Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 53 of 204
Found at i:15497216 original size:22 final size:25
Alignment explanation
Indices: 15497188--15497236 Score: 77
Period size: 22 Copynumber: 2.1 Consensus size: 25
15497178 TTTTGAAAAT
15497188 ATTTTAAATTA-A-TATG-TTTAAA
1 ATTTTAAATTATATTATGCTTTAAA
15497210 ATTTTAAATTATATTATGCTTTAAA
1 ATTTTAAATTATATTATGCTTTAAA
15497235 AT
1 AT
15497237 GTCTTGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 11 0.46
23 1 0.04
24 4 0.17
25 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
ATTTTAAATTATATTATGCTTTAAA
Found at i:15506031 original size:40 final size:40
Alignment explanation
Indices: 15505960--15506037 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
15505950 GATGTCAGGA
* * * *
15505960 GACGTGTCAGCAAATCACGTTCATGTCAGCGCAGTTTGCC
1 GACGTGGCAGCAAATCACGTCCACGTAAGCGCAGTTTGCC
* *
15506000 GACGTGGCAGCAAATCGCGTCCACGTAAGCGCGGTTTG
1 GACGTGGCAGCAAATCACGTCCACGTAAGCGCAGTTTG
15506038 TGTCCACGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (40 bp):
GACGTGGCAGCAAATCACGTCCACGTAAGCGCAGTTTGCC
Found at i:15506283 original size:11 final size:12
Alignment explanation
Indices: 15506220--15506284 Score: 77
Period size: 11 Copynumber: 5.8 Consensus size: 12
15506210 AACTAATCCT
15506220 CTCTCAAATTTC
1 CTCTCAAATTTC
15506232 CTCTC-AATTTC
1 CTCTCAAATTTC
*
15506243 CTCTC-AATTTG
1 CTCTCAAATTTC
15506254 CTCTCAAA-TTC
1 CTCTCAAATTTC
15506265 CT-TCCAAATTT-
1 CTCT-CAAATTTC
15506276 CTCTCAAAT
1 CTCTCAAAT
15506285 CCATATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
10 1 0.02
11 36 0.77
12 10 0.21
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:15506304 original size:51 final size:51
Alignment explanation
Indices: 15506244--15506343 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
15506234 CTCAATTTCC
15506244 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
15506295 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
15506344 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:15506370 original size:16 final size:16
Alignment explanation
Indices: 15506346--15506376 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15506336 CCCTATTTTT
15506346 AAATAATTTTAAAAAA
1 AAATAATTTTAAAAAA
*
15506362 AAATTATTTTAAAAA
1 AAATAATTTTAAAAA
15506377 TTTTTTTTAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAATTTTAAAAAA
Found at i:15507498 original size:7 final size:7
Alignment explanation
Indices: 15507486--15507511 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15507476 TAGTCGATTG
15507486 GTATTTA
1 GTATTTA
15507493 GTATTTA
1 GTATTTA
15507500 GTATTTA
1 GTATTTA
15507507 GTATT
1 GTATT
15507512 ATGTATATAA
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:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:15508189 original size:18 final size:18
Alignment explanation
Indices: 15508162--15508201 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15508152 CAGGTGCGTT
* *
15508162 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
15508180 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
15508198 TCCT
1 TCCT
15508202 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:15508469 original size:21 final size:21
Alignment explanation
Indices: 15508443--15508489 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15508433 CAACTCCGAT
*
15508443 AACCAG-ATGCCCTACCGGAAG
1 AACCAGAAT-CCCCACCGGAAG
*
15508464 AACCAGAATCCCCACCGGAGG
1 AACCAGAATCCCCACCGGAAG
15508485 AACCA
1 AACCA
15508490 CAACCGACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.36, C:0.36, G:0.21, T:0.06
Consensus pattern (21 bp):
AACCAGAATCCCCACCGGAAG
Found at i:15508782 original size:27 final size:27
Alignment explanation
Indices: 15508750--15508803 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
15508740 GACAACCTTA
15508750 AACCCTTAACCTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
* *
15508777 AACCCTTAACTTAAAAACCTTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
15508804 TAAATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:15508823 original size:22 final size:22
Alignment explanation
Indices: 15508743--15509253 Score: 538
Period size: 22 Copynumber: 23.3 Consensus size: 22
15508733 TTTAATTGAC
* *
15508743 AACCTTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
15508765 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCT-A----AACCCTTAACTTAAA
* * *
15508792 AA-CCTTAACCCTTAAATTCAA
1 AACCCTAAACCCTTAACTTAAA
*
15508813 AACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
15508835 AACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
15508857 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
15508878 AACTCTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
*
15508900 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
15508922 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
15508944 AATCCT-AACCTTTAAATT-AA
1 AACCCTAAACCCTTAACTTAAA
*
15508964 AACCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * ** *
15508985 AATCTTAAAATCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
15509007 AACCCTAAA-CCTTAAAACTTTAA
1 AACCCTAAACCCTT--AACTTAAA
* *
15509030 AACTCTAAACCCTTAAATT-AA
1 AACCCTAAACCCTTAACTTAAA
*
15509051 AACCCTAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
15509073 AATCCT-AACTCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
15509094 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
15509116 AACCGT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* * **
15509137 AACCCTAAACCTTTAAATTTTA
1 AACCCTAAACCCTTAACTTAAA
*
15509159 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
15509181 AACCCT-AACCCTTTAACTTAAA
1 AACCCTAAACCC-TTAACTTAAA
*
15509203 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
15509225 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
15509247 AACCCTA
1 AACCCTA
15509254 TCCTTATTGG
Statistics
Matches: 407, Mismatches: 65, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
20 16 0.04
21 113 0.28
22 236 0.58
23 19 0.05
24 4 0.01
26 3 0.01
27 16 0.04
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:15508827 original size:43 final size:43
Alignment explanation
Indices: 15508743--15509253 Score: 496
Period size: 43 Copynumber: 11.7 Consensus size: 43
15508733 TTTAATTGAC
*
15508743 AACCTTAAACCCTTAACCTAAAAACCCTAACCCTAACCCTTAACTTAAA
1 AACC-TAAACCCTTAACTTAAAAACCCT-A----AACCCTTAACTTAAA
* * * *
15508792 AACCTTAACCCTTAAATTCAAAACCTTAAACCCTTAACTTAAA
1 AACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
15508835 AACCATAAACCCTTAACCTAAAAACCCT-AACCCTTAACTTAAA
1 AACC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
15508878 AACTCTAAACCCTTAACCTAAAAACCCTAAACCCTTAAATTAAA
1 AAC-CTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
15508922 AACCATAAACCCTTAACTTAAAAATCCT-AACCTTTAAATTAAA
1 AACC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * ** *
15508965 ACCCT-AACACTTAACTTAAAAATCTTAAAATCTTAAATTAAA
1 AACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
15509007 AACCCTAAA-CCTTAAAACTTTAAAACTCTAAACCCTTAAATTAAA
1 AA-CCTAAACCCTT--AACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
15509052 ACCCTAAACTCTTAACTTAAAAATCCT-AACTCTTAACTTTAAA
1 AACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAC-TTAAA
* * * *
15509095 ACCCTAAACCTTTAACTTAAAAACCGT-AACCCTTAAATTAAA
1 AACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * ** *
15509137 AACCCTAAACCTTTAAATTTTAAACCATAAACCCTTAACTTAAA
1 AA-CCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
15509181 AACCCT-AACCCTTTAACTTAAAAACCCTAAACCTTTAACTTAAA
1 AA-CCTAAACCC-TTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
15509225 AACCCTAAACCCTTAAATTAAAAACCCTA
1 AA-CCTAAACCCTTAACTTAAAAACCCTA
15509254 TCCTTATTGG
Statistics
Matches: 393, Mismatches: 54, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
41 19 0.05
42 28 0.07
43 156 0.40
44 134 0.34
45 33 0.08
47 1 0.00
48 18 0.05
49 4 0.01
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.26
Consensus pattern (43 bp):
AACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
Found at i:15508921 original size:87 final size:87
Alignment explanation
Indices: 15508771--15509253 Score: 548
Period size: 87 Copynumber: 5.6 Consensus size: 87
15508761 TAAAAACCCT
* * * *
15508771 AACCCTAACCCTTAACTTAAAAA-CCTTAACCCTTAAATTCAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
* *
15508835 AACCATAAACCCTTAACCTAAA
66 AACCCTAAACCCTTAACTTAAA
* * ** *
15508857 AACCCTAACCCTTAACTTAAAAACTCTAAACCCTTAACCTAAAAACCCTAAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
*
15508922 AACCATAAACCCTTAACTTAAA
66 AACCCTAAACCCTTAACTTAAA
* * * * * * ** *
15508944 AATCCTAACCTTTAAATT-AAAACCCT-AACACTTAACTTAAAAATCTTAAAATCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
*
15509007 AACCCTAAA-CCTTAAAACTTTAA
66 AACCCTAAACCCTT--AACTTAAA
* * * * * *
15509030 AACTCTAAACCCTTAAATT-AAAACCCTAAACTCTTAACTTAAAAATCCT-AACTCTTAACTTTA
1 AACCCT-AACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
*
15509093 AAACCCTAAACCTTTAACTTAAA
65 AAACCCTAAACCCTTAACTTAAA
* * ** *
15509116 AACCGTAACCCTTAAATTAAAAACCCTAAACCTTTAAATTTTAAACCATAAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
15509181 AACCCT-AACCCTTTAACTTAAA
66 AACCCTAAACCC-TTAACTTAAA
* *
15509203 AACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTA
1 AACCCT-AACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTA
15509254 TCCTTATTGG
Statistics
Matches: 338, Mismatches: 49, Indels: 18
0.83 0.12 0.04
Matches are distributed among these distances:
84 4 0.01
85 51 0.15
86 79 0.23
87 144 0.43
88 60 0.18
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (87 bp):
AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
AACCCTAAACCCTTAACTTAAA
Found at i:15510594 original size:127 final size:124
Alignment explanation
Indices: 15510302--15510869 Score: 841
Period size: 127 Copynumber: 4.5 Consensus size: 124
15510292 CAAACATGCT
* *
15510302 ACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * * * * *
15510367 GAAGCG-ATTTTATACTATTTGCTCAGGAACGTCAAGTCGAAATTATTTTTCCAGGACCT
66 GAAGCGTTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCA-GACCA
15510426 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * *
15510491 GAAGCGTTTTTTAAAACTATTTACTCAGAATCGTAAACTCGAAATTATTTCTTCTAGTACCA
66 GAAGCGTTTTTT-AAACTATTTACTCAGAAACGTCAACTCGAAATTATTT-TTCCAG-ACCA
15510553 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
15510618 GAAGCGTTTTTTAAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCA
66 GAAGCGTTTTTT-AAACTATTTACTCAGAAACGTCAACTCGAAATTATTT-TTCC-AGACCA
* *
15510680 ACTGTAGCAAAAGCGCGTCCATGGGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * * * *
15510745 AAAGCATTTTTTTAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCACGACCT
66 GAAGCGTTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCA-GACCA
* * * * * *
15510805 ACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
15510870 TGATTTTATC
Statistics
Matches: 409, Mismatches: 29, Indels: 11
0.91 0.06 0.02
Matches are distributed among these distances:
124 70 0.17
125 69 0.17
126 67 0.16
127 201 0.49
128 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
GAAGCGTTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGACCA
Found at i:15514943 original size:8 final size:8
Alignment explanation
Indices: 15514926--15514974 Score: 50
Period size: 7 Copynumber: 6.4 Consensus size: 8
15514916 TTAAGATTTC
15514926 AAAATATAA
1 AAAAT-TAA
15514935 AAAATTAA
1 AAAATTAA
15514943 AAAATT-A
1 AAAATTAA
*
15514950 AAAA-TAT
1 AAAATTAA
*
15514957 CAAATTAA
1 AAAATTAA
15514965 AAAA-TAA
1 AAAATTAA
15514972 AAA
1 AAA
15514975 TTGAATTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 1 0.03
7 14 0.41
8 14 0.41
9 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATTAA
Found at i:15516883 original size:17 final size:17
Alignment explanation
Indices: 15516841--15516887 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
15516831 AATTCAATTT
15516841 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
15516857 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
15516875 TAATATAAATAAT
1 TAATATAAATAAT
15516888 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:15517510 original size:9 final size:9
Alignment explanation
Indices: 15517493--15517523 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15517483 TCGAGTTGAT
15517493 TCGAATAAC
1 TCGAATAAC
*
15517502 TCGATTAAC
1 TCGAATAAC
15517511 TCGAATAAC
1 TCGAATAAC
15517520 TCGA
1 TCGA
15517524 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15526396 original size:28 final size:28
Alignment explanation
Indices: 15526349--15526539 Score: 163
Period size: 28 Copynumber: 6.8 Consensus size: 28
15526339 TATTGCCATG
* *
15526349 AGGCTTTCTTTTTTAGAGGTTGCCACAA
1 AGGCTTTCCTTTGTAGAGGTTGCCACAA
* * *
15526377 AGGCTTTCCTTTATAAAGGTTTCCTACAA
1 AGGCTTTCCTTTGTAGAGGTTGCC-ACAA
* *
15526406 AGGTTTTCCTTTGTAGAGGTTTGCCATAA
1 AGGCTTTCCTTTGTAGAGG-TTGCCACAA
*
15526435 AGGCTTTCC-TTGCAGAGGTTCGCCACAA
1 AGGCTTTCCTTTGTAGAGGTT-GCCACAA
* * *
15526463 AGGC-TTCCTCTGTAGAGGTTCGCCATAG
1 AGGCTTTCCTTTGTAGAGGTT-GCCACAA
** * * *
15526491 AGATTTTCCTTTGCAGAGTTTTTCCACAA
1 AGGCTTTCCTTTGTAGAG-GTTGCCACAA
*
15526520 AGGCTTTCCTTT-TGGAGGTT
1 AGGCTTTCCTTTGTAGAGGTT
15526540 TACTATCAAG
Statistics
Matches: 128, Mismatches: 29, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
27 8 0.06
28 58 0.45
29 56 0.44
30 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (28 bp):
AGGCTTTCCTTTGTAGAGGTTGCCACAA
Found at i:15526452 original size:85 final size:85
Alignment explanation
Indices: 15526363--15526530 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
15526353 TTTCTTTTTT
* * * *
15526363 AGAGGTT-GCCACAAAGGCTTTCCTTTATAAAGGTTTC-CTACAAAGGTTTTCCTTTGTAGAGGT
1 AGAGGTTCGCCACAAAGGC-TTCCTCTATAAAGG-TTCGCCACAAAGATTTTCCTTTGCAGAGGT
*
15526426 TTGCCATAAAGGCTTTCCTTGC
64 TTGCCACAAAGGCTTTCCTTGC
* * * * *
15526448 AGAGGTTCGCCACAAAGGCTTCCTCTGTAGAGGTTCGCCATAGAGATTTTCCTTTGCAGAGTTTT
1 AGAGGTTCGCCACAAAGGCTTCCTCTATAAAGGTTCGCCACAAAGATTTTCCTTTGCAGAGGTTT
*
15526513 TCCACAAAGGCTTTCCTT
66 GCCACAAAGGCTTTCCTT
15526531 TTGGAGGTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 3 0.04
85 56 0.80
86 11 0.16
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (85 bp):
AGAGGTTCGCCACAAAGGCTTCCTCTATAAAGGTTCGCCACAAAGATTTTCCTTTGCAGAGGTTT
GCCACAAAGGCTTTCCTTGC
Found at i:15526595 original size:28 final size:29
Alignment explanation
Indices: 15526552--15526616 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
15526542 CTATCAAGAG
15526552 TTTCCTTTGCAAAGTTTTGCCACAAAATA
1 TTTCCTTTGCAAAGTTTTGCCACAAAATA
* ** *
15526581 TTTCCTTT-CAGAGTTTTGTTACAAAATC
1 TTTCCTTTGCAAAGTTTTGCCACAAAATA
*
15526609 TTTTCTTT
1 TTTCCTTT
15526617 TTCTAGCGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (29 bp):
TTTCCTTTGCAAAGTTTTGCCACAAAATA
Found at i:15539236 original size:34 final size:35
Alignment explanation
Indices: 15539184--15539250 Score: 111
Period size: 34 Copynumber: 1.9 Consensus size: 35
15539174 CTGAGTTAGA
15539184 AAAAATGAAAAATGAAAAAATGAAAAAG-AAAATG
1 AAAAATGAAAAATGAAAAAATGAAAAAGTAAAATG
15539218 AAAAA-GAAAAATGAAAAAAATGAAAAAGTAAAA
1 AAAAATGAAAAATG-AAAAAATGAAAAAGTAAAA
15539251 ATAGAGAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 8 0.26
34 19 0.61
35 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.10
Consensus pattern (35 bp):
AAAAATGAAAAATGAAAAAATGAAAAAGTAAAATG
Found at i:15539244 original size:8 final size:7
Alignment explanation
Indices: 15539184--15539235 Score: 74
Period size: 7 Copynumber: 7.7 Consensus size: 7
15539174 CTGAGTTAGA
15539184 AAAAATG
1 AAAAATG
15539191 AAAAATG
1 AAAAATG
15539198 AAAAAATG
1 -AAAAATG
15539206 AAAAA-G
1 AAAAATG
15539212 -AAAATG
1 AAAAATG
15539218 AAAAA-G
1 AAAAATG
15539224 AAAAATG
1 AAAAATG
15539231 AAAAA
1 AAAAA
15539236 AATGAAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.10
6 8 0.20
7 22 0.54
8 7 0.17
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:15540636 original size:44 final size:44
Alignment explanation
Indices: 15540567--15540944 Score: 198
Period size: 44 Copynumber: 8.1 Consensus size: 44
15540557 TGTAAGGAAA
* * *
15540567 CAGATTTAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
** *
15540611 CAGATTGAAGCTATTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
** * * *
15540655 C-GAATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAG-ATTGAAGCTAGAA--ATCCTATCTCCCTGAGA-TTAC---AGCG--GA--G
*
15540706 CATCAGATTGAAGCCAGAAAT-CTCATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCCT-ATCTCCCTGAGATTACAGCGGAG
* * *
15540753 TAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
** * * *
15540797 CAGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCG
1 CAGATTGAAGCTAGAA--ATCCTATCTCCCTGAGA-TTAC---AGCG--GA--G
* * *
15540848 CATCAGATTGAAGCCAGAAAT-CTCATCTCCCTGAGATTATAACGGAG
1 ---CAGATTGAAGCTAGAAATCCT-ATCTCCCTGAGATTACAGCGGAG
* *
15540895 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
*
15540939 CGGATT
1 CAGATT
15540945 AAAATAAAGG
Statistics
Matches: 253, Mismatches: 43, Indels: 76
0.68 0.12 0.20
Matches are distributed among these distances:
42 2 0.01
43 11 0.04
44 159 0.63
45 4 0.02
47 8 0.03
49 8 0.03
51 7 0.03
53 2 0.01
54 39 0.15
55 9 0.04
56 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:15540823 original size:142 final size:141
Alignment explanation
Indices: 15540567--15540995 Score: 750
Period size: 142 Copynumber: 3.0 Consensus size: 141
15540557 TGTAAGGAAA
* * *
15540567 CAGATTTAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTATTAATCCT
1 CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
15540632 ATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCG-ATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
15540697 AGTAGATCGCAT
130 AGTAGATCGCAT
*
15540709 CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
15540774 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGC-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
15540839 AGAAGATCGCAT
130 AGTAGATCGCAT
* *
15540851 CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTATAACGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
15540916 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAA
66 ATCTCCCTGAGATTACAGTGGAGC-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
15540981 AGTAGATCGTAT
130 AGTAGATCGCAT
15540993 CAG
1 CAG
15540996 GTCTTATCTC
Statistics
Matches: 274, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
142 273 1.00
143 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (141 bp):
CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCAT
Found at i:15541115 original size:50 final size:50
Alignment explanation
Indices: 15541060--15541736 Score: 190
Period size: 50 Copynumber: 13.5 Consensus size: 50
15541050 TCCCAAGCAG
* * *
15541060 TGCAGTGGAATAGATTAAAGCCACAACGATGAATTTTGCCTCCCTGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACAT
* * * ** *
15541110 TGCAGTTAAAAAGATTAAAGCTAC-A-GTAGTGAATCTTACCTCCCTGGTAG
1 TGCAGTGAAAAAGATTAAAGCCACAACG-A-TGAATCTTGCCTCCCTGACAT
* * * * * * *
15541160 TGTAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCGTCCCTGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACAT
* ** * * *
15541210 TGCAGTTAAAAAGATTAAAGCTGC-A-GTAGCGAATCTT-ACTCCCTAGGCGA-
1 TGCAGTGAAAAAGATTAAAGCCACAACG-A-TGAATCTTGCCTCCCT-GAC-AT
* * * * * * *
15541260 TGCAGCGGAACAGATTAAAACCACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACAT
* * * * * *
15541310 TACAGTTAAAAAGATTAAAGCTACAAC-A-GCAAATCTT-ACTCCCCAGGCGA-
1 TGCAGTGAAAAAGATTAAAGCCACAACGATG--AATCTTGCCT-CCCTGAC-AT
* ** * * *
15541360 TGCAGCGAAGCAGATTAAAGCCACAAATG-TGAATCTTG-CTACCCCGATAT
1 TGCAGTGAAAAAGATTAAAGCCAC-AACGATGAATCTTGCCT-CCCTGACAT
* * * * ** * * *
15541410 TGCAGTTAAAAAGATTAAAGCTACAGC-AGCGAATCTAACCTCCCAGGCAA
1 TGCAGTGAAAAAGATTAAAGCCACAACGA-TGAATCTTGCCTCCCTGACAT
* ** * * * *
15541460 TGCAGTGGAGCAGATTAAAACCACAATG--GCATATCTTG-CTTCCTCGAGAT
1 TGCAGTGAAAAAGATTAAAGCCACAACGATG-A-ATCTTGCCTCCCT-GACAT
* * * * ** * * * * * *
15541510 TGTAGTTAAAAAGACTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAA
1 TGCAGTGAAAAAGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACAT
* ** * **
15541560 TACAGTGAAGCAGATTAAAGCCACAACGGTGAATCTTG-CTTTCTCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACAACGATGAATCTTGCCTCCCT-GACAT
* * * * * *
15541610 TGCAGAT-AAAAGGATTAAAGTCACAACGACGAATC-T-CACTCGCTCAGCTAG
1 TGCAG-TGAAAAAGATTAAAGCCACAACGATGAATCTTGC-CTCCCTGA-C-AT
* ** * * *
15541661 TGTAGTAGAGCAA-ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGT-GAAAAAGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACAT
* * * *
15541711 TTCAGTTAAAAAGATTGAAGCTACAA
1 TGCAGTGAAAAAGATTAAAGCCACAA
15541737 AGCTACGAAT
Statistics
Matches: 422, Mismatches: 163, Indels: 84
0.63 0.24 0.13
Matches are distributed among these distances:
48 4 0.01
49 24 0.06
50 340 0.81
51 42 0.10
52 11 0.03
53 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (50 bp):
TGCAGTGAAAAAGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACAT
Found at i:15541215 original size:100 final size:97
Alignment explanation
Indices: 15541042--15541735 Score: 606
Period size: 100 Copynumber: 6.9 Consensus size: 97
15541032 AGAATTATAG
* * * *
15541042 ATCTTATCTCCCAAGCAGTGCAGTGGAATAGATTAAAGCCACAACGATGAATTTTGCCTCCCTGA
1 ATCTTA-CTCCC-AGGAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCTGA
* *
15541107 CATTGCAGTTAAAAAGATTAAAGCTACAGTAGTGA
63 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
15541142 ATCTTACCTCCCTGGTAGTGTAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCGTCCCTGA
1 ATCTTA-CTCCCAGG-AGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TCCCTGA
* *
15541207 CATTGCAGTTAAAAAGATTAAAGCTGCAGTAGCGA
63 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
15541242 ATCTTACTCCCTAGGCGATGCAGCGGAACAGATTAAAACCACAACGGTGAATCTTGCTTCCCCGA
1 ATCTTACTCCC-AGGAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TCCCTGA
* * *
15541307 CATTACAGTTAAAAAGATTAAAGCTACAACAGCAA
63 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * ** *
15541342 ATCTTACTCCCCAGGCGATGCAG-CGAAGCAGATTAAAGCCACAAATGTGAATCTTGCTACCCCG
1 ATCTTACT-CCCAGGAG-TGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCT-CCCTG
*
15541406 ATATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
62 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * * * *
15541442 ATCTAACCTCCCAGGCAATGCAGTGGAGCAGATTAAAACCACAATGG-CATATCTTGCTTCCTCG
1 ATCTTA-CTCCCAGG-AGTGCAGTGGAACAGATTAAAGCCACAACGGTGA-ATCTTGCTCCCT-G
* * * * *
15541506 AGATTGTAGTTAAAAAGACTAAAGCCACAGCGGCGA
62 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * * **
15541542 GTGTTACTTCCCTGGCAATACAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCTCG
1 ATCTTAC-TCCCAGG-AGTGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCTCCCT-G
* * *
15541606 ACATTGCAGATAAAAGGATTAAAG-TCACAAC-GACGA
62 ACATTGCAGTTAAAAAGATTAAAGCT-ACAGCAG-CGA
* * * * * * *
15541642 ATCTCACTCGCTCAGCTAGTGTAGTAGAGCAAATTAAAGCCACAACGGTGAATCTTGCTTCCCCG
1 ATCTTACTC-C-CAG-GAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TCCCTG
* *
15541707 ACATTTCAGTTAAAAAGATTGAAGCTACA
62 ACATTGCAGTTAAAAAGATTAAAGCTACA
15541736 AAGCTACGAA
Statistics
Matches: 488, Mismatches: 83, Indels: 45
0.79 0.13 0.07
Matches are distributed among these distances:
99 21 0.04
100 395 0.81
101 67 0.14
102 5 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (97 bp):
ATCTTACTCCCAGGAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCCCTGACAT
TGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:15541414 original size:200 final size:198
Alignment explanation
Indices: 15541060--15541736 Score: 673
Period size: 200 Copynumber: 3.4 Consensus size: 198
15541050 TCCCAAGCAG
* * * * * *
15541060 TGCAGTGGAATAGATTAAAGCCACAACGATGAATTTTGCCTCCCTGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAACCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
** * * * * * * *
15541125 TAAAGCTACAGTAGTGAATCTTAC-CTCCCTGGTAGTGTAGTGGAA-CAGATTAAAGTCACATCG
66 TAAAGCTACAACAGCGAATCTTACTC-CCCTGGCAATGCAG-CGAAGCAGATTAAAGCCACAACG
* * *
15541188 GTGAATCTTGCGTCCCTGACATTGCAGTTAAAAAGATTAAAGCTGCAGTAGCGAATCTTACTCCC
129 GTGAATCTTGC-TCCCCGACATTGCAGTTAAAAAGATTAAAGCT-CAGAAGCGAATCTAACTCCC
*
15541253 TAGGCGA
192 TAGGCAA
* *
15541260 TGCAGCGGAACAGATTAAAACCACAACGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAACCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * * **
15541325 TAAAGCTACAACAGCAAATCTTACTCCCCAGGCGATGCAGCGAAGCAGATTAAAGCCACAAATGT
66 TAAAGCTACAACAGCGAATCTTACTCCCCTGGCAATGCAGCGAAGCAGATTAAAGCCACAACGGT
* *
15541390 GAATCTTGCTACCCCGATATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGAATCTAACCTCCC-
131 GAATCTTGCT-CCCCGACATTGCAGTTAAAAAGATTAAAGCT-CAGAAGCGAATCTAA-CTCCCT
15541454 AGGCAA
193 AGGCAA
* * * * * *
15541460 TGCAGTGGAGCAGATTAAAACCACAATGG-CATATCTTGCTTCCTCGAGATTGTAGTTAAAAAGA
1 TGCAGTGGAACAGATTAAAACCACAACGGTGA-ATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* * * * * * * * *
15541524 CTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATACAGTGAAGCAGATTAAAGCCACAACGG
65 TTAAAGCTACAACAGCGAATCTTACTCCCCTGGCAATGCAGCGAAGCAGATTAAAGCCACAACGG
* * * * * * *
15541589 TGAATCTTGCTTTCTCGACATTGCAGATAAAAGGATTAAAG-TCACAACGACGAATCTCACTCGC
130 TGAATCTTGC-TCCCCGACATTGCAGTTAAAAAGATTAAAGCTCAGAA-G-CGAATCTAACTCCC
*
15541653 TCA-GCTAG
192 T-AGGC-AA
* * * * * *
15541661 TGTAGTAGAGCAAATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTTCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAACCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
*
15541726 TGAAGCTACAA
66 TAAAGCTACAA
15541737 AGCTACGAAT
Statistics
Matches: 391, Mismatches: 74, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
198 3 0.01
199 11 0.03
200 307 0.79
201 69 0.18
202 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (198 bp):
TGCAGTGGAACAGATTAAAACCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAACAGCGAATCTTACTCCCCTGGCAATGCAGCGAAGCAGATTAAAGCCACAACGGT
GAATCTTGCTCCCCGACATTGCAGTTAAAAAGATTAAAGCTCAGAAGCGAATCTAACTCCCTAGG
CAA
Found at i:15548578 original size:16 final size:16
Alignment explanation
Indices: 15548557--15548587 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15548547 TTCACTAATA
*
15548557 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
15548573 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
15548588 ACATTCGTAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:15549763 original size:19 final size:19
Alignment explanation
Indices: 15549739--15549778 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15549729 ATTAATTTTG
15549739 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
15549758 ATCAAGTCAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
15549777 AT
1 AT
15549779 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:15550749 original size:12 final size:12
Alignment explanation
Indices: 15550725--15550781 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 12
15550715 GATCATTGAG
15550725 TTTATTTATTTT
1 TTTATTTATTTT
15550737 TTTAGTTTATTTT
1 TTTA-TTTATTTT
15550750 TATT-TTTATTTT
1 T-TTATTTATTTT
15550762 TATT-TTTAGTTGTT
1 T-TTATTTA-TT-TT
15550776 TTTATT
1 TTTATT
15550782 GTTACTTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
12 20 0.50
13 13 0.32
14 7 0.17
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:15550753 original size:6 final size:6
Alignment explanation
Indices: 15550725--15550769 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
15550715 GATCATTGAG
*
15550725 TTTATT TATT-TT TTTA-G TTTATT TTTATT TTTATT TTTATT TTTA
1 TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
15550770 GTTGTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 6 0.18
6 26 0.76
7 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:15550763 original size:18 final size:17
Alignment explanation
Indices: 15550723--15550769 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
15550713 AGGATCATTG
15550723 AGTTTATTTATT-TTTTT
1 AGTTTATTT-TTATTTTT
15550740 AGTTTATTTTTATTTTT
1 AGTTTATTTTTATTTTT
*
15550757 ATTTTTATTTTTA
1 A-GTTTATTTTTA
15550770 GTTGTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.07
17 15 0.56
18 10 0.37
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (17 bp):
AGTTTATTTTTATTTTT
Found at i:15550767 original size:29 final size:28
Alignment explanation
Indices: 15550725--15550781 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
15550715 GATCATTGAG
15550725 TTTATTTATTTTTTTAGTTTATTTTTATT
1 TTTATTTATTTTTTTAG-TTATTTTTATT
*
15550754 TTTATTT-TTATTTTTAGTTGTTTTTATT
1 TTTATTTATT-TTTTTAGTTATTTTTATT
15550782 GTTACTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (28 bp):
TTTATTTATTTTTTTAGTTATTTTTATT
Found at i:15557958 original size:18 final size:18
Alignment explanation
Indices: 15557935--15557981 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
15557925 CTTTTAGGTT
15557935 TATTTTTCTTTTATCTTC
1 TATTTTTCTTTTATCTTC
15557953 TATTTTTCTTTTATCTTC
1 TATTTTTCTTTTATCTTC
15557971 TATTTTTCTTT
1 TATTTTTCTTT
15557982 GGTATTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTCTTTTATCTTC
Found at i:15561564 original size:37 final size:37
Alignment explanation
Indices: 15561514--15561586 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
15561504 ACAACACTAA
*
15561514 GAGCTTTCAGTTTCCTAGAAATCCCCATATTTCAAGT
1 GAGCTTTCAGTTTCCTAGAAATCCACATATTTCAAGT
* * *
15561551 GAGC-TTCAAGTTTCCTGGACATCTACATATTTCAAG
1 GAGCTTTC-AGTTTCCTAGAAATCCACATATTTCAAG
15561587 GGAATACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 3 0.10
37 28 0.90
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (37 bp):
GAGCTTTCAGTTTCCTAGAAATCCACATATTTCAAGT
Found at i:15564362 original size:11 final size:11
Alignment explanation
Indices: 15564327--15564371 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
15564317 CCCTTTCCTC
*
15564327 TTATATTTTTCT
1 TTAT-TTTTTTT
* *
15564339 TTCTTTCTTTT
1 TTATTTTTTTT
15564350 TTATTTTTTTT
1 TTATTTTTTTT
15564361 TTATTTTTTTT
1 TTATTTTTTTT
15564372 CAAAAGTGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 25 0.89
12 3 0.11
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (11 bp):
TTATTTTTTTT
Found at i:15567124 original size:19 final size:20
Alignment explanation
Indices: 15567087--15567124 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15567077 AAATAAGCTC
*
15567087 TTAGGCTAGGCATTGACAAG
1 TTAGCCTAGGCATTGACAAG
15567107 TTAGCCTAGGCA-TGACAA
1 TTAGCCTAGGCATTGACAA
15567125 CCACATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
TTAGCCTAGGCATTGACAAG
Found at i:15575825 original size:22 final size:22
Alignment explanation
Indices: 15575800--15575844 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
15575790 ATTATGATGA
15575800 TTGATATGT-TGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
15575822 TTGATATGTATGCGATTATATT
1 TTGATATGTATGAGATTATATT
15575844 T
1 T
15575845 GTGTTGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:15578349 original size:21 final size:23
Alignment explanation
Indices: 15578320--15578361 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
15578310 CAGTGGCATC
15578320 GCAACCAAAC-AT-ACTTAATAT
1 GCAACCAAACAATAACTTAATAT
*
15578341 GCAATCAAACAATAACTTAAT
1 GCAACCAAACAATAACTTAAT
15578362 GAGTCGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (23 bp):
GCAACCAAACAATAACTTAATAT
Found at i:15580500 original size:27 final size:28
Alignment explanation
Indices: 15580416--15580513 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
15580406 CATGAGATTG
* * * *
15580416 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
15580445 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
15580473 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15580500 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
15580514 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15580524 original size:27 final size:27
Alignment explanation
Indices: 15580444--15580526 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
15580434 TAAATTGTAC
* *
15580444 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
15580472 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
15580499 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
15580526 A
1 A
15580527 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:15580527 original size:29 final size:27
Alignment explanation
Indices: 15580416--15580527 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
15580406 CATGAGATTG
** * *
15580416 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
15580445 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
15580473 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
15580500 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
15580528 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:15588450 original size:27 final size:28
Alignment explanation
Indices: 15588366--15588463 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
15588356 CATGAGATTG
* * * *
15588366 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
15588395 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
15588423 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15588450 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
15588464 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15588474 original size:27 final size:27
Alignment explanation
Indices: 15588394--15588476 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
15588384 TAAATTGTAC
* *
15588394 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
15588422 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
15588449 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
15588476 A
1 A
15588477 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:15588477 original size:29 final size:27
Alignment explanation
Indices: 15588366--15588477 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
15588356 CATGAGATTG
** * *
15588366 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
15588395 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
15588423 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
15588450 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
15588478 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:15605407 original size:22 final size:22
Alignment explanation
Indices: 15605379--15605423 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15605369 TTTTTGGAAG
15605379 ATTGAATTGGAAAAACCACATA
1 ATTGAATTGGAAAAACCACATA
*
15605401 ATTGAATTGGTAAAACCACATA
1 ATTGAATTGGAAAAACCACATA
15605423 A
1 A
15605424 GCTGCGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (22 bp):
ATTGAATTGGAAAAACCACATA
Found at i:15615950 original size:37 final size:37
Alignment explanation
Indices: 15615909--15615986 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
15615899 ACAATTAGTG
* * *
15615909 TGTTATCGGGTGGATTGGCTCTTATGAGC-ATCTGGCA
1 TGTTATCGAGTGGATTAGCTCTTACGAGCGAT-TGGCA
*
15615946 TGTTATTGAGTGGATTAGCTCTTACGAGCGATTGGCA
1 TGTTATCGAGTGGATTAGCTCTTACGAGCGATTGGCA
15615983 TGTT
1 TGTT
15615987 TCATTTAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 34 0.94
38 2 0.06
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (37 bp):
TGTTATCGAGTGGATTAGCTCTTACGAGCGATTGGCA
Found at i:15635569 original size:20 final size:20
Alignment explanation
Indices: 15635544--15635581 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15635534 CCCTAACCAA
15635544 AGGGTCCTTAAATATTACTT
1 AGGGTCCTTAAATATTACTT
15635564 AGGGTCCTTAAATATTAC
1 AGGGTCCTTAAATATTAC
15635582 ACTTTCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
AGGGTCCTTAAATATTACTT
Found at i:15637909 original size:59 final size:62
Alignment explanation
Indices: 15637838--15637954 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
15637828 ATCACTTTAA
* * ** * *
15637838 TATTAAATTAATATAATATTT-A-T-CAAGATAAATTTTAGATTGAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTAACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
15637897 TATTAAAATAATAGAATATTTAACTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTAACTACAAGATAAACATTAAATTAAATTTAATATTAA
15637955 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 19 0.39
60 1 0.02
61 1 0.02
62 28 0.57
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (62 bp):
TATTAAAATAATAGAATATTTAACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:15637980 original size:20 final size:18
Alignment explanation
Indices: 15637933--15637981 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
15637923 CAAGATAAAC
15637933 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
15637950 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
15637970 ATTAAATTAATA
1 ATTAAATTAATA
15637982 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:15638895 original size:16 final size:16
Alignment explanation
Indices: 15638874--15638904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15638864 CTATTTATAC
*
15638874 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
15638890 AAAATACAAAAGACA
1 AAAATACAAAAGACA
15638905 TTATAGTGAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:15639787 original size:24 final size:24
Alignment explanation
Indices: 15639739--15639785 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15639729 ACTGGTCATA
*
15639739 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
15639763 GAGAGATTTGAGGAGTGAATATT
1 GAGAGAATTGAGGAG-GAATATT
15639786 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:15640939 original size:27 final size:28
Alignment explanation
Indices: 15640883--15640984 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
15640873 ACCGGAACTG
*
15640883 TATTGGGCTAAGGCCCACATTGCTACTA
1 TATTGGGCTAAGGCCCACATTGTTACTA
15640911 TATTGGGCTAAGGCCCA-ATTGTTACTA
1 TATTGGGCTAAGGCCCACATTGTTACTA
* *
15640938 TAGTGGGCTAAGGCCCACATTGTTACTG
1 TATTGGGCTAAGGCCCACATTGTTACTA
*
15640966 TATTGGACTAAGGCCCACA
1 TATTGGGCTAAGGCCCACA
15640985 CTGTATTGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
27 25 0.37
28 43 0.63
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACATTGTTACTA
Found at i:15648775 original size:12 final size:12
Alignment explanation
Indices: 15648758--15648788 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15648748 GACATGCGGT
15648758 CGTGTCCCAACC
1 CGTGTCCCAACC
15648770 CGTGTCCCAACC
1 CGTGTCCCAACC
15648782 CGTGTCC
1 CGTGTCC
15648789 ATGCCCGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.48, G:0.19, T:0.19
Consensus pattern (12 bp):
CGTGTCCCAACC
Found at i:15653870 original size:11 final size:13
Alignment explanation
Indices: 15653842--15653873 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
15653832 TAGAACAATC
15653842 AAAAATAATTTGT
1 AAAAATAATTTGT
15653855 AAAAATAA-TT-T
1 AAAAATAATTTGT
15653866 AAAAATAA
1 AAAAATAA
15653874 GATTTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 2 0.11
13 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAATAATTTGT
Found at i:15656067 original size:15 final size:15
Alignment explanation
Indices: 15656043--15656126 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 15
15656033 CAAACATAAT
*
15656043 AGAACCGAATAGAGC
1 AGAACAGAATAGAGC
* **
15656058 AGAACAGAATAAAAT
1 AGAACAGAATAGAGC
* **
15656073 GGAACAGAGCAGAGC
1 AGAACAGAATAGAGC
* * *
15656088 A-ATACTGAACAGAAC
1 AGA-ACAGAATAGAGC
15656103 AGAACAGAATAGAGC
1 AGAACAGAATAGAGC
*
15656118 AGAGCAGAA
1 AGAACAGAA
15656127 CATAGCATAT
Statistics
Matches: 49, Mismatches: 18, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
14 1 0.02
15 47 0.96
16 1 0.02
ACGTcount: A:0.52, C:0.15, G:0.25, T:0.07
Consensus pattern (15 bp):
AGAACAGAATAGAGC
Found at i:15656120 original size:20 final size:20
Alignment explanation
Indices: 15656043--15656128 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
15656033 CAAACATAAT
* *
15656043 AGAACCGAATAGAGCAGAAC
1 AGAACAGAATAGAACAGAAC
* * * *
15656063 AGAATAAAATGGAACAGAGC
1 AGAACAGAATAGAACAGAAC
*
15656083 AGAGC--AATACTGAACAGAAC
1 AGAACAGAATA--GAACAGAAC
* *
15656103 AGAACAGAATAGAGCAGAGC
1 AGAACAGAATAGAACAGAAC
15656123 AGAACA
1 AGAACA
15656129 TAGCATATAT
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
18 3 0.06
20 42 0.86
22 4 0.08
ACGTcount: A:0.52, C:0.16, G:0.24, T:0.07
Consensus pattern (20 bp):
AGAACAGAATAGAACAGAAC
Found at i:15657267 original size:42 final size:42
Alignment explanation
Indices: 15657107--15657268 Score: 146
Period size: 42 Copynumber: 3.9 Consensus size: 42
15657097 AGTGAGTTAA
* * * *
15657107 ACGGCCTGGACACACCCCCATGTCCTTGCCCGTGTGCCTCAC
1 ACGGCCTGGGCACACGCCTATGTCCTTGCCCGTGTGGCTCAC
* ** * * * * *
15657149 ATGATCTGGGAACACGCCTATGTCGTTGCCCATGTTGTTCAC
1 ACGGCCTGGGCACACGCCTATGTCCTTGCCCGTGTGGCTCAC
* * * *
15657191 ATGGCCTAGGCACACGCCTAT-ACCATTGCTCGTGTGGCTCAC
1 ACGGCCTGGGCACACGCCTATGTCC-TTGCCCGTGTGGCTCAC
* *
15657233 ACGGCCTGGGCACACGCCTATGTCCCTGGCCGTGTG
1 ACGGCCTGGGCACACGCCTATGTCCTTGCCCGTGTG
15657269 TTTCTAAAAC
Statistics
Matches: 90, Mismatches: 28, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
41 1 0.01
42 87 0.97
43 2 0.02
ACGTcount: A:0.16, C:0.35, G:0.25, T:0.23
Consensus pattern (42 bp):
ACGGCCTGGGCACACGCCTATGTCCTTGCCCGTGTGGCTCAC
Found at i:15657344 original size:42 final size:42
Alignment explanation
Indices: 15657297--15657379 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
15657287 CGAGTTACAC
*
15657297 AGCCTGGA-TACACACCCATGTCCCTACCCATGTGGCTCACAT
1 AGCCT-GACTACACACCCATGTCCCTACCCATATGGCTCACAT
* * * **
15657339 AGCCTGACTGCACGCCCGTGTCCCTGGCCATATGGCTCACA
1 AGCCTGACTACACACCCATGTCCCTACCCATATGGCTCACA
15657380 CGATCTCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.20
Consensus pattern (42 bp):
AGCCTGACTACACACCCATGTCCCTACCCATATGGCTCACAT
Found at i:15669023 original size:22 final size:22
Alignment explanation
Indices: 15668944--15669010 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
15668934 AGAATATTAG
* * * *
15668944 GCACCGAAGTCCAAATCACTAA
1 GCACCAAAGTGCAAAACAGTAA
* * *
15668966 GCATCGAAGTGCAAAACAGTAG
1 GCACCAAAGTGCAAAACAGTAA
15668988 GCACCAAAGTGCAAAACAGTAA
1 GCACCAAAGTGCAAAACAGTAA
15669010 G
1 G
15669011 TGCTAAAGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (22 bp):
GCACCAAAGTGCAAAACAGTAA
Found at i:15672161 original size:50 final size:50
Alignment explanation
Indices: 15672053--15672294 Score: 295
Period size: 50 Copynumber: 4.7 Consensus size: 50
15672043 ACATGTCAAA
* ** * * *
15672053 GCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAC
**
15672104 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
15672154 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
15672204 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAC
* * *
15672260 GTCATGTCCCAGATATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15672295 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 96 0.57
51 27 0.16
53 4 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:15682282 original size:29 final size:30
Alignment explanation
Indices: 15682240--15682299 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
15682230 GAATTATTTG
* *
15682240 TAAAATTTTGTTGT-TCTTTTTGTAAATAT
1 TAAAAATTAGTTGTCTCTTTTTGTAAATAT
15682269 TAAAAATTAGTTGTCTCTTTTTGTAAATAT
1 TAAAAATTAGTTGTCTCTTTTTGTAAATAT
15682299 T
1 T
15682300 TTTAAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (30 bp):
TAAAAATTAGTTGTCTCTTTTTGTAAATAT
Found at i:15682386 original size:16 final size:15
Alignment explanation
Indices: 15682359--15682392 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
15682349 ATAACTAGTA
*
15682359 TATAATTATATTTAT
1 TATAATTATATTAAT
15682374 TATAATATATATTAAT
1 TATAAT-TATATTAAT
15682390 TAT
1 TAT
15682393 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:15687450 original size:9 final size:9
Alignment explanation
Indices: 15687436--15687464 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
15687426 GCATTGGAAC
15687436 TTTTTTTAT
1 TTTTTTTAT
15687445 TTTTTTTAT
1 TTTTTTTAT
15687454 TTTTTTTAT
1 TTTTTTTAT
15687463 TT
1 TT
15687465 CACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:15696856 original size:21 final size:20
Alignment explanation
Indices: 15696829--15696882 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
15696819 TCTAAGAAAA
*
15696829 TAAAAATAAAACAACTATAAGC
1 TAAAAATAAAA-AAATA-AAGC
15696851 -AAAAATAGAAAAAATAAAGC
1 TAAAAATA-AAAAAATAAAGC
15696871 TAAAAATAAAAA
1 TAAAAATAAAAA
15696883 TAAAATCAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 8 0.28
21 18 0.62
22 3 0.10
ACGTcount: A:0.72, C:0.07, G:0.06, T:0.15
Consensus pattern (20 bp):
TAAAAATAAAAAAATAAAGC
Found at i:15698534 original size:12 final size:12
Alignment explanation
Indices: 15698517--15698561 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
15698507 CAATAAAAAT
* *
15698517 AAATAAGCATAG
1 AAATAAGAATAA
15698529 AAATAAGAATAA
1 AAATAAGAATAA
15698541 AAAT-A-AATAA
1 AAATAAGAATAA
15698551 AAATAA-AATAA
1 AAATAAGAATAA
15698562 TGAGGAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 9 0.30
11 7 0.23
12 14 0.47
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (12 bp):
AAATAAGAATAA
Found at i:15698539 original size:28 final size:28
Alignment explanation
Indices: 15698470--15698550 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
15698460 AGAAAAACAA
* *
15698470 ATAGAAAGAATAATAAGAAA-AAA-AAGC
1 ATAGAAATAACAATAA-AAATAAATAAGC
*
15698497 ATGATAAAT-ACAATAAAAATAAATAAGC
1 AT-AGAAATAACAATAAAAATAAATAAGC
*
15698525 ATAGAAATAAGAATAAAAATAAATAA
1 ATAGAAATAACAATAAAAATAAATAA
15698551 AAATAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.07
27 16 0.36
28 26 0.58
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.17
Consensus pattern (28 bp):
ATAGAAATAACAATAAAAATAAATAAGC
Found at i:15702308 original size:17 final size:18
Alignment explanation
Indices: 15702276--15702311 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
15702266 CCGTGTGGTT
15702276 CACCTGTGTGGGCCCACA
1 CACCTGTGTGGGCCCACA
15702294 CACCTGTGT-GGCCCACA
1 CACCTGTGTGGGCCCACA
15702311 C
1 C
15702312 GGCCTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.17
Consensus pattern (18 bp):
CACCTGTGTGGGCCCACA
Found at i:15716616 original size:11 final size:11
Alignment explanation
Indices: 15716599--15716641 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
15716589 AATCATTTAA
15716599 TAATAAAATAT
1 TAATAAAATAT
* *
15716610 TACTAAAAATCT
1 TAAT-AAAATAT
15716622 TAATAAAATAT
1 TAATAAAATAT
15716633 TAAATAAAA
1 T-AATAAAA
15716642 AACATTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:15719192 original size:5 final size:5
Alignment explanation
Indices: 15719177--15719223 Score: 85
Period size: 5 Copynumber: 9.2 Consensus size: 5
15719167 AATTGAATAA
15719177 TATTAC TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC T
1 TATT-C TATTC TATTC TATTC TATTC TATTC TATTC TATTC TATTC T
15719224 TATATTTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTC
Found at i:15720688 original size:18 final size:18
Alignment explanation
Indices: 15720661--15720697 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15720651 TCATTGCACT
* *
15720661 ATTTTCAAACCATTTCAA
1 ATTTTAAAACCAATTCAA
15720679 ATTTTAAAACCAATTCAA
1 ATTTTAAAACCAATTCAA
15720697 A
1 A
15720698 ACAGTACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTTTAAAACCAATTCAA
Found at i:15721506 original size:22 final size:22
Alignment explanation
Indices: 15721476--15721518 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15721466 TAATAGGACA
* *
15721476 GTAGGCACCGTAGTGCAAAATT
1 GTAGCCACCGAAGTGCAAAATT
15721498 GTAGCCACCGAAGTGCAAAAT
1 GTAGCCACCGAAGTGCAAAAT
15721519 GATAAGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (22 bp):
GTAGCCACCGAAGTGCAAAATT
Found at i:15723616 original size:31 final size:30
Alignment explanation
Indices: 15723581--15723639 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15723571 CACCCTTAAA
** *
15723581 ATATTTACACTATTGGCCCTTCAATTTTTTT
1 ATATTTACACT-TTAACCCTTCAAATTTTTT
*
15723612 ATATTTTCACTTTAACCCTTCAAATTTT
1 ATATTTACACTTTAACCCTTCAAATTTT
15723640 GATTATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.51
Consensus pattern (30 bp):
ATATTTACACTTTAACCCTTCAAATTTTTT
Found at i:15723789 original size:20 final size:19
Alignment explanation
Indices: 15723764--15723802 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
15723754 AACTTCTCCA
15723764 CATTTTATCACTTTTATTTC
1 CATTTTATCAC-TTTATTTC
* *
15723784 CATTTTTTCTCTTTATTTC
1 CATTTTATCACTTTATTTC
15723803 ACTTTATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (19 bp):
CATTTTATCACTTTATTTC
Found at i:15724547 original size:28 final size:27
Alignment explanation
Indices: 15724483--15724547 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
15724473 TATTCAGTAT
*
15724483 CAGTACAGTGTGGGCCTTAGCCCAATA
1 CAGTACAGTGTGGGCCTAAGCCCAATA
* **
15724510 TAAAAACAGTGTGGGCCTAAGCCCAATA
1 -CAGTACAGTGTGGGCCTAAGCCCAATA
15724538 CAGTATCAGT
1 CAGTA-CAGT
15724548 ATGGTGCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (27 bp):
CAGTACAGTGTGGGCCTAAGCCCAATA
Found at i:15724854 original size:2 final size:2
Alignment explanation
Indices: 15724847--15724890 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
15724837 AGTAACAGTC
15724847 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
15724889 AT
1 AT
15724891 TTATCATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15724969 original size:27 final size:27
Alignment explanation
Indices: 15724928--15725081 Score: 175
Period size: 27 Copynumber: 5.7 Consensus size: 27
15724918 ACCCTAACGG
* * *
15724928 GGGTATTACGGTAATTTTACCCATTGG
1 GGGTATTTCGATAATTTTACCCATTGA
* * *
15724955 GGGTATTTCGATAATTTAACCTATCGA
1 GGGTATTTCGATAATTTTACCCATTGA
15724982 GGGTATTTCGATAATTTTACCC-TTCGA
1 GGGTATTTCGATAATTTTACCCATT-GA
* * *
15725009 GGATATTTCAATAATTTTACTCATTGA
1 GGGTATTTCGATAATTTTACCCATTGA
* * **
15725036 GGGTATTTCTATAATTTTTCCCATCAA
1 GGGTATTTCGATAATTTTACCCATTGA
15725063 GGGTATTTCGATAATTTTA
1 GGGTATTTCGATAATTTTA
15725082 GGCCCATTAC
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 102 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATTGA
Found at i:15733356 original size:27 final size:26
Alignment explanation
Indices: 15733317--15733577 Score: 279
Period size: 27 Copynumber: 9.7 Consensus size: 26
15733307 CCCTTACGGG
* *
15733317 GGTATTACAGTAATTTTACCCATCGGA
1 GGTATTTCGGTAATTTTACCCATC-GA
*
15733344 GGTATTTCGGTAATTTTACCCATCTA
1 GGTATTTCGGTAATTTTACCCATCGA
* * *
15733370 GGATATTTCGATAATTTTACCCTTCGGG
1 GG-TATTTCGGTAATTTTACCCATC-GA
***
15733398 GGTATTTTAATAATTTTACCCATCGA
1 GGTATTTCGGTAATTTTACCCATCGA
* *
15733424 GGGTATTTCGATAATTTTACCCATCAA
1 -GGTATTTCGGTAATTTTACCCATCGA
* *
15733451 GGGTATTTCGTTAATTTTACCCATCAA
1 -GGTATTTCGGTAATTTTACCCATCGA
* *
15733478 GGGTATTTTGGTAATTTTACCCATCAA
1 -GGTATTTCGGTAATTTTACCCATCGA
*
15733505 GTGTATTTCAGTAATTTTACCCATCGA
1 G-GTATTTCGGTAATTTTACCCATCGA
* *
15733532 GAGTATTTCGATAATTTTACCCATCAA
1 G-GTATTTCGGTAATTTTACCCATCGA
15733559 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
15733578 GGCCCATTAA
Statistics
Matches: 204, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
26 5 0.02
27 196 0.96
28 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACCCATCGA
Found at i:15733439 original size:81 final size:81
Alignment explanation
Indices: 15733301--15733577 Score: 326
Period size: 81 Copynumber: 3.4 Consensus size: 81
15733291 CCTAGCAGTC
** *
15733301 ATTTTACCCTTACGGGGGTATTACAGTAATTTTACCCATCG-GAGGTATTTCGGTAATTTTACCC
1 ATTTTACCCTT-CGGGGGTATTTTAGTAATTTTACCCATCGAG-GGTATTTCGATAATTTTACCC
*
15733365 ATCTAGGATATTTCGATA
64 ATCAAGGATATTTCGATA
*
15733383 ATTTTACCCTTCGGGGGTATTTTAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
1 ATTTTACCCTTCGGGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
* *
15733448 CAAGGGTATTTCGTTA
66 CAAGGATATTTCGATA
* ** * * *
15733464 ATTTTACCCATCAAGGGTATTTTGGTAATTTTACCCATCAAGTGTATTTC-AGTAATTTTACCCA
1 ATTTTACCCTTCGGGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGA-TAATTTTACCCA
*
15733528 TCGA-GAGTATTTCGATA
65 TCAAGGA-TATTTCGATA
* ** **
15733545 ATTTTACCCATCAAGGGTATTTCGGTAATTTTA
1 ATTTTACCCTTCGGGGGTATTTTAGTAATTTTA
15733578 GGCCCATTAA
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
80 2 0.01
81 160 0.92
82 12 0.07
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (81 bp):
ATTTTACCCTTCGGGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
CAAGGATATTTCGATA
Found at i:15738507 original size:6 final size:6
Alignment explanation
Indices: 15738498--15738523 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15738488 TCTTTTCTTT
15738498 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
15738524 AATTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:15747167 original size:15 final size:14
Alignment explanation
Indices: 15747143--15747191 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
15747133 GGCCCAAATC
15747143 AAATAAATAAACAAA
1 AAATAAATAAA-AAA
*
15747158 AAATATATAAAAAA
1 AAATAAATAAAAAA
*
15747172 AATAAAAATAAAAACA
1 AA-ATAAATAAAAA-A
15747188 AAAT
1 AAAT
15747192 TATTAAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 5 0.18
15 20 0.71
16 3 0.11
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAATAAAAAA
Found at i:15747312 original size:26 final size:27
Alignment explanation
Indices: 15747271--15747322 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
15747261 CAAACAGATC
* *
15747271 CCAAATACCCACTTAACCTTGCCCAAA
1 CCAAATACCCAATTAACCTAGCCCAAA
15747298 CCAAA-ACCCAATTAACCTAGCCCAA
1 CCAAATACCCAATTAACCTAGCCCAA
15747323 CTAACGTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.40, C:0.40, G:0.04, T:0.15
Consensus pattern (27 bp):
CCAAATACCCAATTAACCTAGCCCAAA
Found at i:15748717 original size:28 final size:28
Alignment explanation
Indices: 15748685--15748762 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
15748675 CTCTTTCCAA
15748685 TATTTTAACATTTTAATTTATCTC-AACT
1 TATTTTAACATTTTAATTTAT-TCAAACT
* * *
15748713 TATTTCAATATTGTTAATTTATTCAAATT
1 TATTTTAACATT-TTAATTTATTCAAACT
*
15748742 TATTTTAACCTTTTAATTTAT
1 TATTTTAACATTTTAATTTAT
15748763 ACATATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.56
Consensus pattern (28 bp):
TATTTTAACATTTTAATTTATTCAAACT
Found at i:15750708 original size:2 final size:2
Alignment explanation
Indices: 15750701--15750730 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15750691 TTTTCAAATA
*
15750701 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15750731 CTTTTACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:15750802 original size:14 final size:14
Alignment explanation
Indices: 15750778--15750812 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15750768 TTTAAGCCTC
*
15750778 AAAATTCTTTTTTT
1 AAAATTTTTTTTTT
*
15750792 AGAATTTTTTTTTT
1 AAAATTTTTTTTTT
15750806 AAAATTT
1 AAAATTT
15750813 AACTTTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (14 bp):
AAAATTTTTTTTTT
Found at i:15750893 original size:19 final size:18
Alignment explanation
Indices: 15750858--15750902 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
15750848 ATATTAAAAA
15750858 TATAAATTTTAGAAATTT
1 TATAAATTTTAGAAATTT
*
15750876 TATAAATATTTTGAAA-TT
1 TATAAAT-TTTAGAAATTT
15750894 TA-AAATTTT
1 TATAAATTTT
15750903 TTTGTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 4 0.16
18 11 0.44
19 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TATAAATTTTAGAAATTT
Found at i:15760091 original size:114 final size:106
Alignment explanation
Indices: 15759897--15760257 Score: 386
Period size: 116 Copynumber: 3.4 Consensus size: 106
15759887 AGTTTTGGTT
* * * * * * *
15759897 TGTCAATGGCCGGTATCAGAATATGAGGAAAAGTAAAAAAAAAAA-TTTGGTGATGGTCTGCCAA
1 TGTCAATAGCAGGTATCAGTATACGA-AAAAAGTAAAAAAAAAAATTTTGGTGGTGGCCTGCCAA
15759961 TGGCCGGCACCACCTTTTTTTTGGAATTTTTTTTACTTTTTTCG
65 TGGCCGGCACCACC--TTTTTTGGAATTTTTTTTACTTTTTTCG
*
15760005 TGTCAATAGCAGGTATCAATATACGAAAAAAGTAAAAAAAAAAATTCTTTTTTTGGTGGTGGCCT
1 TGTCAATAGCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAA------TTTTGGTGGTGGCCT
*
15760070 GCCAATGGCTGGCACCACCTTTCTTGTGGGAATTTTTTTTTACTTTTTTCG
60 GCCAATGGCCGGCACCACCTTT-TT-T-GGAA-TTTTTTTTACTTTTTTCG
* * ** *
15760121 TGTCAATAGCAAGTATTAGTATATAAAAAAAGTAGAAAAAAAAATTTTGGTGGTGGCCTGCCAAT
1 TGTCAATAGCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTGGTGGTGGCCTGCCAAT
15760186 GGCCGGCACCA-C----------TTTTTTTTACTTTTTTCG
66 GGCCGGCACCACCTTTTTTGGAATTTTTTTTACTTTTTTCG
*
15760216 TGTCAATACCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
1 TGTCAATAGCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
15760258 TTCTCACAAA
Statistics
Matches: 220, Mismatches: 22, Indels: 35
0.79 0.08 0.13
Matches are distributed among these distances:
95 54 0.25
107 17 0.08
108 21 0.10
109 1 0.00
110 31 0.14
112 3 0.01
113 2 0.01
114 31 0.14
115 4 0.02
116 56 0.25
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (106 bp):
TGTCAATAGCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTGGTGGTGGCCTGCCAAT
GGCCGGCACCACCTTTTTTGGAATTTTTTTTACTTTTTTCG
Found at i:15761128 original size:18 final size:18
Alignment explanation
Indices: 15761090--15761131 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
15761080 GTTATACTTG
*
15761090 TTAAAAATTAAAAAAGCT
1 TTAAAAATTAAAAAAGAT
15761108 TTAAAAA-TAAAAAAGTAT
1 TTAAAAATTAAAAAAG-AT
15761126 TTAAAA
1 TTAAAA
15761132 GTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
TTAAAAATTAAAAAAGAT
Found at i:15761909 original size:22 final size:21
Alignment explanation
Indices: 15761869--15761912 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
15761859 TATCGAAAAA
15761869 TAAACTTTTAAATAATTTTTT
1 TAAACTTTTAAATAATTTTTT
*
15761890 TAAACTTTTAAA-ATTTTTTT
1 TAAACTTTTAAATAATTTTTT
15761910 TAA
1 TAA
15761913 TATTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAACTTTTAAATAATTTTTT
Found at i:15761919 original size:19 final size:19
Alignment explanation
Indices: 15761869--15761909 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
15761859 TATCGAAAAA
15761869 TAAACTTTTAAATAATTTTTT
1 TAAACTTTT-AA-AATTTTTT
15761890 TAAACTTTTAAAATTTTTT
1 TAAACTTTTAAAATTTTTT
15761909 T
1 T
15761910 TAATATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TAAACTTTTAAAATTTTTT
Found at i:15766678 original size:33 final size:33
Alignment explanation
Indices: 15766636--15766946 Score: 132
Period size: 33 Copynumber: 8.8 Consensus size: 33
15766626 ATATAAAGGG
*
15766636 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
15766669 GGTTGCTAAGTGCTGATTCCACAGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
15766711 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
15766744 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
15766786 GGTTGCTAAGTGTTGATTCCCC----CGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCGATTC-ATTGGT
* * * * *
15766813 GGTTGCTAAGCGCCGATTCCCCAAATCATCGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
15766846 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
15766888 GGTTGCTAAGTGCTGATTCACCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
15766921 GGTTGCTAAGTGTTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
15766947 AACGGATAAC
Statistics
Matches: 209, Mismatches: 33, Indels: 71
0.67 0.11 0.23
Matches are distributed among these distances:
27 19 0.09
28 2 0.01
30 1 0.00
31 1 0.00
32 2 0.01
33 76 0.36
34 12 0.06
35 3 0.01
36 3 0.01
37 8 0.04
38 8 0.04
39 3 0.01
40 2 0.01
41 7 0.03
42 62 0.30
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:15766717 original size:75 final size:75
Alignment explanation
Indices: 15766631--15766807 Score: 327
Period size: 75 Copynumber: 2.4 Consensus size: 75
15766621 ATTGAATATA
*
15766631 AAGGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACAGTAT
1 AAGGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACAGTAT
15766696 CTTAAATGTG
66 CTTAAATGTG
* *
15766706 AAGGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACAGTAT
15766771 CTTAAATGTG
66 CTTAAATGTG
15766781 AAGGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGGTTGCTAAGTGTTGATTCCCC
15766808 CGAGGGGTTG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 98 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (75 bp):
AAGGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACAGTAT
CTTAAATGTG
Found at i:15766728 original size:42 final size:42
Alignment explanation
Indices: 15766669--15766805 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
15766659 ATTCATTGGT
*
15766669 GGTTGCTAAGTGCTGATTCCACAGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
* *
15766711 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
15766744 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
*
15766786 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
15766806 CCCGAGGGGT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
33 22 0.28
34 3 0.04
35 1 0.01
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 1 0.01
41 2 0.03
42 41 0.51
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
Found at i:15766833 original size:102 final size:102
Alignment explanation
Indices: 15766709--15766906 Score: 324
Period size: 102 Copynumber: 1.9 Consensus size: 102
15766699 AAATGTGAAG
* * * * * *
15766709 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTGCTAAGCGCCGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
* *
15766774 AAATGTGAAGGGGGTTGCTAAGTGTTGATTCCCCCGA
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCGA
15766811 GGGGTTGCTAAGCGCCGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGCTAAGCGCCGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
15766876 AAATGTGAAAGGGGTTGCTAAGTGCTGATTC
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTC
15766907 ACCGACTCAT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (102 bp):
GGGGTTGCTAAGCGCCGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:15770405 original size:23 final size:22
Alignment explanation
Indices: 15770365--15770413 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
15770355 TTTTTTTTGA
15770365 TAAAATGTTTTGATATAACAAAT
1 TAAAATGTTTTGATATAA-AAAT
*
15770388 TAAAATGTTTTTGA-ATAAAAGT
1 TAAAATG-TTTTGATATAAAAAT
15770410 TAAA
1 TAAA
15770414 GTTGAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 11 0.46
24 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAAATGTTTTGATATAAAAAT
Found at i:15770506 original size:21 final size:19
Alignment explanation
Indices: 15770465--15770510 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
15770455 GTTTCAATTG
* *
15770465 AGTTAAACATTTTCAATCA
1 AGTTAAACATTTTAAAACA
15770484 AGTTACAACTATTTTAAAACA
1 AGTTA-AAC-ATTTTAAAACA
15770505 AGTTAA
1 AGTTAA
15770511 TATTGCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (19 bp):
AGTTAAACATTTTAAAACA
Found at i:15770652 original size:21 final size:21
Alignment explanation
Indices: 15770626--15770667 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15770616 CAATAAATTA
* *
15770626 CAAAAATTATCGATACCTTTT
1 CAAAAAGTATCGATACATTTT
15770647 CAAAAAGTATCGATACATTTT
1 CAAAAAGTATCGATACATTTT
15770668 ACCAAGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
CAAAAAGTATCGATACATTTT
Found at i:15770934 original size:16 final size:17
Alignment explanation
Indices: 15770913--15770945 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15770903 ACAATAAGAG
15770913 AGATC-ATCAAGACAAA
1 AGATCAATCAAGACAAA
*
15770929 AGATCAATCAATACAAA
1 AGATCAATCAAGACAAA
15770946 TTTAGTGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.18, G:0.09, T:0.15
Consensus pattern (17 bp):
AGATCAATCAAGACAAA
Found at i:15776256 original size:13 final size:13
Alignment explanation
Indices: 15776238--15776263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15776228 AGTTTTCAGG
15776238 TCATTTTCATTTT
1 TCATTTTCATTTT
15776251 TCATTTTCATTTT
1 TCATTTTCATTTT
15776264 CTTTTTGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:15776349 original size:57 final size:56
Alignment explanation
Indices: 15776241--15776371 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 56
15776231 TTTCAGGTCA
* * * *
15776241 TTTTCATTT-TTCATTTTCATTTTCTTTTTGGAGAAAACCACATTCATTTCCAAATT
1 TTTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCAAATTCAGTTCCAAA-T
* * *
15776297 TTTTCATTTCTCCATTTTTATTTTCATTTTGGAGCAAATCATAATT-AGTTCCAAAT
1 TTTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCA-AATTCAGTTCCAAAT
*
15776353 GTTTCATATTTCTCCATTT
1 TTTTC--ATTTCTCCATTT
15776372 CACCATTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 14 0.22
57 34 0.54
58 15 0.24
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (56 bp):
TTTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCAAATTCAGTTCCAAAT
Found at i:15783544 original size:89 final size:89
Alignment explanation
Indices: 15783382--15783611 Score: 237
Period size: 89 Copynumber: 2.6 Consensus size: 89
15783372 AGAGATTCTA
* * * *
15783382 GCGTGTTATCGATTGGAAAGCTCTTATGAGCAAAATGGCGTGTTATCGGGGGAGAATATTTAGAC
1 GCGTGTTATCGATTGCAAAGCTCTTATGAGCAAAATGACATGTTATCAGGGGAGAATATTTAGAC
*
15783447 TGCAGGCTTTACACTGTGTATCTG
66 TACAGGCTTTACACTGTGTATCTG
* * ** *
15783471 GCGTGTTATCGATTGCAAAGGTCTTATGAGTAATTTGACATGTTATCAGGGGAGAATATTTAGCC
1 GCGTGTTATCGATTGCAAAGCTCTTATGAGCAAAATGACATGTTATCAGGGGAGAATATTTAGAC
* * * *
15783536 TACGGGCTTTGTATTA-TATGCATCTG
66 TACAGGC-TT-TA-CACTGTGTATCTG
* * * * * *
15783562 GTGTATTATCGGTTGGAATAGCTCTTATGAGCAAATTGGCATGTTATCAG
1 GCGTGTTATCGATTGCAA-AGCTCTTATGAGCAAAATGACATGTTATCAG
15783612 ATGGTTACTC
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
89 61 0.53
90 2 0.02
91 24 0.21
92 28 0.24
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.34
Consensus pattern (89 bp):
GCGTGTTATCGATTGCAAAGCTCTTATGAGCAAAATGACATGTTATCAGGGGAGAATATTTAGAC
TACAGGCTTTACACTGTGTATCTG
Found at i:15789646 original size:16 final size:15
Alignment explanation
Indices: 15789627--15789665 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
15789617 AGGTTTTCAT
15789627 TTTTTTTTC-TTTTC
1 TTTTTTTTCTTTTTC
15789641 TCTTTTTTTCTTTTTC
1 T-TTTTTTTCTTTTTC
15789657 TTTTGTTTT
1 TTTT-TTTT
15789666 TGTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 11 0.50
16 10 0.45
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:15789648 original size:15 final size:14
Alignment explanation
Indices: 15789628--15789660 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
15789618 GGTTTTCATT
15789628 TTTTTTTCTTTTCTC
1 TTTTTTTCTTTT-TC
15789643 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
15789657 TTTT
1 TTTT
15789661 GTTTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:15789671 original size:16 final size:15
Alignment explanation
Indices: 15789619--15789671 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
15789609 CTTAGCTTAG
15789619 GTTTTCATTTTTTTTT
1 GTTTTC-TTTTTTTTT
*
15789635 CTTTTCTCTTTTTTTCT
1 GTTTTCT-TTTTTTT-T
15789652 -TTTTCTTTTGTTTTT
1 GTTTTCTTTT-TTTTT
15789667 GTTTT
1 GTTTT
15789672 TATTGTAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 5 0.16
16 26 0.81
17 1 0.03
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (15 bp):
GTTTTCTTTTTTTTT
Found at i:15790777 original size:21 final size:21
Alignment explanation
Indices: 15790752--15790800 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
15790742 ACAAAATAAT
15790752 AAGATTTAAAAGAAGTTAAATG
1 AAGATTTAAAAGAAGTTAAA-G
* *
15790774 -AGATTTAAGAGATGTTAAAG
1 AAGATTTAAAAGAAGTTAAAG
15790794 AAGATTT
1 AAGATTT
15790801 TTTTTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (21 bp):
AAGATTTAAAAGAAGTTAAAG
Found at i:15799809 original size:124 final size:121
Alignment explanation
Indices: 15799609--15799953 Score: 550
Period size: 124 Copynumber: 2.8 Consensus size: 121
15799599 TTATTTCTAG
15799609 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
*
15799673 GAAATCGCGCCCTCGTGGACGCCATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAG-AA-AA--TTTTT
* * * *
15799734 TTGACATTTCTGAGCAAATAGTAT-AAATCGGCTCTACTAGGATGTTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
15799798 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAATTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAATTTTT
* * *
15799854 TTAACGTTTTTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGGGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
15799919 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGT
15799954 CGCAAGTTTG
Statistics
Matches: 204, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
120 26 0.13
121 70 0.34
122 2 0.01
123 2 0.01
124 82 0.40
125 21 0.10
126 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (121 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAATTTTT
Found at i:15800921 original size:7 final size:7
Alignment explanation
Indices: 15800911--15800935 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15800901 TTATATACAT
15800911 AATACTA
1 AATACTA
15800918 AATACTA
1 AATACTA
15800925 AATACTA
1 AATACTA
15800932 AATA
1 AATA
15800936 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:15802052 original size:30 final size:31
Alignment explanation
Indices: 15802018--15802081 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
15802008 GCCATTGATG
15802018 AAAATATAAAAAAA-TTAAAATTATATTAAA
1 AAAATATAAAAAAATTTAAAATTATATTAAA
* *
15802048 AAAATTTAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATATTAAA
15802079 AAA
1 AAA
15802082 TGAAATTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATATTAAA
Found at i:15802058 original size:10 final size:10
Alignment explanation
Indices: 15802018--15802082 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
15802008 GCCATTGATG
*
15802018 AAAATATAAA
1 AAAATTTAAA
15802028 AAAA-TTAAA
1 AAAATTTAAA
**
15802037 ATTATATTAAA
1 AAAAT-TTAAA
15802048 AAAATTTAAA
1 AAAATTTAAA
15802058 AAAATTTAAA
1 AAAATTTAAA
** *
15802068 ATTATTTTAA
1 AAAATTTAAA
15802078 AAAAT
1 AAAAT
15802083 GAAATTGAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 6 0.14
10 29 0.67
11 8 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:15802137 original size:40 final size:40
Alignment explanation
Indices: 15802093--15802181 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
15802083 GAAATTGAGG
15802093 GGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAA
1 GGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAA
*
15802133 GGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAA
1 GGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAA
15802173 GGAAATTGA
1 GGAAATTGA
15802182 GAGGATTAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (40 bp):
GGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAA
Found at i:15802673 original size:28 final size:30
Alignment explanation
Indices: 15802641--15802702 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
15802631 GCGATTACAC
*
15802641 ATATTAAAAATGAAT-A-TTAACAATTTTA
1 ATATTAAAAATAAATAATTTAACAATTTTA
*
15802669 ATATTAAAACTAAATAATTTAACAATTTTA
1 ATATTAAAAATAAATAATTTAACAATTTTA
15802699 ATAT
1 ATAT
15802703 GAAATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.43
29 1 0.03
30 16 0.53
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (30 bp):
ATATTAAAAATAAATAATTTAACAATTTTA
Found at i:15813335 original size:12 final size:12
Alignment explanation
Indices: 15813318--15813369 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
15813308 ATATCAATCG
15813318 AACTTTATTTAT
1 AACTTTATTTAT
15813330 AACTTTATATGTAT
1 AACTTTAT-T-TAT
**
15813344 GATTTTTATTTAT
1 -AACTTTATTTAT
*
15813357 AACTTTATATAT
1 AACTTTATTTAT
15813369 A
1 A
15813370 TGATTTCCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 18 0.56
13 4 0.12
14 4 0.12
15 6 0.19
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (12 bp):
AACTTTATTTAT
Found at i:15813351 original size:27 final size:27
Alignment explanation
Indices: 15813321--15813375 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
15813311 TCAATCGAAC
*
15813321 TTTATTTATAACTTTATATGTATGATT
1 TTTATTTATAACTTTATATATATGATT
15813348 TTTATTTATAACTTTATATATATGATT
1 TTTATTTATAACTTTATATATATGATT
15813375 T
1 T
15813376 CCGAATATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTATTTATAACTTTATATATATGATT
Found at i:15813384 original size:27 final size:27
Alignment explanation
Indices: 15813327--15813384 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
15813317 GAACTTTATT
* ** *
15813327 TATAACTTTATATGTATGATTTTTATT
1 TATAACTTTATATATATGATTTCGATA
15813354 TATAACTTTATATATATGATTTCCGA-A
1 TATAACTTTATATATATGATTT-CGATA
15813381 TATA
1 TATA
15813385 GATAGGACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (27 bp):
TATAACTTTATATATATGATTTCGATA
Found at i:15814911 original size:36 final size:36
Alignment explanation
Indices: 15814861--15814932 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
15814851 TTTTTACTGT
15814861 TATTTATTTAAAAATGTAAA-AT-AAAAATTAACATAA
1 TATTTATTTAAAAA--TAAATATGAAAAATTAACATAA
*
15814897 TATTT-TTTATAAAATAAATTTGAAAAATTAACATAA
1 TATTTATTTA-AAAATAAATATGAAAAATTAACATAA
15814933 AAATATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 4 0.12
35 5 0.16
36 23 0.72
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (36 bp):
TATTTATTTAAAAATAAATATGAAAAATTAACATAA
Found at i:15818364 original size:22 final size:22
Alignment explanation
Indices: 15818338--15818391 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
15818328 ATATTCAAAC
*
15818338 AATAATAACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAACAA
* * **
15818360 TATAAAAACGGAATAGTAACAA
1 AATAATAACAAAATAGTAACAA
*
15818382 AACAATAACA
1 AATAATAACA
15818392 TAACAACAAC
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.11, G:0.09, T:0.17
Consensus pattern (22 bp):
AATAATAACAAAATAGTAACAA
Found at i:15821475 original size:12 final size:13
Alignment explanation
Indices: 15821453--15821481 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15821443 TGATTAAATG
15821453 AATTAAAAAGCCA
1 AATTAAAAAGCCA
15821466 AATT-AAAAGCCA
1 AATTAAAAAGCCA
15821478 AATT
1 AATT
15821482 TTGCTCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:15829540 original size:25 final size:25
Alignment explanation
Indices: 15829487--15829590 Score: 117
Period size: 25 Copynumber: 4.3 Consensus size: 25
15829477 ACGGATGAAT
*
15829487 AGAGAGCACAAATGTGCTAAT--T-
1 AGAGAGCACAAACGTGCTAATAATC
* *
15829509 -GATGAGCACTAACATGCTAATAATC
1 AGA-GAGCACAAACGTGCTAATAATC
15829534 AGAGAGCACAAACGTGCTAATAATC
1 AGAGAGCACAAACGTGCTAATAATC
* * *
15829559 AGAGAGCACCAATGTGCTAACAATC
1 AGAGAGCACAAACGTGCTAATAATC
15829584 AGAGAGC
1 AGAGAGC
15829591 GCGCTAAGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.03
22 15 0.22
24 1 0.01
25 49 0.71
26 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.18
Consensus pattern (25 bp):
AGAGAGCACAAACGTGCTAATAATC
Found at i:15831032 original size:13 final size:13
Alignment explanation
Indices: 15831014--15831077 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
15831004 AGTTCTTCAT
15831014 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
15831027 TGCTTTTGAGAAA
1 TGCTTTTGAGAAG
*
15831040 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
15831053 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
15831066 TACTTTTGAGAA
1 TGCTTTTGAGAA
15831078 ATTTGAGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:15835687 original size:20 final size:21
Alignment explanation
Indices: 15835664--15835715 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
15835654 ATCGTTTATT
15835664 TATTTATTTATTGTT-TTGAA
1 TATTTATTTATTGTTCTTGAA
15835684 TATTTATTCT-TTGTTCTTGAA
1 TATTTATT-TATTGTTCTTGAA
15835705 T-TTTATATTAT
1 TATTTAT-TTAT
15835716 AGTTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.65
Consensus pattern (21 bp):
TATTTATTTATTGTTCTTGAA
Found at i:15836063 original size:12 final size:12
Alignment explanation
Indices: 15836046--15836070 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15836036 GGATTTCTAG
15836046 TATAAAAAATTA
1 TATAAAAAATTA
15836058 TATAAAAAATTA
1 TATAAAAAATTA
15836070 T
1 T
15836071 TCGAATTTAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAAAAAATTA
Done.