Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 12 of 117
Found at i:1197036 original size:25 final size:25
Alignment explanation
Indices: 1196985--1197042 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
1196975 AAATAAAAAT
* * * *
1196985 AAAAATTATTATAATTATGATTTAA
1 AAAAATTACTATAACTATAATTAAA
*
1197010 AAAAATTACTATAACTGTAATTAAA
1 AAAAATTACTATAACTATAATTAAA
1197035 AAATAATT
1 AAA-AATT
1197043 TAATAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (25 bp):
AAAAATTACTATAACTATAATTAAA
Found at i:1197780 original size:25 final size:26
Alignment explanation
Indices: 1197740--1197797 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
1197730 ATTTAGTTAT
* *
1197740 TAATTTTTTATATAATAATAAAATAA
1 TAATTTTTAATATAATAAGAAAATAA
*
1197766 TAATTTTTAAT-TAATAAGATAATAA
1 TAATTTTTAATATAATAAGAAAATAA
1197791 TAATTTT
1 TAATTTT
1197798 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAATTTTTAATATAATAAGAAAATAA
Found at i:1201021 original size:15 final size:16
Alignment explanation
Indices: 1201001--1201033 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1200991 AGGTTAAAAA
*
1201001 ATTTT-AATGATAATT
1 ATTTTAAATGAAAATT
1201016 ATTTTAAATGAAAATT
1 ATTTTAAATGAAAATT
1201032 AT
1 AT
1201034 CTAATACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTTTAAATGAAAATT
Found at i:1201566 original size:18 final size:19
Alignment explanation
Indices: 1201533--1201570 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1201523 TAAATTTTTT
1201533 ATTAAAATAATTAAATTAA
1 ATTAAAATAATTAAATTAA
*
1201552 ATTAAAAT-TTTAAATTAA
1 ATTAAAATAATTAAATTAA
1201570 A
1 A
1201571 AAATTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAAAATAATTAAATTAA
Found at i:1201576 original size:21 final size:23
Alignment explanation
Indices: 1201541--1201584 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
1201531 TTATTAAAAT
1201541 AATTAAATTAAATTAAAA-TTTTA
1 AATTAAA-TAAATTAAAAGTTTTA
1201564 AATTAAA-AAATTAAAAGTTTT
1 AATTAAATAAATTAAAAGTTTT
1201585 TTTTTTGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AATTAAATAAATTAAAAGTTTTA
Found at i:1201577 original size:13 final size:13
Alignment explanation
Indices: 1201545--1201578 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1201535 TAAAATAATT
1201545 AAATTAAATTAAA
1 AAATTAAATTAAA
**
1201558 ATTTTAAATTAAA
1 AAATTAAATTAAA
1201571 AAATTAAA
1 AAATTAAA
1201579 AGTTTTTTTT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATTAAATTAAA
Found at i:1203525 original size:26 final size:26
Alignment explanation
Indices: 1203450--1203526 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
1203440 ATAATTTTAT
*
1203450 TTATTT-ATAAGTTTATTATAATAAAAA
1 TTATTTCATAA-TTTATTA-ATTAAAAA
*
1203477 -T-TTTCAT--TATATTAAATTAAAAAA
1 TTATTTCATAATTTATT-AATT-AAAAA
1203501 TTATTTCATAATTTATTAATTAAAAA
1 TTATTTCATAATTTATTAATTAAAAA
1203527 ATTAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 15
0.69 0.05 0.26
Matches are distributed among these distances:
23 7 0.17
24 6 0.15
25 4 0.10
26 14 0.35
27 4 0.10
28 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (26 bp):
TTATTTCATAATTTATTAATTAAAAA
Found at i:1204464 original size:18 final size:18
Alignment explanation
Indices: 1204441--1204475 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1204431 CGTATGATAT
*
1204441 CAATAAAAACAACAATAG
1 CAATAAAAACAAAAATAG
*
1204459 CAATAAATACAAAAATA
1 CAATAAAAACAAAAATA
1204476 TATAGTATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.14, G:0.03, T:0.14
Consensus pattern (18 bp):
CAATAAAAACAAAAATAG
Found at i:1206032 original size:17 final size:17
Alignment explanation
Indices: 1206006--1206053 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
1205996 TCTCTTTTTC
1206006 TTTTTTTATTTAAT-AA
1 TTTTTTTATTTAATAAA
1206022 TTTTTTATATTTAATAAA
1 TTTTTT-TATTTAATAAA
*
1206040 TATTTTTATTTAAT
1 TTTTTTTATTTAAT
1206054 TTTTTTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTTATTTAATAAA
Found at i:1206708 original size:18 final size:18
Alignment explanation
Indices: 1206681--1206715 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1206671 TATTTTATAA
*
1206681 TAATATATTTATAAAAAT
1 TAATAAATTTATAAAAAT
*
1206699 TAATAAATTTTTAAAAA
1 TAATAAATTTATAAAAA
1206716 CTCTATCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATTTATAAAAAT
Found at i:1207378 original size:19 final size:20
Alignment explanation
Indices: 1207349--1207390 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
1207339 TATTTAACAT
1207349 TTTATAAAATTAATAAATTA
1 TTTATAAAATTAATAAATTA
1207369 TTTA-AAAATTAATAAATTA
1 TTTATAAAATTAATAAATTA
1207388 TTT
1 TTT
1207391 TTATGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTATAAAATTAATAAATTA
Found at i:1207594 original size:17 final size:17
Alignment explanation
Indices: 1207555--1207594 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1207545 GTTAATTAAT
*
1207555 TTTTTATATAATAATAA
1 TTTTTATAAAATAATAA
**
1207572 AATTTATAAAATAATAA
1 TTTTTATAAAATAATAA
1207589 TTTTTA
1 TTTTTA
1207595 GTTCATAATA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTATAAAATAATAA
Found at i:1207903 original size:13 final size:13
Alignment explanation
Indices: 1207870--1207913 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1207860 GAAGTTTTTT
1207870 ATTGAAAATATTAA
1 ATTGAAAAT-TTAA
*
1207884 A-TAAAAATTTAA
1 ATTGAAAATTTAA
*
1207896 ATTGAAAATCTAA
1 ATTGAAAATTTAA
1207909 ATTGA
1 ATTGA
1207914 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 20 0.77
14 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (13 bp):
ATTGAAAATTTAA
Found at i:1210696 original size:1 final size:1
Alignment explanation
Indices: 1210690--1210729 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
1210680 TTTCTATCTC
* *
1210690 AAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1210730 GCTTAAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1212277 original size:24 final size:24
Alignment explanation
Indices: 1212250--1212301 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1212240 CATCTTATGT
1212250 TTATCTAAATGAAATCATAAAATA
1 TTATCTAAATGAAATCATAAAATA
* **
1212274 TTATTTTTATGAAATCATAAAATA
1 TTATCTAAATGAAATCATAAAATA
1212298 TTAT
1 TTAT
1212302 TATTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (24 bp):
TTATCTAAATGAAATCATAAAATA
Found at i:1212302 original size:24 final size:24
Alignment explanation
Indices: 1212258--1212307 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
1212248 GTTTATCTAA
*
1212258 ATGAAATCATAAAATATTATTTTT
1 ATGAAATCATAAAATATTATTATT
1212282 ATGAAATCATAAAATATTATTATT
1 ATGAAATCATAAAATATTATTATT
1212306 AT
1 AT
1212308 TTATTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
ATGAAATCATAAAATATTATTATT
Found at i:1215233 original size:12 final size:12
Alignment explanation
Indices: 1215216--1215250 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1215206 TCTTTCATCT
1215216 AAAAAAA-AAAA
1 AAAAAAACAAAA
*
1215227 CAAAAAACAAAA
1 AAAAAAACAAAA
1215239 AAAAAAACAAAA
1 AAAAAAACAAAA
1215251 GCTTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:1216796 original size:24 final size:26
Alignment explanation
Indices: 1216769--1216822 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
1216759 CATCTTATGT
1216769 TTATCTAAATGAAATCATAAA-A-TA
1 TTATCTAAATGAAATCATAAACATTA
* **
1216793 TTATTTTTATGAAATCATAAACATTA
1 TTATCTAAATGAAATCATAAACATTA
1216819 TTAT
1 TTAT
1216823 TTTTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.72
25 1 0.04
26 6 0.24
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (26 bp):
TTATCTAAATGAAATCATAAACATTA
Found at i:1220303 original size:24 final size:23
Alignment explanation
Indices: 1220267--1220311 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1220257 AAAATACTCC
1220267 TAAAATAAATAAACATAAAAAAAT
1 TAAAATAAATAAA-ATAAAAAAAT
*
1220291 TAAAA-AAAGTAAAATTAAAAA
1 TAAAATAAA-TAAAATAAAAAA
1220312 TACAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (23 bp):
TAAAATAAATAAAATAAAAAAAT
Found at i:1221045 original size:19 final size:19
Alignment explanation
Indices: 1221022--1221068 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1221012 CCAAGAAACA
*
1221022 AAAAAAAAACCAAAAATAAG
1 AAAATAAAA-CAAAAATAAG
*
1221042 AAAATAAAATAAAAATAA-
1 AAAATAAAACAAAAATAAG
*
1221060 ATAATAAAA
1 AAAATAAAA
1221069 TAATAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAATAAAACAAAAATAAG
Found at i:1221055 original size:18 final size:18
Alignment explanation
Indices: 1221033--1221092 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
1221023 AAAAAAAACC
1221033 AAAAATAAGAAAATAAAAT
1 AAAAATAA-AAAATAAAAT
*
1221052 AAAAATAAATAATAAAAT
1 AAAAATAAAAAATAAAAT
* * *
1221070 AATAATAATAAAGAAAACT
1 AAAAATAAAAAATAAAA-T
1221089 AAAA
1 AAAA
1221093 TCGGGCCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 22 0.65
19 12 0.35
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAAATAAAAT
Found at i:1221436 original size:41 final size:39
Alignment explanation
Indices: 1221340--1221486 Score: 134
Period size: 41 Copynumber: 3.6 Consensus size: 39
1221330 GGCAAAACTT
*
1221340 CTTTGAAAAAATAAATTG-CTCCTCTATGTAGAGGCAATTGAA
1 CTTTG-AAAAATAAA-TGACTCCTCTA-ATAGAGGCAA-TGAA
* *
1221382 CTTTGGAAAAATAAATGACTCCTCTGAATAAAGGCAACGAA
1 CTTT-GAAAAATAAATGACTCCTCT-AATAGAGGCAATGAA
* * *
1221423 CTTTGACAAAATAAATGGCTCATCTAAATAGAGGCAATAAA
1 CTTTGA-AAAATAAATGACTCCTCT-AATAGAGGCAATGAA
**
1221464 CTTTAGGGAAATAAATGACTCCT
1 CTTT-GAAAAATAAATGACTCCT
1221487 TGACAATCAT
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
40 2 0.02
41 54 0.62
42 29 0.33
43 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (39 bp):
CTTTGAAAAATAAATGACTCCTCTAATAGAGGCAATGAA
Found at i:1221773 original size:44 final size:43
Alignment explanation
Indices: 1221723--1221859 Score: 145
Period size: 43 Copynumber: 3.1 Consensus size: 43
1221713 TTAAAGAGTC
1221723 TCATTTGAATTTTGGAGATTCACATCCAAAAGTTCAAA-CTTCT
1 TCATTTGAATTTTGGAGATTCACATCCAAAAGTTCAAAGCTT-T
** * *
1221766 TACATTTGACAAATTCAGG-G-TTGACATCCAAAAAGTTTAAAGCTTT
1 T-CATTTG---AATTTTGGAGATTCACATCC-AAAAGTTCAAAGCTTT
**
1221812 TTGTTTGAATTTTGGAGATTCACATCCAAAAGTTCAAAGCTTT
1 TCATTTGAATTTTGGAGATTCACATCCAAAAGTTCAAAGCTTT
1221855 TCATT
1 TCATT
1221860 CAAGTTTAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
42 6 0.08
43 20 0.27
44 14 0.19
45 12 0.16
46 13 0.18
47 9 0.12
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (43 bp):
TCATTTGAATTTTGGAGATTCACATCCAAAAGTTCAAAGCTTT
Found at i:1222242 original size:21 final size:21
Alignment explanation
Indices: 1222216--1222269 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
1222206 AACAACCTAA
1222216 ATTCTCATTTGAAACTCAAAG
1 ATTCTCATTTGAAACTCAAAG
1222237 ATTCTCATTTGAAACTCAAAG
1 ATTCTCATTTGAAACTCAAAG
1222258 ATTCTCATTTGA
1 ATTCTCATTTGA
1222270 GTTCAAAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATTCTCATTTGAAACTCAAAG
Found at i:1222374 original size:21 final size:21
Alignment explanation
Indices: 1222311--1222378 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
1222301 GTTTGACATC
* *
1222311 TCAAATATTCTCATTTGAAACT
1 TCAAAAATTCTCATTT-AAAAT
* * * *
1222333 TCAAGATTTTTC-TTTGAAAT
1 TCAAAAATTCTCATTTAAAAT
1222353 TCAAAAATTCTCATTTAAAAT
1 TCAAAAATTCTCATTTAAAAT
1222374 TCAAA
1 TCAAA
1222379 GATCAAAAGG
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
20 12 0.34
21 15 0.43
22 8 0.23
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (21 bp):
TCAAAAATTCTCATTTAAAAT
Found at i:1223288 original size:14 final size:14
Alignment explanation
Indices: 1223272--1223325 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
1223262 GTCCTCTTTT
* *
1223272 TTTTTTCCTTCTCT
1 TTTTTTCCTTTTCA
*
1223286 TTTTTTCTTTTTCA
1 TTTTTTCCTTTTCA
*
1223300 TTTTTTCATTTTCA
1 TTTTTTCCTTTTCA
1223314 TTTTTTCCTTTT
1 TTTTTTCCTTTT
1223326 TTTATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTCCTTTTCA
Found at i:1223296 original size:8 final size:8
Alignment explanation
Indices: 1223283--1223348 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
1223273 TTTTTCCTTC
1223283 TCTTTTTT
1 TCTTTTTT
1223291 TCTTTTTCAT
1 TCTTTTT--T
*
1223301 TTTTTCATTT
1 TCTTT--TTT
1223311 TCATTTTTT
1 TC-TTTTTT
*
1223320 CCTTTTTT
1 TCTTTTTT
*
1223328 TATTTTTT
1 TCTTTTTT
1223336 TCTTTTTT
1 TCTTTTTT
1223344 T-TTTT
1 TCTTTT
1223349 CAAACATAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
7 4 0.09
8 27 0.57
9 4 0.09
10 7 0.15
11 3 0.06
12 2 0.04
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (8 bp):
TCTTTTTT
Found at i:1223341 original size:14 final size:14
Alignment explanation
Indices: 1223271--1223348 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
1223261 AGTCCTCTTT
* * *
1223271 TTTTTTTCCTTCTC
1 TTTTTTTCTTTTTA
1223285 TTTTTTTCTTTTTCA
1 TTTTTTTCTTTTT-A
*
1223300 -TTTTTTCATTTTCA
1 TTTTTTTC-TTTTTA
*
1223314 TTTTTTCCTTTTTTTA
1 TTTTTT--TCTTTTTA
1223330 TTTTTTTCTTTTT-
1 TTTTTTTCTTTTTA
1223343 TTTTTT
1 TTTTTT
1223349 CAAACATAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
13 6 0.12
14 25 0.48
15 9 0.17
16 11 0.21
17 1 0.02
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTTTTTA
Found at i:1234492 original size:18 final size:18
Alignment explanation
Indices: 1234427--1234494 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
1234417 TAAATCATGC
*
1234427 AAAAATACTCATAAAATAA
1 AAAAATAC-CAAAAAATAA
* * *
1234446 ACAAACACAAAAAAATAA
1 AAAAATACCAAAAAATAA
***
1234464 AATTTTA--AAAAAATAA
1 AAAAATACCAAAAAATAA
1234480 AAAAATACCAAAAAA
1 AAAAATACCAAAAAA
1234495 ATAGAAATAG
Statistics
Matches: 35, Mismatches: 12, Indels: 5
0.67 0.23 0.10
Matches are distributed among these distances:
16 13 0.37
18 16 0.46
19 6 0.17
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAATACCAAAAAATAA
Found at i:1235260 original size:8 final size:7
Alignment explanation
Indices: 1235213--1235301 Score: 51
Period size: 7 Copynumber: 12.6 Consensus size: 7
1235203 CAAGAAACCA
1235213 AAAAAAT
1 AAAAAAT
1235220 AAAAAA-
1 AAAAAAT
1235226 ACCAAAAAT
1 A--AAAAAT
1235235 AAGAAAAT
1 AA-AAAAT
1235243 --AAAAT
1 AAAAAAT
1235248 AAAAAAT
1 AAAAAAT
* *
1235255 AGAAAAC
1 AAAAAAT
**
1235262 CGAAAAT
1 AAAAAAT
1235269 AAAAAAT
1 AAAAAAT
1235276 AATAATAAT
1 AA-AA-AAT
*
1235285 -AATAAT
1 AAAAAAT
*
1235291 AAAAACT
1 AAAAAAT
1235298 AAAA
1 AAAA
1235302 TCGAGCCATT
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
5 5 0.08
6 4 0.06
7 38 0.59
8 13 0.20
9 4 0.06
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:1235302 original size:34 final size:34
Alignment explanation
Indices: 1235215--1235301 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
1235205 AGAAACCAAA
1235215 AAAATAA-AAAAACCAAAAATAAGAAAATAAAAT
1 AAAATAATAAAAACCAAAAATAAGAAAATAAAAT
*
1235248 AAAA-AATAGAAAACCGAAAATAA-AAAATAATAAT
1 AAAATAATA-AAAACCAAAAATAAGAAAATAA-AAT
*
1235282 AATAATAATAAAAACTAAAA
1 AA-AATAATAAAAACCAAAA
1235302 TCGAGCCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
32 2 0.04
33 12 0.26
34 18 0.39
35 10 0.22
36 4 0.09
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (34 bp):
AAAATAATAAAAACCAAAAATAAGAAAATAAAAT
Found at i:1238062 original size:16 final size:17
Alignment explanation
Indices: 1238036--1238067 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1238026 AGAATTCTTT
1238036 CTTCTTTTCTCTTTCTC
1 CTTCTTTTCTCTTTCTC
1238053 CTTC-TTTCTCTTTCT
1 CTTCTTTTCTCTTTCT
1238068 TTTTTCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
CTTCTTTTCTCTTTCTC
Found at i:1240951 original size:12 final size:12
Alignment explanation
Indices: 1240934--1240966 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1240924 TTTTCAAAAA
1240934 TTTTATTAATTG
1 TTTTATTAATTG
*
1240946 TTTTATTAATTT
1 TTTTATTAATTG
1240958 TTTTATTAA
1 TTTTATTAA
1240967 AATTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTATTAATTG
Found at i:1241418 original size:26 final size:28
Alignment explanation
Indices: 1241381--1241436 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
1241371 ATTTTGTTAG
1241381 TTTATTATTATTATTATTAAA-TTTATT
1 TTTATTATTATTATTATTAAAGTTTATT
* *
1241408 TTTA-TATTATTGTTTTTAAAGTTTATT
1 TTTATTATTATTATTATTAAAGTTTATT
1241435 TT
1 TT
1241437 AAAAACTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (28 bp):
TTTATTATTATTATTATTAAAGTTTATT
Found at i:1241418 original size:231 final size:228
Alignment explanation
Indices: 1240976--1241417 Score: 558
Period size: 231 Copynumber: 1.9 Consensus size: 228
1240966 AAATTAAAAT
*
1240976 TTTGAAGAAAAAGAAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACGCTAGTAATA
1 TTTGAAGAAAAAGAAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTAGTAATA
* * *
1241041 TTTTATAAAAAAATCTTCTCACCTAGAGATTTCTTTAAGCATCTCTACTCGGAATACTTTTAGAA
66 TTTTACAAAAAAATCTTCTCACCTAGAGATTTCTATAAGCATCTCTACTCGGAATACCTTTAGAA
** * * * * *
1241106 TCCCATCATTGGATTAAATTTCTTTCCTTCCTATTTTTATTACATATATTTTTAATATATTACTC
131 TCCCATCATCAGATAAAATTTCATT-CTTCCTAATTTTATTACATATATTATTAATATATTACTA
1241171 AATTTTTATTTATTATTATAAAATGAAATTTTTA
195 AATTTTTATTTATTATTATAAAATGAAATTTTTA
* * *
1241205 TTTGAAGAAAAATGAAAATTTTATTATATTGAAGATTTTCTATAAATATTCTAATACACTGGTAA
1 TTTGAAGAAAAA-G-AAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTAGTAA
*
1241270 TATTTTACAAAAAAATCTTCTCACCTAGAGATTTC-ATAGGCATCATCACTACTCGGAATACCTT
64 TATTTTACAAAAAAATCTTCTCACCTAGAGATTTCTATAAGCATC-T--CTACTCGGAATACCTT
* * * * *
1241334 T-GAATCTCATCGTCAGATAAAAATTTCATT-TTCCTACATTTTGTTA-GTTTATTATT-AT-TA
126 TAGAATCCCATCATCAGAT-AAAATTTCATTCTTCCTA-ATTTTATTACATATATTATTAATATA
*
1241394 TTATTAAATTTATT-TTTA-TATTAT
189 TTACTAAATTT-TTATTTATTATTAT
1241418 TGTTTTTAAA
Statistics
Matches: 184, Mismatches: 21, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
228 6 0.03
229 27 0.15
230 12 0.07
231 94 0.51
232 20 0.11
233 25 0.14
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (228 bp):
TTTGAAGAAAAAGAAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTAGTAATA
TTTTACAAAAAAATCTTCTCACCTAGAGATTTCTATAAGCATCTCTACTCGGAATACCTTTAGAA
TCCCATCATCAGATAAAATTTCATTCTTCCTAATTTTATTACATATATTATTAATATATTACTAA
ATTTTTATTTATTATTATAAAATGAAATTTTTA
Found at i:1242518 original size:31 final size:29
Alignment explanation
Indices: 1242474--1242551 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
1242464 TAATTAGAGG
*
1242474 GGTGGAAG-GTAGGGTCTGACGATC-ACGGGT
1 GGTGGCAGTGTAGGGTCTGACGATCTA---GT
* * *
1242504 GGTGGCAGTGTAGGGTCCGATGGTCTAGT
1 GGTGGCAGTGTAGGGTCTGACGATCTAGT
1242533 GGTGGCAGTGTAGGGTCTG
1 GGTGGCAGTGTAGGGTCTG
1242552 GTGGTGGCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 20 0.49
30 7 0.17
31 13 0.32
32 1 0.02
ACGTcount: A:0.15, C:0.13, G:0.47, T:0.24
Consensus pattern (29 bp):
GGTGGCAGTGTAGGGTCTGACGATCTAGT
Found at i:1242549 original size:21 final size:21
Alignment explanation
Indices: 1242525--1242576 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1242515 AGGGTCCGAT
1242525 GGTCTAGTGGTGGCAGTGTAG
1 GGTCTAGTGGTGGCAGTGTAG
*
1242546 GGTCTGGTGGTGGCAGTGTAG
1 GGTCTAGTGGTGGCAGTGTAG
1242567 GGTCTAGTGG
1 GGTCTAGTGG
1242577 CATAAGTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.10, G:0.50, T:0.29
Consensus pattern (21 bp):
GGTCTAGTGGTGGCAGTGTAG
Found at i:1242954 original size:48 final size:48
Alignment explanation
Indices: 1242884--1243469 Score: 762
Period size: 48 Copynumber: 12.0 Consensus size: 48
1242874 ATTTAAAATC
*
1242884 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-T
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT
* * *
1242931 TGAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTTCTT
1 TGAAAA-AGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATC-T
* * *
1242981 TGAAAAAGCTCATATCAACAAAGGCTCAACAACTTTAAAATCCTCATCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT-CTCATCT
** * * *
1243030 TGGAAAGGGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTTCT
1 T-GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT
* *
1243079 TGAAAAAGCTCCTCTCAACAGAGGCTCCACAATTTTAAAATTCTCATCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TCTCATCT
* * *
1243128 TGGAAAAGGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATCTCTTCT
1 T-GAAAA-AGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT
*
1243178 TG-AAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTCTCATCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TCTCATCT
* * * *
1243226 TGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCTTCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT
* *
1243274 TGAAAAAGCTCCTCTCAATAGAGGCTCCACAACTTTAAAATTCTCATCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TCTCATCT
* * *
1243323 TGAAAAAGCTCCTCACAGCAGAGGCTCAACAACTTTAAAATCTCTTCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT
* * * *
1243371 TGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCTTCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT
* * *
1243419 TAAAAAAGCTCCTCTCAACAGAGGCTCCATAACTTTAAAATTCTCATCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TCTCATCT
1243468 TG
1 TG
1243470 TTTTCAAATT
Statistics
Matches: 467, Mismatches: 60, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
47 37 0.08
48 211 0.45
49 131 0.28
50 58 0.12
51 30 0.06
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (48 bp):
TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT
Found at i:1243008 original size:97 final size:98
Alignment explanation
Indices: 1242884--1243469 Score: 837
Period size: 97 Copynumber: 6.0 Consensus size: 98
1242874 ATTTAAAATC
*
1242884 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCAT-TTGAAAAGGGCTCCTCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGGGCTCCTCT
1242947 CAACAGAGGCTCAACAACTTTAAAATTTCTTCTT
66 CAACAGAGGCTCAACAACTTTAAAATTTCTTC-T
* * * * * *
1242981 TGAAAAAGCTCATATCAACAAAGGCTCAACAACTTTAAAATCCTCATCTTGGAAAGGGCTTCTCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGGGCTCCTCT
1243046 CAACAGAGGCTCAACAACTTTAAAATTTCTTCT
66 CAACAGAGGCTCAACAACTTTAAAATTTCTTCT
* *
1243079 TGAAAAAGCTCCTCTCAACAGAGGCTCCACAATTTTAAAATTCTCATCTTGGAAAAGGGCTCCTC
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTT-GAAAAGGGCTCCTC
* *
1243144 TCAACAAAGGCTCAACAACTTTAAAATCTCTTCT
65 TCAACAGAGGCTCAACAACTTTAAAATTTCTTCT
*
1243178 TG-AAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAA--GCTCCTC
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTT-GAAAAGGGCTCCTC
*
1243240 TCAGCAGAGGCTCAACAACTTTAAAATTTCTTCT
65 TCAACAGAGGCTCAACAACTTTAAAATTTCTTCT
* * * *
1243274 TGAAAAAGCTCCTCTCAATAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAA-AGCTCCTCA
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGGGCTCCTCT
* *
1243338 CAGCAGAGGCTCAACAACTTTAAAATCTCTTCT
66 CAACAGAGGCTCAACAACTTTAAAATTTCTTCT
* * * **
1243371 TGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT-TCTTCTT-AAAAAAGCTCCTCT
1 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGGGCTCCTCT
* * *
1243434 CAACAGAGGCTCCATAACTTTAAAATTCTCATCT
66 CAACAGAGGCTCAACAACTTTAAAATT-TCTTCT
1243468 TG
1 TG
1243470 TTTTCAAATT
Statistics
Matches: 445, Mismatches: 37, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
95 4 0.01
96 82 0.18
97 166 0.37
98 100 0.22
99 93 0.21
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (98 bp):
TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAGGGCTCCTCT
CAACAGAGGCTCAACAACTTTAAAATTTCTTCT
Found at i:1249379 original size:144 final size:144
Alignment explanation
Indices: 1249116--1250292 Score: 1958
Period size: 144 Copynumber: 8.2 Consensus size: 144
1249106 TTCGACGTGC
* * * * *
1249116 TTCCTATGGAAGCAGGGATTCAACCAGAGAAATTATTTTGACTCAACTCAAAATCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
* * ** *
1249181 TTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAATGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
*
1249246 TATGCTGGTCAAGT
131 TAGGCTGGTCAAGT
* *
1249260 TTCCTATGAAAGCGGGGATTGAACCAGAGAAATTATTATAACTCAACTCCAAGTCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
1249325 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
*
1249390 TAGACTGGTCAAGT
131 TAGGCTGGTCAAGT
* * * *
1249404 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCCAAGTCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
* *
1249469 TTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTGGATGAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
1249534 TAGGCTGGTCAAGT
131 TAGGCTGGTCAAGT
*
1249548 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCGGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
* * **
1249613 TTAAGCATCCCTATCTCTTGAGGTATCGGCCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
1249678 TAGGCTGGTCAAGT
131 TAGGCTGGTCAAGT
*
1249692 TTCCTATGAAAGCAGGGATTGAACAAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
*
1249757 TTAAGCATCCCTATCTCTTGAGGTATCGACCCCGAAAACATATTTCGATGAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
*
1249822 TAGACTGGTCAAGT
131 TAGGCTGGTCAAGT
* * * *
1249836 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCCAAGTCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
* *
1249901 TTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTGGATGAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
1249966 TAGGCTGGTCAAGT
131 TAGGCTGGTCAAGT
1249980 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
* **
1250045 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
1250110 TAGGCTGGTCAAGT
131 TAGGCTGGTCAAGT
* *
1250124 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACGCAAAGTCGGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
*
1250189 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTGGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
*
1250254 TAGACTGGTCAAGT
131 TAGGCTGGTCAAGT
* * *
1250268 TTCCGAGGGAAGCAGGGATTGAACC
1 TTCCTATGAAAGCAGGGATTGAACC
1250293 GCATAGATAG
Statistics
Matches: 967, Mismatches: 66, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 967 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (144 bp):
TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGAAGGTAGAGAGTGGA
TAGGCTGGTCAAGT
Found at i:1250350 original size:432 final size:432
Alignment explanation
Indices: 1249116--1250292 Score: 2183
Period size: 432 Copynumber: 2.7 Consensus size: 432
1249106 TTCGACGTGC
* * * * *
1249116 TTCCTATGGAAGCAGGGATTCAACCAGAGAAATTATTTTGACTCAACTCAAAATCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
* *
1249181 TTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAATGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
* * *
1249246 TATGCTGGTCAAGTTTCCTATGAAAGCGGGGATTGAACCAGAGAAATTATTATAACTCAACTCCA
131 TAGGCTGGTCAAGTTTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAA
1249311 AGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGA
196 AGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGA
1249376 AGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATT
261 AGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATT
1249441 TTGACTCAACTCCAAGTCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAA
326 TTGACTCAACTCCAAGTCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAA
1249506 ACATATTTGGATGAAGGTAGAGAGTGGATAGGCTGGTCAAGT
391 ACATATTTGGATGAAGGTAGAGAGTGGATAGGCTGGTCAAGT
*
1249548 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCGGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
*
1249613 TTAAGCATCCCTATCTCTTGAGGTATCGGCCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
*
1249678 TAGGCTGGTCAAGTTTCCTATGAAAGCAGGGATTGAACAAGAGAAATTATTATAACTCAACTCAA
131 TAGGCTGGTCAAGTTTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAA
*
1249743 AGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCCGAAAACATATTTCGATGA
196 AGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGA
1249808 AGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATT
261 AGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATT
1249873 TTGACTCAACTCCAAGTCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAA
326 TTGACTCAACTCCAAGTCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAA
1249938 ACATATTTGGATGAAGGTAGAGAGTGGATAGGCTGGTCAAGT
391 ACATATTTGGATGAAGGTAGAGAGTGGATAGGCTGGTCAAGT
1249980 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
1 TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
1250045 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
*
1250110 TAGGCTGGTCAAGTTTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACGCAA
131 TAGGCTGGTCAAGTTTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAA
*
1250175 AGTCGGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGA
196 AGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGA
* * *
1250240 AGGTGGAGAGTGGATAGACTGGTCAAGTTTCCGAGGGAAGCAGGGATTGAACC
261 AGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACC
1250293 GCATAGATAG
Statistics
Matches: 722, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
432 722 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (432 bp):
TTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGACCAAGGTAGAGAGTGGA
TAGGCTGGTCAAGTTTCCTATGAAAGCAGGGATTGAACCAGAGAAATTATTATAACTCAACTCAA
AGTCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGA
AGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATT
TTGACTCAACTCCAAGTCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGTATCGACCCAGAAA
ACATATTTGGATGAAGGTAGAGAGTGGATAGGCTGGTCAAGT
Found at i:1252023 original size:16 final size:14
Alignment explanation
Indices: 1251980--1252034 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 14
1251970 TAAAATTCTT
1251980 TTAATTATTTAAAA
1 TTAATTATTTAAAA
*
1251994 TTAAAATATATTAAACA
1 TT-AATTAT-TTAAA-A
1252011 TGTAATTATTTAAAA
1 T-TAATTATTTAAAA
1252026 TT-ATTATTT
1 TTAATTATTT
1252035 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.20
14 3 0.09
15 7 0.20
16 10 0.29
17 7 0.20
18 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TTAATTATTTAAAA
Found at i:1252044 original size:20 final size:23
Alignment explanation
Indices: 1252015--1252066 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 23
1252005 TAAACATGTA
*
1252015 ATTATTTAAAATTATT-A-TTTT
1 ATTATTTAAAATAATTAATTTTT
1252036 ATT-TTTAAAATAATTAATTTTT
1 ATTATTTAAAATAATTAATTTTT
1252058 ATTATTTAA
1 ATTATTTAA
1252067 TTTATTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 11 0.41
21 4 0.15
22 7 0.26
23 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTATTTAAAATAATTAATTTTT
Found at i:1252397 original size:39 final size:37
Alignment explanation
Indices: 1252309--1252401 Score: 96
Period size: 39 Copynumber: 2.5 Consensus size: 37
1252299 TAATATACCT
* * * *
1252309 AAAAACTTTGATTTTTGAAAAAATCAGTCTAATAATA
1 AAAAACTCTAATTTTTTAAAAAATCAATCTAATAATA
** *
1252346 AAAAAAACTAATTTTTTAAAAAATCGTAATCTAATATTA
1 AAAAACTCTAATTTTTTAAAAAATC--AATCTAATAATA
*
1252385 AAAAACTGTAATTTTTT
1 AAAAACTCTAATTTTTT
1252402 TTTTCGAGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
37 20 0.45
39 24 0.55
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (37 bp):
AAAAACTCTAATTTTTTAAAAAATCAATCTAATAATA
Found at i:1253545 original size:40 final size:40
Alignment explanation
Indices: 1253490--1253581 Score: 139
Period size: 40 Copynumber: 2.2 Consensus size: 40
1253480 ATTAACAAAA
* *
1253490 TATATATTCCTTTGAACTATCCAAATCGTGGCTTTTTTCT
1 TATATATTCCTTTGAACTATCCAAATCATGGCTTCTTTCT
*
1253530 TATATATTCCTTTGAACTATCCAAATTATGGCTTCTTTCT
1 TATATATTCCTTTGAACTATCCAAATCATGGCTTCTTTCT
1253570 TAATATCATTCC
1 T-ATAT-ATTCC
1253582 AAGTCTTGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 38 0.81
41 4 0.09
42 5 0.11
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.47
Consensus pattern (40 bp):
TATATATTCCTTTGAACTATCCAAATCATGGCTTCTTTCT
Found at i:1261161 original size:25 final size:25
Alignment explanation
Indices: 1261116--1261163 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1261106 TAAAATTGTG
* *
1261116 AATTTTTTATTAATACATTAAATAA
1 AATTTTATATTAATAAATTAAATAA
1261141 AATTTTATATTAA-AAATTTAAAT
1 AATTTTATATTAATAAA-TTAAAT
1261164 TAATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AATTTTATATTAATAAATTAAATAA
Found at i:1263158 original size:150 final size:146
Alignment explanation
Indices: 1262922--1263216 Score: 410
Period size: 150 Copynumber: 2.0 Consensus size: 146
1262912 GTAAATGGAG
** * * * **
1262922 AAATTAATGAATTAAAAATTATATAATATAACTTTTTTAAATTTAAAAAAAATTAAAAAATTGAC
1 AAATTAACAAATTAAAAATGATATAATATAAATTTTATAAATTTAAAAAAAATTAAAAAATAAAC
* * *
1262987 ATGTATTTTGTAATAATATATTTATAAAAATGAATAAAATTTTAAAAACTCTATCTTCTATATAT
66 ATGTATTTTATAATAATATATTTATAAAAATGAATAAAATTTTAAAAACTCTATCATCAATATAT
1263052 ATCTATATAAAATAAC
131 ATCTATATAAAATAAC
* *
1263068 AAATTAACAAATTAAAAATGATCTAATATAAATTTTATAAATTTTGTAAACAAAATTTAAAAAAT
1 AAATTAACAAATTAAAAATGATATAATATAAATTTTATAAA--TT-TAAA-AAAAATTAAAAAAT
* * *
1263133 AAACATGTATTTTATAATAATATATTTATAAAAATTAATAAATTTTTAAAAACTCTATGATCAAT
62 AAACATGTATTTTATAATAATATATTTATAAAAATGAATAAAATTTTAAAAACTCTATCATCAAT
*
1263198 ATATATGTATATAAAATAA
127 ATATATCTATATAAAATAA
1263217 TAATTCAATT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
146 35 0.27
148 2 0.02
149 4 0.03
150 88 0.68
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (146 bp):
AAATTAACAAATTAAAAATGATATAATATAAATTTTATAAATTTAAAAAAAATTAAAAAATAAAC
ATGTATTTTATAATAATATATTTATAAAAATGAATAAAATTTTAAAAACTCTATCATCAATATAT
ATCTATATAAAATAAC
Found at i:1263171 original size:21 final size:18
Alignment explanation
Indices: 1263150--1263184 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1263140 TATTTTATAA
* *
1263150 TAATATATTTATAAAAAT
1 TAATAAATTTTTAAAAAT
1263168 TAATAAATTTTTAAAAA
1 TAATAAATTTTTAAAAA
1263185 CTCTATGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATTTTTAAAAAT
Found at i:1263565 original size:21 final size:21
Alignment explanation
Indices: 1263527--1263570 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1263517 AATAATAATG
* *
1263527 ATGATGAAATTAATTATTGTA
1 ATGATAAAATTAATTATTATA
1263548 ATGATAAAATTGAA-TATTATA
1 ATGATAAAATT-AATTATTATA
1263569 AT
1 AT
1263571 TGTGAGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGATAAAATTAATTATTATA
Found at i:1263817 original size:20 final size:21
Alignment explanation
Indices: 1263787--1263830 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
1263777 GAAACAAAAT
*
1263787 ATTAGTTTTAAAT-TTATTAAA
1 ATTAGTTTT-AATCTTAATAAA
1263808 ATTA-TTTTAATCTTAATAAA
1 ATTAGTTTTAATCTTAATAAA
1263828 ATT
1 ATT
1263831 TTAAAGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTAGTTTTAATCTTAATAAA
Found at i:1264618 original size:25 final size:25
Alignment explanation
Indices: 1264590--1264645 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
1264580 TAGTTATTAT
1264590 TTTTTATA-TAATAATAAAATAATAA
1 TTTTTATATTAATAATAAAATAAT-A
* *
1264615 TTTTTA-ATTCATAATATAATAATA
1 TTTTTATATTAATAATAAAATAATA
1264639 TTTTTAT
1 TTTTTAT
1264646 TTATTTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTTTATATTAATAATAAAATAATA
Found at i:1265836 original size:12 final size:12
Alignment explanation
Indices: 1265818--1265857 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
1265808 GCTTTCTACA
1265818 AAAAAAAAACAC
1 AAAAAAAAACAC
* *
1265830 CAAAAAATACAC
1 AAAAAAAAACAC
1265842 AAAAAAAAACA-
1 AAAAAAAAACAC
1265853 AAAAA
1 AAAAA
1265858 CTCAGTCCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAAACAC
Found at i:1266554 original size:21 final size:23
Alignment explanation
Indices: 1266503--1266555 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
1266493 AAGGTTTTTT
* *
1266503 TTAATTTTTTATATATATTATTT
1 TTAATATTTTATATATATTATTC
**
1266526 TTGTTATTTTA-AT-TATTATTC
1 TTAATATTTTATATATATTATTC
1266547 TTAATATTT
1 TTAATATTT
1266556 ATGCATGTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 14 0.58
22 2 0.08
23 8 0.33
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTAATATTTTATATATATTATTC
Found at i:1266620 original size:7 final size:7
Alignment explanation
Indices: 1266606--1266635 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1266596 GTTGTTTTAT
1266606 AATAATA
1 AATAATA
*
1266613 ATTAATA
1 AATAATA
1266620 AATAATA
1 AATAATA
1266627 AATAATA
1 AATAATA
1266634 AA
1 AA
1266636 ATATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:1266926 original size:19 final size:17
Alignment explanation
Indices: 1266887--1266934 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
1266877 TTTCTTTTTG
1266887 TTAATAATAAATAAAAA
1 TTAATAATAAATAAAAA
*
1266904 TTAATTAATAAATCAATAA
1 TTAA-TAATAAAT-AAAAA
1266923 TTAAGTAATAAA
1 TTAA-TAATAAA
1266935 AATGAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 4 0.15
18 8 0.30
19 15 0.56
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
TTAATAATAAATAAAAA
Found at i:1279027 original size:49 final size:49
Alignment explanation
Indices: 1278970--1279481 Score: 561
Period size: 47 Copynumber: 10.7 Consensus size: 49
1278960 GAGACGGATG
* * * *
1278970 GATTTTTAAAGCTGTTAAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGA
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-CAAATGA
* * * * * *
1279020 GA-TTTTAAAGTTATTGAACCTCTGCTGAAATGAGC-TTTTCGAGATGA
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
* * *
1279067 GA-TTTTAAAGTCGTTGAGCCTCTGTTGAGAGGAGCTTTTT-CAGATGA
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
**
1279114 GA-TTTTAAAGTTGTTGAGCCTCTGCAAAGAGGAGCTTTTTCCAAATG-
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
* * * *
1279161 GATTTTTAAAGTTGTTGAGCTTTTGTTGAGAGGAGCTTTTTTCAAAT-A
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
* *
1279209 AATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGC-TTTTCCAAAT-A
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
* *
1279256 GATTTTTAAAGTTGTTAAG-CTCTGCTGAGAGGAGC-TATTCCAAATG-
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
* * * *
1279302 GATTTTTAAAATTGTTGAGTCTCTGCTGAGATGAGCTTTTTCTAAGATGA
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAA-ATGA
* * * *
1279352 GA-TTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCTAAGATAA
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAA-ATGA
* *
1279401 GA-TTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTT-CAAAT-A
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
* * *
1279447 AATTTTTAAAGTTGTTGAACCTCTGTTGAGAGGAG
1 GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG
1279482 TGTTTTTTTT
Statistics
Matches: 396, Mismatches: 56, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
46 43 0.11
47 150 0.38
48 91 0.23
49 108 0.27
50 4 0.01
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (49 bp):
GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCCAAATGA
Found at i:1279087 original size:96 final size:98
Alignment explanation
Indices: 1278970--1279481 Score: 572
Period size: 96 Copynumber: 5.4 Consensus size: 98
1278960 GAGACGGATG
* * *
1278970 GATTTTTAAAGCTGTTAAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGAGATTTTAAAGTTATT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGAGATTTTAAAGTTGTT
* * * *
1279035 GAACCTCTGCTGAAATGAGC-TTTTCGAGATGA
66 GAGCCTCTGCTGAAAGGAGCTTTTTCCAAATGA
* *
1279067 GA-TTTTAAAGTCGTTGAGCCTCTGTTGAGAGGAGCTTTTTC--AGATGAGATTTTAAAGTTGTT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGAGATTTTAAAGTTGTT
*
1279129 GAGCCTCTGC-AAAGAGGAGCTTTTTCCAAATG-
66 GAGCCTCTGCTGAA-AGGAGCTTTTTCCAAATGA
* * * *
1279161 GATTTTTAAAGTTGTTGAGCTTTTGTTGAGAGGAGCTTTTT-TCAAAT-AAATTTTTAAAGTTGT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGAGA-TTTTAAAGTTGT
1279224 TGAGCCTCTGCTGAAAGGAGC-TTTTCCAAAT-A
65 TGAGCCTCTGCTGAAAGGAGCTTTTTCCAAATGA
* * * * *
1279256 GATTTTTAAAGTTGTTAAG-CTCTGCTGAGAGGAGC-TATTC-CAAATG-GATTTTTAAAATTGT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGAGA-TTTTAAAGTTGT
* * * *
1279317 TGAGTCTCTGCTGAGATGAGCTTTTTCTAAGATGA
65 TGAGCCTCTGCTGAAAGGAGCTTTTTCCAA-ATGA
** * * *
1279352 GA-TTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTTCTAAGATAAGATTTTAAAGTTGTT
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGAGATTTTAAAGTTGTT
* * *
1279416 GAGCCTCTACTTAGAGGAGCTTTTT-CAAAT-A
66 GAGCCTCTGCTGAAAGGAGCTTTTTCCAAATGA
* *
1279447 AATTTTTAAAGTTGTTGAACCTCTGTTGAGAGGAG
1 GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG
1279482 TGTTTTTTTT
Statistics
Matches: 352, Mismatches: 45, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
93 41 0.12
94 55 0.16
95 93 0.26
96 115 0.33
97 10 0.03
98 36 0.10
99 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (98 bp):
GATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCTAAAATGAGATTTTAAAGTTGTT
GAGCCTCTGCTGAAAGGAGCTTTTTCCAAATGA
Found at i:1279783 original size:19 final size:21
Alignment explanation
Indices: 1279745--1279788 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
1279735 AATAAATAAG
*
1279745 ATAATAATAATATTATTAAAT
1 ATAATAATAATATAATTAAAT
1279766 ATAATAATAA-A-AATTAAAT
1 ATAATAATAATATAATTAAAT
1279785 ATAA
1 ATAA
1279789 AACATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATAATAATATAATTAAAT
Found at i:1279797 original size:19 final size:19
Alignment explanation
Indices: 1279759--1279814 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
1279749 TAATAATATT
*
1279759 ATTAAATATAATA-ATAAAA
1 ATTAAATATAAAACAT-AAA
1279778 ATTAAATATAAAACATAAA
1 ATTAAATATAAAACATAAA
1279797 A-T-AATAATAAAACA-AAA
1 ATTAAAT-ATAAAACATAAA
1279814 A
1 A
1279815 AAACAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 7 0.21
18 9 0.26
19 16 0.47
20 2 0.06
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
ATTAAATATAAAACATAAA
Found at i:1280862 original size:21 final size:23
Alignment explanation
Indices: 1280827--1280873 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
1280817 TTTTTGAATT
* *
1280827 TTTTATATATATTATTTTTATTA
1 TTTTATATATATTATTCTTAATA
1280850 TTTTA-AT-TATTATTCTTAATA
1 TTTTATATATATTATTCTTAATA
1280871 TTT
1 TTT
1280874 ATGCATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 2 0.09
23 5 0.23
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTATATATATTATTCTTAATA
Found at i:1280938 original size:7 final size:7
Alignment explanation
Indices: 1280924--1280953 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1280914 GTTGTTTTAT
1280924 AATAATA
1 AATAATA
*
1280931 ATTAATA
1 AATAATA
1280938 AATAATA
1 AATAATA
1280945 AATAATA
1 AATAATA
1280952 AA
1 AA
1280954 ATATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:1281246 original size:19 final size:17
Alignment explanation
Indices: 1281202--1281249 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
1281192 ATTTTTTTTG
1281202 TTAATAATAAATAAAAA
1 TTAATAATAAATAAAAA
* *
1281219 TTCATTAATAAATCAATAA
1 TT-AATAATAAAT-AAAAA
1281238 TTAAGTAATAAA
1 TTAA-TAATAAA
1281250 AATGAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 10 0.40
19 13 0.52
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
TTAATAATAAATAAAAA
Found at i:1281450 original size:21 final size:21
Alignment explanation
Indices: 1281426--1281465 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1281416 TCAATTAAAA
1281426 AATAAAAAAAATTAATAAAGC
1 AATAAAAAAAATTAATAAAGC
* *
1281447 AATAAATAAAATTACTAAA
1 AATAAAAAAAATTAATAAA
1281466 AAGGAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
AATAAAAAAAATTAATAAAGC
Found at i:1281468 original size:23 final size:21
Alignment explanation
Indices: 1281426--1281476 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1281416 TCAATTAAAA
*
1281426 AATAAAAAAAATTAATAAAGC
1 AATAAAAAAAATTAAAAAAGC
* *
1281447 AATAAATAAAATTACTAAAAAGG
1 AATAAAAAAAATTA--AAAAAGC
1281470 AATAAAA
1 AATAAAA
1281477 TGTGTGCATC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 13 0.54
23 11 0.46
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (21 bp):
AATAAAAAAAATTAAAAAAGC
Found at i:1285629 original size:19 final size:20
Alignment explanation
Indices: 1285593--1285635 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1285583 ATTATTTAAT
*
1285593 ATTTATAAAATTAATAAATA
1 ATTTATAAAATCAATAAATA
* *
1285613 ATTTA-AAAATCATTAAATT
1 ATTTATAAAATCAATAAATA
1285632 ATTT
1 ATTT
1285636 TTATGTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTATAAAATCAATAAATA
Found at i:1285834 original size:17 final size:18
Alignment explanation
Indices: 1285790--1285834 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
1285780 ATATTTAGTT
*
1285790 ATTAATTTTTATATAATA
1 ATTAATTTTTATAAAATA
*
1285808 ATTAA-ATTTATAAAATA
1 ATTAATTTTTATAAAATA
1285825 A-TAATTTTTA
1 ATTAATTTTTA
1285835 ATTCATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTAATTTTTATAAAATA
Found at i:1286787 original size:60 final size:58
Alignment explanation
Indices: 1286694--1286985 Score: 356
Period size: 60 Copynumber: 4.8 Consensus size: 58
1286684 TTTTTTGTAG
* * *
1286694 GGAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTT--ATTTCT-AA
* *
1286754 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTATTTCTAA
1286814 GGAAAATTGATACTTTCAACTCTTTCCC-AAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACT-TTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
1286871 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTTGGAAATTTATTTTTCTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-----TTTTTTTGGAAATTTA--TTTC---
1286936 TAA
56 TAA
*
1286939 GGAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGGAA
1286986 TTTTTTATTT
Statistics
Matches: 208, Mismatches: 8, Indels: 28
0.85 0.03 0.11
Matches are distributed among these distances:
56 6 0.03
57 48 0.23
60 66 0.32
61 7 0.03
62 13 0.06
63 15 0.07
64 12 0.06
65 4 0.02
68 37 0.18
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:1286942 original size:21 final size:21
Alignment explanation
Indices: 1286904--1286943 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1286894 TCCCTAAAAA
* **
1286904 TATTTTTTTTTTTTGGAAATT
1 TATTTTTCTTTTAAGGAAATT
1286925 TATTTTTCTTTTAAGGAAA
1 TATTTTTCTTTTAAGGAAA
1286944 ATTGATACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (21 bp):
TATTTTTCTTTTAAGGAAATT
Found at i:1287910 original size:31 final size:30
Alignment explanation
Indices: 1287831--1287930 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 30
1287821 AAAAAATCAA
* * *
1287831 ATAAATATAAAAAAATA-ATAGATAATTAG
1 ATAAATAAAAAAAAACAGATATATAATTAG
* * * *
1287860 A-ACAGATAAAAAAACAGATATATTA-TAGG
1 ATAAATAAAAAAAAACAGATATATAATTA-G
1287889 ATAAATAAAAAAATAACAGATATATAATTAG
1 ATAAATAAAAAAA-AACAGATATATAATTAG
1287920 ATAAATAAAAA
1 ATAAATAAAAA
1287931 TACAACAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
28 14 0.25
29 9 0.16
30 8 0.14
31 24 0.42
32 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (30 bp):
ATAAATAAAAAAAAACAGATATATAATTAG
Found at i:1287948 original size:23 final size:23
Alignment explanation
Indices: 1287922--1287978 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
1287912 ATAATTAGAT
1287922 AAATAAAAATACAACAATAAATAA
1 AAATAAAAATACAACAATAAA-AA
*
1287946 AATATAAAAAT--AATAATAAAAA
1 AA-ATAAAAATACAACAATAAAAA
*
1287968 AAATAATAATA
1 AAATAAAAATA
1287979 ATAAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 7 0.24
22 4 0.14
23 8 0.28
24 2 0.07
25 8 0.28
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATAAAAATACAACAATAAAAA
Found at i:1287966 original size:12 final size:12
Alignment explanation
Indices: 1287923--1287982 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
1287913 TAATTAGATA
*
1287923 AATAAAAATACAAC
1 AATAAAAAT--AAT
1287937 AATAAATAA-AAT
1 AATAAA-AATAAT
1287949 -ATAAAAATAAT
1 AATAAAAATAAT
*
1287960 AATAAAAAAAAT
1 AATAAAAATAAT
*
1287972 AATAATAATAA
1 AATAAAAATAA
1287983 ATATATAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 2 0.05
11 8 0.21
12 21 0.54
14 6 0.15
15 2 0.05
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:1287971 original size:15 final size:15
Alignment explanation
Indices: 1287951--1287979 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1287941 AATAAAATAT
1287951 AAAAATAATAATAAA
1 AAAAATAATAATAAA
1287966 AAAAATAATAATAA
1 AAAAATAATAATAA
1287980 TAAATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATAATAATAAA
Found at i:1288002 original size:38 final size:38
Alignment explanation
Indices: 1287908--1288002 Score: 90
Period size: 37 Copynumber: 2.5 Consensus size: 38
1287898 AAAATAACAG
* *
1287908 ATATATAATTAGATAAATAAAAATACAACAATAAATAA
1 ATATATAAATATATAAATAAAAATACAACAATAAATAA
* *
1287946 A-ATATAAAAATA-ATAATAAAAA-A-AATAATAATAATAA
1 ATATATAAATATATA-AATAAAAATACAACAAT-A-AATAA
*
1287983 ATATATAACTATATAAATAA
1 ATATATAAATATATAAATAA
1288003 TATACATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
35 5 0.11
36 3 0.07
37 22 0.48
38 15 0.33
39 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (38 bp):
ATATATAAATATATAAATAAAAATACAACAATAAATAA
Found at i:1288013 original size:15 final size:16
Alignment explanation
Indices: 1287968--1288015 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
1287958 ATAATAAAAA
1287968 AAATA-ATAA-TA-AT
1 AAATATATAACTATAT
1287981 AAATATATAACTATAT
1 AAATATATAACTATAT
1287997 AAATA-ATATAC-ATAT
1 AAATATATA-ACTATAT
1288012 AAAT
1 AAAT
1288016 CTATTCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.16
14 4 0.13
15 13 0.42
16 9 0.29
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATATAACTATAT
Found at i:1288103 original size:15 final size:16
Alignment explanation
Indices: 1288083--1288117 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1288073 ATAAAAATAC
1288083 AAAAG-AAAAGAAAAA
1 AAAAGAAAAAGAAAAA
1288098 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
1288114 AAAA
1 AAAA
1288118 TAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAA
Found at i:1290781 original size:19 final size:20
Alignment explanation
Indices: 1290753--1290793 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
1290743 ATTATTTAAA
*
1290753 ATTTACAAAATTAATAAATT
1 ATTTACAAAATCAATAAATT
1290773 ATTTA-AAAATCAATAAATT
1 ATTTACAAAATCAATAAATT
1290792 AT
1 AT
1290794 CTTATGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTACAAAATCAATAAATT
Found at i:1290790 original size:27 final size:27
Alignment explanation
Indices: 1290740--1290792 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1290730 ATAAGAATTT
* *
1290740 TAAATTATTTAAAATTTACAAAATTAA
1 TAAATTATTTAAAAATCACAAAATTAA
1290767 TAAATTATTTAAAAATCA-ATAAATTA
1 TAAATTATTTAAAAATCACA-AAATTA
1290793 TCTTATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAATTATTTAAAAATCACAAAATTAA
Found at i:1290972 original size:15 final size:16
Alignment explanation
Indices: 1290952--1290988 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1290942 AGTTAATTAA
*
1290952 TTATAATAATAA-ATT
1 TTATAATAATAATAAT
1290967 TTATAA-AATAATAAT
1 TTATAATAATAATAAT
1290982 TTATAAT
1 TTATAAT
1290989 TCAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTATAATAATAATAAT
Found at i:1291136 original size:14 final size:13
Alignment explanation
Indices: 1291097--1291136 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
1291087 GAAATAAAAT
*
1291097 ATTTTAATTTATAA
1 ATTTTAATTT-TTA
1291111 ATTTTAATTTTTA
1 ATTTTAATTTTTA
1291124 ATTTTAGATTTTT
1 ATTTTA-ATTTTT
1291137 TAAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
ATTTTAATTTTTA
Found at i:1292715 original size:41 final size:38
Alignment explanation
Indices: 1292670--1292746 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 38
1292660 GTTATCTATA
1292670 TTTAGTTAAAATAATATTATAATATAATAATAAAATTTAAT
1 TTTAGTT-AAATAAT-TT-TAATATAATAATAAAATTTAAT
* *
1292711 TTTAGTTAATTAATTTTTATATAATAATAAAATTTA
1 TTTAGTTAAATAATTTTAATATAATAATAAAATTTA
1292747 TAAAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 19 0.56
39 2 0.06
40 6 0.18
41 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (38 bp):
TTTAGTTAAATAATTTTAATATAATAATAAAATTTAAT
Found at i:1292748 original size:15 final size:16
Alignment explanation
Indices: 1292730--1292765 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1292720 TTAATTTTTA
1292730 TATAATAATAA-AATT
1 TATAATAATAATAATT
1292745 TATAA-AATAATAATT
1 TATAATAATAATAATT
1292760 TATAAT
1 TATAAT
1292766 TTAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATAATAATAATT
Found at i:1293360 original size:16 final size:15
Alignment explanation
Indices: 1293315--1293363 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1293305 TTAAAATTCT
1293315 TTTAATTATTTAAAA
1 TTTAATTATTTAAAA
* * *
1293330 TTAAAATATACTAAACA
1 TTTAATTAT-TTAAA-A
1293347 TTTAATTATTTAAAA
1 TTTAATTATTTAAAA
1293362 TT
1 TT
1293364 ATTATTTTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 10 0.38
16 8 0.31
17 8 0.31
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATTATTTAAAA
Found at i:1294837 original size:40 final size:40
Alignment explanation
Indices: 1294782--1294873 Score: 130
Period size: 40 Copynumber: 2.2 Consensus size: 40
1294772 ATTAACAAAA
* *
1294782 TATATATTCCTTTGAACCATCCAAATCATGGCTTTTTTCT
1 TATATATTCCTTTGAACCATACAAATCATGGCTTCTTTCT
* *
1294822 TATATATTCCTTTGAACTATACAAATTATGGCTTCTTTCT
1 TATATATTCCTTTGAACCATACAAATCATGGCTTCTTTCT
1294862 TAATATCATTCC
1 T-ATAT-ATTCC
1294874 AAGTCTTGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 37 0.80
41 4 0.09
42 5 0.11
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.46
Consensus pattern (40 bp):
TATATATTCCTTTGAACCATACAAATCATGGCTTCTTTCT
Found at i:1297069 original size:9 final size:9
Alignment explanation
Indices: 1297055--1297081 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1297045 TTTATGAGTT
1297055 TACAAACAC
1 TACAAACAC
1297064 TACAAACAC
1 TACAAACAC
1297073 TACAAACAC
1 TACAAACAC
1297082 ATCTATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.11
Consensus pattern (9 bp):
TACAAACAC
Found at i:1303757 original size:15 final size:15
Alignment explanation
Indices: 1303730--1303767 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1303720 TTATTCAATG
1303730 TTTT-TTTTCTTTTT
1 TTTTGTTTTCTTTTT
*
1303744 TTTTGTTTTGTTTTT
1 TTTTGTTTTCTTTTT
*
1303759 TGTTGTTTT
1 TTTTGTTTT
1303768 TTGTTGTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.87
Consensus pattern (15 bp):
TTTTGTTTTCTTTTT
Found at i:1303767 original size:22 final size:22
Alignment explanation
Indices: 1303732--1303778 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1303722 ATTCAATGTT
* *
1303732 TTTTTTCTTTTTTTTTGTTTTG
1 TTTTTTCTTGTTTTTTGTTGTG
*
1303754 TTTTTTGTTGTTTTTTGTTGTG
1 TTTTTTCTTGTTTTTTGTTGTG
1303776 TTT
1 TTT
1303779 CAAAAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (22 bp):
TTTTTTCTTGTTTTTTGTTGTG
Found at i:1303774 original size:25 final size:24
Alignment explanation
Indices: 1303728--1303774 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1303718 AATTATTCAA
*
1303728 TGTTTTTTTTCTTTTTTTTTGTTT
1 TGTTTTTTTTCTTTTTTGTTGTTT
*
1303752 TGTTTTTTGTTGTTTTTTGTTGT
1 TGTTTTTT-TTCTTTTTTGTTGT
1303775 GTTTCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (24 bp):
TGTTTTTTTTCTTTTTTGTTGTTT
Found at i:1303777 original size:12 final size:11
Alignment explanation
Indices: 1303732--1303778 Score: 53
Period size: 10 Copynumber: 4.3 Consensus size: 11
1303722 ATTCAATGTT
*
1303732 TTTTTTCTTT-
1 TTTTTTGTTTG
1303742 TTTTTTGTTTTG
1 TTTTTTG-TTTG
1303754 TTTTTTG-TTG
1 TTTTTTGTTTG
1303764 TTTTTTGTTGTG
1 TTTTTTGTT-TG
1303776 TTT
1 TTT
1303779 CAAAAAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 16 0.50
11 4 0.12
12 12 0.38
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:1311828 original size:51 final size:50
Alignment explanation
Indices: 1311744--1311840 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 50
1311734 TAATTTATTT
*
1311744 AACCATTAAACCACAAAATCGAATCTTGGATTCTCAAAATTGAGATCTTC
1 AACCATTAAACCACAAAATCAAATCTTGGATTCTCAAAATTGAGATCTTC
* * *
1311794 AACCATTAAACCACAAAAATCAAATCTTTGATTCTCTATATTGAGAT
1 AACCATTAAACCAC-AAAATCAAATCTTGGATTCTCAAAATTGAGAT
1311841 ATCCAAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 14 0.33
51 28 0.67
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (50 bp):
AACCATTAAACCACAAAATCAAATCTTGGATTCTCAAAATTGAGATCTTC
Found at i:1316389 original size:21 final size:21
Alignment explanation
Indices: 1316342--1316389 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
1316332 GTTGATTTTA
1316342 AATTATTATTTAAAAATAAATT
1 AATT-TTATTTAAAAATAAATT
* *
1316364 TATTTTATTTTAAAATACAA-T
1 AATTTTATTTAAAAATA-AATT
1316385 AATTT
1 AATTT
1316390 AAACTCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTTATTTAAAAATAAATT
Found at i:1317982 original size:6 final size:6
Alignment explanation
Indices: 1317943--1317985 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
1317933 AAAGGAATAC
* * *
1317943 ATACAT ATACAC ATACAT ATATAT ATATAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT A
1317986 AGGAACTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (6 bp):
ATACAT
Found at i:1318688 original size:25 final size:25
Alignment explanation
Indices: 1318660--1318712 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
1318650 GACAAGGGGA
1318660 TTATTCCTTTATGCTAAAACCATAT
1 TTATTCCTTTATGCTAAAACCATAT
1318685 TTATTCCTTTATGCTAAAACCATAT
1 TTATTCCTTTATGCTAAAACCATAT
1318710 TTA
1 TTA
1318713 CTAAGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (25 bp):
TTATTCCTTTATGCTAAAACCATAT
Found at i:1318721 original size:25 final size:25
Alignment explanation
Indices: 1318668--1318721 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
1318658 GATTATTCCT
* ***
1318668 TTATGCTAAAACCATATTTATTCCT
1 TTATGCTAAAACCATATTTACTAAG
1318693 TTATGCTAAAACCATATTTACTAAG
1 TTATGCTAAAACCATATTTACTAAG
1318718 TTAT
1 TTAT
1318722 TCTTTTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.43
Consensus pattern (25 bp):
TTATGCTAAAACCATATTTACTAAG
Found at i:1323352 original size:144 final size:144
Alignment explanation
Indices: 1323092--1323695 Score: 908
Period size: 144 Copynumber: 4.2 Consensus size: 144
1323082 GCTTGGACAT
* *
1323092 GTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACCCAACGCAAAGCCAGTGAGAG
1 GTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTCGACCCAACGCAAAGTCAGTGAGAG
1323157 ATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAAAAAACATATTTCGATGGAGGTAGAGAGTG
66 ATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAAAAAACATATTTCGATGGAGGTAGAGAGTG
1323222 GATAGACTGGTCAA
131 GATAGACTGGTCAA
* **
1323236 GTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTACTTCGATTCAAC-CACAAGTCAGTGAGA
1 GTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTCGACCCAACGCA-AAGTCAGTGAGA
*
1323300 GATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTCGATGGAGGTAGAGAGT
65 GATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAAAAAACATATTTCGATGGAGGTAGAGAGT
1323365 GGATAGACTGGTCAA
130 GGATAGACTGGTCAA
* * * *
1323380 GTTTCCTATGGAAGCAGTGATTGAACCAGAGAAATTATTTCGACTCAACCCCAAGTCAGTGAGAG
1 GTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTCGACCCAACGCAAAGTCAGTGAGAG
* * *
1323445 ATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACACATTTCGATGAAGGTAGAGAGTG
66 ATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAAAAAACATATTTCGATGGAGGTAGAGAGTG
*
1323510 GATAGACTGGTTAA
131 GATAGACTGGTCAA
* * * *
1323524 GTTTCCTATGGAAGTAGGGATTGAACCAGAGAAATTATTAT-AACCCAACTCAAAATCAGTGAGA
1 GTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATT-TCGACCCAACGCAAAGTCAGTGAGA
* * * **
1323588 GAATTAAGCATCCCTATTTCTTGAGGTATCGACCCAAAAAACATATTTCGATAGAGGTAGAGAAC
65 GATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAAAAAACATATTTCGATGGAGGTAGAGAGT
* *
1323653 AGATA-AGTAGGTCAA
130 GGATAGACT-GGTCAA
* * *
1323668 GTTTCCTATAGAAGCGGGGATAGAACCA
1 GTTTCCTATGGAAGCAGGGATTGAACCA
1323696 CGTAGATAGT
Statistics
Matches: 421, Mismatches: 35, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
143 4 0.01
144 415 0.99
145 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (144 bp):
GTTTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTCGACCCAACGCAAAGTCAGTGAGAG
ATTTAAGCATCCCTATCTCTTGAGGTATCGACCCAAAAAACATATTTCGATGGAGGTAGAGAGTG
GATAGACTGGTCAA
Found at i:1323419 original size:72 final size:71
Alignment explanation
Indices: 1323199--1323422 Score: 163
Period size: 72 Copynumber: 3.1 Consensus size: 71
1323189 CCAAAAAACA
1323199 TATTTCGATGGAGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCA
1 TATTTCGATGGAGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCA-GGATTGAACCA
1323264 GAGAAAT
65 GAGAAAT
* ** *** * * * * * **** *
1323271 TACTTCGATTCAACCACA-AGTCAGTGAGAGA-T--TTAAGCATCCCTATCTCTTG-AGGTATCG
1 TATTTCGATGGAGGTAGAGAGT--G-GATAGACTGGTCAAG-TTTCCTAT-GGAAGCAGG-ATTG
* *
1323331 ACCCAGA-AAACA
60 AACCAGAGAAA-T
1323343 TATTTCGATGGAGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGTGATTGAACCA
1 TATTTCGATGGAGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAG-GATTGAACCA
1323408 GAGAAAT
65 GAGAAAT
1323415 TATTTCGA
1 TATTTCGA
1323423 CTCAACCCCA
Statistics
Matches: 102, Mismatches: 36, Indels: 28
0.61 0.22 0.17
Matches are distributed among these distances:
70 5 0.05
71 15 0.15
72 63 0.62
73 14 0.14
74 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (71 bp):
TATTTCGATGGAGGTAGAGAGTGGATAGACTGGTCAAGTTTCCTATGGAAGCAGGATTGAACCAG
AGAAAT
Found at i:1325468 original size:16 final size:16
Alignment explanation
Indices: 1325435--1325484 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
1325425 AATAAAACTA
*
1325435 TATTAAATAAATATAT
1 TATTAAATAAATAAAT
**
1325451 TATTAAATATTTAAAT
1 TATTAAATAAATAAAT
*
1325467 TATT-AATAAGTAAAT
1 TATTAAATAAATAAAT
1325482 TAT
1 TAT
1325485 ATTTAACTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TATTAAATAAATAAAT
Found at i:1327070 original size:31 final size:31
Alignment explanation
Indices: 1327033--1327098 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
1327023 ATTATAGTTA
* * *
1327033 TTAATTA-ATAATATAAAAAATGTAATAAATT
1 TTAATTAGATAAAATAAAAAAT-TAACAAAAT
*
1327064 TTAATTAGATAAAATAAATAATTAACAAAAT
1 TTAATTAGATAAAATAAAAAATTAACAAAAT
1327095 TTAA
1 TTAA
1327099 AAAAAAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (31 bp):
TTAATTAGATAAAATAAAAAATTAACAAAAT
Found at i:1327095 original size:32 final size:31
Alignment explanation
Indices: 1327033--1327096 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
1327023 ATTATAGTTA
* *
1327033 TTAATTAATAATATAAAAAATGTAATAAATT
1 TTAATTAATAAAATAAAAAATGTAAAAAATT
*
1327064 TTAATTAGATAAAATAAATAAT-TAACAAAATT
1 TTAATTA-ATAAAATAAAAAATGTAA-AAAATT
1327096 T
1 T
1327097 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (31 bp):
TTAATTAATAAAATAAAAAATGTAAAAAATT
Found at i:1329163 original size:20 final size:21
Alignment explanation
Indices: 1329128--1329185 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
1329118 TATGTTACAA
1329128 ATTTTAATTATTTAAAATAATT
1 ATTTT-ATTATTTAAAATAATT
1329150 ATTTTATT-TTTAAAATAATT
1 ATTTTATTATTTAAAATAATT
1329170 ATTTTTTATTATTTAA
1 A--TTTTATTATTTAA
1329186 TTAATTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.39
21 3 0.09
22 12 0.36
23 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATTATTTAAAATAATT
Found at i:1329203 original size:20 final size:18
Alignment explanation
Indices: 1329165--1329203 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
1329155 ATTTTTAAAA
1329165 TAATTATTTTTTATTATT
1 TAATTATTTTTTATTATT
*
1329183 TAATTAATTTTATTCTTATT
1 TAATT-ATTTT-TTATTATT
1329203 T
1 T
1329204 TTTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATTATTTTTTATTATT
Found at i:1329385 original size:40 final size:39
Alignment explanation
Indices: 1329308--1329385 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
1329298 AGTTTAGTAT
* * *
1329308 AAAAAAATATAGTTTAATATTAAAAAGATTACGATTTTC
1 AAAAAAATATAGTCTAATATTAAAAAGACTACCATTTTC
* *
1329347 AAAAAATTATAGTCTAATATATAAAAGGACTACCATTTT
1 AAAAAAATATAGTCTAATAT-TAAAAAGACTACCATTTT
1329386 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 18 0.55
40 15 0.45
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (39 bp):
AAAAAAATATAGTCTAATATTAAAAAGACTACCATTTTC
Found at i:1331765 original size:21 final size:22
Alignment explanation
Indices: 1331717--1331767 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1331707 TATTAAAGAA
*
1331717 ATTTTAATTATTTAAAATAATG
1 ATTTTTATTATTTAAAATAATG
* *
1331739 A-CTTTATTA-TTAAAATAATT
1 ATTTTTATTATTTAAAATAATG
1331759 ATTTTTATT
1 ATTTTTATT
1331768 CTTATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 11 0.46
21 12 0.50
22 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTTTATTATTTAAAATAATG
Found at i:1331890 original size:19 final size:19
Alignment explanation
Indices: 1331868--1331904 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1331858 TTTATATATA
*
1331868 ATAGTTTAGTATGAAAAAT
1 ATAGTTTAATATGAAAAAT
*
1331887 ATAGTTTAATATTAAAAA
1 ATAGTTTAATATGAAAAA
1331905 GATTACAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
ATAGTTTAATATGAAAAAT
Found at i:1339660 original size:3 final size:3
Alignment explanation
Indices: 1339652--1339682 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1339642 GTACCCAAAA
1339652 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1339683 GAGGGCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1342982 original size:16 final size:16
Alignment explanation
Indices: 1342933--1342984 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1342923 TGCTCAACAC
* *
1342933 AACTCGAAATTATTTA
1 AACTTGAAATTATTTG
*
1342949 AACTTG-AATTAATATG
1 AACTTGAAATT-ATTTG
*
1342965 AATTTGAAATTATTTG
1 AACTTGAAATTATTTG
1342981 AACT
1 AACT
1342985 CAAATAACTC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 4 0.14
16 20 0.71
17 4 0.14
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (16 bp):
AACTTGAAATTATTTG
Found at i:1344644 original size:28 final size:28
Alignment explanation
Indices: 1344598--1344652 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
1344588 CAAGTTGAGT
* *
1344598 GCTTAAACACAGTTGTTCTATATCACAG
1 GCTTAAACACAGCTATTCTATATCACAG
1344626 GCTTAAACACAGCTATTCTATATCACA
1 GCTTAAACACAGCTATTCTATATCACA
1344653 ACCAATTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.31
Consensus pattern (28 bp):
GCTTAAACACAGCTATTCTATATCACAG
Found at i:1345552 original size:89 final size:89
Alignment explanation
Indices: 1345394--1345575 Score: 321
Period size: 89 Copynumber: 2.0 Consensus size: 89
1345384 TATTGAAAAT
* * *
1345394 TTAAGTGTTAAACTTCAAAGATTAATTGCACATTTGATATTTGAATTAGAGTAAAATTCTTTGCA
1 TTAAGTGTTAAACTTCAAAGATTAATTACACATTTGATAATTGAATTAGAGTAAAATTATTTGCA
1345459 ACTTAATTTTGAAAAGTTACAATC
66 ACTTAATTTTGAAAAGTTACAATC
1345483 TTAAGTGTTAAACTTCAAAGATTAATTACACATTTGATAATTGAATTAGAGTAAAATTATTTG-A
1 TTAAGTGTTAAACTTCAAAGATTAATTACACATTTGATAATTGAATTAGAGTAAAATTATTTGCA
1345547 TACTTAATTTTGAAAAGTTACAATC
66 -ACTTAATTTTGAAAAGTTACAATC
1345572 TTAA
1 TTAA
1345576 TACTATTTGT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
88 1 0.01
89 88 0.99
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (89 bp):
TTAAGTGTTAAACTTCAAAGATTAATTACACATTTGATAATTGAATTAGAGTAAAATTATTTGCA
ACTTAATTTTGAAAAGTTACAATC
Found at i:1347716 original size:144 final size:144
Alignment explanation
Indices: 1347456--1347767 Score: 473
Period size: 144 Copynumber: 2.2 Consensus size: 144
1347446 CGACATGTTA
*
1347456 CCTATGAAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACACAAAGTCAGTGAGAGATTT
1 CCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACACAAAGTCAGTGAGAGATTT
* ** * ***
1347521 AAGCATCCTTATCTCTTGAGGTATCGAACCCGAAAACACATTTTGATAGAGGTGAAGAGTGGATA
66 AAGCATCCCTATCTCTTGAGGTATCGAACCAAAAAACACATTTCGATAGAGGTGAAGAACAGATA
1347586 AGCTA-GTCAAGTTT
131 AGC-AGGTCAAGTTT
* *
1347600 CCTATTGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGATTT
1 CCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACACAAAGTCAGTGAGAGATTT
* * *
1347665 AAGCATCCCTATCTCTTGAGGTATCGATCCAAAAAACATATTTCGATAGAGGTGGAGAACAGATA
66 AAGCATCCCTATCTCTTGAGGTATCGAACCAAAAAACACATTTCGATAGAGGTGAAGAACAGATA
1347730 AGCAGGTCAAGTTT
131 AGCAGGTCAAGTTT
* *
1347744 CCTATGGAAGCGGGGATAGAACCA
1 CCTATGGAAGCAGGGATTGAACCA
1347768 CGTAGATAGT
Statistics
Matches: 151, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
143 1 0.01
144 150 0.99
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (144 bp):
CCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACACAAAGTCAGTGAGAGATTT
AAGCATCCCTATCTCTTGAGGTATCGAACCAAAAAACACATTTCGATAGAGGTGAAGAACAGATA
AGCAGGTCAAGTTT
Found at i:1350214 original size:17 final size:16
Alignment explanation
Indices: 1350192--1350256 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
1350182 GTAATTAATT
1350192 TTTATATAATAATAAAA
1 TTTATATAATAAT-AAA
* *
1350209 TTTATAAAATAATAAT
1 TTTATATAATAATAAA
* * *
1350225 TTTATTTATTTATAAA
1 TTTATATAATAATAAA
1350241 TTTAT-TATATAATAAA
1 TTTATATA-ATAATAAA
1350257 ATTTCTCATT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
15 2 0.05
16 24 0.63
17 12 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTATATAATAATAAA
Found at i:1352175 original size:17 final size:16
Alignment explanation
Indices: 1352149--1352181 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
1352139 TAAATTGATG
1352149 GAATTAAAAAAAATAA
1 GAATTAAAAAAAATAA
1352165 GAATGTAAAAAAAATAA
1 GAAT-TAAAAAAAATAA
1352182 AAAGTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
GAATTAAAAAAAATAA
Found at i:1353048 original size:19 final size:18
Alignment explanation
Indices: 1353020--1353073 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
1353010 CATTCATATA
1353020 TTTTTATTTAATAATTTT
1 TTTTTATTTAATAATTTT
* *
1353038 TTTTATATTTAATAA-ATA
1 TTTT-TATTTAATAATTTT
1353056 TTTTTATTTAAT-ATTTT
1 TTTTTATTTAATAATTTT
1353073 T
1 T
1353074 GTGTGTGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.03
17 10 0.33
18 9 0.30
19 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTATTTAATAATTTT
Found at i:1354423 original size:19 final size:21
Alignment explanation
Indices: 1354395--1354438 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1354385 ATTAGTTAAC
*
1354395 ATTTATAAAATTAAT-AAATA
1 ATTTATAAAATCAATAAAATA
1354415 ATTTA-AAAATCAATAAAATA
1 ATTTATAAAATCAATAAAATA
1354435 ATTT
1 ATTT
1354439 TATGTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTATAAAATCAATAAAATA
Found at i:1354486 original size:53 final size:52
Alignment explanation
Indices: 1354408--1354511 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 52
1354398 TATAAAATTA
* ** *
1354408 ATAAATAATTTAAAAATCAATAAAATAATTTTATGTCAAATAATAATTTTTTT
1 ATAAATAATCTAAAAATCAATAAAATAATAATATCTCAAATAAT-ATTTTTTT
*
1354461 ATAAATAA-CTAAAAA-CTAATAAAAATAATAATATCTCAAATGATATTTTTT
1 ATAAATAATCTAAAAATC-AAT-AAAATAATAATATCTCAAATAATATTTTTT
1354512 CTTTAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
51 1 0.02
52 16 0.36
53 27 0.61
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (52 bp):
ATAAATAATCTAAAAATCAATAAAATAATAATATCTCAAATAATATTTTTTT
Found at i:1354706 original size:25 final size:25
Alignment explanation
Indices: 1354678--1354725 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1354668 TTTATAAGTT
*
1354678 TATTATATAATAAAATT-TTTCATTA
1 TATTAAATAA-AAAATTATTTCATTA
*
1354703 TATTAAATTAAAAATTATTTCAT
1 TATTAAATAAAAAATTATTTCAT
1354726 AATTTATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAAATAAAAAATTATTTCATTA
Found at i:1355091 original size:18 final size:18
Alignment explanation
Indices: 1355064--1355098 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1355054 TATTTTATAA
*
1355064 TAATATATTTATAAAAAT
1 TAATAAATTTATAAAAAT
*
1355082 TAATAAATTTTTAAAAA
1 TAATAAATTTATAAAAA
1355099 CTCTATCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATTTATAAAAAT
Found at i:1355776 original size:19 final size:21
Alignment explanation
Indices: 1355748--1355791 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
1355738 ATTATTTAAC
*
1355748 ATTTATAAAATTAATAAA-TA
1 ATTTATAAAATCAATAAATTA
*
1355768 ATTTA-AAAATCAGTAAATTA
1 ATTTATAAAATCAATAAATTA
1355788 ATTT
1 ATTT
1355792 TTTGTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTATAAAATCAATAAATTA
Found at i:1355809 original size:18 final size:18
Alignment explanation
Indices: 1355786--1355822 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1355776 ATCAGTAAAT
1355786 TAATTTTTTG-TCAAATAA
1 TAATTTTTTGAT-AAATAA
1355804 TAATTTTTTGATAAATAA
1 TAATTTTTTGATAAATAA
1355822 T
1 T
1355823 TAAAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TAATTTTTTGATAAATAA
Found at i:1355994 original size:17 final size:17
Alignment explanation
Indices: 1355952--1355994 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1355942 TTTAATTAAT
*
1355952 TAATTTTTATATAATAA
1 TAATTTTTATAAAATAA
**
1355969 TAAAATTTATAAAATAA
1 TAATTTTTATAAAATAA
1355986 TAATTTTTA
1 TAATTTTTA
1355995 GTTCATAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTTTTATAAAATAA
Found at i:1356072 original size:25 final size:25
Alignment explanation
Indices: 1356031--1356100 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 25
1356021 TATTTATAAG
1356031 TTTA-TAATATAATAAAATT-TTTC-A
1 TTTATTAAT-TAA-AAAATTATTTCAA
1356055 TTATATTAAATTAAAAAATTATTTCGTAA
1 TT-TATT-AATTAAAAAATTATTTC--AA
1356084 TTTATTAATTAAAAAAT
1 TTTATTAATTAAAAAAT
1356101 AAAAAAAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
24 2 0.05
25 8 0.21
26 8 0.21
27 14 0.36
28 4 0.10
29 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (25 bp):
TTTATTAATTAAAAAATTATTTCAA
Found at i:1357712 original size:22 final size:22
Alignment explanation
Indices: 1357687--1357731 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1357677 ATTAATGAGC
1357687 AAAATTTGA-AAAATTTTTAAAT
1 AAAA-TTGATAAAATTTTTAAAT
* *
1357709 AAAATTGATAGATTTTTTAAAT
1 AAAATTGATAAAATTTTTAAAT
1357731 A
1 A
1357732 GGTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AAAATTGATAAAATTTTTAAAT
Done.