Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 194 of 344
Found at i:64788932 original size:27 final size:27
Alignment explanation
Indices: 64788892--64788945 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64788882 CAGGTACAAC
* *
64788892 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
64788919 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
64788946 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:64793874 original size:17 final size:17
Alignment explanation
Indices: 64793854--64793886 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64793844 GGATAGACTA
*
64793854 ATTATTAGGAGAGATTG
1 ATTACTAGGAGAGATTG
64793871 ATTACTAGGAGAGATT
1 ATTACTAGGAGAGATT
64793887 ACTTAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (17 bp):
ATTACTAGGAGAGATTG
Found at i:64794617 original size:21 final size:21
Alignment explanation
Indices: 64794591--64794642 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
64794581 GTGCATTTGG
64794591 AGCTTCTC-TAACTCCAATCTC
1 AGCTTCTCAT-ACTCCAATCTC
*
64794612 AGCTTCTCATTCTCCAATCTC
1 AGCTTCTCATACTCCAATCTC
*
64794633 AGCCTCTCAT
1 AGCTTCTCAT
64794643 TCTGGTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (21 bp):
AGCTTCTCATACTCCAATCTC
Found at i:64794643 original size:21 final size:21
Alignment explanation
Indices: 64794602--64794645 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
64794592 GCTTCTCTAA
*
64794602 CTCCAATCTCAGCTTCTCATT
1 CTCCAATCTCAGCCTCTCATT
64794623 CTCCAATCTCAGCCTCTCATT
1 CTCCAATCTCAGCCTCTCATT
64794644 CT
1 CT
64794646 GGTGCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.36
Consensus pattern (21 bp):
CTCCAATCTCAGCCTCTCATT
Found at i:64798153 original size:96 final size:96
Alignment explanation
Indices: 64797989--64798178 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 96
64797979 TCGCTTCTTT
* *
64797989 TTGCTCCTCTTTTCCCTCTTGGCTTCGGATTTTCCCTTACTCGAATCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
* *
64798054 GTCTGCTCCATCATTCCCTTCGATGACAGAC
66 GTCTACTCCATCATTCCCATCGATGACAGAC
* * *
64798085 TTGCTCCTCTTTGCCCTCTTGGCTTCGGTTTTTCCCTTGCTCGAACCAAGTTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
*
64798150 GTCTACTCCATCGTTCCCATCGATGACAG
66 GTCTACTCCATCATTCCCATCGATGACAG
64798179 GCTTCCTCGG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.12, C:0.33, G:0.17, T:0.38
Consensus pattern (96 bp):
TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
GTCTACTCCATCATTCCCATCGATGACAGAC
Found at i:64800320 original size:12 final size:12
Alignment explanation
Indices: 64800303--64800328 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64800293 CATTCATTCT
64800303 TACATATATATA
1 TACATATATATA
64800315 TACATATATATA
1 TACATATATATA
64800327 TA
1 TA
64800329 TTTCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TACATATATATA
Found at i:64801641 original size:19 final size:19
Alignment explanation
Indices: 64801617--64801653 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64801607 AAAAATCTAT
64801617 TAAAAATAATTCGGAAAAA
1 TAAAAATAATTCGGAAAAA
* *
64801636 TAAAAATATTTTGGAAAA
1 TAAAAATAATTCGGAAAA
64801654 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAAATAATTCGGAAAAA
Found at i:64801792 original size:27 final size:27
Alignment explanation
Indices: 64801736--64801794 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
64801726 ATTGGGGGTT
* **
64801736 AATTTGAGTTAATTTAAATATTAATTA
1 AATTTGAGTTAATTTAAATATAAAGGA
*
64801763 AATTTGATTTAATTGTAAA-ATAAAGGA
1 AATTTGAGTTAATT-TAAATATAAAGGA
64801790 AATTT
1 AATTT
64801795 TGGAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (27 bp):
AATTTGAGTTAATTTAAATATAAAGGA
Found at i:64803426 original size:6 final size:6
Alignment explanation
Indices: 64803415--64803444 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
64803405 CAATCCGGGA
64803415 CTGATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT
64803445 GGGAGTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
CTGATT
Found at i:64820809 original size:17 final size:17
Alignment explanation
Indices: 64820787--64820824 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
64820777 TAAAAATTAT
*
64820787 AATTTTATTTTAA-AAAA
1 AATTTT-TTTAAATAAAA
64820804 AATTTTTTTAAATAAAA
1 AATTTTTTTAAATAAAA
64820821 AATT
1 AATT
64820825 ATTGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTTTTAAATAAAA
Found at i:64820881 original size:29 final size:27
Alignment explanation
Indices: 64820829--64820893 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
64820819 AAAATTATTG
* *
64820829 AAAAAGAATAAAAGATCTTTAAATTTA
1 AAAAAAAATAAAAGATCTTTAAATATA
64820856 AAAAAAAATAAAAATGAT-TTTGAAATATA
1 AAAAAAAAT-AAAA-GATCTTT-AAATATA
*
64820885 AATAAAAAT
1 AAAAAAAAT
64820894 TGGAAATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.25
28 7 0.22
29 17 0.53
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (27 bp):
AAAAAAAATAAAAGATCTTTAAATATA
Found at i:64821948 original size:28 final size:28
Alignment explanation
Indices: 64821914--64821973 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
64821904 GTGTTTTGTT
*
64821914 AAAATAATTTAGGGTTTAAGAATT-TTAA
1 AAAATAAATTAGGGTTT-AGAATTGTTAA
*
64821942 AAAATAAATTAGGGTTTAGAGTTGTTAA
1 AAAATAAATTAGGGTTTAGAATTGTTAA
64821970 AAAA
1 AAAA
64821974 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (28 bp):
AAAATAAATTAGGGTTTAGAATTGTTAA
Found at i:64822069 original size:34 final size:33
Alignment explanation
Indices: 64821946--64822075 Score: 163
Period size: 34 Copynumber: 3.8 Consensus size: 33
64821936 TTTTAAAAAA
* *
64821946 TAAATTAGGGTTTAGAGTTGTTAAAAAAATTAAT
1 TAAATTAGGGTTTAGAGTT-TTTAAAATATTAAT
* *
64821980 TAAATTAGGTTTTAGGAG-TTTTAAATTAATTAAT
1 TAAATTAGGGTTTA-GAGTTTTTAAAAT-ATTAAT
64822014 TAAATTAGGGTTTAGAGTTTTTAAGAATATTAAT
1 TAAATTAGGGTTTAGAGTTTTTAA-AATATTAAT
**
64822048 TAAATTAGGGTTTAGTTTTTTTAAAATA
1 TAAATTAGGGTTTAGAGTTTTTAAAATA
64822076 AATTTGTGTT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
33 12 0.14
34 67 0.80
35 5 0.06
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (33 bp):
TAAATTAGGGTTTAGAGTTTTTAAAATATTAAT
Found at i:64822383 original size:125 final size:126
Alignment explanation
Indices: 64822170--64822554 Score: 472
Period size: 125 Copynumber: 3.1 Consensus size: 126
64822160 TTTTTTTATG
* * * * *** *
64822170 GTAGTTTCAGAAAAATTAATTTTGGGAAGACAATTCTGAAAAGATAATGTCAAAAACGCTTCAAG
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
** * * *
64822235 CAAGATGCACCATCAGCAAAATTACTGAAAAAAGCTTCTACGTGAACGCCCTTTTTCTACA
66 CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
* *
64822296 ATAGTTCCTGAAAAAATAATTTTGAG-AGATGGTTCTGAAAAAATATTGTCAAAAACGCTTCAAG
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
* ** * * *
64822360 CAAAATGTGCTGTCAGCAAAATTACTGAAAAAA-CTCCAACGTGGAC-ATTTTTTTCTACA
66 CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
* * *
64822419 GTAGTTCCTAAAAAAATAATTTTGAGAAGATGGTTCT-AAAAAATAGTGTCAAAAAACACTTCAA
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTC-AAAAACGCTTCAA
** * * *
64822483 GCCGGATGCACTGTTAACAAAATTACTAAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
65 GCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
64822545 GTAGTTCCTG
1 GTAGTTCCTG
64822555 CTTGGCCTTA
Statistics
Matches: 218, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
123 46 0.21
124 58 0.27
125 73 0.33
126 41 0.19
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
Found at i:64824578 original size:27 final size:27
Alignment explanation
Indices: 64824537--64824642 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
64824527 TGAACATCTT
* *
64824537 TAACTCTAATATCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
64824564 TAACTCCAATCTCAGCTTTTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
64824591 TAACTCCCATCTCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
* *
64824618 CAACTCCAATCTCA-CCTCTCATTCT
1 TAACTCCAATCTCAGCTTCTCATTCT
64824643 GGTGCAACAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 10 0.14
27 61 0.86
ACGTcount: A:0.23, C:0.37, G:0.03, T:0.38
Consensus pattern (27 bp):
TAACTCCAATCTCAGCTTCTCATTCTC
Found at i:64824777 original size:93 final size:93
Alignment explanation
Indices: 64824619--64824827 Score: 278
Period size: 93 Copynumber: 2.3 Consensus size: 93
64824609 CTCATTCTCC
* ** * * *
64824619 AACTCCAATCTCA-CCTCT-CATTCTGGTGCAACAATTGTTCTTTTTCGTTGATCACTTGAATCA
1 AACTCCAATCTCAGCCT-TGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCA
* *
64824682 ATTCCAAGTTCTGTTCCCTTTGACGCTCA
65 ATTCCAAATTCTGTTCCCTTTCACGCTCA
*
64824711 AACTCCAATCTCAGCCTTGCATTCCGGTGCAATAATTGACCTTCTACATTGATCACTTGAATCAA
1 AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
* * *
64824776 TTTCAAATTCTGTTCCGTTTCACGCTCT
66 TTCCAAATTCTGTTCCCTTTCACGCTCA
*
64824804 AACTCCAATCTCAGCCTCGCATTC
1 AACTCCAATCTCAGCCTTGCATTC
64824828 TCCTTCTCCA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
92 14 0.14
93 88 0.86
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.35
Consensus pattern (93 bp):
AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
TTCCAAATTCTGTTCCCTTTCACGCTCA
Found at i:64829187 original size:40 final size:40
Alignment explanation
Indices: 64829115--64829391 Score: 254
Period size: 41 Copynumber: 6.8 Consensus size: 40
64829105 AATAGAGCTT
* * *
64829115 TAGCGGCGTTTTAACTAAAAACGCTGCTAAAAATAGAGCAA
1 TAGCGGCGTTTTACCT-AAAACGCCGCTAAAAACAGAGCAA
***
64829156 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAACAGAGCAA
1 TAGCGGCGTTTTACCTAAAACGCCGCT-AAAAACAGAGCAA
* * *
64829197 TAGCGGCGTTTTACCAAAAATGCTGCTAAAAACAGAGCAA
1 TAGCGGCGTTTTACCTAAAACGCCGCTAAAAACAGAGCAA
* *
64829237 TAGCAGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTACCTAAAACGCCGCTAAAAA-CAGAGCAA
** * *
64829278 TAGCATCGTTTTACCAAAAACGCGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGTTTTACCTAAAA--CGCCGCTAAAAA-CAGAGCAA
* * *
64829321 TAGCGGCGCTTT-CAGTAAAACGCCGCTTAAAACCAGAGC-A
1 TAGCGGCGTTTTAC-CTAAAACGCCGC-TAAAAACAGAGCAA
* * * *
64829361 TTGCGACGCTTT-CGATAAAACGCCGCTAAAA
1 TAGCGGCGTTTTAC-CTAAAACGCCGCTAAAA
64829392 GTCATAAAAC
Statistics
Matches: 203, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
39 5 0.02
40 74 0.36
41 85 0.42
42 6 0.03
43 33 0.16
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (40 bp):
TAGCGGCGTTTTACCTAAAACGCCGCTAAAAACAGAGCAA
Found at i:64829246 original size:81 final size:81
Alignment explanation
Indices: 64829115--64829360 Score: 303
Period size: 81 Copynumber: 3.0 Consensus size: 81
64829105 AATAGAGCTT
* * **
64829115 TAGCGGCGTTTTAACTAAAAACGCTGCTAAAAATAGAGCAATAGCGGCGTTTTTGGTAAAACGCC
1 TAGCGGCGTTTT-ACCAAAAACGCTGCTAAAAACAGAGCAATAGCGGCGTTTTAAGTAAAACGCC
*
64829180 GCTAAAAAACAGAGCAA
65 GCTAAAAACCAGAGCAA
* * ***
64829197 TAGCGGCGTTTTACCAAAAATGCTGCTAAAAACAGAGCAATAGCAGCGTTTTACCAAAAACGCCG
1 TAGCGGCGTTTTACCAAAAACGCTGCTAAAAACAGAGCAATAGCGGCGTTTTAAGTAAAACGCCG
64829262 CTAAAAACCAGAGCAA
66 CTAAAAACCAGAGCAA
** * * * *
64829278 TAGCATCGTTTTACCAAAAACGCGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCAGTAAAACG
1 TAGCGGCGTTTTACCAAAAA--CGCTGCTAAAAA-CAGAGCAATAGCGGCGTTTTAAGTAAAACG
*
64829343 CCGCTTAAAACCAGAGCA
63 CCGCTAAAAACCAGAGCA
64829361 TTGCGACGCT
Statistics
Matches: 140, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 78 0.56
82 12 0.09
83 10 0.07
84 40 0.29
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (81 bp):
TAGCGGCGTTTTACCAAAAACGCTGCTAAAAACAGAGCAATAGCGGCGTTTTAAGTAAAACGCCG
CTAAAAACCAGAGCAA
Found at i:64830451 original size:8 final size:8
Alignment explanation
Indices: 64830412--64830485 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
64830402 TTTATATGAT
64830412 AATTTAAA
1 AATTTAAA
64830420 AATTATAAA
1 AATT-TAAA
64830429 AATCTTCAAAAA
1 AAT-TT---AAA
64830441 AATTTAAA
1 AATTTAAA
64830449 AA-TTAAA
1 AATTTAAA
*
64830456 TA-TTAAA
1 AATTTAAA
*
64830463 AATTAAAA
1 AATTTAAA
*
64830471 AACTTAAA
1 AATTTAAA
*
64830479 TATTTAA
1 AATTTAA
64830486 TATTTAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
7 12 0.23
8 24 0.45
9 8 0.15
10 1 0.02
11 2 0.04
12 6 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (8 bp):
AATTTAAA
Found at i:64830454 original size:7 final size:7
Alignment explanation
Indices: 64830438--64830471 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
64830428 AAATCTTCAA
64830438 AAAAATTT
1 AAAAA-TT
64830446 AAAAATT
1 AAAAATT
*
64830453 AAATATT
1 AAAAATT
64830460 AAAAATT
1 AAAAATT
64830467 AAAAA
1 AAAAA
64830472 ACTTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:64830472 original size:23 final size:22
Alignment explanation
Indices: 64830438--64830482 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
64830428 AAATCTTCAA
*
64830438 AAAAATTTAAAAATTAAATATT
1 AAAAATTAAAAAATTAAATATT
64830460 AAAAATTAAAAAACTTAAATATT
1 AAAAATTAAAAAA-TTAAATATT
64830483 TAATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATTAAAAAATTAAATATT
Found at i:64833533 original size:23 final size:22
Alignment explanation
Indices: 64833482--64833533 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
64833472 CCTCGTCTTT
*
64833482 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
64833504 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
64833527 TTCTTTT
1 TTCTTTT
64833534 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:64833548 original size:18 final size:18
Alignment explanation
Indices: 64833527--64833565 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
64833517 TTTCTTCAAC
* *
64833527 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
64833545 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
64833563 TTC
1 TTC
64833566 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:64838405 original size:18 final size:18
Alignment explanation
Indices: 64838378--64838470 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
64838368 TACGACCGTT
64838378 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
64838396 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
64838414 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
* *
64838432 TACAGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
64838450 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
64838468 TAC
1 TAC
64838471 AGTAGTTAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:64838425 original size:36 final size:36
Alignment explanation
Indices: 64838378--64838472 Score: 163
Period size: 36 Copynumber: 2.6 Consensus size: 36
64838368 TACGACCGTT
*
64838378 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCACGTA
*
64838414 TACGGTACTATTTACGTATACAGCACTATTCACGTA
1 TACGGTACTATTCACGTATACAGCACTATTCACGTA
*
64838450 TACGGTACTGTTCACGTATACAG
1 TACGGTACTATTCACGTATACAG
64838473 TAGTTAGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACAGCACTATTCACGTA
Found at i:64845040 original size:45 final size:45
Alignment explanation
Indices: 64844976--64845063 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
64844966 ATTGTTGCTG
64844976 GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTA
1 GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTA
*
64845021 GAGTGTTGGTCCTGATGAATTTGGGAGGAATCAATGCACTTAC
1 GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTAC
64845064 ATATTATTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (45 bp):
GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTA
Found at i:64846149 original size:43 final size:43
Alignment explanation
Indices: 64846056--64846283 Score: 264
Period size: 43 Copynumber: 5.3 Consensus size: 43
64846046 AAGTTTATAT
* * * *
64846056 TCTTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGT-TTGA
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * * * *
64846098 TATATAGCGGCGTTTTTAGAAAAAGCGACGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
*
64846141 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* *
64846184 TCTTTAGCGGCGTTTGGGGAAAAAGCGCTGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * * * *
64846227 TCTTTAACGGCGTTTTTTTG-CAAA-CGCCGCTAAAAGTCATGG
1 TCTTTAGCGGCG-TTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
*
64846269 TCTTTTGCGGCGTTT
1 TCTTTAGCGGCGTTT
64846284 TTTGCGGCGC
Statistics
Matches: 157, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.02
42 57 0.36
43 93 0.59
44 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
Found at i:64849845 original size:24 final size:24
Alignment explanation
Indices: 64849818--64849867 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
64849808 ACTAATGGAC
*
64849818 TTTTATTGTTTTTA-TTTTGGTTTT
1 TTTTATT-TTTTAATTTTTGGTTTT
*
64849842 TTTTGTTTTTTAATTTTTGGTTTT
1 TTTTATTTTTTAATTTTTGGTTTT
64849866 TT
1 TT
64849868 GGTTTTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTTAATTTTTGGTTTT
Found at i:64851821 original size:23 final size:23
Alignment explanation
Indices: 64851780--64851831 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
64851770 AGTAATATAC
* *
64851780 AAAATAATATACATTAATTCAAA
1 AAAATAATATACATAAATTAAAA
* *
64851803 TAAATAATATACCTAAATTAAAA
1 AAAATAATATACATAAATTAAAA
64851826 AAAATA
1 AAAATA
64851832 GTGTAATGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATAATATACATAAATTAAAA
Found at i:64853878 original size:15 final size:15
Alignment explanation
Indices: 64853858--64853897 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
64853848 ATTCTATTTA
64853858 TATTTTATTTCAT-AT
1 TATTTTATTT-ATAAT
64853873 TATTTTATTTATAAT
1 TATTTTATTTATAAT
*
64853888 TAATTTATTT
1 TATTTTATTT
64853898 TGTTTGCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTATTTATAAT
Found at i:64854420 original size:76 final size:76
Alignment explanation
Indices: 64854293--64854509 Score: 240
Period size: 76 Copynumber: 2.8 Consensus size: 76
64854283 TTTTGGGATT
* * * *
64854293 GATTCTCGCCGTTTAATGATTTTATTTCAAAATTGTTTTATTTCCAAAAACGAGTTAAATAAAAT
1 GATTCTCACCATTTAATGATTTTA-TTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAAT
*
64854358 CATTTCGGGACC
65 CATTTCAGGACC
* *
64854370 GATT-TCCACCATTTAATGATTTTATTCCAAATTTTTTTATTTTCAAAAACGAGTAAAATAAAAT
1 GATTCT-CACCATTTAATGATTTTATTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAAT
* *
64854434 CGTTTCAGGATC
65 CATTTCAGGACC
** * * * * *
64854446 GATTCTCGTCGTTCAACGATTTTATTCCAATTTTGTTTTATTTCCAAAAACAAG-TAACATAAAA
1 GATTCTCACCATTTAATGATTTTATTCCAAATTT-TTTTATTTCCAAAAACGAGTTAA-ATAAAA
64854510 ATCTTTCTGG
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
76 74 0.63
77 44 0.37
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (76 bp):
GATTCTCACCATTTAATGATTTTATTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAATC
ATTTCAGGACC
Found at i:64854544 original size:78 final size:77
Alignment explanation
Indices: 64854266--64854574 Score: 325
Period size: 77 Copynumber: 4.0 Consensus size: 77
64854256 GGGAAATTAA
* * * * * * *
64854266 AAGTAAAATAAAAATCGTTTTGGGATTGATTCTCGCCGTTTAATGATTTTATTTCAAAATTGTTT
1 AAGTAAAAT-AAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
64854331 TATTTCCAAAAAC
65 TATTTCCAAAAAC
* * * * * * * * *
64854344 GAGTTAAATAAAATCATTTCGGGACCGATTTCCACCATTTAATGATTTTATTCCAAATTT-TTTT
1 AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
*
64854408 ATTTTCAAAAAC
66 ATTTCCAAAAAC
* * * * *
64854420 GAGTAAAATAAAATCGTTTCAGGATCGATTCTCGTCGTTCAACGATTTTATTCCAATTTTGTTTT
1 AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
64854485 ATTTCCAAAAAC
66 ATTTCCAAAAAC
* * * * *
64854497 AAGTAACATAAAAATC-TTTCTGGGATTGATTCCCGTCGTTCAACGATTTCATTCCAAATTTGGT
1 AAGTAAAAT-AAAATCGTTTC-GGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTT
*
64854561 TTATTTCCAGAAAC
64 TTATTTCCAAAAAC
64854575 GAGAAATTAA
Statistics
Matches: 193, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
76 63 0.33
77 67 0.35
78 63 0.33
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (77 bp):
AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAAC
Found at i:64854749 original size:84 final size:83
Alignment explanation
Indices: 64854657--64854810 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 83
64854647 ATTAGAATAG
* * *
64854657 AATTAAATAAAATCTGTTTCGAGATTTATT-CTCGCCATTTAACAAGATTTTATTTGATTTTATT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCT-GCCATTTAACAAGATTTTA-TCGATATTATT
64854721 TTGTTTCTTAATTCAAATTA
64 TTGTTTCTTAATTCAAATTA
* * * * *
64854741 AATTAAATAAAATATGTTTTGGGATTTATTCCTGTCGTTTAACAAGATTTTATCGATATTGTTTT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
64854806 GTTTC
66 GTTTC
64854811 CAAACAAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 15 0.25
84 44 0.72
85 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.49
Consensus pattern (83 bp):
AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
GTTTCTTAATTCAAATTA
Found at i:64854897 original size:19 final size:20
Alignment explanation
Indices: 64854859--64854897 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
64854849 TATTCTTGTC
* *
64854859 ATTTAATAGATTTTATTTTG
1 ATTTAATAGATATAATTTTG
64854879 ATTTAAT-GATATAATTTTG
1 ATTTAATAGATATAATTTTG
64854898 TTTTGAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTAATAGATATAATTTTG
Found at i:64858416 original size:21 final size:21
Alignment explanation
Indices: 64858391--64858455 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
64858381 TAGCCTTCGG
64858391 GCTTCCATTTAGCACTTATGT
1 GCTTCCATTTAGCACTTATGT
* ** *
64858412 GCTT-CAGTTAGC-C-TCCGA
1 GCTTCCATTTAGCACTTATGT
*
64858430 GCTTCCGTTTAGCACTTATGT
1 GCTTCCATTTAGCACTTATGT
64858451 GCTTC
1 GCTTC
64858456 AGCTAGATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 8 0.25
21 11 0.34
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.38
Consensus pattern (21 bp):
GCTTCCATTTAGCACTTATGT
Found at i:64858419 original size:39 final size:39
Alignment explanation
Indices: 64858373--64858473 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
64858363 GCTCTGATGA
64858373 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
* * *
64858412 GCTTCAGTTAGCCTCCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
* **
64858451 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
64858474 AGATCACGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
Found at i:64859368 original size:20 final size:20
Alignment explanation
Indices: 64859343--64859383 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
64859333 TAATAAAAGT
64859343 AAAAAAAATCACTTTATCTA
1 AAAAAAAATCACTTTATCTA
64859363 AAAAAAAATCACTTTATCTA
1 AAAAAAAATCACTTTATCTA
64859383 A
1 A
64859384 TACATAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAAATCACTTTATCTA
Found at i:64863005 original size:14 final size:14
Alignment explanation
Indices: 64862986--64863013 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64862976 TTTTATGAAG
64862986 TATATACGAATTGT
1 TATATACGAATTGT
64863000 TATATACGAATTGT
1 TATATACGAATTGT
64863014 CACGACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TATATACGAATTGT
Found at i:64866188 original size:21 final size:20
Alignment explanation
Indices: 64866164--64866214 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
64866154 ACAAATGTGG
64866164 TTATTTGAAAATCATAAAATA
1 TTATTT-AAAATCATAAAATA
* *
64866185 TTATCTAGAAATTATAAAATA
1 TTATTTA-AAATCATAAAATA
64866206 TT-TTTAAAA
1 TTATTTAAAA
64866215 AAATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 19 0.73
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (20 bp):
TTATTTAAAATCATAAAATA
Found at i:64866236 original size:22 final size:22
Alignment explanation
Indices: 64866171--64866236 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
64866161 TGGTTATTTG
* **
64866171 AAAATCATAAAATATTAT-CTA
1 AAAATTATAAAATATTATAAAA
* * *
64866192 GAAATTATAAAATATTTTTAAA
1 AAAATTATAAAATATTATAAAA
64866214 AAAATTATAAAA-ATTAATAAAA
1 AAAATTATAAAATATT-ATAAAA
64866236 A
1 A
64866237 GCAATATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATTATAAAATATTATAAAA
Found at i:64866700 original size:21 final size:21
Alignment explanation
Indices: 64866676--64866719 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
64866666 TTTTAATAAA
64866676 TTGTAAATAAATTTTATAATT
1 TTGTAAATAAATTTTATAATT
* * *
64866697 TTGTAATTTAATTTTATTATT
1 TTGTAAATAAATTTTATAATT
64866718 TT
1 TT
64866720 AATAATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTGTAAATAAATTTTATAATT
Found at i:64866728 original size:22 final size:21
Alignment explanation
Indices: 64866685--64866734 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
64866675 ATTGTAAATA
*
64866685 AATTTTATAATTTTGTAATTT
1 AATTTTATAATTTTATAATTT
*
64866706 AATTTTATTATTTTAATAATTT
1 AATTTTATAATTTT-ATAATTT
64866728 ATATTTT
1 A-ATTTT
64866735 TGGAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.52
22 7 0.28
23 5 0.20
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
AATTTTATAATTTTATAATTT
Found at i:64866784 original size:19 final size:21
Alignment explanation
Indices: 64866760--64866798 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64866750 TTTTATAATT
64866760 ATTTT-AAA-AATATTTTAAA
1 ATTTTAAAATAATATTTTAAA
64866779 ATTTTAAAATAATATTTTAA
1 ATTTTAAAATAATATTTTAA
64866799 TGATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTAAAATAATATTTTAAA
Found at i:64871408 original size:222 final size:220
Alignment explanation
Indices: 64871022--64871484 Score: 786
Period size: 222 Copynumber: 2.1 Consensus size: 220
64871012 TGCAAACTTT
* *
64871022 TCTTCCACACCCAATTTGGTACGGCCCCGCTTATTTGGTTGTTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
* *
64871087 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAGGATCTGAAACGCAACGAAAT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATC-GAAAC-CAACAAAAT
64871152 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
129 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
*
64871217 AAGAAAGGTCTACCGATATAAGTGTGC
194 AAGAAAGGCCTACCGATATAAGTGTGC
*
64871244 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
*
64871309 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGAT-GCCAA-CAACAAAAAT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCG-AAACCAAC-AAAA-
*
64871372 CTCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTTGGAATGTCAATCGCATT
128 -TCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATT
64871437 GGAAGAAAGGCCTACCGATATAAGTGTGC
192 GGAAGAAAGGCCTACCGATATAAGTGTGC
64871466 TCTTCCACAACCAATTTGG
1 TCTTCCACAACCAATTTGG
64871485 AACAAGACCG
Statistics
Matches: 229, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
219 4 0.02
220 4 0.02
221 2 0.01
222 219 0.96
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (220 bp):
TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCGAAACCAACAAAATCA
GCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGGAA
GAAAGGCCTACCGATATAAGTGTGC
Found at i:64878427 original size:7 final size:7
Alignment explanation
Indices: 64878415--64878447 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
64878405 TTTTGTACTC
64878415 TTTAAAA
1 TTTAAAA
64878422 TTTAAAA
1 TTTAAAA
64878429 TTTAAAA
1 TTTAAAA
64878436 TTTAAAA
1 TTTAAAA
64878443 TTTAA
1 TTTAA
64878448 TCTCTATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:64881887 original size:26 final size:25
Alignment explanation
Indices: 64881817--64881936 Score: 96
Period size: 25 Copynumber: 4.5 Consensus size: 25
64881807 AAGTATATAC
**
64881817 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATAAATACATAAT
** * *
64881842 ATAGCGTTCAAAATACATACATAAT
1 ATAGTATTAAAAATAAATACATAAT
*
64881867 ATAGTTATTAAAAATAAATACATAAG
1 ATAG-TATTAAAAATAAATACATAAT
* *
64881893 ATAATATGTAAAAAATATATATATAAATAAT
1 ATAGTAT-T--AAAA-ATA-A-ATACATAAT
64881924 ATAGTATTAAAAA
1 ATAGTATTAAAAA
64881937 ATATAGTATT
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
25 27 0.36
26 20 0.27
27 1 0.01
28 8 0.11
29 3 0.04
30 2 0.03
31 13 0.18
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATAAATACATAAT
Found at i:64881919 original size:15 final size:15
Alignment explanation
Indices: 64881896--64881961 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
64881886 ACATAAGATA
*
64881896 ATATGTAAAAAATAT
1 ATATATAAAAAATAT
*
64881911 ATATATAAATAATAT
1 ATATATAAAAAATAT
64881926 AGTAT-TAAAAAATAT
1 A-TATATAAAAAATAT
* *
64881941 AGTATTTAAAAGATAT
1 A-TATATAAAAAATAT
64881957 ATATA
1 ATATA
64881962 CGTAATATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
15 31 0.70
16 13 0.30
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (15 bp):
ATATATAAAAAATAT
Found at i:64881991 original size:24 final size:24
Alignment explanation
Indices: 64881958--64882020 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
64881948 AAAAGATATA
*
64881958 TATACGTAATATATA-TAAAAAAT
1 TATACATAATATATATTAAAAAAT
*
64881981 GTATACATAATATAGTATTAAAATAT
1 -TATACATAATATA-TATTAAAAAAT
64882007 T-TACATAATATATA
1 TATACATAATATATA
64882021 CATATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 3 0.09
26 7 0.20
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATATATTAAAAAAT
Found at i:64882099 original size:21 final size:20
Alignment explanation
Indices: 64882071--64882135 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
64882061 AATACTACAT
64882071 AAATATATACATATATATTA
1 AAATATATACATATATATTA
*
64882091 AAGATATATACATATATAATA
1 AA-ATATATACATATATATTA
*
64882112 AAACATATA-ATA-ATATTA
1 AAATATATACATATATATTA
64882130 ATAATA
1 A-AATA
64882136 ATAATAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 6 0.15
19 6 0.15
20 8 0.21
21 19 0.49
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATATATACATATATATTA
Found at i:64882124 original size:3 final size:3
Alignment explanation
Indices: 64882118--64882184 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
64882108 AATAAAACAT
* * *
64882118 ATA ATA ATA TTA ATA ATA ATA ATA AGA ATA AT- ATAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
*
64882163 A-A TATA ATA ATA TTAA ATA ATA
1 ATA -ATA ATA ATA AT-A ATA ATA
64882185 TTAAAAGTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 3 0.06
3 43 0.84
4 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:64896293 original size:17 final size:14
Alignment explanation
Indices: 64896258--64896293 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
64896248 TCAATTTCAT
64896258 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
64896272 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
64896286 TAGAAGAA
1 TAGAAGAA
64896294 AAATTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (14 bp):
TAGAAGAACTTTAC
Found at i:64898512 original size:3 final size:3
Alignment explanation
Indices: 64898506--64898669 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
64898496 TTTTTTTACA
* *
64898506 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
64898550 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
64898595 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
*
64898641 T-T CTAGT T-T TAT TAT TAT TAT TAA TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
64898670 GGGTATGTAT
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 12 0.10
3 95 0.80
4 11 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:64898534 original size:23 final size:23
Alignment explanation
Indices: 64898508--64898553 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
64898498 TTTTTACATA
64898508 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
64898531 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
64898554 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:64898908 original size:16 final size:16
Alignment explanation
Indices: 64898887--64898941 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 16
64898877 ATGTTATGTA
*
64898887 TATATATTTTCAATAT
1 TATATATTTTTAATAT
64898903 TATATATTTTATATATTAT
1 TATATATTTT-TA-A-TAT
64898922 TATATATATTTTAATAT
1 TATATAT-TTTTAATAT
64898939 TAT
1 TAT
64898942 TAGTTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 10 0.29
17 7 0.21
18 2 0.06
19 12 0.35
20 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATATTTTTAATAT
Found at i:64898965 original size:26 final size:23
Alignment explanation
Indices: 64898903--64899021 Score: 106
Period size: 23 Copynumber: 5.3 Consensus size: 23
64898893 TTTTCAATAT
64898903 TATATATTTT-ATA-TATTATTA
1 TATATATTTTAATATTATTATTA
64898924 TATATATTTTAATATTATTAGTTA
1 TATATATTTTAATATTATTA-TTA
* * *
64898948 TATAT-TTTTTATACTATTATGTG
1 TATATATTTTAATATTATTAT-TA
* *
64898971 TATAT-TTCTAATATTA-TATTG
1 TATATATTTTAATATTATTATTA
* *
64898992 TATAT-TTCTAATACTATTATTTA
1 TATATATTTTAATATTATTA-TTA
64899015 TATATAT
1 TATATAT
64899022 ATGTGTGTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
21 27 0.33
22 9 0.11
23 38 0.46
24 9 0.11
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
TATATATTTTAATATTATTATTA
Found at i:64898966 original size:43 final size:42
Alignment explanation
Indices: 64898899--64899017 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
64898889 TATATTTTCA
* *
64898899 ATATTATATATTTTATATATTATTATATATATTT-TAATATT
1 ATATTATATATTTTTTATACTATTATATATATTTCTAATATT
*
64898940 ATTAGTTATATATTTTTTATACTATTATGTGTATATTTCTAATATT
1 A-TA-TTATATATTTTTTATACTATTA--TATATATTTCTAATATT
* * * *
64898986 ATATTGTATATTTCTAATACTATTATTTATAT
1 ATATTATATATTTTTTATACTATTATATATAT
64899018 ATATATGTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 8 0.12
43 20 0.30
44 19 0.29
45 10 0.15
46 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (42 bp):
ATATTATATATTTTTTATACTATTATATATATTTCTAATATT
Found at i:64899011 original size:44 final size:45
Alignment explanation
Indices: 64898902--64899011 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 45
64898892 ATTTTCAATA
* *
64898902 TTATATATTT-T-ATA-TATTATTATATATATTTTAATATTATTAG
1 TTATATATTTCTAATACTATTA-TGTGTATATTTTAATATTATTAG
* *
64898945 TTATATATTTTTTATACTATTATGTGTATATTTCTAATATTA-TA-
1 TTATATATTTCTAATACTATTATGTGTATATTT-TAATATTATTAG
*
64898989 TTGTATATTTCTAATACTATTAT
1 TTATATATTTCTAATACTATTAT
64899012 TTATATATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
43 10 0.17
44 21 0.36
45 14 0.24
46 13 0.22
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (45 bp):
TTATATATTTCTAATACTATTATGTGTATATTTTAATATTATTAG
Found at i:64899138 original size:24 final size:24
Alignment explanation
Indices: 64899099--64899254 Score: 90
Period size: 25 Copynumber: 6.4 Consensus size: 24
64899089 ATGTATATAT
*
64899099 TGTATATA-TTTTATA-TATGTTA
1 TGTATATATTTTTATACTATATTA
*
64899121 TGTATATATTTTTAATATTACTAATTA
1 TGTATATATTTTT-ATACTA-T-ATTA
64899148 --TATATATTTCTTATAC-AT-TTCCA
1 TGTATATATTT-TTATACTATATT--A
* * *
64899171 TGTACATATTTTTATACCATCTTA
1 TGTATATATTTTTATACTATATTA
*
64899195 TGTATATATTTTTAAATACTATATTG
1 TGTATATATTTTT--ATACTATATTA
* * * **
64899221 TATATATATTCTTAATACCATATCG
1 TGTATATATT-TTTATACTATATTA
64899246 TGTATATAT
1 TGTATATAT
64899255 CATTATTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 27
0.73 0.08 0.18
Matches are distributed among these distances:
21 2 0.02
22 8 0.07
23 6 0.06
24 23 0.21
25 41 0.38
26 22 0.21
27 5 0.05
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (24 bp):
TGTATATATTTTTATACTATATTA
Found at i:64907566 original size:22 final size:20
Alignment explanation
Indices: 64907541--64907601 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
64907531 TCCGTAAGCT
64907541 CCCATTAAAGCCAAAATGCAAG
1 CCCATTAAA--CAAAATGCAAG
*
64907563 CCCATTCAACAAAATGCAAG
1 CCCATTAAACAAAATGCAAG
* * *
64907583 TCCATTCAACAAAAGGCAA
1 CCCATTAAACAAAATGCAA
64907602 AAGTCAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 28 0.78
22 8 0.22
ACGTcount: A:0.46, C:0.28, G:0.11, T:0.15
Consensus pattern (20 bp):
CCCATTAAACAAAATGCAAG
Found at i:64907577 original size:20 final size:20
Alignment explanation
Indices: 64907552--64907601 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
64907542 CCATTAAAGC
64907552 CAAAATGCAAGCCCATTCAA
1 CAAAATGCAAGCCCATTCAA
*
64907572 CAAAATGCAAGTCCATTCAA
1 CAAAATGCAAGCCCATTCAA
*
64907592 CAAAAGGCAA
1 CAAAATGCAA
64907602 AAGTCAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (20 bp):
CAAAATGCAAGCCCATTCAA
Found at i:64910864 original size:144 final size:143
Alignment explanation
Indices: 64910669--64911089 Score: 429
Period size: 144 Copynumber: 2.9 Consensus size: 143
64910659 CGATTTCTGT
* * * * * * * * *
64910669 TTTTCAATTTATGTTTTCAAAAGTCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCACGC
1 TTTT-AATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
*
64910734 TGAGGTATTTTCAATTATTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
65 TGAGGTATTTTCAATT-TTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
**
64910799 GGGACACGTTGAGATAA
128 AAGACACGTTGAGAT-A
* * * * *
64910816 TTTT-TTTTCTG-TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTT
1 TTTTAATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
* * *
64910879 GAGGTATTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTC
66 GAGGTATTTTCAATTT-TGT-TTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
64910944 AAGACACGTTGAGGTA
128 AAGACACGTTGAGATA
* *
64910960 TTTTCAATTTCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTG-CTTTCAAAAT--TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
* * ** ** *
64911025 CGCTGAGGTAATTT-GATCTCCGTTTT-TGAAAATCAACTCATATTGCGAGAGGTGAGTGGA-CC
62 CGCTGAGGTATTTTCAAT-TTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
64911087 TCA
126 TCA
64911090 GATCACATGT
Statistics
Matches: 227, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
143 1 0.00
144 72 0.32
145 53 0.23
146 30 0.13
147 8 0.04
148 12 0.05
149 4 0.02
150 47 0.21
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (143 bp):
TTTTAATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGTTGAGATA
Found at i:64910929 original size:75 final size:73
Alignment explanation
Indices: 64910669--64911127 Score: 436
Period size: 75 Copynumber: 6.3 Consensus size: 73
64910659 CGATTTCTGT
* * * * * * * *
64910669 TTTTCAATTTATGTTTTC-AAAAGTCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
*
64910733 CTGAGGTA
66 TTGAGGTA
* **
64910741 TTTTCAATTAT-TGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACA
1 TTTTCAATT-TCTGTTT-TCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
*
64910805 CGTTGAGATAA
64 CGTTGAGGT-A
* * * * *
64910816 TTTT--TTTTCTG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
64910877 TTGAGGTA
66 TTGAGGTA
* * *
64910885 TTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGT-TTTCAAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
64910950 CGTTGAGGTA
64 CGTTGAGGTA
* *
64910960 TTTTCAATTTCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTCAAAA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
*
64911025 CGCTGAGGTA
64 CGTTGAGGTA
* * * * ** * *
64911035 ATTT-GATCTCCGTTTT-TGAAAATCAACTCATATTGCGAGAGGTGAGTGGA-CCTCA-GATCAC
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGA-CAC
*
64911096 ATGTCGAGGTA
65 --GTTGAGGTA
*
64911107 TTTTCAAATT-TGCTTTTCAAA
1 TTTTCAATTTCTG-TTTTCAAA
64911128 TTAAGTTTCA
Statistics
Matches: 326, Mismatches: 43, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
69 7 0.02
70 53 0.16
71 36 0.11
72 30 0.09
73 20 0.06
74 55 0.17
75 123 0.38
76 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
TTGAGGTA
Found at i:64913038 original size:3 final size:3
Alignment explanation
Indices: 64913032--64913193 Score: 63
Period size: 3 Copynumber: 53.7 Consensus size: 3
64913022 TTTTTTTACA
* *
64913032 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
64913076 TAT TAT TAC TGT TAG T-T TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * *
64913120 CA- TAT TAAT TAT T-T CTAACG TAT TAT TAT TACT AAT TAT TAT TA-
1 TAT TAT T-AT TAT TAT -T-A-T TAT TAT TAT TA-T TAT TAT TAT TAT
*
64913164 TAT CTAGT T-T TAT TAT TAT TAT TAA TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
64913194 GTGTATGTAT
Statistics
Matches: 117, Mismatches: 23, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
2 13 0.11
3 89 0.76
4 13 0.11
5 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:64913060 original size:23 final size:23
Alignment explanation
Indices: 64913034--64913079 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
64913024 TTTTTACATA
64913034 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
64913057 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
64913080 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:64913066 original size:14 final size:14
Alignment explanation
Indices: 64913043--64913118 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
64913033 ATTATTAATA
64913043 TTATTACTATTATT
1 TTATTACTATTATT
*
64913057 TTATTTCTATTATT
1 TTATTACTATTATT
* *
64913071 ATCTT--TATTATT
1 TTATTACTATTATT
* * *
64913083 ACTGTTAGT-TTATT
1 -TTATTACTATTATT
64913097 TTCATTACTATTATTT
1 TT-ATTACTATTA-TT
64913113 TTATTA
1 TTATTA
64913119 ACATATTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
12 7 0.15
13 4 0.08
14 25 0.52
15 8 0.17
16 4 0.08
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (14 bp):
TTATTACTATTATT
Found at i:64913118 original size:35 final size:35
Alignment explanation
Indices: 64913041--64913107 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
64913031 ATATTATTAA
* *
64913041 TATTATTACTATTATTTTATTTCTATTATTATCTT
1 TATTATTACTATTAGTTTATTTCTATTACTATCTT
*
64913076 TATTATTACTGTTAGTTTATTT-TCATTACTAT
1 TATTATTACTATTAGTTTATTTCT-ATTACTAT
64913108 TATTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (35 bp):
TATTATTACTATTAGTTTATTTCTATTACTATCTT
Found at i:64913143 original size:18 final size:17
Alignment explanation
Indices: 64913105--64913164 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
64913095 TTTTCATTAC
* *
64913105 TATTATTTTTATTAACA
1 TATTATTATTACTAACA
* *
64913122 TATTAATTATTTCTAACG
1 TATT-ATTATTACTAACA
*
64913140 TATTATTATTACTAA-T
1 TATTATTATTACTAACA
64913156 TATTATTAT
1 TATTATTAT
64913165 ATCTAGTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 9 0.25
17 14 0.39
18 13 0.36
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATTATTACTAACA
Found at i:64913161 original size:16 final size:17
Alignment explanation
Indices: 64913122--64913182 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 17
64913112 TTTATTAACA
*
64913122 TATTAATTATT-TCTAACG
1 TATT-ATTATTATCTAA-T
64913140 TATTATTATTA-CTAAT
1 TATTATTATTATCTAAT
*
64913156 TATTATTA-TATCTAGT
1 TATTATTATTATCTAAT
64913172 T-TTATTATTAT
1 TATTATTATTAT
64913183 TATTAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 8 0.21
16 16 0.42
17 10 0.26
18 4 0.11
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTATTATTATCTAAT
Found at i:64913204 original size:24 final size:24
Alignment explanation
Indices: 64913154--64913204 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
64913144 ATTATTACTA
*
64913154 ATTATTATTATATCTAGTTTTATT
1 ATTATTATTATATCTAGTTGTATT
64913178 ATTATTATTAATAT-TAG-TGTATGT
1 ATTATTATT-ATATCTAGTTGTAT-T
64913202 ATT
1 ATT
64913205 TATATATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 16 0.67
25 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (24 bp):
ATTATTATTATATCTAGTTGTATT
Found at i:64913216 original size:16 final size:16
Alignment explanation
Indices: 64913195--64913225 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64913185 TTAATATTAG
*
64913195 TGTATGTATTTATATA
1 TGTATGTATATATATA
64913211 TGTATGTATATATAT
1 TGTATGTATATATAT
64913226 TTACATATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:64913521 original size:21 final size:22
Alignment explanation
Indices: 64913427--64913543 Score: 114
Period size: 23 Copynumber: 5.2 Consensus size: 22
64913417 TTTTCAATAT
*
64913427 TATATTTTTTATA-TATTATTAG
1 TATATTTTTAATACTATTATT-G
* *
64913449 TTATATATTTTAATATTATTAGTTA
1 -TATAT-TTTTAATACTATTA-TTG
*
64913474 TATATTTTTTATACTATTATGTG
1 TATATTTTTAATACTATTAT-TG
* *
64913497 TATATTTCTAATATTA-TATTG
1 TATATTTTTAATACTATTATTG
64913518 TATATTTTTAATACTATTATT-
1 TATATTTTTAATACTATTATTG
64913539 TATAT
1 TATAT
64913544 ATATATGTGT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
21 21 0.27
22 8 0.10
23 31 0.39
24 12 0.15
25 5 0.06
26 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (22 bp):
TATATTTTTAATACTATTATTG
Found at i:64913533 original size:44 final size:45
Alignment explanation
Indices: 64913426--64913537 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
64913416 GTTTTCAATA
* *
64913426 TTATAT-TTTTTATATATTATTA-GTTATATATTTTAATATTATTAG
1 TTATATATTTTTA-ATACTATTATG-TGTATATTTTAATATTATTAG
*
64913471 TTATATATTTTTTATACTATTATGTGTATATTTCTAATATTA-TA-
1 TTATATATTTTTAATACTATTATGTGTATATTT-TAATATTATTAG
*
64913515 TTGTATATTTTTAATACTATTAT
1 TTATATATTTTTAATACTATTAT
64913538 TTATATATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
44 21 0.36
45 24 0.41
46 14 0.24
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (45 bp):
TTATATATTTTTAATACTATTATGTGTATATTTTAATATTATTAG
Found at i:64913562 original size:16 final size:17
Alignment explanation
Indices: 64913541--64913575 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
64913531 CTATTATTTA
64913541 TATATATATGTGT-GTG
1 TATATATATGTGTAGTG
*
64913557 TATATATTTGTGTAGTG
1 TATATATATGTGTAGTG
64913574 TA
1 TA
64913576 CAAAGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (17 bp):
TATATATATGTGTAGTG
Found at i:64916441 original size:26 final size:27
Alignment explanation
Indices: 64916401--64916470 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
64916391 TATAATAAAT
**
64916401 TTTAAAATAGGTAATATA-GGCG-AAAG
1 TTTAAAATAAATAATATACGG-GAAAAG
64916427 TTTAAAATAAATAATATACGGGAAAAG
1 TTTAAAATAAATAATATACGGGAAAAG
*
64916454 TTTAAAATGAATAATAT
1 TTTAAAATAAATAATAT
64916471 GTAAAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (27 bp):
TTTAAAATAAATAATATACGGGAAAAG
Found at i:64916492 original size:26 final size:27
Alignment explanation
Indices: 64916454--64916550 Score: 99
Period size: 26 Copynumber: 3.6 Consensus size: 27
64916444 ACGGGAAAAG
*
64916454 TTTAAAATGAATAATATGTAAAAT-AA
1 TTTAAAATAAATAATATGTAAAATGAA
* * *
64916480 TTTAAGATAAATAATATAT-AAATGAG
1 TTTAAAATAAATAATATGTAAAATGAA
* *
64916506 TTTAAAATAAATATTATGTAAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATG-AA
* *
64916534 CTTAAAATAAGTAATAT
1 TTTAAAATAAATAATAT
64916551 ACAAGACATC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
25 4 0.07
26 33 0.59
27 4 0.07
28 15 0.27
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATGAA
Found at i:64918644 original size:68 final size:65
Alignment explanation
Indices: 64918572--64918699 Score: 220
Period size: 68 Copynumber: 1.9 Consensus size: 65
64918562 TCTATATTTT
*
64918572 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTTATTTTGACGTGTGTATATATATATAT
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAA-TTTTTTATTTTGA--TGTATATATATATATAT
64918637 ATG
63 ATG
64918640 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATAT
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATAT
64918700 GATGTATATC
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
65 14 0.24
67 13 0.22
68 32 0.54
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (65 bp):
ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATATATATG
Found at i:64919510 original size:26 final size:26
Alignment explanation
Indices: 64919477--64919584 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
64919467 TGATACAAAT
64919477 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
64919503 TGACAATGGATTACGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64919529 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64919555 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64919581 TGAT
1 TGAT
64919585 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64921614 original size:137 final size:137
Alignment explanation
Indices: 64921368--64921791 Score: 803
Period size: 137 Copynumber: 3.1 Consensus size: 137
64921358 GAGTAATCTC
64921368 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
64921433 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64921498 ACTGTTA
131 ACTGTTA
64921505 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
64921570 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64921635 ACTGTTA
131 ACTGTTA
64921642 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
64921707 TGTTATCTGAATAAGGGGTTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64921772 ACTGTTA
131 ACTGTTA
**
64921779 CCTGAATGGGCTT
1 CCCAAATGGGCTT
64921792 AGGCCCAATG
Statistics
Matches: 281, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 281 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:64926128 original size:3 final size:3
Alignment explanation
Indices: 64926120--64926148 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
64926110 GTTAGATATA
64926120 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64926149 ATATATGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:64926475 original size:48 final size:49
Alignment explanation
Indices: 64926417--64926510 Score: 138
Period size: 48 Copynumber: 1.9 Consensus size: 49
64926407 GGTATAATTC
* * *
64926417 TTTGGCAAAAAATATTTATATAAAAAA-TGTAAGAAAGTTAGTAGAATCT
1 TTTGGCAAAAAATATTTAGAAAAAAAATTG-AAGAAAGTTAATAGAATCT
64926466 TTTGG-AAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
1 TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
64926511 AGATAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
48 34 0.83
49 7 0.17
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.30
Consensus pattern (49 bp):
TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAATCT
Found at i:64926536 original size:18 final size:18
Alignment explanation
Indices: 64926513--64926548 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64926503 TAATAGAAAG
64926513 ATAAAAAATTTAATTGTT
1 ATAAAAAATTTAATTGTT
64926531 ATAAAAAATTTAATTGTT
1 ATAAAAAATTTAATTGTT
64926549 TTGGGTTATT
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATAAAAAATTTAATTGTT
Found at i:64927231 original size:31 final size:31
Alignment explanation
Indices: 64927176--64927239 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
64927166 AAAATTTCAA
* *
64927176 AATTTAAAAAGTACAGAAATTAAAAATT-ACC
1 AATTTAAAAAGTAAAGAAACT-AAAATTGACC
* *
64927207 AATTTAAAAAGTAAAGGAGCTAAAATTGACC
1 AATTTAAAAAGTAAAGAAACTAAAATTGACC
64927238 AA
1 AA
64927240 ATAAAAGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.23
Consensus pattern (31 bp):
AATTTAAAAAGTAAAGAAACTAAAATTGACC
Found at i:64929420 original size:17 final size:17
Alignment explanation
Indices: 64929373--64929473 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
64929363 TGTTCATATG
* * *
64929373 AAATAACAGTTCTTACC
1 AAATAACAGTTCATGCA
*
64929390 AAATGAA-AGCTCATGCA
1 AAAT-AACAGTTCATGCA
* ***
64929407 AAATAATAGTTCATTTG
1 AAATAACAGTTCATGCA
** * *
64929424 AAATATTAGTTCATACT
1 AAATAACAGTTCATGCA
* *
64929441 GAATAACAATTCATGCA
1 AAATAACAGTTCATGCA
64929458 AAATAACAGTTCATGC
1 AAATAACAGTTCATGC
64929474 TCTATCATAA
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
16 2 0.03
17 58 0.94
18 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (17 bp):
AAATAACAGTTCATGCA
Found at i:64937313 original size:23 final size:23
Alignment explanation
Indices: 64937283--64937337 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
64937273 TAAGTGGATG
*
64937283 GGGAAGAAGAAGA-GGGAAAGAAA
1 GGGAAGAA-AAGAGGGGAAAAAAA
64937306 GGGAAGAAAAGAGGGGAAAAAAA
1 GGGAAGAAAAGAGGGGAAAAAAA
64937329 -GGAA-AAAAG
1 GGGAAGAAAAG
64937338 GAAGAAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 8 0.27
23 17 0.57
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (23 bp):
GGGAAGAAAAGAGGGGAAAAAAA
Found at i:64937382 original size:30 final size:31
Alignment explanation
Indices: 64937347--64937423 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
64937337 GGAAGAAGTG
64937347 GAAGGAAAAAGGGAAGAGA-AAGAGAAA-GA
1 GAAGGAAAAAGGGAAGAGAGAAGAGAAAGGA
* * *
64937376 GAAAGG-AAAAGGGAAAAGAGAGGGGAAAGGA
1 G-AAGGAAAAAGGGAAGAGAGAAGAGAAAGGA
*
64937407 GAAGGAAAAAAGGAAGA
1 GAAGGAAAAAGGGAAGA
64937424 AAGTGTGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 13 0.33
30 14 0.36
31 12 0.31
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (31 bp):
GAAGGAAAAAGGGAAGAGAGAAGAGAAAGGA
Found at i:64948968 original size:20 final size:21
Alignment explanation
Indices: 64948920--64948968 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
64948910 TCAAATATGA
64948920 ATTATTT-GAAAATCATAAAAT
1 ATTATTTAG-AAATCATAAAAT
64948941 ATTATTTAGAAATCATAAAAT
1 ATTATTTAGAAATCATAAAAT
64948962 A-TATTTA
1 ATTATTTA
64948969 AAGTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.22
21 20 0.74
22 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTATTTAGAAATCATAAAAT
Found at i:64949881 original size:9 final size:9
Alignment explanation
Indices: 64949869--64950038 Score: 60
Period size: 9 Copynumber: 17.9 Consensus size: 9
64949859 CAATTACTTG
64949869 AATTTTTAT
1 AATTTTTAT
64949878 AATTTTATAAT
1 AATTTT-T-AT
*
64949889 ATATATTTTAA
1 A-AT-TTTTAT
*
64949900 AAATTTTAT
1 AATTTTTAT
* *
64949909 GACTTTTAT
1 AATTTTTAT
*
64949918 ATTTTTTAAT
1 AATTTTT-AT
*
64949928 AATTTGTAAAT
1 AATTT-T-TAT
64949939 AATTTTTAT
1 AATTTTTAT
64949948 AA---TT-T
1 AATTTTTAT
*
64949953 CATTTTTAT
1 AATTTTTAT
* **
64949962 TATTTTTGG
1 AATTTTTAT
64949971 AATTTTTAAT
1 AATTTTT-AT
*
64949981 AAATTTTAT
1 AATTTTTAT
* *
64949990 AATTATTAA
1 AATTTTTAT
*
64949999 AATATTTTGT
1 AAT-TTTTAT
*
64950009 GATTTTTAGAT
1 AATTTTT--AT
64950020 AATATTTTAAT
1 AAT-TTTT-AT
64950031 AATTTTTA
1 AATTTTTA
64950039 CTAACCACAT
Statistics
Matches: 116, Mismatches: 29, Indels: 32
0.66 0.16 0.18
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
8 2 0.02
9 55 0.47
10 24 0.21
11 21 0.18
12 7 0.06
13 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (9 bp):
AATTTTTAT
Found at i:64949896 original size:23 final size:23
Alignment explanation
Indices: 64949870--64949952 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
64949860 AATTACTTGA
64949870 ATTTTTATAATTTTATAATATAT
1 ATTTTTATAATTTTATAATATAT
* * * *
64949893 ATTTTAAAAATTTTATGACTTTTAT
1 ATTTTTATAATTTTAT-A-ATATAT
*
64949918 ATTTTT-TAATAATTTGTAA-ATA-
1 ATTTTTATAAT--TTTATAATATAT
64949940 ATTTTTATAATTT
1 ATTTTTATAATTT
64949953 CATTTTTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
21 2 0.04
22 6 0.13
23 20 0.43
24 4 0.09
25 10 0.22
26 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTATAATTTTATAATATAT
Found at i:64949987 original size:19 final size:20
Alignment explanation
Indices: 64949965--64950027 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
64949955 TTTTTATTAT
64949965 TTTTGGAATTTTTAATAA-A
1 TTTTGGAATTTTTAATAATA
** *
64949984 TTTTATAATTATTAA-AATA
1 TTTTGGAATTTTTAATAATA
64950003 TTTTGTG-ATTTTTAGATAATA
1 TTTTG-GAATTTTTA-ATAATA
64950024 TTTT
1 TTTT
64950028 AATAATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.06
19 23 0.68
20 1 0.03
21 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTTGGAATTTTTAATAATA
Found at i:64958248 original size:16 final size:17
Alignment explanation
Indices: 64958229--64958261 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
64958219 CGGTATTTCA
64958229 CATTTTTATT-ATTTAT
1 CATTTTTATTAATTTAT
*
64958245 CATTTTTCTTAATTTAT
1 CATTTTTATTAATTTAT
64958262 TTATTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
CATTTTTATTAATTTAT
Found at i:64963938 original size:2 final size:2
Alignment explanation
Indices: 64963890--64963928 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
64963880 TCTAGTCCAA
* * *
64963890 CT CT CT CC CT CT CT CT CT CT CA CT CT CT CT CC CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
64963929 GTATTCTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.56, G:0.00, T:0.41
Consensus pattern (2 bp):
CT
Found at i:64976594 original size:18 final size:18
Alignment explanation
Indices: 64976572--64976608 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
64976562 TTTCTTGGTA
64976572 TTTTTATATTGATTTTGAT
1 TTTTTAT-TTGATTTTGAT
*
64976591 TTTTTATTTTATTTTGAT
1 TTTTTATTTGATTTTGAT
64976609 AAAATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (18 bp):
TTTTTATTTGATTTTGAT
Found at i:64984124 original size:40 final size:40
Alignment explanation
Indices: 64984067--64984146 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
64984057 AACACGAGGA
* *
64984067 ACACTTGAGGATTATTACGCAAACTCTTTGTGAGAAAAAT
1 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
64984107 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
1 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
64984147 TTGTATGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (40 bp):
ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
Found at i:64987568 original size:5 final size:5
Alignment explanation
Indices: 64987558--64987590 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
64987548 AAATGAAATG
*
64987558 GAATT GGATT GAATT GAATT GAATT GAATT GAA
1 GAATT GAATT GAATT GAATT GAATT GAATT GAA
64987591 ATGTTTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (5 bp):
GAATT
Found at i:64987724 original size:12 final size:12
Alignment explanation
Indices: 64987707--64987737 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
64987697 ATGTAAATAT
64987707 GGATAAGTGTAG
1 GGATAAGTGTAG
64987719 GGATAAGTGTAG
1 GGATAAGTGTAG
64987731 GGTATAA
1 GG-ATAA
64987738 ACATGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (12 bp):
GGATAAGTGTAG
Found at i:64990054 original size:29 final size:29
Alignment explanation
Indices: 64990005--64990073 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
64989995 TACAAAAATA
* * *
64990005 CACACGATCGTATGATCCACAC-GACCTAG
1 CACACGGTCGTATGAGCCACACAGACC-AC
*
64990034 CACACGGTCGTATG-GCACACACAGTCCAC
1 CACACGGTCGTATGAGC-CACACAGACCAC
64990063 CACACGGTCGT
1 CACACGGTCGT
64990074 GTGGTTGCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 30 0.88
30 3 0.09
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.16
Consensus pattern (29 bp):
CACACGGTCGTATGAGCCACACAGACCAC
Found at i:64990777 original size:31 final size:31
Alignment explanation
Indices: 64990713--64990786 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
64990703 GGATAATTTC
* * * *
64990713 TTAACCAGCCACATCCCAATAAGTCTCATAA
1 TTAACCAGCCACACCCCAATAAATCCCACAA
* *
64990744 TTAATCAGCCACACCCCACTAAATCCCACAA
1 TTAACCAGCCACACCCCAATAAATCCCACAA
*
64990775 TTAACCACCCAC
1 TTAACCAGCCAC
64990787 TAGATTCCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.39, G:0.04, T:0.19
Consensus pattern (31 bp):
TTAACCAGCCACACCCCAATAAATCCCACAA
Found at i:64991680 original size:152 final size:152
Alignment explanation
Indices: 64991404--64991708 Score: 567
Period size: 152 Copynumber: 2.0 Consensus size: 152
64991394 TGAAATATTT
*
64991404 AAGTACCACCAAACACTTAATTAATGCAGGGTATAATTTCAAATGTAGTTGTATTGCTGCCAAAT
1 AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTCAAATGTAGTTGTATTGCTGCCAAAT
*
64991469 ACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
66 ACGTCTCAATCCTCACAATACTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
64991534 TGCATCTGAATAAGGGAATGTC
131 TGCATCTGAATAAGGGAATGTC
*
64991556 AAGTACCACCAAACACTTAATCAATGTAGGGTATAA-TTCTAAATGTAGTTGTATTGCTGCCAAA
1 AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTC-AAATGTAGTTGTATTGCTGCCAAA
64991620 TACGTCTCAATCCTCACAATACTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAAC
65 TACGTCTCAATCCTCACAATACTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAAC
64991685 TTGCATCTGAATAAGGGAATGTC
130 TTGCATCTGAATAAGGGAATGTC
64991708 A
1 A
64991709 CGAACAGTCC
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
151 3 0.02
152 146 0.98
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (152 bp):
AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTCAAATGTAGTTGTATTGCTGCCAAAT
ACGTCTCAATCCTCACAATACTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
TGCATCTGAATAAGGGAATGTC
Found at i:64993388 original size:20 final size:20
Alignment explanation
Indices: 64993363--64993408 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
64993353 CATATCATAA
64993363 ATCATACCATA-TCGATTCAT
1 ATCATACCATATTCGA-TCAT
* *
64993383 ATCATATCATATTTGATCAT
1 ATCATACCATATTCGATCAT
64993403 ATCATA
1 ATCATA
64993409 TAAAGTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
ATCATACCATATTCGATCAT
Found at i:64994106 original size:32 final size:32
Alignment explanation
Indices: 64994070--64994153 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
64994060 TTGCAAAATC
* *
64994070 TCACACGGCCAAGCTACACAGGT-TGCATGATT
1 TCACACGGCCAACCCACAC-GGTCTGCATGATT
* * *
64994102 TCACACGGTCTACCCACACGGTCTGCATGGTT
1 TCACACGGCCAACCCACACGGTCTGCATGATT
* *
64994134 TCACACGGACTACCCACACG
1 TCACACGGCCAACCCACACG
64994154 ACCTACAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (32 bp):
TCACACGGCCAACCCACACGGTCTGCATGATT
Found at i:64994468 original size:12 final size:12
Alignment explanation
Indices: 64994451--64994483 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
64994441 CAGCCCGCCC
64994451 ATATTAATTTTT
1 ATATTAATTTTT
64994463 ATATT-ATTTTT
1 ATATTAATTTTT
64994474 ATA-TAATTTT
1 ATATTAATTTT
64994484 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:65001767 original size:46 final size:46
Alignment explanation
Indices: 65001651--65001772 Score: 140
Period size: 44 Copynumber: 2.7 Consensus size: 46
65001641 TTCTGTCAAT
* * * ** * * *
65001651 GCCATATTTTTGACATGGACTTACATGAATTATTCCTGTCTCCAAT
1 GCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCTCCAAA
*
65001697 GCC--ATCTATAATATGGACTTACATGGCTCAATCCTGTCTCCAAA
1 GCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCTCCAAA
*
65001741 GCCATATTTCTAATATGGACTTACATGGCTCA
1 GCCATATTTATAATATGGACTTACATGGCTCA
65001773 TTTCTGTTCT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.56
46 28 0.44
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (46 bp):
GCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCTCCAAA
Found at i:65004897 original size:40 final size:40
Alignment explanation
Indices: 65004852--65004942 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
65004842 GCCATGTGGG
* * *
65004852 TGGCCGTGTGCTAAATACGACCGTGTGATCAACGAAGGTA
1 TGGCCGTGTGCTAAACACGACCGTGTGATCAACAAAGGCA
* * * *
65004892 TGGCCGTGTACTAGACACGACCTTGTGATCGACAAAGGCA
1 TGGCCGTGTGCTAAACACGACCGTGTGATCAACAAAGGCA
65004932 TGGCCGTGTGC
1 TGGCCGTGTGC
65004943 AAGACATGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (40 bp):
TGGCCGTGTGCTAAACACGACCGTGTGATCAACAAAGGCA
Found at i:65004948 original size:40 final size:40
Alignment explanation
Indices: 65004852--65004953 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
65004842 GCCATGTGGG
* * *
65004852 TGGCCGTGTGCTAA-ATACGACCGTGTGATCAACGAAGGTA
1 TGGCCGTGTGC-AAGACACGACCGTGTGATCAACAAAGGCA
* * * *
65004892 TGGCCGTGTACTAGACACGACCTTGTGATCGACAAAGGCA
1 TGGCCGTGTGCAAGACACGACCGTGTGATCAACAAAGGCA
*
65004932 TGGCCGTGTGCAAGACATGACC
1 TGGCCGTGTGCAAGACACGACC
65004954 ATATAGTGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.02
40 50 0.98
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (40 bp):
TGGCCGTGTGCAAGACACGACCGTGTGATCAACAAAGGCA
Found at i:65006382 original size:19 final size:20
Alignment explanation
Indices: 65006344--65006403 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
65006334 ATTAACTAAT
65006344 TGAAGATTAATGTATAATTAA
1 TGAAGATTAA-GTATAATTAA
65006365 TGAAGATTAAGT-TAATTAA
1 TGAAGATTAAGTATAATTAA
* * *
65006384 TTAAGTTTAATTATAATTAA
1 TGAAGATTAAGTATAATTAA
65006404 ACCTAGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.46
20 9 0.26
21 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (20 bp):
TGAAGATTAAGTATAATTAA
Found at i:65007778 original size:18 final size:18
Alignment explanation
Indices: 65007757--65007796 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
65007747 GAAATATTTA
*
65007757 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
65007775 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
65007793 TTTT
1 TTTT
65007797 TAAATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:65008093 original size:43 final size:42
Alignment explanation
Indices: 65008011--65008095 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 42
65008001 TTTTATCCTA
* ** * * *
65008011 AAAAAAGAATTTAAAAGAGGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTAAAAAGAAAAGAAGATAAACATGAGTTGTTG
65008053 AAAAAAGAAATTAAAAAGAAAAGAAGATAAACATGAGTTGTTG
1 AAAAAAG-AATTAAAAAGAAAAGAAGATAAACATGAGTTGTTG
65008096 GGTTTACCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAAAAGAATTAAAAAGAAAAGAAGATAAACATGAGTTGTTG
Found at i:65013289 original size:103 final size:103
Alignment explanation
Indices: 65013179--65013377 Score: 299
Period size: 103 Copynumber: 1.9 Consensus size: 103
65013169 CATCATGATG
* * * * * *
65013179 ATATTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTGCATAATTGAGTTGGTGACTTGATT
1 ATATTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTACATAACTAAGTTAGTAACCTGATT
*
65013244 AAGGGTGACACCAACTCAGTAAAGTACTTAAATATATA
66 AAGGATGACACCAACTCAGTAAAGTACTTAAATATATA
* *
65013282 ATATTAATTATAATTTAAAAGAAGAGGTATTTTTGTAATTACATAACTAAGTTAGTAACCTGATT
1 ATATTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTACATAACTAAGTTAGTAACCTGATT
* *
65013347 AAGGATGACACCAATTTAGTAAAGTACTTAA
66 AAGGATGACACCAACTCAGTAAAGTACTTAA
65013378 GTGTAAACTA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 85 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (103 bp):
ATATTAATTATAATTTAAAAGAAAAGATATTTTTGTAATTACATAACTAAGTTAGTAACCTGATT
AAGGATGACACCAACTCAGTAAAGTACTTAAATATATA
Found at i:65021056 original size:24 final size:24
Alignment explanation
Indices: 65021011--65021057 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
65021001 TAATTTTACT
*
65021011 TTTAATCCATACTAATTTGTTTCC
1 TTTAATCCATACTAATTCGTTTCC
* *
65021035 TTTAATCCATCCTACTTCGTTTC
1 TTTAATCCATACTAATTCGTTTC
65021058 ATTCTTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTAATCCATACTAATTCGTTTCC
Found at i:65021119 original size:18 final size:17
Alignment explanation
Indices: 65021096--65021134 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
65021086 TAATAGCCAC
*
65021096 ATTAGTAAATATATATAT
1 ATTAGTAAATA-ATATAG
*
65021114 ATTAGTTAATAATATAG
1 ATTAGTAAATAATATAG
65021131 ATTA
1 ATTA
65021135 TACAAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTAGTAAATAATATAG
Found at i:65021321 original size:19 final size:17
Alignment explanation
Indices: 65021278--65021321 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
65021268 TTTAGTTTCC
65021278 ATAAAAAATTAAATTAA
1 ATAAAAAATTAAATTAA
*
65021295 ATATAAAATTAATATTTAA
1 ATAAAAAATTAA-A-TTAA
*
65021314 CTAAAAAA
1 ATAAAAAA
65021322 CCAATTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 1 0.05
19 10 0.45
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATTAAATTAA
Found at i:65026859 original size:15 final size:15
Alignment explanation
Indices: 65026839--65026880 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
65026829 AACTATATAC
65026839 ATAATATATAAAAAT
1 ATAATATATAAAAAT
65026854 ATAATAT-T-AAAAT
1 ATAATATATAAAAAT
*
65026867 ATATATACATAAAA
1 ATA-ATATATAAAA
65026881 GGGTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 8 0.35
16 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:65026993 original size:18 final size:19
Alignment explanation
Indices: 65026970--65027010 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
65026960 AATAAGGTAT
65026970 ATAAAATAATTTAAAATA-
1 ATAAAATAATTTAAAATAG
*
65026988 ATAAAATAATTTTAAATAG
1 ATAAAATAATTTAAAATAG
65027007 ATAA
1 ATAA
65027011 TACATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAAATAATTTAAAATAG
Found at i:65028757 original size:21 final size:21
Alignment explanation
Indices: 65028713--65028757 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
65028703 TTGATATGGG
* * **
65028713 TTGTAGTTTGGGTTTTAATTT
1 TTGTAATTTGGATTTTAAAAT
65028734 TTGTAATTTGGATTTTAAAAT
1 TTGTAATTTGGATTTTAAAAT
65028755 TTG
1 TTG
65028758 GACATTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
TTGTAATTTGGATTTTAAAAT
Found at i:65038276 original size:17 final size:17
Alignment explanation
Indices: 65038254--65038287 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
65038244 GGCTTAAGAT
65038254 AGTTCTTAAAGTCATTC
1 AGTTCTTAAAGTCATTC
65038271 AGTTCTTAAAGTCATTC
1 AGTTCTTAAAGTCATTC
65038288 CAAGCAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
AGTTCTTAAAGTCATTC
Found at i:65040590 original size:7 final size:7
Alignment explanation
Indices: 65040578--65040622 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
65040568 CGTCAGTGGG
65040578 TGGCAAA
1 TGGCAAA
65040585 TGGCAAA
1 TGGCAAA
65040592 TGGCAAA
1 TGGCAAA
65040599 TGGCAAA
1 TGGCAAA
65040606 TGGCAAA
1 TGGCAAA
65040613 TGGCAAA
1 TGGCAAA
65040620 TGG
1 TGG
65040623 TATGAAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.31, T:0.16
Consensus pattern (7 bp):
TGGCAAA
Found at i:65041635 original size:16 final size:17
Alignment explanation
Indices: 65041610--65041682 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
65041600 ATGTATTTGC
*
65041610 AAAATCTTT-AATATAT
1 AAAATATTTAAATATAT
65041626 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
* * *
65041643 CAAATGAATTAGAT-TA-
1 AAAAT-ATTTAAATATAT
65041659 AATAAT-TTTAAATATA-
1 AA-AATATTTAAATATAT
65041675 AAAATATT
1 AAAATATT
65041683 ATTTGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
15 8 0.18
16 15 0.33
17 16 0.36
18 6 0.13
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:65042109 original size:29 final size:29
Alignment explanation
Indices: 65042076--65042142 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
65042066 TGCATCGACC
** * *
65042076 GGTGCAATTGAAATTTGTTGCAATGAATA
1 GGTGCAATCAAAATTGGTTACAATGAATA
65042105 GGTGCAATCAAAATTGGTTACAATGAATA
1 GGTGCAATCAAAATTGGTTACAATGAATA
*
65042134 AGTGCAATC
1 GGTGCAATC
65042143 GGTACGAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (29 bp):
GGTGCAATCAAAATTGGTTACAATGAATA
Found at i:65048665 original size:17 final size:17
Alignment explanation
Indices: 65048643--65048677 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65048633 ATCTTTCTTC
65048643 TTAACAAACAGAACTGG
1 TTAACAAACAGAACTGG
65048660 TTAACAAACAGAACTGG
1 TTAACAAACAGAACTGG
65048677 T
1 T
65048678 GCTCCCCACG
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:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (17 bp):
TTAACAAACAGAACTGG
Found at i:65058899 original size:4 final size:4
Alignment explanation
Indices: 65058890--65058920 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
65058880 TTTGAGCGTC
65058890 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
65058921 CAAAAAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Done.