Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 211 of 230
Found at i:62641212 original size:25 final size:25
Alignment explanation
Indices: 62641146--62641237 Score: 98
Period size: 25 Copynumber: 3.5 Consensus size: 25
62641136 CCTAATTCTA
*
62641146 AAAAATTTAAAGAAATATATAAAAATACAT
1 AAAATTTTAAA-AAATATAT---AATA-AT
62641176 AAATATTTTAAAAAATATATAATAAT
1 AAA-ATTTTAAAAAATATATAATAAT
62641202 AAAATTTT-AAAAATATTATAATAAT
1 AAAATTTTAAAAAATA-TATAATAAT
62641227 AAAA-TTTAAAA
1 AAAATTTTAAAA
62641238 TGTCAATATT
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
24 10 0.17
25 21 0.36
26 5 0.09
27 4 0.07
30 11 0.19
31 7 0.12
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (25 bp):
AAAATTTTAAAAAATATATAATAAT
Found at i:62645089 original size:7 final size:7
Alignment explanation
Indices: 62645077--62645114 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
62645067 CTCTTTCTTT
62645077 AATAATA
1 AATAATA
62645084 AATAATA
1 AATAATA
62645091 AATAATA
1 AATAATA
62645098 AATAATA
1 AATAATA
62645105 AATAATA
1 AATAATA
62645112 AAT
1 AAT
62645115 TTGTTCTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:62646031 original size:33 final size:33
Alignment explanation
Indices: 62645989--62646053 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
62645979 AGAGGATCTT
62645989 AGAATATGAT-ATTTAAAAT-GGAATTTGATTCTG
1 AGAATATGATCA-TTAAAATAGG-ATTTGATTCTG
*
62646022 AGAATATGATCATTAGAATAGGATTTGATTCT
1 AGAATATGATCATTAAAATAGGATTTGATTCT
62646054 TTAATGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (33 bp):
AGAATATGATCATTAAAATAGGATTTGATTCTG
Found at i:62646068 original size:55 final size:55
Alignment explanation
Indices: 62646000--62646132 Score: 182
Period size: 55 Copynumber: 2.5 Consensus size: 55
62645990 GAATATGATA
* * *
62646000 TTTAA-AA-TGGAATTTGATTCTGAGAATATGATCATTAGAATAGGA-TTTGATTC
1 TTTAATAATTGGAATTTGATTCTCA-AATATGATAATTAGAATAGAATTTTGATTC
**
62646053 TTTAATGTTTGGAATTTGATTCTCAAATATGATAATTAGAATAGAATTTTGATTC
1 TTTAATAATTGGAATTTGATTCTCAAATATGATAATTAGAATAGAATTTTGATTC
*
62646108 TTTGATAATTGGAATTTGATTCTCA
1 TTTAATAATTGGAATTTGATTCTCA
62646133 TTTAGAATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 5 0.07
54 19 0.28
55 45 0.65
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.44
Consensus pattern (55 bp):
TTTAATAATTGGAATTTGATTCTCAAATATGATAATTAGAATAGAATTTTGATTC
Found at i:62646739 original size:9 final size:9
Alignment explanation
Indices: 62646715--62646753 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
62646705 AATTTCAACT
62646715 TTTTTTATATA
1 TTTTTTA-A-A
62646726 TTTTTTAGAA
1 TTTTTTA-AA
62646736 TTTTTTAAA
1 TTTTTTAAA
62646745 TTTTTTAAA
1 TTTTTTAAA
62646754 AATATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 11 0.41
10 8 0.30
11 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:62651412 original size:2 final size:2
Alignment explanation
Indices: 62651375--62651400 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62651365 CATCTGGTTC
62651375 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
62651401 GAATGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62653385 original size:90 final size:90
Alignment explanation
Indices: 62653232--62653396 Score: 233
Period size: 90 Copynumber: 1.8 Consensus size: 90
62653222 TAAACAAGAA
* * *
62653232 TGAAATCCAGAAAACTATATATGCAAACATCCACACACGTATATATAAACATGATCAAATGAACA
1 TGAAATCCAGAAAACTATATATGCAAACATACAAACACGCATATATAAACATGATCAAATGAACA
*
62653297 TAGGGTTTAAAGTATCACTTGAAGT
66 TAGGGCTTAAAGTATCACTTGAAGT
** * *
62653322 TGAAATCCAGAAAGTTATTTATGCATAA-ATACAAACATGCATATATAAACATGATCAAATGAAC
1 TGAAATCCAGAAAACTATATATGCA-AACATACAAACACGCATATATAAACATGATCAAATGAAC
*
62653386 ATGGGGCTTAA
65 ATAGGGCTTAA
62653397 CTTAGTTGGT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
90 63 0.97
91 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (90 bp):
TGAAATCCAGAAAACTATATATGCAAACATACAAACACGCATATATAAACATGATCAAATGAACA
TAGGGCTTAAAGTATCACTTGAAGT
Found at i:62653680 original size:16 final size:18
Alignment explanation
Indices: 62653661--62653694 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
62653651 AAAAAAATCA
62653661 AATTAAAA-AAA-AAAGG
1 AATTAAAAGAAACAAAGG
62653677 AATTAAAAGAAACAAAGG
1 AATTAAAAGAAACAAAGG
62653695 GTTTACCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (18 bp):
AATTAAAAGAAACAAAGG
Found at i:62654419 original size:16 final size:17
Alignment explanation
Indices: 62654400--62654433 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62654390 ATTTTTACTT
62654400 TTAAT-AAAATATATAA
1 TTAATGAAAATATATAA
62654416 TTAATGGAAAATATATAA
1 TTAAT-GAAAATATATAA
62654434 ATATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
18 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TTAATGAAAATATATAA
Found at i:62654687 original size:20 final size:21
Alignment explanation
Indices: 62654658--62654699 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
62654648 AAAGTCATTG
*
62654658 TAAATACATT-AATTATATTA
1 TAAATACATTAAATAATATTA
*
62654678 TAAATGCATTAAATAATATTA
1 TAAATACATTAAATAATATTA
62654699 T
1 T
62654700 TGTTTTGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATACATTAAATAATATTA
Found at i:62655555 original size:68 final size:68
Alignment explanation
Indices: 62655474--62655620 Score: 199
Period size: 68 Copynumber: 2.2 Consensus size: 68
62655464 ATACAAAACT
* * *
62655474 AAAGTTTATGTATAGGATTGTGTCACAG-GCGACAGATTTCTAACCCCGTGACAATCGCGA-GTT
1 AAAGTTTATGTATAGCATCGTGTCA-AGAGCCACAGATTTCTAACCCCGTGACAATCGC-ACGTT
62655537 CAATC
64 CAATC
* * * *
62655542 AAAGTTCATGTATAGCATCGTGTCATGAGCCACAGATTTCTAACCCTGTGACAATTGCACGTTCA
1 AAAGTTTATGTATAGCATCGTGTCAAGAGCCACAGATTTCTAACCCCGTGACAATCGCACGTTCA
62655607 ATC
66 ATC
62655610 AAAGTTTATGT
1 AAAGTTTATGT
62655621 GCAGTTTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
67 2 0.03
68 67 0.97
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (68 bp):
AAAGTTTATGTATAGCATCGTGTCAAGAGCCACAGATTTCTAACCCCGTGACAATCGCACGTTCA
ATC
Found at i:62658706 original size:25 final size:25
Alignment explanation
Indices: 62658676--62658725 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
62658666 ATACAGAGAA
*
62658676 CACTAATGTGCTAATAATCAAAGAG
1 CACTAACGTGCTAATAATCAAAGAG
*
62658701 CACTAACGTGCTAATAATCAGAGAG
1 CACTAACGTGCTAATAATCAAAGAG
62658726 TGCGCTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (25 bp):
CACTAACGTGCTAATAATCAAAGAG
Found at i:62661478 original size:11 final size:11
Alignment explanation
Indices: 62661431--62661480 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
62661421 ATTAGATAAA
*
62661431 TATTATTTAAT
1 TATTATTTTAT
*
62661442 TAATATTTTAT
1 TATTATTTTAT
**
62661453 TAAGATTTTTAT
1 TATTA-TTTTAT
62661465 TATTATTTTAT
1 TATTATTTTAT
62661476 TATTA
1 TATTA
62661481 AATGATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 24 0.73
12 9 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:62663483 original size:25 final size:25
Alignment explanation
Indices: 62663455--62663527 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
62663445 ACTCTCTCTC
* *
62663455 GAGCTATATAACAGGAAGCTCATGT
1 GAGCTATATAACGGGAAGCTCATCT
* * *
62663480 GAGCCATGTAACGGGAAGCTTATCT
1 GAGCTATATAACGGGAAGCTCATCT
* * *
62663505 GGGCTGTATAATGGGAAGCTCAT
1 GAGCTATATAACGGGAAGCTCAT
62663528 AAGAGCCATA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (25 bp):
GAGCTATATAACGGGAAGCTCATCT
Found at i:62663687 original size:26 final size:26
Alignment explanation
Indices: 62663651--62663710 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
62663641 GAAGCTCCGG
* *
62663651 AGAGCCATTAATTAGGAAGCTTACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
62663677 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
62663703 AGAGCCAT
1 AGAGCCAT
62663711 ATATCGGGAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:62663716 original size:26 final size:27
Alignment explanation
Indices: 62663511--62663725 Score: 124
Period size: 24 Copynumber: 8.6 Consensus size: 27
62663501 ATCTGGGCTG
*
62663511 TATAAT-GGGAAGCTCA-TAAGAGCC-
1 TATAATCGGGAAGCTCACGAAGAGCCA
** * *
62663535 -ATAATCAAGAAGCTCA-TATGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
*
62663560 -ATAAT-GGGTAGCTC-CGAAGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
* * *
62663584 T-TAATCAGGAAGCTC-CGAATAGTCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
* * * *
62663609 TAT-ATCGGGAAGTTTAAG-TGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
*
62663634 -AT-ATCGGGAAGCTC-CGGAGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
** * *
62663658 T-TAATTAGGAAGCTTACAAAGAGCC-
1 TATAATCGGGAAGCTCACGAAGAGCCA
*
62663683 TTTAATCGGGAAGCTCACGAAGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
*
62663710 TAT-ATCGGGACGCTCA
1 TATAATCGGGAAGCTCA
62663726 TAAAAGTTGT
Statistics
Matches: 144, Mismatches: 34, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
23 6 0.04
24 51 0.35
25 44 0.31
26 41 0.28
27 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
TATAATCGGGAAGCTCACGAAGAGCCA
Found at i:62664465 original size:12 final size:12
Alignment explanation
Indices: 62664448--62664472 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62664438 AATTTGGTCA
62664448 TTTTCATCAAAT
1 TTTTCATCAAAT
62664460 TTTTCATCAAAT
1 TTTTCATCAAAT
62664472 T
1 T
62664473 AGACATGTAA
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTCATCAAAT
Found at i:62665942 original size:108 final size:109
Alignment explanation
Indices: 62665727--62665945 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 109
62665717 AATGATCGTA
62665727 AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGGAAAAAAACC
1 AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGG-AAAAAACC
*
62665792 ATGGGCTGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
65 ATAGGCTGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
*
62665837 AAACAATAAGAAAAGAAAAATAAAACATATAGATTTTACGTGGAAACCCTTTTGGG-AAAAACCA
1 AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGGAAAAAACCA
*
62665901 TAGGCAATG-G-AGAAGAAATTCACTAATGTTGAAATCTGAATGAT
66 TAGGC--TGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
62665945 A
1 A
62665946 TAATATGAGT
Statistics
Matches: 104, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
108 46 0.44
109 1 0.01
110 57 0.55
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.22
Consensus pattern (109 bp):
AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGGAAAAAACCA
TAGGCTGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
Found at i:62681661 original size:420 final size:420
Alignment explanation
Indices: 62680882--62681723 Score: 1666
Period size: 420 Copynumber: 2.0 Consensus size: 420
62680872 ATGCATTTTC
62680882 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
1 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
62680947 TATCTTGTACAGAGGTGAAGACCTCACGAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
66 TATCTTGTACAGAGGTGAAGACCTCACGAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
62681012 ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
131 ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
62681077 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
196 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
62681142 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
261 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
62681207 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
326 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
62681272 TGACTCTTTTTTTAGTCATCAGTGAAGTCA
391 TGACTCTTTTTTTAGTCATCAGTGAAGTCA
62681302 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
1 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
*
62681367 TATCTTGTATAGAGGTGAAGACCTCACGAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
66 TATCTTGTACAGAGGTGAAGACCTCACGAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
62681432 ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
131 ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
*
62681497 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGTTTATTAACAAAGA
196 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
62681562 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
261 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
62681627 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
326 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
62681692 TGACTCTTTTTTTAGTCATCAGTGAAGTCA
391 TGACTCTTTTTTTAGTCATCAGTGAAGTCA
62681722 CT
1 CT
62681724 TTGTCAAAAC
Statistics
Matches: 420, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
420 420 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (420 bp):
CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
TATCTTGTACAGAGGTGAAGACCTCACGAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
TGACTCTTTTTTTAGTCATCAGTGAAGTCA
Found at i:62689852 original size:25 final size:23
Alignment explanation
Indices: 62689803--62689847 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
62689793 GATTTGTATT
62689803 TTTTCAAGAGAAAAAATTTAATG
1 TTTTCAAGAGAAAAAATTTAATG
*
62689826 TTTTCAGGAGAAAAAATTTAAT
1 TTTTCAAGAGAAAAAATTTAAT
62689848 TTGTTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (23 bp):
TTTTCAAGAGAAAAAATTTAATG
Found at i:62694868 original size:32 final size:31
Alignment explanation
Indices: 62694831--62694895 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
62694821 TATATCATAT
* *
62694831 AAATAATTAATTAAATTTAATAAATTATTAAA
1 AAATAAATAATTAAAATTAATAAATTA-TAAA
* *
62694863 AAATAAATATTTAAAATTATTAAATTATAAA
1 AAATAAATAATTAAAATTAATAAATTATAAA
62694894 AA
1 AA
62694896 TTGAAAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 6 0.21
32 23 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATAAATAATTAAAATTAATAAATTATAAA
Found at i:62694892 original size:24 final size:24
Alignment explanation
Indices: 62694852--62694902 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
62694842 TAAATTTAAT
* *
62694852 AAATTATTAAAAAATAAATATTTA
1 AAATTATTAAAAAATAAAAATTGA
**
62694876 AAATTATTAAATTATAAAAATTGA
1 AAATTATTAAAAAATAAAAATTGA
62694900 AAA
1 AAA
62694903 ACTGCAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATTATTAAAAAATAAAAATTGA
Found at i:62695345 original size:19 final size:19
Alignment explanation
Indices: 62695304--62695346 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
62695294 TTTTTCATAT
*
62695304 TAATTATTGTATCTTATTT
1 TAATTATTGTATCTTATTA
*
62695323 TAATTATTTTATC-TATTAA
1 TAATTATTGTATCTTATT-A
62695342 TAATT
1 TAATT
62695347 TAACCTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
TAATTATTGTATCTTATTA
Found at i:62698166 original size:17 final size:19
Alignment explanation
Indices: 62698134--62698169 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
62698124 ATCGATTTAA
62698134 TATTTAATATTTTTATAAT
1 TATTTAATATTTTTATAAT
62698153 TATTT-ATA-TTTTATAAT
1 TATTTAATATTTTTATAAT
62698170 AATATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTAATATTTTTATAAT
Found at i:62698177 original size:17 final size:17
Alignment explanation
Indices: 62698140--62698177 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
62698130 TTAATATTTA
*
62698140 ATAT-TTTTATAATTAT
1 ATATATTTTATAATAAT
*
62698156 TTATATTTTATAATAAT
1 ATATATTTTATAATAAT
62698173 ATATA
1 ATATA
62698178 AGTTGGTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTTATAATAAT
Found at i:62698214 original size:13 final size:14
Alignment explanation
Indices: 62698193--62698225 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
62698183 GTTAAGCCAT
*
62698193 ATATTTATTTTA-A
1 ATATATATTTTATA
62698206 ATATATATTTTATA
1 ATATATATTTTATA
62698220 ATATAT
1 ATATAT
62698226 TTATTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATATATTTTATA
Found at i:62698698 original size:29 final size:30
Alignment explanation
Indices: 62698642--62698700 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
62698632 ATCCTTATTG
** *
62698642 CTTTCCAATGAGAAAAAATTTGATTTGTCA
1 CTTTCCAATGAGAAAAAACATGAATTGTCA
62698672 CTTTCCAATGAGAAAAAACAT-AATTGTCA
1 CTTTCCAATGAGAAAAAACATGAATTGTCA
62698701 TTCTCCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (30 bp):
CTTTCCAATGAGAAAAAACATGAATTGTCA
Found at i:62698769 original size:26 final size:27
Alignment explanation
Indices: 62698719--62698771 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
62698709 TTGGAAATAC
* *
62698719 TTTAAAATATTTTTTTATTTTTTTATT
1 TTTAAAATATTTTTTTATGTGTTTATT
62698746 TTTAAAATATTTTTTT-TGTGTTTATT
1 TTTAAAATATTTTTTTATGTGTTTATT
62698772 AAAAACCGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (27 bp):
TTTAAAATATTTTTTTATGTGTTTATT
Found at i:62699427 original size:56 final size:55
Alignment explanation
Indices: 62699342--62699448 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
62699332 TTATATATTG
* *
62699342 CAAATTAATTATTCGTGAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
* *
62699397 CAAATTTAATTATTCATAAGCAGTCTTCAAATTAAAAGTGATGATTTATCAT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCAT
62699449 TCAATGGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 4 0.09
56 43 0.91
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
Found at i:62702911 original size:10 final size:10
Alignment explanation
Indices: 62702898--62702927 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
62702888 AATAAGCTAG
62702898 AATAATGTTT
1 AATAATGTTT
62702908 AATAATGTTT
1 AATAATGTTT
*
62702918 AATGATGTTT
1 AATAATGTTT
62702928 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
AATAATGTTT
Found at i:62704197 original size:10 final size:10
Alignment explanation
Indices: 62704183--62704240 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
62704173 CATAAAATAG
*
62704183 TAAAATTATG
1 TAAAATTATA
62704193 TAAAATTAATA
1 TAAAATT-ATA
*
62704204 TTAAATTATA
1 TAAAATTATA
62704214 TAAAATTA-A
1 TAAAATTATA
62704223 -AAAATT-TA
1 TAAAATTATA
62704231 CTAAAATTAT
1 -TAAAATTAT
62704241 GTCTAATGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 7 0.17
9 1 0.03
10 23 0.57
11 9 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
TAAAATTATA
Found at i:62714271 original size:20 final size:20
Alignment explanation
Indices: 62714207--62714272 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
62714197 ATGCACATCA
* * *
62714207 ATAAACAATTTAAAA-AATC
1 ATAAAAAATTCAAAAGAATT
* *
62714226 ATAAAAATGTTC-AAAGAAAT
1 ATAAAAA-ATTCAAAAGAATT
*
62714246 AAAAAAAATTCAAAAGAATT
1 ATAAAAAATTCAAAAGAATT
62714266 ATAAAAA
1 ATAAAAA
62714273 GTTTACAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
19 12 0.34
20 23 0.66
ACGTcount: A:0.67, C:0.06, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAAAAATTCAAAAGAATT
Found at i:62715125 original size:16 final size:16
Alignment explanation
Indices: 62715104--62715136 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62715094 TAGGTATTAC
62715104 TTTTGATAAATTATAT
1 TTTTGATAAATTATAT
*
62715120 TTTTGATAAATTTTAT
1 TTTTGATAAATTATAT
62715136 T
1 T
62715137 GACAATGACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTGATAAATTATAT
Found at i:62720082 original size:138 final size:138
Alignment explanation
Indices: 62719889--62720163 Score: 496
Period size: 138 Copynumber: 2.0 Consensus size: 138
62719879 CAAGAATGGG
*
62719889 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAGT
1 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTCTAAGAGT
** *
62719954 TAAAATTACATTGGCCTCAACGTTACTTGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
66 TAAAATTACATCAGCCTCAACGTTACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
62720019 TGTTCAAC
131 TGTTCAAC
* *
62720027 TGCTGCTTACTATACCCTCAAGGCTGGAATTCTAGGATCTCTGATCAACGGTGACTTCTAAGAGT
1 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTCTAAGAGT
62720092 TAAAATTACATCAGCCTCAACGTTACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
66 TAAAATTACATCAGCCTCAACGTTACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
62720157 TGTTCAA
131 TGTTCAA
62720164 TTTTCTTAAA
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (138 bp):
TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTCTAAGAGT
TAAAATTACATCAGCCTCAACGTTACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
TGTTCAAC
Found at i:62727801 original size:16 final size:16
Alignment explanation
Indices: 62727782--62727813 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62727772 AAATTAATAA
*
62727782 TTATTTGAATTATTTC
1 TTATCTGAATTATTTC
62727798 TTATCTGAATTATTTC
1 TTATCTGAATTATTTC
62727814 CGCAATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.59
Consensus pattern (16 bp):
TTATCTGAATTATTTC
Found at i:62732355 original size:16 final size:16
Alignment explanation
Indices: 62732334--62732368 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
62732324 GTTCAAGTTC
62732334 TAAGTG-TGTTTTGATT
1 TAAGTGCTGTTTTG-TT
62732350 TAAGTGCTGTTTTGTT
1 TAAGTGCTGTTTTGTT
62732366 TAA
1 TAA
62732369 AATTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (16 bp):
TAAGTGCTGTTTTGTT
Found at i:62733548 original size:26 final size:26
Alignment explanation
Indices: 62733509--62733558 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
62733499 TTTTATATTA
*
62733509 AAAATAATACAAATATATACAAATTT
1 AAAATAATACAAATATATAAAAATTT
* * *
62733535 AAAATATTATAAATTTATAAAAAT
1 AAAATAATACAAATATATAAAAAT
62733559 ATATAAAAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATAATACAAATATATAAAAATTT
Found at i:62733564 original size:10 final size:10
Alignment explanation
Indices: 62733502--62733614 Score: 53
Period size: 10 Copynumber: 11.8 Consensus size: 10
62733492 TATAATATTT
62733502 TATATTAAAAA
1 TATA-TAAAAA
*
62733513 TA-ATACAAA
1 TATATAAAAA
*
62733522 TATATACAAA
1 TATATAAAAA
62733532 T-T-T-AAAA
1 TATATAAAAA
*
62733539 TAT-TATAAA
1 TATATAAAAA
*
62733548 TTTATAAAAA
1 TATATAAAAA
*
62733558 TATATAAAAG
1 TATATAAAAA
* *
62733568 GACA-AAAAA
1 TATATAAAAA
62733577 -ATATAAAAA
1 TATATAAAAA
* *
62733586 CATATTATAAA
1 TATA-TAAAAA
*
62733597 TGAAAT-AAAA
1 T-ATATAAAAA
62733607 TATATAAA
1 TATATAAA
62733615 TTTTTAGAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
7 4 0.05
8 5 0.06
9 25 0.32
10 33 0.43
11 8 0.10
12 2 0.03
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (10 bp):
TATATAAAAA
Found at i:62734020 original size:20 final size:19
Alignment explanation
Indices: 62733997--62734042 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
62733987 ATAAAAATTA
62733997 TAAAATTATAAAAAAATATT
1 TAAAATTATAAAAAAATA-T
* * *
62734017 TAAAAGTATAGAAAATTAT
1 TAAAATTATAAAAAAATAT
62734036 TAAAATT
1 TAAAATT
62734043 GTTAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
TAAAATTATAAAAAAATAT
Found at i:62736773 original size:3 final size:3
Alignment explanation
Indices: 62736765--62736885 Score: 147
Period size: 3 Copynumber: 40.0 Consensus size: 3
62736755 AAAGTTGACG
62736765 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
62736813 TTA TTA TTA TTA TTA TTA TCA TTTA TCA TCT- TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TTA TTA TTA
* * *
62736859 ATA TTA -AA TTTA TTA TTA TTA TCA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA
62736886 CATTTATATT
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.02
3 96 0.95
4 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:62736898 original size:21 final size:21
Alignment explanation
Indices: 62736848--62736892 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
62736838 TCATCTTTAC
62736848 TATTATTATTAATATTAAATT
1 TATTATTATTAATATTAAATT
*
62736869 TATTATTATT-ATCATTACATT
1 TATTATTATTAAT-ATTAAATT
62736890 TAT
1 TAT
62736893 ATTTATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTATTATTAATATTAAATT
Found at i:62737491 original size:25 final size:24
Alignment explanation
Indices: 62737441--62737495 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
62737431 GCATGATCGA
**
62737441 TTTATTTTATTATTCACTTTTTTG
1 TTTATTTTATTATTCACTTTCATG
62737465 TTTATTTT-TTATTCACATTATCATG
1 TTTATTTTATTATTCAC-TT-TCATG
62737490 TTTATT
1 TTTATT
62737496 ATTTCATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 8 0.30
24 10 0.37
25 9 0.33
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTATTTTATTATTCACTTTCATG
Found at i:62737746 original size:109 final size:110
Alignment explanation
Indices: 62737534--62737755 Score: 313
Period size: 109 Copynumber: 2.0 Consensus size: 110
62737524 TCAAAAAGGG
* * *
62737534 AAAATTTTTCAAATAAGGCAATGTTTCGCATTTGGAAATTCGAGAAAAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTCGCATTTGGAAATTCGAGAAAAACATGCCCTAAGGTGCT
* **
62737599 GGGTGTCAATTTTTCTCATTCAATCCAATGGCTTAATATCCTTTT
66 GGGTGTCAATTTTTCTCATTCAATCCAATAGCCAAATATCCTTTT
* *
62737644 AAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCG-GGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTCGCATTTGGAAATTCGAGAAAAACATGCCCTAAGGTGCT
** * *
62737708 GGGTGTCGTTTTTTTTCGTTCAA-CCAAATAGCCAAATATCCTTTT
66 GGGTGTCAATTTTTCTCATTCAATCC-AATAGCCAAATATCCTTTT
62737753 AAA
1 AAA
62737756 TTTTAATTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
108 2 0.02
109 58 0.59
110 39 0.39
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (110 bp):
AAAAATTTTAAAATAAGGCAATGTTTCGCATTTGGAAATTCGAGAAAAACATGCCCTAAGGTGCT
GGGTGTCAATTTTTCTCATTCAATCCAATAGCCAAATATCCTTTT
Found at i:62743867 original size:138 final size:139
Alignment explanation
Indices: 62743674--62743949 Score: 491
Period size: 139 Copynumber: 2.0 Consensus size: 139
62743664 CAAGAATGGG
62743674 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAG-
1 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAGT
** * *
62743738 TTAAAATTACATTGGCCTCAACGTTACTTGGATTTGGATGGAATATTGATGTGTTTTAACACGGT
66 TTAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGT
62743803 ATGTTCAAC
131 ATGTTCAAC
* *
62743812 TGCTGCTTACTATACCCTCAAGGCTGGAATTCTAGGATCTCTGATCAACGGTGACTTGTAAGAGT
1 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAGT
62743877 TTAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGT
66 TTAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGT
62743942 ATGTTCAA
131 ATGTTCAA
62743950 TTTTCTTAAA
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
138 62 0.47
139 69 0.53
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (139 bp):
TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAGT
TTAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGT
ATGTTCAAC
Found at i:62745539 original size:5 final size:5
Alignment explanation
Indices: 62745529--62745555 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
62745519 TGAGCAGTCG
62745529 ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA AT
62745556 AAAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:62746293 original size:7 final size:7
Alignment explanation
Indices: 62746283--62746308 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62746273 TTGGGGTAGA
62746283 TGGGAGG
1 TGGGAGG
62746290 TGGGAGG
1 TGGGAGG
62746297 TGGGAGG
1 TGGGAGG
62746304 TGGGA
1 TGGGA
62746309 TGGGAAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:62746348 original size:30 final size:31
Alignment explanation
Indices: 62746309--62746368 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
62746299 GGAGGTGGGA
*
62746309 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
62746340 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
62746369 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:62746510 original size:29 final size:30
Alignment explanation
Indices: 62746472--62746528 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
62746462 GGGTTGGGAG
*
62746472 GGGAGAGGAGTAAAAGTTTTAGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTAAGGGAAAGT
62746502 GGGA-AGGAGTAAAAGTTTTAAGGGAAA
1 GGGAGAGGAGTAAAAGTTTTAAGGGAAA
62746529 AGTAAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.19
Consensus pattern (30 bp):
GGGAGAGGAGTAAAAGTTTTAAGGGAAAGT
Found at i:62747166 original size:63 final size:64
Alignment explanation
Indices: 62747033--62747169 Score: 188
Period size: 63 Copynumber: 2.2 Consensus size: 64
62747023 GGTCTAATTT
* * *
62747033 GCAAACAGT-AAGTCACACGGCCTGGACACATGCCCGTGTCTCTAGCCTATGTGGTCCCTAATG
1 GCAAACAGTGAAGTCACACGGCCTGGACACATGCCAGTGTCTCTAGCCCATGTGGTCCCTAATA
** * * *
62747096 GTGAACAGTGAA-TCACACGGCCTGGACACGTGCCAGTGTCTCTGGCCCGTGTGGTCCCTAATA
1 GCAAACAGTGAAGTCACACGGCCTGGACACATGCCAGTGTCTCTAGCCCATGTGGTCCCTAATA
62747159 GCAAACAGTGA
1 GCAAACAGTGA
62747170 GCCACATGGT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 61 0.97
64 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (64 bp):
GCAAACAGTGAAGTCACACGGCCTGGACACATGCCAGTGTCTCTAGCCCATGTGGTCCCTAATA
Found at i:62751395 original size:18 final size:18
Alignment explanation
Indices: 62751368--62751460 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
62751358 TACGACCGTT
62751368 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
62751386 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
62751404 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
62751422 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
*
62751440 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
62751458 TAC
1 TAC
62751461 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:62751415 original size:36 final size:36
Alignment explanation
Indices: 62751368--62751460 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
62751358 TACGACCGTT
62751368 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
62751404 TACGGTACTATTCACGTATACGGCACTATTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
62751440 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
62751461 AGTAGTTGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:62770203 original size:16 final size:17
Alignment explanation
Indices: 62770172--62770204 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62770162 AAAATAATAC
62770172 AAATATATACAAATTTA
1 AAATATATACAAATTTA
*
62770189 AAATAT-TATAAATTTA
1 AAATATATACAAATTTA
62770205 TAAAAACATA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATACAAATTTA
Found at i:62770326 original size:30 final size:31
Alignment explanation
Indices: 62770275--62770361 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 31
62770265 AAACTATAAA
62770275 AATTATTAAAAATTGAACAAAAAAAG-CATTAAT
1 AATTATT-AAAA-T-AACAAAAAAAGACATTAAT
*
62770308 AATTATTAAAATAACAAAAAGTATGACATTAAT
1 AATTATTAAAATAACAAAAA--AAGACATTAAT
* *
62770341 CATTATTAAAATTACAAAAAA
1 AATTATTAAAATAACAAAAAA
62770362 TAAAAATTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
30 8 0.17
31 2 0.04
32 6 0.12
33 32 0.67
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (31 bp):
AATTATTAAAATAACAAAAAAAGACATTAAT
Found at i:62771690 original size:27 final size:27
Alignment explanation
Indices: 62771652--62771706 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
62771642 CCCGACACTC
62771652 ATACTATGGTCTTTTTCATCAACAAAG
1 ATACTATGGTCTTTTTCATCAACAAAG
62771679 ATACTATGGTCTTTTTCATCAACAAAG
1 ATACTATGGTCTTTTTCATCAACAAAG
62771706 A
1 A
62771707 CCATATCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (27 bp):
ATACTATGGTCTTTTTCATCAACAAAG
Found at i:62774286 original size:81 final size:82
Alignment explanation
Indices: 62774151--62774309 Score: 284
Period size: 81 Copynumber: 2.0 Consensus size: 82
62774141 CTGTCTATTT
*
62774151 TGTAACACCCCTTACCCGTATTCGACACCGAAATAAGGTATGAGGTATTACCGGAGTTTACTAAT
1 TGTAACACCCCTTACCCGTATTCGACACCGAAATAAGGTACGAGGTATTACCGGAGTTTACTAAT
62774216 TAA-TTTTCAGACTAAA
66 TAATTTTTCAGACTAAA
* *
62774232 TGTAACACCCCTTACTCGTATTCGACACCGAAATAGGGTACGAGGTATTACCGGAGTTTACTAAT
1 TGTAACACCCCTTACCCGTATTCGACACCGAAATAAGGTACGAGGTATTACCGGAGTTTACTAAT
62774297 TAATTTTTCAGAC
66 TAATTTTTCAGAC
62774310 ATTTCATTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 65 0.88
82 9 0.12
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (82 bp):
TGTAACACCCCTTACCCGTATTCGACACCGAAATAAGGTACGAGGTATTACCGGAGTTTACTAAT
TAATTTTTCAGACTAAA
Found at i:62785869 original size:6 final size:6
Alignment explanation
Indices: 62785858--62785882 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62785848 TGTATACCAT
62785858 ATGTAA ATGTAA ATGTAA ATGTAA A
1 ATGTAA ATGTAA ATGTAA ATGTAA A
62785883 ATGATGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATGTAA
Found at i:62795171 original size:2 final size:2
Alignment explanation
Indices: 62795164--62795192 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62795154 TTCATAGCAA
62795164 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
62795193 AATCAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:62799287 original size:147 final size:147
Alignment explanation
Indices: 62799018--62799458 Score: 544
Period size: 147 Copynumber: 3.0 Consensus size: 147
62799008 AGTTTTGAAC
* * * * * * * *
62799018 CCAAGTCGACTATAGTTCAGCATGGCATTTCATCAAACAATT-TAGATGCAGAAAACGTAATGAA
1 CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAAC-ATTAGAGATGCTGAAAATGCAATCAA
* * *
62799082 GGAAGATAACCTGACATCTCAACTTAAGGAGGAGGTTACTGAAATGGATGAGTCTGGGGTTGTGG
65 GGAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTTGTGG
* *
62799147 AAGTTGAAGTTAATGTAG
130 AAGATAAAGTTAATGTAG
* * * * ** *
62799165 CGAAGTCTACAATAGTTCAGCCTGACATTTCATCGAACATTGGAGATGCTGAAGGTGCAATTAAG
1 CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
* * * *
62799230 GAAGATAACCTAACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTCGTAGC
66 GAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTTGTGGA
62799295 AGATAAAGTTAATGTAG
131 AGATAAAGTTAATGTAG
* * ** *
62799312 CCAAGTGGACGATAGTTCAGTGTGGCATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
1 CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
* * * * *
62799377 GAAGATAACCTGACGTCTGAACTTAAGGAGGAGGTCACCGAAAGGGTTGATTCCT-TGGTTGTGG
66 GAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATT-CTGGGGTTGTGG
62799441 AAGATAAAGTTAATGTAG
130 AAGATAAAGTTAATGTAG
62799459 AAAAGAAAGA
Statistics
Matches: 249, Mismatches: 43, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
146 3 0.01
147 244 0.98
148 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.25
Consensus pattern (147 bp):
CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
GAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTTGTGGA
AGATAAAGTTAATGTAG
Found at i:62801063 original size:15 final size:15
Alignment explanation
Indices: 62801043--62801089 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
62801033 TATTCTAAGT
*
62801043 TTGATTAAAATTTAA
1 TTGATTAAAATATAA
*
62801058 TTGATTCAAATATAA
1 TTGATTAAAATATAA
* *
62801073 ATGATTAAAATGTAA
1 TTGATTAAAATATAA
62801088 TT
1 TT
62801090 TGAGGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (15 bp):
TTGATTAAAATATAA
Found at i:62801109 original size:31 final size:30
Alignment explanation
Indices: 62801044--62801110 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
62801034 ATTCTAAGTT
* *
62801044 TGATTAAAATTTAATTGATTCAAATATAAA
1 TGATTAAAATGTAATTGAGTCAAATATAAA
62801074 TGATTAAAATGTAATTTGAGGT-AAATA-AAA
1 TGATTAAAATGTAA-TTGA-GTCAAATATAAA
62801104 GTGATTA
1 -TGATTA
62801111 TTTTGATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 16 0.50
31 15 0.47
32 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.13, T:0.37
Consensus pattern (30 bp):
TGATTAAAATGTAATTGAGTCAAATATAAA
Found at i:62801538 original size:30 final size:30
Alignment explanation
Indices: 62801503--62801588 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
62801493 TCTCTTTTAA
62801503 AAACAAACTTATTTTTATGACTCACATAAC
1 AAACAAACTTATTTTTATGACTCACATAAC
* * *
62801533 AAACAAACTTACTTTTATTACTCATATAAC
1 AAACAAACTTATTTTTATGACTCACATAAC
62801563 AAACAAACTTATTTTTATGACTCACA
1 AAACAAACTTATTTTTATGACTCACA
62801589 AAATAGGCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (30 bp):
AAACAAACTTATTTTTATGACTCACATAAC
Found at i:62804373 original size:30 final size:30
Alignment explanation
Indices: 62804275--62804362 Score: 158
Period size: 30 Copynumber: 2.9 Consensus size: 30
62804265 AATCTTCTTT
62804275 ACAAACAAACTTACTTTTATGACTCACATA
1 ACAAACAAACTTACTTTTATGACTCACATA
* *
62804305 ACAAACAAACTTACTTTTATGATTCATATA
1 ACAAACAAACTTACTTTTATGACTCACATA
62804335 ACAAACAAACTTACTTTTATGACTCACA
1 ACAAACAAACTTACTTTTATGACTCACA
62804363 AAATAGACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (30 bp):
ACAAACAAACTTACTTTTATGACTCACATA
Found at i:62807793 original size:16 final size:16
Alignment explanation
Indices: 62807774--62807838 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
62807764 AGACTCAGGC
62807774 TTTTCCAAACTCAAAT
1 TTTTCCAAACTCAAAT
* *** *
62807790 TTTTTCGGTCTCGAACT
1 TTTTCCAAACTC-AAAT
62807807 TTTT-CAAACTCAAA-
1 TTTTCCAAACTCAAAT
62807821 TTTTCTCAAACTCAAAT
1 TTTTC-CAAACTCAAAT
62807838 T
1 T
62807839 ATTACGAGCA
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
14 4 0.11
15 2 0.06
16 22 0.61
17 8 0.22
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.42
Consensus pattern (16 bp):
TTTTCCAAACTCAAAT
Found at i:62811308 original size:20 final size:20
Alignment explanation
Indices: 62811283--62811324 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
62811273 AGATCGATTG
62811283 AATCGATTAAGAGTATTTAA
1 AATCGATTAAGAGTATTTAA
*
62811303 AATCGATTAAGAGTGTTTAA
1 AATCGATTAAGAGTATTTAA
62811323 AA
1 AA
62811325 AATCTAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (20 bp):
AATCGATTAAGAGTATTTAA
Found at i:62818113 original size:21 final size:22
Alignment explanation
Indices: 62818089--62818131 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
62818079 CTTTAGCCCC
62818089 TTAA-AATTATAAAAATT-TAAA
1 TTAATAATT-TAAAAATTATAAA
*
62818110 TTAATTATTTAAAAATTATAAA
1 TTAATAATTTAAAAATTATAAA
62818132 GATATAGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATAATTTAAAAATTATAAA
Found at i:62818400 original size:25 final size:25
Alignment explanation
Indices: 62818372--62818421 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
62818362 ATTTGGCCAT
62818372 TAAACTATTTGAAAGTTTTCATTTA
1 TAAACTATTTGAAAGTTTTCATTTA
62818397 TAAACTATTTGAAAGTTTTCATTTA
1 TAAACTATTTGAAAGTTTTCATTTA
62818422 AGTTATTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (25 bp):
TAAACTATTTGAAAGTTTTCATTTA
Found at i:62821621 original size:21 final size:21
Alignment explanation
Indices: 62821595--62821635 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62821585 ATCTGCTCAA
* *
62821595 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
62821616 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
62821636 TTGCTCATCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:62845835 original size:29 final size:30
Alignment explanation
Indices: 62845803--62845861 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
62845793 TATGGTTTAA
*
62845803 TGTGCAATTGTATGCAT-AAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
*
62845832 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
62845862 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:62845870 original size:30 final size:29
Alignment explanation
Indices: 62845807--62845870 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
62845797 GTTTAATGTG
* *
62845807 CAATTGTATGCATAAATTTTGATTTTGTG
1 CAATTGTATACATAAATTTTGATTTTGTC
*
62845836 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACAT-AAATTTTGATTTTG-TC
62845866 CAATT
1 CAATT
62845871 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (29 bp):
CAATTGTATACATAAATTTTGATTTTGTC
Found at i:62845963 original size:29 final size:28
Alignment explanation
Indices: 62845931--62845994 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
62845921 TATTGTATAC
*
62845931 ATAAATAATTATATTTCTCCAATATAAAA
1 ATAAATAA-TATATTTATCCAATATAAAA
* *
62845960 ATAAATTGATGTATTTATCCAATATAAAA
1 ATAAA-TAATATATTTATCCAATATAAAA
*
62845989 TTAAAT
1 ATAAAT
62845995 CTATCTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 27 0.90
30 2 0.07
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAAATAATATATTTATCCAATATAAAA
Found at i:62858447 original size:24 final size:23
Alignment explanation
Indices: 62858399--62858447 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
62858389 AACATATACA
* *
62858399 TAAAAATACATAAATATTTTTTT
1 TAAAAATAAATAAATATTTTATT
62858422 TAAAAATATAATAAAT-TATTTATT
1 TAAAAATA-AATAAATAT-TTTATT
62858446 TA
1 TA
62858448 TATATATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAAATAAATAAATATTTTATT
Found at i:62860994 original size:48 final size:48
Alignment explanation
Indices: 62860901--62860994 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 48
62860891 GCGATTATGA
* * * *
62860901 TGGCTTGACCACCCATATCTGATTCTGGCAGTTTATCTGCATATTTGG
1 TGGCTTGACCACACATATCTAATTCTAGCAGATTATCTGCATATTTGG
* * *
62860949 TGGCTTGATCACACTTATCTAATTCTAGCGGATTA-CTGCACTATTT
1 TGGCTTGACCACACATATCTAATTCTAGCAGATTATCTGCA-TATTT
62860995 CTGACAGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 5 0.13
48 33 0.87
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.38
Consensus pattern (48 bp):
TGGCTTGACCACACATATCTAATTCTAGCAGATTATCTGCATATTTGG
Found at i:62867310 original size:4 final size:4
Alignment explanation
Indices: 62867301--62867327 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
62867291 CCGAAGAAGC
62867301 AACG AACG AACG AACG AACG AACG AAC
1 AACG AACG AACG AACG AACG AACG AAC
62867328 AAAAAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.22, T:0.00
Consensus pattern (4 bp):
AACG
Found at i:62871019 original size:23 final size:22
Alignment explanation
Indices: 62870993--62871046 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
62870983 ATTTTAATTC
62870993 TAAATA-ATTCAAAAACATATACA
1 TAAATATATTC-AAAACATATA-A
* *
62871016 TAAATATTTTCAAAATATATAA
1 TAAATATATTCAAAACATATAA
62871038 TAAAT-TATT
1 TAAATATATT
62871047 TATTTATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.11
22 6 0.22
23 15 0.56
24 3 0.11
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATATTCAAAACATATAA
Found at i:62871047 original size:23 final size:23
Alignment explanation
Indices: 62871004--62871047 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
62870994 AAATAATTCA
62871004 AAAACATATACATAAATATTTTC
1 AAAACATATACATAAATATTTTC
*
62871027 AAAATATATA-ATAAATTATTT
1 AAAACATATACATAAA-TATTT
62871048 ATTTATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAACATATACATAAATATTTTC
Found at i:62888935 original size:20 final size:20
Alignment explanation
Indices: 62888906--62888945 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
62888896 CGGAAAATAA
62888906 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
*
62888926 TTTCTGGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
62888946 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:62888935 original size:34 final size:32
Alignment explanation
Indices: 62888892--62888955 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
62888882 AGTAAAATAT
62888892 TTTTCGGAAAATAATTT-CTAGAAAATGATTTAC
1 TTTTCGGAAAATAATTTACT-GAAAAT-ATTTAC
*
62888925 TTTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTTC-GGAAAATAATTTACTGAAAATATTT
62888956 TCTGGTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 9 0.32
34 17 0.61
35 2 0.07
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (32 bp):
TTTTCGGAAAATAATTTACTGAAAATATTTAC
Found at i:62889076 original size:20 final size:20
Alignment explanation
Indices: 62889051--62889089 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62889041 GTTATTACAT
62889051 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
62889071 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
62889090 TTTTTAAATT
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:62890300 original size:22 final size:24
Alignment explanation
Indices: 62890253--62890302 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
62890243 GTTATCGAAA
62890253 AAACAAAATAATGGATTTTCAAATAT
1 AAACAAAATAATGGATTTT--AATAT
62890279 AAACAAAATAATGG-TTTTATATAT
1 AAACAAAATAATGGATTTTA-ATAT
62890303 TTGTAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 1 0.04
24 4 0.17
25 4 0.17
26 14 0.61
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
AAACAAAATAATGGATTTTAATAT
Found at i:62895604 original size:16 final size:17
Alignment explanation
Indices: 62895566--62895629 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 17
62895556 AAAAAATTTC
62895566 AATAAATA-AATATTAA
1 AATAAATATAATATTAA
62895582 AAT-AATATAATA-TAA
1 AATAAATATAATATTAA
* * *
62895597 TATAAATATATTTTTTTAA
1 AATAAATATA--ATATTAA
*
62895616 AATAAAAATAATAT
1 AATAAATATAATAT
62895630 GGACGGACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
15 9 0.25
16 13 0.36
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAAATATAATATTAA
Found at i:62898543 original size:6 final size:6
Alignment explanation
Indices: 62898532--62898565 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
62898522 AACAGGAATG
* *
62898532 TTTTCA TTTTCA TTTTGA TTTTCA TTTTCG TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
62898566 GTAGCCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:62898555 original size:18 final size:18
Alignment explanation
Indices: 62898532--62898566 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
62898522 AACAGGAATG
62898532 TTTTCATTTTCATTTTGA
1 TTTTCATTTTCATTTTGA
*
62898550 TTTTCATTTTCGTTTTG
1 TTTTCATTTTCATTTTG
62898567 TAGCCACCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTTCATTTTCATTTTGA
Found at i:62910922 original size:25 final size:25
Alignment explanation
Indices: 62910888--62910944 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
62910878 TAAAGACATG
* **
62910888 ATTCTGTATGTCGTCTTTGTAGCGT
1 ATTCTATATGTCACCTTTGTAGCGT
*
62910913 ATTCTATATGTCACCTTTGTAGTGT
1 ATTCTATATGTCACCTTTGTAGCGT
62910938 ATTCTAT
1 ATTCTAT
62910945 TTGTTACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (25 bp):
ATTCTATATGTCACCTTTGTAGCGT
Found at i:62911428 original size:25 final size:25
Alignment explanation
Indices: 62911390--62911443 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 25
62911380 TTTCTTGATT
62911390 AATATTATAAAAATGT-TATTTAATTAA
1 AATATTAT-AAAAT-TATA-TTAATTAA
62911417 AATATTAT-AAATTATATTAATTAA
1 AATATTATAAAATTATATTAATTAA
62911441 AAT
1 AAT
62911444 TAAGATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.46
25 6 0.23
27 8 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
AATATTATAAAATTATATTAATTAA
Found at i:62911453 original size:23 final size:24
Alignment explanation
Indices: 62911405--62911458 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
62911395 TATAAAAATG
* *
62911405 TTAT-TTAATTAAAATATTATAAA
1 TTATATTAATTAAAATATAAGAAA
*
62911428 TTATATTAATTAAAAT-TAAGATA
1 TTATATTAATTAAAATATAAGAAA
62911451 TTATATTA
1 TTATATTA
62911459 TAAGAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATATTAATTAAAATATAAGAAA
Found at i:62911605 original size:11 final size:11
Alignment explanation
Indices: 62911589--62911618 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
62911579 TGAATTAAAT
62911589 ATTATTATATG
1 ATTATTATATG
*
62911600 ATTATTATATT
1 ATTATTATATG
62911611 ATTATTAT
1 ATTATTAT
62911619 TATCTAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
ATTATTATATG
Found at i:62911652 original size:13 final size:13
Alignment explanation
Indices: 62911631--62911678 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
62911621 TCTAATACAT
62911631 AAAAGGAATAAAAG
1 AAAA-GAATAAAAG
62911645 AAAAGAATAAAAG
1 AAAAGAATAAAAG
* *
62911658 AAAAAAAGAAGAAG
1 AAAAGAATAA-AAG
62911672 AAAAGAA
1 AAAAGAA
62911679 ACAGAATAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (13 bp):
AAAAGAATAAAAG
Found at i:62911657 original size:22 final size:22
Alignment explanation
Indices: 62911629--62911673 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
62911619 TATCTAATAC
*
62911629 ATAAAAGGAATAAAAGAA-AAGA
1 ATAAAA-GAAAAAAAGAAGAAGA
62911651 ATAAAAGAAAAAAAGAAGAAGA
1 ATAAAAGAAAAAAAGAAGAAGA
62911673 A
1 A
62911674 AAGAAACAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (22 bp):
ATAAAAGAAAAAAAGAAGAAGA
Found at i:62912384 original size:3 final size:3
Alignment explanation
Indices: 62912376--62912417 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
62912366 GTGACGTAAG
*
62912376 TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62912418 AAAGATGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:62912838 original size:37 final size:39
Alignment explanation
Indices: 62912779--62912874 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
62912769 CGGATAGATT
* * * *
62912779 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
62912816 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
62912855 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
62912875 TTTTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:62914839 original size:24 final size:24
Alignment explanation
Indices: 62914812--62914858 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
62914802 AACCTATAAC
62914812 GGGTAGCTCCAAAAAGCAATTAAT
1 GGGTAGCTCCAAAAAGCAATTAAT
* * *
62914836 GGGTAGCTTCGAAGAGCAATTAA
1 GGGTAGCTCCAAAAAGCAATTAA
62914859 CAGGAAGCAC
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:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (24 bp):
GGGTAGCTCCAAAAAGCAATTAAT
Found at i:62915442 original size:21 final size:21
Alignment explanation
Indices: 62915416--62915455 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
62915406 TATACGATTA
62915416 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTTAATAC
62915437 AATTTACATTCAATTTAAT
1 AATTTACATTCAATTTAAT
62915456 CCAAGTCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTACATTCAATTTAATAC
Found at i:62915466 original size:21 final size:21
Alignment explanation
Indices: 62915425--62915466 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
62915415 AAATTTAACA
* *
62915425 TCAATTTAATACAATTTACAT
1 TCAATTTAATACAAGTCACAT
*
62915446 TCAATTTAATCCAAGTCACAT
1 TCAATTTAATACAAGTCACAT
62915467 CTTATGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (21 bp):
TCAATTTAATACAAGTCACAT
Found at i:62919041 original size:43 final size:44
Alignment explanation
Indices: 62918967--62919057 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 44
62918957 GTATACTTAA
62918967 ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
1 ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
*
62919011 ATAAAGAATG-AAAAAACATCCTATGTGTACAAATAACACTGTT
1 ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
62919054 ATAA
1 ATAA
62919058 TAACATTACT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 36 0.78
44 10 0.22
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (44 bp):
ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
Found at i:62920494 original size:22 final size:24
Alignment explanation
Indices: 62920460--62920505 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
62920450 AAAAAATTTA
* *
62920460 AAAAGTATTAAAATT-T-AAAATT
1 AAAACTATAAAAATTATGAAAATT
62920482 AAAACTATAAAAATTATGAAAATT
1 AAAACTATAAAAATTATGAAAATT
62920506 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAACTATAAAAATTATGAAAATT
Found at i:62920521 original size:19 final size:19
Alignment explanation
Indices: 62920499--62920535 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62920489 TAAAAATTAT
*
62920499 GAAAATTTTTTAAAATATA
1 GAAAATTATTTAAAATATA
*
62920518 GAAAATTATTTGAAATAT
1 GAAAATTATTTAAAATAT
62920536 TATAAAATAT
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:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
GAAAATTATTTAAAATATA
Found at i:62921214 original size:19 final size:19
Alignment explanation
Indices: 62921192--62921237 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
62921182 AAAAAATTGC
*
62921192 AAAATTATGGAAAA-TATTT
1 AAAATTATAGAAAATTA-TT
*
62921211 AAAAATATAGAAAATTATT
1 AAAATTATAGAAAATTATT
62921230 AAAATTAT
1 AAAATTAT
62921238 TAATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
AAAATTATAGAAAATTATT
Found at i:62921262 original size:19 final size:18
Alignment explanation
Indices: 62921207--62921264 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
62921197 TATGGAAAAT
*
62921207 ATTTAAAAATA-TAGAAA
1 ATTTAAAAATATTATAAA
*
62921224 ATTATTAAAATTATTAATAAA
1 A-T-TTAAAAATATT-ATAAA
62921245 ATTTAAAAACTATTATAAA
1 ATTTAAAAA-TATTATAAA
62921264 A
1 A
62921265 AGCATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 20 0.61
20 6 0.18
21 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATTTAAAAATATTATAAA
Found at i:62941669 original size:6 final size:6
Alignment explanation
Indices: 62941658--62941699 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
62941648 AATAATTATA
62941658 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
62941700 AAATCACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:62944192 original size:106 final size:104
Alignment explanation
Indices: 62944006--62944420 Score: 412
Period size: 106 Copynumber: 3.9 Consensus size: 104
62943996 TGTTCCTGTT
* * * * *
62944006 CATCGCCTAGGAAGGGGCACATC-AGGTTCGCATACCCATTATTGCCTACTCGATGTGGACAACA
1 CATCGCCTAGGAA-GGGTACATCAAGGTTTGCATACTCATTATTGCTTACTCGATGTAGACAACA
* *
62944070 TGACCAAAGCATTATATTTCTTTATGTCATTGCTTACTTGTG
65 TGA-CAAAGCATTATATTTCTTCATGTTATTGCTTACTT-TG
* * * * * *
62944112 CATCGCCTAGGAAGGTGTTCGTC-AGTTTTGTATACTCATTACTT-CTTACTTGATGTAGATAAC
1 CATCGCCTAGGAAGG-GTACATCAAGGTTTGCATACTCATTA-TTGCTTACTCGATGTAGACAAC
*
62944175 ATGACAAATGCATTATATTTCTTCATGTTATTGCTTACTCATG
64 ATGACAAA-GCATTATATTTCTTCATGTTATTGCTTACT-TTG
* * * * *
62944218 CATCACCTAGCAAGGGTACATCAAGGTTTGCATGCTCATTATTGCTTACTCAATGTAGACAGCAT
1 CATCGCCTAGGAAGGGTACATCAAGGTTTGCATACTCATTATTGCTTACTCGATGTAGACAACAT
* *
62944283 GACCAAGACATTATATTTCTTCATGTTACTGCTTACTCTTG
66 GACAAAG-CATTATATTTCTTCATGTTATTGCTTACT-TTG
* * * ** *
62944324 GACCGCCTAGGAAGGGATACATTACA--TTTGCATACTCATTGCTGTTTACTC-ATGCT-GACAA
1 CATCGCCTAGGAAGGG-TACATCA-AGGTTTGCATACTCATTATTGCTTACTCGATG-TAGACAA
*
62944385 CATGACCAAGGCATTATATTTCTTCATGTTATTGCT
63 CATGA-CAAAGCATTATATTTCTTCATGTTATTGCT
62944421 CGAGAGTAAG
Statistics
Matches: 257, Mismatches: 41, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
105 50 0.19
106 198 0.77
107 8 0.03
108 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (104 bp):
CATCGCCTAGGAAGGGTACATCAAGGTTTGCATACTCATTATTGCTTACTCGATGTAGACAACAT
GACAAAGCATTATATTTCTTCATGTTATTGCTTACTTTG
Found at i:62950286 original size:25 final size:25
Alignment explanation
Indices: 62950241--62950293 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
62950231 TTTTTTCTGT
* *
62950241 AAAATTTATAAATGTAATATA-TTC
1 AAAATTTACAAATATAATATATTTC
*
62950265 AAAATATTACAAATATATTATATTTC
1 AAAAT-TTACAAATATAATATATTTC
62950291 AAA
1 AAA
62950294 TAATTTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 13 0.54
26 6 0.25
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAATTTACAAATATAATATATTTC
Found at i:62952037 original size:31 final size:31
Alignment explanation
Indices: 62951994--62952054 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
62951984 ATTAACGGCG
*
62951994 AGTGACTAAAATGATAAAAGTATGTAACAAT
1 AGTGACTAAAATGATAAAAGAATGTAACAAT
* *
62952025 AGTGGCTAAAATGATAAGAGAATGTAACAA
1 AGTGACTAAAATGATAAAAGAATGTAACAA
62952055 CAATGCCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.23
Consensus pattern (31 bp):
AGTGACTAAAATGATAAAAGAATGTAACAAT
Found at i:62952065 original size:31 final size:31
Alignment explanation
Indices: 62951999--62952065 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
62951989 CGGCGAGTGA
* * * *
62951999 CTAAAATGATAAAAGTATGTAACAATAGTGG
1 CTAAAATGATAAAAGAATGTAACAACAATGC
*
62952030 CTAAAATGATAAGAGAATGTAACAACAATGC
1 CTAAAATGATAAAAGAATGTAACAACAATGC
62952061 CTAAA
1 CTAAA
62952066 TTGCATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.22
Consensus pattern (31 bp):
CTAAAATGATAAAAGAATGTAACAACAATGC
Found at i:62952842 original size:18 final size:18
Alignment explanation
Indices: 62952819--62952853 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62952809 TTAATATATA
62952819 ATATAATATTTAA-AATTT
1 ATATAAT-TTTAACAATTT
62952837 ATATAATTTTAACAATT
1 ATATAATTTTAACAATT
62952854 ATTTAACTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAATTTTAACAATTT
Found at i:62959312 original size:3 final size:3
Alignment explanation
Indices: 62959304--62959348 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
62959294 AATTATTTTT
62959304 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62959349 AACACGTGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:62971503 original size:39 final size:42
Alignment explanation
Indices: 62971446--62971530 Score: 140
Period size: 39 Copynumber: 2.1 Consensus size: 42
62971436 AGATACTTAA
62971446 ATAAAGAATGAAAAAACATCCTATGCGTACAAATAA-ACTGT
1 ATAAAGAATGAAAAAACATCCTATGCGTACAAATAACACTGT
*
62971487 ATAAAGAA-G-AAAAACATCCTATGTGTACAAATAACACTGT
1 ATAAAGAATGAAAAAACATCCTATGCGTACAAATAACACTGT
62971527 ATAA
1 ATAA
62971531 TAACATTACT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 24 0.57
40 10 0.24
41 8 0.19
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (42 bp):
ATAAAGAATGAAAAAACATCCTATGCGTACAAATAACACTGT
Found at i:62972894 original size:22 final size:24
Alignment explanation
Indices: 62972860--62972905 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
62972850 AAAAAATTTA
* *
62972860 AAAAGTATTAAAATT-T-AAAATT
1 AAAACTATAAAAATTATGAAAATT
62972882 AAAACTATAAAAATTATGAAAATT
1 AAAACTATAAAAATTATGAAAATT
62972906 TTTAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAACTATAAAAATTATGAAAATT
Found at i:62972934 original size:19 final size:18
Alignment explanation
Indices: 62972899--62972934 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
62972889 TAAAAATTAT
62972899 GAAAATTTTTAAAATATA
1 GAAAATTTTTAAAATATA
*
62972917 GAAAATTATTTGAAATAT
1 GAAAATT-TTTAAAATAT
62972935 TATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
GAAAATTTTTAAAATATA
Found at i:62973606 original size:19 final size:19
Alignment explanation
Indices: 62973584--62973629 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
62973574 AAAAAATTGC
*
62973584 AAAATTATGGAAAA-TATTT
1 AAAATTATAGAAAATTA-TT
*
62973603 AAAAATATAGAAAATTATT
1 AAAATTATAGAAAATTATT
62973622 AAAATTAT
1 AAAATTAT
62973630 TAATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
AAAATTATAGAAAATTATT
Found at i:62973654 original size:19 final size:18
Alignment explanation
Indices: 62973599--62973656 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
62973589 TATGGAAAAT
*
62973599 ATTTAAAAATA-TAGAAA
1 ATTTAAAAATATTATAAA
*
62973616 ATTATTAAAATTATTAATAAA
1 A-T-TTAAAAATATT-ATAAA
62973637 ATTTAAAAACTATTATAAA
1 ATTTAAAAA-TATTATAAA
62973656 A
1 A
62973657 AGCATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 20 0.61
20 6 0.18
21 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATTTAAAAATATTATAAA
Found at i:62978834 original size:25 final size:25
Alignment explanation
Indices: 62978800--62978849 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
62978790 GTTTGTCGTG
62978800 GTCTTTATTGATGATATTCTGGTTT
1 GTCTTTATTGATGATATTCTGGTTT
62978825 GTCTTTATTGATGATATTCTGGTTT
1 GTCTTTATTGATGATATTCTGGTTT
62978850 ACTCTAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (25 bp):
GTCTTTATTGATGATATTCTGGTTT
Found at i:62980810 original size:16 final size:16
Alignment explanation
Indices: 62980789--62980856 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
62980779 TTTGGTTCGC
62980789 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62980805 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
62980821 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
62980837 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
62980853 TGTA
1 TGTA
62980857 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62981109 original size:16 final size:16
Alignment explanation
Indices: 62981072--62981113 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62981062 TTAATCATAT
*
62981072 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
62981088 TT-AAATATATTATAA
1 TTAAAATATATTATAA
62981103 TTAAAATATAT
1 TTAAAATATAT
62981114 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:62981120 original size:14 final size:15
Alignment explanation
Indices: 62981081--62981122 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62981071 TTTAAACATA
*
62981081 ATTATTATTAAATAT
1 ATTATAATTAAATAT
62981096 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
62981110 A-TATAATTTAATA
1 ATTATAATTAAATA
62981123 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:62988160 original size:16 final size:16
Alignment explanation
Indices: 62988139--62988173 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
62988129 GTTCAAGTTC
62988139 TAAGTG-TGTTTTGATT
1 TAAGTGTTGTTTTG-TT
62988155 TAAGTGTTGTTTTGTT
1 TAAGTGTTGTTTTGTT
62988171 TAA
1 TAA
62988174 AATTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (16 bp):
TAAGTGTTGTTTTGTT
Found at i:62989391 original size:3 final size:3
Alignment explanation
Indices: 62989385--62989427 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
62989375 AGTAATAATA
62989385 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
62989428 CGACGACGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:62990593 original size:15 final size:15
Alignment explanation
Indices: 62990573--62990680 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
62990563 TTTATGGAAA
62990573 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
62990588 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
62990602 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
62990618 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
62990632 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
62990648 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
62990662 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
62990678 ATC
1 ATC
62990681 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:62990600 original size:30 final size:30
Alignment explanation
Indices: 62990566--62990680 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
62990556 ATCCATATTT
*
62990566 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
62990596 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
62990626 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
62990656 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
62990681 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:62995288 original size:15 final size:15
Alignment explanation
Indices: 62995268--62995345 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
62995258 TTTATGGAAA
62995268 ATCAAATATATGGGT
1 ATCAAATATATGGGT
**
62995283 ATCAAATA-ATGGAA
1 ATCAAATATATGGGT
*
62995297 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
62995313 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
62995327 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
62995343 ATC
1 ATC
62995346 GAGATATTGG
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 9 0.19
15 30 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:62995297 original size:30 final size:30
Alignment explanation
Indices: 62995261--62995345 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
62995251 ATCCATATTT
* *
62995261 ATGGAAAATCAAATATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
62995291 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
62995321 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
62995346 GAGATATTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Done.