Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008496.1 Hibiscus syriacus cultivar Beakdansim tig00111339_pilon, whole genome shotgun sequence
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: 99154
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:6187 original size:427 final size:427
Alignment explanation
Indices: 5389--6675 Score: 2113
Period size: 427 Copynumber: 3.0 Consensus size: 427
5379 CACCTAAATC
5389 TTTCATATCAAATTCCTGACTCAATAAGGTTTTCAAACCGATAACATCATCCATGTTCTTCGCAG
1 TTTCATATCAAATTCCTGACTCAATAAGGTTTTCAAACCGATAACATCATCCATGTTCTTCGCAG
*
5454 T-ATCGACATATCATCAACATACAGTAACAGAAAAATAAAAGAACCATCATCAAGGCTCTTAACA
66 TAATCAACATATCATCAACATACAGTAACAGAAAAATAAAAGAACCATCATCAAGGCTCTTAACA
*
5518 TAGACACAACAATCATACTCACATCGGTTTTAGCCAATCGTGATCATATAGGAGTCAAATCGTTT
131 TAGACACAACAATCATACTCACATCGGTTGTAGCCAATCGTGATCATATAGGAGTCAAATCGTTT
* * *
5583 ATACCACTGTCTTGGAGACTGTTTCAAACCGTACAAAGATTTCTTCAATCTGTAAACTAAATGCT
196 ATACCACTGTCTAGGAGACTGTTTCAACCCGTACAAAGATTTCTTCAATCTGCAAACTAAATGCT
* * *
5648 CGTTTCCAGG-TGAGTGCAACCTTCAGGCTGTCGCATGTAGATCTGTTCCTCTAAATCACCATGG
261 CGTTTCCAGGTTGAGTGAAACCTTCAGGCTGCCGCATGTAGATCTGATCCTCTAAATCACCAT-G
* * *
5712 GAAAAAGCAGTTTTAACATCCATCTACTCTAAATACAAATCCCAACTAGCCACCAATGAAAGTTC
325 CAAAAAGCAGTTTTAACATCCATCTACTCTAAATGCAAATCCCAACTAGCCACCAATGAAAGTAC
5777 TGCTCGGATTGAAGTGTGCCTGACCACAGGAGAAAAAAA
390 TGCTCGGATTGAAGTGTGCCTGACCACA-GAGAAAAAAA
* *
5816 TTTCATATCAAATTCCTGACTCAATAAGG-TTTCAAACCGATAACATCATCCATGTTATTCGTAG
1 TTTCATATCAAATTCCTGACTCAATAAGGTTTTCAAACCGATAACATCATCCATGTTCTTCGCAG
* *
5880 TAATCAACATATCATCAACATATAGTAACAGAAAAATAAAAGAACCATCATCAAGACTCTTAACA
66 TAATCAACATATCATCAACATACAGTAACAGAAAAATAAAAGAACCATCATCAAGGCTCTTAACA
*
5945 TAGACACAACAAT-ATACTCACATCGGTTGTAGCCAATTGTGATCATATAGGAGTCAAATCGTTT
131 TAGACACAACAATCATACTCACATCGGTTGTAGCCAATCGTGATCATATAGGAGTCAAATCGTTT
6009 ATACCACTGTCTAGGAGACTGTTTCAACCCGTACAAAGATTTCTTCAATCTGCAAACTAAATGCT
196 ATACCACTGTCTAGGAGACTGTTTCAACCCGTACAAAGATTTCTTCAATCTGCAAACTAAATGCT
*
6074 CATTTCCAGGTTGAGTGAAACCTTCAGGCTGCCGCATGTAGATCTGATCCTCTAAATCACCATGC
261 CGTTTCCAGGTTGAGTGAAACCTTCAGGCTGCCGCATGTAGATCTGATCCTCTAAATCACCATGC
* *
6139 AAAAAAGCAGTTTTAACATCCATCTTCTCTAAATGCAAATCTCAACTAGCCACCAAT-ACAAGTA
326 -AAAAAGCAGTTTTAACATCCATCTACTCTAAATGCAAATCCCAACTAGCCACCAATGA-AAGTA
* *
6203 CTGCTCAGATTGAAGTGTGCTTGACCACAAGAGAAAAAAA
389 CTGCTCGGATTGAAGTGTGCCTGACCAC-AGAGAAAAAAA
* * *
6243 ATTCATATCAAATTCCTGACTCAATAAGGTTTTCAAATCGATAACATCATCCATGTTCTTCACAG
1 TTTCATATCAAATTCCTGACTCAATAAGGTTTTCAAACCGATAACATCATCCATGTTCTTCGCAG
* *
6308 TAATCAACATATCATTAACATACAGTAACAGGAAAATAAAAGAACCATCATCAAGGCTCTTAACA
66 TAATCAACATATCATCAACATACAGTAACAGAAAAATAAAAGAACCATCATCAAGGCTCTTAACA
* *
6373 TAGACACAACAATCA-ATCTCACATCGATTGTAGCCAATCGCGATCATATAGGAGTCAAATCGTT
131 TAGACACAACAATCATA-CTCACATCGGTTGTAGCCAATCGTGATCATATAGGAGTCAAATCGTT
*
6437 TATACCACTGTCTCGGAGACTGTTTCAACCCGTACAAAGATTTCTTCAATCTGCAAACT-AATGC
195 TATACCACTGTCTAGGAGACTGTTTCAACCCGTACAAAGATTTCTTCAATCTGCAAACTAAATGC
* * * * *
6501 TCGTTTTCAGGTTGAGTGAAACCTTCAGACTGCTGCATGTAGATATGCTCCTCTAAATCACCATG
260 TCGTTTCCAGGTTGAGTGAAACCTTCAGGCTGCCGCATGTAGATCTGATCCTCTAAATCACCATG
* * *
6566 CAAAAAGCAGTTTTAACATCTATCTGCTCTAAATGCAAATCCCAACTAGCCACCAATGCAAGTAC
325 CAAAAAGCAGTTTTAACATCCATCTACTCTAAATGCAAATCCCAACTAGCCACCAATGAAAGTAC
* *
6631 TGCTCGGATTGAAGTGTACCTGACCACAGA-AGAAAAA
390 TGCTCGGATTGAAGTGTGCCTGACCACAGAGAAAAAAA
6668 TTTCATAT
1 TTTCATAT
6676 AATCAACTCA
Statistics
Matches: 802, Mismatches: 49, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
425 13 0.02
426 159 0.20
427 355 0.44
428 172 0.21
429 103 0.13
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (427 bp):
TTTCATATCAAATTCCTGACTCAATAAGGTTTTCAAACCGATAACATCATCCATGTTCTTCGCAG
TAATCAACATATCATCAACATACAGTAACAGAAAAATAAAAGAACCATCATCAAGGCTCTTAACA
TAGACACAACAATCATACTCACATCGGTTGTAGCCAATCGTGATCATATAGGAGTCAAATCGTTT
ATACCACTGTCTAGGAGACTGTTTCAACCCGTACAAAGATTTCTTCAATCTGCAAACTAAATGCT
CGTTTCCAGGTTGAGTGAAACCTTCAGGCTGCCGCATGTAGATCTGATCCTCTAAATCACCATGC
AAAAAGCAGTTTTAACATCCATCTACTCTAAATGCAAATCCCAACTAGCCACCAATGAAAGTACT
GCTCGGATTGAAGTGTGCCTGACCACAGAGAAAAAAA
Found at i:11523 original size:23 final size:23
Alignment explanation
Indices: 11497--11545 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
11487 ATAAAGAACC
*
11497 AAAATAAACTT-AAATATACCATT
1 AAAATAAACTTCAAACA-ACCATT
*
11520 AAAATAAAGTTCAAACAACCATT
1 AAAATAAACTTCAAACAACCATT
11543 AAA
1 AAA
11546 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATAAACTTCAAACAACCATT
Found at i:15900 original size:20 final size:21
Alignment explanation
Indices: 15863--15902 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15853 AAATTAAGTT
15863 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
15884 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
15903 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:16154 original size:19 final size:19
Alignment explanation
Indices: 16130--16168 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16120 TCGAATGCAT
16130 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
16149 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
16168 T
1 T
16169 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:16265 original size:63 final size:64
Alignment explanation
Indices: 16116--16275 Score: 207
Period size: 63 Copynumber: 2.5 Consensus size: 64
16106 GAATTAATTG
* * ** *
16116 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCAC-AGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
16181 AACATCGAATGCATTTGATGCATCGATGCACAGCCATGCATCGATGCA-TCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACAGCCATGCATCGATGCACTCAGAATA-TTTTCAA
*
16244 AACATTGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
16276 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 36 0.43
64 20 0.24
65 28 0.33
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:16290 original size:64 final size:63
Alignment explanation
Indices: 16116--16295 Score: 202
Period size: 63 Copynumber: 2.8 Consensus size: 63
16106 GAATTAATTG
* * * *
16116 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACT-CATGCATCGATGCA-TCAGAATATTTTCAA
* **
16181 AACATCGAATGCATTTGATGCATCGATGCACAGC-CATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACA-CTCATGCATCGATGCATCAGAATA-TTTTCAA
* ** *
16244 AACATTGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACAC-TCATGCATCGATGCATCA
16296 AGTATTCCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
62 1 0.01
63 36 0.36
64 33 0.33
65 28 0.28
66 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCATGCATCGATGCATCAGAATATTTTCAA
Found at i:18210 original size:13 final size:13
Alignment explanation
Indices: 18194--18223 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18184 GTCAACGGGT
*
18194 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
18207 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
18220 CGGG
1 CGGG
18224 GTAAACGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.50, T:0.13
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:18261 original size:11 final size:10
Alignment explanation
Indices: 18238--18293 Score: 71
Period size: 9 Copynumber: 5.6 Consensus size: 10
18228 ACGGGTCGTG
18238 ACCGGTC-AA
1 ACCGGTCAAA
18247 ACCGGTCAAAA
1 ACCGGTC-AAA
18258 ACCGGTTCAAA
1 ACCGG-TCAAA
*
18269 ACCGGT-TAA
1 ACCGGTCAAA
18278 ACCGGTCAAA
1 ACCGGTCAAA
18288 ACCGGT
1 ACCGGT
18294 TTCCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 15 0.37
10 9 0.22
11 15 0.37
12 2 0.05
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:25473 original size:13 final size:13
Alignment explanation
Indices: 25457--25487 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25447 GTCAACGGGT
*
25457 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
25470 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
25483 CGGGT
1 CGGGT
25488 AAACGGTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:25519 original size:10 final size:10
Alignment explanation
Indices: 25499--25554 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
25489 AACGGTCGTG
25499 ACCGGTC-AA
1 ACCGGTCAAA
25508 ACCGGTCAAA
1 ACCGGTCAAA
25518 ACCGGTTCAAA
1 ACCGG-TCAAA
**
25529 ACCGGTTTAA
1 ACCGGTCAAA
25539 ACCGGTCAAA
1 ACCGGTCAAA
25549 ACCGGT
1 ACCGGT
25555 TTCCAGCGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
9 7 0.17
10 24 0.59
11 10 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:25532 original size:21 final size:20
Alignment explanation
Indices: 25499--25554 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
25489 AACGGTCGTG
25499 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGTCAAA
**
25518 ACCGGTTCAAAACCGGTTTAA
1 ACCGG-TCAAAACCGGTCAAA
25539 ACCGGTCAAAACCGGT
1 ACCGGTCAAAACCGGT
25555 TTCCAGCGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 13 0.39
21 15 0.45
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (20 bp):
ACCGGTCAAAACCGGTCAAA
Found at i:31744 original size:20 final size:21
Alignment explanation
Indices: 31715--31770 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
31705 TTTGTGCTTC
*
31715 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
31735 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
31757 ATGCATCGATGCAT
1 ATGCATCGATGCAT
31771 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:34142 original size:20 final size:21
Alignment explanation
Indices: 34105--34144 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
34095 AAATTAAGTT
34105 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
34126 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
34145 TATTCCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:34399 original size:19 final size:19
Alignment explanation
Indices: 34375--34413 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
34365 TCGAATGCAT
34375 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
34394 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
34413 T
1 T
34414 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:34518 original size:64 final size:65
Alignment explanation
Indices: 34361--34521 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
34351 GAATTAATTG
* * *** *
34361 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* * **
34426 AACATCGAATGCTTTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
34489 A
65 A
34490 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
34522 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:34536 original size:64 final size:64
Alignment explanation
Indices: 34361--34541 Score: 211
Period size: 64 Copynumber: 2.8 Consensus size: 64
34351 GAATTAATTG
* * * *
34361 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* * ** **
34426 AACATCGAATGCTTTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
34490 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
34542 AGTGTTCCAA
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 50 0.52
65 47 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:41042 original size:24 final size:24
Alignment explanation
Indices: 40998--41047 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
40988 ATAAAAAACC
*
40998 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
41022 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
41046 AA
1 AA
41048 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:51028 original size:31 final size:32
Alignment explanation
Indices: 50975--51092 Score: 145
Period size: 32 Copynumber: 3.8 Consensus size: 32
50965 GTTCTACGGA
50975 ACATATGGACAGAATTACCTATGTCTTTCGAG
1 ACATATGGACAGAATTACCTATGTCTTTCGAG
* * *
51007 ACATATGGATAGTA-TACCTATGT-TCTACG-G
1 ACATATGGACAGAATTACCTATGTCT-TTCGAG
51037 AACATATGGACAGAATTACCTATGTCTTTCGAG
1 -ACATATGGACAGAATTACCTATGTCTTTCGAG
* *
51070 ACATATAGACAGTA-TACCTATGT
1 ACATATGGACAGAATTACCTATGT
51093 TCTAAGGAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
30 2 0.03
31 33 0.45
32 36 0.49
33 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (32 bp):
ACATATGGACAGAATTACCTATGTCTTTCGAG
Found at i:51033 original size:63 final size:63
Alignment explanation
Indices: 50955--51120 Score: 289
Period size: 63 Copynumber: 2.7 Consensus size: 63
50945 AGAGTAGAGG
* *
50955 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGATA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATAGACA
51018 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATAGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATAGACA
* *
51081 GTATACCTATGTTCTAAGGAACATATGGACAG-TTTACCTA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTA
51121 GGTTCTTCGG
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 7 0.07
63 92 0.93
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATAGACA
Found at i:51105 original size:31 final size:31
Alignment explanation
Indices: 50955--51148 Score: 200
Period size: 31 Copynumber: 6.2 Consensus size: 31
50945 AGAGTAGAGG
50955 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * *
50986 GAATTACCTATG-TCTTTC-GAGACATATGGATA
1 GTA-TACCTATGTTC-TACGGA-ACATATGGACA
51018 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * *
51049 GAATTACCTATG-TCTTTC-GAGACATATAGACA
1 GTA-TACCTATGTTC-TACGGA-ACATATGGACA
*
51081 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * *
51112 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
51143 GT-TACC
1 GTATACC
51149 GAGGATCTTT
Statistics
Matches: 135, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.03
31 79 0.59
32 52 0.39
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:51176 original size:30 final size:30
Alignment explanation
Indices: 51132--51203 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
51122 GTTCTTCGGA
* *
51132 ACCTATGGACAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
51162 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
51192 ACCTCTGGATAG
1 ACCTCTGGATAG
51204 GTCATTCGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:55654 original size:7 final size:7
Alignment explanation
Indices: 55642--55671 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
55632 CCTAATTCAT
55642 TTTCCCG
1 TTTCCCG
55649 TTTCCCG
1 TTTCCCG
55656 TTTCCCG
1 TTTCCCG
55663 TTTCCCG
1 TTTCCCG
55670 TT
1 TT
55672 CTCCAATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.40, G:0.13, T:0.47
Consensus pattern (7 bp):
TTTCCCG
Found at i:59263 original size:2 final size:2
Alignment explanation
Indices: 59256--59283 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59246 TTTAAAATCT
59256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59284 ATCGGGTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60956 original size:21 final size:21
Alignment explanation
Indices: 60930--60978 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
60920 TTTATCCTTT
60930 GCTGTTTCCACTTTCGCGGGA
1 GCTGTTTCCACTTTCGCGGGA
*
60951 GCTGTTTCCACTTTTGCGGGA
1 GCTGTTTCCACTTTCGCGGGA
60972 GCTGTTT
1 GCTGTTT
60979 TATCTTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.08, C:0.24, G:0.29, T:0.39
Consensus pattern (21 bp):
GCTGTTTCCACTTTCGCGGGA
Found at i:62561 original size:24 final size:24
Alignment explanation
Indices: 62534--62581 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
62524 GGCTCAATTT
62534 TCTTCCAACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
*
62558 TCTTCCGACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
62582 ATTCCATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (24 bp):
TCTTCCAACAGTCAGACCTTTTAA
Found at i:62972 original size:20 final size:20
Alignment explanation
Indices: 62912--62974 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
62902 ACTTGTTATT
62912 TTGTTAAGGTAATCTGTTTAA
1 TTGTT-AGGTAATCTGTTTAA
** *
62933 TTGTTTATCTATAATATGTTTAA
1 TTG-TTA--GGTAATCTGTTTAA
62956 TTGTTAGGTAATCTGTTTA
1 TTGTTAGGTAATCTGTTTA
62975 GAATTTAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 5 0.15
23 14 0.42
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (20 bp):
TTGTTAGGTAATCTGTTTAA
Found at i:65367 original size:189 final size:186
Alignment explanation
Indices: 65047--65427 Score: 672
Period size: 189 Copynumber: 2.0 Consensus size: 186
65037 TGTTAAGCTT
*
65047 TCCCCAACATTAACTGATCCATTTCCAGACACAACATTTTGTTCAGGCTTGTCTACATTAACATT
1 TCCCCAACATTAACTGATCCATTTCCAGACACAACATTTTGTTCAGGCCTGTCTACATTAACATT
65112 AGAGACAGGAAATGCAGAATCAGCTTCAACTTCACCACTATTAGAGGACTCATTCTGTTCAGCCC
66 AGAGACAGGAAATGCAGAATCAGCTTCAACTTCACCACTATTAGAGGACTCATTCTGTTCAGCCC
65177 CGGATTCAACAAGAACAGCTTCTGAAACTGTATCCTTTTCCCTAACATCAAGTAAACAA
131 CGGATTCAACAAG---AGCTTCTGAAACTGTATCCTTTTCCCTAACATCAAGTAAACAA
* *
65236 TCCCCAACTTTAACTGATTCATTTCCAGACACAACATTTTGTTCAGGCCTGTCTACATTAACATT
1 TCCCCAACATTAACTGATCCATTTCCAGACACAACATTTTGTTCAGGCCTGTCTACATTAACATT
* * *
65301 AGAGACGGGACATGCAGAATCAGCTTCAACTTCACCACTGTTAGAGGACTCATTCTGTTCAGCCC
66 AGAGACAGGAAATGCAGAATCAGCTTCAACTTCACCACTATTAGAGGACTCATTCTGTTCAGCCC
*
65366 CGGATTCAACAAGAGCTTCTGAAACTGTGTCCTTTTCCCTAACATCAAGTAAACAA
131 CGGATTCAACAAGAGCTTCTGAAACTGTATCCTTTTCCCTAACATCAAGTAAACAA
65422 TCCCCA
1 TCCCCA
65428 TCACGGTCAG
Statistics
Matches: 185, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
186 48 0.26
189 137 0.74
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (186 bp):
TCCCCAACATTAACTGATCCATTTCCAGACACAACATTTTGTTCAGGCCTGTCTACATTAACATT
AGAGACAGGAAATGCAGAATCAGCTTCAACTTCACCACTATTAGAGGACTCATTCTGTTCAGCCC
CGGATTCAACAAGAGCTTCTGAAACTGTATCCTTTTCCCTAACATCAAGTAAACAA
Found at i:65753 original size:120 final size:120
Alignment explanation
Indices: 65518--66840 Score: 1578
Period size: 120 Copynumber: 11.1 Consensus size: 120
65508 ATCTACAGCA
* *
65518 GCTTCAGAGACAGTGGTCTTAGCACTATCATAAGCTAAACCATCTCCATTG----CA--ATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * * * *
65577 AGCTACAACCATTTCAGAACTCTCATTCTCTTTTGACCTGAAATCGAGAGCATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * ** * *
65632 GCTTCAGAAACAGTGGCCTTAGAACTATCATTAGCTAAACCATCTCCACGGCAACCATCATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * * *
65697 AGCTACGGCCATTTCAGAGCCCCCATTCTCTTCTAACTTGGAATCGATAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * * ** *
65752 GCTTCAGAGACAGTGGCCTTGGCACTATCATTAGCTAAACCATTTCCATTGCAGTTGCTATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* **
65817 AGCTACAGCCATTTCAGAGCCCTCGTTCTCTTTCAACCTGGAATCGATAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * **
65872 GCTTCAGAGACAGTGGCCTTGGCACTATCATTAGCTAAACCATCTCCATTGCAGTTGCCATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* ** *
65937 AGCTACAGCCATTTCAGAGCCCTCGTTCTCTTTCAACCTGGAATC-ATGAACATTA
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGAT-AACATTG
* *
65992 GCTTCAGATACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCA-CATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * **
66056 AGCTACAACTATTTCAGAGCCCT--GTCTCTTTTGACCTGGAATAAATAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * *
66109 GCTTCAGAGACGGTGGACTT-GACACTATCATTAGCT-AACACATTTCCATTGCAATCACCATCA
1 GCTTCAGAGACAGTGGCCTTAG-CACTATCATTAGCTAAAC-CATCTCCATTGCAATCACCATCA
* * *
66172 TCAGCTACAGCCATTTCAGAG-CTTCCATTCTCTTTTAACCTGGAATCGATAACATCG
64 TCAGCTACAGCCATTTCAGAGCCCT-CATTCTCTTTTGACCTGGAATCGATAACATTG
* *
66229 GCTTCATAGACAGTGGCCTTGACAGTGACACTATCATTAGCTAAAGCAAT-TCCATTGCAATCAC
1 GCTTCAGAGACAGTGGCCTT---A--G-CACTATCATTAGCTAAA-CCATCTCCATTGCAATCAC
*
66293 CATCATCAGCTACAACCATTTCAGAG-CCTCAGTTCTCTTTTGACCTGGAATCGATAACATTG
59 CATCATCAGCTACAGCCATTTCAGAGCCCTCA-TTCTCTTTTGACCTGGAATCGATAACATTG
* * * * * * *
66355 GCTTCAGAGACAGTGGCCATAGGACTATCATTAACTAAACCTTCTCCACTGCAATCGCCGTCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * *
66420 AGCTACAGCCATTTCAGATCCCTCATTCTCATTTGACCTGAAATCGAGAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * * * *
66475 GCTTCAGACACAGTGGCTTTGGCACCATCATTAGCTAAACCATCTCCATTGCAATCACCATCAGC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * * * *
66540 AGCTACAGCCATTTCAGATCCCTTATTCTCTTTTGATCTGAAATCAAGAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* *
66595 GCTTCAGAGACACTGGCCTTAGCACTACCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * *
66660 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAACCAACATCATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * * * *
66715 GCTACAGAGACAGGGGCCTTAGCACTATCATTAGCTAGACCATCTCCATTGTAATCACTATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* ** * * * * * * *
66780 AGCTACAGCTATTTCAGATTCTTTATTCCCTTTAGACCTGAAATCGAAAAAATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
66835 GCTTCA
1 GCTTCA
66841 ACACTATCAT
Statistics
Matches: 1049, Mismatches: 135, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
114 45 0.04
116 4 0.00
117 73 0.07
118 25 0.02
119 29 0.03
120 756 0.72
121 6 0.01
123 1 0.00
125 2 0.00
126 103 0.10
127 4 0.00
128 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (120 bp):
GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
Found at i:68144 original size:17 final size:16
Alignment explanation
Indices: 68124--68197 Score: 50
Period size: 17 Copynumber: 4.7 Consensus size: 16
68114 TTATATATAT
68124 ATATATATATAATATTA
1 ATATATATATAA-ATTA
68141 ATATAT-TAATAAATTTA
1 ATATATAT-ATAAA-TTA
*
68158 AT-T-TAAATAAA--A
1 ATATATATATAAATTA
* *
68170 ATATATATTTAATTTAA
1 ATATATATATAAATT-A
68187 ATATATATATA
1 ATATATATATA
68198 TATACTACCC
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
12 3 0.07
13 1 0.02
14 5 0.11
15 6 0.14
16 3 0.07
17 26 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATATATATAAATTA
Found at i:68144 original size:23 final size:22
Alignment explanation
Indices: 68112--68201 Score: 85
Period size: 23 Copynumber: 4.0 Consensus size: 22
68102 AAAAATAATT
68112 ATTTATATATATATATATATATA
1 ATTTA-ATATATATATATATATA
* *
68135 ATATTAATATAT-TAATAAATTTA
1 AT-TTAATATATAT-ATATATATA
* * *
68158 ATTTAAATAAAAATATATATTTA
1 ATTT-AATATATATATATATATA
68181 ATTTAA-ATATATATATATATA
1 ATTTAATATATATATATATATA
68202 CTACCCGGCC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
21 12 0.22
22 5 0.09
23 34 0.62
24 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTAATATATATATATATATA
Found at i:69323 original size:60 final size:60
Alignment explanation
Indices: 69249--69365 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 60
69239 TCAAAAAAAT
* *
69249 AAAGGACTATTTTATAACTTTTGATAATCAAATGACTCGACAAAACAACATTATATAGTC
1 AAAGGACTATTTTATAACTTTTGATAATCAAACGACTCGACAAAACAACATCATATAGTC
* *
69309 AAAGGATTATTTTATAACTTTTGATAATTAAACGACTCGACAAAACAACATCATATA
1 AAAGGACTATTTTATAACTTTTGATAATCAAACGACTCGACAAAACAACATCATATA
69366 ATCGGACCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (60 bp):
AAAGGACTATTTTATAACTTTTGATAATCAAACGACTCGACAAAACAACATCATATAGTC
Found at i:69876 original size:16 final size:16
Alignment explanation
Indices: 69855--69885 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69845 AAATCTGTGA
69855 AGGAATTAGAATCTAT
1 AGGAATTAGAATCTAT
*
69871 AGGAATTGGAATCTA
1 AGGAATTAGAATCTA
69886 ATTCCATATT
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:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (16 bp):
AGGAATTAGAATCTAT
Found at i:70226 original size:20 final size:20
Alignment explanation
Indices: 70203--70254 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
70193 AACGCGATCC
70203 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
70223 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
70243 CCAAAATCGCAA
1 CCAGAATCGCAA
70255 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:70271 original size:21 final size:20
Alignment explanation
Indices: 70244--70342 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
70234 AATCAGTTTC
70244 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
70265 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
70286 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
70306 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
70327 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
70343 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:70371 original size:20 final size:20
Alignment explanation
Indices: 70309--70502 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
70299 CGATTTTCCA
* ** *
70309 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
70329 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
70349 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
70369 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
70389 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
70409 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
70429 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
70449 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
70469 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
70490 AAATCGCAACGCG
1 AAATCGCAACGCG
70503 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:70393 original size:60 final size:60
Alignment explanation
Indices: 70309--70502 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
70299 CGATTTTCCA
* ** * *
70309 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
70369 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
70429 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
70490 AAATCGCAACGCG
1 AAATCGCAACGCG
70503 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:70923 original size:33 final size:33
Alignment explanation
Indices: 70884--70954 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
70874 TTCACTTAGA
* *
70884 TTTCATTTCGCGTTACGATTCTGTTGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
70917 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
70950 TTTCA
1 TTTCA
70955 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:71094 original size:14 final size:14
Alignment explanation
Indices: 71075--71129 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
71065 AGAATGACTG
71075 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
71089 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
71108 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
71122 TCGCAACG
1 TCGCAACG
71130 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:71112 original size:33 final size:33
Alignment explanation
Indices: 71075--71145 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
71065 AGAATGACTG
**
71075 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
71108 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
71141 TCGCA
1 TCGCA
71146 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:71163 original size:19 final size:19
Alignment explanation
Indices: 71141--71238 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
71131 GAAACCAAAA
*
71141 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
71160 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
71174 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
71193 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
71207 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
71226 TCGCGTTGCGATT
1 TCGCGTTGCGATT
71239 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:71182 original size:14 final size:14
Alignment explanation
Indices: 71163--71252 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
71153 TTTCATTTCG
71163 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
71177 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
71196 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
71210 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
71227 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
71243 CGTTGCGATT
1 CGTTGCGATT
71253 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:71188 original size:33 final size:33
Alignment explanation
Indices: 71146--71260 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
71136 CAAAATCGCA
71146 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
71179 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
71212 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
71245 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
71261 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:73189 original size:185 final size:186
Alignment explanation
Indices: 72959--73340 Score: 739
Period size: 185 Copynumber: 2.1 Consensus size: 186
72949 TAGATTGCTT
72959 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73024 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
73089 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTCGTTGAA
*
73144 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73209 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
73274 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTCGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTCGTTGAA
73330 AGTAAATTTAT
1 AGTAAATTTAT
73341 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
185 154 0.80
186 39 0.20
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTCGTTGAA
Found at i:73273 original size:93 final size:93
Alignment explanation
Indices: 72959--73338 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
72949 TAGATTGCTT
*
72959 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73024 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73052 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73116 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73144 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73209 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73237 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
73302 TTTGTCTTTGTTTTGTCTTTTCGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73330 AGTAAATTT
1 AGTAAATTT
73339 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 92 0.32
93 192 0.68
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:73422 original size:19 final size:19
Alignment explanation
Indices: 73382--73510 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
73372 TAGTTTACTT
* *
73382 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
73402 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
73421 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
73440 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
73454 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
73473 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
73487 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
73506 TCGCA
1 TCGCA
73511 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:73461 original size:33 final size:32
Alignment explanation
Indices: 73418--73510 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
73408 CGCGAAACCA
**
73418 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
73450 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
73483 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
73511 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:73508 original size:52 final size:52
Alignment explanation
Indices: 73382--73510 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
73372 TAGTTTACTT
**
73382 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
73434 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
73487 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
73511 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:73528 original size:19 final size:19
Alignment explanation
Indices: 73506--73640 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
73496 GAAACCAAAA
*
73506 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
73525 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
73541 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
73558 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
73574 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
73591 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
73610 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
73630 TCGTGTTGCGA
1 TCGCGTTGCGA
73641 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73547 original size:14 final size:14
Alignment explanation
Indices: 73528--73584 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
73518 TTTCATTTCG
73528 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
73542 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
73559 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
73575 CGTTGCGATT
1 CGTTGCGATT
73585 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:73553 original size:33 final size:33
Alignment explanation
Indices: 73511--73603 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
73501 CAAAATCGCA
*
73511 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
73544 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
73577 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
73604 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:75498 original size:38 final size:38
Alignment explanation
Indices: 75455--75527 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
75445 AATTGATTGT
*
75455 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
75493 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
75528 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:75514 original size:19 final size:19
Alignment explanation
Indices: 75450--75514 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
75440 AGTTTAATTG
*
75450 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
75469 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
75487 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
75507 ATTGATTT
1 ATTGATTT
75515 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:75528 original size:14 final size:14
Alignment explanation
Indices: 75509--75544 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
75499 ATTGTTTAAT
75509 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
75523 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
75537 TGATTTGT
1 TGATTTGT
75545 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:75667 original size:19 final size:19
Alignment explanation
Indices: 75651--75752 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
75641 AAAAATGACT
75651 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
75670 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
75689 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
75703 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
75722 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
75742 ATCGCAATGCG
1 ATCGCAATGCG
75753 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:75805 original size:19 final size:19
Alignment explanation
Indices: 75781--76215 Score: 570
Period size: 19 Copynumber: 24.4 Consensus size: 19
75771 GATTATCTCG
75781 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
75800 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
75819 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
75833 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
75852 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
75871 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
75890 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
75909 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
75928 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
75942 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
75961 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
75980 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
75999 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
76018 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
76037 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
76051 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
76070 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
76089 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
76103 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
76122 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
76141 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
76155 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
76175 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
76189 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
76208 TTGCGATT
1 TTGCGATT
76216 GTATTTTCCG
Statistics
Matches: 369, Mismatches: 16, Indels: 62
0.83 0.04 0.14
Matches are distributed among these distances:
14 41 0.11
16 39 0.11
17 36 0.10
18 3 0.01
19 238 0.64
20 12 0.03
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:75821 original size:52 final size:52
Alignment explanation
Indices: 75759--76187 Score: 696
Period size: 52 Copynumber: 8.0 Consensus size: 52
75749 TGCGTTTATA
*
75759 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
75811 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
75863 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
75920 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
75972 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
76029 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
76081 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
76133 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
76186 AT
1 AT
76188 GTTGGGATTT
Statistics
Matches: 359, Mismatches: 7, Indels: 21
0.93 0.02 0.05
Matches are distributed among these distances:
52 225 0.63
53 17 0.05
54 15 0.04
55 16 0.04
57 86 0.24
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:75911 original size:109 final size:107
Alignment explanation
Indices: 75781--76187 Score: 389
Period size: 109 Copynumber: 3.8 Consensus size: 107
75771 GATTATCTCG
75781 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * *
75843 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
61 CATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCA
*
75890 TTGCGATTTTAATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * *
75952 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
61 CATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCA
* *
75999 TTGCGATTTTAATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * *
76061 CATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG--
61 CATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCA
*
76103 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
76165 CATTTCCGCATTGCGATTTTCAT
61 CATTT-CGCATTGCGATTTTCAT
76188 GTTGGGATTT
Statistics
Matches: 292, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
104 66 0.23
105 17 0.06
106 4 0.01
107 2 0.01
109 203 0.70
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.48
Consensus pattern (107 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTCATTTCGATTGCGATTTTCATTT
CGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCA
Found at i:78538 original size:12 final size:12
Alignment explanation
Indices: 78521--78545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78511 TCTTCGGGGA
78521 CTTTTTCTTCTT
1 CTTTTTCTTCTT
78533 CTTTTTCTTCTT
1 CTTTTTCTTCTT
78545 C
1 C
78546 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:78754 original size:24 final size:24
Alignment explanation
Indices: 78720--78766 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
78710 CTGAAACATC
78720 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
78744 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
78767 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:79468 original size:20 final size:20
Alignment explanation
Indices: 79440--79808 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
79430 AAATTTCAGT
* * * *
79440 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
79460 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
79480 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
79500 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
79520 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
79540 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
79560 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
79580 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
79600 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
79620 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
79640 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
79660 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
79680 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
79700 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
79720 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
79740 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
79760 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
79780 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
79800 GTTGCGATT
1 GTTGCGATT
79809 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:80598 original size:32 final size:32
Alignment explanation
Indices: 80551--80637 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 32
80541 CCTAAACTCG
*
80551 AACCCGACCCTACTCGAATATCACACTTAAAAA
1 AACCCGACCCGACTCGAATATCACACTT-AAAA
80584 AACCC-ACCCGACTCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGACT-----CGAATATCACACTTAAAA
*
80620 AACCCGACCCGACCCGAA
1 AACCCGACCCGACTCGAA
80638 AAAAATAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
32 11 0.24
33 5 0.11
36 9 0.20
37 21 0.46
ACGTcount: A:0.39, C:0.39, G:0.09, T:0.13
Consensus pattern (32 bp):
AACCCGACCCGACTCGAATATCACACTTAAAA
Found at i:86003 original size:20 final size:20
Alignment explanation
Indices: 85957--86003 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
85947 TTTTTTAACT
* *
85957 TTGTTTTTATTTTATTTTAA
1 TTGTTTTTATTTTAATATAA
*
85977 TTATTTTTATTTTAAATATAA
1 TTGTTTTTATTTT-AATATAA
85998 -TGTTTT
1 TTGTTTT
86004 CTAAATATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (20 bp):
TTGTTTTTATTTTAATATAA
Found at i:86123 original size:45 final size:46
Alignment explanation
Indices: 86052--86144 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 46
86042 ATTATATTAT
* * *
86052 AAATAGTTTTGAAAATATTATGTAGTACATATTATATAATTTTGAA
1 AAATAGTTGTGAAAATAATATATAGTACATATTATATAATTTTGAA
** * *
86098 AAATAG-TGTGAAAATAATATATAGTATTTATTGTATAGTTTTGAA
1 AAATAGTTGTGAAAATAATATATAGTACATATTATATAATTTTGAA
86143 AA
1 AA
86145 TAATTTTGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 34 0.85
46 6 0.15
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.42
Consensus pattern (46 bp):
AAATAGTTGTGAAAATAATATATAGTACATATTATATAATTTTGAA
Found at i:86160 original size:25 final size:24
Alignment explanation
Indices: 86132--86185 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 24
86122 TATTTATTGT
*
86132 ATAGTTTTGAAAATAATTTTGGAAA
1 ATAGTTTTAAAAATAATTTT-GAAA
86157 ATAGTTTTAAAAATAATTTTGAAA
1 ATAGTTTTAAAAATAATTTTGAAA
86181 ATAGT
1 ATAGT
86186 ATACAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (24 bp):
ATAGTTTTAAAAATAATTTTGAAA
Found at i:86169 original size:12 final size:12
Alignment explanation
Indices: 86132--86185 Score: 72
Period size: 12 Copynumber: 4.4 Consensus size: 12
86122 TATTTATTGT
86132 ATAGTTTTGAAA
1 ATAGTTTTGAAA
*
86144 ATAATTTTGGAAA
1 ATAGTTTT-GAAA
*
86157 ATAGTTTTAAAA
1 ATAGTTTTGAAA
*
86169 ATAATTTTGAAA
1 ATAGTTTTGAAA
86181 ATAGT
1 ATAGT
86186 ATACAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 24 0.69
13 11 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (12 bp):
ATAGTTTTGAAA
Found at i:86300 original size:3 final size:3
Alignment explanation
Indices: 86287--86315 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
86277 TATGTTATCT
86287 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
86316 ATTTTATTCA
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):
TTA
Found at i:87780 original size:2 final size:2
Alignment explanation
Indices: 87775--87816 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
87765 TTAATCATTA
*
87775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87817 TACTTAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98290 original size:24 final size:24
Alignment explanation
Indices: 98257--98434 Score: 186
Period size: 24 Copynumber: 7.6 Consensus size: 24
98247 TGGGTGTGGA
*
98257 GGATGAGGAGGGAACGGTCTTGGT
1 GGATGGGGAGGGAACGGTCTTGGT
* * *
98281 GGATCGGGAGGGAACGGTCGTGGC
1 GGATGGGGAGGGAACGGTCTTGGT
98305 GGATGGGGAGGGAACGGTCTTGGT
1 GGATGGGGAGGGAACGGTCTTGGT
* * * * *
98329 GGAT-CGTA-GGAATGGTC-CGGCG
1 GGATGGGGAGGGAACGGTCTTGG-T
* * * *
98351 GGA-GAGGAGGTAACGGTCGTGGA
1 GGATGGGGAGGGAACGGTCTTGGT
98374 GGATGGGGAGGGAAC-GTCTTGGT
1 GGATGGGGAGGGAACGGTCTTGGT
*
98397 GGATGGGGAGGGAACGGTCTTGGC
1 GGATGGGGAGGGAACGGTCTTGGT
98421 GGATGGGGAGGGAA
1 GGATGGGGAGGGAA
98435 TGGTTGTGGT
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.02
22 13 0.10
23 33 0.26
24 77 0.62
ACGTcount: A:0.20, C:0.11, G:0.53, T:0.17
Consensus pattern (24 bp):
GGATGGGGAGGGAACGGTCTTGGT
Found at i:98366 original size:45 final size:48
Alignment explanation
Indices: 98257--98434 Score: 186
Period size: 47 Copynumber: 3.8 Consensus size: 48
98247 TGGGTGTGGA
*
98257 GGATGAGGAGGGAACGGTCTTGGTGGATCGGGAGGGAACGGTCGTGGC
1 GGATGAGGAGGGAACGGTCTTGGTGGATCGGGAGGGAACGGTCGCGGC
* * *
98305 GGATGGGGAGGGAACGGTCTTGGTGGATC-GTA-GGAATGGTC-CGGC
1 GGATGAGGAGGGAACGGTCTTGGTGGATCGGGAGGGAACGGTCGCGGC
* * * * ** *
98350 GGGA-GAGGAGGTAACGGTCGTGGAGGATGGGGAGGGAAC-GTCTTGGT
1 -GGATGAGGAGGGAACGGTCTTGGTGGATCGGGAGGGAACGGTCGCGGC
* * *
98397 GGATGGGGAGGGAACGGTCTTGGCGGATGGGGAGGGAA
1 GGATGAGGAGGGAACGGTCTTGGTGGATCGGGAGGGAA
98435 TGGTTGTGGT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
45 23 0.21
46 19 0.18
47 38 0.35
48 28 0.26
ACGTcount: A:0.20, C:0.11, G:0.53, T:0.17
Consensus pattern (48 bp):
GGATGAGGAGGGAACGGTCTTGGTGGATCGGGAGGGAACGGTCGCGGC
Done.