Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003790.1 Hibiscus syriacus cultivar Beakdansim tig00008112_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: 128101
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:751 original size:19 final size:19
Alignment explanation
Indices: 727--764 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
717 AAAGCTGATA
727 CAGTTTTCATGGTTTAGTG
1 CAGTTTTCATGGTTTAGTG
746 CAGTTTTCATGGTTTAGTG
1 CAGTTTTCATGGTTTAGTG
765 TTTATTGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.26, T:0.47
Consensus pattern (19 bp):
CAGTTTTCATGGTTTAGTG
Found at i:8424 original size:24 final size:25
Alignment explanation
Indices: 8379--8426 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
8369 ATGTAAAAAA
*
8379 TATGTTTTATTTATCATGTTTATAT
1 TATGTTTTATTTATCATCTTTATAT
8404 TATG-TTTATTTATCGA-CTTTATA
1 TATGTTTTATTTATC-ATCTTTATA
8427 ATACTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.60
Consensus pattern (25 bp):
TATGTTTTATTTATCATCTTTATAT
Found at i:10063 original size:113 final size:113
Alignment explanation
Indices: 9823--10580 Score: 648
Period size: 113 Copynumber: 6.6 Consensus size: 113
9813 TTTAATCAAA
* * * ** *
9823 TTCTGATTTGAGGTGATAGATCACTAAAAAGAAAAGGACACGAGTAGTTAAGATTCTCTATCATT
1 TTCTGATTTGAGGTGATATATCACTGAAAAGAAAATGACTTGAATAGTTAAGATTCTCTATCATT
* * * *
9888 TGAAATTATTATTGTAGCGAATAAGATTTTTCTTTCAATATAAAATAAG
66 TGAAATTATTATTGTA-CTAAGAAGATTTTTCATTCAATATGAAATAAG
* * *
9937 TTCTGA-TTAAGGTGATATATTATTGAAAAGAAAATGACTTGAATAGTTAAGATTCAT-T-TCCA
1 TTCTGATTTGAGGTGATATATCACTGAAAAGAAAATGACTTGAATAGTTAAGATTC-TCTAT-CA
*
9999 TTTGAATTTATTATTGTA-TAAGAA-ATCTTTTCCATTCAATATGAAATAAG
64 TTTGAAATTATTATTGTACTAAGAAGAT-TTTT-CATTCAATATGAAATAAG
* * *
10049 TTCTTATTTGAGGTGATATATCATTGAAAAG-AAA-GAACTTGAATAGTTAAGATTCTCTGTCAT
1 TTCTGATTTGAGGTGATATATCACTGAAAAGAAAATG-ACTTGAATAGTTAAGATTCTCTATCAT
* * *
10112 TTGAAATTATTATTGTGAATGATAAGATTTTTCATTCAATATGAAATAAG
65 TTGAAATTATTATTGT-ACTAAGAAGATTTTTCATTCAATATGAAATAAG
* ** * * *
10162 TTCTTATTTGAATTGATA-ATTCACTGAAAAGAAAATAACGTAAATAGTTAAGATTCTTTATCAC
1 TTCTGATTTGAGGTGATATA-TCACTGAAAAGAAAATGACTTGAATAGTTAAGATTC----T--C
* * * * * *
10226 TTGAAATTATTATTTGAAATTATTATTGTACTTGAAAAGATTGTTTATTCAGTATGAAATAAG
59 -------TATCATTTGAAATTATTATTGTAC-TAAGAAGATTTTTCATTCAATATGAAATAAG
* * * * *
10289 TTCTAATTTAAGGTTATATATCACTGAAAATAAAAATG-TTATGAATAGTTAAGA--CTCTATCA
1 TTCTGATTTGAGGTGATATATCACTGAAAA-GAAAATGACT-TGAATAGTTAAGATTCTCTATCA
* ** *
10351 TTTAAAATTATTATTGTATCGGATAAGA-TTTTCATTCAATATGAAATAAG
64 TTTGAAATTATTATTGTA-CTAAGAAGATTTTTCATTCAATATGAAATAAG
* * * *
10401 TTCTGATTTGAAGTGATA-ATTCACTGAAAAGAAAATGA-TGTGAATAGTTGAGATTATCTGTCA
1 TTCTGATTTGAGGTGATATA-TCACTGAAAAGAAAATGACT-TGAATAGTTAAGATTCTCTATCA
* * * * *
10464 TTTGAAATTATTGTTCTACCGAAAAAGATTTTTCATTCAATATGAAATAAAT
64 TTTGAAATTATTATTGTA-CTAAGAAGATTTTTCATTCAATATGAAAT-AAG
* * * *
10516 TTTTTATTTGAGATGATATATCACTGAAAAG-AAAT-AATGTGAATAGTTAAGATTCTCTATCAT
1 TTCTGATTTGAGGTGATATATCACTGAAAAGAAAATGACT-TGAATAGTTAAGATTCTCTATCAT
10579 TT
65 TT
10581 TTAAATATTA
Statistics
Matches: 531, Mismatches: 73, Indels: 80
0.78 0.11 0.12
Matches are distributed among these distances:
110 2 0.00
111 30 0.06
112 107 0.20
113 184 0.35
114 84 0.16
115 29 0.05
116 1 0.00
118 1 0.00
120 2 0.00
122 1 0.00
126 2 0.00
127 70 0.13
128 18 0.03
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (113 bp):
TTCTGATTTGAGGTGATATATCACTGAAAAGAAAATGACTTGAATAGTTAAGATTCTCTATCATT
TGAAATTATTATTGTACTAAGAAGATTTTTCATTCAATATGAAATAAG
Found at i:10242 original size:13 final size:13
Alignment explanation
Indices: 10226--10252 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10216 TCTTTATCAC
10226 TTGAAATTATTAT
1 TTGAAATTATTAT
10239 TTGAAATTATTAT
1 TTGAAATTATTAT
10252 T
1 T
10253 GTACTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTGAAATTATTAT
Found at i:10420 original size:239 final size:238
Alignment explanation
Indices: 10032--10475 Score: 626
Period size: 239 Copynumber: 1.9 Consensus size: 238
10022 AATCTTTTCC
* * *
10032 ATTCAATATGAAATAAGTTCTTATTTGAGGTGATATATCATTGAAAAGAAAGAACTTGAATAGTT
1 ATTCAATATGAAATAAGTTCTAATTTAAGGTGATATATCACTGAAAAGAAAGAACTTGAATAGTT
* *
10097 AAGATTCTCTGTCATTTGAAATTATTATTGTGAATGATAAGATTTTTCATTCAATATGAAATAAG
66 AAGA-TCTCTATCATTTAAAATTATTATTGT-AATGATAAGATTTTTCATTCAATATGAAATAAG
* * * *
10162 TTCTTATTTGAATTGATAATTCACTGAAAAGAAAATAACGTAAATAGTTAAGATTCTTTATCACT
129 TTCTGATTTGAAGTGATAATTCACTGAAAAGAAAATAACGTAAATAGTTAAGATTATCTATCACT
10227 TGAAATTATTATTTGAAATTATTATTGTACTTGAAAAGATTGTTT
194 TGAAATTATTATTTGAAATTATTATTGTACTTGAAAAGATTGTTT
* * * *
10272 ATTCAGTATGAAATAAGTTCTAATTTAAGGTTATATATCACTGAAAATAAA-AATGTTATGAATA
1 ATTCAATATGAAATAAGTTCTAATTTAAGGTGATATATCACTGAAAAGAAAGAA--CT-TGAATA
10336 GTTAAGA-CTCTATCATTTAAAATTATTATTGT-ATCGGATAAGA-TTTTCATTCAATATGAAAT
63 GTTAAGATCTCTATCATTTAAAATTATTATTGTAAT--GATAAGATTTTTCATTCAATATGAAAT
* * * * *
10398 AAGTTCTGATTTGAAGTGATAATTCACTGAAAAGAAAATGATGTGAATAGTTGAGATTATCTGTC
126 AAGTTCTGATTTGAAGTGATAATTCACTGAAAAGAAAATAACGTAAATAGTTAAGATTATCTATC
*
10463 ATTTGAAATTATT
191 ACTTGAAATTATT
10476 GTTCTACCGA
Statistics
Matches: 180, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
238 2 0.01
239 89 0.49
240 75 0.42
241 1 0.01
242 13 0.07
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (238 bp):
ATTCAATATGAAATAAGTTCTAATTTAAGGTGATATATCACTGAAAAGAAAGAACTTGAATAGTT
AAGATCTCTATCATTTAAAATTATTATTGTAATGATAAGATTTTTCATTCAATATGAAATAAGTT
CTGATTTGAAGTGATAATTCACTGAAAAGAAAATAACGTAAATAGTTAAGATTATCTATCACTTG
AAATTATTATTTGAAATTATTATTGTACTTGAAAAGATTGTTT
Found at i:10569 original size:353 final size:352
Alignment explanation
Indices: 9885--10577 Score: 865
Period size: 353 Copynumber: 2.0 Consensus size: 352
9875 ATTCTCTATC
* *
9885 ATTTGAAATTATTATTGTAGCGAATAAGATTTTTCTTTCAATATAAAATAAGTTCTGATTAAGGT
1 ATTTGAAATTATTATTGTAGCGAATAAGATTTTTCATTCAATATAAAATAAGTTCTAATTAAGGT
* * * * * * *
9950 GATATATTATTGAAAAGAAAATGACTTGAATAGTTAAGATTCATTTCCATTTGAATTTATTATTG
66 GATATATCACTGAAAAAAAAATGACTTGAATAGTTAAGACTCATATCCATTTAAAATTATTATTG
** * * *
10015 TATAAGAAATCTTTTCCATTCAATATGAAATAAGTTCTTATTTGAGGTGATATATCATTGAAAAG
131 TATAAGAAAGATTTTCCATTCAATATGAAATAAGTTCTGATTTGAAGTGATATATCACTGAAAAG
* * * *
10080 AAAGAACTTGAATAGTTAAGATTCTCTGTCATTTGAAATTATTATTGTGAATGATAAGATTTTTC
196 AAAGAACTTGAATAGTTAAGATTATCTGTCATTTGAAATTATTATTCTGAACGAAAAGATTTTTC
10145 ATTCAATATGAAATAAGTTCTTATTTGAATTGATAATTCACTGAAAAGAAAATAACGTAAATAGT
261 ATTCAATATGAAATAAGTTCTTATTTGAATTGATAATTCACTGAAAAGAAAATAACGTAAATAGT
*
10210 TAAGATTCTTTATCACTTGAAATTATT
326 TAAGATTCTCTATCACTTGAAATTATT
* *
10237 ATTTGAAATTATTATTGTA-CTTGAA-AAGATTGTTT-ATTCAGTATGAAATAAGTTCTAATTTA
1 ATTTGAAATTATTATTGTAGC--GAATAAGATT-TTTCATTCAATATAAAATAAGTTCTAA-TTA
* *
10299 AGGTTATATATCACTGAAAATAAAAATG-TTATGAATAGTTAAGACTC-TAT-CATTTAAAATTA
62 AGGTGATATATCACTGAAAA-AAAAATGACT-TGAATAGTTAAGACTCATATCCATTTAAAATTA
**
10361 TTATTGTATCGGATAAGATTTT-CATTCAATATGAAATAAGTTCTGATTTGAAGTGATA-ATTCA
125 TTATTGTATAAGA-AAGATTTTCCATTCAATATGAAATAAGTTCTGATTTGAAGTGATATA-TCA
* * *
10424 CTGAAAAGAAA-ATGA-TGTGAATAGTTGAGATTATCTGTCATTTGAAATTATTGTTCT-ACCGA
188 CTGAAAAGAAAGA--ACT-TGAATAGTTAAGATTATCTGTCATTTGAAATTATTATTCTGAACG-
* *
10486 AAAAGATTTTTCATTCAATATGAAATAAATTTTTTATTTGAGA-TGAT-ATATCACTGAAAAG-A
249 AAAAGATTTTTCATTCAATATGAAAT-AAGTTCTTATTTGA-ATTGATAAT-TCACTGAAAAGAA
* *
10548 AATAATGTGAATAGTTAAGATTCTCTATCA
311 AATAACGTAAATAGTTAAGATTCTCTATCA
10578 TTTTTAAATA
Statistics
Matches: 294, Mismatches: 32, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
351 3 0.01
352 115 0.39
353 127 0.43
354 48 0.16
355 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.40
Consensus pattern (352 bp):
ATTTGAAATTATTATTGTAGCGAATAAGATTTTTCATTCAATATAAAATAAGTTCTAATTAAGGT
GATATATCACTGAAAAAAAAATGACTTGAATAGTTAAGACTCATATCCATTTAAAATTATTATTG
TATAAGAAAGATTTTCCATTCAATATGAAATAAGTTCTGATTTGAAGTGATATATCACTGAAAAG
AAAGAACTTGAATAGTTAAGATTATCTGTCATTTGAAATTATTATTCTGAACGAAAAGATTTTTC
ATTCAATATGAAATAAGTTCTTATTTGAATTGATAATTCACTGAAAAGAAAATAACGTAAATAGT
TAAGATTCTCTATCACTTGAAATTATT
Found at i:18815 original size:21 final size:21
Alignment explanation
Indices: 18786--18846 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
18776 TTTTTTCCAA
*
18786 AAAAACATTTACCAAACTTTG
1 AAAACCATTTACCAAACTTTG
*
18807 AAAACCATTT-TCAAA----G
1 AAAACCATTTACCAAACTTTG
18823 -AAA-CATTTACCAAACTTTG
1 AAAACCATTTACCAAACTTTG
18842 AAAAC
1 AAAAC
18847 TAAACTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 9 0.30
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAACCATTTACCAAACTTTG
Found at i:18834 original size:35 final size:35
Alignment explanation
Indices: 18743--18846 Score: 138
Period size: 35 Copynumber: 2.9 Consensus size: 35
18733 CCATTATCAT
* * **
18743 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTT
1 TTTTCAAAAAAACATTTACCAAACTTTG-AAAACCA
18778 TTTTCCAAAAAAACATTTACCAAACTTTGAAAACCA
1 TTTT-CAAAAAAACATTTACCAAACTTTGAAAACCA
*
18814 TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAAC
18847 TAAACTTTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
35 32 0.52
36 10 0.16
37 20 0.32
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (35 bp):
TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
Found at i:18853 original size:14 final size:14
Alignment explanation
Indices: 18834--18860 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18824 AACATTTACC
18834 AAACTTTGAAAACT
1 AAACTTTGAAAACT
18848 AAACTTTGAAAAC
1 AAACTTTGAAAAC
18861 CATTTTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (14 bp):
AAACTTTGAAAACT
Found at i:23393 original size:37 final size:36
Alignment explanation
Indices: 23348--23448 Score: 168
Period size: 35 Copynumber: 2.8 Consensus size: 36
23338 TATCATTTTC
*
23348 ACCAAACTTTGAAAAACTATTTTTCAAAGAAACATTT
1 ACCAAACTTTG-AAAACCATTTTTCAAAGAAACATTT
23385 ACCAAACTTTGAAAACCA-TTTTCAAAGAAACATTT
1 ACCAAACTTTGAAAACCATTTTTCAAAGAAACATTT
23420 ACCAAACTTTGAAAACCATTTTTTCAAAG
1 ACCAAACTTTGAAAACCA-TTTTTCAAAG
23449 TTGGTTACCA
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
35 35 0.57
36 6 0.10
37 20 0.33
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.31
Consensus pattern (36 bp):
ACCAAACTTTGAAAACCATTTTTCAAAGAAACATTT
Found at i:23404 original size:21 final size:21
Alignment explanation
Indices: 23380--23440 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
23370 TTCAAAGAAA
23380 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
23401 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
23415 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
23436 CATTT
1 CATTT
23441 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:23457 original size:35 final size:36
Alignment explanation
Indices: 23348--23475 Score: 140
Period size: 35 Copynumber: 3.6 Consensus size: 36
23338 TATCATTTTC
* *
23348 ACCAAACTTTGAAAAAC-TATTTTTCAAAGAAACATTT
1 ACCAAACTTTGAAAACCAT-TTTTTCAAAG-AACAGTT
*
23385 ACCAAACTTTGAAAACCA--TTTTCAAAGAAACATTT
1 ACCAAACTTTGAAAACCATTTTTTCAAAG-AACAGTT
***
23420 ACCAAACTTTGAAAACCATTTTTTCAAAG-TTGGTT
1 ACCAAACTTTGAAAACCATTTTTTCAAAGAACAGTT
23455 ACCAAAC-TTGAAAACCATTTT
1 ACCAAACTTTGAAAACCATTTT
23476 AATAATTTCA
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
34 14 0.17
35 44 0.53
37 25 0.30
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (36 bp):
ACCAAACTTTGAAAACCATTTTTTCAAAGAACAGTT
Found at i:23627 original size:79 final size:79
Alignment explanation
Indices: 23489--23684 Score: 313
Period size: 79 Copynumber: 2.5 Consensus size: 79
23479 AATTTCAACA
* * * *
23489 AAAGCTTGATCATTTTACAAGCATAAGTGCCTTAGAGTGCATGTACCCATGTGTTGAGAAGTTTT
1 AAAGATTGATCATTTTATAAGCATAAGCGCCTTAGAGTGCATGTACCCATGTGTCGAGAAGTTTT
23554 CATGTTCCAAG-GTG
66 CATGTTCC-AGTGTG
*
23568 AAAGATTGATCATTTTATAAGCGTAAGCGCCTTAGAGTGCATGTACCCATGTGTCGAGAAGTTTT
1 AAAGATTGATCATTTTATAAGCATAAGCGCCTTAGAGTGCATGTACCCATGTGTCGAGAAGTTTT
23633 CATGTTCCAGTGTG
66 CATGTTCCAGTGTG
* *
23647 AAAGATTGATCATTTGATAAGCATAAGCACCTTAGAGT
1 AAAGATTGATCATTTTATAAGCATAAGCGCCTTAGAGT
23685 TTGCGTAAGT
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
78 2 0.02
79 106 0.98
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (79 bp):
AAAGATTGATCATTTTATAAGCATAAGCGCCTTAGAGTGCATGTACCCATGTGTCGAGAAGTTTT
CATGTTCCAGTGTG
Found at i:24832 original size:16 final size:16
Alignment explanation
Indices: 24800--24842 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
24790 ATAACAATTT
24800 TAATCAATATATTAAA
1 TAATCAATATATTAAA
*
24816 TAAT-AATATTTTAAA
1 TAATCAATATATTAAA
24831 -ATATCAATATAT
1 TA-ATCAATATAT
24843 AGAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 12 0.52
16 10 0.43
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATCAATATATTAAA
Found at i:28375 original size:2 final size:2
Alignment explanation
Indices: 28368--28401 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
28358 CTTTTGTCTC
28368 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
28402 GGTTTGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28874 original size:26 final size:28
Alignment explanation
Indices: 28844--28905 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
28834 GAAAGTTTTA
28844 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCTGCAGAGTTTTCGAGTCGAGTCG
*
28870 AGCTCTATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCTC---TGCAGAGTTTTCGAGTCGAGTCG
28901 AGCTC
1 AGCTC
28906 AGCAATACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCTCTGCAGAGTTTTCGAGTCGAGTCG
Found at i:30167 original size:23 final size:23
Alignment explanation
Indices: 30136--30184 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
30126 ATTGTATTCA
30136 ATCTGGGCCGTTGACGTAAATCG
1 ATCTGGGCCGTTGACGTAAATCG
* * *
30159 ATCTTGGCCGTTGATGTAAATTG
1 ATCTGGGCCGTTGACGTAAATCG
30182 ATC
1 ATC
30185 CTGACCATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCTGGGCCGTTGACGTAAATCG
Found at i:30195 original size:23 final size:23
Alignment explanation
Indices: 30146--30196 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
30136 ATCTGGGCCG
* * * *
30146 TTGACGTAAATCGATCTTGGCCG
1 TTGATGTAAATCGATCCTGACCA
*
30169 TTGATGTAAATTGATCCTGACCA
1 TTGATGTAAATCGATCCTGACCA
30192 TTGAT
1 TTGAT
30197 TGTGAGGAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
TTGATGTAAATCGATCCTGACCA
Found at i:42240 original size:36 final size:36
Alignment explanation
Indices: 42200--42338 Score: 233
Period size: 36 Copynumber: 3.9 Consensus size: 36
42190 ACGGTGCTGG
42200 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
42236 ACATTGATACACGAATGTACGAAAGCTGGTATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
42272 ACATTGATATACGAATGTACCAAAGCGGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
42308 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
42339 ATACTCAACT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 94 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:44605 original size:16 final size:17
Alignment explanation
Indices: 44578--44611 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44568 ATTTACAGGC
*
44578 TAAAAATATATAACTTT
1 TAAAAATATATAAATTT
44595 TAAAAAT-TATAAATTT
1 TAAAAATATATAAATTT
44611 T
1 T
44612 GGTTCCTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAATATATAAATTT
Found at i:49762 original size:36 final size:36
Alignment explanation
Indices: 49722--49860 Score: 215
Period size: 36 Copynumber: 3.9 Consensus size: 36
49712 ACAGTGATGG
* * *
49722 ACATTGATAAACAAATGTACCAAAGCTGATATGGTA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* * *
49758 ACATTGATACACGAATGTACGAAAGCCGATATAATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
49794 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
49830 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
49861 ATACTCAACT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:51995 original size:18 final size:20
Alignment explanation
Indices: 51974--52010 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
51964 TTTCATAAAA
51974 ATTCAA-TTCAAT-CCGAAT
1 ATTCAATTTCAATACCGAAT
51992 ATTCAATTTCAATACCGAA
1 ATTCAATTTCAATACCGAA
52011 CTTTACTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (20 bp):
ATTCAATTTCAATACCGAAT
Found at i:52380 original size:15 final size:15
Alignment explanation
Indices: 52360--52392 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
52350 TTTGTTGTGA
52360 GATTGTTACCTTGAT
1 GATTGTTACCTTGAT
52375 GATTGTTACCTTGAT
1 GATTGTTACCTTGAT
52390 GAT
1 GAT
52393 GTGACATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (15 bp):
GATTGTTACCTTGAT
Found at i:52807 original size:20 final size:19
Alignment explanation
Indices: 52763--52807 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
52753 AACTAGGGAG
52763 TGAAAAATTAAAGTAAATT
1 TGAAAAATTAAAGTAAATT
* * *
52782 TTAAAATATTAAATTAAGTT
1 TGAAAA-ATTAAAGTAAATT
52802 TGAAAA
1 TGAAAA
52808 CTTGTAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (19 bp):
TGAAAAATTAAAGTAAATT
Found at i:53304 original size:23 final size:23
Alignment explanation
Indices: 53257--53305 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
53247 TTACCTTTTA
**
53257 TTTTAAATAATTTATTTTTAAAT
1 TTTTAAATAATTTATAATTAAAT
*
53280 TTTTAAATAATTTATAATTATAT
1 TTTTAAATAATTTATAATTAAAT
53303 TTT
1 TTT
53306 GAGTCCTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTAAATAATTTATAATTAAAT
Found at i:53377 original size:19 final size:16
Alignment explanation
Indices: 53339--53371 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53329 TATAAAATAA
53339 ATTAATAACATTCATC
1 ATTAATAACATTCATC
*
53355 ATTAATAATATTCATC
1 ATTAATAACATTCATC
53371 A
1 A
53372 GTATTAGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAATAACATTCATC
Found at i:59969 original size:7 final size:7
Alignment explanation
Indices: 59957--60004 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
59947 TATGGGGCTC
59957 TGGTTTA
1 TGGTTTA
59964 TGGTTTA
1 TGGTTTA
* *
59971 TAGTCTA
1 TGGTTTA
59978 TGGTTTA
1 TGGTTTA
*
59985 TGATTTA
1 TGGTTTA
59992 TGGTTTA
1 TGGTTTA
59999 TTGGTT
1 -TGGTT
60005 AATGAATGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
7 29 0.85
8 5 0.15
ACGTcount: A:0.17, C:0.02, G:0.25, T:0.56
Consensus pattern (7 bp):
TGGTTTA
Found at i:65247 original size:17 final size:17
Alignment explanation
Indices: 65214--65247 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
65204 TTATTTTTAT
65214 TTATTATTTTATTAATA
1 TTATTATTTTATTAATA
65231 TTATT-TTTTATTCAATA
1 TTATTATTTTATT-AATA
65248 AATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTATTAATA
Found at i:74801 original size:20 final size:20
Alignment explanation
Indices: 74776--74882 Score: 178
Period size: 20 Copynumber: 5.3 Consensus size: 20
74766 AGTTTCAGAT
74776 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
74796 TCGCAATGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
74816 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
**
74836 TCGCAACAAGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
74856 TCGCAACGCGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
74876 TCGCAAC
1 TCGCAAC
74883 ACTGAATTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:74908 original size:60 final size:59
Alignment explanation
Indices: 74768--74908 Score: 160
Period size: 60 Copynumber: 2.4 Consensus size: 59
74758 CACAAATCAG
* ** * *
74768 TTTCAGATTCGCAACGCGATTCTGACTATCGCAATGCGATTCTGACTATCGCAACGCGA
1 TTTCAAATTCGCAACAAGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACACGA
* * *
74827 -TTCTGACTATCGCAACAAGATTCTGACTATCGCAACGCGATTCTGACTGTCGCAACACTGAA
1 TTTC-AAAT-TCGCAACAAGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACAC-G-A
74889 TTTCAAATTCGCAAC-AGATT
1 TTTCAAATTCGCAACAAGATT
74909 TTAGTTTCCC
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
58 3 0.04
59 1 0.01
60 49 0.73
61 8 0.12
62 3 0.04
63 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (59 bp):
TTTCAAATTCGCAACAAGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACACGA
Found at i:75734 original size:24 final size:24
Alignment explanation
Indices: 75702--75755 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
75692 GTATTCGAAA
*
75702 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGCCAATACCCGGAC
* *
75726 TTTGATCTTGGCCAATACTCGGAT
1 TTTGATCTTGGCCAATACCCGGAC
75750 TTTGAT
1 TTTGAT
75756 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGCCAATACCCGGAC
Found at i:75938 original size:3 final size:3
Alignment explanation
Indices: 75930--75974 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
75920 ATATAACCCT
75930 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
75975 ATCCCCGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:75995 original size:14 final size:14
Alignment explanation
Indices: 75966--76002 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
75956 AGAAGAAGAA
75966 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
75981 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
75995 GAAGAAAA
1 GAAGAAAA
76003 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:78059 original size:18 final size:18
Alignment explanation
Indices: 78036--78070 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78026 AGAAAAATGC
*
78036 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
78054 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
78071 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:78070 original size:12 final size:12
Alignment explanation
Indices: 78029--78057 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
78019 GGTGTCAAGA
78029 AAAAT-GCAATC
1 AAAATCGCAATC
78040 AAAATCGCAATC
1 AAAATCGCAATC
78052 AAAATC
1 AAAATC
78058 AAAATCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (12 bp):
AAAATCGCAATC
Found at i:78382 original size:140 final size:140
Alignment explanation
Indices: 78130--78395 Score: 505
Period size: 140 Copynumber: 1.9 Consensus size: 140
78120 AAACGTTGTA
78130 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
* *
78195 TGATTTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGTGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
78260 TATGTGTATT
131 TATGTGTATT
*
78270 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
78335 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
78396 TTATCGCAAC
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 123 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAAGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:78395 original size:20 final size:20
Alignment explanation
Indices: 78370--78614 Score: 226
Period size: 20 Copynumber: 12.8 Consensus size: 20
78360 TTACACATTC
*
78370 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
78390 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* * *
78409 A----A-AATTGCAACGCAA
1 ATTTGACTATCGCAACGCGA
* *
78424 ATTTGACTATCACAACACGA
1 ATTTGACTATCGCAACGCGA
*
78444 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
78464 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
78484 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
78504 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
78524 A----A--ATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
78538 ATTTGACTATCGTAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
78558 ATTTGACAATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
* * *
78578 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
78598 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
78615 AGAAAATCGC
Statistics
Matches: 180, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
14 20 0.11
15 3 0.02
16 1 0.01
18 1 0.01
19 3 0.02
20 152 0.84
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:78530 original size:74 final size:74
Alignment explanation
Indices: 78452--78594 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
78442 GAATATGACT
** * *
78452 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACAATCGCAACGCGAATTTGACTATCGC
78517 AACGAGAAA
66 AACGAGAAA
* * * *
78526 ATCGCAACGCGAATTTGACTATCGTAACGTGAATTTGACAATCGCAATGCGAATTTGATTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACAATCGCAACGCGAATTTGACTATCGC
78591 AACG
66 AACG
78595 GGTATTTGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACAATCGCAACGCGAATTTGACTATCGC
AACGAGAAA
Found at i:78539 original size:94 final size:93
Alignment explanation
Indices: 78436--78658 Score: 340
Period size: 94 Copynumber: 2.4 Consensus size: 93
78426 TTGACTATCA
*
78436 CAACACGAATATGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
1 CAACGCGAAT-TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
78501 GGTATTTGACTATCGCAACGAGAAAATCG
65 GGTATTTGACTATCGCAACGAGAAAATCG
* * * *
78530 CAACGCGAATTTGACTATCGTAACGTGAATTTGACAATCGCAATGCGAATTTGATTATCGCAACG
1 CAACGCGAA-TTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
78595 GGTATTTGACTATCGCAACGAGAAAATCG
65 GGTATTTGACTATCGCAACGAGAAAATCG
* * *
78624 CAAAGCGTATTAGACTATCGCAATGCGAA-TTGACT
1 CAACGCGAATT-GACTATCGCAACGCGAATTTGACT
78659 TTCGTGTTGC
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
93 7 0.06
94 108 0.93
95 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (93 bp):
CAACGCGAATTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGG
GTATTTGACTATCGCAACGAGAAAATCG
Found at i:78570 original size:114 final size:114
Alignment explanation
Indices: 78370--78614 Score: 312
Period size: 114 Copynumber: 2.1 Consensus size: 114
78360 TTACACATTC
* *
78370 ATTTGAATATCGCAACGCGAATTTGATTATCGCAACTCAAAAATTGCAACGCAAATTTGACTATC
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCGCAACGCAAATTTGACTATC
*
78435 ACAACACGAATATGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
66 ACAACACGAATATGACAATCGCAACGCGAATTTGACTATCGCAACGCGA
* * * * *
78484 ATTTGATTATCGCAACGGGTATTTGACTATCGCAAC-GAGAAAATCGCAACGCGAATTTGACTAT
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACTCA-AAAATCGCAACGCAAATTTGACTAT
** ** * * * * *
78548 CGTAACGTGAATTTGACAATCGCAATGCGAATTTGATTATCGCAACGGGT
65 CACAACACGAATATGACAATCGCAACGCGAATTTGACTATCGCAACGCGA
*
78598 ATTTGACTATCGCAACG
1 ATTTGAATATCGCAACG
78615 AGAAAATCGC
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
113 1 0.01
114 111 0.99
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (114 bp):
ATTTGAATATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCGCAACGCAAATTTGACTATC
ACAACACGAATATGACAATCGCAACGCGAATTTGACTATCGCAACGCGA
Found at i:78706 original size:20 final size:20
Alignment explanation
Indices: 78665--78706 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
78655 GACTTTCGTG
**
78665 TTGCGATTTTGGCTTTCTCA
1 TTGCGATTTTGGCTTTAGCA
78685 TTGCGATTTTGAG-TTTAGCA
1 TTGCGATTTTG-GCTTTAGCA
78705 TT
1 TT
78707 ACGAAAGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGCGATTTTGGCTTTAGCA
Found at i:78841 original size:15 final size:14
Alignment explanation
Indices: 78821--78876 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
78811 TTATTTACAC
78821 ATCAATATTAAACAA
1 ATCAAT-TTAAACAA
**
78836 ATCAATTTTTACAA
1 ATCAATTTAAACAA
** *
78850 ATCAATTTGTATAA
1 ATCAATTTAAACAA
78864 ATCAA-TTAAACAA
1 ATCAATTTAAACAA
78877 GCAAAAATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 5 0.15
14 23 0.68
15 6 0.18
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (14 bp):
ATCAATTTAAACAA
Found at i:78851 original size:14 final size:14
Alignment explanation
Indices: 78809--78870 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
78799 CACAAATAAG
*
78809 AATTATTTACACATC
1 AATT-TTTACAAATC
**
78824 AATATTAAACAAATC
1 AAT-TTTTACAAATC
78839 AATTTTTACAAATC
1 AATTTTTACAAATC
* *
78853 AATTTGTATAAATC
1 AATTTTTACAAATC
78867 AATT
1 AATT
78871 AAACAAGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 25 0.64
15 13 0.33
16 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:80328 original size:21 final size:18
Alignment explanation
Indices: 80304--80348 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
80294 GAACGGTGGG
80304 AGGGGACTCTTGAGGGATGAT
1 AGGGGACTCTTGA---ATGAT
*
80325 AGGGGCCTCTTGAATGAT
1 AGGGGACTCTTGAATGAT
80343 AGGGGA
1 AGGGGA
80349 GGCCTCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
21 12 0.55
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.22
Consensus pattern (18 bp):
AGGGGACTCTTGAATGAT
Found at i:80365 original size:42 final size:42
Alignment explanation
Indices: 80258--80367 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
80248 TCTAGAATGT
* * *
80258 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * ** * *
80300 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAATGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
80342 TAGGG-GAGGCCTCTTGAACGATGACA
1 T-GGGAGAGGCCTCTTGAACGATGACA
80368 TGTGAGTCGG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
42 48 0.91
43 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:80937 original size:20 final size:20
Alignment explanation
Indices: 80866--80961 Score: 138
Period size: 20 Copynumber: 4.8 Consensus size: 20
80856 TCGCAACACG
*
80866 AATGACTATCGAAACGCGAA
1 AATGACTATCGCAACGCGAA
*
80886 AATGACTATCGAAACGCGAA
1 AATGACTATCGCAACGCGAA
80906 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
*
80926 AATGACTATCGCAACACGAA
1 AATGACTATCGCAACGCGAA
** *
80946 TTTGACTATGGCAACG
1 AATGACTATCGCAACG
80962 AGAGAATTAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:81049 original size:20 final size:20
Alignment explanation
Indices: 81006--81071 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
80996 GATTCTTTCG
** **
81006 TTGCGATAGTCAAATTCGTG
1 TTGCGATAGTCATTTTCGCA
*
81026 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
81046 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
81066 TTGCGA
1 TTGCGA
81072 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:81242 original size:18 final size:18
Alignment explanation
Indices: 81219--81268 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
81209 TTTACTAAGC
*
81219 AATCTAAGTTAAATGGTT
1 AATCTAAGTGAAATGGTT
81237 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
81255 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
81269 TACGAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:83067 original size:19 final size:20
Alignment explanation
Indices: 82997--83083 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
82987 TCTGAAACTT
82997 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
83017 AAAATCGCAACAAGAAAATG
1 AAAATCGCAACACGAAAATG
** * * *
83037 ACTATTGTAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
83056 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
83075 AAAATCGCA
1 AAAATCGCA
83084 TTACGATTCT
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
19 24 0.44
20 30 0.56
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:83494 original size:22 final size:22
Alignment explanation
Indices: 83469--83511 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
83459 GAGATAGACG
*
83469 GATTTCGCCGAAGATGGGGACT
1 GATTTCACCGAAGATGGGGACT
* *
83491 GATTTCATCGGAGATGGGGAC
1 GATTTCACCGAAGATGGGGAC
83512 GAATGTCGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.23
Consensus pattern (22 bp):
GATTTCACCGAAGATGGGGACT
Found at i:83718 original size:20 final size:20
Alignment explanation
Indices: 83693--83779 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
83683 GAAAACCGCA
*
83693 TTGCGATAGTCAGCATCGCG
1 TTGCGATAGTCAGAATCGCG
83713 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
83733 TTGCAATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
83753 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCG
83773 TTGCGAT
1 TTGCGAT
83780 TTACATATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:84489 original size:11 final size:12
Alignment explanation
Indices: 84475--84516 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
84465 TACAACAAAA
84475 AAAATAAT-AAT
1 AAAATAATAAAT
84486 AAAA-AATAAAT
1 AAAATAATAAAT
*
84497 AAAATAAATAAAG
1 AAAAT-AATAAAT
84510 AAAATAA
1 AAAATAA
84517 AGAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 3 0.11
11 11 0.41
12 2 0.07
13 11 0.41
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:84496 original size:4 final size:4
Alignment explanation
Indices: 84483--84556 Score: 62
Period size: 4 Copynumber: 18.0 Consensus size: 4
84473 AAAAAATAAT
* * *
84483 AATA AA-A AATA AATAA AATA AATA AAGAA AATA AAGAA AATA AAGA AA-A
1 AATA AATA AATA AAT-A AATA AATA AA-TA AATA AA-TA AATA AATA AATA
*
84532 AGAAA AATA AATA AATA AATA AATA
1 A-ATA AATA AATA AATA AATA AATA
84557 CGACAGAGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
3 5 0.09
4 41 0.71
5 12 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (4 bp):
AATA
Found at i:84500 original size:22 final size:21
Alignment explanation
Indices: 84475--84525 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
84465 TACAACAAAA
*
84475 AAAATAATAATAAAAAATAAAT
1 AAAATAATAA-AAAAAATAAAG
*
84497 AAAATAAATAAAGAAAATAAAG
1 AAAAT-AATAAAAAAAATAAAG
84519 AAAATAA
1 AAAATAA
84526 AGAAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 19 0.73
23 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAATAATAAAAAAAATAAAG
Found at i:84502 original size:9 final size:9
Alignment explanation
Indices: 84457--84554 Score: 71
Period size: 9 Copynumber: 10.8 Consensus size: 9
84447 AATACAAGAC
84457 AAATAAAAT
1 AAATAAAAT
* *
84466 ACAACAAAAA
1 A-AATAAAAT
84476 AAATAATAAT
1 AAATAA-AAT
84486 -AA-AAAAT
1 AAATAAAAT
84493 AAATAAAAT
1 AAATAAAAT
84502 AAATAAAGA-
1 AAATAAA-AT
84511 AAATAAAGA-
1 AAATAAA-AT
*
84520 AAATAAAGAA
1 AAATAAA-AT
*
84530 AAAGAAAAAT
1 AAA-TAAAAT
84540 AAAT-AAAT
1 AAATAAAAT
84548 AAATAAA
1 AAATAAA
84555 TACGACAGAG
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
7 3 0.04
8 12 0.16
9 39 0.53
10 17 0.23
11 3 0.04
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (9 bp):
AAATAAAAT
Found at i:84508 original size:13 final size:13
Alignment explanation
Indices: 84457--84556 Score: 72
Period size: 12 Copynumber: 8.1 Consensus size: 13
84447 AATACAAGAC
*
84457 AAATAAAATACAAC
1 AAATAAAATA-AAT
*
84471 AAAAAAAAT-AAT
1 AAATAAAATAAAT
84483 -AAT-AAA-AAAT
1 AAATAAAATAAAT
84493 AAATAAAATAAAT
1 AAATAAAATAAAT
* *
84506 AAAGAAAATAAAGA
1 AAATAAAATAAA-T
84520 AAATAAAGA-AAA-
1 AAATAAA-ATAAAT
*
84532 AGA-AAAATAAAT
1 AAATAAAATAAAT
84544 AAAT-AAATAAAT
1 AAATAAAATAAAT
84556 A
1 A
84557 CGACAGAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
10 7 0.10
11 11 0.16
12 18 0.26
13 15 0.22
14 17 0.25
15 1 0.01
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:84567 original size:55 final size:54
Alignment explanation
Indices: 84474--84580 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 54
84464 ATACAACAAA
* * *
84474 AAAAATAATAATAAAAAATAAATAAAATAAATAAAGAAAATAAAGAAAATAAAG
1 AAAAAGAAAAATAAAAAATAAATAAAATAAACAAAGAAAATAAAGAAAATAAAG
* * *
84528 AAAAAGAAAAATAAATAAATAAAT-AAATACGACAGAGAAAATAAAGATAATAA
1 AAAAAGAAAAATAAA-AAATAAATAAAATA-AACAAAGAAAATAAAGAAAATAA
84581 TGGCAATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 18 0.40
55 27 0.60
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (54 bp):
AAAAAGAAAAATAAAAAATAAATAAAATAAACAAAGAAAATAAAGAAAATAAAG
Found at i:84625 original size:10 final size:9
Alignment explanation
Indices: 84621--84725 Score: 79
Period size: 9 Copynumber: 11.2 Consensus size: 9
84611 CAAAAAAGAG
84621 AAAAAAATA
1 AAAAAAATA
84630 AAAAAAATA
1 AAAAAAATA
84639 AAAAAAAT-
1 AAAAAAATA
84647 AAAAAAATA
1 AAAAAAATA
84656 AATAAAAATA
1 AA-AAAAATA
* * *
84666 TATATAATA
1 AAAAAAATA
84675 AAATAATAATA
1 AAA-AA-AATA
*
84686 ATAAAAGATA
1 A-AAAAAATA
* *
84696 AGAGAAA-A
1 AAAAAAATA
*
84704 AAAGAAATA
1 AAAAAAATA
84713 ATAATAAAATA
1 A-AA-AAAATA
84724 AA
1 AA
84726 CAATCCTAAC
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
8 15 0.20
9 30 0.39
10 16 0.21
11 13 0.17
12 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (9 bp):
AAAAAAATA
Found at i:84633 original size:18 final size:18
Alignment explanation
Indices: 84621--84725 Score: 79
Period size: 17 Copynumber: 5.6 Consensus size: 18
84611 CAAAAAAGAG
84621 AAAAAAATAAAAAAAATA
1 AAAAAAATAAAAAAAATA
84639 AAAAAAAT-AAAAAAATA
1 AAAAAAATAAAAAAAATA
* * *
84656 AATAAAAATATATATAATA
1 AA-AAAAATAAAAAAAATA
*
84675 AAATAATAATAATAAAAGATA
1 AAA-AA-AATAA-AAAAAATA
* * *
84696 AGAGAAA-AAAAGAAATA
1 AAAAAAATAAAAAAAATA
84713 ATAATAAAATAAA
1 A-AA-AAAATAAA
84726 CAATCCTAAC
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
17 18 0.27
18 18 0.27
19 15 0.23
20 8 0.12
21 7 0.11
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAAAAATAAAAAAAATA
Found at i:84650 original size:14 final size:14
Alignment explanation
Indices: 84624--84691 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 14
84614 AAAAGAGAAA
84624 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
*
84638 AAAA-AAAATAAA-
1 AAAATAAAAAAAAT
84650 AAAATAAATAAAAAT
1 AAAATAAA-AAAAAT
*
84665 ATATATAATAAAATAAT
1 A-AAATAA-AAAA-AAT
84682 AATAATAAAA
1 AA-AATAAAA
84692 GATAAGAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
12 4 0.09
13 10 0.23
14 8 0.19
15 1 0.02
16 11 0.26
17 9 0.21
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:84672 original size:12 final size:12
Alignment explanation
Indices: 84621--84713 Score: 62
Period size: 12 Copynumber: 7.2 Consensus size: 12
84611 CAAAAAAGAG
*
84621 AAAAAAATAAAAA
1 AAAAAAAT-AAAT
*
84634 AAATAAAAAAAAT
1 AAA-AAAATAAAT
84647 AAAAAAATAAAT
1 AAAAAAATAAAT
84659 AAAAATATATATAAT
1 AAAAA-A-ATA-AAT
*
84674 AAAATAAT-AAT
1 AAAAAAATAAAT
*
84685 AATAAAAGATAAGAG
1 AA-AAAA-ATAA-AT
*
84700 AAAAAAAGAAAT
1 AAAAAAATAAAT
84712 AA
1 AA
84714 TAATAAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
11 5 0.08
12 19 0.30
13 17 0.27
14 13 0.20
15 10 0.16
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (12 bp):
AAAAAAATAAAT
Found at i:84674 original size:27 final size:26
Alignment explanation
Indices: 84600--84683 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
84590 ATATAATTAT
** * *
84600 AATAAAAAAACCAAAAAAGAGAAAAA
1 AATAAAAAAAATAAAAAAAATAAAAA
84626 AATAAAAAAAATAAAAAAAATAAAAA
1 AATAAAAAAAATAAAAAAAATAAAAA
* * * *
84652 AATAAATAAAAATATATATAATAAAAT
1 AATAAA-AAAAATAAAAAAAATAAAAA
84679 AATAA
1 AATAA
84684 TAATAAAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 28 0.57
27 21 0.43
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (26 bp):
AATAAAAAAAATAAAAAAAATAAAAA
Found at i:84936 original size:18 final size:18
Alignment explanation
Indices: 84895--84936 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
84885 ATAGTACTTA
84895 ATATAAAAATAAATAAAT
1 ATATAAAAATAAATAAAT
* *
84913 AAATAAAAA-CAATAATAT
1 ATATAAAAATAAATAA-AT
84931 ATATAA
1 ATATAA
84937 CGATATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
ATATAAAAATAAATAAAT
Found at i:86700 original size:82 final size:80
Alignment explanation
Indices: 86614--86783 Score: 175
Period size: 81 Copynumber: 2.1 Consensus size: 80
86604 CGGCTAAACT
* *
86614 AGGTCTTCTTATTGAC-TGAAAAACC-TC-GACTTGAGCTATGCTACAAATGATGTACCTTTGAG
1 AGGTCTT-GTATTGACAT-AAAAACCTTCAGACTTGAG-T-TGCTACAAATGATGCACC-TTGAG
86676 CTGAGCGTAATCGAACTCAA
61 CTGAGCGTAATCGAACTCAA
* * * * * *
86696 AGGTCTTGTATTGGCATATAACCCTTCTAGCCTTGAGTTGCTGCAAATGATGCGCCTTGAGCTGA
1 AGGTCTTGTATTGACATAAAAACCTTC-AGACTTGAGTTGCTACAAATGATGCACCTTGAGCTGA
* *
86761 GTGTAATCGAACTCGA
65 GCGTAATCGAACTCAA
86777 AGGTCTT
1 AGGTCTT
86784 TTGGTGTTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
81 41 0.55
82 25 0.34
83 1 0.01
84 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (80 bp):
AGGTCTTGTATTGACATAAAAACCTTCAGACTTGAGTTGCTACAAATGATGCACCTTGAGCTGAG
CGTAATCGAACTCAA
Found at i:86907 original size:67 final size:66
Alignment explanation
Indices: 86790--86935 Score: 186
Period size: 67 Copynumber: 2.2 Consensus size: 66
86780 TCTTTTGGTG
* * * * *
86790 TTTCAAGAGAAACATTTTCAAAGGTTTTTTTTCAAGAAAAACTGTCTCAAG-GAAGACAAAATTT
1 TTTCAAGAGAAACATATTCAAAGATTGTGTTTCAAGAAAAACTGTCTCAAGAG-AGACAAAACTT
86854 TA
65 TA
* *
86856 TTTCAAGAGAAACATATTCAAATATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TTTCAAGAGAAACATATTCAAAGATT-GTGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTT
*
86921 TG
65 TA
*
86923 TTTCAAGGGAAAC
1 TTTCAAGAGAAAC
86936 TGTCTCAAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
66 23 0.33
67 45 0.65
68 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (66 bp):
TTTCAAGAGAAACATATTCAAAGATTGTGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTT
A
Found at i:86971 original size:36 final size:36
Alignment explanation
Indices: 86884--87294 Score: 367
Period size: 36 Copynumber: 11.8 Consensus size: 36
86874 CAAATATTGG
86884 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
86921 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
86957 TGTTTCAAGAGAAACTGTCTCTAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * *
86994 AGTTCCAAAATAAATTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
87030 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* *
87059 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
87095 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * **
87132 AGTTCCAAAAGAAACTGTCTCAAGGGAGA-TGAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
87167 T-TTTTAATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* *
87196 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
87232 TGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
87268 TGTTTCAAGAGAAACTATCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGA
87295 AATAAACCTT
Statistics
Matches: 304, Mismatches: 44, Indels: 53
0.76 0.11 0.13
Matches are distributed among these distances:
28 5 0.02
29 28 0.09
30 8 0.03
31 2 0.01
32 6 0.02
33 2 0.01
34 5 0.02
35 9 0.03
36 148 0.49
37 91 0.30
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:87253 original size:137 final size:138
Alignment explanation
Indices: 86919--87291 Score: 572
Period size: 138 Copynumber: 2.7 Consensus size: 138
86909 GAGACAAAAC
*
86919 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCTAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* *
86984 GACAAAACTTAGTTCCAAAATAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATAT
66 GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATAT
87049 TCAAAGAT
131 TCAAAGAT
*
87057 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
** * *
87122 GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGA-TGAATTT-TTTTAATGTAAAACATA
66 GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-GGAAAACATA
87185 TTCAAAGAT
130 TTCAAAGAT
* * * *
87194 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* * * *
87259 GACAAAA-TTTGTTTCAAGAGAAACTATCTCAAG
66 GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAG
87292 AGAAATAAAC
Statistics
Matches: 217, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
136 27 0.12
137 90 0.41
138 100 0.46
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (138 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACATAT
TCAAAGAT
Found at i:87275 original size:21 final size:21
Alignment explanation
Indices: 87210--87279 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
87200 TCAAGGGAAA
87210 TTGTCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGACAAAAT
* *
87231 TTGTTTTAAG-G-G---AAA-
1 TTGTCTCAAGAGAGACAAAAT
87246 TTGTCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGACAAAAT
*
87267 TTGTTTCAAGAGA
1 TTGTCTCAAGAGA
87280 AACTATCTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 8 0.21
16 4 0.11
17 1 0.03
19 1 0.03
20 4 0.11
21 20 0.53
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (21 bp):
TTGTCTCAAGAGAGACAAAAT
Found at i:87292 original size:72 final size:73
Alignment explanation
Indices: 87194--87334 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 73
87184 ATTCAAAGAT
* * * *
87194 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAA-ATTTGTTTTAAGGGAAATT-GTCTCAAGA
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAAACAAACATTTGTTTTAA-GGAAATTAGTCTCAAGA
87257 GAGACAAAA
65 GAGACAAAA
* * * * *
87266 TTTGTTTCAAGAGAAACTATCTCAAGAGAAATAAACCTTTGTTTTGAGTAAATTAGTCTCAAGTG
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAAACAAACATTTGTTTTAAGGAAATTAGTCTCAAGAG
87331 AGAC
66 AGAC
87335 GACCCCTTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
72 36 0.62
73 22 0.38
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (73 bp):
TTTGTTTCAAGAGAAACTATCTCAAGAGAAACAAACATTTGTTTTAAGGAAATTAGTCTCAAGAG
AGACAAAA
Found at i:87898 original size:111 final size:110
Alignment explanation
Indices: 87763--87963 Score: 321
Period size: 111 Copynumber: 1.8 Consensus size: 110
87753 ATGTCGCTTT
* * * * *
87763 GAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAACGAGACTCGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAACGAAACT-GAAAAGTTATTTGTT
87828 GACAGTCAATCGCCCCTTCACTGTGAAGCTGAGCTTGTGTTGTCTC
65 GACAGTCAATCGCCCCTTCACTGTGAAGCTGAGCTTGTGTTGTCTC
*
87874 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAACGAAACTGAAAAGTTATTTGTTG
* *
87939 ACAGTCAGTTGCCCCTTCACTGTGA
66 ACAGTCAATCGCCCCTTCACTGTGA
87964 TGTTGAAATT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
110 37 0.45
111 45 0.55
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (110 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAACGAAACTGAAAAGTTATTTGTTG
ACAGTCAATCGCCCCTTCACTGTGAAGCTGAGCTTGTGTTGTCTC
Found at i:87993 original size:67 final size:67
Alignment explanation
Indices: 87885--88036 Score: 241
Period size: 67 Copynumber: 2.3 Consensus size: 67
87875 AGTCCAATAT
* *
87885 CCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTTG
1 CCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCG
87950 CC
66 CC
* * *
87952 CCTTCACTGTGATGTTGAAATTGGCTCTGAATGAAATTGAAAAGTTATTTGTTGACAGTCAGTCG
1 CCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCG
88017 CC
66 CC
**
88019 CCTTCGTTGTGAAGTTGA
1 CCTTCACTGTGAAGTTGA
88037 TCTTGTGTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 77 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (67 bp):
CCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCG
CC
Found at i:88020 original size:177 final size:178
Alignment explanation
Indices: 87781--88121 Score: 513
Period size: 177 Copynumber: 1.9 Consensus size: 178
87771 TATCCTTCGT
* * *
87781 TGTGAAGTTGAAATTGACTCTGAACGAGACTCGGAAAGTTGTTTGTTGACAGTCAATCGCCCCTT
1 TGTGAAGTTGAAATTGACTCTGAACGAGAATCGAAAAGTTATTTGTTGACAGTCAATCGCCCCTT
*
87846 CACTGTGAAGCTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACT
66 CACTGTGAAGCTGAGCTTGTGTTGCCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACT
87911 CTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTTGCCCCTTCAC
131 CTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTTGCCCCTTCAC
* * * * *
87959 TGTGATGTTGAAATTGGCTCTGAATGA-AATTGAAAAGTTATTTGTTGACAGTCAGTCGCCCCTT
1 TGTGAAGTTGAAATTGACTCTGAACGAGAATCGAAAAGTTATTTGTTGACAGTCAATCGCCCCTT
** * * * * *
88023 CGTTGTGAAGTTGATCTTGTGTTGCCTCTAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTACT
66 CACTGTGAAGCTGAGCTTGTGTTGCCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACT
* *
88088 CTTAATGAAACTGAAAAGTTGTTTGTTGACAGTC
131 CTGAATGAAACTGAAAAGTTATTTGTTGACAGTC
88122 GGCTTTTCTC
Statistics
Matches: 145, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
177 121 0.83
178 24 0.17
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (178 bp):
TGTGAAGTTGAAATTGACTCTGAACGAGAATCGAAAAGTTATTTGTTGACAGTCAATCGCCCCTT
CACTGTGAAGCTGAGCTTGTGTTGCCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACT
CTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTTGCCCCTTCAC
Found at i:88691 original size:32 final size:31
Alignment explanation
Indices: 88643--88730 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 31
88633 TTCGCATCAG
* *
88643 GATGTTAAATCCCCAAAGATGCCCTAATATTT
1 GATGTTAAATCTCCAAAGATGCCC-AACATTT
* * *
88675 GATGTTGAATCTCCAAAAATACCACAACATTT
1 GATGTTAAATCTCCAAAGATGCC-CAACATTT
* *
88707 TATGTTAAATCTTCAAAGATGCCC
1 GATGTTAAATCTCCAAAGATGCCC
88731 CCAATATTCC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 1 0.02
32 43 0.96
33 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (31 bp):
GATGTTAAATCTCCAAAGATGCCCAACATTT
Found at i:89823 original size:24 final size:25
Alignment explanation
Indices: 89803--89854 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
89793 TTCTTTTGTT
89803 TTTG-TTTCTCTTTTTTATTTTCTC
1 TTTGCTTTCTCTTTTTTATTTTCTC
*
89827 TTTGCTTTTCTCTTTGTT-TTTTCTC
1 TTTGC-TTTCTCTTTTTTATTTTCTC
89852 TTT
1 TTT
89855 TTCCTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 10 0.40
26 11 0.44
ACGTcount: A:0.02, C:0.17, G:0.06, T:0.75
Consensus pattern (25 bp):
TTTGCTTTCTCTTTTTTATTTTCTC
Found at i:89850 original size:13 final size:13
Alignment explanation
Indices: 89807--89854 Score: 62
Period size: 12 Copynumber: 3.7 Consensus size: 13
89797 TTTGTTTTTG
*
89807 TTTCTCTTTTTTAT
1 TTTCTCTTTGTT-T
*
89821 TTTCTCTTTG-CT
1 TTTCTCTTTGTTT
89833 TTTCTCTTTGTTT
1 TTTCTCTTTGTTT
89846 TTTCTCTTT
1 TTTCTCTTT
89855 TTCCTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.37
13 10 0.33
14 9 0.30
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (13 bp):
TTTCTCTTTGTTT
Found at i:92955 original size:12 final size:12
Alignment explanation
Indices: 92935--92967 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
92925 AAAATAAAGA
92935 AAAAAGAAAACG
1 AAAAAGAAAACG
*
92947 AAAACGAAAACG
1 AAAAAGAAAACG
92959 AAAAAGAAA
1 AAAAAGAAA
92968 GAAAGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAACG
Found at i:93080 original size:3 final size:3
Alignment explanation
Indices: 93067--93152 Score: 52
Period size: 3 Copynumber: 27.7 Consensus size: 3
93057 AAAGAGAAAA
* *
93067 AAT AAT AAAT AAT AAAT AAT GTAT AAA AAT -AT ATAT AAT AA- AAT AAT
1 AAT AAT -AAT AAT -AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
93114 AAT AAT AGAT AAG AGA- AAA AAT AAT AAT AAC AAT AAT AA
1 AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
93153 AACAATCCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
2 5 0.08
3 46 0.70
4 15 0.23
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:93149 original size:37 final size:40
Alignment explanation
Indices: 93065--93152 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 40
93055 AAAAAGAGAA
*
93065 AAAATAATAAATAATAAATAATGTATAAAAATATATATAAT
1 AAAATAAT-AATAATAAATAATGTAGAAAAATATATATAAT
*
93106 AAAATAATAATAATAGATAA-G-AGAAAAA-ATA-ATAAT
1 AAAATAATAATAATAAATAATGTAGAAAAATATATATAAT
93142 AACAATAATAA
1 AA-AATAATAA
93153 AACAATCCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
36 7 0.16
37 11 0.25
38 6 0.14
39 1 0.02
40 11 0.25
41 8 0.18
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (40 bp):
AAAATAATAATAATAAATAATGTAGAAAAATATATATAAT
Found at i:93154 original size:22 final size:24
Alignment explanation
Indices: 93101--93154 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
93091 AAAAATATAT
*
93101 ATAATAAAATAATAATAATAGATA
1 ATAATAAAATAATAATAATAGACA
* *
93125 A-GAGAAAA-AATAATAATA-ACA
1 ATAATAAAATAATAATAATAGACA
93146 ATAATAAAA
1 ATAATAAAA
93155 CAATCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.12
22 15 0.62
23 5 0.21
24 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (24 bp):
ATAATAAAATAATAATAATAGACA
Found at i:93537 original size:11 final size:10
Alignment explanation
Indices: 93497--93549 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
93487 ATACATAAAT
*
93497 AAAATATCTA
1 AAAATATATA
*
93507 AAAATATGAGA
1 AAAATAT-ATA
93518 AAAATATATA
1 AAAATATATA
93528 AAAATAATATA
1 AAAAT-ATATA
* *
93539 TATATATATA
1 AAAATATATA
93549 A
1 A
93550 TATGATGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 19 0.54
11 16 0.46
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAATATATA
Found at i:93545 original size:21 final size:21
Alignment explanation
Indices: 93456--93549 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
93446 AGTAAAACAA
* *
93456 ATAAATAAATAAAAATAAAAT
1 ATAAATATATAAAAATAATAT
** * *
93477 ATGTATATATATACATAA-AT
1 ATAAATATATAAAAATAATAT
* *
93497 A-AAATATCTAAAAAT-ATGAG
1 ATAAATATATAAAAATAAT-AT
*
93517 AAAAATATATAAAAATAATAT
1 ATAAATATATAAAAATAATAT
*
93538 ATATATATATAA
1 ATAAATATATAA
93550 TATGATGTAA
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
18 1 0.02
19 9 0.17
20 5 0.09
21 37 0.69
22 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (21 bp):
ATAAATATATAAAAATAATAT
Found at i:93631 original size:37 final size:36
Alignment explanation
Indices: 93571--93660 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 36
93561 AAAAATGGTC
* * * *
93571 AAAATAATTAAAATATATATATAATAATGATAGAAA
1 AAAAGAATTAAAATACATATATAAAAACGATAGAAA
93607 AAAAGAATTAAAAGTACATATATAAAAACGATAGAACA
1 AAAAGAATTAAAA-TACATATATAAAAACGATAGAA-A
* *
93645 TAAAAAAATAAAAATA
1 -AAAAGAATTAAAATA
93661 GCCAAATGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 12 0.27
37 19 0.42
38 3 0.07
39 11 0.24
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (36 bp):
AAAAGAATTAAAATACATATATAAAAACGATAGAAA
Found at i:94503 original size:11 final size:11
Alignment explanation
Indices: 94487--94514 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
94477 TCGTTTGTTC
94487 GTTGCTTTGGT
1 GTTGCTTTGGT
94498 GTTGCTTTGGT
1 GTTGCTTTGGT
94509 GTTGCT
1 GTTGCT
94515 GCGTTTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.36, T:0.54
Consensus pattern (11 bp):
GTTGCTTTGGT
Found at i:108907 original size:22 final size:22
Alignment explanation
Indices: 108879--108920 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
108869 ACTAATGTCA
108879 TTCTAACAATTATAAATAGAGT
1 TTCTAACAATTATAAATAGAGT
108901 TTCTAACAATTATAAATAGA
1 TTCTAACAATTATAAATAGA
108921 ATAAATTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (22 bp):
TTCTAACAATTATAAATAGAGT
Found at i:109478 original size:23 final size:21
Alignment explanation
Indices: 109445--109493 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
109435 TGTATTGTAC
109445 GTTTTCATATGCTTTTATGACAT
1 GTTTTCATATG-TTTT-TGACAT
* *
109468 GTTTTCTTATGTTTTTGGCAT
1 GTTTTCATATGTTTTTGACAT
109489 GTTTT
1 GTTTT
109494 TCGGTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 10 0.42
ACGTcount: A:0.14, C:0.10, G:0.16, T:0.59
Consensus pattern (21 bp):
GTTTTCATATGTTTTTGACAT
Found at i:110414 original size:2 final size:2
Alignment explanation
Indices: 110409--110444 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
110399 ATAATAACGT
110409 TA TA TA TA 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 TA TA TA TA
110445 ACTCTATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:117610 original size:26 final size:26
Alignment explanation
Indices: 117580--117632 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
117570 TATCGTTTTA
*
117580 ATTTTT-TTAAATATTTGAAAAA-AAT
1 ATTTTTATTAAATAATT-AAAAATAAT
117605 ATTTTTATTAAATAATTAAAAATAAT
1 ATTTTTATTAAATAATTAAAAATAAT
117631 AT
1 AT
117633 CTATATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTTTTATTAAATAATTAAAAATAAT
Found at i:117903 original size:24 final size:24
Alignment explanation
Indices: 117855--117903 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
117845 TGTGATATTC
*
117855 TATTATTTTTTTAATGTAGTCCTT
1 TATTATTTTTTTAATGTAATCCTT
* *
117879 TATTTTTTTTTTAATGTAATTCTT
1 TATTATTTTTTTAATGTAATCCTT
117903 T
1 T
117904 GACCAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.67
Consensus pattern (24 bp):
TATTATTTTTTTAATGTAATCCTT
Found at i:119843 original size:46 final size:46
Alignment explanation
Indices: 119776--119867 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
119766 GTTGCCAACA
119776 TTATCTTTGAATTCTGAATTCAGTTTAGATTATTGCTAATATTCGT
1 TTATCTTTGAATTCTGAATTCAGTTTAGATTATTGCTAATATTCGT
*
119822 TTATCTTTGAATTTTGAATTCAGTTTAGATTATTGCTAATATTCGT
1 TTATCTTTGAATTCTGAATTCAGTTTAGATTATTGCTAATATTCGT
119868 CTGATCCGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (46 bp):
TTATCTTTGAATTCTGAATTCAGTTTAGATTATTGCTAATATTCGT
Done.