Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 93 of 130
Found at i:18266586 original size:13 final size:13
Alignment explanation
Indices: 18266570--18266618 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
18266560 CAAATTGAGA
*
18266570 ACTACAATCGGAG
1 ACTAAAATCGGAG
*
18266583 ACTAAAAT-TGAG
1 ACTAAAATCGGAG
18266595 AACTAAAATCGGAG
1 -ACTAAAATCGGAG
18266609 ACTAAAATCG
1 ACTAAAATCG
18266619 AGATAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 3 0.10
13 25 0.81
14 3 0.10
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (13 bp):
ACTAAAATCGGAG
Found at i:18266590 original size:26 final size:26
Alignment explanation
Indices: 18266561--18266621 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
18266551 ACCTCAACTC
*
18266561 AAATTGAGAACTACAATCGGAGACTA
1 AAATTGAGAACTAAAATCGGAGACTA
18266587 AAATTGAGAACTAAAATCGGAGACTA
1 AAATTGAGAACTAAAATCGGAGACTA
*
18266613 AAATCGAGA
1 AAATTGAGA
18266622 TAATCTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (26 bp):
AAATTGAGAACTAAAATCGGAGACTA
Found at i:18269939 original size:3 final size:3
Alignment explanation
Indices: 18269916--18269960 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
18269906 ATGATAAATG
* *
18269916 GAT GAT AAT GAT GATT TAT GAT GAT GAT GAT GAT GAT -AT GAT GAT
1 GAT GAT GAT GAT GA-T GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
18269961 TTTTAAAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.38
Consensus pattern (3 bp):
GAT
Found at i:18272696 original size:2 final size:2
Alignment explanation
Indices: 18272691--18272716 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18272681 AGAGTAGGTG
18272691 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
18272717 ATCATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18273350 original size:30 final size:30
Alignment explanation
Indices: 18273315--18273386 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
18273305 ATTTATTTTT
*
18273315 TAATTA-ATTATTTAATTATATATATTTATA
1 TAATTATATT-TTTAAATATATATATTTATA
* *
18273345 TAATTATATTTTTAAATATTTATATTTAAA
1 TAATTATATTTTTAAATATATATATTTATA
* *
18273375 AAATAATATTTT
1 TAATTATATTTT
18273387 ATATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TAATTATATTTTTAAATATATATATTTATA
Found at i:18273358 original size:16 final size:16
Alignment explanation
Indices: 18273322--18273371 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
18273312 TTTTAATTAA
*
18273322 TTATTTAATTATATATAT
1 TTATATAATTATAT-T-T
18273340 TTATATAATTATATTT
1 TTATATAATTATATTT
* *
18273356 TTAAATATTTATATTT
1 TTATATAATTATATTT
18273372 AAAAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.52
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATAATTATATTT
Found at i:18273374 original size:14 final size:14
Alignment explanation
Indices: 18273323--18273374 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
18273313 TTTAATTAAT
* *
18273323 TATTTAATTATATA
1 TATTTAAATATTTA
*
18273337 TATTTATATAATTATA
1 TATTTAAAT-ATT-TA
*
18273353 TTTTTAAATATTTA
1 TATTTAAATATTTA
18273367 TATTTAAA
1 TATTTAAA
18273375 AAATAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 16 0.53
15 5 0.17
16 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTAAATATTTA
Found at i:18273389 original size:21 final size:21
Alignment explanation
Indices: 18273359--18273409 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
18273349 TATATTTTTA
18273359 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
18273379 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
18273400 AATATTTTAT
1 AATATTTTAT
18273410 TAATTTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:18276484 original size:27 final size:26
Alignment explanation
Indices: 18276442--18276504 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
18276432 CCGGTCTGGT
*
18276442 TTAAGTATTTTTTTTTGAATTTT-TTA
1 TTAA-TATTTTTTTTTAAATTTTATTA
*
18276468 TATATTATTTTTATTTTAAATTTTATTA
1 T-TAATATTTTT-TTTTAAATTTTATTA
18276496 TTAATATTT
1 TTAATATTT
18276505 ATGCATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.26
27 19 0.61
28 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
TTAATATTTTTTTTTAAATTTTATTA
Found at i:18276491 original size:26 final size:24
Alignment explanation
Indices: 18276447--18276498 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
18276437 CTGGTTTAAG
*
18276447 TATTTTTTTTTGAATTTTTTATATAT
1 TATTTTTTTTTGAA-ATTTTAT-TAT
18276473 TATTTTTATTTT-AAATTTTATTAT
1 TATTTTT-TTTTGAAATTTTATTAT
18276497 TA
1 TA
18276499 ATATTTATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 9 0.38
27 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTTTTTTTTGAAATTTTATTAT
Found at i:18276739 original size:12 final size:13
Alignment explanation
Indices: 18276712--18276745 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
18276702 ATTAGGGAAT
18276712 TATAAAAAATATA
1 TATAAAAAATATA
18276725 TATAAAGAAATATA
1 TATAAA-AAATATA
18276739 TA-AAAAA
1 TATAAAAA
18276746 GGATAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
TATAAAAAATATA
Found at i:18276762 original size:3 final size:3
Alignment explanation
Indices: 18276748--18276796 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
18276738 ATAAAAAAGG
*
18276748 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18276796 A
1 A
18276797 ATGTTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18277000 original size:29 final size:29
Alignment explanation
Indices: 18276966--18277021 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
18276956 ATAAATTTTG
*
18276966 AAACCC-AAACCTTTGAAATCC-TAAAATCC
1 AAACCCTAAA-CTTGGAAA-CCTTAAAATCC
18276995 AAACCCTAAACTTGGAAACCTTAAAAT
1 AAACCCTAAACTTGGAAACCTTAAAAT
18277022 TGAAATCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 19 0.79
30 3 0.12
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.21
Consensus pattern (29 bp):
AAACCCTAAACTTGGAAACCTTAAAATCC
Found at i:18277092 original size:29 final size:29
Alignment explanation
Indices: 18276985--18277227 Score: 160
Period size: 30 Copynumber: 8.2 Consensus size: 29
18276975 CCTTTGAAAT
* *
18276985 CCTAAAATCCAAACCCTAAA-CTTGGAAAC
1 CCTAAAATCAAAACCCTAAATCTT-CAAAC
* ** * *
18277014 CTTAAAATTGAAATCCT-AATTTTCTAAA-
1 CCTAAAATCAAAACCCTAAATCTTC-AAAC
* *
18277042 CCTTAAATCTTTAAAA-CCTAAAATCTTC-GAC
1 CCTAAAATC---AAAACCCT-AAATCTTCAAAC
*
18277073 CCTAAAATCAAAACCCTAAACCCTTCAAAC
1 CCTAAAATCAAAACCCTAAA-TCTTCAAAC
18277103 CCTAAAATCAAAACCCTAAATCCTTCAAAC
1 CCTAAAATCAAAACCCTAAAT-CTTCAAAC
* *
18277133 CGT-AAATCTAAAACCCTAAATCTTTTAAAC
1 CCTAAAATC-AAAACCCTAAATC-TTCAAAC
* * *
18277163 CCCAAAA-CTAAAACCCTAAA-CCTCAAAT
1 CCTAAAATC-AAAACCCTAAATCTTCAAAC
** *
18277191 CCTAAAATTGAAACCCTAAACCTTTCAAAC
1 CCTAAAATCAAAACCCTAAATC-TTCAAAC
18277221 CCTAAAA
1 CCTAAAA
18277228 CCAATCCTTA
Statistics
Matches: 168, Mismatches: 28, Indels: 35
0.73 0.12 0.15
Matches are distributed among these distances:
28 35 0.21
29 33 0.20
30 80 0.48
31 14 0.08
32 6 0.04
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (29 bp):
CCTAAAATCAAAACCCTAAATCTTCAAAC
Found at i:18277107 original size:30 final size:30
Alignment explanation
Indices: 18277071--18277249 Score: 179
Period size: 30 Copynumber: 6.1 Consensus size: 30
18277061 AAAATCTTCG
18277071 ACCCTAAAATCAAAACCCTAAACCCTTCAA
1 ACCCTAAAATCAAAACCCTAAACCCTTCAA
*
18277101 ACCCTAAAATCAAAACCCTAAATCCTTCAA
1 ACCCTAAAATCAAAACCCTAAACCCTTCAA
* * * *
18277131 ACCGT-AAATCTAAAACCCTAAATCTTTTAA
1 ACCCTAAAATC-AAAACCCTAAACCCTTCAA
*
18277161 ACCCCAAAA-CTAAAACCCTAAA-CC-TCAA
1 ACCCTAAAATC-AAAACCCTAAACCCTTCAA
* ** *
18277189 ATCCTAAAATTGAAACCCTAAACCTTTCAA
1 ACCCTAAAATCAAAACCCTAAACCCTTCAA
* * * *
18277219 ACCCTAAAA-CCAATCCTTAAACCCTTAAA
1 ACCCTAAAATCAAAACCCTAAACCCTTCAA
18277248 AC
1 AC
18277250 TCAAACCAAA
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
28 20 0.16
29 23 0.19
30 78 0.63
31 3 0.02
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (30 bp):
ACCCTAAAATCAAAACCCTAAACCCTTCAA
Found at i:18277152 original size:14 final size:14
Alignment explanation
Indices: 18277071--18277210 Score: 79
Period size: 14 Copynumber: 9.6 Consensus size: 14
18277061 AAAATCTTCG
18277071 ACCCTAAAATC-AAA
1 ACCCT-AAATCTAAA
* *
18277085 ACCCTAAACCCTTCAA
1 ACCCTAAA-TC-TAAA
18277101 ACCCTAAAATC-AAA
1 ACCCT-AAATCTAAA
*
18277115 ACCCTAAATCCTTCAA
1 ACCCTAAAT-C-TAAA
*
18277131 ACCGTAAATCTAAA
1 ACCCTAAATCTAAA
*
18277145 ACCCTAAATCTTTTAA
1 ACCCTAAATC--TAAA
* *
18277161 ACCCCAAAACTAAA
1 ACCCTAAATCTAAA
* *
18277175 ACCCTAAACCTCAA
1 ACCCTAAATCTAAA
* *
18277189 ATCCTAAAAT-TGAA
1 ACCCT-AAATCTAAA
18277203 ACCCTAAA
1 ACCCTAAA
18277211 CCTTTCAAAC
Statistics
Matches: 97, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
13 10 0.10
14 51 0.53
15 4 0.04
16 29 0.30
17 3 0.03
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (14 bp):
ACCCTAAATCTAAA
Found at i:18281845 original size:39 final size:40
Alignment explanation
Indices: 18281780--18281855 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
18281770 AATCCCAAGT
* * *
18281780 GTACTTTTCACGATTTCACTACTGTGCC-AATGTGTAGGC
1 GTACTTTTCACAATCTCACTACTGTGCCTAATATGTAGGC
*
18281819 GTACTTTTCACAA-CTCTACTATTGTGCCTAATATGTA
1 GTACTTTTCACAATCTC-ACTACTGTGCCTAATATGTA
18281856 TGGTCTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 2 0.06
39 22 0.71
40 7 0.23
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (40 bp):
GTACTTTTCACAATCTCACTACTGTGCCTAATATGTAGGC
Found at i:18284753 original size:18 final size:18
Alignment explanation
Indices: 18284732--18284766 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18284722 GGGGCATCAC
*
18284732 AACAAAAAAAGGAAAAAA
1 AACAAAAAAAGCAAAAAA
18284750 AACAAAAAAAGCAAAAA
1 AACAAAAAAAGCAAAAA
18284767 GCTAAAAAAA
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:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (18 bp):
AACAAAAAAAGCAAAAAA
Found at i:18286808 original size:106 final size:105
Alignment explanation
Indices: 18286600--18286817 Score: 273
Period size: 106 Copynumber: 2.1 Consensus size: 105
18286590 GCCATTTTCA
* **
18286600 ATTTT-AAATTTTTAAAGTTTTGTGGCCTCTGATTAGAGGAGCATTCAAAGATTTTGTAATATTT
1 ATTTTAAAATTTTCAAAGTTTCATGGCCTCTGATTAGAGGAGCATTCAAAGATTTTGTAATATTT
* *
18286664 AAGACCTCCAGGTATAATTTCTAAGACTTTCAGGTAAAAAC
66 AAGACCTCCAGGCATAATTTCTAAGACCTTCAGGT-AAAAC
* *
18286705 ATTTTAAAATTTTCAAAGTTTCATGGCCTTTGATTAGAGGAGCATTCAAAGATTTTGTAATCTTT
1 ATTTTAAAATTTTCAAAGTTTCATGGCCTCTGATTAGAGGAGCATTCAAAGATTTTGTAATATTT
* * * *
18286770 AATACCTTC-GAGCATAATTT-TCAAGGCCTTC-GGATAAAAT
66 AAGACCTCCAG-GCATAATTTCT-AAGACCTTCAGG-TAAAAC
18286810 ATTTTAAA
1 ATTTTAAA
18286818 GTTTCATTGC
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
105 21 0.21
106 77 0.79
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (105 bp):
ATTTTAAAATTTTCAAAGTTTCATGGCCTCTGATTAGAGGAGCATTCAAAGATTTTGTAATATTT
AAGACCTCCAGGCATAATTTCTAAGACCTTCAGGTAAAAC
Found at i:18287047 original size:22 final size:22
Alignment explanation
Indices: 18287019--18287061 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18287009 ACAATCTATT
*
18287019 AAGACCTTCGGGTATAATTTCC
1 AAGACCTTCGGGCATAATTTCC
*
18287041 AAGACCTTTGGGCATAATTTC
1 AAGACCTTCGGGCATAATTTC
18287062 GACTCGCGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
AAGACCTTCGGGCATAATTTCC
Found at i:18287054 original size:129 final size:130
Alignment explanation
Indices: 18286806--18287047 Score: 292
Period size: 129 Copynumber: 1.9 Consensus size: 130
18286796 CCTTCGGATA
* * *
18286806 AAATATTTTAAAGTTTCATTGCCTCTAATTGAGAGAAGCATTCATAAATCTTAAAATTCATAAGA
1 AAATATTTTAAAGTTTCATTGCCTCTAATTGAAAGAAGCACTCAAAAATCTTAAAATTCATAAGA
** * * **
18286871 CCTTCAGGCATGATCTGTAAAGACCTTTGGGTACAATTTTTAAGACCTCCGGGCAAAAGATTTTT
66 CCTTCAGGCACAATCTATAAAGACCTTCGGGTACAATTTCCAAGACCTCCGGGCAAAAGATTTTT
* * * *
18286936 AAAT-TTTTAAAGTTTCATTGCCTCTGATTGAAAGGAGCACT-AAAACATCTTAAACTTTATAAG
1 AAATATTTTAAAGTTTCATTGCCTCTAATTGAAAGAAGCACTCAAAA-ATCTTAAAATTCATAAG
** * *
18286999 A-CTTTTGAGCACAATCTATTAAGACCTTCGGGTATAATTTCCAAGACCT
65 ACCTTCAG-GCACAATCTATAAAGACCTTCGGGTACAATTTCCAAGACCT
18287048 TTGGGCATAA
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
128 7 0.08
129 82 0.88
130 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (130 bp):
AAATATTTTAAAGTTTCATTGCCTCTAATTGAAAGAAGCACTCAAAAATCTTAAAATTCATAAGA
CCTTCAGGCACAATCTATAAAGACCTTCGGGTACAATTTCCAAGACCTCCGGGCAAAAGATTTTT
Found at i:18287224 original size:22 final size:22
Alignment explanation
Indices: 18287165--18287229 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
18287155 GTTGATTTTT
* *
18287165 TAAGATCTCTAGGCATAATCTC
1 TAAGATCTCTGGGCATAATTTC
* *
18287187 TAAGA-CTTATGAGCATAATTTC
1 TAAGATC-TCTGGGCATAATTTC
18287209 TAAGATCTCTGGGCATAATTT
1 TAAGATCTCTGGGCATAATTT
18287230 TAACTTACGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (22 bp):
TAAGATCTCTGGGCATAATTTC
Found at i:18287280 original size:37 final size:38
Alignment explanation
Indices: 18287227--18287332 Score: 92
Period size: 37 Copynumber: 2.8 Consensus size: 38
18287217 CTGGGCATAA
* *
18287227 TTTTAACTTACGGTGTTGTCTCGATTGATTCT-CT-AT
1 TTTTAACTCACAGTGTTGTCTCGATTGATTCTACTAAT
* * * * * *
18287263 TTTTCAACTCATAGTGTTATCCCGATCG-TTTTATTAAT
1 TTTT-AACTCACAGTGTTGTCTCGATTGATTCTACTAAT
* *
18287301 TTTTAATTTACAGTGTTGTCTCGATTGATTCT
1 TTTTAACTCACAGTGTTGTCTCGATTGATTCT
18287333 TTAAGATCTG
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
36 7 0.14
37 35 0.69
38 9 0.18
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (38 bp):
TTTTAACTCACAGTGTTGTCTCGATTGATTCTACTAAT
Found at i:18287378 original size:22 final size:22
Alignment explanation
Indices: 18287353--18287418 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
18287343 TGGGCCTAAT
18287353 TCTCTAGGACCTTTGAGCATAA
1 TCTCTAGGACCTTTGAGCATAA
* * *
18287375 TCTCTAAGACCTTCGAGTATAA
1 TCTCTAGGACCTTTGAGCATAA
* * *
18287397 TTTCCAGGACCTCTG-GCATAA
1 TCTCTAGGACCTTTGAGCATAA
18287418 T
1 T
18287419 TTCGACTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 6 0.17
22 29 0.83
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (22 bp):
TCTCTAGGACCTTTGAGCATAA
Found at i:18287524 original size:37 final size:36
Alignment explanation
Indices: 18287483--18287562 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 36
18287473 CCTAGTCATT
* *
18287483 TTCTTTACTAGTCGACTTACGGTGTTATCTCGATCGA
1 TTCTTTACTACTCGACTTACGATGTTATCTCGATC-A
* * *
18287520 TTCTTTATTTCTCGACTTACGATGTTGTCTCGATCA
1 TTCTTTACTACTCGACTTACGATGTTATCTCGATCA
18287556 TTCTTTA
1 TTCTTTA
18287563 TTTTTTGACT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
36 8 0.21
37 30 0.79
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.46
Consensus pattern (36 bp):
TTCTTTACTACTCGACTTACGATGTTATCTCGATCA
Found at i:18287583 original size:36 final size:37
Alignment explanation
Indices: 18287510--18287601 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 37
18287500 TACGGTGTTA
* *
18287510 TCTCGATCGATTCTTTATTTCTCGACTTACGATGTTG
1 TCTCGATCGATTCTTTATTTCTCGACTCACGACGTTG
* * *
18287547 TCTCGATC-ATTCTTTATTTTTTGACTCATGACGTTG
1 TCTCGATCGATTCTTTATTTCTCGACTCACGACGTTG
* *
18287583 TCCCGATCGTTGTCTTTAT
1 TCTCGATCGAT-TCTTTAT
18287602 CACTTGACTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
36 30 0.65
37 9 0.20
38 7 0.15
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (37 bp):
TCTCGATCGATTCTTTATTTCTCGACTCACGACGTTG
Found at i:18289082 original size:27 final size:26
Alignment explanation
Indices: 18289040--18289102 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
18289030 CTAGTCTGGT
*
18289040 TTAAGTATTTTTTTTTGAATTTT-TTA
1 TTAA-TATTTTTTTTTAAATTTTATTA
*
18289066 TATATTATTTTTATTTTAAATTTTATTA
1 T-TAATATTTTT-TTTTAAATTTTATTA
18289094 TTAATATTT
1 TTAATATTT
18289103 ATGCATCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.26
27 19 0.61
28 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
TTAATATTTTTTTTTAAATTTTATTA
Found at i:18289089 original size:26 final size:24
Alignment explanation
Indices: 18289045--18289096 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
18289035 CTGGTTTAAG
*
18289045 TATTTTTTTTTGAATTTTTTATATAT
1 TATTTTTTTTTGAA-ATTTTAT-TAT
18289071 TATTTTTATTTT-AAATTTTATTAT
1 TATTTTT-TTTTGAAATTTTATTAT
18289095 TA
1 TA
18289097 ATATTTATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 9 0.38
27 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTTTTTTTTGAAATTTTATTAT
Found at i:18289143 original size:4 final size:4
Alignment explanation
Indices: 18289136--18289161 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18289126 GTTTTATAAT
18289136 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
18289162 AGAGAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:18289335 original size:3 final size:3
Alignment explanation
Indices: 18289323--18289371 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
18289313 TATAAAATGG
*
18289323 ATA ATAA ATA AT- ATA ACA ATA ATA A-A ATTA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
18289368 ATA A
1 ATA A
18289372 ATGTTCATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18289600 original size:15 final size:15
Alignment explanation
Indices: 18289580--18289720 Score: 112
Period size: 15 Copynumber: 9.6 Consensus size: 15
18289570 CTAAAATTCG
18289580 AACCCTAAATTTCAA
1 AACCCTAAATTTCAA
*
18289595 AACCCTACAA-TT-GA
1 AACCCTA-AATTTCAA
* *
18289609 AATCCTAAATTTCTA
1 AACCCTAAATTTCAA
18289624 AACCCTAAATTTCAA
1 AACCCTAAATTTCAA
* *
18289639 AACCCTAAAATT-GA
1 AACCCTAAATTTCAA
* * *
18289653 AATCATAAATTTCTA
1 AACCCTAAATTTCAA
* *
18289668 AACCTTAAATCTTTAA
1 AACCCTAAAT-TTCAA
*
18289684 AACCCTAAATCTC-A
1 AACCCTAAATTTCAA
*
18289698 AACCCTAAA-ATCAA
1 AACCCTAAATTTCAA
*
18289712 ATCCCTAAA
1 AACCCTAAA
18289721 CCCTCCAAAC
Statistics
Matches: 100, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
13 4 0.04
14 38 0.38
15 44 0.44
16 14 0.14
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (15 bp):
AACCCTAAATTTCAA
Found at i:18289601 original size:29 final size:29
Alignment explanation
Indices: 18289569--18289647 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
18289559 CCCTTGAAAT
18289569 CCTAAAATTCGAACCCTAAATTTCAAAAC
1 CCTAAAATTCGAACCCTAAATTTCAAAAC
* * *
18289598 CCTACAATT-GAAATCCTAAATTTCTAAAC
1 CCTAAAATTCG-AACCCTAAATTTCAAAAC
* *
18289627 CCTAAATTTCAAAACCCTAAA
1 CCTAAAATTC-GAACCCTAAA
18289648 ATTGAAATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
28 1 0.03
29 31 0.77
30 8 0.20
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.27
Consensus pattern (29 bp):
CCTAAAATTCGAACCCTAAATTTCAAAAC
Found at i:18289644 original size:44 final size:44
Alignment explanation
Indices: 18289562--18289692 Score: 192
Period size: 44 Copynumber: 3.0 Consensus size: 44
18289552 ACCCAAACCC
* * *
18289562 TTGAAATCCTAAAATTC-GAACCCTAAATTTCAAAACCCTACAA
1 TTGAAATCCTAAATTTCTAAACCCTAAATTTCAAAACCCTAAAA
18289605 TTGAAATCCTAAATTTCTAAACCCTAAATTTCAAAACCCTAAAA
1 TTGAAATCCTAAATTTCTAAACCCTAAATTTCAAAACCCTAAAA
* * *
18289649 TTGAAATCATAAATTTCTAAACCTTAAATCTTTAAAACCCTAAA
1 TTGAAATCCTAAATTTCTAAACCCTAAAT-TTCAAAACCCTAAA
18289693 TCTCAAACCC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 16 0.20
44 51 0.64
45 13 0.16
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (44 bp):
TTGAAATCCTAAATTTCTAAACCCTAAATTTCAAAACCCTAAAA
Found at i:18289707 original size:22 final size:22
Alignment explanation
Indices: 18289681--18289750 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
18289671 CTTAAATCTT
18289681 TAAAACCCTAAATCTCAAACCC
1 TAAAACCCTAAATCTCAAACCC
* *
18289703 TAAAA-TC-AAATCCCTAAACCC
1 TAAAACCCTAAATCTC-AAACCC
* * * *
18289724 TCCAAACCGTAAATCTAAAACCT
1 T-AAAACCCTAAATCTCAAACCC
18289747 TAAA
1 TAAA
18289751 TCCTTTAAGC
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 6 0.17
21 8 0.23
22 10 0.29
23 6 0.17
24 5 0.14
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAAACCCTAAATCTCAAACCC
Found at i:18289730 original size:30 final size:30
Alignment explanation
Indices: 18289696--18289838 Score: 91
Period size: 30 Copynumber: 4.9 Consensus size: 30
18289686 CCCTAAATCT
18289696 CAAACCCTAAAATCAAATCCCTAAACCCTC
1 CAAACCCTAAAATCAAATCCCTAAACCCTC
* * * * *
18289726 CAAACCGT-AAATCTAAAACCTTAAATCCTT
1 CAAACCCTAAAATC-AAATCCCTAAACCCTC
* * * *
18289756 TAAGCCCCAAAACTAAAAT-CCTAAA-CC-C
1 CAAACCCTAAAA-TCAAATCCCTAAACCCTC
* **
18289784 CAAATCCTAAAATCGAAA-CCCTAAACATTC
1 CAAACCCTAAAATC-AAATCCCTAAACCCTC
* *
18289814 CAAACCCTAAAA-CCAATCCTTAAAC
1 CAAACCCTAAAATCAAATCCCTAAAC
18289839 ACTTAAAAAT
Statistics
Matches: 82, Mismatches: 23, Indels: 17
0.67 0.19 0.14
Matches are distributed among these distances:
27 1 0.01
28 19 0.23
29 15 0.18
30 40 0.49
31 6 0.07
32 1 0.01
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (30 bp):
CAAACCCTAAAATCAAATCCCTAAACCCTC
Found at i:18289802 original size:21 final size:21
Alignment explanation
Indices: 18289760--18289804 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18289750 ATCCTTTAAG
*
18289760 CCCCAAAACTAAAATCCTAAA
1 CCCCAAAACTAAAATCCGAAA
*
18289781 CCCCAAATCCTAAAAT-CGAAA
1 CCCCAAA-ACTAAAATCCGAAA
18289802 CCC
1 CCC
18289805 TAAACATTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.47, C:0.38, G:0.02, T:0.13
Consensus pattern (21 bp):
CCCCAAAACTAAAATCCGAAA
Found at i:18290234 original size:37 final size:38
Alignment explanation
Indices: 18290164--18290238 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
18290154 TCATTATATT
18290164 TAAGAATCCAATTTCAAAATTGCATTTCATCATTACAC
1 TAAGAATCCAATTTCAAAATTGCATTTCATCATTACAC
18290202 TAAGAATCCAATTTCAAAA-TGCATTTCATCATTACAC
1 TAAGAATCCAATTTCAAAATTGCATTTCATCATTACAC
18290239 ACCACATCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 18 0.49
38 19 0.51
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.33
Consensus pattern (38 bp):
TAAGAATCCAATTTCAAAATTGCATTTCATCATTACAC
Found at i:18291020 original size:20 final size:20
Alignment explanation
Indices: 18290987--18291028 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
18290977 AATCTATTAA
18290987 AAGTAAAAAATTATATATAT
1 AAGTAAAAAATTATATATAT
* *
18291007 AAGTATAAATTTATATATAT
1 AAGTAAAAAATTATATATAT
18291027 AA
1 AA
18291029 ATTTGATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAGTAAAAAATTATATATAT
Found at i:18293671 original size:36 final size:36
Alignment explanation
Indices: 18293613--18293695 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
18293603 TTGATTTTCT
* *
18293613 TTATAAAAAAAATTAATCATTTGGTATATAAAAAAA
1 TTATAAAAAAAATAAATCATTTGGTAAATAAAAAAA
* * *
18293649 TCTATAAAAATAATAAAT-ATTTGTTAAATGAAAAAA
1 T-TATAAAAAAAATAAATCATTTGGTAAATAAAAAAA
*
18293685 TTACAAAAAAA
1 TTATAAAAAAA
18293696 TTATTTAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 8 0.21
36 17 0.44
37 14 0.36
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (36 bp):
TTATAAAAAAAATAAATCATTTGGTAAATAAAAAAA
Found at i:18296161 original size:26 final size:28
Alignment explanation
Indices: 18296132--18296198 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 28
18296122 GCCCAAGCAA
* *
18296132 GCCCATTTATGTCCTA-GCCTAATT-GG
1 GCCCATTTGTGTCCTAGGCCCAATTGGG
*
18296158 GCCCATGTGTGT-CTAGGCCCAATTGGG
1 GCCCATTTGTGTCCTAGGCCCAATTGGG
18296185 GCCCATTTGTGTCC
1 GCCCATTTGTGTCC
18296199 CAATTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 3 0.09
26 17 0.50
27 13 0.38
28 1 0.03
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.31
Consensus pattern (28 bp):
GCCCATTTGTGTCCTAGGCCCAATTGGG
Found at i:18296195 original size:27 final size:27
Alignment explanation
Indices: 18296107--18296197 Score: 82
Period size: 26 Copynumber: 3.4 Consensus size: 27
18296097 TCTGTAGACA
* **
18296107 CCCATTTGTGTCTGGGCCCAA--GCAAG
1 CCCATTTGTGTCTAGGCCCAATTG-GGG
* *
18296133 CCCATTTATGTCCTA-GCCTAATT-GGG
1 CCCATTTGTGT-CTAGGCCCAATTGGGG
*
18296159 CCCATGTGTGTCTAGGCCCAATTGGGG
1 CCCATTTGTGTCTAGGCCCAATTGGGG
18296186 CCCATTTGTGTC
1 CCCATTTGTGTC
18296198 CCAATTTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
25 3 0.06
26 32 0.63
27 16 0.31
ACGTcount: A:0.16, C:0.29, G:0.25, T:0.30
Consensus pattern (27 bp):
CCCATTTGTGTCTAGGCCCAATTGGGG
Found at i:18296246 original size:3 final size:3
Alignment explanation
Indices: 18296232--18296325 Score: 86
Period size: 3 Copynumber: 31.7 Consensus size: 3
18296222 TCATACTTTG
* * * *
18296232 TTA TTA TAA TTA TTA CTA TTGC TTA TTC TTA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * *
18296276 TTA -TA TTA CTA TTA TTA TTA TTA TTA TTA TATA TTT TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
18296321 TTA TT
1 TTA TT
18296326 CTCATTTTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
2 6 0.08
3 61 0.85
4 5 0.07
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18296257 original size:22 final size:21
Alignment explanation
Indices: 18296225--18296305 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 21
18296215 ATCCCTTTCA
18296225 TACT-TTGTTATTATAATTAT
1 TACTATTGTTATTATAATTAT
* *
18296245 TACTATTGCTTATTCTTATTAT
1 TACTATTG-TTATTATAATTAT
* *
18296267 TA-TATT-ATATTAT-ATTAC
1 TACTATTGTTATTATAATTAT
* * *
18296285 TATTATTATTATTATTATTAT
1 TACTATTGTTATTATAATTAT
18296306 ATATTTTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 10 0.20
21 11 0.22
22 13 0.27
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (21 bp):
TACTATTGTTATTATAATTAT
Found at i:18296273 original size:36 final size:36
Alignment explanation
Indices: 18296233--18296307 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
18296223 CATACTTTGT
* *
18296233 TATTATAAT-TATTACTATTGCTTATTCTTATTATTA
1 TATTATAATATATTACTATT-ATTATTATTATTATTA
*
18296269 TATTATATTATATTACTATTATTATTATTATTATTA
1 TATTATAATATATTACTATTATTATTATTATTATTA
18296305 TAT
1 TAT
18296308 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 25 0.71
37 10 0.29
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (36 bp):
TATTATAATATATTACTATTATTATTATTATTATTA
Found at i:18296288 original size:6 final size:5
Alignment explanation
Indices: 18296264--18296302 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
18296254 TTATTCTTAT
18296264 TATTA TATTA TATTA TATTA CTATTA TTATTA TTATTA T
1 TATTA TATTA TATTA TATTA -TATTA -TATTA -TATTA T
18296303 TATATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 16 0.50
6 16 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:18296308 original size:28 final size:28
Alignment explanation
Indices: 18296260--18296325 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
18296250 TTGCTTATTC
18296260 TTATTATTA-TATTATATTATATTACTA
1 TTATTATTATTATTATATTATATTACTA
**
18296287 TTATTATTATTATTAT-TATATATTTTTA
1 TTATTATTATTATTATAT-TATATTACTA
*
18296315 TTTTTATTATT
1 TTATTATTATT
18296326 CTCATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 10 0.29
28 24 0.71
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
TTATTATTATTATTATATTATATTACTA
Found at i:18296335 original size:22 final size:22
Alignment explanation
Indices: 18296255--18296325 Score: 51
Period size: 22 Copynumber: 3.3 Consensus size: 22
18296245 TACTATTGCT
* *
18296255 TATTCTTATTATTATAT-TATAT
1 TATTATTATTATTATATAT-TTT
* *
18296277 TA-TATTACTATTAT-TATTAT
1 TATTATTATTATTATATATTTT
*
18296297 TATTATTATATATT-TTTATTTT
1 TATTATTAT-TATTATATATTTT
18296319 TATTATT
1 TATTATT
18296326 CTCATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.15
21 17 0.41
22 18 0.44
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATTATTATTATATATTTT
Found at i:18307642 original size:119 final size:119
Alignment explanation
Indices: 18307421--18307774 Score: 347
Period size: 119 Copynumber: 3.0 Consensus size: 119
18307411 TATTATTCAC
* **
18307421 TCACTTGATCTTGGCTCAGTCCAAATCATTCCTTATGATTTGTGATTTCATCCCAATCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCATGATTTCATCCCAATCATTTATT
* * * * * * *
18307486 TTCAACCTCAACTTGGTTTTGGTTA-TTTAATTCTGACTCGTGGTTTCATCCCAG
66 TTTAACCTCTACTCGATTCTGGTCACTTT-ATTTTGACTCGTGGTTTCATCCCAG
* * * * * * *
18307540 TTACTTGATCTGGGCTCAGTCTAGATCATTTTTTATGATTCATGATTTTATCCCGATCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCATGATTTCATCCCAATCATTTATT
* * * * * **
18307605 TTTTACCTCTACTCGATTCTAGTCGCTTTATTTTGACTTGTGGTATT-GTCCTGG
66 TTTAACCTCTACTCGATTCTGGTCACTTTATTTTGACTCGTGGT-TTCATCCCAG
* * * * * *
18307659 TCACTTAATCTTGGCTCAGTCCATATCATTTCTTATGATTCATGGTTTCATTCTAACCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCATGATTTCATCCCAATCATTTATT
* * *
18307724 TCTAATCT-TGACTC-AGTCTTGGTCACTTTATTTTGACTCGTGGTTTCATCC
66 TTTAACCTCT-ACTCGATTC-TGGTCACTTTATTTTGACTCGTGGTTTCATCC
18307775 TGATCACATG
Statistics
Matches: 186, Mismatches: 44, Indels: 10
0.77 0.18 0.04
Matches are distributed among these distances:
118 6 0.03
119 175 0.94
120 5 0.03
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (119 bp):
TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCATGATTTCATCCCAATCATTTATT
TTTAACCTCTACTCGATTCTGGTCACTTTATTTTGACTCGTGGTTTCATCCCAG
Found at i:18309245 original size:39 final size:37
Alignment explanation
Indices: 18309176--18309270 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 37
18309166 CGATTGCAGG
* *
18309176 TTTTTTTTTTCTTTTTT-ACATTTTATTTTTATT-TT
1 TTTTTTTTTTATTTTTTAACATTTTACTTTTATTATT
18309211 TTGATTTTTTTTATTTTTTAACCTATTTT-CTTTTATTATT
1 TT--TTTTTTTTATTTTTTAA-C-ATTTTACTTTTATTATT
*
18309251 TTTTTTGTTTTATTTATTAA
1 TTTTTT-TTTTATTTTTTAA
18309271 AAAAAATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
35 2 0.04
37 14 0.28
38 5 0.10
39 20 0.40
40 9 0.18
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (37 bp):
TTTTTTTTTTATTTTTTAACATTTTACTTTTATTATT
Found at i:18309350 original size:14 final size:14
Alignment explanation
Indices: 18309333--18309367 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18309323 AATTATAGGA
18309333 AAAAAAAT-ATAAT
1 AAAAAAATAATAAT
*
18309346 TAAAAAATAATAAT
1 AAAAAAATAATAAT
18309360 AAAAAAAT
1 AAAAAAAT
18309368 CCTTTCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAATAATAAT
Found at i:18309383 original size:18 final size:19
Alignment explanation
Indices: 18309360--18309401 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
18309350 AAATAATAAT
*
18309360 AAAAAAATCCTTTC-AATA
1 AAAAAAATACTTTCAAATA
*
18309378 AAAAAAATATTTTCAAATA
1 AAAAAAATACTTTCAAATA
18309397 AAAAA
1 AAAAA
18309402 TAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAAATACTTTCAAATA
Found at i:18309399 original size:17 final size:17
Alignment explanation
Indices: 18309357--18309408 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
18309347 AAAAAATAAT
18309357 AATAAAAAA-ATCCTTTCA
1 AATAAAAAATAT--TTTCA
*
18309375 ATAAAAAAAATATTTTCA
1 A-ATAAAAAATATTTTCA
18309393 AATAAAAAATAATTTT
1 AATAAAAAAT-ATTTT
18309409 TATCCTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 8 0.28
18 12 0.41
19 7 0.24
20 2 0.07
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAAAAATATTTTCA
Found at i:18312122 original size:16 final size:16
Alignment explanation
Indices: 18312101--18312135 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18312091 ATGATAGAAT
*
18312101 AAATACAGCACCGAAA
1 AAATACAGCACCCAAA
*
18312117 AAATACAGTACCCAAA
1 AAATACAGCACCCAAA
18312133 AAA
1 AAA
18312136 CCCATCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.23, G:0.09, T:0.09
Consensus pattern (16 bp):
AAATACAGCACCCAAA
Found at i:18313016 original size:101 final size:101
Alignment explanation
Indices: 18312898--18313091 Score: 343
Period size: 101 Copynumber: 1.9 Consensus size: 101
18312888 AGAAATGTGA
* *
18312898 TATTTATTTTTTGAACACCACATTTCTAGCATAGGAAATGGAGTAAAAAAATTTTTTATATTTAA
1 TATTTATTTTTTGAACACCAAATTTCTAGCATAGGAAATGGAGTAAAAAAATTTTCTATATTTAA
** *
18312963 TCTTTTTTATTTGTTATCAATCACGTTTCAACGTGG
66 TCTTTTTTATTCATTATCAACCACGTTTCAACGTGG
18312999 TATTTATTTTTTGAACACCAAATTTCTAGCATAGGAAATGGAGTAAAAAAATTTTCTATATTTAA
1 TATTTATTTTTTGAACACCAAATTTCTAGCATAGGAAATGGAGTAAAAAAATTTTCTATATTTAA
18313064 TCTTTTTTATTCATTATCAACCACGTTT
66 TCTTTTTTATTCATTATCAACCACGTTT
18313092 TGAAACAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (101 bp):
TATTTATTTTTTGAACACCAAATTTCTAGCATAGGAAATGGAGTAAAAAAATTTTCTATATTTAA
TCTTTTTTATTCATTATCAACCACGTTTCAACGTGG
Found at i:18322582 original size:32 final size:32
Alignment explanation
Indices: 18322541--18322605 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18322531 TTGTTCAGTT
18322541 AAACAATTAAAGTATATGAATATTTATCATGG
1 AAACAATTAAAGTATATGAATATTTATCATGG
*
18322573 AAACAATTAAAGTATATGAATATTTATTATGG
1 AAACAATTAAAGTATATGAATATTTATCATGG
18322605 A
1 A
18322606 CAATATTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (32 bp):
AAACAATTAAAGTATATGAATATTTATCATGG
Found at i:18323106 original size:44 final size:44
Alignment explanation
Indices: 18323057--18323155 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
18323047 TATTGAAAAT
18323057 TTTATCACAATAATCTGTTACAATTTTCATATATTGTCGCTAAA
1 TTTATCACAATAATCTGTTACAATTTTCATATATTGTCGCTAAA
* * *
18323101 TTTATCACAATATTTTGTTACAATTTTCATATATTGTTGCTAAA
1 TTTATCACAATAATCTGTTACAATTTTCATATATTGTCGCTAAA
*
18323145 TTTATCTCAAT
1 TTTATCACAAT
18323156 TTTTTTATCC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.47
Consensus pattern (44 bp):
TTTATCACAATAATCTGTTACAATTTTCATATATTGTCGCTAAA
Found at i:18323114 original size:23 final size:23
Alignment explanation
Indices: 18323087--18323155 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
18323077 CAATTTTCAT
*
18323087 ATATTGTCGCTAAATTTATCACA
1 ATATTGTTGCTAAATTTATCACA
* *
18323110 ATATT-TTGTTACAATTT-TCA-T
1 ATATTGTTGCTA-AATTTATCACA
*
18323131 ATATTGTTGCTAAATTTATCTCA
1 ATATTGTTGCTAAATTTATCACA
18323154 AT
1 AT
18323156 TTTTTTATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 10 0.28
22 14 0.39
23 12 0.33
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (23 bp):
ATATTGTTGCTAAATTTATCACA
Found at i:18323137 original size:19 final size:19
Alignment explanation
Indices: 18323072--18323138 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 19
18323062 CACAATAATC
18323072 TGTTACAATTTTCATATAT
1 TGTTACAATTTTCATATAT
*
18323091 TGTCGCTA-AATTTATCACAATATTT
1 TGT---TACAATTT-T--C-ATATAT
18323116 TGTTACAATTTTCATATAT
1 TGTTACAATTTTCATATAT
18323135 TGTT
1 TGTT
18323139 GCTAAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
19 12 0.32
20 1 0.03
21 5 0.13
22 6 0.16
23 5 0.13
24 1 0.03
25 8 0.21
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (19 bp):
TGTTACAATTTTCATATAT
Found at i:18323146 original size:21 final size:21
Alignment explanation
Indices: 18323078--18323147 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
18323068 AATCTGTTAC
*
18323078 AATTTTCATATATTGTCGCTA
1 AATTTTCATATATTGTTGCTA
* *
18323099 AATTTATCACAATATT-TTGTTA
1 AATTT-TCA-TATATTGTTGCTA
18323121 CAATTTTCATATATTGTTGCTA
1 -AATTTTCATATATTGTTGCTA
18323143 AATTT
1 AATTT
18323148 ATCTCAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 15 0.38
22 15 0.38
23 10 0.25
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.50
Consensus pattern (21 bp):
AATTTTCATATATTGTTGCTA
Found at i:18323178 original size:42 final size:44
Alignment explanation
Indices: 18323057--18323180 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 44
18323047 TATTGAAAAT
* * * * *
18323057 TTTATCACAATAATCTGTTACAATTTTCATATATTGTCGCTAAA
1 TTTATCACAATATTTTGTTACAATTGTCAAATATTGTTGCTAAA
* *
18323101 TTTATCACAATATTTTGTTACAATTTTCATATATTGTTGCTAAA
1 TTTATCACAATATTTTGTTACAATTGTCAAATATTGTTGCTAAA
* * *
18323145 TTTATCTCAAT-TTTT-TTATCCA-TGTGAAATATTGTT
1 TTTATCACAATATTTTGTTA-CAATTGTCAAATATTGTT
18323181 ATTAGTTTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
42 14 0.20
43 6 0.08
44 51 0.72
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (44 bp):
TTTATCACAATATTTTGTTACAATTGTCAAATATTGTTGCTAAA
Found at i:18323561 original size:18 final size:18
Alignment explanation
Indices: 18323534--18323575 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18323524 TTAACATGAT
*
18323534 TTTAAATTAATC-TTATTA
1 TTTAAATTAA-CATAATTA
*
18323552 TTTAATTTAACATAATTA
1 TTTAAATTAACATAATTA
18323570 TTTAAA
1 TTTAAA
18323576 AGCTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTAAATTAACATAATTA
Found at i:18323922 original size:24 final size:24
Alignment explanation
Indices: 18323895--18323970 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
18323885 TTAACTTTGA
18323895 TATATTAATTTAAATTATTAATAT
1 TATATTAATTTAAATTATTAATAT
* * *
18323919 TATATTGATTAATATAAATAATAATAT
1 TATATTAATT--TA-AATTATTAATAT
*
18323946 TATTATTAATATAATATTATTAATA
1 TA-TATTAATTTAA-ATTATTAATA
18323971 ATTAATAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
24 9 0.22
25 1 0.03
26 12 0.30
27 12 0.30
28 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (24 bp):
TATATTAATTTAAATTATTAATAT
Found at i:18323923 original size:5 final size:6
Alignment explanation
Indices: 18323896--18323987 Score: 53
Period size: 6 Copynumber: 14.5 Consensus size: 6
18323886 TAACTTTGAT
* *
18323896 ATATTA AT-TTAA ATTATTA ATATTA TATTGATTA ATATAA ATAATA ATATTA
1 ATATTA ATATT-A A-TATTA ATATTA -A-T-ATTA ATATTA ATATTA ATATTA
* * * *
18323948 TTATTA ATA-TA ATATTA TTAATA ATTAATA ATATATA ATA
1 ATATTA ATATTA ATATTA ATATTA A-TATTA ATAT-TA ATA
18323988 ATAACTAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
5 7 0.10
6 36 0.54
7 16 0.24
8 4 0.06
9 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:18323931 original size:15 final size:14
Alignment explanation
Indices: 18323897--18323975 Score: 71
Period size: 14 Copynumber: 5.9 Consensus size: 14
18323887 AACTTTGATA
18323897 TATTAAT-TTAAAT
1 TATTAATATTAAAT
*
18323910 TATTAATATTATAT
1 TATTAATATTAAAT
18323924 TGATTAATA-TAAA-
1 T-ATTAATATTAAAT
*
18323937 TAATAATATT--AT
1 TATTAATATTAAAT
18323949 TATTAATA-TAATAT
1 TATTAATATTAA-AT
18323963 TATTAATAATTAA
1 TATTAAT-ATTAA
18323976 TAATATATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
11 2 0.04
12 13 0.25
13 9 0.17
14 18 0.34
15 8 0.15
16 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:18323974 original size:24 final size:23
Alignment explanation
Indices: 18323913--18323991 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
18323903 TTTAAATTAT
*
18323913 TAATATTATATTGATTAATATAAA
1 TAATAATATATT-ATTAATATAAA
18323937 TAATAATATTATTATTAATATAATA
1 TAATAATA-TATTATTAATATAA-A
* *
18323962 TTATTAATA-ATTAATAATATATAA
1 -TAATAATATATTATTAATATA-AA
18323986 TAATAA
1 TAATAA
18323992 CTAATATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
23 5 0.11
24 29 0.62
25 6 0.13
26 7 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
TAATAATATATTATTAATATAAA
Found at i:18323986 original size:17 final size:16
Alignment explanation
Indices: 18323928--18324000 Score: 71
Period size: 17 Copynumber: 4.5 Consensus size: 16
18323918 TTATATTGAT
18323928 TAATATA-AATAATAA
1 TAATATATAATAATAA
* *
18323943 TATTAT-TATTAAT-A
1 TAATATATAATAATAA
18323957 TAATATTATTAATAATTAA
1 TAATA-TA-TAATAA-TAA
18323976 TAATATATAATAATAA
1 TAATATATAATAATAA
18323992 CTAATATAT
1 -TAATATAT
18324001 TTTTAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.11
15 11 0.23
16 3 0.06
17 19 0.40
18 3 0.06
19 6 0.13
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATATAATAATAA
Found at i:18324148 original size:31 final size:31
Alignment explanation
Indices: 18324105--18324185 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
18324095 TTAAATGAAC
* * *
18324105 TAAATTTTAAATTTTGTATAAATACAAGGAT
1 TAAATTTCAAATTTCGTATAAATACAAAGAT
** *
18324136 TAAATTTCAAATTTCGTACGAATATAAAGAT
1 TAAATTTCAAATTTCGTATAAATACAAAGAT
18324167 TAAATTTCAAATTTCGTAT
1 TAAATTTCAAATTTCGTAT
18324186 GAGTCAATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (31 bp):
TAAATTTCAAATTTCGTATAAATACAAAGAT
Found at i:18325441 original size:6 final size:6
Alignment explanation
Indices: 18325430--18325474 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
18325420 CTTTAATATT
*
18325430 GTAGCA GTAGCA GTAGCA GTAGCA GTAGCA GTAGCA GTAGTA GTA
1 GTAGCA GTAGCA GTAGCA GTAGCA GTAGCA GTAGCA GTAGCA GTA
18325475 CTACTACTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (6 bp):
GTAGCA
Found at i:18327161 original size:110 final size:111
Alignment explanation
Indices: 18327007--18327221 Score: 324
Period size: 110 Copynumber: 1.9 Consensus size: 111
18326997 AAATAAGCAC
* * ** **
18327007 TTAAAAATGTAAATTAACGTAAAAAGTTGTCACCAATAAATATAACTTTTTGGTTTAATCCGGTT
1 TTAAAAATGTAAAATAACATAAAAAGTTGTCACCAATAAATATAACCATTTGGTTTAATCCAATT
18327072 CTAATTAAGGATTATAGATGTACCACCTGACAAAAATTGGCTTCAA
66 CTAATTAAGGATTATAGATGTACCACCTGACAAAAATTGGCTTCAA
* * *
18327118 TTAAAAATGTAAAATAGCAT-AAAAGTTGTCACCGATAAGTATAACCATTTGGTTTAATCCAATT
1 TTAAAAATGTAAAATAACATAAAAAGTTGTCACCAATAAATATAACCATTTGGTTTAATCCAATT
* *
18327182 CTAATTAAGGATTATAGATTTATCACCTGACAAAAATTGG
66 CTAATTAAGGATTATAGATGTACCACCTGACAAAAATTGG
18327222 TATCCAATGC
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 76 0.82
111 17 0.18
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (111 bp):
TTAAAAATGTAAAATAACATAAAAAGTTGTCACCAATAAATATAACCATTTGGTTTAATCCAATT
CTAATTAAGGATTATAGATGTACCACCTGACAAAAATTGGCTTCAA
Found at i:18332410 original size:23 final size:24
Alignment explanation
Indices: 18332367--18332421 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
18332357 TTTTATTGTG
*
18332367 ATTATT-TTTATTATTTCATTTTT
1 ATTATTATTTACTATTTCATTTTT
*
18332390 GTTATTATTTACTATTT-ATTTTT
1 ATTATTATTTACTATTTCATTTTT
*
18332413 ATTTTTATT
1 ATTATTATT
18332422 ATTGTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTATTATTTACTATTTCATTTTT
Found at i:18332878 original size:16 final size:19
Alignment explanation
Indices: 18332839--18332878 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
18332829 AAAAATATAA
*
18332839 ATAAATATATATAAATTCT
1 ATAAATATATATAAAATCT
18332858 ATAAAT-TATA-AAAATCT
1 ATAAATATATATAAAATCT
18332875 -TAAA
1 ATAAA
18332879 CAAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 6 0.30
18 4 0.20
19 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAATATATATAAAATCT
Found at i:18332908 original size:25 final size:25
Alignment explanation
Indices: 18332880--18332928 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
18332870 AATCTTAAAC
18332880 AAAAATAAAAT-CAAAAAGTAAAAAT
1 AAAAATAAAATACAAAAAG-AAAAAT
*
18332905 AAAAATAAAATAGAAAAAGAAAAA
1 AAAAATAAAATACAAAAAGAAAAA
18332929 CTTACAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (25 bp):
AAAAATAAAATACAAAAAGAAAAAT
Found at i:18332914 original size:19 final size:20
Alignment explanation
Indices: 18332880--18332928 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
18332870 AATCTTAAAC
18332880 AAAAAT-AAAATCAAAA-AG
1 AAAAATAAAAATCAAAATAG
18332898 TAAAAATAAAAAT-AAAATAG
1 -AAAAATAAAAATCAAAATAG
*
18332918 AAAAAGAAAAA
1 AAAAATAAAAA
18332929 CTTACAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (20 bp):
AAAAATAAAAATCAAAATAG
Found at i:18333276 original size:18 final size:19
Alignment explanation
Indices: 18333239--18333276 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18333229 TTCAAACGAC
* *
18333239 TGTCGAAAAATTCATTAAT
1 TGTCAAAAAATTCATAAAT
18333258 TGTCAAAAAATTCA-AAAT
1 TGTCAAAAAATTCATAAAT
18333276 T
1 T
18333277 TTCCTAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (19 bp):
TGTCAAAAAATTCATAAAT
Found at i:18334817 original size:13 final size:13
Alignment explanation
Indices: 18334799--18334824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18334789 TATATTTGAT
18334799 TAAATAAATAAAA
1 TAAATAAATAAAA
18334812 TAAATAAATAAAA
1 TAAATAAATAAAA
18334825 AAAGTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:18344628 original size:17 final size:17
Alignment explanation
Indices: 18344584--18344632 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
18344574 TTAATTTTTT
* *
18344584 TATGTTATTTAAATTTG
1 TATGATATTTAAATTTC
18344601 T-TGCA-ATTTAAATTTC
1 TATG-ATATTTAAATTTC
18344617 TATGATATTTAAATTT
1 TATGATATTTAAATTT
18344633 ATGAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (17 bp):
TATGATATTTAAATTTC
Found at i:18344730 original size:31 final size:30
Alignment explanation
Indices: 18344695--18344770 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
18344685 TCATTTACTT
* * *
18344695 TTTATATAATTTATTTTTCATGCATTTTAAA
1 TTTATATAATTTATTTAT-ATACAATTTAAA
** *
18344726 TTTATGCAATTTAATTATATACAATTTAAA
1 TTTATATAATTTATTTATATACAATTTAAA
18344756 TTTA-AT-ATTTATTTA
1 TTTATATAATTTATTTA
18344771 AATTTTCAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
28 8 0.22
30 14 0.39
31 14 0.39
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTATATAATTTATTTATATACAATTTAAA
Found at i:18344732 original size:15 final size:15
Alignment explanation
Indices: 18344714--18344759 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
18344704 TTTATTTTTC
*
18344714 ATGCATTTTAAATTT
1 ATGCAATTTAAATTT
18344729 ATGCAATTT-AATTAT
1 ATGCAATTTAAATT-T
*
18344744 ATACAATTTAAATTT
1 ATGCAATTTAAATTT
18344759 A
1 A
18344760 ATATTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (15 bp):
ATGCAATTTAAATTT
Found at i:18346195 original size:11 final size:11
Alignment explanation
Indices: 18346179--18346213 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
18346169 CACATATCCA
18346179 TGAAAAAATTT
1 TGAAAAAATTT
18346190 TG-AAAAATTT
1 TGAAAAAATTT
18346200 TGAAAAAATTT
1 TGAAAAAATTT
18346211 TGA
1 TGA
18346214 GCAAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (11 bp):
TGAAAAAATTT
Found at i:18346205 original size:21 final size:22
Alignment explanation
Indices: 18346179--18346222 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
18346169 CACATATCCA
18346179 TGAAAAAATTTTGA-AAAATTT
1 TGAAAAAATTTTGAGAAAATTT
*
18346200 TGAAAAAATTTTGAGCAAATTT
1 TGAAAAAATTTTGAGAAAATTT
18346222 T
1 T
18346223 TCATAACCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (22 bp):
TGAAAAAATTTTGAGAAAATTT
Found at i:18346222 original size:11 final size:10
Alignment explanation
Indices: 18346182--18346213 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
18346172 ATATCCATGA
18346182 AAAAATTTTG
1 AAAAATTTTG
18346192 AAAAATTTTG
1 AAAAATTTTG
18346202 AAAAAATTTTG
1 -AAAAATTTTG
18346213 A
1 A
18346214 GCAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (10 bp):
AAAAATTTTG
Found at i:18348847 original size:52 final size:52
Alignment explanation
Indices: 18348747--18348847 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
18348737 TACCCACAGT
* * * *
18348747 AATGAAATAGAAGCCCATTTTTTTTGCTGGTGCTTTTCAGTACTTTTGGCAG
1 AATGAAATAGAAGCCCATTTTTTTTGCTGGAGCTTTCCAGCACCTTTGGCAG
* *
18348799 AATGAAATAGAAGCATCATTTTTTTT-CTTGAGCTTTCCAGCACCTTTGG
1 AATGAAATAGAAGC-CCATTTTTTTTGCTGGAGCTTTCCAGCACCTTTGG
18348848 TAAACCTCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 32 0.76
53 10 0.24
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (52 bp):
AATGAAATAGAAGCCCATTTTTTTTGCTGGAGCTTTCCAGCACCTTTGGCAG
Found at i:18349626 original size:23 final size:25
Alignment explanation
Indices: 18349583--18349648 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 25
18349573 ACTACTTTAT
* *
18349583 TATTGTTTAATTATTTGAATATAAT-
1 TATTATTT-ATTATTTTAATATAATA
18349608 T-TTATTTATTATTTTAATATAATA
1 TATTATTTATTATTTTAATATAATA
18349632 TAATTATTTATT-TTTTA
1 T-ATTATTTATTATTTTA
18349649 TTGTTAGGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 15 0.42
24 6 0.17
25 6 0.17
26 9 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (25 bp):
TATTATTTATTATTTTAATATAATA
Found at i:18360834 original size:15 final size:15
Alignment explanation
Indices: 18360816--18360848 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18360806 TTAAAGATTA
*
18360816 TTATTTTTTATTTTT
1 TTATTTTTTATTTGT
18360831 TTATTTTTTATTTGT
1 TTATTTTTTATTTGT
18360846 TTA
1 TTA
18360849 AAGCTTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (15 bp):
TTATTTTTTATTTGT
Found at i:18360866 original size:39 final size:38
Alignment explanation
Indices: 18360798--18360884 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 38
18360788 TATACCATCA
* *
18360798 TTTATTTTTTAAAGATTATTATTTTTTATTTTTTTATTT
1 TTTATTTTTTAAAGATTACTATTTGTTA-TTTTTTATTT
*
18360837 TTTATTTGTTTAAAGCTTACT-TTTGTTATTTTTTATTT
1 TTTATTT-TTTAAAGATTACTATTTGTTATTTTTTATTT
*
18360875 ATATATTTTT
1 -TTTATTTTT
18360885 AAATTCGTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.29
39 19 0.45
40 11 0.26
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (38 bp):
TTTATTTTTTAAAGATTACTATTTGTTATTTTTTATTT
Found at i:18371282 original size:34 final size:36
Alignment explanation
Indices: 18371060--18371724 Score: 342
Period size: 36 Copynumber: 18.0 Consensus size: 36
18371050 CTTATTCTCC
* * * *
18371060 TAAGTAAACATTCTCATTAATTGTTCT-TCTA-TTTA
1 TAAGGAAACACTCTCATTACTTGTTCTCT-TATTTTT
* * * *
18371095 TAACGGAAACAACT-TTACTAATTGTTGTCTTATTTTT
1 TAA-GGAAAC-ACTCTCATTACTTGTTCTCTTATTTTT
* * * *
18371132 TAGGGAAATA-TCTTCATTACTTATTCTATTATTTTT
1 TAAGGAAACACTC-TCATTACTTGTTCTCTTATTTTT
* * * *
18371168 TAAGGAAATA-TCTTCATTACATATTCTATTATTTTT
1 TAAGGAAACACTC-TCATTACTTGTTCTCTTATTTTT
* * * * *
18371204 TAGGGAAAAACTTTCATTACTTATTCTTATATATTTTT
1 TAAGGAAACACTCTCATTACTTGTTC-TCT-TATTTTT
*
18371242 TAAAGGAAACAC-C-CATTACTTGTTATCTTATTTTT
1 T-AAGGAAACACTCTCATTACTTGTTCTCTTATTTTT
* *
18371277 TAAGGAAATACTCTCATTACTTGTTCTCCTATTTTT
1 TAAGGAAACACTCTCATTACTTGTTCTCTTATTTTT
* *
18371313 TAGGGAAACACTCTCATTACTTATTCTCTTATTGTTTTTGTATTTTT
1 TAAGGAAACACTCTCATTACTTGTTCTC----------T-TATTTTT
* *
18371360 TAAGGACACACTCTCATTACTTATTCT-TCTATTTTT
1 TAAGGAAACACTCTCATTACTTGTTCTCT-TATTTTT
* * **
18371396 TAGGGAAACACTCTCATTACTTATTCT-TCTATTCCT
1 TAAGGAAACACTCTCATTACTTGTTCTCT-TATTTTT
* * * * * *
18371432 T-CGAGAAATATTCAT-ATTTCTT-TTTTTTTATTTTT
1 TAAG-GAAACACTC-TCATTACTTGTTCTCTTATTTTT
* *
18371467 TAAAGAAAACACTCTCATTACTTGTTCTTTTATTTTT
1 T-AAGGAAACACTCTCATTACTTGTTCTCTTATTTTT
* *
18371504 TAAGGAAATACTCGCATTACTTGTTCTCTTATTTTTCT
1 TAAGGAAACACTCTCATTACTTGTTCTCTTA-TTTT-T
* * ** *
18371542 TAAGGAAACTCTCTTATTACTAATTCTCTTTTTTTTT
1 TAAGGAAACACTCTCATTACTTGTTCTC-TTATTTTT
* * * *
18371579 TAAAGAAATA-TGCTCATTATTTTTTCTCTTATTTTCT
1 TAAGGAAACACT-CTCATTACTTGTTCTCTTATTTT-T
* * **
18371616 TTAGAAAACACTCGGATTACTTGTTCT-TCTATTTTCT
1 TAAGGAAACACTCTCATTACTTGTTCTCT-TATTTT-T
** * *
18371653 TTTGCAAAACACTTTCATTACTTG---TCTT-TTTTT
1 TAAG-GAAACACTCTCATTACTTGTTCTCTTATTTTT
*
18371686 T-AGAGAAACACTCTCATTACTTGTTTCACTTGATTTTT
1 TAAG-GAAACACTCTCATTACTTG-TTCTCTT-ATTTTT
18371724 T
1 T
18371725 TTTTTTTAGA
Statistics
Matches: 496, Mismatches: 89, Indels: 87
0.74 0.13 0.13
Matches are distributed among these distances:
32 18 0.04
33 2 0.00
34 14 0.03
35 26 0.05
36 246 0.50
37 90 0.18
38 58 0.12
39 10 0.02
47 32 0.06
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.50
Consensus pattern (36 bp):
TAAGGAAACACTCTCATTACTTGTTCTCTTATTTTT
Found at i:18371400 original size:83 final size:83
Alignment explanation
Indices: 18371270--18371422 Score: 270
Period size: 83 Copynumber: 1.8 Consensus size: 83
18371260 CTTGTTATCT
* *
18371270 TATTTTTTAAGGAAATACTCTCATTACTTGTTCTCCTATTTTTTAGGGAAACACTCTCATTACTT
1 TATTTTTTAAGGAAACACTCTCATTACTTATTCTCCTATTTTTTAGGGAAACACTCTCATTACTT
18371335 ATTCTCTTATTGTTTTTG
66 ATTCTCTTATTGTTTTTG
* *
18371353 TATTTTTTAAGGACACACTCTCATTACTTATTCTTCTATTTTTTAGGGAAACACTCTCATTACTT
1 TATTTTTTAAGGAAACACTCTCATTACTTATTCTCCTATTTTTTAGGGAAACACTCTCATTACTT
18371418 ATTCT
66 ATTCT
18371423 TCTATTCCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.49
Consensus pattern (83 bp):
TATTTTTTAAGGAAACACTCTCATTACTTATTCTCCTATTTTTTAGGGAAACACTCTCATTACTT
ATTCTCTTATTGTTTTTG
Found at i:18371673 original size:112 final size:113
Alignment explanation
Indices: 18371145--18371724 Score: 286
Period size: 109 Copynumber: 5.2 Consensus size: 113
18371135 GGAAATATCT
* * * * * * * *
18371145 TCATTACTTATTCTATTATTTTTTAAGGAAATA-TCTTCATTACATATTCTATTA-TTTT-TTAG
1 TCATTACTTGTTCTCTTATTTTTTAAGAAAACACTC-GCATTACTTGTTCTCTTATTTTTCTTA-
* * * *
18371207 GGAAAA-ACT-TTCATTACTTATTCT-TATATATTTTTTAAAGGAAACAC-C
64 AGAAAACACTCTT-ATTACTAATTCTCT-TTTATTTTTTAAAGAAAACACTC
* * * * * *
18371255 -CATTACTTGTTATCTTATTTTTTAAGGAAATACTCTCATTACTTGTTCTCCTA-TTTT-TTAGG
1 TCATTACTTGTTCTCTTATTTTTTAAGAAAACACTCGCATTACTTGTTCTCTTATTTTTCTTAAG
* * * * * *
18371317 GAAACACTCTCATTACTTATTCTCTTATTGTTTTTGTATTTTTTAAGGACACACTC
66 AAAACACTCTTATTACTAATTCTCTT-TTATTTTT-TA------AAGAAAACACTC
* * * * * *
18371373 TCATTACTTATTCT-TCTATTTTTTAGGGAAACACTCTCATTACTTATTCT-TCTA--TTCCTT-
1 TCATTACTTGTTCTCT-TATTTTTTAAGAAAACACTCGCATTACTTGTTCTCT-TATTTTTCTTA
* * * * * *
18371433 CGAGAAATATTCATATTTCT--TT-TTTTTTATTTTTTAAAGAAAACACTC
64 AGA-AAACACTCTTATTACTAATTCTCTTTTATTTTTTAAAGAAAACACTC
* * *
18371481 TCATTACTTGTTCTTTTATTTTTTAAGGAAATACTCGCATTACTTGTTCTCTTATTTTTCTTAAG
1 TCATTACTTGTTCTCTTATTTTTTAAGAAAACACTCGCATTACTTGTTCTCTTATTTTTCTTAAG
* * *
18371546 GAAACTCTCTTATTACTAATTCTCTTTT-TTTTTTAAAG-AAATA-TGC
66 AAAACACTCTTATTACTAATTCTCTTTTATTTTTTAAAGAAAACACT-C
* * * * *
18371592 TCATTATTTTTTCTCTTATTTTCTTTAGAAAACACTCGGATTACTTGTTCT-TCTA-TTTTCTTT
1 TCATTACTTGTTCTCTTATTTT-TTAAGAAAACACTCGCATTACTTGTTCTCT-TATTTTTCTTA
* * *
18371655 TGCAAAACACT-TTCATTAC---TTGTC--TT-TTTTTTAGAG-AAACACTC
64 AG-AAAACACTCTT-ATTACTAATTCTCTTTTATTTTTTAAAGAAAACACTC
*
18371699 TCATTACTTGTTTCACTTGATTTTTT
1 TCATTACTTG-TTCTCTT-ATTTTTT
18371725 TTTTTTTAGA
Statistics
Matches: 374, Mismatches: 62, Indels: 70
0.74 0.12 0.14
Matches are distributed among these distances:
107 24 0.06
108 69 0.18
109 77 0.21
110 27 0.07
111 38 0.10
112 49 0.13
113 5 0.01
114 2 0.01
115 7 0.02
116 3 0.01
117 11 0.03
118 5 0.01
119 57 0.15
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.50
Consensus pattern (113 bp):
TCATTACTTGTTCTCTTATTTTTTAAGAAAACACTCGCATTACTTGTTCTCTTATTTTTCTTAAG
AAAACACTCTTATTACTAATTCTCTTTTATTTTTTAAAGAAAACACTC
Found at i:18372328 original size:31 final size:32
Alignment explanation
Indices: 18372288--18372363 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
18372278 ATAAAAGCTA
* * *
18372288 TTCACGGAACAATTATTCAAGGAATAACT-CT
1 TTCATGGAACAACTATTCAAGGAACAACTACT
**
18372319 TTCATGGAACAACTATTCAATTAACAACTACT
1 TTCATGGAACAACTATTCAAGGAACAACTACT
*
18372351 TTCATAGAACAAC
1 TTCATGGAACAAC
18372364 AACTTCATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (32 bp):
TTCATGGAACAACTATTCAAGGAACAACTACT
Found at i:18378918 original size:3 final size:3
Alignment explanation
Indices: 18378910--18378948 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
18378900 ATCTTTAAAA
* *
18378910 ATC ATC ATC ATC ATC ATC ATC ATAA ATC ATC ATT ATC AT
1 ATC ATC ATC ATC ATC ATC ATC AT-C ATC ATC ATC ATC AT
18378949 TAGTTTGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:18381561 original size:45 final size:45
Alignment explanation
Indices: 18381476--18381561 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
18381466 TATTTTGTGG
* * * *
18381476 TGATTGGTGTCAGTTGTCACTATGTCAGCAGCATTTGTCATGTCA
1 TGATTGATGTCACTTGTCACTATATCAGCAGCATTAGTCATGTCA
* *
18381521 TGATTGATGTCACTTGTCACTTTATTAGCCA-CATTAGTCAT
1 TGATTGATGTCACTTGTCACTATATCAG-CAGCATTAGTCAT
18381562 CTAATGTCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 32 0.94
46 2 0.06
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (45 bp):
TGATTGATGTCACTTGTCACTATATCAGCAGCATTAGTCATGTCA
Found at i:18381835 original size:16 final size:16
Alignment explanation
Indices: 18381814--18381855 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
18381804 AAATAAAATA
18381814 ATATTATAATT-ATTTT
1 ATATTATAATTCA-TTT
*
18381830 ATATTATATTTCATTT
1 ATATTATAATTCATTT
18381846 ATATT-TAATT
1 ATATTATAATT
18381856 GAAAGAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTATAATTCATTT
Found at i:18383698 original size:19 final size:20
Alignment explanation
Indices: 18383659--18383699 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
18383649 TTTTATCATA
*
18383659 AATTTTATAGAATTTTTTTG
1 AATTTTATAGAATTATTTTG
*
18383679 AATTTTTTAG-ATTATTTTG
1 AATTTTATAGAATTATTTTG
18383698 AA
1 AA
18383700 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (20 bp):
AATTTTATAGAATTATTTTG
Found at i:18383705 original size:20 final size:20
Alignment explanation
Indices: 18383658--18383706 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
18383648 TTTTTATCAT
*
18383658 AAATTTTATAGAATTTTTTTG
1 AAATTTT-TAGAATTATTTTG
*
18383679 AATTTTTTAG-ATTATTTTG
1 AAATTTTTAGAATTATTTTG
18383698 AAAATTTTT
1 -AAATTTTT
18383707 TTTAATATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
AAATTTTTAGAATTATTTTG
Found at i:18384789 original size:19 final size:19
Alignment explanation
Indices: 18384765--18384805 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
18384755 AATTTAAAAC
18384765 TGCTACAATCATATATACA
1 TGCTACAATCATATATACA
18384784 TGCTACAATCATATATACA
1 TGCTACAATCATATATACA
18384803 TGC
1 TGC
18384806 ATGTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (19 bp):
TGCTACAATCATATATACA
Found at i:18386298 original size:24 final size:24
Alignment explanation
Indices: 18386271--18386317 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18386261 CTTGTTGGGT
* *
18386271 CATGATCATGGGCATCACCATGGC
1 CATGACCATAGGCATCACCATGGC
*
18386295 CATGACCATAGTCATCACCATGG
1 CATGACCATAGGCATCACCATGG
18386318 TGGGAATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (24 bp):
CATGACCATAGGCATCACCATGGC
Found at i:18389710 original size:3 final size:3
Alignment explanation
Indices: 18389702--18389740 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
18389692 CCAAATCACA
*
18389702 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18389741 CACAGTCCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18391484 original size:16 final size:17
Alignment explanation
Indices: 18391447--18391487 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
18391437 AATTTGAAAC
*
18391447 CTTAAAACACTCGAAAT
1 CTTAAAACACTCAAAAT
*
18391464 ATTAAAAC-CTCAAAAT
1 CTTAAAACACTCAAAAT
18391480 CTTAAAAC
1 CTTAAAAC
18391488 TTGAAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.24
Consensus pattern (17 bp):
CTTAAAACACTCAAAAT
Found at i:18391589 original size:16 final size:16
Alignment explanation
Indices: 18391549--18391589 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
18391539 AAACTCGAAG
* *
18391549 CCTTAAAAACCTTAAA
1 CCTTAAAACCCTAAAA
*
18391565 CCCTAAAACCCTAAAA
1 CCTTAAAACCCTAAAA
18391581 CCTTAAAAC
1 CCTTAAAAC
18391590 GAGACCCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.20
Consensus pattern (16 bp):
CCTTAAAACCCTAAAA
Found at i:18397926 original size:3 final size:3
Alignment explanation
Indices: 18397918--18397958 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18397908 TTTCGAAATA
18397918 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18397959 AGATTTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18403222 original size:13 final size:11
Alignment explanation
Indices: 18403182--18403225 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
18403172 ATCGTGAAGC
18403182 TTTTATATTAT
1 TTTTATATTAT
**
18403193 TTTCGTATTAT
1 TTTTATATTAT
18403204 TTTTATATTAT
1 TTTTATATTAT
18403215 ATTATTATATT
1 -TT-TTATATT
18403226 TAAAATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 2 0.07
13 7 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTATATTAT
Found at i:18404808 original size:18 final size:18
Alignment explanation
Indices: 18404783--18404839 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
18404773 TATGAATTGT
*
18404783 TAATAATTTAATTAAATT
1 TAATAATTTAATTAAATA
*
18404801 TGATAA-TTAATTAAAATA
1 TAATAATTTAATT-AAATA
*
18404819 TAAAAATTTAATTAAAATA
1 TAATAATTTAATT-AAATA
18404838 TA
1 TA
18404840 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 6 0.18
18 13 0.39
19 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATAATTTAATTAAATA
Found at i:18405032 original size:2 final size:2
Alignment explanation
Indices: 18405025--18405054 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18405015 CCTGGCAAGA
18405025 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
18405055 TTGGCTGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18405865 original size:14 final size:14
Alignment explanation
Indices: 18405846--18405880 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
18405836 ACAAATCAGA
18405846 TTTAAATTCATT-T
1 TTTAAATTCATTAT
18405859 GTTTAAATTCATTAT
1 -TTTAAATTCATTAT
18405874 TTTAAAT
1 TTTAAAT
18405881 ATGGCAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTAAATTCATTAT
Found at i:18407422 original size:126 final size:126
Alignment explanation
Indices: 18407237--18407468 Score: 274
Period size: 126 Copynumber: 1.8 Consensus size: 126
18407227 TAATATATAT
* * *
18407237 TTCAAAAAGAAAAGATATAAAATAATAATTACATAGTTTTTTTATCCCTTACTCTAAAGGT-AAA
1 TTCAAAAAGAAAAAATATAAAATAATAATTACATAATTTTTTTAT-CCTTACTCAAAAGGTAAAA
* *
18407301 CAAAATTACAAGATATATCATAAAAACATTTGAGAAATTTCTCTGCTAAGACTAATATGAAA
65 AAAAATTACAAGATATATCATAAAAACATTTAAGAAATTTCTCTGCTAAGACTAATATGAAA
* *
18407363 TTCAAAAAGAAAAAATGTAAAATGAA-AATTACATAAATTTCTTATTAT-C-TAGTCAAAAGGTA
1 TTCAAAAAGAAAAAATATAAAAT-AATAATTACAT-AATTT-TT-TTATCCTTACTCAAAAGGT-
* * * * *
18407425 AAAAAAAAATTACAATATATTTTATTAAAGCATTTAAGAAATTT
61 AAAAAAAAATTACAAGATATATCATAAAAACATTTAAGAAATTT
18407469 AGTCATCTAG
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
126 39 0.44
127 7 0.08
128 38 0.43
129 4 0.05
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.32
Consensus pattern (126 bp):
TTCAAAAAGAAAAAATATAAAATAATAATTACATAATTTTTTTATCCTTACTCAAAAGGTAAAAA
AAAATTACAAGATATATCATAAAAACATTTAAGAAATTTCTCTGCTAAGACTAATATGAAA
Found at i:18415217 original size:17 final size:17
Alignment explanation
Indices: 18415175--18415227 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
18415165 ATTAGAAAGT
18415175 TCATT-TTTA-TTTTTA
1 TCATTATTTATTTTTTA
*
18415190 T-TTTA-TTATTTTTTA
1 TCATTATTTATTTTTTA
*
18415205 TCATTATTTATTTATTA
1 TCATTATTTATTTTTTA
*
18415222 TTATTA
1 TCATTA
18415228 AAGTTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 3 0.10
17 14 0.47
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (17 bp):
TCATTATTTATTTTTTA
Found at i:18416365 original size:17 final size:18
Alignment explanation
Indices: 18416343--18416376 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18416333 CTTTATTTAT
18416343 TATTTTTTTA-ATTTTTG
1 TATTTTTTTATATTTTTG
18416360 TATTTTTTTATATTTTT
1 TATTTTTTTATATTTTT
18416377 CAATATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TATTTTTTTATATTTTTG
Found at i:18416989 original size:48 final size:49
Alignment explanation
Indices: 18416819--18417260 Score: 233
Period size: 50 Copynumber: 8.9 Consensus size: 49
18416809 ATTTAAAATC
* * * *
18416819 TGAAAAAAGTTCTTCTCAGCAGAGGCTCAGCAACTTTAAAAATTCTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-TTTTAAAA-TCTCATCT
* * * * * * *
18416870 TGAAAAAGGCTCCTCTTAGTAGAGGTTCAAAAACTTTAAAAGTCTTATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAA-TCTCATCT
* * * * * *
18416920 TGAAAAATGCTCCTTTCAGCAGAAGCTCAATAATTTTAAAATTTTATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTCATCT
*
18416969 T-AAAAAAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATCCTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAAT-CTCATCT
* * *
18417018 TGAAAAAAGCTTCTCTCAGCAAAGG-----C---TTTAAAATTCTTATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAA-TCTCATCT
* * * * * * * * *
18417060 TTAAAAAAGCTCTTTTAAGCATAGGCTTAATAACTTTAAAGAAATCTTCATAT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-TTT-TA-AAATC-TCATCT
* * * *
18417113 TG-AAAAAGCTTCCTTTCAGCAGAGG-TTAATAACTTTAAAAAAATTCTCATCT
1 TGAAAAAAGC-TCCTCTCAGCAGAGGCTCAACAA-TTT--TAAAA-TCTCATCT
* * * * *
18417165 TGAAAAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTAAAAAAATTCTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTT---AAAA-TCTCATCT
* * * *
18417218 TGAAAAAAAGTTCATCT-AGGTAGAGGCTCAACAACTTTAAAAT
1 TG-AAAAAAGCTCCTCTCA-GCAGAGGCTCAACAATTTTAAAAT
18417261 TTTATTTTAA
Statistics
Matches: 307, Mismatches: 59, Indels: 51
0.74 0.14 0.12
Matches are distributed among these distances:
42 32 0.10
43 1 0.00
45 1 0.00
48 35 0.11
49 14 0.05
50 67 0.22
51 31 0.10
52 45 0.15
53 53 0.17
54 28 0.09
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (49 bp):
TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTCATCT
Found at i:18417086 original size:42 final size:42
Alignment explanation
Indices: 18417002--18417087 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
18416992 GCTCAACAAT
*
18417002 TTTAAAATCCTCATCTTGAAAAAAGCTTCTCTCAGCAAAGGC
1 TTTAAAATCCTCATCTTGAAAAAAGCTTCTCTAAGCAAAGGC
* * * * *
18417044 TTTAAAATTCTTATCTTTAAAAAAGC-TCTTTTAAGCATAGGC
1 TTTAAAATCCTCATCTTGAAAAAAGCTTC-TCTAAGCAAAGGC
18417086 TT
1 TT
18417088 AATAACTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (42 bp):
TTTAAAATCCTCATCTTGAAAAAAGCTTCTCTAAGCAAAGGC
Found at i:18417213 original size:53 final size:53
Alignment explanation
Indices: 18417047--18417259 Score: 209
Period size: 53 Copynumber: 4.0 Consensus size: 53
18417037 CAAAGGCTTT
* * * * *
18417047 AAAATTCTTATCTTTAAAAAAGCTCTTTTAAGCATAGGCTTAATAACTTTAAA
1 AAAATTCTCATCTTGAAAAAAGCTCTTCTAAGCAGAGGCTCAATAACTTTAAA
* * * *
18417100 GAAA-TCTTCATATTG-AAAAAGCTTCCTT-TCAGCAGAGG-TTAATAACTTTAAA
1 AAAATTC-TCATCTTGAAAAAAGC-T-CTTCTAAGCAGAGGCTCAATAACTTTAAA
* * *
18417152 AAAATTCTCATCTTGAAAAAGGCTCTTCTAAGTAGAGGCTCAATAATTTTAAA
1 AAAATTCTCATCTTGAAAAAAGCTCTTCTAAGCAGAGGCTCAATAACTTTAAA
* * * * *
18417205 AAAATTCTCATCTTGAAAAAAAGTTCATCTAGGTAGAGGCTCAACAACTTTAAA
1 AAAATTCTCATCTTG-AAAAAAGCTCTTCTAAGCAGAGGCTCAATAACTTTAAA
18417259 A
1 A
18417260 TTTTATTTTA
Statistics
Matches: 133, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
51 3 0.02
52 42 0.32
53 52 0.39
54 36 0.27
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (53 bp):
AAAATTCTCATCTTGAAAAAAGCTCTTCTAAGCAGAGGCTCAATAACTTTAAA
Found at i:18417845 original size:10 final size:10
Alignment explanation
Indices: 18417830--18417895 Score: 66
Period size: 9 Copynumber: 6.8 Consensus size: 10
18417820 ACCGGCCCTT
18417830 TTATTTTTTA
1 TTATTTTTTA
18417840 TTATTTTTTA
1 TTATTTTTTA
* *
18417850 GTCTTTGTTTA
1 TTATTT-TTTA
18417861 TTATTTTTT-
1 TTATTTTTTA
*
18417870 TAATTTTTTA
1 TTATTTTTTA
*
18417880 AT-TTTTTTA
1 TTATTTTTTA
18417889 -TATTTTT
1 TTATTTTT
18417896 CAATATTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
8 1 0.02
9 20 0.43
10 17 0.37
11 8 0.17
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:18417877 original size:9 final size:9
Alignment explanation
Indices: 18417863--18417895 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
18417853 TTTGTTTATT
18417863 ATTTTTTTA
1 ATTTTTTTA
18417872 A-TTTTTTA
1 ATTTTTTTA
18417880 ATTTTTTTA
1 ATTTTTTTA
18417889 TATTTTT
1 -ATTTTT
18417896 CAATATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:18417888 original size:28 final size:31
Alignment explanation
Indices: 18417830--18417895 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
18417820 ACCGGCCCTT
* *
18417830 TTATTTTTTATTATTTTTTAGTCTTTGTTTA
1 TTATTTTTTATAATTTTTTAATCTTTGTTTA
18417861 TTATTTTTT-TAATTTTTTAAT-TTT-TTTA
1 TTATTTTTTATAATTTTTTAATCTTTGTTTA
18417889 -TATTTTT
1 TTATTTTT
18417896 CAATATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.21
28 4 0.12
29 3 0.09
30 10 0.30
31 9 0.27
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (31 bp):
TTATTTTTTATAATTTTTTAATCTTTGTTTA
Found at i:18418446 original size:50 final size:49
Alignment explanation
Indices: 18418341--18418566 Score: 220
Period size: 50 Copynumber: 4.6 Consensus size: 49
18418331 TTTTAAAATC
* * * * *
18418341 TGAAAAAAGTTCCTCTCAGCAGAGGTTCAGCAACTTTAAAAATTCCCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATCT
* * * * *
18418392 TGAAAAAGGCTCCTCTTAGTAGAGGTTCAAAAACTTTAAAAGTCTTATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCT
* * * * * *
18418442 TGAAAAAGGCTCCTTTCAGCAGAAGCTCAATAATTTTAAAATTTTATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * *
18418491 T-AAAAAAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATCCTCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-CTCATCT
* *
18418540 TGAAAAAGGCTTCTCTCAGCAAAGGCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCT
18418567 TTAAAATTCT
Statistics
Matches: 145, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
48 35 0.24
49 14 0.10
50 65 0.45
51 31 0.21
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (49 bp):
TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
Found at i:18418643 original size:52 final size:52
Alignment explanation
Indices: 18418585--18418746 Score: 195
Period size: 52 Copynumber: 3.1 Consensus size: 52
18418575 CTTATCTTTA
* *
18418585 AAAAAGCTCTTTTAAGCATAGGCTTAATAACTTTAAAGAAA-TCTTCATATTG
1 AAAAAGCTCTTTTAAGCAGAGGCTTAATAACTTTAAAAAAATTC-TCATATTG
* *
18418637 AAAAAGCTTCCTTTCAGCAGAGG-TTAATAACTTTAAAAAAATTCTCATATTG
1 AAAAAGC-TCTTTTAAGCAGAGGCTTAATAACTTTAAAAAAATTCTCATATTG
* * * *
18418689 AAAAAGGCTCTTCTAAGTAGAGGCTCAATAA-TTTAAAAAAAATTCTCATCTTG
1 AAAAA-GCTCTTTTAAGCAGAGGCTTAATAACTTT-AAAAAAATTCTCATATTG
18418742 AAAAA
1 AAAAA
18418747 AAGTTCATCT
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
52 51 0.54
53 44 0.46
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (52 bp):
AAAAAGCTCTTTTAAGCAGAGGCTTAATAACTTTAAAAAAATTCTCATATTG
Found at i:18418765 original size:54 final size:54
Alignment explanation
Indices: 18418569--18418781 Score: 186
Period size: 53 Copynumber: 4.0 Consensus size: 54
18418559 CAAAGGCTTT
* * * * * * *
18418569 AAAATTCTTATCTTTAAAAAAGCTCTTTTAAGCATAGGCTTAATAACTTT-AAA
1 AAAATTCTCATATTGAAAAAAGCTCATCTAAGCAGAGGCTCAATAACTTTAAAA
* * * * *
18418622 GAAA-TCTTCATATTG-AAAAAGCTTCCTTTCAGCAGAGG-TTAATAACTTT-AAA
1 AAAATTC-TCATATTGAAAAAAGC-TCATCTAAGCAGAGGCTCAATAACTTTAAAA
* * *
18418674 AAAATTCTCATATTGAAAAAGGCTCTTCTAAGTAGAGGCTCAATAA-TTTAAAA
1 AAAATTCTCATATTGAAAAAAGCTCATCTAAGCAGAGGCTCAATAACTTTAAAA
* * * *
18418727 AAAATTCTCATCTTGAAAAAAAGTTCATCTAGGCAGAGGCTCAACAACTTTAAAA
1 AAAATTCTCATATTG-AAAAAAGCTCATCTAAGCAGAGGCTCAATAACTTTAAAA
18418782 TTTTATTTTA
Statistics
Matches: 131, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
52 48 0.37
53 51 0.39
54 25 0.19
55 7 0.05
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (54 bp):
AAAATTCTCATATTGAAAAAAGCTCATCTAAGCAGAGGCTCAATAACTTTAAAA
Found at i:18419363 original size:10 final size:10
Alignment explanation
Indices: 18419348--18419412 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
18419338 ACCGGCCCTT
18419348 TTATTTTTTA
1 TTATTTTTTA
18419358 TTATTTTTTA
1 TTATTTTTTA
* * *
18419368 GTCTTTATGTA
1 TTATTT-TTTA
18419379 TTATTTTTT-
1 TTATTTTTTA
*
18419388 TAATTTTTT-
1 TTATTTTTTA
18419397 TATATTTTTTA
1 T-TATTTTTTA
*
18419408 ATATT
1 TTATT
18419413 AATGTAAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
9 9 0.21
10 27 0.63
11 7 0.16
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.74
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:18419990 original size:50 final size:49
Alignment explanation
Indices: 18419851--18420076 Score: 211
Period size: 50 Copynumber: 4.6 Consensus size: 49
18419841 ATTTAAAATC
* * * *
18419851 TGAAAAAAGTTCCTCTCAGCAGAGGCTCAGCAACTTTAAAAATTCTCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAA-TTTTAAAA-TCTCATCT
* ** * * * * *
18419902 TGAAAAAGGCTCCTCTTAGTTGGGGTTCAAAAACTTTAAAAGTCTTATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAA-TCTCATCT
* * * * * *
18419952 TGAAAAAGGCTCCTTTCAGCAGAAGCTCAATAATTTTAAAATTTTATCA
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTCATCT
* *
18420001 T-AAAAAAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATCCTCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAAT-CTCATCT
* *
18420050 TGAAAAAGGCTTCTCTCAGCAAAGGCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCT
18420077 TTAAAATTTT
Statistics
Matches: 137, Mismatches: 36, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
48 35 0.26
49 12 0.09
50 66 0.48
51 24 0.18
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (49 bp):
TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTCATCT
Found at i:18420153 original size:52 final size:51
Alignment explanation
Indices: 18420095--18420256 Score: 182
Period size: 52 Copynumber: 3.1 Consensus size: 51
18420085 TTTATCTTTA
* * * *
18420095 AAAAAGCTCTTTTAAACATAGGCTTAATAACTTTAAAGAAATCTTCATATTG
1 AAAAAGCTCTTTTAAGCAGAGGCTTAATAACTTTAAAAAAAT-TTCATCTTG
* *
18420147 AAAAAGCTTCCTTTCAGCAGAGG-TTAATAACTTTAAAAAAATTCTCATCTTG
1 AAAAAGC-TCTTTTAAGCAGAGGCTTAATAACTTTAAAAAAATT-TCATCTTG
* * * *
18420199 AAAAAAGCTCTTCTAAGTAGAGGCTCAATAATTTTAAAAAAATTTTCATCTTG
1 -AAAAAGCTCTTTTAAGCAGAGGCTTAATAACTTTAAAAAAA-TTTCATCTTG
18420252 AAAAA
1 AAAAA
18420257 AAGTTCATCT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
51 1 0.01
52 48 0.52
53 42 0.45
54 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (51 bp):
AAAAAGCTCTTTTAAGCAGAGGCTTAATAACTTTAAAAAAATTTCATCTTG
Found at i:18420235 original size:53 final size:52
Alignment explanation
Indices: 18420079--18420257 Score: 184
Period size: 53 Copynumber: 3.4 Consensus size: 52
18420069 CAAAGGCTTT
* * * * *
18420079 AAAATTTTTATCTTTAAAAAAGCTCTTTTAAACATAGGCTTAATAACTTTAAA
1 AAAATTCTCATCTTGAAAAAAGCTC-TTTAAGCAGAGGCTTAATAACTTTAAA
* * *
18420132 GAAA-TCTTCATATTG-AAAAAGCTTCCTTTCAGCAGAGG-TTAATAACTTTAAA
1 AAAATTC-TCATCTTGAAAAAAGC-T-CTTTAAGCAGAGGCTTAATAACTTTAAA
* * *
18420184 AAAATTCTCATCTTGAAAAAAGCTCTTCTAAGTAGAGGCTCAATAATTTTAAA
1 AAAATTCTCATCTTGAAAAAAGCTCTT-TAAGCAGAGGCTTAATAACTTTAAA
*
18420237 AAAATTTTCATCTTGAAAAAA
1 AAAATTCTCATCTTGAAAAAA
18420258 AGTTCATCTA
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
51 3 0.03
52 41 0.39
53 59 0.57
54 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (52 bp):
AAAATTCTCATCTTGAAAAAAGCTCTTTAAGCAGAGGCTTAATAACTTTAAA
Done.