Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 120 of 175
Found at i:37642030 original size:27 final size:26
Alignment explanation
Indices: 37641984--37642034 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
37641974 GTTATAAAAC
*
37641984 AAAGAGAAATGAAGAGAATAAAGAAT
1 AAAGAAAAATGAAGAGAATAAAGAAT
37642010 AAAGAAAATATGAA-AGCAATAAAGA
1 AAAGAAAA-ATGAAGAG-AATAAAGA
37642035 GTGTACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.12
Consensus pattern (26 bp):
AAAGAAAAATGAAGAGAATAAAGAAT
Found at i:37642617 original size:22 final size:22
Alignment explanation
Indices: 37642592--37642656 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
37642582 AATATTAATT
37642592 TTAAATTTATTTATTTAAAAT-A
1 TTAAA-TTATTTATTTAAAATAA
*
37642614 TTAAATTA-TTATTTAATATAAA
1 TTAAATTATTTATTTAAAAT-AA
* *
37642636 TAAAATTATTTTTTTATAAAT
1 TTAAATTATTTATTTA-AAAT
37642657 GAAATATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 10 0.29
21 3 0.09
22 13 0.37
23 6 0.17
24 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAAATTATTTATTTAAAATAA
Found at i:37642655 original size:20 final size:20
Alignment explanation
Indices: 37642593--37642665 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
37642583 ATATTAATTT
* *
37642593 TAAATTTATTTATTTA-AAA
1 TAAAATTATTTTTTTATAAA
*
37642612 TATTAAATTATTATTTAATATAAA
1 TA--AAATTATT-TTT-TTATAAA
37642636 TAAAATTATTTTTTTATAAA
1 TAAAATTATTTTTTTATAAA
*
37642656 TGAAA-TATTT
1 TAAAATTATTT
37642666 AACCCCTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 7 0.16
20 10 0.23
21 10 0.23
22 10 0.23
23 2 0.05
24 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (20 bp):
TAAAATTATTTTTTTATAAA
Found at i:37650636 original size:28 final size:28
Alignment explanation
Indices: 37650594--37650654 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
37650584 CTGTTTAGTA
*
37650594 ACAGT-ACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATATGGGCCTTAGCCCAAT
*
37650621 ATAGTAACAATATGGGCCTTAGCCCAAT
1 ACAGTAACAATATGGGCCTTAGCCCAAT
37650649 ACAGTA
1 ACAGTA
37650655 TCGGTATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATATGGGCCTTAGCCCAAT
Found at i:37651038 original size:27 final size:27
Alignment explanation
Indices: 37651008--37651083 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 27
37650998 TCATCTCTTA
37651008 GGGGTATAAT-AGTCATTTTACCATATG
1 GGGGTAT-ATCAGTCATTTTACCATATG
* * * *
37651035 GGGGTATTTCGGTCATTTTATCATGTG
1 GGGGTATATCAGTCATTTTACCATATG
37651062 GGGGTA-ATTC-GATCATTTTACC
1 GGGGTATA-TCAG-TCATTTTACC
37651084 CTGTAAGGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.39
Consensus pattern (27 bp):
GGGGTATATCAGTCATTTTACCATATG
Found at i:37651093 original size:27 final size:27
Alignment explanation
Indices: 37651036--37651162 Score: 159
Period size: 27 Copynumber: 4.7 Consensus size: 27
37651026 TACCATATGG
* * * * **
37651036 GGGTATTTCGGTCATTTTATCATGTGG
1 GGGTAATTCGATCATTTTACCCTGTAA
37651063 GGGTAATTCGATCATTTTACCCTGTAA
1 GGGTAATTCGATCATTTTACCCTGTAA
37651090 GGGTAATTCGATCATTTTACCCTGTAA
1 GGGTAATTCGATCATTTTACCCTGTAA
*
37651117 GGGTAATT-TAGTCATTTTACCCTGT-A
1 GGGTAATTCGA-TCATTTTACCCTGTAA
37651143 GAGGTAATTCGATCATTTTA
1 G-GGTAATTCGATCATTTTA
37651163 TGACCTCTCG
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.03
27 85 0.96
28 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTAATTCGATCATTTTACCCTGTAA
Found at i:37651094 original size:54 final size:53
Alignment explanation
Indices: 37651018--37651163 Score: 159
Period size: 54 Copynumber: 2.7 Consensus size: 53
37651008 GGGGTATAAT
* * * * * **
37651018 AGTCATTTTACCATATGGGGGTATTTCGGTCATTTTATCATGTGGGGGTAATTCG
1 AGTCATTTTACCCTGT-AGGGTAATTCGATCATTTTATCATGTAAGGGTAATT-G
* * *
37651073 A-TCATTTTACCCTGTAAGGGTAATTCGATCATTTTACCCTGTAAGGGTAATTT
1 AGTCATTTTACCCTGT-AGGGTAATTCGATCATTTTATCATGTAAGGGTAATTG
37651126 AGTCATTTTACCCTGTAGAGGTAATTCGATCATTTTAT
1 AGTCATTTTACCCTGTAG-GGTAATTCGATCATTTTAT
37651164 GACCTCTCGA
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
53 3 0.04
54 73 0.95
55 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (53 bp):
AGTCATTTTACCCTGTAGGGTAATTCGATCATTTTATCATGTAAGGGTAATTG
Found at i:37654654 original size:44 final size:43
Alignment explanation
Indices: 37654605--37654769 Score: 127
Period size: 44 Copynumber: 3.6 Consensus size: 43
37654595 TCGATTCATC
* *
37654605 CCACTACAACTTCAAGGATATAGGATTTGTAGCTTAATCTTGCT
1 CCACTACAACTTCAAGGAGATAAGATTTGTAGCTTAATCTT-CT
* * *
37654649 CCACTACAACTTCAAGGAGATAAGATTCGTTGTTATAAT-TTCAAT
1 CCACTACAACTTCAAGGAGATAAGATTTGTAGCT-TAATCTTC--T
* * *
37654694 CCGATCTAGTACAACTTCAGGGATG-TAGGATTTGTAGCTTCATCTTACT
1 CC-A-C---TACAACTTCAAGGA-GATAAGATTTGTAGCTTAATCTT-CT
* *
37654743 CCATTACATCTTCAAGGAGATAAGATT
1 CCACTACAACTTCAAGGAGATAAGATT
37654770 CGCTACTGTA
Statistics
Matches: 94, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
43 2 0.02
44 49 0.52
45 7 0.07
46 1 0.01
47 1 0.01
48 1 0.01
49 6 0.06
50 25 0.27
51 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (43 bp):
CCACTACAACTTCAAGGAGATAAGATTTGTAGCTTAATCTTCT
Found at i:37654675 original size:94 final size:94
Alignment explanation
Indices: 37654547--37654771 Score: 254
Period size: 94 Copynumber: 2.4 Consensus size: 94
37654537 TTATAACTTT
** * * * * * * * *
37654547 ATCTTACTCCACTGTATCTTCAGGGAGATGAGATTTGTCATTGTAGTTTCGATTC-ATCCCACTA
1 ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCGTCATTATAATTTCAATCCGAT-CCACTA
37654611 CAACTTCAAGGATATAGGATTTGTAGCTTA
65 CAACTTCAAGGATATAGGATTTGTAGCTTA
* ** * *
37654641 ATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCGTTGTTATAATTTCAATCCGATCTAGTAC
1 ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCGTCATTATAATTTCAATCCGATCCACTAC
* * *
37654706 AACTTCAGGGATGTAGGATTTGTAGCTTC
66 AACTTCAAGGATATAGGATTTGTAGCTTA
* *
37654735 ATCTTACTCCATTACATCTTCAAGGAGATAAGATTCG
1 ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCG
37654772 CTACTGTAGT
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
94 107 0.98
95 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (94 bp):
ATCTTACTCCACTACAACTTCAAGGAGATAAGATTCGTCATTATAATTTCAATCCGATCCACTAC
AACTTCAAGGATATAGGATTTGTAGCTTA
Found at i:37667978 original size:14 final size:14
Alignment explanation
Indices: 37667959--37667985 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37667949 AATAGACCTT
37667959 TTTATTTATTTTTG
1 TTTATTTATTTTTG
37667973 TTTATTTATTTTT
1 TTTATTTATTTTT
37667986 ATTTTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTG
Found at i:37670704 original size:28 final size:28
Alignment explanation
Indices: 37670639--37670789 Score: 232
Period size: 28 Copynumber: 5.4 Consensus size: 28
37670629 GAGATTGGCG
* * * *
37670639 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
37670668 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37670696 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
37670724 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
37670752 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37670779 CTGAGTGTGCG
1 CTAAGTGTGCG
37670790 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:37678934 original size:28 final size:28
Alignment explanation
Indices: 37678869--37679016 Score: 226
Period size: 28 Copynumber: 5.3 Consensus size: 28
37678859 GAGATTGGCG
* * * *
37678869 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
37678898 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37678926 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
37678954 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
37678982 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37679009 CTGAGTGT
1 CTAAGTGT
37679017 ACGGACTTAA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 21 0.19
28 76 0.68
29 15 0.13
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:37679030 original size:27 final size:27
Alignment explanation
Indices: 37678894--37679032 Score: 109
Period size: 28 Copynumber: 5.0 Consensus size: 27
37678884 TAAATTGTAC
* * *
37678894 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * * *
37678922 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
37678950 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
37678978 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGACTTGAATATAT
*
37679005 AGCACTGAGTGTACGGACTT-AATATAT
1 AGCACTAAGTGTAC-GACTTGAATATAT
37679032 A
1 A
37679033 CTTTTGAATC
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
27 29 0.28
28 74 0.72
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTACGACTTGAATATAT
Found at i:37683054 original size:50 final size:50
Alignment explanation
Indices: 37682939--37683081 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 50
37682929 AATAATAACA
* * * ** ** *
37682939 TGCCAAAGTCATGTCCCAGACATGGTCTTACATAGGATGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACAGGGGA-CCTCTCATATCGG
* * * *
37682990 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGG
* *
37683040 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCT
37683082 TTACCCAAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 46 0.61
51 30 0.39
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:37684276 original size:12 final size:12
Alignment explanation
Indices: 37684259--37684283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37684249 GGTGTTCATT
37684259 CGGTTAACCGAC
1 CGGTTAACCGAC
37684271 CGGTTAACCGAC
1 CGGTTAACCGAC
37684283 C
1 C
37684284 CGAAATTACT
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:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:37684457 original size:9 final size:9
Alignment explanation
Indices: 37684443--37684507 Score: 67
Period size: 9 Copynumber: 7.2 Consensus size: 9
37684433 TTTGGTTAAA
*
37684443 AATTACCCG
1 AATTAACCG
*
37684452 AATTACCCG
1 AATTAACCG
* *
37684461 AATTACCCA
1 AATTAACCG
***
37684470 AATTAAAAA
1 AATTAACCG
37684479 AATTAACCG
1 AATTAACCG
37684488 AATTAACCG
1 AATTAACCG
37684497 AATTAACCG
1 AATTAACCG
37684506 AA
1 AA
37684508 AAATTCCCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:37684482 original size:27 final size:28
Alignment explanation
Indices: 37684452--37684520 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
37684442 AAATTACCCG
*
37684452 AATTACCCGAATTACCCAAATTAA-AAA
1 AATTACCCGAATTAACCAAATTAACAAA
* *
37684479 AATTAACCGAATTAACCGAATTAACCGAAA
1 AATTACCCGAATTAACCAAATTAA-C-AAA
37684509 AATT-CCCGAATT
1 AATTACCCGAATT
37684521 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 21 0.60
29 7 0.20
30 7 0.20
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.23
Consensus pattern (28 bp):
AATTACCCGAATTAACCAAATTAACAAA
Found at i:37695840 original size:20 final size:20
Alignment explanation
Indices: 37695791--37695840 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
37695781 TTCATATCAA
37695791 TTTTAAATAAATTTTAAAAG
1 TTTTAAATAAATTTTAAAAG
** * *
37695811 AATTAGATAAATTTTAAAAT
1 TTTTAAATAAATTTTAAAAG
*
37695831 TTTTATATAA
1 TTTTAAATAA
37695841 TGTTTATGTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTTAAATAAATTTTAAAAG
Found at i:37696341 original size:29 final size:28
Alignment explanation
Indices: 37696308--37696424 Score: 93
Period size: 29 Copynumber: 4.1 Consensus size: 28
37696298 AATCAGACCT
37696308 TAAACACTAAACCATAAACCTTAAGCCCC
1 TAAACACTAAACCATAAACCTTAA-CCCC
* *
37696337 TAAACTA-AAAACTATAAACCTTAAACCCC
1 TAAAC-ACTAAACCATAAACCTT-AACCCC
* *
37696366 T-AACCCTTAAA-CATTAAATCC-TAAACCC
1 TAAACAC-TAAACCA-TAAA-CCTTAACCCC
37696394 TAAACACTAAACCATAAA-CTTATA-CCC
1 TAAACACTAAACCATAAACCTTA-ACCCC
37696421 TAAA
1 TAAA
37696425 TCGTAAGCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
26 1 0.01
27 9 0.13
28 19 0.27
29 37 0.52
30 5 0.07
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (28 bp):
TAAACACTAAACCATAAACCTTAACCCC
Found at i:37696964 original size:40 final size:40
Alignment explanation
Indices: 37696909--37697114 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
37696899 TAAAAGTGTA
* * *
37696909 GCTAATGCTCGATCTATAGTGGCGTTTTTCAACAAGCGCC
1 GCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAGCGCC
* *
37696949 GCTAATTCTCGATCTATTGTGGCG-TTTTCTAAAAAGCGCC
1 GCTAATGCTCGATCTATTGCGGCGTTTTTC-AAAAAGCGCC
* * *
37696989 GCTAATTCTCGATCTATTGCGGCG-TTTTCTGAAAAGCGCT
1 GCTAATGCTCGATCTATTGCGGCGTTTTTC-AAAAAGCGCC
* * *
37697029 GCTAATGCTCGATCTATAGCGGTGTTTTTCAACAAGCG-C
1 GCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAGCGCC
* * *
37697068 -CTAATCCTCGATCTATTGCGGCGTTTTTTAAAAAGCGCT
1 GCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAGCGCC
*
37697107 ACTAATGC
1 GCTAATGC
37697115 CATTAAAGCT
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 32 0.22
39 5 0.03
40 101 0.71
41 5 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (40 bp):
GCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAGCGCC
Found at i:37700005 original size:39 final size:39
Alignment explanation
Indices: 37699939--37700100 Score: 153
Period size: 40 Copynumber: 4.1 Consensus size: 39
37699929 AATGTGTTTT
* * *
37699939 GCGGCATTCTCTGAAAAGCGTCGCTAATGCTCGATCTATA
1 GCGGCATT-TTTGAAAAGTGCCGCTAATGCTCGATCTATA
* *
37699979 GCGGCATTTTTGAAAAGTGCCACTAATGCTTGATCTATA
1 GCGGCATTTTTGAAAAGTGCCGCTAATGCTCGATCTATA
* * * *
37700018 GCGTCATTTTTCAAAAAGTGCCGCTAATGATCAATCTATA
1 GCGGCATTTTT-GAAAAGTGCCGCTAATGCTCGATCTATA
* * ** * * *
37700058 GCGGCGTTTTTTAAAAAACGTCGCTAATGCTCAACCTATA
1 GCGGC-ATTTTTGAAAAGTGCCGCTAATGCTCGATCTATA
37700098 GCG
1 GCG
37700101 ACGTTTGTTT
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 36 0.35
40 61 0.60
41 5 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (39 bp):
GCGGCATTTTTGAAAAGTGCCGCTAATGCTCGATCTATA
Found at i:37700046 original size:40 final size:39
Alignment explanation
Indices: 37699960--37700100 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 39
37699950 TGAAAAGCGT
*
37699960 CGCTAATGCTCGATCTATAGCGGCATTTTTGAAAAGTGC
1 CGCTAATGCTCGATCTATAGCGGCATTTTTAAAAAGTGC
* * *
37699999 CACTAATGCTTGATCTATAGCGTCATTTTTCAAAAAGTGC
1 CGCTAATGCTCGATCTATAGCGGCATTTTT-AAAAAGTGC
* * * ** *
37700039 CGCTAATGATCAATCTATAGCGGCGTTTTTTAAAAAACGT
1 CGCTAATGCTCGATCTATAGCGGC-ATTTTTAAAAAGTGC
* *
37700079 CGCTAATGCTCAACCTATAGCG
1 CGCTAATGCTCGATCTATAGCG
37700101 ACGTTTGTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
39 27 0.32
40 53 0.62
41 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (39 bp):
CGCTAATGCTCGATCTATAGCGGCATTTTTAAAAAGTGC
Found at i:37705114 original size:12 final size:12
Alignment explanation
Indices: 37705097--37705130 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37705087 AAAAAATCTG
37705097 AATTTAATTTCC
1 AATTTAATTTCC
*
37705109 AATTTAATTTCT
1 AATTTAATTTCC
*
37705121 AATTTTATTT
1 AATTTAATTT
37705131 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:37709899 original size:44 final size:44
Alignment explanation
Indices: 37709850--37709939 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
37709840 AAGGGTTGGT
37709850 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
1 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
37709894 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
1 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
37709938 TT
1 TT
37709940 AGCATGTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (44 bp):
TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
Found at i:37717782 original size:23 final size:24
Alignment explanation
Indices: 37717737--37717788 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
37717727 TTTTTTTATA
37717737 AAAAATCAAAATTCAAATATATT-
1 AAAAATCAAAATTCAAATATATTC
* *
37717760 AAAAATACAAAGTTCCAA-ATATTC
1 AAAAAT-CAAAATTCAAATATATTC
37717784 AAAAA
1 AAAAA
37717789 ATAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAATCAAAATTCAAATATATTC
Found at i:37717788 original size:25 final size:24
Alignment explanation
Indices: 37717733--37717796 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
37717723 TATATTTTTT
37717733 TATAAAAAAT-CAAAATTCAAATA
1 TATAAAAAATACAAAATTCAAATA
* *
37717756 TATTAAAAATACAAAGTTCCAAATA
1 TATAAAAAATACAAAATT-CAAATA
*
37717781 T-TCAAAAAATAAAAAA
1 TAT-AAAAAATACAAAA
37717797 ATGATTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 9 0.27
24 7 0.21
25 17 0.52
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (24 bp):
TATAAAAAATACAAAATTCAAATA
Found at i:37720250 original size:21 final size:20
Alignment explanation
Indices: 37720216--37720255 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37720206 TTAATATATT
* *
37720216 TTTTAAATTATTTATATTTA
1 TTTTAAAATATTTAAATTTA
37720236 TTTTAAAATATTTTAAATTT
1 TTTTAAAATA-TTTAAATTT
37720256 TTTGTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAAATATTTAAATTTA
Found at i:37722562 original size:15 final size:15
Alignment explanation
Indices: 37722525--37722584 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
37722515 AACTAATATA
37722525 AATAATAAT-ACTAAT
1 AATAATAATAAC-AAT
* * *
37722540 AGTTATAATAACATT
1 AATAATAATAACAAT
37722555 AATAATAATAACAAT
1 AATAATAATAACAAT
37722570 AATAATGAA-AACAAT
1 AATAAT-AATAACAAT
37722585 TGAGTAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:37735040 original size:22 final size:23
Alignment explanation
Indices: 37735014--37735057 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
37735004 GTGATGAGGT
**
37735014 TATCTTGTGAATATGTT-AAATC
1 TATCTTGAAAATATGTTGAAATC
37735036 TATCTTGAAAATATGTTGAAAT
1 TATCTTGAAAATATGTTGAAAT
37735058 GGATTGGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (23 bp):
TATCTTGAAAATATGTTGAAATC
Found at i:37737141 original size:46 final size:46
Alignment explanation
Indices: 37737091--37737182 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
37737081 ACTTTCATAT
37737091 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
1 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
37737137 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
1 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
37737183 CTAAACCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.48
Consensus pattern (46 bp):
TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
Found at i:37739364 original size:17 final size:17
Alignment explanation
Indices: 37739311--37739364 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
37739301 TTAAAAATTA
*
37739311 TAAAATAAA-T-AAAAA
1 TAAAATAAATTCAAAAT
37739326 TAAAATAAATTCAAAAT
1 TAAAATAAATTCAAAAT
* * *
37739343 AAAAATAAATTTATAAT
1 TAAAATAAATTCAAAAT
37739360 TAAAA
1 TAAAA
37739365 AATATAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 9 0.28
16 1 0.03
17 22 0.69
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAATAAATTCAAAAT
Found at i:37739525 original size:31 final size:31
Alignment explanation
Indices: 37739466--37739530 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
37739456 CAACAATTTG
* *
37739466 ACTCTTTTTAAAAAGTTGATGGTCAAATTAA
1 ACTCTTTGTAAAAAGTTGATGCTCAAATTAA
*
37739497 ACTCTTTGTAAAAAGTTGAGTGCT-AAATTTA
1 ACTCTTTGTAAAAAGTTGA-TGCTCAAATTAA
37739528 ACT
1 ACT
37739531 TAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (31 bp):
ACTCTTTGTAAAAAGTTGATGCTCAAATTAA
Found at i:37739727 original size:26 final size:24
Alignment explanation
Indices: 37739685--37739734 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
37739675 TATTTGTATT
37739685 TTTATATATTATATAAAGATTAAA
1 TTTATATATTATATAAAGATTAAA
* *
37739709 TTTATTATATTAATGTAAATATTAAA
1 TTTA-TATATT-ATATAAAGATTAAA
37739735 AAGTATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 6 0.27
26 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTATATATTATATAAAGATTAAA
Found at i:37740355 original size:17 final size:17
Alignment explanation
Indices: 37740333--37740365 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37740323 ATATTTAATA
37740333 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
37740350 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
37740366 TAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:37741530 original size:2 final size:2
Alignment explanation
Indices: 37741525--37741551 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37741515 TTTTTTTGGT
37741525 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
37741552 TATCTGGGTA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37750905 original size:25 final size:26
Alignment explanation
Indices: 37750854--37750934 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 26
37750844 ACATAAGGCC
* *
37750854 ATAACCGTCATTTCATCTCCTAG-GGGT
1 ATAACAGTCATTTTA-C-CCTAGAGGGT
*
37750881 ATAACAGTCATTTTATCCT-GAGGGT
1 ATAACAGTCATTTTACCCTAGAGGGT
** *
37750906 ATTTCGGTCATTTTACCCTAAGAGGGT
1 ATAACAGTCATTTTACCCT-AGAGGGT
37750933 AT
1 AT
37750935 TCCCATCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 22 0.50
27 21 0.48
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
ATAACAGTCATTTTACCCTAGAGGGT
Found at i:37750935 original size:27 final size:26
Alignment explanation
Indices: 37750887--37751092 Score: 117
Period size: 27 Copynumber: 7.4 Consensus size: 26
37750877 GGGTATAACA
* *
37750887 GTCATTTTATCCTGA-GGGTATTTCG
1 GTCATTTTACCCTAAGGGGTATTTCG
* *
37750912 GTCATTTTACCCTAAGAGGGTATTCCC
1 GTCATTTTACCCTAAG-GGGTATTTCG
* * * *
37750939 ATCATTTTACCTTATGGGGGTATTTAG
1 GTCATTTTACCCTA-AGGGGTATTTCG
* *
37750966 GTCATTTTACCTTATAGGGATATTTCAGTTATTCG
1 GTCATTTTACCCTA-AGGG----GT-A--T-TTCG
* * *
37751001 GTCATTTTACCCTATGGGGGTGTTTCA
1 GTCATTTTACCCTA-AGGGGTATTTCG
* * *
37751028 GTCATTTTATCCTATGGAGGTATTTCA
1 GTCATTTTACCCTAAGG-GGTATTTCG
*
37751055 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTA-AGGGGTATTTCG
*
37751082 GTTATTTTACC
1 GTCATTTTACC
37751093 TATTTTAGGG
Statistics
Matches: 141, Mismatches: 27, Indels: 24
0.73 0.14 0.12
Matches are distributed among these distances:
25 13 0.09
26 2 0.01
27 98 0.70
28 4 0.03
31 2 0.01
32 1 0.01
34 1 0.01
35 20 0.14
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTAAGGGGTATTTCG
Found at i:37751087 original size:89 final size:89
Alignment explanation
Indices: 37750908--37751079 Score: 233
Period size: 89 Copynumber: 1.9 Consensus size: 89
37750898 CTGAGGGTAT
*
37750908 TTCGGTCATTTTACCCTAAGAGGGTATTCCCATCATTTTACCTTATGGGGGTATTTAGGTCATTT
1 TTCGGTCATTTTACCCTAAGAGGGTATTCCCATCATTTTACCTTATGGAGGTATTTAGGTCATTT
*
37750973 TACCTTATAGGGATATTTCAGTTA
66 TACCCTATAGGGATATTTCAGTTA
* * * *
37750997 TTCGGTCATTTTACCCTATGGGGGTGTT-TCAGTCATTTTATCC-TATGGAGGTATTTCA-GTCA
1 TTCGGTCATTTTACCCTAAGAGGGTATTCCCA-TCATTTTA-CCTTATGGAGGTATTT-AGGTCA
*
37751059 TTTTACCCTATAGGGGTATTT
63 TTTTACCCTATAGGGATATTT
37751080 TGGTTATTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 2 0.03
89 68 0.93
90 3 0.04
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (89 bp):
TTCGGTCATTTTACCCTAAGAGGGTATTCCCATCATTTTACCTTATGGAGGTATTTAGGTCATTT
TACCCTATAGGGATATTTCAGTTA
Found at i:37756788 original size:43 final size:42
Alignment explanation
Indices: 37756721--37756891 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 42
37756711 ACATAGGATT
* *
37756721 TCGATATGTGTTTTCGTGAAAGACCACGTCTGGGACGTTGGCA
1 TCGAT-TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
37756764 TCGACTTGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGA-TTGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
37756807 TCGTATT-TGATTT--GTGTAAGACCATGTCTGGGACAG-TGGCA
1 TCG-ATTGTG-TTTACGTGTAAGACCACGTCTGGGAC-GTTGGCA
* *
37756848 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGAT-TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
37756891 T
1 T
37756892 TGTACGACTC
Statistics
Matches: 111, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
40 2 0.02
41 32 0.29
42 5 0.05
43 70 0.63
44 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
TCGATTGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:37757081 original size:16 final size:17
Alignment explanation
Indices: 37757052--37757083 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37757042 TGAATTGATG
37757052 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
37757069 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
37757084 TTGTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:37760812 original size:23 final size:23
Alignment explanation
Indices: 37760780--37760836 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
37760770 AAACACTCCA
*
37760780 CAGAATGAATCACACCATAGTGC
1 CAGAATGAATCACACCAAAGTGC
* *
37760803 CAGAAAGAATTCGCACCAAAGTGC
1 CAGAATGAA-TCACACCAAAGTGC
*
37760827 TAGAATGAAT
1 CAGAATGAAT
37760837 TACATTGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (23 bp):
CAGAATGAATCACACCAAAGTGC
Found at i:37769561 original size:6 final size:6
Alignment explanation
Indices: 37769552--37769640 Score: 72
Period size: 6 Copynumber: 14.5 Consensus size: 6
37769542 TAAGCCTAAG
* * *
37769552 AAAATA AAAATAA AACAACTA AAAATA AAAATA AACATA AACATA AACAT-
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * * *
37769602 AAAATA AAACTA AAACTA AAACTA AAACTA AAAAGA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
37769641 CAAATAAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.05
6 59 0.80
7 5 0.07
8 5 0.07
9 1 0.01
ACGTcount: A:0.74, C:0.10, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:37771183 original size:3 final size:3
Alignment explanation
Indices: 37771168--37771223 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
37771158 CAAATAATGA
* * *
37771168 AAT AAT CAT AAT AAT AAT AGT AA- AA- AAT AAT AAT AA- GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
37771213 AGT AAT AAT AA
1 AAT AAT AAT AA
37771224 ACAGATAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 5 0.12
3 38 0.88
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:37771383 original size:5 final size:5
Alignment explanation
Indices: 37771373--37771421 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
37771363 TAAGCATAGG
37771373 AATAA AAT-A AAT-A AATAA AATTAA AAT-- AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AA-TAA AATAA AATAA AATAA AATAA AATAA
37771420 AA
1 AA
37771422 AATAGGGCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.08
4 8 0.20
5 24 0.60
6 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:37771397 original size:19 final size:18
Alignment explanation
Indices: 37771373--37771425 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
37771363 TAAGCATAGG
37771373 AATAAAATAAATAAATAA
1 AATAAAATAAATAAATAA
37771391 AATTAAAAT-AATAAAATAA
1 AA-TAAAATAAAT-AAATAA
37771410 AATAAAATAAA-AAATA
1 AATAAAATAAATAAATA
37771426 GGGCAAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.16
18 11 0.34
19 16 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAATAAATAAATAA
Found at i:37778358 original size:61 final size:59
Alignment explanation
Indices: 37778274--37778408 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 59
37778264 TTTTAAGAAC
***
37778274 ATTATTATTAATTATAAGTTAATAAAAATAAAAATAAATAATTTAATCTTATT-TTAATATA
1 ATTATTATTAATTATAAGTTAATAAAAAT---AATAAATAATTTAATAACATTCTTAATATA
* *
37778335 ATTATTATTACA-TATAATTTAATAAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTA-ATTATAAGTTAATAAAAATAATAAATAATTTAATAACATTCTTAATATA
*
37778394 ATTATTTTTATATTA
1 ATTATTATTA-ATTA
37778409 AATTATATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
58 17 0.27
59 18 0.28
60 2 0.03
61 26 0.41
62 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (59 bp):
ATTATTATTAATTATAAGTTAATAAAAATAATAAATAATTTAATAACATTCTTAATATA
Found at i:37778432 original size:33 final size:33
Alignment explanation
Indices: 37778395--37778459 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
37778385 CTTAATATAA
37778395 TTATTTTTATATTAAATTATATTAAAAGATTTT
1 TTATTTTTATATTAAATTATATTAAAAGATTTT
*
37778428 TTATTTTTATATTAAATTATATTAAAATATTT
1 TTATTTTTATATTAAATTATATTAAAAGATTT
37778460 AATTTACTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TTATTTTTATATTAAATTATATTAAAAGATTTT
Found at i:37781877 original size:17 final size:17
Alignment explanation
Indices: 37781855--37781889 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37781845 AATTATTATT
37781855 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
37781872 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
37781889 A
1 A
37781890 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:37782023 original size:120 final size:120
Alignment explanation
Indices: 37781843--37782312 Score: 842
Period size: 120 Copynumber: 4.0 Consensus size: 120
37781833 ATATTGTAAC
*
37781843 ATAATTATTATTAAATATAATTTAATAAAAA-ATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
37781907 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
* *
37781962 ATAATTATTAGTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
* *
37782027 TTTTATATGAATTTACTAAAATTATAATATATAATACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
37782082 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
37782147 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
* *
37782202 ATAATCATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA-T-TTAA-AATAATTAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
37782264 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAAT
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
37782313 ATATAATCTA
Statistics
Matches: 341, Mismatches: 9, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
116 5 0.01
117 52 0.15
118 4 0.01
119 31 0.09
120 249 0.73
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (120 bp):
ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
Found at i:37782142 original size:15 final size:16
Alignment explanation
Indices: 37782122--37782151 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37782112 ATATATAATT
37782122 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
37782137 TAATAAATATTCTTA
1 TAATAAATATTCTTA
37782152 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:37782218 original size:26 final size:27
Alignment explanation
Indices: 37782188--37782260 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
37782178 TAATACTATA
37782188 AAATATAATTTAAAATAATCAT-T-ATT
1 AAATATAATTTAAAATAAT-ATATAATT
*
37782214 AAATATAATTTAATAAAAATATATAATT
1 AAATATAATTTAA-AATAATATATAATT
* *
37782242 TAATAAAATTTAAAATAAT
1 AAATATAATTTAAAATAAT
37782261 TATTCTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 15 0.38
27 11 0.28
28 14 0.35
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATATAATTTAAAATAATATATAATT
Found at i:37783773 original size:49 final size:49
Alignment explanation
Indices: 37783701--37783804 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
37783691 GAAAAAAAAC
* ***
37783701 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCACAACACTTTATA
37783750 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCACAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCACAACACTTTATA
37783799 AAATTA
1 AAATTA
37783805 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCACAACACTTTATA
Found at i:37786241 original size:41 final size:40
Alignment explanation
Indices: 37786191--37786365 Score: 156
Period size: 41 Copynumber: 4.3 Consensus size: 40
37786181 ATTTATAGAA
* **
37786191 CATAGAGCCTTGTATAAAACACCGGCATAAAGCCTGCTAGG
1 CATAAAGCC-TGTATAATTCACCGGCATAAAGCCTGCTAGG
* * *
37786232 CACAAAGCCTG-ATACATTTCACCGGCACAAAGCCTGCTAGA
1 CATAAAGCCTGTATA-A-TTCACCGGCATAAAGCCTGCTAGG
* * *
37786273 CATAAAGTCTGATATAATTCATCGGCACT-GAGCCTGCTAGG
1 CATAAAGCCTG-TATAATTCACCGGCA-TAAAGCCTGCTAGG
* * * *
37786314 CATAAAGCCTGATGTAATTCACCGACATCAAGTCTGCTAGG
1 CATAAAGCCTG-TATAATTCACCGGCATAAAGCCTGCTAGG
*
37786355 CATTAAGCCTG
1 CATAAAGCCTG
37786366 AAAATCTCAA
Statistics
Matches: 109, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 4 0.04
41 98 0.90
42 1 0.01
43 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (40 bp):
CATAAAGCCTGTATAATTCACCGGCATAAAGCCTGCTAGG
Found at i:37789700 original size:16 final size:16
Alignment explanation
Indices: 37789681--37789716 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
37789671 AAATTGGAAA
37789681 ATTAAAAATAAAAAAT
1 ATTAAAAATAAAAAAT
37789697 ATTAAAAATAAAAAAT
1 ATTAAAAATAAAAAAT
37789713 -TTAA
1 ATTAA
37789717 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTAAAAATAAAAAAT
Found at i:37791346 original size:78 final size:78
Alignment explanation
Indices: 37791202--37791348 Score: 186
Period size: 78 Copynumber: 1.9 Consensus size: 78
37791192 GGGGTTGACA
* * * * **
37791202 AGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGGCAGTGACA
1 AGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGACAGCAACA
37791267 CTCGGGGTTAATG
66 CTCGGGGTTAATG
* * * * * *
37791280 AGGACTGAATTCGTAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAAGATAGCAACA
1 AGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGACAGCAACA
37791345 CTCG
66 CTCG
37791349 AAACTTGCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (78 bp):
AGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGACAGCAACA
CTCGGGGTTAATG
Found at i:37801331 original size:14 final size:15
Alignment explanation
Indices: 37801303--37801339 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
37801293 GTTATTTTAA
*
37801303 TTAATTTGA-TTAGT
1 TTAATTTAACTTAGT
37801317 TT-ATTTAACTTAGT
1 TTAATTTAACTTAGT
37801331 TTAATTTAA
1 TTAATTTAA
37801340 TTTCTATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (15 bp):
TTAATTTAACTTAGT
Found at i:37812514 original size:28 final size:23
Alignment explanation
Indices: 37812459--37812502 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
37812449 GGTAATAGAA
37812459 AGTAAATAAATTAGGGGCACTCC
1 AGTAAATAAATTAGGGGCACTCC
37812482 AGTAAATAAATTAGGGGCACT
1 AGTAAATAAATTAGGGGCACT
37812503 TCGCTGCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (23 bp):
AGTAAATAAATTAGGGGCACTCC
Found at i:37820342 original size:29 final size:29
Alignment explanation
Indices: 37820298--37820354 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
37820288 CTGTCTTCTC
*
37820298 CCCCAAACGTTTTTTCCCCTCTGCTGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGTT
37820327 CCCCAAACGTTCTTTCCCCTCTGCTGGT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGT
37820355 GAAATTGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.11, C:0.40, G:0.14, T:0.35
Consensus pattern (29 bp):
CCCCAAACGTTCTTTCCCCTCTGCTGGTT
Found at i:37822145 original size:16 final size:16
Alignment explanation
Indices: 37822124--37822157 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
37822114 CAACTTTGTG
37822124 TGATTCTCATCCTTAT
1 TGATTCTCATCCTTAT
37822140 TGATTCTCATCCTTAT
1 TGATTCTCATCCTTAT
37822156 TG
1 TG
37822158 CAAGTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.50
Consensus pattern (16 bp):
TGATTCTCATCCTTAT
Found at i:37823010 original size:8 final size:8
Alignment explanation
Indices: 37822999--37823026 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
37822989 TTTAATTATT
37822999 ATATTTAA
1 ATATTTAA
37823007 ATATTTAA
1 ATATTTAA
37823015 ATATTTAA
1 ATATTTAA
37823023 ATAT
1 ATAT
37823027 AATTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:37823017 original size:29 final size:27
Alignment explanation
Indices: 37822984--37823038 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
37822974 ATCTAACTAC
*
37822984 AAATATTTAATTATTATATTTAAATATTT
1 AAATATTTAAATA-TA-ATTTAAATATTT
*
37823013 AAATATTTAAATATAATTTATATATT
1 AAATATTTAAATATAATTTAAATATT
37823039 CTAATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 2 0.08
29 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AAATATTTAAATATAATTTAAATATTT
Found at i:37823037 original size:19 final size:19
Alignment explanation
Indices: 37822998--37823051 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
37822988 ATTTAATTAT
37822998 TATATTT-AA-AT-ATTTA
1 TATATTTAAATATAATTTA
*
37823014 AATATTTAAATATAATTTA
1 TATATTTAAATATAATTTA
*
37823033 TATATTCTAATTA-AATTTA
1 TATATT-TAAATATAATTTA
37823052 ATAAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 2 0.06
19 16 0.52
20 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TATATTTAAATATAATTTA
Found at i:37823300 original size:13 final size:13
Alignment explanation
Indices: 37823279--37823340 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
37823269 ACACTCAAAT
37823279 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
37823292 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
37823305 TTTTCTACAA-CAC
1 TTTTC-AAAAGCAC
37823318 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
37823331 TTTTCAAAAG
1 TTTTCAAAAG
37823341 TAATGAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.85
14 3 0.07
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:37825015 original size:52 final size:54
Alignment explanation
Indices: 37824949--37825066 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
37824939 CTCAAGTAAA
* * *
37824949 AGAGTTACACGGTCT-G-GCACAAGGCTTGACACGC-T-TGTGGGACTCCAGTCAG
1 AGAGTTACACGGTCTAGCGCAC-A-GCTTGACACACATCTGTGGGACTCAAGCCAG
* *
37825001 AGAGTTACTCGGTCTAGCGCACAGCTTGACACACATCTGTGTGACTCAAGCCAG
1 AGAGTTACACGGTCTAGCGCACAGCTTGACACACATCTGTGGGACTCAAGCCAG
37825055 AGAGTTACACGG
1 AGAGTTACACGG
37825067 CTTGACACAC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 24 0.43
53 3 0.05
54 29 0.52
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.21
Consensus pattern (54 bp):
AGAGTTACACGGTCTAGCGCACAGCTTGACACACATCTGTGGGACTCAAGCCAG
Found at i:37825057 original size:54 final size:52
Alignment explanation
Indices: 37824933--37825066 Score: 155
Period size: 52 Copynumber: 2.5 Consensus size: 52
37824923 TCACATTGTC
* * *
37824933 GTGTGACTCAAGTAAAAGAGTTACACGGTCTGGCACAAGGCTTGACACGCTT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACTT
* * *
37824985 GTGGGACTCCAGTCAGAGAGTTACTCGGTCTAGCGCAC-A-GCTTGACACACATCT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCT-G-GCACAAGGCTTGACACAC-T-T
*
37825039 GTGTGACTCAAGCCAGAGAGTTACACGG
1 GTGTGACTCAAGTCAGAGAGTTACACGG
37825067 CTTGACACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 36 0.53
53 3 0.04
54 29 0.43
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (52 bp):
GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACTT
Found at i:37835220 original size:108 final size:108
Alignment explanation
Indices: 37835028--37835259 Score: 270
Period size: 108 Copynumber: 2.1 Consensus size: 108
37835018 CACGGATTGT
* * *
37835028 CACACGGCCTAACACATAGTCATGTGACTCAAGTTAGAGAGTTAGATAGTCTGACACATGGCCTG
1 CACACGGCCTAACACATAGTCATGTGACTCAAGTCAAAGAGTTAGACAGTCTGACACATGGCCTG
* * *
37835093 ACACACGCCCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
66 ACACACACCCGTCTAACTCAAGTCAAAGAGTTACACAGTCTAA
* * * *
37835136 CACACGGCCTGACACAT-GCTCGTGTGACTCAAGTCAAAGAGTTATACGGTCT-AGCACATGGCC
1 CACACGGCCTAACACATAG-TCATGTGACTCAAGTCAAAGAGTTAGACAGTCTGA-CACATGGCC
* * * * **
37835199 TGACACATACCCGTCTAACTCAAGTTAGAGAGTTACACGGTCTGG
64 TGACACACACCCGTCTAACTCAAGTCAAAGAGTTACACAGTCTAA
* *
37835244 CATAGGGCCTAACACA
1 CACACGGCCTAACACA
37835260 CGGCTGTGTT
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
107 2 0.02
108 101 0.98
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (108 bp):
CACACGGCCTAACACATAGTCATGTGACTCAAGTCAAAGAGTTAGACAGTCTGACACATGGCCTG
ACACACACCCGTCTAACTCAAGTCAAAGAGTTACACAGTCTAA
Found at i:37835259 original size:54 final size:54
Alignment explanation
Indices: 37835050--37835241 Score: 231
Period size: 54 Copynumber: 3.6 Consensus size: 54
37835040 CACATAGTCA
* * * * * *
37835050 TGTGACTCAAGTTAGAGAGTTAGATAGTCTGACACATGGCCTGACACACGCCCG
1 TGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCCCG
* *
37835104 TGTGACTCAAGTCAAAGAGTTACACAGTCTAACACACGGCCTGACACATGCTCG
1 TGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCCCG
* * * *
37835158 TGTGACTCAAGTCAAAGAGTTATACGGTCTAGCACATGGCCTGACACATACCCG
1 TGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCCCG
* * * * *
37835212 TCTAACTCAAGTTAGAGAGTTACACGGTCT
1 TGTGACTCAAGTCAAAGAGTTACACAGTCT
37835242 GGCATAGGGC
Statistics
Matches: 119, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (54 bp):
TGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCCCG
Found at i:37838113 original size:51 final size:50
Alignment explanation
Indices: 37838051--37838232 Score: 154
Period size: 51 Copynumber: 3.6 Consensus size: 50
37838041 GTTCACATAG
* * *
37838051 TAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACATGTAA
1 TAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATACATGTAA
* * ** * *** *
37838102 TAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATTTGGTACGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGATACATGTAA
* * * *
37838153 TAGCCTGCACATAGTACTAGACATGCGACC-TATCATTCC-AGTACATGTAT
1 TAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGA-TACATGTAA
37838203 TAGCCTGCACATAGTACTACACACGTGACC
1 TAGCCTGCACATAGTACTACACACGTGACC
37838233 TAGCAACTTC
Statistics
Matches: 99, Mismatches: 27, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
49 1 0.01
50 37 0.37
51 59 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATACATGTAA
Found at i:37838222 original size:101 final size:101
Alignment explanation
Indices: 37838046--37838230 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
37838036 ACCCGGTTCA
* *
37838046 CATAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACATGTAATAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCCGATACATGTAATAGCCTGCA
37838111 CATAGTACTACACACGTGATCGAAGCTATTTGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATTTGGTACG
* * *
37838148 CATAGTAGCCTGCACATAGTACTAGACATGCGACC-TATCATTCC-AGTACATGTATTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCCGA-TACATGTAATAGCCTGC
37838211 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
37838231 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 5 0.07
101 39 0.51
102 32 0.42
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCCGATACATGTAATAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATTTGGTACG
Found at i:37844494 original size:91 final size:88
Alignment explanation
Indices: 37844350--37844544 Score: 221
Period size: 91 Copynumber: 2.2 Consensus size: 88
37844340 AAAAAAGAAG
* * ** * * *
37844350 AAGCAATTAAGGCCCTCCTTTTTTTTGCACTTAATTGAGCACTTGAACTTTCAAAATGCATCAAA
1 AAGCAATTAAGCCCCTACTTTTTTTCCCACTCAATTGAGCACTTAAACTTTCAAAATGCATAAAA
* * *
37844415 AAGGCCTTCAAGCTT-CTCCAAAAA
66 AAGACCCTCAA-ATTGCTCC-AAAA
* *
37844439 AAGCAATTAAGCCCCTACTTTTTTTCCCCCACTCAATTGGGTACTTAAACTTTCAAAATGCATAA
1 AAGCAATTAAGCCCCTACTTTTTTT--CCCACTCAATTGAGCACTTAAACTTTCAAAATGCATAA
* *
37844504 AAAAGACCCTCAAATTGTTTCAAAA
64 AAAAGACCCTCAAATTGCTCCAAAA
37844529 AAGCAATTAAGCCCCT
1 AAGCAATTAAGCCCCT
37844545 GCTCTTATTA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
89 23 0.26
90 22 0.25
91 44 0.49
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (88 bp):
AAGCAATTAAGCCCCTACTTTTTTTCCCACTCAATTGAGCACTTAAACTTTCAAAATGCATAAAA
AAGACCCTCAAATTGCTCCAAAA
Found at i:37844624 original size:45 final size:46
Alignment explanation
Indices: 37844566--37844672 Score: 112
Period size: 46 Copynumber: 2.3 Consensus size: 46
37844556 AAATTAGAAA
37844566 ATAATAAATAATAAATTTTAG-AAAAATTATTAA-ATTTTAATAAAAAT-
1 ATAA-AAA-AATAAATTTT-GTAAAAATTA-TAATATTTTAATAAAAATC
* **
37844613 ATAAAAAAATAAATTTTGTTAAAAATTATAATTTTTTTGTAAAAATC
1 ATAAAAAAATAAATTTTG-TAAAAATTATAATATTTTAATAAAAATC
*
37844660 GTAAAAAAATAAA
1 ATAAAAAAATAAA
37844673 AAATTGTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
44 1 0.02
45 13 0.25
46 22 0.42
47 16 0.31
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (46 bp):
ATAAAAAAATAAATTTTGTAAAAATTATAATATTTTAATAAAAATC
Found at i:37844643 original size:19 final size:20
Alignment explanation
Indices: 37844621--37844658 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
37844611 ATATAAAAAA
37844621 ATAAATTTTGT-TAAAAATT
1 ATAAATTTTGTGTAAAAATT
* *
37844640 ATAATTTTTTTGTAAAAAT
1 ATAAATTTTGTGTAAAAAT
37844659 CGTAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATAAATTTTGTGTAAAAATT
Found at i:37844675 original size:38 final size:37
Alignment explanation
Indices: 37844633--37844704 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
37844623 AAATTTTGTT
** * *
37844633 AAAAATTATAATTTTTTTGTAAAAATCGTAAAAAAATA
1 AAAAATTATAA-AATTTTATAAAAATCATAAAAAAATA
*
37844671 AAAAATTGTAAAATTTTATAAAAATCATAAAAAA
1 AAAAATTATAAAATTTTATAAAAATCATAAAAAA
37844705 TTAATAACCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 19 0.66
38 10 0.34
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (37 bp):
AAAAATTATAAAATTTTATAAAAATCATAAAAAAATA
Found at i:37844917 original size:10 final size:9
Alignment explanation
Indices: 37844902--37845008 Score: 67
Period size: 9 Copynumber: 11.3 Consensus size: 9
37844892 TTCTTATGAC
37844902 TTTATAAAAT
1 TTTAT-AAAT
*
37844912 TTTATAATT
1 TTTATAAAT
* *
37844921 TTTTTATAT
1 TTTATAAAT
*
37844930 TTCTATATAT
1 TT-TATAAAT
37844940 TTTATAAAT
1 TTTATAAAT
37844949 TTT-TACGACA-
1 TTTATA--A-AT
37844959 TTTATAAAT
1 TTTATAAAT
37844968 TTT-TAAAAT
1 TTTAT-AAAT
37844977 ATTTATAAAT
1 -TTTATAAAT
* *
37844987 TTTTTAATT
1 TTTATAAAT
37844996 TTTAATAAAT
1 TTT-ATAAAT
37845006 TTT
1 TTT
37845009 TAATATTTGA
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
8 4 0.05
9 38 0.49
10 31 0.40
11 4 0.05
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTATAAAT
Found at i:37844918 original size:29 final size:28
Alignment explanation
Indices: 37844885--37844972 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
37844875 TTACATTTTG
37844885 TATAATTTTCTTATGACTTTATAAAATTT
1 TATAATTTT-TTATGACTTTATAAAATTT
* *
37844914 TATAATTTTTTTAT-A-TTTCTATATATTT
1 TATAA-TTTTTTATGACTTTATA-AAATTT
* * *
37844942 TATAAATTTTTACGACATTTATAAATTTT
1 TATAATTTTTTATGAC-TTTATAAAATTT
37844971 TA
1 TA
37844973 AAATATTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
27 11 0.23
28 12 0.26
29 15 0.32
30 9 0.19
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (28 bp):
TATAATTTTTTATGACTTTATAAAATTT
Found at i:37845007 original size:27 final size:26
Alignment explanation
Indices: 37844965--37845024 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
37844955 GACATTTATA
* *
37844965 AATTTTTAAAATATTTATAAATTTTTT
1 AATTTTTAAAATATTT-TAAATATTTG
*
37844992 AATTTTTAATAA-ATTTTTAATATTTG
1 AATTTTTAA-AATATTTTAAATATTTG
37845018 AATTTTT
1 AATTTTT
37845025 TATTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 14 0.48
27 13 0.45
28 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
AATTTTTAAAATATTTTAAATATTTG
Found at i:37845009 original size:18 final size:17
Alignment explanation
Indices: 37844902--37845016 Score: 86
Period size: 19 Copynumber: 6.2 Consensus size: 17
37844892 TTCTTATGAC
*
37844902 TTTATAAAATTTTATAATT
1 TTTAT-AAATTTT-TAATA
* * *
37844921 TTTTTATATTTCTATATA
1 TTTATAAATTTTTA-ATA
*
37844939 TTTTATAAATTTTTACGACA
1 -TTTATAAATTTTTA--ATA
37844959 TTTATAAATTTTTAAAATA
1 TTTATAAATTTTT--AATA
*
37844978 TTTATAAATTTTTTAATT
1 TTTATAAA-TTTTTAATA
37844996 TTTAATAAATTTTTAATA
1 TTT-ATAAATTTTTAATA
37845014 TTT
1 TTT
37845017 GAATTTTTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
17 2 0.03
18 24 0.31
19 43 0.56
20 7 0.09
21 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (17 bp):
TTTATAAATTTTTAATA
Found at i:37845013 original size:11 final size:10
Alignment explanation
Indices: 37844902--37845010 Score: 79
Period size: 10 Copynumber: 11.4 Consensus size: 10
37844892 TTCTTATGAC
*
37844902 TTTATAAAAT
1 TTTATAAATT
37844912 TTTAT-AATT
1 TTTATAAATT
* *
37844921 TTTTTATATT
1 TTTATAAATT
* *
37844931 TCTATATA-T
1 TTTATAAATT
37844940 TTTATAAATT
1 TTTATAAATT
* *
37844950 TTTACGACA--
1 TTTA-TAAATT
37844959 TTTATAAATT
1 TTTATAAATT
*
37844969 TTTA-AAATA
1 TTTATAAATT
37844978 TTTATAAATT
1 TTTATAAATT
37844988 TTT-T-AATT
1 TTTATAAATT
37844996 TTTAATAAATT
1 TTT-ATAAATT
37845007 TTTA
1 TTTA
37845011 ATATTTGAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
8 9 0.12
9 27 0.35
10 32 0.42
11 9 0.12
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTATAAATT
Found at i:37851097 original size:20 final size:20
Alignment explanation
Indices: 37851074--37851112 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37851064 CAGGGGTAAT
*
37851074 TACGTGCAGTCAGGTGCACA
1 TACGTGCAGTCAGGGGCACA
37851094 TACGTGCAGTCAGGGGCAC
1 TACGTGCAGTCAGGGGCAC
37851113 CGAAGTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (20 bp):
TACGTGCAGTCAGGGGCACA
Found at i:37851192 original size:20 final size:19
Alignment explanation
Indices: 37851169--37851219 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
37851159 GTATATAAGG
37851169 GCACTGAAGTGCAAATAGGA
1 GCACTGAAGTGCAAATA-GA
* *
37851189 GCACAGTAGTGCAAATAGA
1 GCACTGAAGTGCAAATAGA
37851208 GACACTGAAGTG
1 G-CACTGAAGTG
37851220 TATACAGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (19 bp):
GCACTGAAGTGCAAATAGA
Found at i:37852385 original size:20 final size:20
Alignment explanation
Indices: 37852360--37852397 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37852350 ACATTCAAAA
37852360 TACCATAATCACAA-CCAAGT
1 TACCATAA-CACAAGCCAAGT
37852380 TACCATAACACAAGCCAA
1 TACCATAACACAAGCCAA
37852398 ACCATATGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.32, G:0.05, T:0.16
Consensus pattern (20 bp):
TACCATAACACAAGCCAAGT
Found at i:37853537 original size:34 final size:34
Alignment explanation
Indices: 37853490--37853557 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
37853480 CCTGTACATG
*** *
37853490 TATGCTCATATGAGCTGTGAATTGGTATGCTCAC
1 TATGCTCATATGAGCTACAAAATGGTATGCTCAC
37853524 TATGCTC-TCATGAGCTACAAAATGGTATGCTCAC
1 TATGCTCAT-ATGAGCTACAAAATGGTATGCTCAC
37853558 ACGAGCTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (34 bp):
TATGCTCATATGAGCTACAAAATGGTATGCTCAC
Found at i:37857550 original size:3 final size:3
Alignment explanation
Indices: 37857542--37857578 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
37857532 CTTATGGCAT
*
37857542 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37857579 AAATTGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:37857969 original size:21 final size:21
Alignment explanation
Indices: 37857944--37857984 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37857934 ACAGACAAAA
*
37857944 ATAAAAAAAGCGAAAAGACAT
1 ATAAAAAAAACGAAAAGACAT
*
37857965 ATAAAAAAAATGAAAAGACA
1 ATAAAAAAAACGAAAAGACA
37857985 ACAGTTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.12, T:0.10
Consensus pattern (21 bp):
ATAAAAAAAACGAAAAGACAT
Found at i:37859901 original size:15 final size:15
Alignment explanation
Indices: 37859872--37859915 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
37859862 TTATCCCAAT
37859872 CAAATAAAG-AAAAA
1 CAAATAAAGCAAAAA
37859886 CAAATAAAGCAAAAA
1 CAAATAAAGCAAAAA
* * *
37859901 CGATTAAATCAAAAA
1 CAAATAAAGCAAAAA
37859916 AACTAATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.70, C:0.11, G:0.07, T:0.11
Consensus pattern (15 bp):
CAAATAAAGCAAAAA
Found at i:37872322 original size:21 final size:21
Alignment explanation
Indices: 37872296--37872337 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37872286 TGTGGAAGAT
37872296 GGAAAGGGGAAGGGCATAGGA
1 GGAAAGGGGAAGGGCATAGGA
37872317 GGAAAGGGGAAGGGCATAGGA
1 GGAAAGGGGAAGGGCATAGGA
37872338 AACTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.52, T:0.05
Consensus pattern (21 bp):
GGAAAGGGGAAGGGCATAGGA
Found at i:37872559 original size:13 final size:13
Alignment explanation
Indices: 37872541--37872583 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
37872531 TAGATTTTTC
37872541 CTAAATATTATCA
1 CTAAATATTATCA
37872554 CTAAATA--ATC-
1 CTAAATATTATCA
37872564 CTAAATATTATCA
1 CTAAATATTATCA
37872577 CTAAATA
1 CTAAATA
37872584 ATATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:37872567 original size:23 final size:23
Alignment explanation
Indices: 37872539--37872585 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
37872529 GCTAGATTTT
37872539 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
37872562 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
37872585 T
1 T
37872586 ATAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:37872592 original size:23 final size:23
Alignment explanation
Indices: 37872542--37872590 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
37872532 AGATTTTTCC
*
37872542 TAAATATTATCACTAAATAATCC
1 TAAATATTATCACTAAATAATCA
37872565 TAAATATTATCACTAAATAAT-A
1 TAAATATTATCACTAAATAATCA
37872587 TAAA
1 TAAA
37872591 ATTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCA
Found at i:37886005 original size:17 final size:17
Alignment explanation
Indices: 37885960--37886010 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
37885950 ACCATAAAAC
37885960 ATTTATTATTAATATAT
1 ATTTATTATTAATATAT
37885977 -TTATAATT-TTAATATAT
1 ATT-T-ATTATTAATATAT
*
37885994 ATTTATTATTAAAATAT
1 ATTTATTATTAATATAT
37886011 TAATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.17
17 19 0.66
18 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTATTATTAATATAT
Found at i:37886009 original size:19 final size:19
Alignment explanation
Indices: 37885971--37886010 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37885961 TTTATTATTA
**
37885971 ATATATTTATAATTTTAAT
1 ATATATTTATAATTAAAAT
*
37885990 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
37886009 AT
1 AT
37886011 TAATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:37886072 original size:15 final size:16
Alignment explanation
Indices: 37886052--37886082 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37886042 TTATTTAAAC
37886052 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
37886067 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
37886083 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:37893932 original size:19 final size:18
Alignment explanation
Indices: 37893888--37893932 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
37893878 ATGTCGTTCG
37893888 TTTCCAAAACATTATTCA
1 TTTCCAAAACATTATTCA
* *
37893906 TTTACAAATCATTATTCAA
1 TTTCCAAAACATTATTC-A
37893925 TTTCCAAA
1 TTTCCAAA
37893933 CTTTTTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTCCAAAACATTATTCA
Found at i:37894211 original size:16 final size:16
Alignment explanation
Indices: 37894190--37894223 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37894180 ACAAAAAAAG
*
37894190 AAGAAAGGAAAGGGGA
1 AAGAAAGGAAAAGGGA
*
37894206 AAGAAATGAAAAGGGA
1 AAGAAAGGAAAAGGGA
37894222 AA
1 AA
37894224 AACTAGGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (16 bp):
AAGAAAGGAAAAGGGA
Found at i:37894815 original size:23 final size:23
Alignment explanation
Indices: 37894788--37894862 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
37894778 AGCTGTGCTG
37894788 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
37894811 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
37894834 ATCAGACACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCGTAT
*
37894857 TTCAGG
1 ATCAGG
37894863 AACCTCGTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:37894874 original size:46 final size:44
Alignment explanation
Indices: 37894788--37894882 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 44
37894778 AGCTGTGCTG
* * * * *
37894788 ATCAGGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCATATATCAGGAACCTCATGTGTC--AT
* *
37894834 ATCAGACACTTTATGTGTCATATTTCAGGAACCTCGTGTGTCAT
1 ATCAGACACTTTATGTGTCATATATCAGGAACCTCATGTGTCAT
37894878 ATCAG
1 ATCAG
37894883 GCACCTCGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 7 0.17
46 35 0.83
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (44 bp):
ATCAGACACTTTATGTGTCATATATCAGGAACCTCATGTGTCAT
Found at i:37894905 original size:21 final size:21
Alignment explanation
Indices: 37894847--37894907 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
37894837 AGACACTTTA
*
37894847 TGTGTCATATTTCAGGAACCTCG
1 TGTGTCAT-TTT-AGGCACCTCG
* *
37894870 TGTGTCATATCAGGCACCTCG
1 TGTGTCATTTTAGGCACCTCG
37894891 TGTGTCATTTTAGGCAC
1 TGTGTCATTTTAGGCAC
37894908 TTATGTGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 24 0.73
22 1 0.03
23 8 0.24
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
TGTGTCATTTTAGGCACCTCG
Found at i:37901810 original size:24 final size:24
Alignment explanation
Indices: 37901777--37901841 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
37901767 AAAAAATAAA
* **
37901777 AAAAACAAAAAA-AAATTAAAATC
1 AAAATCAAAAAACAAAAAAAAATC
37901800 AAAATCAAAAAACAAAAAAAAATC
1 AAAATCAAAAAACAAAAAAAAATC
* *
37901824 AAAGTC-AAAAGCAAAAAA
1 AAAATCAAAAAACAAAAAA
37901842 GAGAAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 22 0.61
24 14 0.39
ACGTcount: A:0.77, C:0.11, G:0.03, T:0.09
Consensus pattern (24 bp):
AAAATCAAAAAACAAAAAAAAATC
Found at i:37901812 original size:30 final size:30
Alignment explanation
Indices: 37901776--37901864 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
37901766 AAAAAAATAA
*
37901776 AAAAAACAAAAAAAAATTAAAATCAAAATC
1 AAAAAACAAAAAAAAATTAAAGTCAAAATC
* *
37901806 AAAAAACAAAAAAAAATCAAAGTCAAAAGC
1 AAAAAACAAAAAAAAATTAAAGTCAAAATC
* * **
37901836 AAAAAAGAGAAATCAATTAAAGTCAAAAT
1 AAAAAACAAAAAAAAATTAAAGTCAAAAT
37901865 AAAGATATGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.72, C:0.10, G:0.06, T:0.12
Consensus pattern (30 bp):
AAAAAACAAAAAAAAATTAAAGTCAAAATC
Found at i:37904105 original size:45 final size:45
Alignment explanation
Indices: 37904065--37904556 Score: 308
Period size: 45 Copynumber: 11.1 Consensus size: 45
37904055 GAGCAGGTTA
* *
37904065 AAGATAGCAGGTCTTGCCTTCCTGCATTGACAATGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
* * * * * ** * * * *
37904110 AAGGTACCAGCT-TTGCCTCCCT-CGGTT-ACAGTGGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAACGAAGCAGATCG
* *
37904153 AAGATAGTAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
* * * *
37904198 AAGATAACAGATCTTGCCTTCCTGCACTGACAGCGAAACAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
* * * * ** * * *
37904243 AAGATACCAG-CCTTGCCTCCCT-CGGTTG-CAGTGGAGCAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAACGAAGCAGATCG
* * *
37904286 AAGATAGCAGATCTTGCCTTTCTACATCGACAACGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
* * * *
37904331 AAGATAGCAGATCTTGCCTTTCTGCACTAACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
* * * * ** * *
37904376 AAGATACCAG-CCTTGTCTCCCT-CAGTTG-CAGTGGAGTACG-TCG
1 AAGATAGCAGATCTTGCCTTCCTGCA-TTGACAACGAAGCA-GATCG
* * *
37904419 AAGATAGTAGATCTTGCCTTCCTGCACTGACAACAAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
* * * * ** * * * *
37904464 AAGATACCAG-CCTTGCCTCCCT-CGGTTG-CAGTGGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAACGAAGCAGATCG
* ** *
37904507 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
37904552 AAGAT
1 AAGAT
37904557 TACAACTCCT
Statistics
Matches: 332, Mismatches: 97, Indels: 36
0.71 0.21 0.08
Matches are distributed among these distances:
43 78 0.23
44 90 0.27
45 164 0.49
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
Found at i:37904168 original size:88 final size:88
Alignment explanation
Indices: 37904033--37904556 Score: 417
Period size: 88 Copynumber: 5.9 Consensus size: 88
37904023 AAACAACGCC
* ** *
37904033 TTGCCTCCCTCGGTTGCAGTTGGAGCAGGTTAAAGATAGCAGGTCTTGCCTTCCTGCATTGACAA
1 TTGCCTCCCTCGGTTACAG-TGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAA
* *
37904098 TGAAGCAGATCGAAGGTACCAGCT
65 CGAAGCAGATCGAAGATACCAGCT
* * * *
37904122 TTGCCTCCCTCGGTTACAGTGGAGTAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAAC
1 TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAAC
* *
37904187 GAAGCAGATCGAAGATAACAGAT
66 GAAGCAGATCGAAGATACCAGCT
* ** * * * * * * * * *
37904210 CTTGCCTTCCTGCACTGACAGCGAAACAGATCGAAGATACCAG-CCTTGCCTCCCT-CGGTTG-C
1 -TTGCCTCCCT-CGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGC-ATTGAC
** * * * * *
37904272 AGTGGAGCAGGTTGAAGATAGCAGAT
63 AACGAAGCAGATCGAAGATACCAGCT
** * * ** * * * * *
37904298 CTTGCCTTTCTAC-ATCGACAACGAAGCAGATCGAAGATAGCAGATCTTGCCTTTCTGCACTAAC
1 -TTGCCTCCCT-CGGT-TACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGAC
* *
37904362 AGCGAAGCAGATCGAAGATACCAGCC
63 AACGAAGCAGATCGAAGATACCAGCT
* * * * * * *
37904388 TTGTCTCCCTCAGTTGCAGTGGAGTACGTCGAAGATAGTAGATCTTGCCTTCCTGCACTGACAAC
1 TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAAC
* *
37904453 AAAGCAGATCGAAGATACCAGCC
66 GAAGCAGATCGAAGATACCAGCT
* * * * **
37904476 TTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGT
1 TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAAC
*
37904541 GAAGTAGATCGAAGAT
66 GAAGCAGATCGAAGAT
37904557 TACAACTCCT
Statistics
Matches: 348, Mismatches: 79, Indels: 17
0.78 0.18 0.04
Matches are distributed among these distances:
87 1 0.00
88 249 0.72
89 57 0.16
90 41 0.12
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (88 bp):
TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAAC
GAAGCAGATCGAAGATACCAGCT
Found at i:37904240 original size:133 final size:133
Alignment explanation
Indices: 37904065--37904469 Score: 614
Period size: 133 Copynumber: 3.0 Consensus size: 133
37904055 GAGCAGGTTA
* * ** * *
37904065 AAGATAGCAGGTCTTGCCTTCCTGCATTGACAATGAAGCAGATCGAAGGTACCAGCTTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
37904130 CTCGGTTACAGTGGAGTAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
66 CTCGGTTGCAGTGGAGTAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
37904195 TCG
131 TCG
* *
37904198 AAGATAACAGATCTTGCCTTCCTGCACTGACAGCGAAACAGATCGAAGATACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* * * *
37904263 CTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTTCTACATCGACAACGAAGCAGA
66 CTCGGTTGCAGTGGAGTAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
37904328 TCG
131 TCG
* * *
37904331 AAGATAGCAGATCTTGCCTTTCTGCACTAACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* * * *
37904396 CTCAGTTGCAGTGGAGTACGTCGAAGATAGTAGATCTTGCCTTCCTGCA-CTGACAACAAAGCAG
66 CTCGGTTGCAGTGGAGTAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATC-GACAACGAAGCAG
37904460 ATCG
130 ATCG
37904464 AAGATA
1 AAGATA
37904470 CCAGCCTTGC
Statistics
Matches: 245, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
132 1 0.00
133 244 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (133 bp):
AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
CTCGGTTGCAGTGGAGTAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
TCG
Found at i:37904789 original size:44 final size:44
Alignment explanation
Indices: 37904730--37904889 Score: 130
Period size: 44 Copynumber: 3.6 Consensus size: 44
37904720 GATTAAAAGG
*
37904730 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGACTG-AGAAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAG-AAACAA
* * ** * * *
37904774 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAGAAACAA
* * * *
37904818 ATCTTATCTCCCT-AAGGTTGCAATGGAGCAGATTGAAG--TCGATA
1 ATCTTATCTCCCTGAA-GTTGCAGTGGAGAAGACTGAAGAAAC-A-A
* *
37904862 ATCCTATTTCCCTGAAGTTGCAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
37904890 CGGATTAAAG
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 84 0.91
45 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAGAAACAA
Found at i:37904890 original size:44 final size:44
Alignment explanation
Indices: 37904817--37904900 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
37904807 TGAAGAAGCA
* *
37904817 AATCTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
1 AATCCTATCTCCCTAAGGTTGCAATGGAGCAGATTAAAGTCGAT
* * *
37904861 AATCCTATTTCCCTGAA-GTTGCAGTGGAGCGGATTAAAGT
1 AATCCTATCTCCCT-AAGGTTGCAATGGAGCAGATTAAAGT
37904901 AATAGATCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.94
45 2 0.06
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
AATCCTATCTCCCTAAGGTTGCAATGGAGCAGATTAAAGTCGAT
Found at i:37912335 original size:7 final size:8
Alignment explanation
Indices: 37912307--37912339 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
37912297 ATATTTATAC
37912307 TTTTTAATA
1 TTTTTAA-A
37912316 TTTTTAAA
1 TTTTTAAA
37912324 TTTTTAAA
1 TTTTTAAA
37912332 TTTTTAAA
1 TTTTTAAA
37912340 AATTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:37917787 original size:17 final size:19
Alignment explanation
Indices: 37917757--37917791 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
37917747 TTTAATATAT
37917757 ATATATGAATAATTATTTG
1 ATATATGAATAATTATTTG
37917776 ATATAT-AA-AATTATTT
1 ATATATGAATAATTATTT
37917792 TAATTTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
ATATATGAATAATTATTTG
Found at i:37919394 original size:19 final size:22
Alignment explanation
Indices: 37919361--37919413 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
37919351 AAATCTTTTT
* *
37919361 TTAATATATATTTT-AAAATAA
1 TTAATAAAAATTTTAAAAATAA
37919382 -T-ATAAAAATTTTAAAAATAA
1 TTAATAAAAATTTTAAAAATAA
37919402 TTAATAAAAATT
1 TTAATAAAAATT
37919414 ACATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.33
20 8 0.30
21 1 0.04
22 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATAAAAATTTTAAAAATAA
Found at i:37922080 original size:26 final size:25
Alignment explanation
Indices: 37922010--37922080 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
37922000 TTTTTTTTTG
*
37922010 TATTTTAATTTAATAATAATATAAAAA
1 TATTATAATTT-ATAA-AATATAAAAA
*
37922037 TATTATAATTTATGAAAATTTAAAAA
1 TATTATAATTTAT-AAAATATAAAAA
37922063 TA-TATAAATTTACTAAAA
1 TATTAT-AATTTA-TAAAA
37922081 AGCATGTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.08
26 23 0.59
27 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (25 bp):
TATTATAATTTATAAAATATAAAAA
Found at i:37922194 original size:10 final size:9
Alignment explanation
Indices: 37922168--37922237 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
37922158 TAGTGACAAA
37922168 TAATATTTT
1 TAATATTTT
37922177 TAATATTTT
1 TAATATTTT
37922186 TAATAATTTT
1 TAAT-ATTTT
*
37922196 ATAA-ATTTA
1 -TAATATTTT
37922205 TAA-A--TT
1 TAATATTTT
37922211 T-ATATTTT
1 TAATATTTT
* *
37922219 TTAGATTTT
1 TAATATTTT
37922228 TATATATTTT
1 TA-ATATTTT
37922238 GAATGTATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
5 1 0.02
6 3 0.06
8 7 0.14
9 24 0.49
10 11 0.22
11 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (9 bp):
TAATATTTT
Found at i:37924329 original size:29 final size:29
Alignment explanation
Indices: 37924290--37924399 Score: 125
Period size: 29 Copynumber: 3.8 Consensus size: 29
37924280 AGAAAAACTA
*
37924290 TAAAATCTGGAAAACCAGTGGTAAAATTG
1 TAAAATCTGGAAAACCAGTGGCAAAATTG
* *
37924319 TAAAATATGGAAATA-TAGTGGCAAAACTT-
1 TAAAATCTGGAAA-ACCAGTGGCAAAA-TTG
* * *
37924348 TAAAATTTTGAAAACCAGTTGCAAAATTG
1 TAAAATCTGGAAAACCAGTGGCAAAATTG
*
37924377 TAAAATCTGGAAAAACAGTGGCA
1 TAAAATCTGGAAAACCAGTGGCA
37924400 GATCAGTGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.05
29 60 0.91
30 3 0.05
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.25
Consensus pattern (29 bp):
TAAAATCTGGAAAACCAGTGGCAAAATTG
Found at i:37924345 original size:58 final size:58
Alignment explanation
Indices: 37924283--37924399 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
37924273 GAATAGTAGA
* * *
37924283 AAAACTATAAAATCTGGAAAACCAGTGGTAAAATTGTAAAATATGGAAATATAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
* * * * *
37924341 AAAACTTTAAAATTTTGAAAACCAGTTGCAAAATTGTAAAATCTGGAAAAACAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
37924399 A
1 A
37924400 GATCAGTGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (58 bp):
AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
Found at i:37924862 original size:33 final size:32
Alignment explanation
Indices: 37924808--37924876 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
37924798 AAGAAAGATA
*
37924808 AATTCTATTAGAATTTAAAAAGTAGTAATTTG
1 AATTCTATTAGAATTTAAAAAGGAGTAATTTG
* * *
37924840 AATTCTAATTAGGATTTTAAAAGGATTAATTTG
1 AATTCT-ATTAGAATTTAAAAAGGAGTAATTTG
37924873 AATT
1 AATT
37924877 TCAAAATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 6 0.19
33 26 0.81
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (32 bp):
AATTCTATTAGAATTTAAAAAGGAGTAATTTG
Found at i:37927161 original size:41 final size:41
Alignment explanation
Indices: 37927116--37927214 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
37927106 GCTCTGTGCT
* *
37927116 TAGTAGACTTAATGCC-AGTGAAATAATTCAGACTGTACGTC
1 TAGTAGGCTTAATGCCGA-TGAAATAATTCAAACTGTACGTC
* *
37927157 TAGTAGGCTTAATGCCGATGAAATATTTCAAACTTTACGTC
1 TAGTAGGCTTAATGCCGATGAAATAATTCAAACTGTACGTC
*
37927198 TAGCAGGCTTAATGCCG
1 TAGTAGGCTTAATGCCG
37927215 GTGTTCTGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 51 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (41 bp):
TAGTAGGCTTAATGCCGATGAAATAATTCAAACTGTACGTC
Found at i:37933386 original size:13 final size:13
Alignment explanation
Indices: 37933355--37933387 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37933345 GAAGGAGATC
*
37933355 ACACATGGCCTGG
1 ACACACGGCCTGG
37933368 -CACACGGCCTGG
1 ACACACGGCCTGG
37933380 ACACACGG
1 ACACACGG
37933388 GCATGTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.24, C:0.36, G:0.30, T:0.09
Consensus pattern (13 bp):
ACACACGGCCTGG
Found at i:37933880 original size:21 final size:20
Alignment explanation
Indices: 37933850--37933919 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
37933840 CATTTTCCCC
37933850 ATTTTA-TTTATTATTTTATT
1 ATTTTATTTTATTA-TTTATT
*
37933870 ATTTTATTTTATTCCTTTATT
1 ATTTTATTTTATT-ATTTATT
* *
37933891 AATTTATTTTTCTTATTT-TT
1 ATTTTA-TTTTATTATTTATT
37933911 ATTTTATTT
1 ATTTTATTT
37933920 ATTCTATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 3 0.07
20 13 0.31
21 20 0.48
22 6 0.14
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTATTTTATTATTTATT
Found at i:37940420 original size:50 final size:50
Alignment explanation
Indices: 37940365--37940524 Score: 117
Period size: 50 Copynumber: 3.2 Consensus size: 50
37940355 TAACTCGTAA
37940365 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTGTGG
** ** ** ** * * *
37940415 CTTTAAT-TTGTTCCACTGCACCG-CCAATGAAATAAGATTCGCCATTATAG
1 CTTTAATCTT-TTTAACTGCAATGTCGGA-GAAGCAAGATTCGCCGTTGTGG
* * * * * * *
37940465 CTTTTATTTTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACTGATGTGG
1 CTTTAATCTTTTT-AACTGCAATGTCGGAGAAGCAAGATTCGCCGTTGTGG
37940516 CTTTAATCT
1 CTTTAATCT
37940525 ATTCCATTGC
Statistics
Matches: 75, Mismatches: 30, Indels: 9
0.66 0.26 0.08
Matches are distributed among these distances:
49 4 0.05
50 41 0.55
51 29 0.39
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (50 bp):
CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTGTGG
Found at i:37940552 original size:101 final size:100
Alignment explanation
Indices: 37940373--37940564 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 100
37940363 AACTTTAATC
* * * *
37940373 TTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTGTGGCTTTAATTTGTTCCACTGCACCG
1 TTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCG
*
37940438 CCAATGAAATAAGATTCGCCATTATAGCTTTTATT
66 CCAAGGAAATAAGATTCGCCATTATAGCTTTTATT
* * * *
37940473 TTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTATTCCATTGCACC
1 TTTTT-AACTGCAATGTCGGAGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACC
** * * *
37940538 GCCTGGGGAGTAAGATTCGCCGTTATA
65 GCCAAGGAAATAAGATTCGCCATTATA
37940565 AATGTCAGGG
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
100 5 0.06
101 72 0.94
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (100 bp):
TTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCG
CCAAGGAAATAAGATTCGCCATTATAGCTTTTATT
Found at i:37940622 original size:80 final size:80
Alignment explanation
Indices: 37940485--37940637 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 80
37940475 TTTAAATTGC
* ** * *
37940485 AATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTATTCCATTGCACCGCCTGGGGAGTA
1 AATGTCAGGGAAGCAAGATTCACAAATGTGGCTTTAATCTATTCCACTGCACCGCCTGAGGAGTA
37940550 AGATTCGCCGTTATA
66 AGATTCGCCGTTATA
* **
37940565 AATGTCAGGGAAGCAAGATTCACAAATGTGGCTTTAATCTGTTCCACTGCATTGCCTGAGGAGTA
1 AATGTCAGGGAAGCAAGATTCACAAATGTGGCTTTAATCTATTCCACTGCACCGCCTGAGGAGTA
37940630 AGATTCGC
66 AGATTCGC
37940638 TGTCGTAGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (80 bp):
AATGTCAGGGAAGCAAGATTCACAAATGTGGCTTTAATCTATTCCACTGCACCGCCTGAGGAGTA
AGATTCGCCGTTATA
Found at i:37940703 original size:100 final size:100
Alignment explanation
Indices: 37940569--37940815 Score: 377
Period size: 100 Copynumber: 2.5 Consensus size: 100
37940559 GTTATAAATG
** * *
37940569 TCAGGGAAGCAAGATTCACAAATGTGGCTTTAATCTGTTCCACTGCATTGCCTGAGGAGTAAGAT
1 TCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGAGGAGTAAGAT
*
37940634 TCGCTGTCGTAGCTTTAATCTTTTTAATTGCAATA
66 TCACTGTCGTAGCTTTAATCTTTTTAATTGCAATA
* * *
37940669 TCAGGGAAGGAAGATTCACCGATATGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTAAGAT
1 TCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGAGGAGTAAGAT
* *
37940734 TCACTGTTGTAGCTTTAATCTTTTTAATTGCAATG
66 TCACTGTCGTAGCTTTAATCTTTTTAATTGCAATA
* * *
37940769 TCGGGGAAGCAAGATTCATCGATGTGGCTTTAATATGTTCCACTACA
1 TCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACA
37940816 CCTCTTGGGA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 132 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (100 bp):
TCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGAGGAGTAAGAT
TCACTGTCGTAGCTTTAATCTTTTTAATTGCAATA
Found at i:37940799 original size:50 final size:49
Alignment explanation
Indices: 37940565--37940802 Score: 142
Period size: 50 Copynumber: 4.8 Consensus size: 49
37940555 CGCCGTTATA
* * * ** *
37940565 AATGTCAGGGAAGCAAGATTCACAAATGTGGCTTTAATCTGTTCCACTGC
1 AATGTCGGGGAAGCAAGATTCAC-GATGTGGCTTTAATCTTTTTAATTGC
* * * * * *
37940615 ATTGCCTGAGG-AGTAAGATTCGCTG-TCGTAGCTTTAATCTTTTTAATTGC
1 AATGTC-GGGGAAGCAAGATTCAC-GAT-GTGGCTTTAATCTTTTTAATTGC
* * * * * ** * *
37940665 AATATCAGGGAAGGAAGATTCACCGATATGGCTTTAATCTGTTCCACTAC
1 AATGTCGGGGAAGCAAGATTCA-CGATGTGGCTTTAATCTTTTTAATTGC
* * * *
37940715 -ATCGCCTGGGG-AGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAATTGC
1 AAT-GTC-GGGGAAGCAAGATTCAC-GATGTGGCTTTAATCTTTTTAATTGC
37940765 AATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAAT
1 AATGTCGGGGAAGCAAGATTCA-CGATGTGGCTTTAAT
37940803 ATGTTCCACT
Statistics
Matches: 134, Mismatches: 43, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
49 10 0.07
50 114 0.85
51 10 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (49 bp):
AATGTCGGGGAAGCAAGATTCACGATGTGGCTTTAATCTTTTTAATTGC
Done.