Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 428 of 438
Found at i:132009458 original size:26 final size:26
Alignment explanation
Indices: 132009429--132009506 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 26
132009419 AAAAAATAAT
*
132009429 TATAGGTGGATTGTAAACAATTTATG
1 TATAGGTGGATTGTAAACAAATTATG
* * * *
132009455 TATA-AT-G-TT-AAAAAAAATGAT-
1 TATAGGTGGATTGTAAACAAATTATG
*
132009476 TATAGGTGGATTGTAAACAACTTATG
1 TATAGGTGGATTGTAAACAAATTATG
132009502 TATAG
1 TATAG
132009507 ATCTAAATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 4 0.11
22 9 0.24
23 3 0.08
24 3 0.08
25 9 0.24
26 9 0.24
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (26 bp):
TATAGGTGGATTGTAAACAAATTATG
Found at i:132009459 original size:46 final size:47
Alignment explanation
Indices: 132009409--132009505 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
132009399 AATAAATATA
*
132009409 TATAATGTT-AAAAAAATAATTATAGGTGGATTGTAAACAATTTATG
1 TATAATGTTAAAAAAAATAATTATAGGTGGATTGTAAACAACTTATG
*
132009455 TATAATGTTAAAAAAAATGATTATAGGTGGATTGTAAACAACTTATG
1 TATAATGTTAAAAAAAATAATTATAGGTGGATTGTAAACAACTTATG
132009502 TATA
1 TATA
132009506 GATCTAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 9 0.19
47 39 0.81
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.36
Consensus pattern (47 bp):
TATAATGTTAAAAAAAATAATTATAGGTGGATTGTAAACAACTTATG
Found at i:132009918 original size:9 final size:10
Alignment explanation
Indices: 132009899--132010038 Score: 53
Period size: 10 Copynumber: 14.3 Consensus size: 10
132009889 AATTTGATGT
132009899 AAACTTATAA
1 AAACTTATAA
*
132009909 AAACTATAAAA
1 AAACT-TATAA
*
132009920 AAATTTATAA
1 AAACTTATAA
* *
132009930 AAAATTATGA
1 AAACTTATAA
132009940 AAA-TT-T-A
1 AAACTTATAA
* *
132009947 TAACTTCTAA
1 AAACTTATAA
132009957 TAAA-TTATAA
1 -AAACTTATAA
132009967 AAA--TATAA
1 AAACTTATAA
* *
132009975 GAA-TAATAA
1 AAACTTATAA
*
132009984 AAACATATTTAA
1 AAAC-T-TATAA
**
132009996 AATTTTATAA
1 AAACTTATAA
*
132010006 AAACTTATTA
1 AAACTTATAA
*
132010016 AAATTCTATAA
1 AAACT-TATAA
*
132010027 AAA-TCATAA
1 AAACTTATAA
132010036 AAA
1 AAA
132010039 AGTATTAAAA
Statistics
Matches: 98, Mismatches: 22, Indels: 21
0.70 0.16 0.15
Matches are distributed among these distances:
7 3 0.03
8 10 0.10
9 19 0.19
10 42 0.43
11 19 0.19
12 5 0.05
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (10 bp):
AAACTTATAA
Found at i:132010016 original size:21 final size:22
Alignment explanation
Indices: 132009980--132010034 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
132009970 TATAAGAATA
*
132009980 ATAAAAACATATTTAAAATTTT
1 ATAAAAACATATTTAAAATTCT
*
132010002 ATAAAAACTTA-TTAAAATTCT
1 ATAAAAACATATTTAAAATTCT
132010023 ATAAAAATCATA
1 ATAAAAA-CATA
132010035 AAAAAGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAAAACATATTTAAAATTCT
Found at i:132010566 original size:9 final size:9
Alignment explanation
Indices: 132010517--132010747 Score: 114
Period size: 9 Copynumber: 24.8 Consensus size: 9
132010507 TTTTTTGTAT
132010517 TTTTTATAAA
1 TTTTTAT-AA
*
132010527 TTTATATCAA
1 TTTTTAT-AA
*
132010537 TTTTAAT-A
1 TTTTTATAA
*
132010545 TTTTAAT-A
1 TTTTTATAA
*
132010553 CTTTTATAA
1 TTTTTATAA
*
132010562 TTTTTTTACA
1 TTTTTATA-A
*
132010572 GTTTTTATTA
1 -TTTTTATAA
*
132010582 TTTTTAAACAA
1 TTTTT--ATAA
* *
132010593 TTCTAATAA
1 TTTTTATAA
*
132010602 TTTTTTTAA
1 TTTTTATAA
*
132010611 TATTTA-ATA
1 TTTTTATA-A
*
132010620 TTTTAAATAA
1 TTTT-TATAA
132010630 TTTTTATTAA
1 TTTTTA-TAA
*
132010640 -TTTTATAG
1 TTTTTATAA
* *
132010648 CTTTTATTA
1 TTTTTATAA
132010657 TTTATTATAA
1 TTT-TTATAA
132010667 TTTTTAT-A
1 TTTTTATAA
132010675 TTTTTATAA
1 TTTTTATAA
*
132010684 TATTTATAA
1 TTTTTATAA
*
132010693 GTTTTTATAC
1 -TTTTTATAA
132010703 TATTTTATAA
1 T-TTTTATAA
*
132010713 TTTTAATAA
1 TTTTTATAA
*
132010722 GTTTATATCAA
1 -TTTTTAT-AA
*
132010733 TTTTAAT-A
1 TTTTTATAA
132010741 TTTTTAT
1 TTTTTAT
132010748 TTTTATAATA
Statistics
Matches: 167, Mismatches: 38, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
8 32 0.19
9 64 0.38
10 57 0.34
11 14 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:132010577 original size:20 final size:20
Alignment explanation
Indices: 132010554--132010609 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
132010544 ATTTTAATAC
*
132010554 TTTTATAATTTTTTTACAGT
1 TTTTATAATTTTTTTACAAT
* **
132010574 TTTTATTATTTTTAAACAAT
1 TTTTATAATTTTTTTACAAT
* *
132010594 TCTAATAATTTTTTTA
1 TTTTATAATTTTTTTA
132010610 ATATTTAATA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAT
Found at i:132010659 original size:37 final size:36
Alignment explanation
Indices: 132010613--132010682 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
132010603 TTTTTTAATA
132010613 TTTAATATTT-TAAATAATTTTTATTAATTTTATAGCT
1 TTTAATATTTAT-AATAATTTTTA-TAATTTTATAGCT
* * *
132010650 TTTATTATTTATTATAATTTTTATATTTTTATA
1 TTTAATATTTATAATAATTTTTATAATTTTATA
132010683 ATATTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 9 0.31
37 19 0.66
38 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (36 bp):
TTTAATATTTATAATAATTTTTATAATTTTATAGCT
Found at i:132010698 original size:20 final size:19
Alignment explanation
Indices: 132010548--132010761 Score: 107
Period size: 19 Copynumber: 11.5 Consensus size: 19
132010538 TTTAATATTT
*
132010548 TAATACTTTTATAATTTTTT
1 TAATA-TTTTATAATTTTTA
*
132010568 TACAGT-TTTTATTATTTTTA
1 TA-A-TATTTTATAATTTTTA
* * *
132010588 -AACAATTCTAATAATTTTTT
1 TAA-TATT-TTATAATTTTTA
* *
132010608 TAATATTTAAT-ATTTTAAA
1 TAATATTTTATAATTTT-TA
132010627 TAAT-TTTTATTAA-TTTTA
1 TAATATTTTA-TAATTTTTA
** *
132010645 T-AGCTTTTATTATTTATTA
1 TAATATTTTATAATTT-TTA
132010664 TAAT-TTTTAT-ATTTTTA
1 TAATATTTTATAATTTTTA
132010681 TAATA-TTTATAAGTTTTTA
1 TAATATTTTATAA-TTTTTA
* *
132010700 TACTATTTTATAATTTTAA
1 TAATATTTTATAATTTTTA
*
132010719 TAAGT-TTATATCAA--TTT-
1 TAA-TATTTTAT-AATTTTTA
132010736 TAATATTTT-T-ATTTTTA
1 TAATATTTTATAATTTTTA
132010753 TAATATTTT
1 TAATATTTT
132010762 TTTTAAATTT
Statistics
Matches: 151, Mismatches: 21, Indels: 47
0.69 0.10 0.21
Matches are distributed among these distances:
14 1 0.01
16 5 0.03
17 30 0.20
18 26 0.17
19 47 0.31
20 38 0.25
21 3 0.02
22 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (19 bp):
TAATATTTTATAATTTTTA
Found at i:132010746 original size:29 final size:29
Alignment explanation
Indices: 132010676--132010746 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
132010666 ATTTTTATAT
* *
132010676 TTTTATAATATTT-ATAAGTTTTTATACTA
1 TTTTATAAT-TTTAATAAGTTTATATACAA
132010705 TTTTATAATTTTAATAAGTTTATAT-CAA
1 TTTTATAATTTTAATAAGTTTATATACAA
*
132010733 TTTTAATATTTTTA
1 TTTT-ATAATTTTA
132010747 TTTTTATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 9 0.24
29 28 0.76
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTTATAATTTTAATAAGTTTATATACAA
Found at i:132013100 original size:9 final size:9
Alignment explanation
Indices: 132013086--132013112 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
132013076 ACCTTTTGCA
132013086 TTGCATCAT
1 TTGCATCAT
132013095 TTGCATCAT
1 TTGCATCAT
132013104 TTGCATCAT
1 TTGCATCAT
132013113 ACATGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (9 bp):
TTGCATCAT
Found at i:132016434 original size:47 final size:47
Alignment explanation
Indices: 132016383--132016478 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
132016373 TTTATTATTG
132016383 TAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATC
1 TAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATC
132016430 TAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATC
1 TAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATC
132016477 TA
1 TA
132016479 CATAAAAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (47 bp):
TAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATAAAATC
Found at i:132017024 original size:14 final size:15
Alignment explanation
Indices: 132016990--132017030 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
132016980 TTTTTGTTGT
132016990 TTTTTTTTGCTGAAAA
1 TTTTTTTTGCTG-AAA
*
132017006 ATTTTTTTGCTG-AA
1 TTTTTTTTGCTGAAA
132017020 TTTTTTTTGCT
1 TTTTTTTTGCT
132017031 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.63
Consensus pattern (15 bp):
TTTTTTTTGCTGAAA
Found at i:132017026 original size:16 final size:16
Alignment explanation
Indices: 132016989--132017027 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
132016979 TTTTTTGTTG
132016989 TTTTTTTTTGCTGAAA
1 TTTTTTTTTGCTGAAA
**
132017005 AATTTTTTTGCTG-AA
1 TTTTTTTTTGCTGAAA
132017020 TTTTTTTT
1 TTTTTTTT
132017028 GCTCTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (16 bp):
TTTTTTTTTGCTGAAA
Found at i:132017311 original size:30 final size:30
Alignment explanation
Indices: 132017254--132017369 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 30
132017244 GTAATTTTTA
* *
132017254 GAAAATTTA-GGGTTAAAAT-ACAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGA-AATTTAAG
* * *
132017283 GAAAGTTTAGGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* *
132017313 GAAAGTTTAAGAGTCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* *
132017342 GAAAAGTTTAGGGGTTAAAATGTAATTT
1 G-AAAGTTTAGGGGTCAAAATGAAATTT
132017370 TTATTTTTTG
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
29 10 0.14
30 59 0.84
31 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAG
Found at i:132017369 original size:60 final size:59
Alignment explanation
Indices: 132017234--132017369 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
132017224 CAAAATTTCT
** * *
132017234 GGGG-CTAAATGTAATTTTTAGAAAATTTAGGGTTAAAATACAATTTAAGGAAAGTTTA
1 GGGGTCTAAATGTAATTTAAAGAAAATTTAGAGTCAAAATACAATTTAAGGAAAGTTTA
* * *
132017292 GGGGTCTAAGTGAAATTTAAAGAAAGTTTAAGAGTCAAAATGA-AATTT-AGGAAAAGTTTA
1 GGGGTCTAAATGTAATTTAAAGAAAATTT-AGAGTCAAAAT-ACAATTTAAGG-AAAGTTTA
132017352 GGGGT-TAAAATGTAATTT
1 GGGGTCT-AAATGTAATTT
132017370 TTATTTTTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
58 4 0.06
59 23 0.36
60 36 0.56
61 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (59 bp):
GGGGTCTAAATGTAATTTAAAGAAAATTTAGAGTCAAAATACAATTTAAGGAAAGTTTA
Found at i:132022561 original size:26 final size:26
Alignment explanation
Indices: 132022528--132022637 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
132022518 TGATACAAAT
132022528 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
132022554 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
132022580 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
132022606 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
132022632 AGATAA
1 TGATAA
132022638 GAATTTCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:132026435 original size:137 final size:136
Alignment explanation
Indices: 132026189--132026474 Score: 448
Period size: 137 Copynumber: 2.1 Consensus size: 136
132026179 CATTGGGCCT
** * * *
132026189 AAGCCCATTCAGGTAACAGTGGTACTAGGCCATAGCCATTTTCAGATTACAATAAATTGGGCTTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
* *
132026254 AGCCCCTTATTCAGATAACAGTATGGTCCATAGGCCCATTTCAAAATACATACAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGTCCATAGGCCCATTTCAAAATACATACAACATCAAT-AA
132026319 CATATGC
130 CATATGC
* *
132026326 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
*
132026391 AGCCCCTTATTCAGATAACAGTATGG-CCTATAGGCCCATTTCAAAATACATGCAACATCAATAA
66 AGCCCCTTATTCAGATAACAGTATGGTCC-ATAGGCCCATTTCAAAATACATACAACATCAATAA
132026455 CATATGC
130 CATATGC
*
132026462 AAGCCTATTTGGG
1 AAGCCCATTTGGG
132026475 GAGACTACTC
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
136 23 0.17
137 114 0.83
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGTCCATAGGCCCATTTCAAAATACATACAACATCAATAAC
ATATGC
Found at i:132028289 original size:26 final size:26
Alignment explanation
Indices: 132028253--132028388 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
132028243 ACATGAATTC
132028253 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
132028279 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
132028305 TTATCGTGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
132028331 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
132028357 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
132028383 TTATCA
1 TTATCA
132028389 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:132028846 original size:15 final size:16
Alignment explanation
Indices: 132028810--132028852 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
132028800 TTTTTTGTTT
132028810 TTTTTTTTTGCTGGAAA
1 TTTTTTTTTGCT-GAAA
*
132028827 -ATTTTTTTGCT-AAA
1 TTTTTTTTTGCTGAAA
132028841 TTTTTTTTTGCT
1 TTTTTTTTTGCT
132028853 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.16, C:0.07, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTTTTTTTGCTGAAA
Found at i:132029109 original size:29 final size:29
Alignment explanation
Indices: 132029077--132029191 Score: 117
Period size: 30 Copynumber: 3.8 Consensus size: 29
132029067 GTAATTTTTA
*
132029077 GAAAATTTAGGGTTAAAATGCAATTTAAG
1 GAAAATTTAGGGTTAAAATGAAATTTAAG
* *
132029106 GAAAATTTAGGGGTCT-AAGTGAAATTTAAA
1 GAAAATTTA-GGGT-TAAAATGAAATTTAAG
* *
132029136 GAAAATCTAAGGGTCAAAATGAAATTT-AG
1 GAAAAT-TTAGGGTTAAAATGAAATTTAAG
132029165 GAAAAGTTTAGAGGTTAAAATGCAAAT
1 GAAAA-TTTAG-GGTTAAAATG-AAAT
132029192 ATTTTTTTGA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
29 18 0.26
30 45 0.64
31 7 0.10
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (29 bp):
GAAAATTTAGGGTTAAAATGAAATTTAAG
Found at i:132029334 original size:3 final size:3
Alignment explanation
Indices: 132029326--132029470 Score: 148
Period size: 3 Copynumber: 47.7 Consensus size: 3
132029316 ATAAACTAAC
132029326 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* ** * * * * * *
132029371 ACA ATA ACG ATA ATC ATCA ACGA ACA ACA ACA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* **
132029418 ACA ACC ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
132029466 ATA AT
1 ATA AT
132029471 GTAAAGATAG
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.01
3 117 0.96
4 4 0.03
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:132029745 original size:26 final size:25
Alignment explanation
Indices: 132029696--132029745 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
132029686 AAAAGGGAAA
*
132029696 ACAATATAATAATAATAGTGGTAAT
1 ACAATATAATAATAATAGTCGTAAT
* *
132029721 ACAATAGTAATACTAATTGTCGTAA
1 ACAATA-TAATAATAATAGTCGTAA
132029746 CCATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (25 bp):
ACAATATAATAATAATAGTCGTAAT
Found at i:132030965 original size:18 final size:18
Alignment explanation
Indices: 132030939--132030976 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
132030929 ATATTTATTG
*
132030939 AAAATAGTAA-TAATATAT
1 AAAAAAGTAACTAATA-AT
132030957 AAAAAAGTAACTAATAAT
1 AAAAAAGTAACTAATAAT
132030975 AA
1 AA
132030977 CGATACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAAGTAACTAATAAT
Found at i:132031131 original size:24 final size:25
Alignment explanation
Indices: 132031098--132031146 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
132031088 TATACGTAAT
**
132031098 ATATTAAAAAGGTATACATAATATA
1 ATATTAAAAACATATACATAATATA
*
132031123 ATATT-AAAACATTTACATAATATA
1 ATATTAAAAACATATACATAATATA
132031147 TACATGTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAACATATACATAATATA
Found at i:132031269 original size:11 final size:11
Alignment explanation
Indices: 132031253--132031317 Score: 73
Period size: 11 Copynumber: 6.2 Consensus size: 11
132031243 TAAAAGTATG
132031253 TACATAATATA
1 TACATAATATA
132031264 TACATAATATA
1 TACATAATATA
** *
132031275 TTGAAAATATA
1 TACATAATATA
132031286 TACATAATATA
1 TACATAATATA
132031297 T--AT-ATATA
1 TACATAATATA
*
132031305 TATATAATATA
1 TACATAATATA
132031316 TA
1 TA
132031318 ATATTAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 6 0.13
9 2 0.04
10 2 0.04
11 35 0.78
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (11 bp):
TACATAATATA
Found at i:132031282 original size:57 final size:56
Alignment explanation
Indices: 132031184--132031290 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 56
132031174 AAAAAACAAC
132031184 TATTAATAATATTACATAGATATATACATATATATTAAAAATGA-ATACATGACAGA
1 TATTAATAATATTACATAGATATATACATATATATTAAAAAT-ATATACATGACAGA
*
132031240 TATTAA-AAGTATGTACATA-ATATATACATAATATATTGAAAATATATACAT
1 TATTAATAA-TAT-TACATAGATATATACAT-ATATATTAAAAATATATACAT
132031291 AATATATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
55 2 0.04
56 20 0.43
57 24 0.52
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (56 bp):
TATTAATAATATTACATAGATATATACATATATATTAAAAATATATACATGACAGA
Found at i:132031290 original size:33 final size:34
Alignment explanation
Indices: 132031239--132031309 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
132031229 TACATGACAG
*
132031239 ATATTAAAAGTATGTACATAATATATACATA-AT
1 ATATTAAAAGTATATACATAATATATACATATAT
*
132031272 ATATTGAAAA-TATATACATAATATATATATATAT
1 ATATT-AAAAGTATATACATAATATATACATATAT
132031306 ATAT
1 ATAT
132031310 AATATATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (34 bp):
ATATTAAAAGTATATACATAATATATACATATAT
Found at i:132031330 original size:17 final size:18
Alignment explanation
Indices: 132031280--132031339 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
132031270 ATATATTGAA
* *
132031280 AATATATACATAATATAT
1 AATATATAAAAAATATAT
* *
132031298 ATATATATATATAATATAT
1 A-ATATATAAAAAATATAT
132031317 AATAT-TAAAAAATATAT
1 AATATATAAAAAATATAT
132031334 AATATA
1 AATATA
132031340 ATGTTAGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 15 0.41
18 5 0.14
19 17 0.46
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATATAAAAAATATAT
Found at i:132031334 original size:2 final size:2
Alignment explanation
Indices: 132031281--132031321 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
132031271 TATATTGAAA
*
132031281 AT AT AT AC AT A- AT AT AT AT AT AT AT AT AT A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132031320 AT
1 AT
132031322 TAAAAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:132031353 original size:22 final size:24
Alignment explanation
Indices: 132031281--132031355 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 24
132031271 TATATTGAAA
*
132031281 ATAT-ATACATAATATATATATATAT
1 ATATAATATATAATAT-TA-ATATAT
* *
132031306 ATATAATATATAATATTAAAAAAT
1 ATATAATATATAATATTAATATAT
* *
132031330 ATAT-A-ATATAATGTTAGTATAT
1 ATATAATATATAATATTAATATAT
132031352 ATAT
1 ATAT
132031356 GCGTAATATG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 17 0.40
23 1 0.02
24 8 0.19
25 6 0.14
26 10 0.24
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (24 bp):
ATATAATATATAATATTAATATAT
Found at i:132032739 original size:3 final size:3
Alignment explanation
Indices: 132032733--132032779 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
132032723 CAAAATAGAG
132032733 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
132032780 GAACATATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:132036429 original size:38 final size:39
Alignment explanation
Indices: 132036357--132036495 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
132036347 ACTCTGATGA
* *
132036357 GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
132036396 GCTTCAGTTAGCCTCCGGGC-TCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
132036434 GCTTCAGTTAGCCTTCGAGCTTTCGTCTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
132036473 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
132036496 AGATCACGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 35 0.40
39 52 0.60
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:132041421 original size:13 final size:13
Alignment explanation
Indices: 132041396--132041424 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
132041386 TTTCATTTAA
132041396 TTTCTACAATTTT
1 TTTCTACAATTTT
132041409 TTTC-ACAATTTT
1 TTTCTACAATTTT
132041421 TTTC
1 TTTC
132041425 CTTACTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTCTACAATTTT
Found at i:132043796 original size:43 final size:42
Alignment explanation
Indices: 132043714--132043806 Score: 96
Period size: 43 Copynumber: 2.2 Consensus size: 42
132043704 GGTTTAGCCT
* * * ** *
132043714 ATAATGCACTTATGTGCCAGTATATTTGCTTCGGTTTGTCCG
1 ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCA
* *
132043756 ATAATGCACCTCATGTGCTAGTATAATTGATTCTACTTGTCCA
1 ATAATGCA-CTCATGTGCCAGTATAATTGATTCGACTTGTCCA
*
132043799 ATGATGCA
1 ATAATGCA
132043807 TGATGTATGC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (42 bp):
ATAATGCACTCATGTGCCAGTATAATTGATTCGACTTGTCCA
Found at i:132046019 original size:7 final size:7
Alignment explanation
Indices: 132045993--132046030 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
132045983 TAAAATAAAA
132045993 TAAAA-T
1 TAAAATT
*
132045999 TAAACTT
1 TAAAATT
*
132046006 TAGAATT
1 TAAAATT
132046013 TAAAATT
1 TAAAATT
132046020 TAAAATT
1 TAAAATT
132046027 TAAA
1 TAAA
132046031 CTCTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
6 4 0.15
7 23 0.85
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:132046037 original size:14 final size:14
Alignment explanation
Indices: 132045993--132046039 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
132045983 TAAAATAAAA
132045993 TAAAA-TTAAACTT
1 TAAAATTTAAACTT
* *
132046006 TAGAATTTAAAATT
1 TAAAATTTAAACTT
*
132046020 TAAAATTTAAACTC
1 TAAAATTTAAACTT
132046034 TAAAAT
1 TAAAAT
132046040 AAACTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 4 0.14
14 24 0.86
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (14 bp):
TAAAATTTAAACTT
Found at i:132049078 original size:46 final size:46
Alignment explanation
Indices: 132049004--132049309 Score: 366
Period size: 46 Copynumber: 6.6 Consensus size: 46
132048994 GCTTTTTAAA
* * * *
132049004 ATGAAATGTGTAGGACCATCGTTAAAAGATACCATTACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
*
132049050 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
* *
132049096 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
* * *
132049142 ATGAAATGTGTGAGACCATGGTTGAAAGATACCATGGA-AACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGAT
** * *
132049188 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGA-T
** ** *
132049235 GGGAAATGAATAAGACCATGGTTGAAAGATATCATGGA-AACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGAT
* *
132049281 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
132049310 CACTATGGCA
Statistics
Matches: 230, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.01
46 187 0.81
47 40 0.17
48 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
Found at i:132052486 original size:35 final size:35
Alignment explanation
Indices: 132052437--132052670 Score: 121
Period size: 35 Copynumber: 6.4 Consensus size: 35
132052427 CACAATTGTC
*
132052437 GGTTTATCCGACTAGCACTGGGTGCAATTATCATT
1 GGTTTATCCAACTAGCACTGGGTGCAATTATCATT
* ** * * *
132052472 GGTTTATCCAACTAGCGCTAAGCGCAATTAGCGTT
1 GGTTTATCCAACTAGCACTGGGTGCAATTATCATT
* * *
132052507 AGTTTATCCAACTAG-AGCTGGGCCTACAATTATTATCGT
1 GGTTTATCCAACTAGCA-CTGGG--TGCAATTATCAT--T
* * * * **
132052546 CGGTATATTCAACTAGCACTAGGTGCAAATATTGTT
1 -GGTTTATCCAACTAGCACTGGGTGCAATTATCATT
* * *
132052582 GGTTTATCCAACTAG-GCTGGGCTCACAATTATTATCATC
1 GGTTTATCCAACTAGCACTGGG-T-GC-A--ATTATCATT
* * * * ***
132052621 GGTATATCCGACTAGTACTGGGTGCAAATATTGCT
1 GGTTTATCCAACTAGCACTGGGTGCAATTATCATT
132052656 GGTTTATCCAACTAG
1 GGTTTATCCAACTAG
132052671 AGTTGGGCTC
Statistics
Matches: 143, Mismatches: 43, Indels: 26
0.67 0.20 0.12
Matches are distributed among these distances:
34 4 0.03
35 76 0.53
36 2 0.01
37 9 0.06
38 10 0.07
39 20 0.14
40 21 0.15
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (35 bp):
GGTTTATCCAACTAGCACTGGGTGCAATTATCATT
Found at i:132052623 original size:74 final size:75
Alignment explanation
Indices: 132052463--132052683 Score: 275
Period size: 74 Copynumber: 3.0 Consensus size: 75
132052453 ACTGGGTGCA
* * * * * * ** *
132052463 ATTATCATTGGTTTATCCAACTAGCGCTAAGCGCAATTAGCGTTAGTTTATCCAACTAGAGCTGG
1 ATTATCATCGGTATATCCAACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGG
132052528 GC-CTACAATT
66 GCTC-ACAATT
* *
132052538 ATTATCGTCGGTATATTCAACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAG-GCTGG
1 ATTATCATCGGTATATCCAACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGG
132052602 GCTCACAATT
66 GCTCACAATT
* * * * *
132052612 ATTATCATCGGTATATCCGACTAGTACTGGGTGCAAATATTGCTGGTTTATCCAACTAGAGTTGG
1 ATTATCATCGGTATATCCAACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGG
132052677 GCTCACA
66 GCTCACA
132052684 TTCAATATCG
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
74 66 0.52
75 60 0.48
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (75 bp):
ATTATCATCGGTATATCCAACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGG
GCTCACAATT
Found at i:132055050 original size:40 final size:37
Alignment explanation
Indices: 132054949--132055082 Score: 159
Period size: 35 Copynumber: 3.6 Consensus size: 37
132054939 TTTCTCATTA
* * *
132054949 AAATACTATACCTACATTTTACAACTCGGTATGG--G
1 AAATACCATACCTACATTTCACAACTCAGTATGGATG
* **
132054984 AAATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 AAATACCATACCTACATTTCACAACTCAGTATGGA--TG
132055023 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 A-AATACCATACCTACATTTCACAACTCAGTATGGATG
132055061 --ATACCATACCTACATTTCACAA
1 AAATACCATACCTACATTTCACAA
132055083 TTTGCCATGG
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
35 50 0.59
38 2 0.02
39 2 0.02
40 31 0.36
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (37 bp):
AAATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:132056552 original size:28 final size:28
Alignment explanation
Indices: 132056491--132056588 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
132056481 TCACAAATTG
** * *
132056491 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
132056520 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
132056548 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
132056576 GCACTAAGTGTGC
1 GCACTAAGTGTGC
132056589 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:132058067 original size:46 final size:44
Alignment explanation
Indices: 132057963--132058070 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
132057953 TGTCTTTGAC
** * * *
132057963 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
132058007 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
132058053 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
132058071 TTTCGTTCTG
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:132065428 original size:46 final size:44
Alignment explanation
Indices: 132065324--132065431 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
132065314 TGTCTTTGAC
** * * *
132065324 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
132065368 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
132065414 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
132065432 TTTCGTTCTG
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:132072796 original size:46 final size:44
Alignment explanation
Indices: 132072692--132072799 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
132072682 TGTCTTTGAC
** * * *
132072692 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
132072736 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
132072782 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
132072800 TTTCGTTCTG
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:132076038 original size:13 final size:13
Alignment explanation
Indices: 132076020--132076058 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
132076010 GCCACTTGGC
132076020 TGTGTGAGCCACA
1 TGTGTGAGCCACA
132076033 TGTGTGAGCCACA
1 TGTGTGAGCCACA
132076046 TG-GTCGAGCCACA
1 TGTGT-GAGCCACA
132076059 CGGGAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (13 bp):
TGTGTGAGCCACA
Found at i:132080662 original size:28 final size:28
Alignment explanation
Indices: 132080629--132080701 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
132080619 AGCCTATTTC
132080629 TTTATAATTTTTAAATAATTAAATCAAA
1 TTTATAATTTTTAAATAATTAAATCAAA
* *
132080657 TTTAT-ATAATTTAAATGATTAAATCAAA
1 TTTATAAT-TTTTAAATAATTAAATCAAA
*
132080685 TTTAAAATTTTATAAAT
1 TTTATAATTTT-TAAAT
132080702 TACAAAGAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 2 0.05
28 29 0.76
29 7 0.18
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (28 bp):
TTTATAATTTTTAAATAATTAAATCAAA
Found at i:132081325 original size:28 final size:30
Alignment explanation
Indices: 132081261--132081337 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 30
132081251 AAATCTTAAA
* * *
132081261 TTTATACATAAATTTTAGTTTAATATGTAAT
1 TTTATATATGAATTTTAGTTT-ATATATAAT
*
132081292 TGTATATATGAATTTTA-TTT-TATATAAT
1 TTTATATATGAATTTTAGTTTATATATAAT
132081320 TTTATATATGATATTTTA
1 TTTATATATGA-ATTTTA
132081338 ATTTGATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 17 0.43
29 6 0.15
30 3 0.08
31 14 0.35
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTATATATGAATTTTAGTTTATATATAAT
Found at i:132081821 original size:54 final size:54
Alignment explanation
Indices: 132081757--132081867 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
132081747 TTAGTTATGT
*
132081757 ATTGGGTAAACTGATAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
1 ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
*
132081811 ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAATAATTAAAAAGAAAATTA
1 ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
132081865 ATT
1 ATT
132081868 TAGTCTATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (54 bp):
ATTGGGTAAACTGACAGTGACTTTTATCTACCCTAAAAATTAAAAAGAAAATTA
Found at i:132086606 original size:28 final size:28
Alignment explanation
Indices: 132086569--132086675 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
132086559 GCAATCAAAT
*
132086569 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
132086597 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
132086625 ATGTCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
132086653 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
132086676 CGAATGATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:132089152 original size:15 final size:15
Alignment explanation
Indices: 132089132--132089162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
132089122 TAATATAAAA
132089132 TTTATAAAAAAATAT
1 TTTATAAAAAAATAT
*
132089147 TTTATAAATAAATAT
1 TTTATAAAAAAATAT
132089162 T
1 T
132089163 ATAACACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTATAAAAAAATAT
Found at i:132097571 original size:11 final size:10
Alignment explanation
Indices: 132097554--132097588 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
132097544 CAAAATGGTT
132097554 TTTTTTTAAA
1 TTTTTTTAAA
132097564 TATTTTTTAAA
1 T-TTTTTTAAA
132097575 TTTTTCTTAAA
1 TTTTT-TTAAA
132097586 TTT
1 TTT
132097589 AAAATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:132099184 original size:7 final size:7
Alignment explanation
Indices: 132099168--132099222 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
132099158 AACTTAAACT
132099168 TGAAAAA
1 TGAAAAA
*
132099175 TGAAACA
1 TGAAAAA
132099182 TGAAAAA
1 TGAAAAA
132099189 TGAAAAA
1 TGAAAAA
132099196 --AAAAA
1 TGAAAAA
*
132099201 TGGAAAA
1 TGAAAAA
*
132099208 TGGAAAA
1 TGAAAAA
*
132099215 TGGAAAA
1 TGAAAAA
132099222 T
1 T
132099223 AGATTATATG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
5 5 0.12
7 38 0.88
ACGTcount: A:0.65, C:0.02, G:0.18, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:132099185 original size:14 final size:14
Alignment explanation
Indices: 132099163--132099193 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
132099153 TAATTAACTT
*
132099163 AAACTTGAAAAATG
1 AAACATGAAAAATG
132099177 AAACATGAAAAATG
1 AAACATGAAAAATG
132099191 AAA
1 AAA
132099194 AAAAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (14 bp):
AAACATGAAAAATG
Found at i:132099214 original size:26 final size:26
Alignment explanation
Indices: 132099170--132099221 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
132099160 CTTAAACTTG
132099170 AAAAATGAAACATGAAAAATGAAAAA
1 AAAAATGAAACATGAAAAATGAAAAA
* *
132099196 AAAAATGGAAA-ATGGAAAATGGAAAA
1 AAAAAT-GAAACATGAAAAATGAAAAA
132099222 TAGATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (26 bp):
AAAAATGAAACATGAAAAATGAAAAA
Found at i:132101913 original size:2 final size:2
Alignment explanation
Indices: 132101906--132101931 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
132101896 ATTCTATGAG
132101906 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
132101932 AATTTACTTC
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):
TA
Found at i:132103786 original size:22 final size:21
Alignment explanation
Indices: 132103753--132103795 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
132103743 TAACTTCTTA
*
132103753 TATTTTTCGAATTTATTTTAAT
1 TATTTTTCGAATAT-TTTTAAT
132103775 TATTATTT-GAATATTTTTAAT
1 TATT-TTTCGAATATTTTTAAT
132103796 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
TATTTTTCGAATATTTTTAAT
Found at i:132105344 original size:110 final size:110
Alignment explanation
Indices: 132105151--132105370 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
132105141 CTAGTCTCCA
132105151 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
1 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
132105216 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
66 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
132105261 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
1 AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
132105326 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
66 AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
132105371 TGAAAAAGTA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (110 bp):
AGCCCTATCACATGTGAAGAATAAGTGTTGAATCGATTCTAAATCATTGTAACAAAAACATGAGC
AGAAGAAGCGAAGATAATTCCTCTCTTAGAGTGTGCTTGATTGTT
Found at i:132105756 original size:8 final size:8
Alignment explanation
Indices: 132105740--132105770 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
132105730 TCCCACCCCT
*
132105740 TCAATTTA
1 TCAAATTA
132105748 TCAAATTA
1 TCAAATTA
132105756 TCAAATTA
1 TCAAATTA
132105764 TCAAATT
1 TCAAATT
132105771 TCTTTTCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (8 bp):
TCAAATTA
Found at i:132109096 original size:30 final size:31
Alignment explanation
Indices: 132109035--132109102 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
132109025 TTAAAATTTT
** **
132109035 ATATATAAAATTACGCGTTAAATTAAAGTTC
1 ATATATAAAATTACGAATTAAACCAAAGTTC
*
132109066 ATATATAAAATTAC-AATTAAACCAATGTTC
1 ATATATAAAATTACGAATTAAACCAAAGTTC
*
132109096 ATGTATA
1 ATATATA
132109103 TTTTTTAGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (31 bp):
ATATATAAAATTACGAATTAAACCAAAGTTC
Found at i:132113631 original size:28 final size:28
Alignment explanation
Indices: 132113591--132113644 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
132113581 AAGTGTAGAG
132113591 TATCAAGTTCTTTACAATGTAATAATGT
1 TATCAAGTTCTTTACAATGTAATAATGT
132113619 TATCAAGTTCTTTACAATGTAATAAT
1 TATCAAGTTCTTTACAATGTAATAAT
132113645 CCTATGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (28 bp):
TATCAAGTTCTTTACAATGTAATAATGT
Found at i:132117020 original size:18 final size:18
Alignment explanation
Indices: 132116997--132117032 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
132116987 TACTTGATTC
132116997 GTTTCCTCCTTTATCTTT
1 GTTTCCTCCTTTATCTTT
132117015 GTTTCCTCCTTTATCTTT
1 GTTTCCTCCTTTATCTTT
132117033 ATTACCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.28, G:0.06, T:0.61
Consensus pattern (18 bp):
GTTTCCTCCTTTATCTTT
Found at i:132125977 original size:3 final size:3
Alignment explanation
Indices: 132125969--132126013 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
132125959 CGATAAAGAC
132125969 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
132126014 CATAAAGATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:132137752 original size:18 final size:17
Alignment explanation
Indices: 132137731--132137777 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
132137721 TGAATATTTG
132137731 TTTTAAATAAATAATATA
1 TTTTAAATAAATAATA-A
*
132137749 TTTTTAATAAATAATAA
1 TTTTAAATAAATAATAA
132137766 TTATTAATATAA
1 TT-TTAA-ATAA
132137778 TGATATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTAAATAAATAATAA
Found at i:132139922 original size:14 final size:14
Alignment explanation
Indices: 132139903--132139931 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
132139893 ATAAAATCTC
132139903 TGTGTTTTATTTTT
1 TGTGTTTTATTTTT
132139917 TGTGTTTTATTTTT
1 TGTGTTTTATTTTT
132139931 T
1 T
132139932 ATTATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (14 bp):
TGTGTTTTATTTTT
Found at i:132140945 original size:17 final size:17
Alignment explanation
Indices: 132140925--132140963 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
132140915 AAATTTAAAT
132140925 TTAAATGAAATA-AAAAA
1 TTAAAT-AAATAGAAAAA
*
132140942 TTAAATAAATAGATAAA
1 TTAAATAAATAGAAAAA
132140959 TTAAA
1 TTAAA
132140964 AATGAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TTAAATAAATAGAAAAA
Found at i:132141330 original size:30 final size:29
Alignment explanation
Indices: 132141285--132141353 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
132141275 AAATAAATAG
132141285 AAAAAT-ATATAAAATTATTAAATATTAAATT
1 AAAAATAATATAAAATTATT---TATTAAATT
*
132141316 -AAAATAATAT-AAATTATTTTTTAAATT
1 AAAAATAATATAAAATTATTTATTAAATT
132141343 AAAAATAATAT
1 AAAAATAATAT
132141354 TGGTGGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 8 0.23
28 10 0.29
30 13 0.37
31 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAAATAATATAAAATTATTTATTAAATT
Found at i:132146760 original size:45 final size:45
Alignment explanation
Indices: 132146709--132146799 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
132146699 TCATGAATAC
132146709 TATGGTATGCTATTGCATATGAATGCTATTAAATTGTGATAATTG
1 TATGGTATGCTATTGCATATGAATGCTATTAAATTGTGATAATTG
132146754 TATGGTATGCTATTGCATATGAATGCTATTAAATTGTGATAATTG
1 TATGGTATGCTATTGCATATGAATGCTATTAAATTGTGATAATTG
132146799 T
1 T
132146800 GAAATAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.43
Consensus pattern (45 bp):
TATGGTATGCTATTGCATATGAATGCTATTAAATTGTGATAATTG
Found at i:132146954 original size:47 final size:47
Alignment explanation
Indices: 132146885--132146983 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
132146875 ATTGATGGAA
* *
132146885 AAGACCATGATTGGACCATGGCAAC-ATGTGATATGTGATTTCCGTAT
1 AAGACCATGATTGGACCATGGCAACGATGTGATATGTG-CTTCCATAT
* * * *
132146932 AAGACCAT-AGTTGGGCTATGGCATCGGTGTGATATGTGCTTCCATAT
1 AAGACCATGA-TTGGACCATGGCAACGATGTGATATGTGCTTCCATAT
132146979 AAGAC
1 AAGAC
132146984 AATAACTGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
46 1 0.02
47 32 0.73
48 11 0.25
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (47 bp):
AAGACCATGATTGGACCATGGCAACGATGTGATATGTGCTTCCATAT
Found at i:132147117 original size:47 final size:47
Alignment explanation
Indices: 132146911--132147132 Score: 187
Period size: 47 Copynumber: 4.6 Consensus size: 47
132146901 CATGGCAACA
* * * *
132146911 TGTGATATGTGATTTCCGTATAAGACCATAGT-TGGGCTATGGCATCGG
1 TGTGATATGTGA-TTCCATATAAGACCATA-TCTGGGATATGACATCAG
* * * * *
132146959 TGTGATATGTGCTTCCATATAAGACAATAACTGGGTTATGACATTAGTG
1 TGTGATATGTGATTCCATATAAGACCATATCTGGGATATGACATCA--G
* ** * * *
132147008 TAATGTGATTATGTGCTTCCATATAAGATTATATATGAGATATGACATCGG
1 ---TGTGA-TATGTGATTCCATATAAGACCATATCTGGGATATGACATCAG
**
132147059 TGTGATATGTGATTCTTTATAAGACCATATCTGGGATATGACATCAG
1 TGTGATATGTGATTCCATATAAGACCATATCTGGGATATGACATCAG
* *
132147106 TGTGATATGTGA-TCCGTGTAAGACCAT
1 TGTGATATGTGATTCCATATAAGACCAT
132147133 GGTTGGACTA
Statistics
Matches: 140, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
46 12 0.09
47 72 0.51
48 16 0.11
49 1 0.01
51 1 0.01
52 5 0.04
53 33 0.24
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (47 bp):
TGTGATATGTGATTCCATATAAGACCATATCTGGGATATGACATCAG
Found at i:132157482 original size:40 final size:40
Alignment explanation
Indices: 132157425--132157500 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
132157415 GTTATCACTT
132157425 GATGATGGTTCAATTCTAGTTGGGATAAAAGTTAAACTGA
1 GATGATGGTTCAATTCTAGTTGGGATAAAAGTTAAACTGA
*
132157465 GATGATGGTTCACTTCTAGTTGGGATAAAAGTTAAA
1 GATGATGGTTCAATTCTAGTTGGGATAAAAGTTAAA
132157501 TTGACTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (40 bp):
GATGATGGTTCAATTCTAGTTGGGATAAAAGTTAAACTGA
Found at i:132159863 original size:3 final size:3
Alignment explanation
Indices: 132159855--132159954 Score: 62
Period size: 3 Copynumber: 32.3 Consensus size: 3
132159845 TGAATTTCTA
* * * *
132159855 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * *
132159903 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TA- TATT TAC TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
132159948 TAT TAT T
1 TAT TAT T
132159955 TATAAATATT
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 5 0.07
3 59 0.79
4 11 0.15
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:132159881 original size:19 final size:19
Alignment explanation
Indices: 132159857--132159893 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
132159847 AATTTCTATA
*
132159857 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
132159876 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
132159894 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:132159927 original size:24 final size:24
Alignment explanation
Indices: 132159900--132159958 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
132159890 GTTATGTACA
132159900 TATTATTTATACTATACTTAATAT
1 TATTATTTATACTATACTTAATAT
* * *
132159924 TATTA-TTATTATTATATTTACTAT
1 TATTATTTA-TACTATACTTAATAT
132159948 TATTATTTATA
1 TATTATTTATA
132159959 AATATTAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 24 0.80
25 3 0.10
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATTTATACTATACTTAATAT
Found at i:132162876 original size:53 final size:53
Alignment explanation
Indices: 132162724--132162877 Score: 181
Period size: 52 Copynumber: 2.9 Consensus size: 53
132162714 TGACGGAAAA
132162724 GATGTGATATGT-ACTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * * **
132162776 AATGTGGT-T-CGAGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGACTT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * *
132162828 GATGTGATAATGTGA-TTCCGTATAAGACCATATCTGGGATATGACATCGG
1 GATGTGAT-ATGTGACTTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
132162878 CATGTTATGT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
51 4 0.05
52 46 0.54
53 30 0.35
54 3 0.04
55 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (53 bp):
GATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
Found at i:132164666 original size:24 final size:25
Alignment explanation
Indices: 132164639--132164686 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
132164629 TAAAAATAAA
132164639 ATACATGTGTAATAAATAT-TGTAC
1 ATACATGTGTAATAAATATATGTAC
* * *
132164663 ATACATTTGTGATACATATATGTA
1 ATACATGTGTAATAAATATATGTA
132164687 TTTACTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (25 bp):
ATACATGTGTAATAAATATATGTAC
Found at i:132164857 original size:13 final size:13
Alignment explanation
Indices: 132164839--132164866 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
132164829 ATTTAATTAT
132164839 TAAAAGATATTTA
1 TAAAAGATATTTA
132164852 TAAAAGATATTTA
1 TAAAAGATATTTA
132164865 TA
1 TA
132164867 TGATAAATAA
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:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
TAAAAGATATTTA
Found at i:132165112 original size:2 final size:2
Alignment explanation
Indices: 132165101--132165144 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
132165091 TTAAGTTAAC
132165101 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132165142 AT A
1 AT A
132165145 AAAAGTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:132178265 original size:18 final size:18
Alignment explanation
Indices: 132178242--132178284 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
132178232 GAAAAGATTT
132178242 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
132178260 TTAATTAAAAACTTTAAA
1 TTAATTAAAAAATTTAAA
132178278 TTAATTA
1 TTAATTA
132178285 CACTTTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:132178731 original size:2 final size:2
Alignment explanation
Indices: 132178724--132178755 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
132178714 ATGTTATAGA
132178724 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
132178756 TGTTAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:132180011 original size:31 final size:31
Alignment explanation
Indices: 132179976--132180045 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
132179966 GTCATAAAAT
132179976 AGTCACTAAACTATTC-ATAAATTTTCATTTA
1 AGTCACTAAACTATTCGA-AAATTTTCATTTA
* * * *
132180007 AGTCAGTAAACTGTTCGAAAATTTTTATTTT
1 AGTCACTAAACTATTCGAAAATTTTCATTTA
132180038 AGTCACTA
1 AGTCACTA
132180046 GGTTGTTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (31 bp):
AGTCACTAAACTATTCGAAAATTTTCATTTA
Found at i:132182769 original size:16 final size:16
Alignment explanation
Indices: 132182743--132182782 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
132182733 AATTATACGT
*
132182743 GTATATATTTTTATATA
1 GTAT-TATTTTCATATA
132182760 GTATTATTTTCATATA
1 GTATTATTTTCATATA
*
132182776 ATATTAT
1 GTATTAT
132182783 ACTCATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (16 bp):
GTATTATTTTCATATA
Found at i:132183096 original size:17 final size:17
Alignment explanation
Indices: 132183036--132183098 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
132183026 GTATCATGTA
132183036 TATATTTTAGT-TACTATG
1 TATATTTTA-TATA-TATG
* *
132183054 TTATATTTT-TACATCT-
1 -TATATTTTATATATATG
*
132183070 TATATCTTATATATATG
1 TATATTTTATATATATG
132183087 TATATTTTATAT
1 TATATTTTATAT
132183099 CTTATATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
15 7 0.20
16 5 0.14
17 14 0.40
18 1 0.03
19 8 0.23
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (17 bp):
TATATTTTATATATATG
Found at i:132183096 original size:24 final size:24
Alignment explanation
Indices: 132183069--132183127 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
132183059 TTTTTACATC
132183069 TTATATCTTATATATATGTATATT
1 TTATATCTTATATATATGTATATT
132183093 TTATATCTTATATATATGTATATT
1 TTATATCTTATATATATGTATATT
*
132183117 TTATATGTTAT
1 TTATATCTTAT
132183128 GTACATACTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (24 bp):
TTATATCTTATATATATGTATATT
Found at i:132183123 original size:13 final size:13
Alignment explanation
Indices: 132183081--132183124 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
132183071 ATATCTTATA
132183081 TATATGTATATTT
1 TATATGTATATTT
* *
132183094 TATATCT-TA-TA
1 TATATGTATATTT
132183105 TATATGTATATTT
1 TATATGTATATTT
132183118 TATATGT
1 TATATGT
132183125 TATGTACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.28
12 4 0.16
13 14 0.56
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (13 bp):
TATATGTATATTT
Found at i:132183780 original size:8 final size:8
Alignment explanation
Indices: 132183763--132183796 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
132183753 CAAAATCAAA
132183763 TTTC-AGT
1 TTTCGAGT
132183770 TTTCGAGT
1 TTTCGAGT
132183778 TTTCGAGT
1 TTTCGAGT
132183786 TTTCGAGT
1 TTTCGAGT
132183794 TTT
1 TTT
132183797 AAATAGATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (8 bp):
TTTCGAGT
Found at i:132190732 original size:14 final size:15
Alignment explanation
Indices: 132190713--132190745 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
132190703 AAACCATACA
*
132190713 GTTCGCTTAT-ATGG
1 GTTCGCATATGATGG
132190727 GTTCGCATATGATGG
1 GTTCGCATATGATGG
132190742 GTTC
1 GTTC
132190746 AACACCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.39
Consensus pattern (15 bp):
GTTCGCATATGATGG
Found at i:132194629 original size:13 final size:14
Alignment explanation
Indices: 132194611--132194643 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
132194601 GTAAAAATAT
132194611 TAAATTTAAA-AAA
1 TAAATTTAAATAAA
132194624 TAAATTTAAATAAA
1 TAAATTTAAATAAA
132194638 TAAATT
1 TAAATT
132194644 AGACCCGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAATTTAAATAAA
Found at i:132204442 original size:24 final size:25
Alignment explanation
Indices: 132204404--132204458 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
132204394 TAATTCAAAT
132204404 ATATAAACTATATTTTAAACATTAAA
1 ATAT-AACTATATTTTAAACATTAAA
*
132204430 ATATAAC-ATATTTTAAATATTAAA
1 ATATAACTATATTTTAAACATTAAA
132204454 ATATA
1 ATATA
132204459 TAATATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 21 0.75
25 3 0.11
26 4 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAACTATATTTTAAACATTAAA
Found at i:132204459 original size:26 final size:26
Alignment explanation
Indices: 132204400--132204461 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 26
132204390 AAATTAATTC
132204400 AAATATATAAACTATATTTTAAACATT
1 AAATATAT-AACTATATTTTAAACATT
*
132204427 AAA-ATATAAC-ATATTTTAAATATT
1 AAATATATAACTATATTTTAAACATT
132204451 AAAATATATAA
1 -AAATATATAA
132204462 TATCATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 13 0.41
25 6 0.19
26 10 0.31
27 3 0.09
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATATATAACTATATTTTAAACATT
Found at i:132208024 original size:2 final size:2
Alignment explanation
Indices: 132208017--132208041 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
132208007 TCTTTTACTT
132208017 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
132208042 TACTAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:132208335 original size:17 final size:18
Alignment explanation
Indices: 132208294--132208340 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
132208284 GTTTATATAT
132208294 TTTTAAT-TTTTATTTAC
1 TTTTAATATTTTATTTAC
132208311 TTTT--TATTTTATTTA-
1 TTTTAATATTTTATTTAC
*
132208326 TTTTAATATTATATT
1 TTTTAATATTTTATT
132208341 ATTCTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.19
16 9 0.35
17 12 0.46
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTAATATTTTATTTAC
Found at i:132209914 original size:17 final size:17
Alignment explanation
Indices: 132209892--132209928 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
132209882 CGATTAATAT
132209892 TAATTATTTTAATTACG
1 TAATTATTTTAATTACG
132209909 TAATTATTTTAATTACG
1 TAATTATTTTAATTACG
132209926 TAA
1 TAA
132209929 GAACATTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTATTTTAATTACG
Found at i:132211624 original size:18 final size:17
Alignment explanation
Indices: 132211603--132211639 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
132211593 TAACGGAACC
132211603 AAAAAAATAAAAAAATAA
1 AAAAAAATAAAAAAA-AA
132211621 AAAAAAATAAAAAAAAA
1 AAAAAAATAAAAAAAAA
132211638 AA
1 AA
132211640 GCAGAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAAAAATAAAAAAAAA
Found at i:132211638 original size:11 final size:10
Alignment explanation
Indices: 132211603--132211637 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
132211593 TAACGGAACC
132211603 AAAAAAAT--
1 AAAAAAATAA
132211611 AAAAAAATAA
1 AAAAAAATAA
132211621 AAAAAAATAA
1 AAAAAAATAA
132211631 AAAAAAA
1 AAAAAAA
132211638 AAGCAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
10 17 0.68
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:132230713 original size:30 final size:30
Alignment explanation
Indices: 132230672--132230731 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
132230662 GAGTATCCAA
* *
132230672 ACTAAATCCAATTGGTAATAGAAGGAGGAC
1 ACTAAAGCCAATTCGTAATAGAAGGAGGAC
*
132230702 ACTAAAGCCAATTCGTAATCGAAGGAGGAC
1 ACTAAAGCCAATTCGTAATAGAAGGAGGAC
132230732 TTAACTCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (30 bp):
ACTAAAGCCAATTCGTAATAGAAGGAGGAC
Found at i:132234189 original size:2 final size:2
Alignment explanation
Indices: 132234182--132234206 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
132234172 TGTCAATTTT
132234182 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
132234207 GGGAAATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:132242298 original size:6 final size:6
Alignment explanation
Indices: 132242287--132242311 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
132242277 AATCGACTTG
132242287 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
132242312 AGTTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:132248970 original size:25 final size:26
Alignment explanation
Indices: 132248934--132249011 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
132248924 GTTGTTTATC
*
132248934 AAAAACTT-TTAATA-TTTAAAAATTT
1 AAAAA-TTATTAATATTTTAAAAATAT
132248959 AAAAATTATTAATATTTTTAAAAATAT
1 AAAAATTATTAATA-TTTTAAAAATAT
* *
132248986 AAAAATTATATATTTTTTTAAAAATA
1 AAAAATTAT-TAATATTTTAAAAATA
132249012 ATAGCTTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 2 0.04
25 11 0.24
27 30 0.65
28 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAAATTATTAATATTTTAAAAATAT
Found at i:132248988 original size:27 final size:27
Alignment explanation
Indices: 132248948--132249011 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
132248938 ACTTTTAATA
*
132248948 TTTAAAAATTTAAAAATTAT-TAATATT
1 TTTAAAAATATAAAAATTATAT-ATATT
*
132248975 TTTAAAAATATAAAAATTATATATTTT
1 TTTAAAAATATAAAAATTATATATATT
132249002 TTTAAAAATA
1 TTTAAAAATA
132249012 ATAGCTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTAAAAATATAAAAATTATATATATT
Found at i:132249012 original size:25 final size:26
Alignment explanation
Indices: 132248948--132249012 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 26
132248938 ACTTTTAATA
132248948 TTTAAAAATTTAAAAATTATTAATATTT
1 TTTAAAAA--TAAAAATTATTAATATTT
*
132248976 TTAAAAATATAAAAATTA-T-ATATTTT
1 TTTAAAA-ATAAAAATTATTAATA-TTT
132249002 TTTAAAAATAA
1 TTTAAAAATAA
132249013 TAGCTTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 7 0.21
26 10 0.30
27 9 0.27
28 6 0.18
29 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTAAAAATAAAAATTATTAATATTT
Found at i:132250137 original size:6 final size:6
Alignment explanation
Indices: 132250126--132250166 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
132250116 TAAAGTGGGA
* *
132250126 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAA GGAAAA GGAAA
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAA
132250167 ACAATTTCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:132251640 original size:27 final size:27
Alignment explanation
Indices: 132251602--132251656 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
132251592 GAAAACAACG
132251602 TTATTAATAATTAATTTTCACATATTT
1 TTATTAATAATTAATTTTCACATATTT
132251629 TTATTAATAATTAATTTTCACATATTT
1 TTATTAATAATTAATTTTCACATATTT
132251656 T
1 T
132251657 CCAATTTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATTAATAATTAATTTTCACATATTT
Found at i:132252230 original size:19 final size:19
Alignment explanation
Indices: 132252208--132252246 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
132252198 TTCTTTTAGG
132252208 TTTATTTAACT-TTTTTTTC
1 TTTATTT-ACTATTTTTTTC
*
132252227 TTTATTTTCTATTTTTTTC
1 TTTATTTACTATTTTTTTC
132252246 T
1 T
132252247 GCTTCTCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTACTATTTTTTTC
Found at i:132256378 original size:26 final size:26
Alignment explanation
Indices: 132256349--132256401 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
132256339 TCATGTCAAC
132256349 TACCATGAGTGCCGTGATACCAAAGT
1 TACCATGAGTGCCGTGATACCAAAGT
132256375 TACCATGAGTGCCGTGATACCAAAGT
1 TACCATGAGTGCCGTGATACCAAAGT
132256401 T
1 T
132256402 TGGGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (26 bp):
TACCATGAGTGCCGTGATACCAAAGT
Found at i:132257389 original size:3 final size:3
Alignment explanation
Indices: 132257381--132257408 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
132257371 TTCTGCATCC
132257381 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
132257409 CAATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:132257840 original size:15 final size:15
Alignment explanation
Indices: 132257820--132257857 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
132257810 TCAAAATTAA
132257820 ATTTTTTTAATA-TC
1 ATTTTTTTAATATTC
*
132257834 TATTTTTATAATATTC
1 -ATTTTTTTAATATTC
132257850 ATTTTTTT
1 ATTTTTTT
132257858 CTTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAATATTC
Found at i:132259181 original size:20 final size:20
Alignment explanation
Indices: 132259156--132259206 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
132259146 ATTAATTATT
*
132259156 TATAAAATTTAATTAAAATA
1 TATAAAATATAATTAAAATA
* *
132259176 TATAAACTATAATTTAAATA
1 TATAAAATATAATTAAAATA
*
132259196 T-TTAAATATAA
1 TATAAAATATAA
132259207 CTATTAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAAATATAATTAAAATA
Found at i:132259213 original size:21 final size:20
Alignment explanation
Indices: 132259165--132259219 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
132259155 TTATAAAATT
* *
132259165 TAATTAAAATATATAAACTA
1 TAATTTAAATATTTAAACTA
132259185 TAATTTAAATATTTAAA-TA
1 TAATTTAAATATTTAAACTA
132259204 TAACTATTAAATATTT
1 TAA-T-TTAAATATTT
132259220 GTAATTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 5 0.16
20 16 0.52
21 10 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATTTAAATATTTAAACTA
Found at i:132259253 original size:20 final size:21
Alignment explanation
Indices: 132259228--132259266 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
132259218 TTGTAATTAA
132259228 TATTTTAA-AAATAATTTTTT
1 TATTTTAATAAATAATTTTTT
*
132259248 TATTTTAATTAATAATTTT
1 TATTTTAATAAATAATTTT
132259267 AACACATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTAATAAATAATTTTTT
Found at i:132259665 original size:20 final size:21
Alignment explanation
Indices: 132259637--132259677 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
132259627 AACCCTTCTA
132259637 ATATATTTTATATAAT-ATTT
1 ATATATTTTATATAATGATTT
* *
132259657 ATATTTTTTATGTAATGATTT
1 ATATATTTTATATAATGATTT
132259678 TCTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
ATATATTTTATATAATGATTT
Found at i:132263395 original size:29 final size:28
Alignment explanation
Indices: 132263354--132263412 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
132263344 GGGTGAATAA
* *
132263354 TTAGGGACCATTTTATAATTTTTCATAG
1 TTAGGGACCATTTCATAACTTTTCATAG
* *
132263382 TTAGGTGATCATTTCGTAACTTTTCATAG
1 TTAGG-GACCATTTCATAACTTTTCATAG
132263411 TT
1 TT
132263413 GGATGACCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (28 bp):
TTAGGGACCATTTCATAACTTTTCATAG
Found at i:132264596 original size:51 final size:51
Alignment explanation
Indices: 132264525--132264638 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
132264515 CTGATCACAT
132264525 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
132264576 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
132264627 TTGTCGCTTGTC
1 TTATCACTTGTC
132264639 GCTTGTCACT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:132265649 original size:11 final size:11
Alignment explanation
Indices: 132265635--132265695 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
132265625 TATTTATATT
132265635 ATATTATTTTA
1 ATATTATTTTA
**
132265646 ATATT-TAATA
1 ATATTATTTTA
*
132265656 ATTTTATTTTA
1 ATATTATTTTA
132265667 TATAATTATTTTA
1 -AT-ATTATTTTA
*
132265680 ACATTATTTTA
1 ATATTATTTTA
132265691 ATATT
1 ATATT
132265696 TATATTAGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
10 7 0.18
11 21 0.54
12 3 0.08
13 8 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATTATTTTA
Found at i:132265673 original size:15 final size:15
Alignment explanation
Indices: 132265627--132265673 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
132265617 TAAAAAAGTA
* *
132265627 TTTATATTATATTAT
1 TTTATTTTATATAAT
132265642 TTTAATATTTA-ATAAT
1 TTT-AT-TTTATATAAT
132265658 TTTATTTTATATAAT
1 TTTATTTTATATAAT
132265673 T
1 T
132265674 ATTTTAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.15
15 11 0.41
16 9 0.33
17 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATTTTATATAAT
Found at i:132265677 original size:18 final size:20
Alignment explanation
Indices: 132265632--132265679 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
132265622 AAGTATTTAT
*
132265632 ATTATATTATTTTAATATTTA
1 ATTATTTTATTTTAATA-TTA
*
132265653 ATAATTTTATTTT-ATA-TA
1 ATTATTTTATTTTAATATTA
132265671 ATTATTTTA
1 ATTATTTTA
132265680 ACATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.42
20 3 0.12
21 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATTTTATTTTAATATTA
Found at i:132273243 original size:2 final size:2
Alignment explanation
Indices: 132273236--132273269 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
132273226 CTCAAAACAA
132273236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132273270 AGCCTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:132281200 original size:12 final size:13
Alignment explanation
Indices: 132281171--132281195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132281161 AAACATATTT
132281171 ATATTTTTTAAAA
1 ATATTTTTTAAAA
132281184 ATATTTTTTAAA
1 ATATTTTTTAAA
132281196 TTATTAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:132284368 original size:20 final size:19
Alignment explanation
Indices: 132284337--132284389 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
132284327 CTTTTAGAAT
132284337 ATTTTTAT--ATATTTTAAA
1 ATTTTTATAAATATTTT-AA
132284355 ATTTTTATAAATATTTTAA
1 ATTTTTATAAATATTTTAA
*
132284374 ATTTTAATAAATATTT
1 ATTTTTATAAATATTT
132284390 GGATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 8 0.25
19 17 0.53
20 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTATAAATATTTTAA
Found at i:132284395 original size:18 final size:19
Alignment explanation
Indices: 132284345--132284417 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
132284335 ATATTTTTAT
*
132284345 ATATTTTAAAATTTTTATAA
1 ATATTTT-AAATTTTAATAA
132284365 ATATTTTAAATTTTAATAA
1 ATATTTTAAATTTTAATAA
** * *
132284384 ATATTTGGATTTTTAAAAA
1 ATATTTTAAATTTTAATAA
*
132284403 ATTATTTTTAATTTT
1 A-TATTTTAAATTTT
132284418 TTTTTTGTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 27 0.61
20 17 0.39
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTTTAAATTTTAATAA
Found at i:132299337 original size:6 final size:6
Alignment explanation
Indices: 132299326--132299369 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
132299316 TTCTTCTATC
132299326 TTTATT TTTATT TTTATT TTTA-T TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
132299370 GGCTTCAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Done.