTGTAAGAATTAAAAAG
9197867 GGATAATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (38 bp):
TATAAATTTTGTTGTAGAATTTGTAAGAATTAAAAAGT
Found at i:9199812 original size:17 final size:18
Alignment explanation
Indices: 9199790--9199823 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9199780 ATAATTGTAA
9199790 TTTAAAT-TCTAATTATT
1 TTTAAATATCTAATTATT
*
9199807 TTTAAATATGTAATTAT
1 TTTAAATATCTAATTAT
9199824 CACAACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATATCTAATTATT
Found at i:9201462 original size:18 final size:18
Alignment explanation
Indices: 9201439--9201476 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9201429 AATATATATT
9201439 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
9201457 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
9201475 AA
1 AA
9201477 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:9201469 original size:13 final size:13
Alignment explanation
Indices: 9201453--9201477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9201443 CAAGTACCCA
9201453 ACCCAACCCAATT
1 ACCCAACCCAATT
9201466 ACCCAACCCAAT
1 ACCCAACCCAAT
9201478 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:9201574 original size:9 final size:9
Alignment explanation
Indices: 9201560--9201600 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
9201550 TTTATACAAA
9201560 TAATTCAGT
1 TAATTCAGT
*
9201569 TAATTCAGG
1 TAATTCAGT
*
9201578 TAATTCGGT
1 TAATTCAGT
*
9201587 TAATTCGGT
1 TAATTCAGT
9201596 TAATT
1 TAATT
9201601 ATATACTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (9 bp):
TAATTCAGT
Found at i:9201676 original size:29 final size:29
Alignment explanation
Indices: 9201639--9201711 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
9201629 AACATATAAT
9201639 TTTCGGTTCGGTTAATTTTTTTGAAAAAA
1 TTTCGGTTCGGTTAATTTTTTTGAAAAAA
*
9201668 TTTCAGTTCGGTTAATTTTTTTGAAAAAA
1 TTTCGGTTCGGTTAATTTTTTTGAAAAAA
*
9201697 TTTCGGTTCGATTAA
1 TTTCGGTTCGGTTAA
9201712 CGGTTAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.48
Consensus pattern (29 bp):
TTTCGGTTCGGTTAATTTTTTTGAAAAAA
Found at i:9201778 original size:12 final size:12
Alignment explanation
Indices: 9201761--9201785 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9201751 GTATTTCGGG
9201761 TCGGTTAACCGA
1 TCGGTTAACCGA
9201773 TCGGTTAACCGA
1 TCGGTTAACCGA
9201785 T
1 T
9201786 TGAACACCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TCGGTTAACCGA
Found at i:9211235 original size:18 final size:18
Alignment explanation
Indices: 9211212--9211249 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9211202 AATATATATT
9211212 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
9211230 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
9211248 AA
1 AA
9211250 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:9211242 original size:13 final size:13
Alignment explanation
Indices: 9211226--9211250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9211216 CAAGTACCCA
9211226 ACCCAACCCAATT
1 ACCCAACCCAATT
9211239 ACCCAACCCAAT
1 ACCCAACCCAAT
9211251 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:9211322 original size:7 final size:6
Alignment explanation
Indices: 9211275--9211321 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
9211265 ATAATTTAAT
* *
9211275 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
9211322 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:9211355 original size:9 final size:9
Alignment explanation
Indices: 9211341--9211417 Score: 93
Period size: 9 Copynumber: 8.6 Consensus size: 9
9211331 TTTATACAAA
9211341 TAATTCGGT
1 TAATTCGGT
9211350 TAATTCGGT
1 TAATTCGGT
* * *
9211359 TAGTTTGGG
1 TAATTCGGT
*
9211368 TAATTCGGG
1 TAATTCGGT
9211377 TAATTCGAG-
1 TAATTCG-GT
9211386 TAATTCGGT
1 TAATTCGGT
*
9211395 TAATTCGAT
1 TAATTCGGT
9211404 TAATTCGGT
1 TAATTCGGT
9211413 TAATT
1 TAATT
9211418 TTATACTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 1 0.02
9 57 0.97
10 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:9214926 original size:18 final size:18
Alignment explanation
Indices: 9214880--9214920 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9214870 AGAAAGAAAA
*
9214880 AGAAAAATGGTGCCAGAG
1 AGAAAAATAGTGCCAGAG
9214898 AGAAAAATAGTGCCAGAG
1 AGAAAAATAGTGCCAGAG
9214916 A-AAAA
1 AGAAAA
9214921 CTTAGTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.54, C:0.10, G:0.27, T:0.10
Consensus pattern (18 bp):
AGAAAAATAGTGCCAGAG
Found at i:9215003 original size:4 final size:4
Alignment explanation
Indices: 9214996--9215964 Score: 523
Period size: 4 Copynumber: 244.0 Consensus size: 4
9214986 ATATATATAT
* * * * *
9214996 AGAG AGAG AGAG AGAG GGAG AGGG AGAG GGAG AGAG GGAG AGGG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * *
9215044 AGGG AGAG GGAG AGGG AGAG GGAG AGAG AGAG AGAG -GGG GGAG AGGG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * *
9215091 AGAG GGAG AGAG GGAG AGAG GGAG TGTG AGTG AGTG AGTG AGTG AGAA
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
9215139 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * * * * *
9215187 AGAA AGAG AGAG AGAG AGTG TGTG TGTG TGTG TGTG AGTG AGTG AGTG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * *
9215235 AGTG AGAG AAAG AGAG AGTG AGAG AGGG AGAG AGAG GGAG AGAG GGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * *
9215283 AAAG AGAG GGAG AGAG AGAG AGGG AGTA- AGTG AGTG AGTG AGTG AGTG
1 AGAG AGAG AGAG AGAG AGAG AGAG AG-AG AGAG AGAG AGAG AGAG AGAG
* * * * * * *
9215331 AGAG GGAG AGAG AGTG AGTG AGTG AGTG AGTG AGAG GGAG AGAG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * * *
9215379 AGTG AGTG AGTG AGTG AGAG TGTG AGTG AGTG AGTG AGTG AGAG TGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * *
9215427 AGAG AGAG AGTG AGAG AGAG TGAG TGAG TGAG TGAG TGAG AGTG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * *
9215475 GGAG AGTG AGAG -GA- AGA- AG-G AGAG GGAG GGAG AGAG AGGG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* *
9215519 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AG-G GGGG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * *
9215566 AGGG AGAG GGGG AG-G AGAG AGAG AGGG GGAG AGAG AGTG TGTG TGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * * *
9215613 TGAG TGAG AGAG TGAG TGAG TGAG AGAG AGTG TGAG TGAG TGAT TGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * *
9215661 TGAG TGAG TGAG AGTG AGAG AGAG AGAG TGAG AGAG AGTG AGTG AGTG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * *
9215709 AGTG AGTG AGTG AGTG AGTG AGTG AGAG GGAG AGTG AGAG GGAG GGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * *
9215757 AGAG AGGG AGAG TGAG AGAG AGAG AGAG AGAG AGAG AGAG AGGG GGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * *
9215805 GGAG AGAG GGAG GGAG AGAG AGTG TGTG TGAG TGAG TGAG AGAG TGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * * *
9215853 AGTG AGTG AGTG AGTG AGAA AGTG AGAG TGAG TGAG TGAG TGAG TGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * *
9215901 TGAG AGAG AGTG AGTG AGTG AGTG AGTG AGAG AGAG AGAG AGAG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
9215949 AGAG AGAG AGAG AGAG
1 AGAG AGAG AGAG AGAG
9215965 TGCGTGTGTG
Statistics
Matches: 811, Mismatches: 146, Indels: 16
0.83 0.15 0.02
Matches are distributed among these distances:
3 15 0.02
4 796 0.98
ACGTcount: A:0.36, C:0.00, G:0.54, T:0.11
Consensus pattern (4 bp):
AGAG
Found at i:9215973 original size:2 final size:2
Alignment explanation
Indices: 9215968--9216067 Score: 157
Period size: 2 Copynumber: 50.0 Consensus size: 2
9215958 GAGAGAGTGC
9215968 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
* *
9216010 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GA GT GG GT GAT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G-T
*
9216053 -T GA GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT
9216068 ATTTGTAACG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.01
2 88 0.98
3 1 0.01
ACGTcount: A:0.03, C:0.00, G:0.50, T:0.47
Consensus pattern (2 bp):
GT
Found at i:9219405 original size:23 final size:24
Alignment explanation
Indices: 9219379--9219425 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
9219369 TTGGACCTTT
9219379 GATTAATTAACATA-CTTTTTTTG
1 GATTAATTAACATACCTTTTTTTG
*
9219402 GATTAATTAACCTACCTTTTTTTG
1 GATTAATTAACATACCTTTTTTTG
9219426 ACTGACCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (24 bp):
GATTAATTAACATACCTTTTTTTG
Found at i:9221332 original size:2 final size:2
Alignment explanation
Indices: 9221325--9221358 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9221315 ATTTCATAAA
*
9221325 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9221359 GATCATTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9223723 original size:20 final size:20
Alignment explanation
Indices: 9223700--9223740 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9223690 CTCAAAGTGT
9223700 CATATTCAGTGTTTTAATAA
1 CATATTCAGTGTTTTAATAA
9223720 CATATTCAGTGTTTTAATAA
1 CATATTCAGTGTTTTAATAA
9223740 C
1 C
9223741 CGAACCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
CATATTCAGTGTTTTAATAA
Found at i:9225530 original size:44 final size:45
Alignment explanation
Indices: 9225440--9225568 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
9225430 GACAGAACGA
*
9225440 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
9225486 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
9225530 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9225569 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:9232916 original size:44 final size:45
Alignment explanation
Indices: 9232826--9232954 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
9232816 GACAGAACGA
*
9232826 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
9232872 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
9232916 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9232955 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:9235108 original size:15 final size:15
Alignment explanation
Indices: 9235090--9235141 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9235080 TACTACAAAA
9235090 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
9235105 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
9235124 ATTTATTATTAACAT
1 ATTTATTATTAATAT
9235139 ATT
1 ATT
9235142 AACATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:9235204 original size:16 final size:16
Alignment explanation
Indices: 9235173--9235209 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9235163 ATGTGAAGAA
9235173 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9235189 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
9235205 TATTA
1 TATTA
9235210 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9235635 original size:35 final size:35
Alignment explanation
Indices: 9235585--9235653 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
9235575 TTTTTTCTTT
9235585 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
*
9235620 TTATTCTGTCGCGGCTGGAGTCGTGGGCACGACG
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACG
9235654 TGGATCTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.13, C:0.25, G:0.36, T:0.26
Consensus pattern (35 bp):
TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
Found at i:9240294 original size:137 final size:137
Alignment explanation
Indices: 9240048--9240334 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
9240038 TATTGGGCCT
** *
9240048 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGCGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
9240113 AGCCCCTTATTCAGATAACAGTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
9240178 CATATGC
131 CATATGC
9240185 AAGCCCATTTGGGTAACAGCGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGCGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
9240250 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
9240315 TATATGC
131 CATATGC
9240322 AAGCCCATTTGGG
1 AAGCCCATTTGGG
9240335 GAGATTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGCGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:9240619 original size:25 final size:27
Alignment explanation
Indices: 9240582--9240635 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
9240572 TCAAACATGC
9240582 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
9240608 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
9240634 AT
1 AT
9240636 AATAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:9242152 original size:26 final size:26
Alignment explanation
Indices: 9242116--9242225 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
9242106 CATGAAATTC
9242116 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9242142 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9242168 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
9242194 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
9242220 TTATCA
1 TTATCA
9242226 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9243059 original size:18 final size:18
Alignment explanation
Indices: 9243026--9243062 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9243016 TTTAAAATTA
*
9243026 TGGGCCCATATACCCGTG
1 TGGGCCCATACACCCGTG
*
9243044 TGGGCCCATACGCCCGTG
1 TGGGCCCATACACCCGTG
9243062 T
1 T
9243063 TGCCTACACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.35, G:0.30, T:0.22
Consensus pattern (18 bp):
TGGGCCCATACACCCGTG
Found at i:9244509 original size:37 final size:37
Alignment explanation
Indices: 9244460--9244595 Score: 166
Period size: 37 Copynumber: 3.7 Consensus size: 37
9244450 TCATTCAAGT
* * *
9244460 TTCACTCAGTATAACAATAGGATTTGCTCAATTGAAC
1 TTCATTCAGTATAACAATAAGATTTGCTCAATTGAGC
* * *
9244497 ATCATTCAGTATAACAGTAAGA-TTGCTCAGTTGAGC
1 TTCATTCAGTATAACAATAAGATTTGCTCAATTGAGC
* ** * *
9244533 TTCATTCAGGATAACGGTACGATTTGCTCGATTGAGC
1 TTCATTCAGTATAACAATAAGATTTGCTCAATTGAGC
9244570 TTCATTCAGTATAACAATAAGATTTG
1 TTCATTCAGTATAACAATAAGATTTG
9244596 GTTTGATATA
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
36 30 0.37
37 52 0.63
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (37 bp):
TTCATTCAGTATAACAATAAGATTTGCTCAATTGAGC
Found at i:9245066 original size:21 final size:20
Alignment explanation
Indices: 9245027--9245068 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
9245017 TAAAAATCTA
*
9245027 ATATTTTATTTAGATTATAT
1 ATATATTATTTAGATTATAT
*
9245047 ATATATTATATTATATTATAT
1 ATATATTAT-TTAGATTATAT
9245068 A
1 A
9245069 ATTGATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATATATTATTTAGATTATAT
Found at i:9246305 original size:40 final size:40
Alignment explanation
Indices: 9246232--9246312 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
9246222 AGTTATGGGA
** *
9246232 TACTGAATATTGTTTTGAATACCGAATTAAACTGTGAAAT
1 TACTGAATATTGTTACGAATACCGAATTAAACTGTAAAAT
* * * *
9246272 TACTGAATATTGTTACGTATACTGCATTGAACTGTAAAAT
1 TACTGAATATTGTTACGAATACCGAATTAAACTGTAAAAT
9246312 T
1 T
9246313 TATGATGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (40 bp):
TACTGAATATTGTTACGAATACCGAATTAAACTGTAAAAT
Found at i:9246540 original size:12 final size:12
Alignment explanation
Indices: 9246523--9246547 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9246513 GTCGACTACT
9246523 GTTACTGTTACC
1 GTTACTGTTACC
9246535 GTTACTGTTACC
1 GTTACTGTTACC
9246547 G
1 G
9246548 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:9246603 original size:45 final size:45
Alignment explanation
Indices: 9246525--9246628 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 45
9246515 CGACTACTGT
* * * *
9246525 TACTGTTACCGTTACTGTTACCGATTCGACACTTTGTATGTCGAA
1 TACTATTACCGTTACTATTACAGATTCGACACTTCGTATGTCGAA
* * *
9246570 TACTATTATCGTTACTATTACAGATTC-AGCACTTCGTGTGTTGAA
1 TACTATTACCGTTACTATTACAGATTCGA-CACTTCGTATGTCGAA
* *
9246615 TACTGTTACTGTTA
1 TACTATTACCGTTA
9246629 TTGTTCTACT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (45 bp):
TACTATTACCGTTACTATTACAGATTCGACACTTCGTATGTCGAA
Found at i:9249678 original size:78 final size:78
Alignment explanation
Indices: 9249529--9249686 Score: 226
Period size: 78 Copynumber: 2.0 Consensus size: 78
9249519 GATAGACTTT
* * **
9249529 ATTGGTTGTCATAGTCGAGCTATGGTCTTACACCTTGTAACCCCATGTTTAATGCCCTGGTGGAC
1 ATTGGTTGTCATAGTCAAGCTATAGTCTTACACCTTGTAACCCCATGTTTAATGCCCTGGCAGAC
9249594 TATATTGGTTGTC
66 TATATTGGTTGTC
* * * * *
9249607 ATTGGTTGTCATAGTCAAGCTGTAGTCTTACACCTTGTAACCCTATGTTTAATGTCTTGGCAGAT
1 ATTGGTTGTCATAGTCAAGCTATAGTCTTACACCTTGTAACCCCATGTTTAATGCCCTGGCAGAC
*
9249672 TCTATTGGTTGTC
66 TATATTGGTTGTC
9249685 AT
1 AT
9249687 ACCCAAGCTA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (78 bp):
ATTGGTTGTCATAGTCAAGCTATAGTCTTACACCTTGTAACCCCATGTTTAATGCCCTGGCAGAC
TATATTGGTTGTC
Found at i:9261764 original size:2 final size:2
Alignment explanation
Indices: 9261757--9261783 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9261747 CAAAATTTAT
9261757 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
9261784 TATATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9266172 original size:3 final size:3
Alignment explanation
Indices: 9266164--9266190 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9266154 TTAATTTAAC
9266164 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
9266191 CAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9274390 original size:30 final size:30
Alignment explanation
Indices: 9274354--9274414 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
9274344 CTCTGAATAG
*
9274354 CAAAAAGTGGGAATGATGAATCTAAACTTA
1 CAAAAAGTGGGAATAATGAATCTAAACTTA
9274384 CAAAAAGTGGGAATAATGAATCTAAACTTA
1 CAAAAAGTGGGAATAATGAATCTAAACTTA
9274414 C
1 C
9274415 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (30 bp):
CAAAAAGTGGGAATAATGAATCTAAACTTA
Found at i:9274874 original size:43 final size:43
Alignment explanation
Indices: 9274822--9275047 Score: 183
Period size: 43 Copynumber: 5.3 Consensus size: 43
9274812 ACCACCACTG
9274822 ATTTGCAGATAAAAACTACCACTGAGTTGTGGATGCACAACAT
1 ATTTGCAGATAAAAACTACCACTGAGTTGTGGATGCACAACAT
* * * *
9274865 ATTTGCAGATAAAAAATTTCC-CTG-GTTGTCGTTGCACAACAT
1 ATTTGCAGAT-AAAAACTACCACTGAGTTGTGGATGCACAACAT
* * * * *
9274907 ATTTG-AGATAAAAGCTGCCACT-AGGTTGTAGATGTACAATAT
1 ATTTGCAGATAAAAACTACCACTGA-GTTGTGGATGCACAACAT
* * * ** *
9274949 ACTTGTAGATAAAAACTACCACT-AGGCTACGGACGCACAACAT
1 ATTTGCAGATAAAAACTACCACTGA-GTTGTGGATGCACAACAT
* * *** * *
9274992 ATTTGAAGATAAAAATTGTTACTGTGTTGTGGATGCATAACAT
1 ATTTGCAGATAAAAACTACCACTGAGTTGTGGATGCACAACAT
*
9275035 TTTTGCAGATAAA
1 ATTTGCAGATAAA
9275048 CTGCCGCTAG
Statistics
Matches: 142, Mismatches: 35, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
40 7 0.05
41 6 0.04
42 39 0.27
43 82 0.58
44 8 0.06
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (43 bp):
ATTTGCAGATAAAAACTACCACTGAGTTGTGGATGCACAACAT
Found at i:9277355 original size:10 final size:10
Alignment explanation
Indices: 9277342--9277372 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
9277332 TTTTTATAAA
9277342 TTTTTAATTT
1 TTTTTAATTT
9277352 TTTTT-ATTT
1 TTTTTAATTT
9277361 TTTTTAATTT
1 TTTTTAATTT
9277371 TT
1 TT
9277373 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:9279264 original size:45 final size:45
Alignment explanation
Indices: 9279215--9279307 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
9279205 GGGGAAGCGG
*
9279215 ATCCAAAACAAGCTGAAGTGGTTATTACTATTTTGAGCACCTTTT
1 ATCCAAAACAAGCTGAAGTGGTTATTACTATTTTGAGCACCTTCT
*
9279260 ATCCAAAACAAGCTGAAGTGGTTATTGCTATTTTGAGCACCTTCT
1 ATCCAAAACAAGCTGAAGTGGTTATTACTATTTTGAGCACCTTCT
9279305 ATC
1 ATC
9279308 ATTTTTTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (45 bp):
ATCCAAAACAAGCTGAAGTGGTTATTACTATTTTGAGCACCTTCT
Found at i:9282322 original size:2 final size:2
Alignment explanation
Indices: 9282315--9282347 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9282305 TTAAAAATTT
9282315 TA TA TA 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 TA TA TA T
9282348 CTCTTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9284939 original size:2 final size:2
Alignment explanation
Indices: 9284934--9284967 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9284924 CCTACAAGAT
9284934 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
9284968 AAAGGTCAAA
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):
TA
Found at i:9289612 original size:2 final size:2
Alignment explanation
Indices: 9289605--9289632 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9289595 TTAAATTAGA
9289605 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
9289633 TTTACAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9292322 original size:2 final size:2
Alignment explanation
Indices: 9292315--9292340 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9292305 GTGTTTGAAA
9292315 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
9292341 GTAAGCTTTT
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:9292519 original size:18 final size:20
Alignment explanation
Indices: 9292484--9292521 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
9292474 TAGTATTATG
*
9292484 TATATAGTTGTCCTCCTTTT
1 TATATAGTTGTACTCCTTTT
9292504 TATATA-TTGTAC-CCTTTT
1 TATATAGTTGTACTCCTTTT
9292522 AATTGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (20 bp):
TATATAGTTGTACTCCTTTT
Found at i:9295635 original size:21 final size:21
Alignment explanation
Indices: 9295619--9295662 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9295609 AGTTTTGTTG
9295619 TTGTTTCGCTGCTTTTTGCTA
1 TTGTTTCGCTGCTTTTTGCTA
* *
9295640 TTGTTTCGTTGTTTTTTTGCTA
1 TTGTTTCGCTG-CTTTTTGCTA
9295662 T
1 T
9295663 CATTCTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.05, C:0.14, G:0.18, T:0.64
Consensus pattern (21 bp):
TTGTTTCGCTGCTTTTTGCTA
Found at i:9306389 original size:14 final size:16
Alignment explanation
Indices: 9306356--9306394 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
9306346 TATTTTTTAA
9306356 TGTTGGATTAATTCGAT
1 TGTT-GATTAATTCGAT
9306373 TGTTGATT-ATT-GAT
1 TGTTGATTAATTCGAT
9306387 TGTTGATT
1 TGTTGATT
9306395 GCACTAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.50
15 3 0.14
16 4 0.18
17 4 0.18
ACGTcount: A:0.21, C:0.03, G:0.23, T:0.54
Consensus pattern (16 bp):
TGTTGATTAATTCGAT
Found at i:9306557 original size:3 final size:3
Alignment explanation
Indices: 9306549--9306591 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
9306539 TAGGCGGTAC
9306549 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9306592 CTAAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9310197 original size:2 final size:2
Alignment explanation
Indices: 9310190--9310220 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9310180 CTAATTTTAT
9310190 TA TA 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 TA TA T
9310221 TATTTTACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9316827 original size:20 final size:18
Alignment explanation
Indices: 9316804--9316850 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
9316794 TATATTATAA
9316804 ATAAAATAAATACATTAATT
1 ATAAAATAAAT--ATTAATT
9316824 ATAAAA-ATAATATTAATT
1 ATAAAATA-AATATTAATT
*
9316842 ATATAATAA
1 ATAAAATAA
9316851 TTGAACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
20 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAATAAATATTAATT
Found at i:9320424 original size:130 final size:130
Alignment explanation
Indices: 9320263--9320525 Score: 436
Period size: 130 Copynumber: 2.0 Consensus size: 130
9320253 AATATTAAAA
* * *
9320263 TAAGAGTTATACAATATCTAAACAATAACAACAATATAATAGCAATATAATAACAAAATAGTAGC
1 TAAGAGTTATACAATATCCAAACAATAACAACAAAATAATAGCAATATAATAACAAAATAGTAAC
**
9320328 CTAAATTCTACCACTTTTCGAATTGGCCTTCATACCTAACTGGATAACTTATCCCTAATTAAGTC
66 CTAAATTCTACCACTTTTCGAATTGGCCTTCATACCTAACTGGATAACTTATCCCTAAAAAAGTC
* * *
9320393 TAAGAGTTATATAATATCCAAATAATAACAACAAAATAATAGTAATATAATAACAAAATAGTAAC
1 TAAGAGTTATACAATATCCAAACAATAACAACAAAATAATAGCAATATAATAACAAAATAGTAAC
* *
9320458 CTAAATTCTACCACTTTTCGAATTGGCCTTCATACCTAAGTGGATATCTTATCCCTAAAAAAGTC
66 CTAAATTCTACCACTTTTCGAATTGGCCTTCATACCTAACTGGATAACTTATCCCTAAAAAAGTC
9320523 TAA
1 TAA
9320526 TCATAACAAG
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (130 bp):
TAAGAGTTATACAATATCCAAACAATAACAACAAAATAATAGCAATATAATAACAAAATAGTAAC
CTAAATTCTACCACTTTTCGAATTGGCCTTCATACCTAACTGGATAACTTATCCCTAAAAAAGTC
Found at i:9344593 original size:20 final size:20
Alignment explanation
Indices: 9344568--9344607 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9344558 AAAATATGTG
9344568 ATATGTGCTTCCATATAAGA
1 ATATGTGCTTCCATATAAGA
9344588 ATATGTGCTTCCATATAAGA
1 ATATGTGCTTCCATATAAGA
9344608 CCATAGCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
ATATGTGCTTCCATATAAGA
Found at i:9344662 original size:52 final size:52
Alignment explanation
Indices: 9344596--9344735 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
9344586 GAATATGTGC
*
9344596 TTCCATATAAGACCATAGCTGGGCTATGACATCGGTGCAATATGAT-ACGTG
1 TTCCATATAAGACCATAGCTGGGCTATGGCATCGGTGCAATATGATAACGTG
* ** * *
9344647 TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATAATGTG
1 TT-CCATATAAGACCATAGCTGGGCTATGGCATCGGTGCAATATGATAACGTG
* *
9344700 TTCCATATAAGACCATATCTGGGATATGGCATCGGT
1 TTCCATATAAGACCATAGCTGGGCTATGGCATCGGT
9344736 ATGATATGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 2 0.03
52 70 0.90
53 6 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (52 bp):
TTCCATATAAGACCATAGCTGGGCTATGGCATCGGTGCAATATGATAACGTG
Found at i:9344758 original size:46 final size:51
Alignment explanation
Indices: 9344590--9344761 Score: 160
Period size: 52 Copynumber: 3.4 Consensus size: 51
9344580 ATATAAGAAT
* * * ** *
9344590 ATGTGCTTCCATATAAGACCATAGCTGGGCTATGACATCGGTGCAATATGAT-
1 ATGTG-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA-GTGATA
* *
9344642 ACGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATA
1 ATGTGTT-CCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA-GTGATA
* *
9344695 ATGTGTTCCATATAAGACCATATCTGGGATATGGCATC-G-GT-A-TGAT-
1 ATGTGTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGAGTGATA
9344741 ATGTGATT-CGTATAAGACCAT
1 ATGTG-TTCCGTATAAGACCAT
9344762 GGCGGCGCTA
Statistics
Matches: 106, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
46 17 0.16
47 6 0.06
49 1 0.01
50 2 0.02
51 3 0.03
52 71 0.67
53 6 0.06
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
ATGTGTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGAGTGATA
Found at i:9346977 original size:2 final size:2
Alignment explanation
Indices: 9346970--9347158 Score: 369
Period size: 2 Copynumber: 94.5 Consensus size: 2
9346960 TTGGAGCCTT
*
9346970 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9347012 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9347054 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9347096 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9347138 AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC A
9347159 GGACACATAA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
2 185 1.00
ACGTcount: A:0.50, C:0.49, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:9351955 original size:17 final size:18
Alignment explanation
Indices: 9351933--9351967 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9351923 TAATCTCTAT
*
9351933 CAGTTTCAGTTT-CACTA
1 CAGTTTCAATTTACACTA
9351950 CAGTTTCAATTTACACTA
1 CAGTTTCAATTTACACTA
9351968 ATTAGAGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (18 bp):
CAGTTTCAATTTACACTA
Found at i:9354839 original size:19 final size:20
Alignment explanation
Indices: 9354803--9354845 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9354793 ATATTTTTTA
*
9354803 ATATTTACTTTATGATATAAT
1 ATATTTAATTTA-GATATAAT
*
9354824 ATATTTAATTTA-ATATGAT
1 ATATTTAATTTAGATATAAT
9354843 ATA
1 ATA
9354846 AATTACCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
ATATTTAATTTAGATATAAT
Found at i:9356311 original size:2 final size:2
Alignment explanation
Indices: 9356304--9356340 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9356294 AAATTAATTG
9356304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9356341 AGTATACTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9364959 original size:22 final size:23
Alignment explanation
Indices: 9364921--9364966 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
9364911 AGATTATTCG
* *
9364921 TAATTATATTTATATTTTTTTAA
1 TAATTATATTAATATTTATTTAA
9364944 TAATTA-ATTAATATTTATTTAA
1 TAATTATATTAATATTTATTTAA
9364966 T
1 T
9364967 CATATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTATATTAATATTTATTTAA
Found at i:9366496 original size:2 final size:2
Alignment explanation
Indices: 9366491--9366525 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9366481 TAAATACTAT
*
9366491 TA TA TA TA CA 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 TA TA TA TA T
9366526 TTTAAATACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9376113 original size:46 final size:44
Alignment explanation
Indices: 9376009--9376116 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9375999 TGTCTTTGAC
** * * *
9376009 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9376053 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9376099 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9376117 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9379171 original size:68 final size:70
Alignment explanation
Indices: 9379006--9379179 Score: 235
Period size: 71 Copynumber: 2.5 Consensus size: 70
9378996 TTTTCAAGGG
* * *
9379006 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
9379071 TTTTCA
66 TTTT-A
* * * *
9379077 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
9379141 TTTT-
66 TTTTA
** *
9379145 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9379180 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
68 31 0.34
70 27 0.29
71 34 0.37
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTTA
Done.