Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 31 of 135
Found at i:8073948 original size:37 final size:36
Alignment explanation
Indices: 8073897--8073983 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 36
8073887 GTCATGATTC
* *
8073897 GAAATCGAGTGAACCGTAAAAATGATAGTCGTG-ATAT
1 GAAATCGAGCGAACCGTAAAAATGACAG-C-TGCATAT
*
8073934 GAAATCGAGCGAACCGTAAAAATTACAGCTGCTATAT
1 GAAATCGAGCGAACCGTAAAAATGACAGCTGC-ATAT
8073971 GAAATCGAGCGAA
1 GAAATCGAGCGAA
8073984 TTGTTAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
35 2 0.04
36 1 0.02
37 42 0.93
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (36 bp):
GAAATCGAGCGAACCGTAAAAATGACAGCTGCATAT
Found at i:8074106 original size:68 final size:69
Alignment explanation
Indices: 8074007--8074135 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 69
8073997 GAAGGTTGTG
*
8074007 ATCTTAAATCGAGCGAACCTTAATAACGTCAGCT-ATGAACGTAGGTCAGCAAGTTGTTTGGTGG
1 ATCTTAAATCGAACGAACCTTAATAACGTCAGCTGAT-AACGTAGGTCAGCAAGTTGTTTGGTGG
8074071 CTACA
65 CTACA
** * * * **
8074076 ATCTTAAATC-AACGAGTCTTAATAATGTCAGCTGCTAATGTAGGTCAGTGAGTTGTTTGG
1 ATCTTAAATCGAACGAACCTTAATAACGTCAGCTGATAACGTAGGTCAGCAAGTTGTTTGG
8074136 AAACTGTGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
68 40 0.78
69 11 0.22
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (69 bp):
ATCTTAAATCGAACGAACCTTAATAACGTCAGCTGATAACGTAGGTCAGCAAGTTGTTTGGTGGC
TACA
Found at i:8074434 original size:95 final size:95
Alignment explanation
Indices: 8074267--8074559 Score: 550
Period size: 95 Copynumber: 3.1 Consensus size: 95
8074257 ACTACATATC
*
8074267 ACTATTGAGAGATTCCTTCATTTTTGCTTCTTAAAACTCGCTTCCCATTCTCACTTGTTAACAAT
1 ACTATTGAGAGATTCCTTCCTTTTTGCTTCTTAAAACTCGCTTCCCATTCTCACTTGTTAACAAT
*
8074332 TTGAAAATTTTAATCTAATAATCCGTAATA
66 TTGAAAATTTTAATCTAATAATCCGTGATA
8074362 ACTATTGAGAGATTCCTTCCTTTTTGCTTCTTAAAACTCGCTTCCCATTCTCACTTGTTAACAAT
1 ACTATTGAGAGATTCCTTCCTTTTTGCTTCTTAAAACTCGCTTCCCATTCTCACTTGTTAACAAT
*
8074427 TTTAAAATTTTAATCTAATAATCCGTGATA
66 TTGAAAATTTTAATCTAATAATCCGTGATA
*
8074457 ACTATTGAGAGATTCCTTCCTTTTTGCTTCTTAAAATTCGCTTCCCATTCTCACTTGTTAACAAT
1 ACTATTGAGAGATTCCTTCCTTTTTGCTTCTTAAAACTCGCTTCCCATTCTCACTTGTTAACAAT
8074522 TTGAAAATTTTAATCTAATAATCCGTGATA
66 TTGAAAATTTTAATCTAATAATCCGTGATA
8074552 ACTATTGA
1 ACTATTGA
8074560 TGTAAAATAA
Statistics
Matches: 193, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 193 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (95 bp):
ACTATTGAGAGATTCCTTCCTTTTTGCTTCTTAAAACTCGCTTCCCATTCTCACTTGTTAACAAT
TTGAAAATTTTAATCTAATAATCCGTGATA
Found at i:8080921 original size:22 final size:20
Alignment explanation
Indices: 8080895--8080944 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
8080885 TAAAATTTTG
8080895 ATTTAATCATTTAAAAATTACA
1 ATTTAATCA--TAAAAATTACA
*
8080917 TTTTACTATCATAAAAATTACA
1 ATTTA--ATCATAAAAATTACA
8080939 ATTTAA
1 ATTTAA
8080945 CTTCGTCCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.04
22 19 0.79
24 4 0.17
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTAATCATAAAAATTACA
Found at i:8085262 original size:12 final size:12
Alignment explanation
Indices: 8085245--8085269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8085235 TATTACATTT
8085245 TTACCCTTTTAA
1 TTACCCTTTTAA
8085257 TTACCCTTTTAA
1 TTACCCTTTTAA
8085269 T
1 T
8085270 GGTTTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TTACCCTTTTAA
Found at i:8090790 original size:2 final size:2
Alignment explanation
Indices: 8090783--8090813 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8090773 GCTATAAAAT
8090783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8090814 TTGTATTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8091974 original size:21 final size:21
Alignment explanation
Indices: 8091944--8091985 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8091934 CGTTAATTTA
*
8091944 GTTTAATGATTTTGA-AAATG
1 GTTTAATGATATTGAGAAATG
8091964 GTTTATATGATATTGAGAAATG
1 GTTTA-ATGATATTGAGAAATG
8091986 ATATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (21 bp):
GTTTAATGATATTGAGAAATG
Found at i:8093825 original size:16 final size:15
Alignment explanation
Indices: 8093798--8093837 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
8093788 TATCACAAGA
*
8093798 ATTTTAATTTTTTTAT
1 ATTTT-ATTTTTTAAT
8093814 ATATTTATTTTTTAAT
1 AT-TTTATTTTTTAAT
8093830 ATTTTATT
1 ATTTTATT
8093838 ATATTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 13 0.59
17 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTATTTTTTAAT
Found at i:8094701 original size:23 final size:23
Alignment explanation
Indices: 8094675--8094722 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
8094665 ATCAATTATT
* * *
8094675 TATTAACTAAAATAGGAATTCAC
1 TATTAACCAAAAAAAGAATTCAC
*
8094698 TATTCACCAAAAAAAGAATTCAC
1 TATTAACCAAAAAAAGAATTCAC
8094721 TA
1 TA
8094723 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (23 bp):
TATTAACCAAAAAAAGAATTCAC
Found at i:8100995 original size:30 final size:31
Alignment explanation
Indices: 8100943--8101000 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8100933 GATTAATAAA
*
8100943 TTATTCAAAAGTTTACATTTAAGTCATTAGG
1 TTATTCAAAAGTTTACATTTAAGGCATTAGG
*
8100974 TTATTCAAAAGTTT-TATTTAAGGCATT
1 TTATTCAAAAGTTTACATTTAAGGCATT
8101001 TGATTGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (31 bp):
TTATTCAAAAGTTTACATTTAAGGCATTAGG
Found at i:8109100 original size:40 final size:40
Alignment explanation
Indices: 8109045--8109146 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
8109035 ATCAGTGCTA
* * *
8109045 ACAGTCTCACAGCTAGTACAGTAATGTCATCGTAGCGTTT
1 ACAGTCTCACTGCTAGTTCAGTAATGTCATCGCAGCGTTT
* * * * *
8109085 ACAGTTTCACTGCTAGTTCAGTAGTGTTATTGCAGTGTTT
1 ACAGTCTCACTGCTAGTTCAGTAATGTCATCGCAGCGTTT
* *
8109125 ACAATGTCACTGCTAGTTCAGT
1 ACAGTCTCACTGCTAGTTCAGT
8109147 GAGATGGTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
ACAGTCTCACTGCTAGTTCAGTAATGTCATCGCAGCGTTT
Found at i:8113333 original size:13 final size:13
Alignment explanation
Indices: 8113332--8113372 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8113322 ACTTTGACCG
8113332 TTGACCGTTGAC-
1 TTGACCGTTGACT
*
8113344 TTGAACTGTTGACT
1 TTG-ACCGTTGACT
8113358 TTGACCGTTGACT
1 TTGACCGTTGACT
8113371 TT
1 TT
8113373 TTCCGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:8114457 original size:3 final size:3
Alignment explanation
Indices: 8114412--8114440 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8114402 ACAAATTTAC
8114412 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8114441 TTGATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:8122781 original size:23 final size:23
Alignment explanation
Indices: 8122755--8122801 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8122745 AAAATTATTT
*
8122755 TATTAAATTTAAATTCATTACAA
1 TATTAAATTCAAATTCATTACAA
* *
8122778 TATTAAATTCAAGTTTATTACAA
1 TATTAAATTCAAATTCATTACAA
8122801 T
1 T
8122802 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTAAATTCAAATTCATTACAA
Found at i:8127662 original size:11 final size:11
Alignment explanation
Indices: 8127628--8127671 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
8127618 AAGATTGATA
8127628 TTTTTAATTCAT
1 TTTTTAATT-AT
*
8127640 TATTTAAATTAT
1 T-TTTTAATTAT
8127652 TTTTTAATTAT
1 TTTTTAATTAT
8127663 TTTTTAATT
1 TTTTTAATT
8127672 CATTATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 18 0.62
12 4 0.14
13 7 0.24
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTAATTAT
Found at i:8129653 original size:37 final size:36
Alignment explanation
Indices: 8129563--8129657 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 36
8129553 GTTAGCAAAT
*
8129563 AATT-TTAAAATTATTAAAATTATTTTTGAAATATAA
1 AATTATTAAAATTATT-ATATTATTTTTGAAATATAA
8129599 AATTATTAAAATTATTATATTATATTTTGAAATATGAA
1 AATTATTAAAATTATTATATTAT-TTTTGAAATAT-AA
8129637 AA-TATTAAAATTATTATATTA
1 AATTATTAAAATTATTATATTA
8129658 AAATCTAGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
36 10 0.18
37 41 0.75
38 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (36 bp):
AATTATTAAAATTATTATATTATTTTTGAAATATAA
Found at i:8130346 original size:27 final size:27
Alignment explanation
Indices: 8130297--8130354 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
8130287 AAAATCTTCA
*
8130297 AAATCAAAAACCCTAAACACAAATTCCC
1 AAATCAAAAACCCTAAACACAAA-CCCC
* * *
8130325 AAATC-AAAACCCTTACCCCAAACCCC
1 AAATCAAAAACCCTAAACACAAACCCC
8130351 AAAT
1 AAAT
8130355 TCAACAACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (27 bp):
AAATCAAAAACCCTAAACACAAACCCC
Found at i:8131776 original size:30 final size:31
Alignment explanation
Indices: 8131703--8131783 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
8131693 AAATGTATAG
*
8131703 TAAGTAGAG-GACTGTTTTGTCACTTTTCGA
1 TAAGTTGAGTGACTGTTTTGTCACTTTTCGA
* *
8131733 TAACTTTAGTGACTGTTTTGTCACATTTTC-A
1 TAAGTTGAGTGACTGTTTTGTCAC-TTTTCGA
8131764 -AAGTTGAGTGACTGTTTTGT
1 TAAGTTGAGTGACTGTTTTGT
8131784 TAAATGTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
30 24 0.55
31 15 0.34
32 5 0.11
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.44
Consensus pattern (31 bp):
TAAGTTGAGTGACTGTTTTGTCACTTTTCGA
Found at i:8132061 original size:38 final size:39
Alignment explanation
Indices: 8132019--8132102 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 39
8132009 GTAACATTCT
*
8132019 ATTTTAATAATTTTATATTTCAAAATAATAATCT-AATA
1 ATTTTAATAATTTTATATTTCAAAAAAATAATCTAAATA
* * *
8132057 ATTTTAATGATTTTTTATTTCAAAAAAATAATTTAAATA
1 ATTTTAATAATTTTATATTTCAAAAAAATAATCTAAATA
8132096 ATTTTAA
1 ATTTTAA
8132103 AATCACTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 30 0.73
39 11 0.27
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (39 bp):
ATTTTAATAATTTTATATTTCAAAAAAATAATCTAAATA
Found at i:8132324 original size:2 final size:2
Alignment explanation
Indices: 8132317--8132362 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
8132307 CATTATGCCT
* *
8132317 TA TA TA TA TA TA TA TA T- TA TA GA TA GA T- TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8132356 TA TA TA T
1 TA TA TA T
8132363 GATCTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8132360 original size:11 final size:11
Alignment explanation
Indices: 8132317--8132390 Score: 71
Period size: 11 Copynumber: 6.7 Consensus size: 11
8132307 CATTATGCCT
8132317 TATATA-TATA
1 TATATATTATA
8132327 TATATATTATA
1 TATATATTATA
* *
8132338 GATAGATTATA
1 TATATATTATA
8132349 TATATATTATA
1 TATATATTATA
* *
8132360 TATGATCTAATA
1 TAT-ATATTATA
*
8132372 TAATACATTA-A
1 T-ATATATTATA
8132383 TATATATT
1 TATATATT
8132391 TTTAAAAAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
10 12 0.24
11 27 0.53
12 10 0.20
13 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (11 bp):
TATATATTATA
Found at i:8133373 original size:7 final size:7
Alignment explanation
Indices: 8133361--8133387 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8133351 ATATAAGTAC
8133361 ATCCCAA
1 ATCCCAA
8133368 ATCCCAA
1 ATCCCAA
8133375 ATCCCAA
1 ATCCCAA
8133382 ATCCCA
1 ATCCCA
8133388 CAAAACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (7 bp):
ATCCCAA
Found at i:8135318 original size:6 final size:6
Alignment explanation
Indices: 8135309--8135349 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
8135299 TACGTATACA
* *
8135309 TATATG TATATG TATACG --TATG TACATG TATATG TATATG T
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG T
8135350 TTATATTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.10
6 26 0.90
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (6 bp):
TATATG
Found at i:8135332 original size:16 final size:16
Alignment explanation
Indices: 8135311--8135345 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8135301 CGTATACATA
*
8135311 TATGTATATGTATACG
1 TATGTACATGTATACG
*
8135327 TATGTACATGTATATG
1 TATGTACATGTATACG
8135343 TAT
1 TAT
8135346 ATGTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTACATGTATACG
Found at i:8140664 original size:43 final size:43
Alignment explanation
Indices: 8140595--8140679 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
8140585 TATGAGGAAG
* * * *
8140595 TCTTCAGCGGCGCTTTTCCCACAAACGCCGTTAAAGACCATGT
1 TCTTCAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACATGT
*
8140638 TCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACATG
1 TCTTCAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACATG
8140680 AAACGCCGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
TCTTCAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACATGT
Found at i:8140685 original size:20 final size:20
Alignment explanation
Indices: 8140660--8140700 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8140650 CTTTCCCCAA
8140660 AAACGCCGCTAAAGAACATG
1 AAACGCCGCTAAAGAACATG
8140680 AAACGCCGCTAAAGAACATG
1 AAACGCCGCTAAAGAACATG
8140700 A
1 A
8140701 TCTTTAGCGA
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:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (20 bp):
AAACGCCGCTAAAGAACATG
Found at i:8141983 original size:20 final size:19
Alignment explanation
Indices: 8141958--8142000 Score: 77
Period size: 20 Copynumber: 2.2 Consensus size: 19
8141948 TCAAAGCAAC
8141958 AAAAATGCATAGATTAACCA
1 AAAAATGCATAGATTAA-CA
8141978 AAAAATGCATAGATTAACA
1 AAAAATGCATAGATTAACA
8141997 AAAA
1 AAAA
8142001 GTATAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (19 bp):
AAAAATGCATAGATTAACA
Found at i:8145910 original size:41 final size:41
Alignment explanation
Indices: 8145703--8146019 Score: 333
Period size: 41 Copynumber: 7.8 Consensus size: 41
8145693 TATATTAAAC
* * *
8145703 TAGCGGCGCTTATG-GAAAAGCGTCGCTAATG-CAC-ACCTT
1 TAGCGGCGCTTGTGAG-AAAGCGCCGCTAATGACCCGACCTT
* * * *
8145742 TAGCGGCGCTTATTACAAAAGCGCCGCTAATGACCTGACCTT
1 TAGCGGCGCTTGTGA-GAAAGCGCCGCTAATGACCCGACCTT
* * *
8145784 TAGCGGCGCTTTTTATATAAGCGCCGCTAATGACCCGACCTT
1 TAGCGGCGCTTGTGAGA-AAGCGCCGCTAATGACCCGACCTT
* * *
8145826 TAACGGCGCTTGTGAG-AAGCCCCGTTAATGACCCGACCTT
1 TAGCGGCGCTTGTGAGAAAGCGCCGCTAATGACCCGACCTT
* *
8145866 TAGCGGCGCTTGTGAGAAAGCGCCGCTAATGACTCGACCAT
1 TAGCGGCGCTTGTGAGAAAGCGCCGCTAATGACCCGACCTT
* *
8145907 TAGCGGCGCTT-TGGGTAAAGTGCCGCTAATGACCCGACCTT
1 TAGCGGCGCTTGTGAG-AAAGCGCCGCTAATGACCCGACCTT
* * * * *
8145948 TAGCGGTGCTTGGGGGAAAGCGCCGCTAATGACTCAACCTT
1 TAGCGGCGCTTGTGAGAAAGCGCCGCTAATGACCCGACCTT
8145989 TAGCGGCGCATTAG-GA-AAAGCGCCGCTAATG
1 TAGCGGCGC-TT-GTGAGAAAGCGCCGCTAATG
8146020 CTTTACCTTT
Statistics
Matches: 238, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
39 13 0.05
40 54 0.23
41 110 0.46
42 60 0.25
43 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.23
Consensus pattern (41 bp):
TAGCGGCGCTTGTGAGAAAGCGCCGCTAATGACCCGACCTT
Found at i:8146055 original size:123 final size:120
Alignment explanation
Indices: 8145706--8146058 Score: 342
Period size: 123 Copynumber: 2.9 Consensus size: 120
8145696 ATTAAACTAG
* * *
8145706 CGGCGCTTATGGA-AAAGCGTCGCTAATG-CACACCTTTAGCGGCGCTTATTA-CAAAAGCGCCG
1 CGGCGCTT-GGGAGAAAGCGCCGCTAATGACACACCTTTAGCGGCGC--ATTAGGAAAAGCGCCG
*
8145768 CTAATGACCTGACCTTTAGCGGCGCTTTTTATATAAGCGCCGCTAATGACCCGACCTTTAA
63 CTAATGACTTGACCTTTAGCGGCGCTTTTT-TA-AA-CGCCGCTAATGACCCGACCTTTAA
* * * *
8145829 CGGCGCTTGTGAG-AAGCCCCGTTAATGACCCGACCTTTAGCGGCGC-TT-GTGAGAAAGCGCCG
1 CGGCGCTTGGGAGAAAGCGCCGCTAATGACAC-ACCTTTAGCGGCGCATTAG-GA-AAAGCGCCG
* * ** * *
8145891 CTAATGACTCGACCATTAGCGGCGCTTTGGGTAAAGTGCCGCTAATGACCCGACCTTTAG
63 CTAATGACTTGACCTTTAGCGGCGCTTT-TTTAAA-CGCCGCTAATGACCCGACCTTTAA
* * *
8145951 CGGTGCTTGGGGGAAAGCGCCGCTAATGACTCAACCTTTAGCGGCGCATTAGGAAAAGCGCCGCT
1 CGGCGCTTGGGAGAAAGCGCCGCTAATGACAC-ACCTTTAGCGGCGCATTAGGAAAAGCGCCGCT
* * *
8146016 AATG-CTTTACCTTTTGTGGCGCTTTATTTCCAAACGCCGCTAA
65 AATGACTTGACCTTTAGCGGCGCTTT-TTT--AAACGCCGCTAA
8146059 AAATGCCGCT
Statistics
Matches: 188, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
121 2 0.01
122 66 0.35
123 98 0.52
124 21 0.11
125 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.24
Consensus pattern (120 bp):
CGGCGCTTGGGAGAAAGCGCCGCTAATGACACACCTTTAGCGGCGCATTAGGAAAAGCGCCGCTA
ATGACTTGACCTTTAGCGGCGCTTTTTTAAACGCCGCTAATGACCCGACCTTTAA
Found at i:8146160 original size:2 final size:2
Alignment explanation
Indices: 8146155--8146181 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8146145 ACACACACAC
8146155 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8146182 AAATAGCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8146977 original size:21 final size:22
Alignment explanation
Indices: 8146945--8147004 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
8146935 GATGCATGGG
*
8146945 AGAGG-AGTAAGAAGAAGCTGA-
1 AGAGGAAG-AAGAAGAAGATGAC
*
8146966 AGAGGAAGAAGAATAAGATGAC
1 AGAGGAAGAAGAAGAAGATGAC
*
8146988 A-AGGAAGAAGAACAAGA
1 AGAGGAAGAAGAAGAAGA
8147005 AGAGGCAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAGGAAGAAGAAGAAGATGAC
Found at i:8149603 original size:38 final size:38
Alignment explanation
Indices: 8149531--8149603 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
8149521 AGCATGTAGG
* * *
8149531 CCATTTTAATGGTGTCGCTCCGAAGAGCCTATAGATAA
1 CCATTTTAATGGTATCGCTCCGAAGAGACAATAGATAA
*
8149569 CCATTTTCATGGTATCGCTCCGAAGAGACAATAGA
1 CCATTTTAATGGTATCGCTCCGAAGAGACAATAGA
8149604 CTATCTCCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (38 bp):
CCATTTTAATGGTATCGCTCCGAAGAGACAATAGATAA
Found at i:8169595 original size:29 final size:29
Alignment explanation
Indices: 8169542--8169802 Score: 160
Period size: 29 Copynumber: 8.9 Consensus size: 29
8169532 CCCAAAAGGT
* *
8169542 CCCCAAACTT-TCCAAAATTATATTTTAC
1 CCCCAAACTTCTCAAAAATTACATTTTAC
* *
8169570 CCCTAAACTTCTTAAAAATTACATTTTCAC
1 CCCCAAACTTCTCAAAAATTACATTTT-AC
* * *
8169600 CCCCGAAGTTCTTC-AAAATAACATTTTCAC
1 CCCCAAACTTC-TCAAAAATTACATTTT-AC
* * * *
8169630 CCTCGAA-TCTCTCCAAAATTACATTTTTGC
1 CCCCAAACT-TCTCAAAAATTACA-TTTTAC
* *
8169660 CCCCAAACTTC-CAAAAGTCACATTTTTAC
1 CCCCAAACTTCTCAAAAATTACA-TTTTAC
* *
8169689 CCCCGAACTT-TCAAAAATCACATTTTTAC
1 CCCCAAACTTCTCAAAAATTACA-TTTTAC
* * *
8169718 TCCCAAACTT-TCAAAAATCATATTTTGAC
1 CCCCAAACTTCTCAAAAATTACATTTT-AC
* * * *
8169747 CCCCGAACTTTTCCAAAATTACCATCTTAC
1 CCCCAAACTTCTCAAAAATTA-CATTTTAC
* *
8169777 CCCTAAAC--ATCAAAAATTACCATTTT
1 CCCCAAACTTCTCAAAAATTA-CATTTT
8169803 GCCCTTTAAC
Statistics
Matches: 188, Mismatches: 34, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
28 28 0.15
29 85 0.45
30 65 0.35
31 10 0.05
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (29 bp):
CCCCAAACTTCTCAAAAATTACATTTTAC
Found at i:8169612 original size:30 final size:30
Alignment explanation
Indices: 8169542--8169768 Score: 162
Period size: 29 Copynumber: 7.7 Consensus size: 30
8169532 CCCAAAAGGT
* * *
8169542 CCCCAAACTT-TCCAAAATTATATTTT-AC
1 CCCCGAACTTCTCAAAAATTACATTTTCAC
** *
8169570 CCCTAAACTTCTTAAAAATTACATTTTCAC
1 CCCCGAACTTCTCAAAAATTACATTTTCAC
* *
8169600 CCCCGAAGTTCTTC-AAAATAACATTTTCAC
1 CCCCGAACTTC-TCAAAAATTACATTTTCAC
* * **
8169630 CCTCGAA-TCTCTCCAAAATTACATTTTTGC
1 CCCCGAACT-TCTCAAAAATTACATTTTCAC
* * * *
8169660 CCCCAAACTTC-CAAAAGTCACATTTTTAC
1 CCCCGAACTTCTCAAAAATTACATTTTCAC
* *
8169689 CCCCGAACTT-TCAAAAATCACATTTTTAC
1 CCCCGAACTTCTCAAAAATTACATTTTCAC
* * * * *
8169718 TCCCAAACTT-TCAAAAATCATATTTTGAC
1 CCCCGAACTTCTCAAAAATTACATTTTCAC
* *
8169747 CCCCGAACTTTTCCAAAATTAC
1 CCCCGAACTTCTCAAAAATTAC
8169769 CATCTTACCC
Statistics
Matches: 161, Mismatches: 30, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
28 9 0.06
29 89 0.55
30 61 0.38
31 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.33
Consensus pattern (30 bp):
CCCCGAACTTCTCAAAAATTACATTTTCAC
Found at i:8169685 original size:28 final size:27
Alignment explanation
Indices: 8169542--8169859 Score: 107
Period size: 29 Copynumber: 10.9 Consensus size: 27
8169532 CCCAAAAGGT
* * *
8169542 CCCCAAACTTTCCAAAATTATATTTTAC
1 CCCCAAAC-TTCCAAAATCACATTTTGC
* * * *
8169570 CCCTAAACTTCTTAAAAATTACATTTTCAC
1 CCCCAAACTTC--CAAAATCACATTTT-GC
* * *
8169600 CCCCGAAGTTCTTCAAAATAACATTTT-C
1 CCCCAAACTTC--CAAAATCACATTTTGC
* *
8169628 ACCCTCGAATCTCTCCAAAATTACATTTTTGC
1 -CCC-C-AAACT-TCCAAAATCACA-TTTTGC
*
8169660 CCCCAAACTTCCAAAAGTCACATTTTTAC
1 CCCCAAACTTCCAAAA-TCACA-TTTTGC
* * *
8169689 CCCCGAACTTTCAAAAATCACATTTTTAC
1 CCCCAAAC-TTCCAAAATCACA-TTTTGC
* * *
8169718 TCCCAAACTTTCAAAAATCATATTTTGAC
1 CCCCAAAC-TTCCAAAATCACATTTTG-C
* * * *
8169747 CCCCGAACTTTTCCAAAATTACCATCTTAC
1 CCCCAAAC--TTCCAAAATCA-CATTTTGC
* * * *
8169777 CCCTAAACATCAAAAATTACCATTTTGC
1 CCCCAAACTTCCAAAATCA-CATTTTGC
*** * *
8169805 CCTTTAACATCCGAAAATTATCATTTTGC
1 CCCCAAACTTCC-AAAATCA-CATTTTGC
* *
8169834 CCTCAAATTTCCAAAAGTCACATTTT
1 CCCCAAACTTCCAAAA-TCACATTTT
8169860 CGACCTCAAA
Statistics
Matches: 231, Mismatches: 43, Indels: 32
0.75 0.14 0.10
Matches are distributed among these distances:
27 3 0.01
28 54 0.23
29 99 0.43
30 59 0.26
31 13 0.06
32 3 0.01
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (27 bp):
CCCCAAACTTCCAAAATCACATTTTGC
Found at i:8169715 original size:58 final size:57
Alignment explanation
Indices: 8169542--8169768 Score: 195
Period size: 58 Copynumber: 3.9 Consensus size: 57
8169532 CCCAAAAGGT
* * ** * *
8169542 CCCCAAACTTTCCAAAATTATA-TTTTACCCCTAAACTTCTTAAAAATTACATTTTCAC
1 CCCCAAAC-TTCCAAAATCACATTTTTACCCCCGAACTT-TCAAAAATTACATTTTTAC
* * * * * * * *
8169600 CCCCGAAGTTCTTCAAAATAACATTTTCACCCTCGAATCTCTCCAAAATTACATTTTTGC
1 CCCCAAACTTC--CAAAATCACATTTTTACCCCCGAA-CTTTCAAAAATTACATTTTTAC
*
8169660 CCCCAAACTTCCAAAAGTCACATTTTTACCCCCGAACTTTCAAAAATCACATTTTTAC
1 CCCCAAACTTCCAAAA-TCACATTTTTACCCCCGAACTTTCAAAAATTACATTTTTAC
* * * * *
8169718 TCCCAAACTTTCAAAAATCATATTTTGACCCCCGAACTTTTCCAAAATTAC
1 CCCCAAAC-TTCCAAAATCACATTTTTACCCCCGAAC-TTTCAAAAATTAC
8169769 CATCTTACCC
Statistics
Matches: 134, Mismatches: 28, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
57 3 0.02
58 54 0.40
59 42 0.31
60 33 0.25
61 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.33
Consensus pattern (57 bp):
CCCCAAACTTCCAAAATCACATTTTTACCCCCGAACTTTCAAAAATTACATTTTTAC
Found at i:8169822 original size:29 final size:28
Alignment explanation
Indices: 8169761--8169836 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
8169751 GAACTTTTCC
* * *
8169761 AAAATTACCATCTTACCCCTAAACATCA
1 AAAATTACCATTTTGCCCTTAAACATCA
* *
8169789 AAAATTACCATTTTGCCCTTTAACATCCG
1 AAAATTACCATTTTGCCCTTAAACAT-CA
*
8169818 AAAATTATCATTTTGCCCT
1 AAAATTACCATTTTGCCCT
8169837 CAAATTTCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCTTAAACATCA
Found at i:8169930 original size:31 final size:31
Alignment explanation
Indices: 8169870--8169931 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
8169860 CGACCTCAAA
* *
8169870 TTTTCAAAATGCTCGATTTTAATCCCAAATT
1 TTTTAAAAATGCTCAATTTTAATCCCAAATT
*
8169901 TTTTAAAAAT-CTCAATTTTGATCCGCAAATT
1 TTTTAAAAATGCTCAATTTTAATCC-CAAATT
8169932 CCTCAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (31 bp):
TTTTAAAAATGCTCAATTTTAATCCCAAATT
Found at i:8171453 original size:40 final size:40
Alignment explanation
Indices: 8171408--8171488 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
8171398 GGATGTTTAC
8171408 CCATATATACTATAGTATTGCATGTTAATTGAAAAAGGGT
1 CCATATATACTATAGTATTGCATGTTAATTGAAAAAGGGT
8171448 CCATATATACTATAGTATTGCATGTTAATTGAAAAAGGGT
1 CCATATATACTATAGTATTGCATGTTAATTGAAAAAGGGT
8171488 C
1 C
8171489 TAACTAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (40 bp):
CCATATATACTATAGTATTGCATGTTAATTGAAAAAGGGT
Found at i:8171963 original size:17 final size:17
Alignment explanation
Indices: 8171941--8171989 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
8171931 ATTAAAAATG
8171941 GCCCACAAAAAATTTGA
1 GCCCACAAAAAATTTGA
* *
8171958 GCCCACCAAAAATTGGA
1 GCCCACAAAAAATTTGA
*
8171975 -CTTCACAAAAAATTT
1 GC-CCACAAAAAATTT
8171990 ATAAATAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.20
Consensus pattern (17 bp):
GCCCACAAAAAATTTGA
Found at i:8177988 original size:3 final size:3
Alignment explanation
Indices: 8177980--8178043 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
8177970 AGTAATAGTT
8177980 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
8178028 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
8178044 GCAACATATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8181059 original size:14 final size:14
Alignment explanation
Indices: 8181030--8181067 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
8181020 TGGGATAACT
*
8181030 TTTAATGTTAGTTA
1 TTTAATTTTAGTTA
8181044 TTTAGATTTTAG-TA
1 TTTA-ATTTTAGTTA
8181058 TTTAATTTTA
1 TTTAATTTTA
8181068 ATTTACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (14 bp):
TTTAATTTTAGTTA
Found at i:8182113 original size:19 final size:18
Alignment explanation
Indices: 8182074--8182116 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
8182064 TTTTTTTTTA
8182074 ATTTTT-ATTTTTTAAAT
1 ATTTTTAATTTTTTAAAT
*
8182091 -TTTTTAATTTTATTTAAT
1 ATTTTTAATTTT-TTAAAT
8182109 ATTTTTAA
1 ATTTTTAA
8182117 AAATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 5 0.23
19 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTAATTTTTTAAAT
Found at i:8182129 original size:21 final size:21
Alignment explanation
Indices: 8182096--8182142 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
8182086 TAAATTTTTT
* *
8182096 AATTTTATTTAATATTTTTAAA
1 AATTTTATATAAT-GTTTTAAA
*
8182118 AATTTTA-ATAATGTTTTACA
1 AATTTTATATAATGTTTTAAA
8182138 AATTT
1 AATTT
8182143 ATAAATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 11 0.50
21 4 0.18
22 7 0.32
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTTTATATAATGTTTTAAA
Found at i:8182435 original size:6 final size:6
Alignment explanation
Indices: 8182415--8182501 Score: 84
Period size: 6 Copynumber: 16.0 Consensus size: 6
8182405 ACCAAACCAT
*
8182415 TTTAAA TTT-AT TTTAAA TTTAAA TTT--A -TTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
8182457 -TTAAA TTTAAA TTT-AA TTTAAA TTTGGA TTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
8182502 ATTATTATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
3 4 0.06
4 2 0.03
5 15 0.22
6 46 0.69
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:8182437 original size:17 final size:16
Alignment explanation
Indices: 8182415--8182517 Score: 129
Period size: 17 Copynumber: 6.3 Consensus size: 16
8182405 ACCAAACCAT
8182415 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
8182432 TTTAAATTTA-TTAAA
1 TTTAAATTTATTTAAA
8182447 TTTAAATTTA-TTAAA
1 TTTAAATTTATTTAAA
8182462 TTTAAATTTAATTTAAA
1 TTTAAATTT-ATTTAAA
**
8182479 TTTGGATTTAATTTAAA
1 TTTAAATTT-ATTTAAA
*
8182496 TTTAAAATTATTATAAA
1 TTTAAATTTATT-TAAA
8182513 TTTAA
1 TTTAA
8182518 TAAAATACAA
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
15 29 0.37
16 4 0.05
17 45 0.58
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:8182476 original size:11 final size:11
Alignment explanation
Indices: 8182415--8182500 Score: 74
Period size: 11 Copynumber: 8.0 Consensus size: 11
8182405 ACCAAACCAT
*
8182415 TTTAAATTTAT
1 TTTAAATTTAA
8182426 TTTAAATTTAAA
1 TTTAAATTT-AA
*
8182438 TTT--ATTAAA
1 TTTAAATTTAA
8182447 TTTAAATTT-A
1 TTTAAATTTAA
8182457 -TTAAATTTAAA
1 TTTAAATTT-AA
8182468 TTT-AATTTAAA
1 TTTAAATTT-AA
**
8182479 TTTGGATTTAA
1 TTTAAATTTAA
8182490 TTTAAATTTAA
1 TTTAAATTTAA
8182501 AATTATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
9 13 0.21
10 4 0.06
11 35 0.56
12 10 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:8183172 original size:3 final size:3
Alignment explanation
Indices: 8183166--8183195 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8183156 CAACATTAAT
8183166 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8183196 GAAGAAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8183869 original size:10 final size:10
Alignment explanation
Indices: 8183854--8183881 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
8183844 CCATTGACCT
8183854 GACCCGATTC
1 GACCCGATTC
8183864 GACCCGATTC
1 GACCCGATTC
8183874 GACCCGAT
1 GACCCGAT
8183882 GGACCCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.39, G:0.21, T:0.18
Consensus pattern (10 bp):
GACCCGATTC
Found at i:8184309 original size:30 final size:30
Alignment explanation
Indices: 8184272--8184517 Score: 268
Period size: 30 Copynumber: 8.2 Consensus size: 30
8184262 TGGACTGTCC
*
8184272 AAAAATTATATTTTGACCTTAAAACTTTTT
1 AAAAATTATATTTTGACCCTAAAACTTTTT
* * * * *
8184302 GAAAATTACATCTTAACCCCT-AAACTTTTC
1 AAAAATTATATTTTGA-CCCTAAAACTTTTT
* *
8184332 CAAAATTATATCTTGACCCTAAAA-TTTTCT
1 AAAAATTATATTTTGACCCTAAAACTTTT-T
8184362 AAAAATTATATTTTGACCCTAAAACTTTTT
1 AAAAATTATATTTTGACCCTAAAACTTTTT
* *
8184392 AAAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAAATTATATTTTGACCCTAAAACTTTT-T
* *
8184423 -AAAATTATATTTTAACCCTAAAAACTTTCT
1 AAAAATTATATTTTGACCCT-AAAACTTTTT
*
8184453 AAAAATTACATTTTGACCCCT-AAAC-TTTT
1 AAAAATTATATTTTGA-CCCTAAAACTTTTT
* * *
8184482 CAAAATTATATTTTGACCCCAAAACTTTCT
1 AAAAATTATATTTTGACCCTAAAACTTTTT
8184512 AAAAAT
1 AAAAAT
8184518 ACCATTTTAC
Statistics
Matches: 182, Mismatches: 24, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
28 3 0.02
29 29 0.16
30 117 0.64
31 29 0.16
32 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAAATTATATTTTGACCCTAAAACTTTTT
Found at i:8184526 original size:90 final size:90
Alignment explanation
Indices: 8184272--8184515 Score: 332
Period size: 90 Copynumber: 2.7 Consensus size: 90
8184262 TGGACTGTCC
* * * * *
8184272 AAAAATTATATTTTGACCTTAAAACTTTTTGAAAATTACATCTTAACCCCTAAACTTTTCCAAAA
1 AAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTACATTTTAACCCCAAAACTTTTCTAAAA
* * *
8184337 TTATATCTTGACCCTAAAATTTTCT
66 TTATATTTTAACCCTAAAACTTTCT
*
8184362 AAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTACATTTTAACCCTAAAACTTTTCTAAAA
1 AAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTACATTTTAACCCCAAAACTTTTCTAAAA
8184427 TTATATTTTAACCCTAAAAACTTTCT
66 TTATATTTTAACCCT-AAAACTTTCT
* * * *
8184453 AAAAATTACATTTTGACCCCT-AAAC-TTTTCAAAATTATATTTTGACCCCAAAAC-TTTCTAAA
1 AAAAATTATATTTTGA-CCCTAAAACTTTTTAAAAATTACATTTTAACCCCAAAACTTTTCTAAA
8184515 A
65 A
8184516 ATACCATTTT
Statistics
Matches: 138, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
89 9 0.07
90 97 0.70
91 28 0.20
92 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.39
Consensus pattern (90 bp):
AAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTACATTTTAACCCCAAAACTTTTCTAAAA
TTATATTTTAACCCTAAAACTTTCT
Found at i:8184549 original size:29 final size:29
Alignment explanation
Indices: 8184273--8184558 Score: 196
Period size: 30 Copynumber: 9.6 Consensus size: 29
8184263 GGACTGTCCA
* ** **
8184273 AAAATTATATTTTGACCTTAAAACTTTTTG
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
* * *
8184303 AAAATTACATCTTAACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
* * * * *
8184333 AAAATTATATCTTGACCCTAAAATTTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTC-C
* * **
8184363 AAAATTATATTTTGACCCTAAAACTTTTTA
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
* * *
8184393 AAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAAC-TTTCC
* * * *
8184423 AAAATTATATTTTAACCCTAAAAACTTTCTA
1 AAAATTACATTTTGACCC-CAAAACTTTC-C
* *
8184454 AAAATTACATTTTGACCCCTAAACTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTCC
* *
8184483 AAAATTATATTTTGACCCCAAAACTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTCC
* * *
8184512 AAAAATACCATTTT-ACCCCCAACCTTTCC
1 AAAATTA-CATTTTGACCCCAAAACTTTCC
*
8184541 AAAATTACCGTTTTGACC
1 AAAATTA-CATTTTGACC
8184559 TCGATTTCAC
Statistics
Matches: 209, Mismatches: 41, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
29 59 0.28
30 126 0.60
31 24 0.11
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAAACTTTCC
Found at i:8184600 original size:29 final size:29
Alignment explanation
Indices: 8184541--8184603 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
8184531 CAACCTTTCC
*
8184541 AAAATTACCGTTTTGACCTCGATTTCACCA
1 AAAATTACCGTTTTGACCTCGATAT-ACCA
8184571 AAAATTACCGTTTT-ACCCTCGAGTAT-CCA
1 AAAATTACCGTTTTGA-CCTCGA-TATACCA
8184600 AAAA
1 AAAA
8184604 GTATCATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 8 0.27
30 20 0.67
31 2 0.07
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (29 bp):
AAAATTACCGTTTTGACCTCGATATACCA
Found at i:8194607 original size:19 final size:19
Alignment explanation
Indices: 8194583--8194637 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
8194573 TATTATGTGT
8194583 TTTATTTTTTTTAAAAAAA
1 TTTATTTTTTTTAAAAAAA
**
8194602 TTTATTTTATTTTTTAAAAA
1 TTTATTTT-TTTTAAAAAAA
*
8194622 TTAATGATTTTTTTAA
1 TTTAT--TTTTTTTAA
8194638 GACTTAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 8 0.29
20 13 0.46
21 4 0.14
22 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATTTTTTTTAAAAAAA
Found at i:8195209 original size:21 final size:20
Alignment explanation
Indices: 8195167--8195206 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8195157 TCAAACTTAT
8195167 TATTAAGGTTAGTTTTAAAA
1 TATTAAGGTTAGTTTTAAAA
8195187 TATTAAGGTTAGTTTTAAAA
1 TATTAAGGTTAGTTTTAAAA
8195207 ATAATATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TATTAAGGTTAGTTTTAAAA
Found at i:8200950 original size:5 final size:5
Alignment explanation
Indices: 8200940--8200967 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8200930 ATCTGTTTGG
8200940 AAGAA AAGAA AAGAA AAGAA AAGAA AAG
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAG
8200968 CAACCCTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:8217412 original size:18 final size:17
Alignment explanation
Indices: 8217388--8217428 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
8217378 GGATCTGATA
8217388 ATATGAAGTTTATCAGT
1 ATATGAAGTTTATCAGT
8217405 AGTATGAAGTTTATCAGT
1 A-TATGAAGTTTATCAGT
8217423 ATATGA
1 ATATGA
8217429 TCCAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (17 bp):
ATATGAAGTTTATCAGT
Found at i:8218285 original size:10 final size:10
Alignment explanation
Indices: 8218253--8218303 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
8218243 TTGGTTTCTC
8218253 TCAATAAAAAT
1 TCAA-AAAAAT
*
8218264 TACAAAATAAT
1 T-CAAAAAAAT
8218275 TCAAAAAAAT
1 TCAAAAAAAT
8218285 TC--AAAAAT
1 TCAAAAAAAT
*
8218293 TCAAAATAAT
1 TCAAAAAAAT
8218303 T
1 T
8218304 TATTTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 8 0.24
10 16 0.47
11 7 0.21
12 3 0.09
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (10 bp):
TCAAAAAAAT
Found at i:8218293 original size:18 final size:21
Alignment explanation
Indices: 8218253--8218303 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 21
8218243 TTGGTTTCTC
8218253 TCAATAAAAATTACAAAATAAT
1 TCAA-AAAAATTACAAAATAAT
8218275 TCAAAAAAATT-C-AAA-AAT
1 TCAAAAAAATTACAAAATAAT
*
8218293 TCAAAATAATT
1 TCAAAAAAATT
8218304 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 13 0.46
19 3 0.11
20 1 0.04
21 7 0.25
22 4 0.14
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (21 bp):
TCAAAAAAATTACAAAATAAT
Found at i:8218616 original size:21 final size:20
Alignment explanation
Indices: 8218587--8218625 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8218577 ATTTCACTTG
*
8218587 ATTTGACTCGACTCGAATTTT
1 ATTTCACTCGACTC-AATTTT
8218608 ATTTCACTCGACTCAATT
1 ATTTCACTCGACTCAATT
8218626 CTAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (20 bp):
ATTTCACTCGACTCAATTTT
Found at i:8225596 original size:30 final size:30
Alignment explanation
Indices: 8225557--8225656 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
8225547 TATAAACTGT
* * *
8225557 TGCATTTACACAAACTACAGTTGCACGAGC
1 TGCATTTACACGAATTACAGTCGCACGAGC
* * *
8225587 TGTATTTACACGGATTACAGTCACACGAGC
1 TGCATTTACACGAATTACAGTCGCACGAGC
* * *
8225617 TACATTTACACGAATTGCAGTCGCACGAAC
1 TGCATTTACACGAATTACAGTCGCACGAGC
8225647 TGCATTTACA
1 TGCATTTACA
8225657 AGAAGGCAAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (30 bp):
TGCATTTACACGAATTACAGTCGCACGAGC
Found at i:8225674 original size:30 final size:30
Alignment explanation
Indices: 8225580--8225680 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 30
8225570 ACTACAGTTG
* * * **
8225580 CACGAGCTGTATTTACACGGATTACAGTCA
1 CACGAGCTGCATTTACAAGAATGGCAGTCA
* * * *
8225610 CACGAGCTACATTTACACGAATTGCAGTCG
1 CACGAGCTGCATTTACAAGAATGGCAGTCA
*
8225640 CACGAACTGCATTTACAAGAA-GGCAAGTCA
1 CACGAGCTGCATTTACAAGAATGGC-AGTCA
8225670 CACGAGCTGCA
1 CACGAGCTGCA
8225681 GTTGCACAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 57 0.97
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
CACGAGCTGCATTTACAAGAATGGCAGTCA
Found at i:8228790 original size:6 final size:6
Alignment explanation
Indices: 8228770--8228910 Score: 123
Period size: 6 Copynumber: 23.8 Consensus size: 6
8228760 TTAAAAGGGT
* * *
8228770 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
8228815 TTTAAA TTTAAA TTTACTCA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
8228863 TTTAAA TTTAAA TTTACTCA TTTAAA TTT-AC TTTAAA TTTAAG TTTAA
1 TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
8228911 TCAAATTTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
5 24 0.22
6 74 0.69
8 10 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:8228790 original size:17 final size:17
Alignment explanation
Indices: 8228770--8228909 Score: 175
Period size: 17 Copynumber: 8.6 Consensus size: 17
8228760 TTAAAAGGGT
8228770 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
8228787 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
8228804 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
8228821 TTTAAATTTA--CT-CA
1 TTTAAATTTATTTTAAA
*
8228835 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
8228852 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
8228869 TTTAAATTTA--CT-CA
1 TTTAAATTTATTTTAAA
*
8228883 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
8228900 TTTAAGTTTA
1 TTTAAATTTA
8228910 ATCAAATTTA
Statistics
Matches: 107, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
14 22 0.21
15 2 0.02
16 2 0.02
17 81 0.76
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:8228851 original size:48 final size:48
Alignment explanation
Indices: 8228786--8228909 Score: 230
Period size: 48 Copynumber: 2.6 Consensus size: 48
8228776 TTTATTTTAA
*
8228786 ATTTAAATTTATTTTAAATTTAAATTTATTTTAAATTTAAATTTACTC
1 ATTTAAATTTACTTTAAATTTAAATTTATTTTAAATTTAAATTTACTC
8228834 ATTTAAATTTACTTTAAATTTAAATTTATTTTAAATTTAAATTTACTC
1 ATTTAAATTTACTTTAAATTTAAATTTATTTTAAATTTAAATTTACTC
*
8228882 ATTTAAATTTACTTTAAATTTAAGTTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
8228910 ATCAAATTTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.55
Consensus pattern (48 bp):
ATTTAAATTTACTTTAAATTTAAATTTATTTTAAATTTAAATTTACTC
Found at i:8228967 original size:13 final size:13
Alignment explanation
Indices: 8228949--8228975 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8228939 ATTAAAATTC
8228949 AAGTCCATTTACA
1 AAGTCCATTTACA
8228962 AAGTCCATTTACA
1 AAGTCCATTTACA
8228975 A
1 A
8228976 GGGCTTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
AAGTCCATTTACA
Found at i:8230859 original size:59 final size:59
Alignment explanation
Indices: 8230767--8231202 Score: 521
Period size: 59 Copynumber: 7.4 Consensus size: 59
8230757 CTAAACTATT
* * *
8230767 CAAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAC
* * *
8230826 CAAAAATTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTAAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAC
* * *
8230885 CAAAAATTA-CATTTTTGCCCTCAAACTTTCCAAAATTCCA-TTTTAACCCTAATTTCAC
1 CAAAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAC
* *
8230943 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATTTCTC
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAC
* * * * * * *
8231002 TAAAAAAATACCATTTTACCCCCAAACTTCCCAAAATAT-CA-TTTTAACCCC-GTTTTAC
1 -CAAAAATTACCATTTTACCCTCGAACTTTCCAAAAT-TCCATTTTTAACCCCAATTTCAC
* * *
8231060 C-AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATCTTTAACCCTAATTTCACC
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA-C
* * * *
8231119 CAAAAATTATCATTTTATCCC-CAAACTTTTCAAAA-TCCGATTTTTAACCCCAATTCCAC
1 CAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCC-ATTTTTAACCCCAATTTCAC
8231178 CAAAAATTA-CATTTTTACCCTCGAA
1 CAAAAATTACCA-TTTTACCCTCGAA
8231203 AGTCAAAAAT
Statistics
Matches: 325, Mismatches: 38, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
56 32 0.10
57 8 0.02
58 65 0.20
59 141 0.43
60 75 0.23
61 4 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAC
Found at i:8230978 original size:117 final size:117
Alignment explanation
Indices: 8230767--8231202 Score: 555
Period size: 117 Copynumber: 3.7 Consensus size: 117
8230757 CTAAACTATT
* * *
8230767 CAAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAA
* **
8230832 TTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTAAACCCCGATTTCAC
66 TTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTT-AACCCTAATTTCAC
* * *
8230885 CAAAAATTA-CATTTTTGCCCTCAAACTTTCCAAAATTCCA-TTTTAACCCTAATTTCACCAAAA
1 CAAAAATTACCA-TTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
*
8230948 ATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATTTCTC
65 ATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCCTAATTTCAC
* * * * *
8231002 TAAAAAAATACCATTTTACCCCCAAACTTCCCAAAATAT-CA-TTTTAACCCC-GTTTTACC-AA
1 -CAAAAATTACCATTTTACCCCCAAACTTTCCAAAAT-TCCATTTTTAACCCCAATTTCACCAAA
*
8231063 AATTACCATTTTACCCTCGAACTTTCCAAAATCCCATCTTTAACCCTAATTTCACC
64 AATTACCATTTTACCCTCGAACTTTCCAAAATTCCAT-TTTAACCCTAATTTCA-C
* * * *
8231119 CAAAAATTATCATTTTATCCCCAAACTTTTCAAAA-TCCGATTTTTAACCCCAATTCCACCAAAA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCC-ATTTTTAACCCCAATTTCACCAAAA
8231183 ATTA-CATTTTTACCCTCGAA
65 ATTACCA-TTTTACCCTCGAA
8231203 AGTCAAAAAT
Statistics
Matches: 276, Mismatches: 29, Indels: 25
0.84 0.09 0.08
Matches are distributed among these distances:
114 1 0.00
115 2 0.01
116 82 0.30
117 85 0.31
118 83 0.30
119 23 0.08
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (117 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAA
TTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTAACCCTAATTTCAC
Found at i:8231092 original size:29 final size:29
Alignment explanation
Indices: 8230760--8231094 Score: 199
Period size: 29 Copynumber: 11.4 Consensus size: 29
8230750 TAGGTTCCTA
* *
8230760 AACTATTCAAAAATTACCATTTTACCCCCG
1 AACT-TTCCAAAATTACCATTTTACCCTCG
*
8230790 AACTTTCTAAAATT-CCATTTTTAACCC-CG
1 AACTTTCCAAAATTACCA-TTTT-ACCCTCG
8230819 -A-TTTCACCAAAAATTACCATTTTACCCTCG
1 AACTTT--CC-AAAATTACCATTTTACCCTCG
*
8230849 AACTTTCTAAAATT-CCATTTTAAACCC-CG
1 AACTTTCCAAAATTACCATTTT--ACCCTCG
* *
8230878 -A-TTTCACCAAAAATTA-CATTTTTGCCCTCA
1 AACTTT--CC-AAAATTACCA-TTTTACCCTCG
8230908 AACTTTCCAAAATT-CCATTTTAACCCT--
1 AACTTTCCAAAATTACCATTTT-ACCCTCG
8230935 AA-TTTCACCAAAAATTACCATTTTACCCTCG
1 AACTTT--CC-AAAATTACCATTTTACCCTCG
8230966 AACTTTCCAAAATT-CCATTTTTAACCCT--
1 AACTTTCCAAAATTACCA-TTTT-ACCCTCG
* * *
8230994 AA-TTTCTCTAAAAAAATACCATTTTACCCCCA
1 AACTTTC-C---AAAATTACCATTTTACCCTCG
* *
8231026 AACTTCCCAAAA-TATCATTTTAACCC-CG
1 AACTTTCCAAAATTACCATTTT-ACCCTCG
*
8231054 --TTTTACCAAAATTACCATTTTACCCTCG
1 AACTTT-CCAAAATTACCATTTTACCCTCG
8231082 AACTTTCCAAAAT
1 AACTTTCCAAAAT
8231095 CCCATCTTTA
Statistics
Matches: 245, Mismatches: 16, Indels: 89
0.70 0.05 0.25
Matches are distributed among these distances:
26 5 0.02
27 22 0.09
28 43 0.18
29 80 0.33
30 57 0.23
31 20 0.08
32 15 0.06
33 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (29 bp):
AACTTTCCAAAATTACCATTTTACCCTCG
Found at i:8231124 original size:176 final size:175
Alignment explanation
Indices: 8230767--8231197 Score: 543
Period size: 176 Copynumber: 2.4 Consensus size: 175
8230757 CTAAACTATT
* * *
8230767 CAAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACAAAAAA
* * * * *
8230832 TTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTAAACCCCGATTTCACCAAAAATTACAT
65 ATACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTAAACCCCGATTTCACCAAAAATTACAT
* *
8230897 TTTTGCCCTCAAACTTTCCAAAATTCCATTTTAACCCTAATTTCAC
130 TTTTACCCTCAAACTTTCCAAAATCCCATTTTAACCCTAATTTCAC
* *
8230943 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATTTCTCTAAAAA
1 CAAAAATTACCATTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAC-AAAAA
*
8231008 AATACCATTTTACCCCCAAACTTCCCAAAATAT-CATTTT-AACCCCG-TTTTACC-AAAATTAC
64 AATACCATTTTACCCCCAAACTTCCCAAAAT-TCCATTTTAAACCCCGATTTCACCAAAAATTA-
*
8231069 CA-TTTTACCCTCGAACTTTCCAAAATCCCATCTTTAACCCTAATTTCACC
127 CATTTTTACCCTCAAACTTTCCAAAATCCCAT-TTTAACCCTAATTTCA-C
* * * * *
8231119 CAAAAATTATCATTTTATCCCCAAACTTTTCAAAA-TCCGATTTTTAACCCCAATTCCACCAAAA
1 CAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCC-ATTTTTAACCCCAATTTCACAAAAA
*
8231183 ATTA-CATTTTTACCC
64 AATACCA-TTTTACCC
8231198 TCGAAAGTCA
Statistics
Matches: 224, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
174 35 0.16
175 45 0.20
176 104 0.46
177 39 0.17
178 1 0.00
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (175 bp):
CAAAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACAAAAAAA
TACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTAAACCCCGATTTCACCAAAAATTACATT
TTTACCCTCAAACTTTCCAAAATCCCATTTTAACCCTAATTTCAC
Found at i:8235377 original size:27 final size:24
Alignment explanation
Indices: 8235347--8235418 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
8235337 GGTTGACATG
8235347 GAATATGGATGTCATGATTTGCGAAAT
1 GAATATGGAT-TC--GATTTGCGAAAT
*
8235374 GAATATTGATTCGATTTGCGAAAT
1 GAATATGGATTCGATTTGCGAAAT
* **
8235398 GAATATTGATTCTTTTTGCGA
1 GAATATGGATTCGATTTGCGA
8235419 TGTAATGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 31 0.74
26 2 0.05
27 9 0.21
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (24 bp):
GAATATGGATTCGATTTGCGAAAT
Found at i:8235391 original size:24 final size:24
Alignment explanation
Indices: 8235362--8235418 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
8235352 TGGATGTCAT
8235362 GATTTGCGAAATGAATATTGATTC
1 GATTTGCGAAATGAATATTGATTC
8235386 GATTTGCGAAATGAATATTGATTC
1 GATTTGCGAAATGAATATTGATTC
**
8235410 TTTTTGCGA
1 GATTTGCGA
8235419 TGTAATGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (24 bp):
GATTTGCGAAATGAATATTGATTC
Found at i:8236343 original size:20 final size:21
Alignment explanation
Indices: 8236318--8236376 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
8236308 TTACACTTTG
8236318 GTGCCTCTGATTGCACAATT-
1 GTGCCTCTGATTGCACAATTA
* * * *
8236338 GTGCCTATGTTTGTAC-TTTA
1 GTGCCTCTGATTGCACAATTA
8236358 GTGCCTCTGATTGCACAAT
1 GTGCCTCTGATTGCACAAT
8236377 CATTCCTCTG
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (21 bp):
GTGCCTCTGATTGCACAATTA
Found at i:8236389 original size:40 final size:40
Alignment explanation
Indices: 8236312--8236389 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
8236302 GCCGGTTTAC
* **
8236312 ACTTTGGTGCCTCTGATTGCACAATTGTGCCTATGTTTGT
1 ACTTTAGTGCCTCTGATTGCACAATCATGCCTATGTTTGT
* *
8236352 ACTTTAGTGCCTCTGATTGCACAATCATTCCTCTGTTT
1 ACTTTAGTGCCTCTGATTGCACAATCATGCCTATGTTT
8236390 TCACTTCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (40 bp):
ACTTTAGTGCCTCTGATTGCACAATCATGCCTATGTTTGT
Found at i:8236618 original size:77 final size:77
Alignment explanation
Indices: 8236509--8236657 Score: 183
Period size: 77 Copynumber: 1.9 Consensus size: 77
8236499 TTTATTAAAA
* * * *
8236509 GATCTTGTTAATATATGTAAATTCACATGAATGATCTAGATTGAACAATTGATAAACATGAGATT
1 GATCTTGTTAACAAATGTAAATTCACACGAATGATCTAGACTGAACAATTGATAAACATGAGATT
8236574 ATCTTGTAAATT
66 ATCTTGTAAATT
* * *** * *
8236586 GATCTTGTTGACAAATGTAAATGT-ACACGAATGATCTGGACTGAATTCTTGTTAAACATGGGAT
1 GATCTTGTTAACAAATGTAAAT-TCACACGAATGATCTAGACTGAACAATTGATAAACATGAGAT
8236650 TATCTTGT
65 TATCTTGT
8236658 GTTTTGAACT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 59 0.98
78 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (77 bp):
GATCTTGTTAACAAATGTAAATTCACACGAATGATCTAGACTGAACAATTGATAAACATGAGATT
ATCTTGTAAATT
Found at i:8239743 original size:17 final size:17
Alignment explanation
Indices: 8239723--8239756 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8239713 CAATCATTGT
* *
8239723 GATGGGATAGTAGTTCA
1 GATGGAATACTAGTTCA
8239740 GATGGAATACTAGTTCA
1 GATGGAATACTAGTTCA
8239757 AGTATAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (17 bp):
GATGGAATACTAGTTCA
Found at i:8241044 original size:20 final size:22
Alignment explanation
Indices: 8241019--8241063 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8241009 AATTTCACGT
8241019 TTTTAT-TAATTTTAATT-TTA
1 TTTTATCTAATTTTAATTATTA
*
8241039 TTTTATGCTATTTTTAATTATTA
1 TTTTAT-CTAATTTTAATTATTA
8241062 TT
1 TT
8241064 ACAATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
22 10 0.48
23 5 0.24
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTATCTAATTTTAATTATTA
Found at i:8248183 original size:13 final size:13
Alignment explanation
Indices: 8248165--8248189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8248155 TCAAGGCAAA
8248165 TAATGCTATCAAC
1 TAATGCTATCAAC
8248178 TAATGCTATCAA
1 TAATGCTATCAA
8248190 TACTTAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TAATGCTATCAAC
Found at i:8263494 original size:20 final size:20
Alignment explanation
Indices: 8263469--8263508 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8263459 TTGTTTTTTA
8263469 ATTGATATATAATAAAATAG
1 ATTGATATATAATAAAATAG
*
8263489 ATTGATATATAGTAAAATAG
1 ATTGATATATAATAAAATAG
8263509 CCAAGACTAA
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:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTGATATATAATAAAATAG
Found at i:8271460 original size:11 final size:11
Alignment explanation
Indices: 8271426--8271497 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
8271416 AACCATTTGA
*
8271426 AAATTAAATTT
1 AAATTTAATTT
*
8271437 -ATTTTAATCTT
1 AAATTTAAT-TT
*
8271448 AAATTTATTTT
1 AAATTTAATTT
**
8271459 AAATTCGATTT
1 AAATTTAATTT
8271470 AAATTTAAATTT
1 AAATTT-AATTT
*
8271482 GAATTTAATTT
1 AAATTTAATTT
8271493 AAATT
1 AAATT
8271498 CAATGTTATT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
10 6 0.13
11 26 0.55
12 15 0.32
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:8271476 original size:17 final size:17
Alignment explanation
Indices: 8271449--8271498 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
8271439 TTTAATCTTA
*
8271449 AATTTATTTTAAATTCG
1 AATTTAATTTAAATTCG
*
8271466 -ATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTCG
8271483 AATTTAATTTAAATTC
1 AATTTAATTTAAATTC
8271499 AATGTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 4 0.14
17 20 0.71
18 4 0.14
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTAATTTAAATTCG
Found at i:8271751 original size:20 final size:21
Alignment explanation
Indices: 8271726--8271765 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8271716 GCCTATGCTG
*
8271726 CTGCTGGCCACC-AGCTCCAT
1 CTGCTGACCACCAAGCTCCAT
8271746 CTGCTGACCACCAAGCTCCA
1 CTGCTGACCACCAAGCTCCA
8271766 CCATGCCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.45, G:0.17, T:0.17
Consensus pattern (21 bp):
CTGCTGACCACCAAGCTCCAT
Found at i:8273723 original size:30 final size:30
Alignment explanation
Indices: 8273438--8273708 Score: 382
Period size: 30 Copynumber: 9.0 Consensus size: 30
8273428 CCCTAAATTG
*
8273438 TCCAAAATTACATTTTGACCCCGAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
8273468 TCCAAAATTACATTTTGACCCCAAACCTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
**
8273498 TCCAAAATTACATTTTGACCTTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
** * *
8273528 TTTAAAATTACATTTTGACCCTAAACCTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
8273558 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
**
8273588 TTTAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
8273618 TTCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
8273648 TCCAAAATTACATTTTAACCCCTAAAAC-TT
1 TCCAAAATTACATTTTGACCCC-AAAACTTT
*
8273678 TCAAAAATTACATTTTGACCCCAAAAACTTT
1 TCCAAAATTACATTTTGACCCC-AAAACTTT
8273709 CCTAAATCCC
Statistics
Matches: 218, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
30 211 0.97
31 7 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:8273774 original size:30 final size:29
Alignment explanation
Indices: 8273740--8273834 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 29
8273730 CGATTTTACC
*
8273740 AAAATTTACCATTTTACCCCCGAATCTTTT
1 AAAA-TTACCATTTTACCCCCGAATCTTCT
*
8273770 AAAATT-CCATTTTTAACCCCG-AT-TTCACT
1 AAAATTACCA-TTTTACCCCCGAATCTT--CT
*
8273799 AGAAATTACCATTTTACCCCCGAAGCTTCT
1 A-AAATTACCATTTTACCCCCGAATCTTCT
8273829 AAAATT
1 AAAATT
8273835 CCGTTTTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
27 2 0.04
28 5 0.09
29 19 0.35
30 22 0.41
31 4 0.07
32 2 0.04
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTCT
Found at i:8273783 original size:59 final size:57
Alignment explanation
Indices: 8273712--8273878 Score: 226
Period size: 59 Copynumber: 2.8 Consensus size: 57
8273702 AAACTTTCCT
* * * *
8273712 AAATCCCATTTTTAACCTCGATTTTACCAAAATTTACCATTTTACCCCCGAATCTTTTA
1 AAATTCCATTTTTAACC-CGATTTCACCAAAA-TTACCATTTTACCCCCGAAGCTTCTA
*
8273771 AAATTCCATTTTTAACCCCGATTTCACTAGAAATTACCATTTTACCCCCGAAGCTTCTA
1 AAATTCCATTTTTAA-CCCGATTTCACCA-AAATTACCATTTTACCCCCGAAGCTTCTA
* *
8273830 AAATTCCGTTTTTAACCCTGATTTCACCAAAATTACCATTTTGCCCCCG
1 AAATTCCATTTTTAACCC-GATTTCACCAAAATTACCATTTTACCCCCG
8273879 GGTATCCATA
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
58 22 0.23
59 70 0.72
60 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.36
Consensus pattern (57 bp):
AAATTCCATTTTTAACCCGATTTCACCAAAATTACCATTTTACCCCCGAAGCTTCTA
Found at i:8273789 original size:29 final size:29
Alignment explanation
Indices: 8273712--8273847 Score: 93
Period size: 30 Copynumber: 4.6 Consensus size: 29
8273702 AAACTTTCCT
* * * *
8273712 AAATCCCATTTTTAACCTCG-ATTTTACCA
1 AAATTCCATTTTTAACCCCGAATCTT-CTA
* *
8273741 AAATTTACCA-TTTTACCCCCGAATCTTTTA
1 AAA-TT-CCATTTTTAACCCCGAATCTTCTA
8273771 AAATTCCATTTTTAACCCCG-AT-TTCACTA
1 AAATTCCATTTTTAACCCCGAATCTT--CTA
* *
8273800 GAAATTACCA-TTTTACCCCCGAAGCTTCTA
1 -AAATT-CCATTTTTAACCCCGAATCTTCTA
*
8273830 AAATTCCGTTTTTAACCC
1 AAATTCCATTTTTAACCC
8273848 TGATTTCACC
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
27 2 0.02
28 7 0.08
29 30 0.36
30 32 0.38
31 11 0.13
32 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.05, T:0.37
Consensus pattern (29 bp):
AAATTCCATTTTTAACCCCGAATCTTCTA
Found at i:8273871 original size:29 final size:28
Alignment explanation
Indices: 8273712--8273871 Score: 85
Period size: 29 Copynumber: 5.4 Consensus size: 28
8273702 AAACTTTCCT
* * * *
8273712 AAATCCCATTTTTAACCTCGATTTTACCA
1 AAATTCCA-TTTTAACCCCGATTTCACTA
* *
8273741 AAATTTACCATTTTACCCCCGAATCTT--TTA
1 AAA-TT-CCATTTTAACCCCG-AT-TTCACTA
8273771 AAATTCCATTTTTAACCCCGATTTCACTA
1 AAATTCCA-TTTTAACCCCGATTTCACTA
* *
8273800 GAAATTACCATTTTACCCCCGAAGCTT--CTA
1 -AAATT-CCATTTTAACCCCG-A-TTTCACTA
* * *
8273830 AAATTCCGTTTTTAACCCTGATTTCACCA
1 AAATTCC-ATTTTAACCCCGATTTCACTA
8273859 AAATTACCATTTT
1 AAATT-CCATTTT
8273872 GCCCCCGGGT
Statistics
Matches: 101, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
27 4 0.04
28 8 0.08
29 42 0.42
30 34 0.34
31 9 0.09
32 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.38
Consensus pattern (28 bp):
AAATTCCATTTTAACCCCGATTTCACTA
Found at i:8286076 original size:68 final size:68
Alignment explanation
Indices: 8285968--8286435 Score: 661
Period size: 68 Copynumber: 6.8 Consensus size: 68
8285958 TTCCTATCTG
* * * *
8285968 CTTGAAATTAAAGGAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGCCAC
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGCAACGTCAC
*
8286033 CCG
66 CCT
* * *
8286036 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCAGCTCTGAAATTGAAGTAAGAGTAACATCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGCAACGTCA-
8286101 CTCCTATCCT
65 ---C---CCT
* *
8286111 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTAAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGCAACGTCA-
8286176 CCC-
65 CCCT
*
8286179 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGCAACGTCA-
8286244 CCC-
65 CCCT
* *
8286247 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGCAACGTCAC
8286312 CCT
66 CCT
* * * *
8286315 CTTGAAATTGAAGTAGAGTTGGATAACAAGACTTCATCTCTGAAATTGAAGTAACAGCAACGTCA
1 CTTGAAATTGAAGTAGAG-TGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
*
8286380 TCCT
65 CCCT
*
8286384 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTA
8286436 GGAGTAACAT
Statistics
Matches: 368, Mismatches: 23, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
67 2 0.01
68 238 0.65
69 65 0.18
72 2 0.01
75 61 0.17
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (68 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGCAACGTCAC
CCT
Found at i:8286156 original size:37 final size:37
Alignment explanation
Indices: 8286038--8286436 Score: 253
Period size: 37 Copynumber: 11.4 Consensus size: 37
8286028 GCCACCCGCT
* *
8286038 TGAAATTGAAGTAGAGTGGATAACACGTCCTCAGCTC
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
* * *
8286075 TGAAATTGAAGTA-AG-AG-TAACATCATCTCCTATCCTC
1 TGAAATTGAAGTAGAGTGGATAACA-CGTC-CTTAT-CTC
8286112 TTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
1 -TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
* ** * ***
8286150 TAAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
8286181 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
** * ***
8286218 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
8286249 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
** * **
8286286 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCTCT-
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
* *
8286317 TGAAATTGAAGTAGAGTTGGATAACAAG-ACTTCATCTC
1 TGAAATTGAAGTAGAG-TGGATAACACGTCCTT-ATCTC
* ** * **
8286355 TGAAATTGAAGTA-A---CAGCA-ACGTCATCCTCT-
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
8286386 TGAAATTGAAGTAGAGTGGATAACACGT-CTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACACGTCCTT-ATCTC
8286423 TGAAATTGAAGTAG
1 TGAAATTGAAGTAG
8286437 GAGTAACATT
Statistics
Matches: 267, Mismatches: 60, Indels: 70
0.67 0.15 0.18
Matches are distributed among these distances:
31 51 0.19
32 34 0.13
33 12 0.04
34 5 0.02
35 13 0.05
36 34 0.13
37 74 0.28
38 29 0.11
39 6 0.02
40 4 0.01
41 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (37 bp):
TGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTC
Found at i:8286187 original size:31 final size:31
Alignment explanation
Indices: 8286152--8286398 Score: 161
Period size: 31 Copynumber: 7.4 Consensus size: 31
8286142 CTTATCTCTA
*
8286152 AAATTGAAGTAAGAGCAACGTCATCCCCTTG
1 AAATTGAAGTAAGAGCAACGTCATCCTCTTG
** * **
8286183 AAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTG
1 AAATTGAAGTA-A---GAGCA-ACGTCATCCTCT-TG
*
8286220 AAATTGAAGTAAGAGCAACGTCATCCCCTTG
1 AAATTGAAGTAAGAGCAACGTCATCCTCTTG
** * **
8286251 AAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTG
1 AAATTGAAGTA-A---GAGCA-ACGTCATCCTCT-TG
8286288 AAATTGAAGTAAGAGCAACGTCATCCTCTTG
1 AAATTGAAGTAAGAGCAACGTCATCCTCTTG
* * * * *
8286319 AAATTGAAGTAGAGTTGGATAACAAGACTTCATCTCTG
1 AAATTGAAGTA-AG--AG-CAAC--GTCATCCTCT-TG
*
8286357 AAATTGAAGTAACAGCAACGTCATCCTCTTG
1 AAATTGAAGTAAGAGCAACGTCATCCTCTTG
8286388 AAATTGAAGTA
1 AAATTGAAGTA
8286399 GAGTGGATAA
Statistics
Matches: 163, Mismatches: 34, Indels: 38
0.69 0.14 0.16
Matches are distributed among these distances:
31 50 0.31
32 28 0.17
33 6 0.04
34 4 0.02
35 10 0.06
36 18 0.11
37 34 0.21
38 13 0.08
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (31 bp):
AAATTGAAGTAAGAGCAACGTCATCCTCTTG
Found at i:8286219 original size:143 final size:139
Alignment explanation
Indices: 8285968--8286435 Score: 654
Period size: 143 Copynumber: 3.4 Consensus size: 139
8285958 TTCCTATCTG
* * *
8285968 CTTGAAATTAAAGGAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGCCA-
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
* *
8286032 CCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCAGCTCTGAAATTGAAGTAAGAGTAACA
66 CCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAG-AACA
8286097 TCATCTCCTATCCT
129 TCA-CT-C-ATCCT
*
8286111 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTT-ATCTCTAAAATTGAAGTAAGAGCAACGTCA
1 CTTGAAATTGAAGTAGAGTGGATAACACGT-CTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
8286175 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAG--CA-
65 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGAACAT
*
8286237 -ACGTCATCCC
130 CAC-TCATCCT
8286247 CTTGAAATTGAAGTAGAGTGGATAACACGTCCTT-ATCTCTGAAATTGAAGTAAGAGCAACGTCA
1 CTTGAAATTGAAGTAGAGTGGATAACACGT-CTTCATCTCTGAAATTGAAGTAAGAGCAACGTCA
* * * *
8286311 TCCTCTTGAAATTGAAGTAGAGTTGGATAACAAG-ACTTCATCTCTGAAATTGAAGTAACAG--C
65 TCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCCTT-ATCTCTGAAATTGAAGTAAGAGAAC
8286373 A--ACGTCATCCT
128 ATCAC-TCATCCT
8286384 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
8286436 GGAGTAACAT
Statistics
Matches: 306, Mismatches: 13, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
136 94 0.31
137 92 0.30
138 2 0.01
140 2 0.01
143 110 0.36
144 6 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (139 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTTATCTCTGAAATTGAAGTAAGAGAACATC
ACTCATCCT
Found at i:8286807 original size:11 final size:11
Alignment explanation
Indices: 8286773--8286844 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
8286763 AACCATTTGA
*
8286773 AAATTAAATTT
1 AAATTTAATTT
*
8286784 -ATTTTAATCTT
1 AAATTTAAT-TT
*
8286795 AAATTTATTTT
1 AAATTTAATTT
**
8286806 AAATTCGATTT
1 AAATTTAATTT
8286817 AAATTTAAATTT
1 AAATTT-AATTT
*
8286829 GAATTTAATTT
1 AAATTTAATTT
8286840 AAATT
1 AAATT
8286845 CAATGTTATT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
10 6 0.13
11 26 0.55
12 15 0.32
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:8286823 original size:17 final size:17
Alignment explanation
Indices: 8286796--8286845 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
8286786 TTTAATCTTA
*
8286796 AATTTATTTTAAATTCG
1 AATTTAATTTAAATTCG
*
8286813 -ATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTCG
8286830 AATTTAATTTAAATTC
1 AATTTAATTTAAATTC
8286846 AATGTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 4 0.14
17 20 0.71
18 4 0.14
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTAATTTAAATTCG
Found at i:8287098 original size:20 final size:21
Alignment explanation
Indices: 8287073--8287112 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8287063 GCCTATGCTG
*
8287073 CTGCTGGCCACC-AGCTCCAT
1 CTGCTGACCACCAAGCTCCAT
8287093 CTGCTGACCACCAAGCTCCA
1 CTGCTGACCACCAAGCTCCA
8287113 CCATGCCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.45, G:0.17, T:0.17
Consensus pattern (21 bp):
CTGCTGACCACCAAGCTCCAT
Found at i:8293689 original size:23 final size:23
Alignment explanation
Indices: 8293662--8293727 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
8293652 AACTATTTAA
*
8293662 TTAATAAAATAATCTAGAATAAT
1 TTAATAAAATAATCTAAAATAAT
8293685 TTAATATTAAATAA--TAAAATAAT
1 TTAATA--AAATAATCTAAAATAAT
*
8293708 TT--TAAAATAATC-AAACTAAT
1 TTAATAAAATAATCTAAAATAAT
8293728 CATCTTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
19 6 0.16
20 7 0.19
21 2 0.05
23 16 0.43
25 6 0.16
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
TTAATAAAATAATCTAAAATAAT
Found at i:8300178 original size:46 final size:46
Alignment explanation
Indices: 8300093--8300227 Score: 137
Period size: 46 Copynumber: 2.9 Consensus size: 46
8300083 TAATTTTCCA
* * * *
8300093 TATTCTCCAGTCCGCAACATATGCAGGAACTAGG-CACCTAAATCCG
1 TATTCTCCAGTCCACAACATATACAGGAGCT-GGAAACCTAAATCCG
* * * * * *
8300139 TATTCTCTAGTTCACAACGTATACAGGAGTTGGAAACCTACATTCG
1 TATTCTCCAGTCCACAACATATACAGGAGCTGGAAACCTAAATCCG
** *
8300185 TATTCTCCAGTCCGTAACATATACAGGAGCTGGGAACCTAAAT
1 TATTCTCCAGTCCACAACATATACAGGAGCTGGAAACCTAAAT
8300228 ATTTTTATAA
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
45 2 0.03
46 68 0.97
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (46 bp):
TATTCTCCAGTCCACAACATATACAGGAGCTGGAAACCTAAATCCG
Found at i:8301245 original size:18 final size:19
Alignment explanation
Indices: 8301208--8301250 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
8301198 AACACATAAT
*
8301208 TTAAAATTTATAAAAAAAA
1 TTAAAATATATAAAAAAAA
*
8301227 TTAAAATATAT-ATAAAAA
1 TTAAAATATATAAAAAAAA
8301245 TTAAAA
1 TTAAAA
8301251 AAAAACATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAATATATAAAAAAAA
Found at i:8303342 original size:18 final size:18
Alignment explanation
Indices: 8303280--8303386 Score: 88
Period size: 18 Copynumber: 5.8 Consensus size: 18
8303270 TAATGCTCTT
*
8303280 ACGAGCCAGTAGTGCTCAA
1 ACGAGGCAGTA-TGCTCAA
* * **
8303299 ACGAGTCGGTATTGCTCTT
1 ACGAGGCAGTA-TGCTCAA
* *
8303318 ACAAGGCTGTATGCTCAA
1 ACGAGGCAGTATGCTCAA
8303336 ACGAGGCAGTATGCTCAA
1 ACGAGGCAGTATGCTCAA
* * *
8303354 ACGAGCCAATATGCTCTA
1 ACGAGGCAGTATGCTCAA
* *
8303372 ACAAGCCAGTATGCT
1 ACGAGGCAGTATGCT
8303387 ATTCCTTTCG
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
18 49 0.69
19 22 0.31
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (18 bp):
ACGAGGCAGTATGCTCAA
Found at i:8303384 original size:54 final size:56
Alignment explanation
Indices: 8303280--8303386 Score: 137
Period size: 54 Copynumber: 1.9 Consensus size: 56
8303270 TAATGCTCTT
* ** * * *
8303280 ACGAGCCAGTAGTGCTCAAACGAGTCGGTATTGCTCTTACAAGGCTGTATGCTCAA
1 ACGAGCCAGTAGTGCTCAAACGAGCCAATATTGCTCTAACAAGCCAGTATGCTCAA
*
8303336 ACGAGGCAGTA-TGCTCAAACGAGCCAATA-TGCTCTAACAAGCCAGTATGCT
1 ACGAGCCAGTAGTGCTCAAACGAGCCAATATTGCTCTAACAAGCCAGTATGCT
8303387 ATTCCTTTCG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 19 0.43
55 15 0.34
56 10 0.23
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (56 bp):
ACGAGCCAGTAGTGCTCAAACGAGCCAATATTGCTCTAACAAGCCAGTATGCTCAA
Found at i:8310692 original size:30 final size:30
Alignment explanation
Indices: 8310647--8310713 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
8310637 CACCTAAGAC
*
8310647 ACCCTCTTGGCCTCACCTAGGTATATAAAT
1 ACCCTCTTGGCCTCACCTAGGAATATAAAT
* *
8310677 ACCCTTTTGGTCTCACCTAGGAATATAAAT
1 ACCCTCTTGGCCTCACCTAGGAATATAAAT
8310707 ACCCTCT
1 ACCCTCT
8310714 CAATCTCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (30 bp):
ACCCTCTTGGCCTCACCTAGGAATATAAAT
Found at i:8310721 original size:30 final size:30
Alignment explanation
Indices: 8310658--8310722 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
8310648 CCCTCTTGGC
* * ***
8310658 CTCACCTAGGTATATAAATACCCTTTTGGT
1 CTCACCTAGGAATATAAATACCCTCTCAAT
8310688 CTCACCTAGGAATATAAATACCCTCTCAAT
1 CTCACCTAGGAATATAAATACCCTCTCAAT
8310718 CTCAC
1 CTCAC
8310723 TACTTGGCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (30 bp):
CTCACCTAGGAATATAAATACCCTCTCAAT
Found at i:8314089 original size:24 final size:24
Alignment explanation
Indices: 8314062--8314136 Score: 141
Period size: 24 Copynumber: 3.1 Consensus size: 24
8314052 AGTTTGACTC
8314062 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
8314086 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
*
8314110 AAACAAATAAATAGAGTTTAACTG
1 AAACAAATAAATAGAGTTTAATTG
8314134 AAA
1 AAA
8314137 GATTATTTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (24 bp):
AAACAAATAAATAGAGTTTAATTG
Found at i:8325760 original size:31 final size:31
Alignment explanation
Indices: 8325725--8325789 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
8325715 AACAACCTAG
*
8325725 TGACTTAAATAAAAACTTTCGAATAGTTCAA
1 TGACTTAAATAAAAACTTTCGAATAATTCAA
* * *
8325756 TGACTTGAATGAAAACTTTTGAATAATTCAA
1 TGACTTAAATAAAAACTTTCGAATAATTCAA
8325787 TGA
1 TGA
8325790 TTATTTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAATTCAA
Found at i:8325980 original size:14 final size:13
Alignment explanation
Indices: 8325954--8325978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8325944 AACATGTATT
8325954 TTTTTAATATTTA
1 TTTTTAATATTTA
8325967 TTTTTAATATTT
1 TTTTTAATATTT
8325979 TACTATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:8330222 original size:31 final size:31
Alignment explanation
Indices: 8330181--8330279 Score: 121
Period size: 31 Copynumber: 3.3 Consensus size: 31
8330171 TTTAAGTGTG
*
8330181 TATAATTAAATCAAAATTAAAATTTTAAGTA
1 TATAATTAAATCAAAATTAAAATTTTATGTA
* * * * *
8330212 TACAATTAAATCACAATTAAAGTTTCATGTG
1 TATAATTAAATCAAAATTAAAATTTTATGTA
*
8330243 TATAATTACATC-AAATTAAAA-TTTATGTA
1 TATAATTAAATCAAAATTAAAATTTTATGTA
8330272 TATAATTA
1 TATAATTA
8330280 TACATTAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 14 0.25
30 7 0.12
31 35 0.62
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (31 bp):
TATAATTAAATCAAAATTAAAATTTTATGTA
Found at i:8334994 original size:25 final size:27
Alignment explanation
Indices: 8334961--8335015 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
8334951 GCAAATCAAT
*
8334961 ATCATATTGT-AATTCATTAT-ATTCA
1 ATCAAATTGTCAATTCATTATGATTCA
* *
8334986 ATCAAATTGTCATTTCATTATGATTTA
1 ATCAAATTGTCAATTCATTATGATTCA
8335013 ATC
1 ATC
8335016 CATATCTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 9 0.36
26 9 0.36
27 7 0.28
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (27 bp):
ATCAAATTGTCAATTCATTATGATTCA
Found at i:8337732 original size:6 final size:6
Alignment explanation
Indices: 8337721--8337766 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
8337711 TGACTCAGCC
8337721 ATGGGT ATGGGT ATGGGT ATGGGT ATGGGT ATGGGT ATGGGT ATGG
1 ATGGGT ATGGGT ATGGGT ATGGGT ATGGGT ATGGGT ATGGGT ATGG
8337767 CAGATACAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
ATGGGT
Found at i:8338893 original size:22 final size:20
Alignment explanation
Indices: 8338847--8338915 Score: 84
Period size: 22 Copynumber: 3.3 Consensus size: 20
8338837 ATTATATTGT
* *
8338847 TGTTTTGGTGCTATTTTTTGC
1 TGTTTTGGTG-TTTTTTTTAC
*
8338868 TGTTTTGGTGTTGTGTTTTTAT
1 TGTTTTGGTGTT-T-TTTTTAC
8338890 TGTTTTGGTGTTTTTTTTAC
1 TGTTTTGGTGTTTTTTTTAC
8338910 TGTTTT
1 TGTTTT
8338916 AGTTTCTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.31
21 12 0.29
22 17 0.40
ACGTcount: A:0.04, C:0.04, G:0.23, T:0.68
Consensus pattern (20 bp):
TGTTTTGGTGTTTTTTTTAC
Found at i:8338984 original size:24 final size:23
Alignment explanation
Indices: 8338957--8339020 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
8338947 TTTGGTGTTG
*
8338957 TTTTTATTGTTATTTTTGTTTCTA
1 TTTTT-TTGTTATTTTTGCTTCTA
*
8338981 TTTTTTCTATTATTTTTGCTTCTA
1 TTTTTT-TGTTATTTTTGCTTCTA
*
8339005 TTTTGGTTGTTATTTT
1 TTTT-TTTGTTATTTT
8339021 GGTTGTTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.11, C:0.06, G:0.09, T:0.73
Consensus pattern (23 bp):
TTTTTTTGTTATTTTTGCTTCTA
Found at i:8339018 original size:12 final size:12
Alignment explanation
Indices: 8339003--8339027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8338993 TTTTTGCTTC
8339003 TATTTTGGTTGT
1 TATTTTGGTTGT
8339015 TATTTTGGTTGT
1 TATTTTGGTTGT
8339027 T
1 T
8339028 TGGATGTTAT
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TATTTTGGTTGT
Found at i:8341032 original size:9 final size:9
Alignment explanation
Indices: 8341018--8341243 Score: 81
Period size: 9 Copynumber: 24.8 Consensus size: 9
8341008 ATATTTTTCC
8341018 ATAAAAATT
1 ATAAAAATT
*
8341027 ATAAAAAATC
1 AT-AAAAATT
*
8341037 AAAAAAATT
1 ATAAAAATT
*
8341046 ATAAAAAAT
1 ATAAAAATT
*
8341055 AT-TAAA-T
1 ATAAAAATT
*
8341062 ATTAAAA-T
1 ATAAAAATT
*
8341070 ATGAAAATT
1 ATAAAAATT
8341079 -TACATAAACTT
1 ATA-A-AAA-TT
*
8341090 ATAAATATT
1 ATAAAAATT
8341099 AT-AAAA-T
1 ATAAAAATT
**
8341106 ATAAGTATT
1 ATAAAAATT
*
8341115 ATAAATATT
1 ATAAAAATT
*
8341124 -TAAAAAAT
1 ATAAAAATT
* *
8341132 CTAATAATTT
1 ATAA-AAATT
8341142 ATAAAAATAT
1 ATAAAAAT-T
* **
8341152 TTAAATTTTT
1 ATAAA-AATT
*
8341162 ATAAAAACGT
1 ATAAAAA-TT
*
8341172 ATTAAAATT
1 ATAAAAATT
* *
8341181 CTATAAAATC
1 ATA-AAAATT
*
8341191 ATAAAAAAT
1 ATAAAAATT
*
8341200 AT-AAAAGT
1 ATAAAAATT
*
8341208 ATTAAAATT
1 ATAAAAATT
8341217 GATATAAAATT
1 -ATA-AAAATT
*
8341228 ATAAAATTT
1 ATAAAAATT
8341237 ATAAAAA
1 ATAAAAA
8341244 AAAATAGAAA
Statistics
Matches: 159, Mismatches: 40, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
7 6 0.04
8 32 0.20
9 62 0.39
10 47 0.30
11 10 0.06
12 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:8341060 original size:10 final size:10
Alignment explanation
Indices: 8341020--8341054 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
8341010 ATTTTTCCAT
8341020 AAAAATTATA
1 AAAAATTATA
*
8341030 AAAAATCA-A
1 AAAAATTATA
8341039 AAAAATTATA
1 AAAAATTATA
8341049 AAAAAT
1 AAAAAT
8341055 ATTAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAATTATA
Found at i:8341065 original size:19 final size:19
Alignment explanation
Indices: 8341017--8341054 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8341007 AATATTTTTC
8341017 CATAAAAATTATAAAAAAT
1 CATAAAAATTATAAAAAAT
*
8341036 CAAAAAAATTATAAAAAAT
1 CATAAAAATTATAAAAAAT
8341055 ATTAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
CATAAAAATTATAAAAAAT
Found at i:8341114 original size:16 final size:16
Alignment explanation
Indices: 8341089--8341119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8341079 TACATAAACT
8341089 TATAAATATTATAAAA
1 TATAAATATTATAAAA
*
8341105 TATAAGTATTATAAA
1 TATAAATATTATAAA
8341120 TATTTAAAAA
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:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAAATATTATAAAA
Found at i:8341176 original size:21 final size:20
Alignment explanation
Indices: 8341139--8341188 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
8341129 AATCTAATAA
*
8341139 TTTATAAAAATATTTAAATT
1 TTTATAAAAATATTTAAAAT
8341159 TTTATAAAAACGTA-TTAAAAT
1 TTTATAAAAA--TATTTAAAAT
*
8341180 TCTATAAAA
1 TTTATAAAA
8341189 TCATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
21 14 0.54
22 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTATAAAAATATTTAAAAT
Found at i:8341232 original size:37 final size:37
Alignment explanation
Indices: 8341165--8341242 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
8341155 AATTTTTATA
*
8341165 AAAACGTATTAAAATTCTATAAAATCATAAAAAATAT
1 AAAACGTATTAAAATTATATAAAATCATAAAAAATAT
* **
8341202 AAAA-GTATTAAAATTGATATAAAATTATAAAATTTAT
1 AAAACGTATTAAAATT-ATATAAAATCATAAAAAATAT
8341239 AAAA
1 AAAA
8341243 AAAAATAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 11 0.31
37 25 0.69
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (37 bp):
AAAACGTATTAAAATTATATAAAATCATAAAAAATAT
Found at i:8341234 original size:19 final size:20
Alignment explanation
Indices: 8341198--8341235 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8341188 ATCATAAAAA
8341198 ATATAAAAGTATTAAAATTG
1 ATATAAAAGTATTAAAATTG
*
8341218 ATATAAAATTA-TAAAATT
1 ATATAAAAGTATTAAAATT
8341236 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
ATATAAAAGTATTAAAATTG
Found at i:8341244 original size:19 final size:19
Alignment explanation
Indices: 8341018--8341244 Score: 57
Period size: 19 Copynumber: 11.9 Consensus size: 19
8341008 ATATTTTTCC
* *
8341018 ATAAAAATTATAAAAAATC
1 ATAAAATTTATAAAAAATT
* *
8341037 AAAAAAATTATAAAAAA-T
1 ATAAAATTTATAAAAAATT
* *
8341055 ATTAAA--TAT-TAAAA-T
1 ATAAAATTTATAAAAAATT
* * *
8341070 ATGAAAATTTACATAAACTT
1 AT-AAAATTTATAAAAAATT
*
8341090 AT-AAATATTATAAAATATAAGT
1 ATAAAAT-TTAT-AAA-A-AATT
8341112 ATTATAAATATT-TAAAAAATCT
1 A-TA-AAAT-TTATAAAAAAT-T
*
8341134 A-ATAATTTATAAAAATATT
1 ATAAAATTTATAAAAA-ATT
* **
8341153 -TAAATTTTTATAAAAACGT
1 ATAAA-ATTTATAAAAAATT
*
8341172 ATTAAAATTCTAT--AAAATC
1 A-TAAAATT-TATAAAAAATT
* * *
8341191 ATAAAA--AATATAAAAGT
1 ATAAAATTTATAAAAAATT
* *
8341208 ATTAAAATTGATATAAAATT
1 A-TAAAATTTATAAAAAATT
8341228 ATAAAATTTATAAAAAA
1 ATAAAATTTATAAAAAA
8341245 AAATAGAAAC
Statistics
Matches: 154, Mismatches: 29, Indels: 50
0.66 0.12 0.21
Matches are distributed among these distances:
15 9 0.06
16 6 0.04
17 5 0.03
18 22 0.14
19 54 0.35
20 30 0.19
21 10 0.06
22 6 0.04
23 4 0.03
24 1 0.01
25 7 0.05
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAATTTATAAAAAATT
Found at i:8342501 original size:2 final size:2
Alignment explanation
Indices: 8342494--8342561 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
8342484 TTTATGGTTA
8342494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8342536 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
8342562 GTTAAATTCC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8359409 original size:22 final size:22
Alignment explanation
Indices: 8359392--8359440 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 22
8359382 AGAATTGAGT
8359392 TAAAA-AAATAATTTAATTTGA
1 TAAAATAAATAATTTAATTTGA
*
8359413 TAAAATAAATAA--TATTTTGA
1 TAAAATAAATAATTTAATTTGA
8359433 -AAAATAAA
1 TAAAATAAA
8359441 AAAATCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 7 0.27
21 5 0.19
22 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
TAAAATAAATAATTTAATTTGA
Done.