Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 49 of 109
Found at i:9071627 original size:18 final size:18
Alignment explanation
Indices: 9071600--9071637 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9071590 TGGCTGAAGT
9071600 TCTTCCTCCTCCTCTTCC
1 TCTTCCTCCTCCTCTTCC
*
9071618 TCTTCTTCCTCCTCTTCC
1 TCTTCCTCCTCCTCTTCC
9071636 TC
1 TC
9071638 GCCATCATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (18 bp):
TCTTCCTCCTCCTCTTCC
Found at i:9071657 original size:27 final size:27
Alignment explanation
Indices: 9071627--9071685 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
9071617 CTCTTCTTCC
9071627 TCCTCTTCCTCGC-CATCATCGTCATCA
1 TCCTCTTCCTC-CTCATCATCGTCATCA
* *
9071654 TCCTCTTCCTCCTCATCCTCGTCGTCA
1 TCCTCTTCCTCCTCATCATCGTCATCA
9071681 TCCTC
1 TCCTC
9071686 ATCTCCACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.10, C:0.47, G:0.07, T:0.36
Consensus pattern (27 bp):
TCCTCTTCCTCCTCATCATCGTCATCA
Found at i:9087716 original size:20 final size:19
Alignment explanation
Indices: 9087687--9087746 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
9087677 TAAAACGATT
*
9087687 AAATTTTAAATTTAATTTA
1 AAATTATAAATTTAATTTA
*
9087706 ATAATTATAAAATCTAATTTA
1 A-AATTAT-AAATTTAATTTA
* *
9087727 AATTTAAATAATTTAATTTA
1 AAATTATA-AATTTAATTTA
9087747 TCGAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 19 0.58
21 12 0.36
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATTATAAATTTAATTTA
Found at i:9092606 original size:9 final size:9
Alignment explanation
Indices: 9092567--9092598 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
9092557 TTTATTATTA
9092567 TTATTGTTG
1 TTATTGTTG
*
9092576 TTGTTGTTG
1 TTATTGTTG
9092585 TTATTGTTG
1 TTATTGTTG
9092594 TTATT
1 TTATT
9092599 ATTATTATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.22, T:0.69
Consensus pattern (9 bp):
TTATTGTTG
Found at i:9095560 original size:2 final size:2
Alignment explanation
Indices: 9095549--9095579 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9095539 CGAGGACTTT
9095549 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9095580 AAGATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9095935 original size:2 final size:2
Alignment explanation
Indices: 9095928--9095954 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9095918 ATCTGTTTTG
9095928 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9095955 GAGAGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9102029 original size:21 final size:22
Alignment explanation
Indices: 9101989--9102029 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9101979 CGGCAGTTGA
*
9101989 TTCGTCTGTTGCTGTTGGTTCG
1 TTCGTCTGTTGCTGTGGGTTCG
*
9102011 TTCGT-TGTTGTTGTGGGTT
1 TTCGTCTGTTGCTGTGGGTT
9102030 GGTAAAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.00, C:0.12, G:0.34, T:0.54
Consensus pattern (22 bp):
TTCGTCTGTTGCTGTGGGTTCG
Found at i:9102462 original size:13 final size:13
Alignment explanation
Indices: 9102444--9102468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9102434 GAGAAGGCGA
9102444 AAGAAGCGGTTTG
1 AAGAAGCGGTTTG
9102457 AAGAAGCGGTTT
1 AAGAAGCGGTTT
9102469 TCAGGTGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (13 bp):
AAGAAGCGGTTTG
Found at i:9103254 original size:17 final size:18
Alignment explanation
Indices: 9103213--9103254 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9103203 TTATTTTATT
*
9103213 TTAAATATAAATATTAAA
1 TTAAATTTAAATATTAAA
*
9103231 -TATATTTAAAT-TTAAA
1 TTAAATTTAAATATTAAA
9103247 TTAAATTT
1 TTAAATTT
9103255 TTAATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTTAAATATTAAA
Found at i:9103391 original size:14 final size:14
Alignment explanation
Indices: 9103372--9103399 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9103362 ATAAAATAAA
9103372 AATAAAATTTAATT
1 AATAAAATTTAATT
9103386 AATAAAATTTAATT
1 AATAAAATTTAATT
9103400 CGATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAAAATTTAATT
Found at i:9108435 original size:19 final size:19
Alignment explanation
Indices: 9108400--9108441 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9108390 TTAATCTATA
*
9108400 AAAAATTTTTATGAATTTTT
1 AAAAATTTTTA-GAATTTAT
9108420 AAAAATTTATTA-AATTTAT
1 AAAAATTT-TTAGAATTTAT
9108439 AAA
1 AAA
9108442 TCATCTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 8 0.40
21 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AAAAATTTTTAGAATTTAT
Found at i:9109040 original size:34 final size:34
Alignment explanation
Indices: 9108972--9109070 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 34
9108962 ATAAATAAAT
* *
9108972 TATTTAATATTTTAAATTAAAATAA-AATATATTA-
1 TATTTAATAATTTAAA-T-AAATAATAATAAATTAG
*
9109006 TATTTAATAATTTAACATAAATAATTATAAATTATG
1 TATTTAATAATTTAA-ATAAATAATAATAAATTA-G
*
9109042 TATTTAAAATAATTTTAATAAATAATAAT
1 TATTT--AATAATTTAAATAAATAATAAT
9109071 TAATAAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
33 6 0.11
34 22 0.41
35 1 0.02
36 5 0.09
37 11 0.20
38 9 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (34 bp):
TATTTAATAATTTAAATAAATAATAATAAATTAG
Found at i:9109708 original size:21 final size:23
Alignment explanation
Indices: 9109684--9109726 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
9109674 TAAGATATAT
9109684 TTTTAAAAT-AAA-ATCATAAAA
1 TTTTAAAATAAAACATCATAAAA
*
9109705 TTTTCAAATAAAACATCATAAA
1 TTTTAAAATAAAACATCATAAA
9109727 TTGAAGACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (23 bp):
TTTTAAAATAAAACATCATAAAA
Found at i:9120507 original size:6 final size:6
Alignment explanation
Indices: 9120496--9120521 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9120486 CGGTTCATCC
9120496 GGTTAG GGTTAG GGTTAG GGTTAG GG
1 GGTTAG GGTTAG GGTTAG GGTTAG GG
9120522 CAAGCGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (6 bp):
GGTTAG
Found at i:9123362 original size:19 final size:19
Alignment explanation
Indices: 9123326--9123393 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
9123316 AAATGAATTC
*
9123326 AAATTTAGATA-ATAATTTT
1 AAATTTAAATATAT-ATTTT
9123345 AAATTTAAATATATA-TTT
1 AAATTTAAATATATATTTT
*
9123363 AAA--TAAATTTATATATTAT
1 AAATTTAAA--TATATATTTT
9123382 AAATATTAAATA
1 AAAT-TTAAATA
9123394 AAGATATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 4 0.10
18 12 0.30
19 16 0.40
20 4 0.10
22 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
AAATTTAAATATATATTTT
Found at i:9123365 original size:18 final size:18
Alignment explanation
Indices: 9123342--9123393 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
9123332 AGATAATAAT
9123342 TTTAAATTTAAATATATA
1 TTTAAATTTAAATATATA
9123360 TTTAAA--TAAATTTATATA
1 TTTAAATTTAAA--TATATA
9123378 TTATAAATATTAAATA
1 TT-TAAAT-TTAAATA
9123394 AAGATATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 4 0.14
18 14 0.50
19 4 0.14
20 2 0.07
22 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTAAATTTAAATATATA
Found at i:9123825 original size:18 final size:19
Alignment explanation
Indices: 9123804--9123840 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9123794 AATTTGACTT
9123804 AAAATT-TAAATAAATTTA
1 AAAATTATAAATAAATTTA
*
9123822 AAAATTATAATTAAATTTA
1 AAAATTATAAATAAATTTA
9123841 TTTAACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTATAAATAAATTTA
Found at i:9133256 original size:26 final size:25
Alignment explanation
Indices: 9133209--9133259 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
9133199 TACAAGGAAG
*
9133209 ATGTCAAACTGCAGCATATGAACTA
1 ATGTCAAACTGCAACATATGAACTA
*
9133234 ATGTCAAAGTCGCAACATATGAACTA
1 ATGTCAAACT-GCAACATATGAACTA
9133260 CTTTTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
ATGTCAAACTGCAACATATGAACTA
Found at i:9151631 original size:2 final size:2
Alignment explanation
Indices: 9151624--9151654 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9151614 CAAATTATCA
9151624 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9151655 CATCTGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9153376 original size:19 final size:20
Alignment explanation
Indices: 9153339--9153378 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
9153329 ATTTGAAATT
9153339 TTTTATAAATATTATATTAA
1 TTTTATAAATATTATATTAA
9153359 TTTT-TAAAT-TTATAATTAA
1 TTTTATAAATATTAT-ATTAA
9153378 T
1 T
9153379 GTATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTATAAATATTATATTAA
Found at i:9153413 original size:29 final size:31
Alignment explanation
Indices: 9153381--9153442 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
9153371 TAATTAATGT
*
9153381 ATTATATTAAA-ATTTT-TTAAAATTTATAA
1 ATTATATTAAATATTTTATTAAAATTTAAAA
*
9153410 ATTATATTAAATATTTTATTATAATTTAAAA
1 ATTATATTAAATATTTTATTAAAATTTAAAA
9153441 AT
1 AT
9153443 CATTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.38
30 5 0.17
31 13 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTATATTAAATATTTTATTAAAATTTAAAA
Found at i:9153418 original size:34 final size:30
Alignment explanation
Indices: 9153346--9153418 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 30
9153336 ATTTTTTATA
9153346 AATATTATATTAATTTTTAAATTTATAATT
1 AATATTATATTAATTTTTAAATTTATAATT
9153376 AATGTATTATATTAAAATTTTTTAAAATTTATAAATT
1 AA--TATTATATT--AA-TTTTT-AAATTTAT-AATT
9153413 -ATATTA
1 AATATTA
9153419 AATATTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
30 2 0.06
32 9 0.25
34 7 0.19
35 5 0.14
36 9 0.25
37 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (30 bp):
AATATTATATTAATTTTTAAATTTATAATT
Found at i:9167227 original size:151 final size:151
Alignment explanation
Indices: 9166953--9167245 Score: 376
Period size: 151 Copynumber: 1.9 Consensus size: 151
9166943 TAACCAAAAT
* * * * * * *
9166953 AAGATTCGAGAGTTTGGTTATATATGGGAAAGGTTATAGTACCCCCACATGCCTATTCGAAGGAT
1 AAGATTCGAGAGTTCGGTTACATATGGGAAAGGTTATAGCACCCCAACATGCCCATCCGAAGAAT
* **
9167018 GGTATCATATTATTTCAAATTTATCATAGGGTTTTGATTCTAATGGTTTTAAGTTTTATGTTGAA
66 GGTACCATATTATTTCAAATTTATCATAGGGTTCAGATTCTAATGGTTTTAAGTTTTATGTTGAA
*
9167083 ATATTGGAAATAGTTTTTAAA
131 ATATTAGAAATAGTTTTTAAA
* * * **
9167104 AAGATTCGGGAGTTCGGTTACATAT-GGAGAAGGTTCTAGCACCCTAACATGCCCATCCGACTAA
1 AAGATTCGAGAGTTCGGTTACATATGGGA-AAGGTTATAGCACCCCAACATGCCCATCCGAAGAA
* *
9167168 TGGTACCATATTATTTTAAATTTATCCA-AGGGTCTCAG-TTTTAATGGTTTTAAGTTTTATGTT
65 TGGTACCATATTATTTCAAATTTAT-CATAGGGT-TCAGATTCTAATGGTTTTAAGTTTTATGTT
9167231 GAAATATTAGAAATA
128 GAAATATTAGAAATA
9167246 ATGTTTAAGA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
150 3 0.02
151 114 0.94
152 4 0.03
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (151 bp):
AAGATTCGAGAGTTCGGTTACATATGGGAAAGGTTATAGCACCCCAACATGCCCATCCGAAGAAT
GGTACCATATTATTTCAAATTTATCATAGGGTTCAGATTCTAATGGTTTTAAGTTTTATGTTGAA
ATATTAGAAATAGTTTTTAAA
Found at i:9167509 original size:107 final size:108
Alignment explanation
Indices: 9167398--9167595 Score: 258
Period size: 107 Copynumber: 1.8 Consensus size: 108
9167388 ATCTAGTTAC
* ** * *
9167398 TTCACCATTTGGGCCAAATTAAAAATATTTT-TTTATTT-TGAATTTCTAAATTTTTTCATCATT
1 TTCACAATTTGGGCCAAATTAAAAATATTTTCTTT-TTTCAAAATTTCTAAA-ATTTTCACCATT
*
9167461 TGGGCCTATTTAAAAATTCTTT-TTTTTGTTGAATTTCTAAATTT
64 TAGGCCTATTTAAAAATTCTTTCTTTTTGTTGAATTTCTAAATTT
* * * *
9167505 TTCACAATTTGGGTCAATTTAGAAATATTTTCTTTTTTCAAAATTTTTAAAATTTTCACCATTTA
1 TTCACAATTTGGGCCAAATTAAAAATATTTTCTTTTTTCAAAATTTCTAAAATTTTCACCATTTA
*
9167570 GGCCTATTTAGAAATTCTTTCTTTTT
66 GGCCTATTTAAAAATTCTTTCTTTTT
9167596 TTTTTTTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
107 60 0.78
108 17 0.22
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (108 bp):
TTCACAATTTGGGCCAAATTAAAAATATTTTCTTTTTTCAAAATTTCTAAAATTTTCACCATTTA
GGCCTATTTAAAAATTCTTTCTTTTTGTTGAATTTCTAAATTT
Found at i:9167550 original size:54 final size:52
Alignment explanation
Indices: 9167398--9167598 Score: 197
Period size: 54 Copynumber: 3.7 Consensus size: 52
9167388 ATCTAGTTAC
* *
9167398 TTCACCATTTGGGCCAAATTAAAAATATTTTTTTATTTTGAATTTCTAAATTTT
1 TTCACCATTTGGGCCAATTTAGAAATATTTTTTT-TTTTGAATTTCTAAA-TTT
* * *
9167452 TTCATCATTTGGGCCTATTTAAAAAT-TCTTTTTTTTGTTGAATTTCTAAATTT
1 TTCACCATTTGGGCCAATTTAGAAATAT-TTTTTTTT-TTGAATTTCTAAATTT
* * ** * *
9167505 TTCACAATTTGGGTCAATTTAGAAATATTTTCTTTTTTCAAAATTTTTAAAATT
1 TTCACCATTTGGGCCAATTTAGAAATATTTT-TTTTTT-TGAATTTCTAAATTT
* * *
9167559 TTCACCATTTAGGCCTATTTAGAAATTCTTTCTTTTTTTT
1 TTCACCATTTGGGCCAATTTAGAAA-TATTT-TTTTTTTT
9167599 TTTTTTTGAA
Statistics
Matches: 122, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
53 31 0.25
54 80 0.66
55 10 0.08
56 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (52 bp):
TTCACCATTTGGGCCAATTTAGAAATATTTTTTTTTTTGAATTTCTAAATTT
Found at i:9167947 original size:7 final size:7
Alignment explanation
Indices: 9167920--9167962 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
9167910 CCTTTGGTAA
9167920 TTTATA-
1 TTTATAT
9167926 TTTA-AT
1 TTTATAT
* *
9167932 TTCAAAT
1 TTTATAT
9167939 TTTATAT
1 TTTATAT
9167946 TTTATAT
1 TTTATAT
9167953 TTTATAT
1 TTTATAT
9167960 TTT
1 TTT
9167963 TTTGTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
5 1 0.03
6 7 0.22
7 24 0.75
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATAT
Found at i:9168103 original size:25 final size:25
Alignment explanation
Indices: 9168043--9168113 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
9168033 AATTTAGATA
*
9168043 AAATTTC-TCACCTGTGAATTTTATAG
1 AAATTTCATCA-CT-TGAAATTTATAG
* *
9168069 AAATTT-ATCACTTGAAATTTCTAT
1 AAATTTCATCACTTGAAATTTATAG
*
9168093 AAATTTCATCATTTGATAATT
1 AAATTTCATCACTTGA-AATT
9168114 AATATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 15 0.39
25 10 0.26
26 13 0.34
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (25 bp):
AAATTTCATCACTTGAAATTTATAG
Found at i:9169380 original size:41 final size:41
Alignment explanation
Indices: 9169233--9169377 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
9169223 AAACTCAATG
* *
9169233 ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
1 ACTTTGAAAAATAAATTACTCCTCTAAACAGAGGCACCACA
* *
9169274 ACTTTGAAAAATAAATTAATTCCTCTAAACAAAGGCACCACA
1 ACTTTGAAAAATAAATT-ACTCCTCTAAACAGAGGCACCACA
* * * * *
9169316 ATTTTGAAAAAAAAATTACTCTTCTAAACGGAGGCACCACG
1 ACTTTGAAAAATAAATTACTCCTCTAAACAGAGGCACCACA
9169357 ACTTTGAAAAATAAATTACTC
1 ACTTTGAAAAATAAATTACTC
9169378 TTCGACAATC
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 54 0.60
42 36 0.40
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (41 bp):
ACTTTGAAAAATAAATTACTCCTCTAAACAGAGGCACCACA
Found at i:9170767 original size:10 final size:10
Alignment explanation
Indices: 9170744--9170782 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
9170734 TCTTGAGTCT
9170744 TTTTATTTTC-
1 TTTT-TTTTCA
9170754 TTTTTTTTCA
1 TTTTTTTTCA
9170764 TTTTTTTT-A
1 TTTTTTTTCA
9170773 TTTTTTTTCA
1 TTTTTTTTCA
9170783 AGCATAGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:9170776 original size:19 final size:20
Alignment explanation
Indices: 9170744--9170782 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9170734 TCTTGAGTCT
*
9170744 TTTTATTTTCTTTTTTTTCA
1 TTTTATTTTATTTTTTTTCA
9170764 TTTT-TTTTATTTTTTTTCA
1 TTTTATTTTATTTTTTTTCA
9170783 AGCATAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTATTTTATTTTTTTTCA
Found at i:9181293 original size:54 final size:53
Alignment explanation
Indices: 9181236--9181352 Score: 152
Period size: 53 Copynumber: 2.3 Consensus size: 53
9181226 ATTTTTAAGT
* *
9181236 TTTTTTACTATTTGGACCTATTTAAAAATTCTTTTTTTTGTTGGATTTCTAAA
1 TTTTTCACAATTTGGACCTATTTAAAAATTCTTTTTTTTGTTGGATTTCTAAA
* * *
9181289 TTTTTCACAATTTGGGCCTATTTAGAAATTC-TTTTTTT-TT--ATCTCTAAA
1 TTTTTCACAATTTGGACCTATTTAAAAATTCTTTTTTTTGTTGGATTTCTAAA
*
9181338 TTTTTCACCATTTGG
1 TTTTTCACAATTTGG
9181353 CATTAATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
49 22 0.38
51 2 0.03
52 7 0.12
53 27 0.47
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (53 bp):
TTTTTCACAATTTGGACCTATTTAAAAATTCTTTTTTTTGTTGGATTTCTAAA
Found at i:9181367 original size:50 final size:50
Alignment explanation
Indices: 9181236--9181376 Score: 153
Period size: 49 Copynumber: 2.8 Consensus size: 50
9181226 ATTTTTAAGT
* * * * *
9181236 TTTTTTACTATTTGGACCTATTTAAAAATTCTTTTTTTTGTTGGATTTCTAAA
1 TTTTTCACAATTTGGGCCTATTTAGAAATTC-TTTTTTT-TT-GATCTCTAAA
9181289 TTTTTCACAATTTGGGCCTATTTAGAAATTCTTTTTTTTT-ATCTCTAAA
1 TTTTTCACAATTTGGGCCTATTTAGAAATTCTTTTTTTTTGATCTCTAAA
* *
9181338 TTTTTCACCATTT-GGCATTAATTTAGAAATT-TTTTTTTT
1 TTTTTCACAATTTGGGC-CT-ATTTAGAAATTCTTTTTTTT
9181377 CGAAAAGAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
48 3 0.04
49 29 0.37
50 11 0.14
51 2 0.03
52 7 0.09
53 27 0.34
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (50 bp):
TTTTTCACAATTTGGGCCTATTTAGAAATTCTTTTTTTTTGATCTCTAAA
Found at i:9182760 original size:18 final size:18
Alignment explanation
Indices: 9182740--9182773 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9182730 AAATAACCCA
9182740 AAAAAAT-AAAATAAAAT
1 AAAAAATAAAAATAAAAT
9182757 AAAAAATAAAAATAAAA
1 AAAAAATAAAAATAAAA
9182774 ATGGGCCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAAATAAAAATAAAAT
Found at i:9187628 original size:14 final size:16
Alignment explanation
Indices: 9187595--9187634 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
9187585 ATTTTTTAAT
*
9187595 TATTTATATACTTATA
1 TATTTAAATACTTATA
9187611 TATTTAAATA-TT-TA
1 TATTTAAATACTTATA
9187625 TATTTAAATA
1 TATTTAAATA
9187635 ATATTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 9 0.39
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTAAATACTTATA
Found at i:9187639 original size:17 final size:18
Alignment explanation
Indices: 9187617--9187663 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
9187607 TATATATTTA
9187617 AATATTTATATTT-AAAT
1 AATATTTATATTTAAAAT
9187634 AATATTTTATATTTAAAAT
1 AATA-TTTATATTTAAAAT
9187653 AATATTT-TATT
1 AATATTTATATT
9187664 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.29
18 12 0.43
19 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATTTATATTTAAAAT
Found at i:9187672 original size:22 final size:19
Alignment explanation
Indices: 9187617--9187662 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
9187607 TATATATTTA
9187617 AATA-TTTATATTT-AAAT
1 AATATTTTATATTTAAAAT
9187634 AATATTTTATATTTAAAAT
1 AATATTTTATATTTAAAAT
9187653 AATATTTTAT
1 AATATTTTAT
9187663 TAATTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 4 0.15
18 9 0.33
19 14 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTTTATATTTAAAAT
Found at i:9188308 original size:22 final size:22
Alignment explanation
Indices: 9188283--9188341 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
9188273 CTTAACTTAG
9188283 ATTTTAT-T-TTTATATATATAAA
1 ATTTTATATATTTAT-T-TATAAA
9188305 ATTTTATATATTTATTTATAAA
1 ATTTTATATATTTATTTATAAA
*
9188327 ATAATTATA-ATTTAT
1 AT-TTTATATATTTAT
9188342 CTATTTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 21 0.64
23 7 0.21
24 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTATATATTTATTTATAAA
Found at i:9199026 original size:2 final size:2
Alignment explanation
Indices: 9199021--9199066 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
9199011 ACCAAAAGAA
* *
9199021 AG AG AG AC AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9199063 AG AG
1 AG AG
9199067 CAAAACCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9199220 original size:2 final size:2
Alignment explanation
Indices: 9199213--9199239 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9199203 CATACATACA
9199213 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
9199240 ATAAGAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9201194 original size:34 final size:34
Alignment explanation
Indices: 9201151--9201221 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
9201141 CATTTCCAGT
*
9201151 AGACTAAATCAAAGCGACAAA-CACAACCAAACCC
1 AGACCAAATCAAAGCGA-AAAGCACAACCAAACCC
* *
9201185 AGACCAAATCAAAGCGAAAAGTACTACCAAACCC
1 AGACCAAATCAAAGCGAAAAGCACAACCAAACCC
9201219 AGA
1 AGA
9201222 TCTATGAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 3 0.09
34 30 0.91
ACGTcount: A:0.52, C:0.30, G:0.11, T:0.07
Consensus pattern (34 bp):
AGACCAAATCAAAGCGAAAAGCACAACCAAACCC
Found at i:9201978 original size:19 final size:21
Alignment explanation
Indices: 9201953--9202002 Score: 86
Period size: 19 Copynumber: 2.5 Consensus size: 21
9201943 AAAATTTTTA
9201953 ATTTTTATTACATTATAAT-T
1 ATTTTTATTACATTATAATAT
9201973 -TTTTTATTACATTATAATAT
1 ATTTTTATTACATTATAATAT
9201993 ATTTTTATTA
1 ATTTTTATTA
9202003 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.64
20 1 0.04
21 9 0.32
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTATTACATTATAATAT
Found at i:9202341 original size:11 final size:12
Alignment explanation
Indices: 9202327--9202355 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9202317 ATATTTAGAT
9202327 ATTAAATTTT-A
1 ATTAAATTTTAA
9202338 ATTAAATTTTAA
1 ATTAAATTTTAA
9202350 ATTAAA
1 ATTAAA
9202356 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAAATTTTAA
Found at i:9203031 original size:32 final size:32
Alignment explanation
Indices: 9202979--9203047 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
9202969 AAACAAATAT
* *
9202979 AAAAATTTATAAATCTTTAAAAA-ATATATAC
1 AAAAATTTACAAATCTTTAAAAATAAATATAC
*
9203010 AAAAATGTTACAAATTTTTAAAAATAAATATAC
1 AAAAAT-TTACAAATCTTTAAAAATAAATATAC
9203043 AAAAA
1 AAAAA
9203048 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 6 0.18
32 15 0.45
33 12 0.36
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (32 bp):
AAAAATTTACAAATCTTTAAAAATAAATATAC
Found at i:9214483 original size:26 final size:27
Alignment explanation
Indices: 9214453--9214506 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
9214443 TGTTTCTTTA
9214453 TTTTTTCCCGAACAATTCTATTATTATTT
1 TTTTTTCCCGAACAATTCTATTATTA--T
*
9214482 TTTTTTCCTGAACAATTCTATTATT
1 TTTTTTCCCGAACAATTCTATTATT
9214507 CCTTTGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.56
Consensus pattern (27 bp):
TTTTTTCCCGAACAATTCTATTATTAT
Found at i:9219820 original size:12 final size:12
Alignment explanation
Indices: 9219784--9219835 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
9219774 AATTTAAATA
9219784 ATATTAT-TTTT
1 ATATTATATTTT
*
9219795 ATGTTA-ATTTT
1 ATATTATATTTT
*
9219806 ATATTATATTAT
1 ATATTATATTTT
*
9219818 ATATCATATTTT
1 ATATTATATTTT
*
9219830 AAATTA
1 ATATTA
9219836 CTCAATTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
11 14 0.44
12 18 0.56
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:9233403 original size:27 final size:29
Alignment explanation
Indices: 9233352--9233407 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
9233342 TTATCATCTT
*
9233352 TTTCTTCATTAATATTTGTTAAATATTAA
1 TTTCTTCATTAATATTTGTAAAATATTAA
9233381 TTTCTTCATTAAT-TTT-TAAAATATTAA
1 TTTCTTCATTAATATTTGTAAAATATTAA
9233408 AATAATTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 10 0.38
28 3 0.12
29 13 0.50
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTCTTCATTAATATTTGTAAAATATTAA
Found at i:9234789 original size:2 final size:2
Alignment explanation
Indices: 9234782--9234813 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9234772 CGTTCTGCAT
9234782 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9234814 AGTGAAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9236628 original size:21 final size:22
Alignment explanation
Indices: 9236590--9236643 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
9236580 GATTAAGCAT
9236590 ATAAAATTTGAAAAATTT-TTA
1 ATAAAATTTGAAAAATTTATTA
* * *
9236611 ATAAATTTTGATATATTTATTAA
1 ATAAAATTTGAAAAATTTATT-A
9236634 ATATAAATTT
1 ATA-AAATTT
9236644 TTATTGTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.58
22 2 0.08
23 4 0.15
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
ATAAAATTTGAAAAATTTATTA
Found at i:9238178 original size:2 final size:2
Alignment explanation
Indices: 9238171--9238196 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9238161 GTTTATAAAC
9238171 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
9238197 CCAGAAGTTC
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):
AT
Found at i:9241491 original size:22 final size:20
Alignment explanation
Indices: 9241459--9241522 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 20
9241449 GTAGTATGAA
*
9241459 ATAAATTAAATAATATTATTTT
1 ATAAATGAAATAAT-TT-TTTT
9241481 ATAAATGAAATAATTTTTTT
1 ATAAATGAAATAATTTTTTT
9241501 A-AAA--AATATTAATTTTTTT
1 ATAAATGAA-A-TAATTTTTTT
9241520 ATA
1 ATA
9241523 TATTTATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 2 0.05
18 1 0.03
19 14 0.37
20 6 0.16
21 2 0.05
22 13 0.34
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAAATGAAATAATTTTTTT
Found at i:9241552 original size:31 final size:31
Alignment explanation
Indices: 9241493--9241552 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
9241483 AAATGAAATA
* *
9241493 ATTTTTTTAAAAAATATTAATTTTTTTATAT
1 ATTTTTTTAAAAAATAATAATTTATTTATAT
*
9241524 ATTTATTTTAAAAATTAAT-ATTTATTTAT
1 ATTT-TTTTAAAAAATAATAATTTATTTAT
9241553 TAATTAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTTTTTTAAAAAATAATAATTTATTTATAT
Found at i:9250167 original size:52 final size:52
Alignment explanation
Indices: 9250083--9250213 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
9250073 AGAATCCCTC
* * **
9250083 TCCTCTTAGAATTCTTCTCTTTT--AAGTTAAACTTGTCTATTAAAAATCTATT
1 TCCTCTTAAAATT-TT-TCTTTTACAAGTCAAACTTACCTATTAAAAATCTATT
* * * *
9250135 TCCTTTTAAAATTTTTCTTTTACAAGTCAAACTTACCTATTAAGAATTTTTT
1 TCCTCTTAAAATTTTTCTTTTACAAGTCAAACTTACCTATTAAAAATCTATT
* *
9250187 TTCTCTTAGAATTTTTCTTTTACAAGT
1 TCCTCTTAAAATTTTTCTTTTACAAGT
9250214 TTTTTTGTCC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 6 0.09
51 2 0.03
52 58 0.88
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.50
Consensus pattern (52 bp):
TCCTCTTAAAATTTTTCTTTTACAAGTCAAACTTACCTATTAAAAATCTATT
Found at i:9252051 original size:14 final size:15
Alignment explanation
Indices: 9252030--9252069 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
9252020 TAAGAGTATG
9252030 TTAT-TTATAATT-A
1 TTATATTATAATTAA
9252043 TTATATTATAATTAA
1 TTATATTATAATTAA
*
9252058 TTA-ATCATAATT
1 TTATATTATAATT
9252070 TAAAATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATTATAATTAA
Found at i:9259031 original size:33 final size:33
Alignment explanation
Indices: 9258989--9259055 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
9258979 GATGGCGGCA
9258989 TGCTAGCTACTATATGTTCCATAAACTATTTGC
1 TGCTAGCTACTATATGTTCCATAAACTATTTGC
9259022 TGCTAGCTACTATATGTTCCATAAACTATTTGC
1 TGCTAGCTACTATATGTTCCATAAACTATTTGC
9259055 T
1 T
9259056 ATCTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (33 bp):
TGCTAGCTACTATATGTTCCATAAACTATTTGC
Found at i:9259264 original size:2 final size:2
Alignment explanation
Indices: 9259257--9259296 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9259247 TTAATATGAG
*
9259257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9259297 GAAATGGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9272671 original size:22 final size:22
Alignment explanation
Indices: 9272644--9272782 Score: 113
Period size: 22 Copynumber: 6.3 Consensus size: 22
9272634 TTACTATATG
9272644 TGATTTATTATTAAATTATTAA
1 TGATTTATTATTAAATTATTAA
*
9272666 TGATTT-TATATTAAATTATAAA
1 TGATTTAT-TATTAAATTATTAA
* * *
9272688 TGATTTACTATTAAGTTATTGA
1 TGATTTATTATTAAATTATTAA
* * * *
9272710 TAATTTAGTACTAAGTTATTAA
1 TGATTTATTATTAAATTATTAA
* *
9272732 TAATTTATTATTAAGTTA-TAA
1 TGATTTATTATTAAATTATTAA
* * *
9272753 CTAATTTACTA-TAAAGTTATCAA
1 -TGATTTATTATTAAA-TTATTAA
9272776 TGATTTA
1 TGATTTA
9272783 CTACAAAATT
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
21 7 0.07
22 88 0.91
23 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (22 bp):
TGATTTATTATTAAATTATTAA
Found at i:9272707 original size:44 final size:43
Alignment explanation
Indices: 9272644--9272785 Score: 135
Period size: 44 Copynumber: 3.2 Consensus size: 43
9272634 TTACTATATG
* * *
9272644 TGATTTATTATTAAATTATTAATGATTTTA-TATTAAATTATAAA
1 TGATTTACTATTAAGTTATTAAT-AATTTACTA-TAAATTATAAA
* * * *
9272688 TGATTTACTATTAAGTTATTGATAATTTAGTACTAAGTTATTAA
1 TGATTTACTATTAAGTTATTAATAATTTACTA-TAAATTATAAA
* * *
9272732 TAATTTATTATTAAGTTA-TAACTAATTTACTATAAAGTTATCAA
1 TGATTTACTATTAAGTTATTAA-TAATTTACTATAAA-TTATAAA
9272776 TGATTTACTA
1 TGATTTACTA
9272786 CAAAATTATC
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 10 0.12
44 70 0.88
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (43 bp):
TGATTTACTATTAAGTTATTAATAATTTACTATAAATTATAAA
Found at i:9272782 original size:66 final size:66
Alignment explanation
Indices: 9272644--9272794 Score: 169
Period size: 66 Copynumber: 2.3 Consensus size: 66
9272634 TTACTATATG
* * * * * **
9272644 TGATTTATTATTAAATTATTAATGATTTTATATTAAATTATAAATGATTTACTATTAAGTTATTG
1 TGATTTAGTACTAAATTATTAATAATTTTATATTAAATTATAAATAATTTACTATAAAGTTATCA
9272709 A
66 A
* * * *
9272710 TAATTTAGTACTAAGTTATTAATAA-TTTATTATTAAGTTATAACTAATTTACTATAAAGTTATC
1 TGATTTAGTACTAAATTATTAATAATTTTA-TATTAAATTATAAATAATTTACTATAAAGTTATC
9272774 AA
65 AA
* *
9272776 TGATTTACTACAAAATTAT
1 TGATTTAGTACTAAATTAT
9272795 CATTGATATG
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
65 4 0.06
66 65 0.94
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (66 bp):
TGATTTAGTACTAAATTATTAATAATTTTATATTAAATTATAAATAATTTACTATAAAGTTATCA
A
Found at i:9272795 original size:22 final size:22
Alignment explanation
Indices: 9272756--9272801 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
9272746 GTTATAACTA
* *
9272756 ATTTACTATAAAGTTATCAATG
1 ATTTACTACAAAATTATCAATG
*
9272778 ATTTACTACAAAATTATCATTG
1 ATTTACTACAAAATTATCAATG
9272800 AT
1 AT
9272802 ATGCAACTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (22 bp):
ATTTACTACAAAATTATCAATG
Found at i:9272968 original size:22 final size:21
Alignment explanation
Indices: 9272908--9272990 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
9272898 ATTACCATTG
* *
9272908 ATTTATTACTAAGTTTTCAAT
1 ATTTACTACTAAGTTATCAAT
* *
9272929 AGTTAGCTATTAAGTTATCAATT
1 ATTTA-CTACTAAGTTATCAA-T
* *
9272952 ATTTACTACTAAATTATCATT
1 ATTTACTACTAAGTTATCAAT
* *
9272973 AAATTACTATTAAGTTAT
1 -ATTTACTACTAAGTTAT
9272991 TTATGATATA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 5 0.10
22 38 0.79
23 5 0.10
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (21 bp):
ATTTACTACTAAGTTATCAAT
Found at i:9273311 original size:11 final size:11
Alignment explanation
Indices: 9273295--9273429 Score: 67
Period size: 11 Copynumber: 12.3 Consensus size: 11
9273285 GTTATAGATG
9273295 ATTTATTATTA
1 ATTTATTATTA
* * **
9273306 AATTATAAACA
1 ATTTATTATTA
*
9273317 ATTTATTACTA
1 ATTTATTATTA
*
9273328 AATTATTGA-TA
1 ATTTATT-ATTA
*
9273339 ATTTACTATTA
1 ATTTATTATTA
* *
9273350 AGTTATTAATA
1 ATTTATTATTA
9273361 ATTTATT-TTA
1 ATTTATTATTA
*
9273371 ATGTTATTACTA
1 AT-TTATTATTA
* *
9273383 ATTTACTATAA
1 ATTTATTATTA
* * *
9273394 AGTTATTAATG
1 ATTTATTATTA
* *
9273405 ATTTACTATAA
1 ATTTATTATTA
* *
9273416 AATTATTAATA
1 ATTTATTATTA
9273427 ATT
1 ATT
9273430 AACTAATTTA
Statistics
Matches: 85, Mismatches: 35, Indels: 8
0.66 0.27 0.06
Matches are distributed among these distances:
10 5 0.06
11 75 0.88
12 5 0.06
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:9273311 original size:22 final size:22
Alignment explanation
Indices: 9273286--9273371 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
9273276 TATCGCTAAG
*
9273286 TTATAGATGATTTATTATTAAA
1 TTATAGATAATTTATTATTAAA
* * *
9273308 TTATAAACAATTTATTACTAAA
1 TTATAGATAATTTATTATTAAA
* * *
9273330 TTATTGATAATTTACTATTAAG
1 TTATAGATAATTTATTATTAAA
9273352 TTATTA-ATAATTTATT-TTAA
1 TTA-TAGATAATTTATTATTAA
9273372 TGTTATTACT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 4 0.08
22 46 0.90
23 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATAGATAATTTATTATTAAA
Found at i:9273366 original size:66 final size:66
Alignment explanation
Indices: 9273282--9273429 Score: 160
Period size: 66 Copynumber: 2.2 Consensus size: 66
9273272 GATTTATCGC
* * *
9273282 TAAGTTA-TAGATGATTTATTATTAA-ATTATAAAC-AATTTATTACTAAA-TTATTGATAATTT
1 TAAGTTATTA-ATAATTTATT-TTAATATTAT-AACTAATTTACTA-TAAAGTTATTAATAATTT
9273343 ACTAT
62 ACTAT
* * *
9273348 TAAGTTATTAATAATTTATTTTAATGTTATTACTAATTTACTATAAAGTTATTAATGATTTACTA
1 TAAGTTATTAATAATTTATTTTAATATTATAACTAATTTACTATAAAGTTATTAATAATTTACTA
9273413 T
66 T
* *
9273414 AAAATTATTAATAATT
1 TAAGTTATTAATAATT
9273430 AACTAATTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
65 10 0.14
66 58 0.83
67 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (66 bp):
TAAGTTATTAATAATTTATTTTAATATTATAACTAATTTACTATAAAGTTATTAATAATTTACTA
T
Found at i:9273376 original size:22 final size:22
Alignment explanation
Indices: 9273316--9273434 Score: 132
Period size: 22 Copynumber: 5.4 Consensus size: 22
9273306 AATTATAAAC
* *
9273316 AATTTATTACTAAA-TTATTGAT
1 AATTTACTA-TAAAGTTATTAAT
*
9273338 AATTTACTATTAAGTTATTAAT
1 AATTTACTATAAAGTTATTAAT
* * * *
9273360 AATTTATTTTAATGTTATTACT
1 AATTTACTATAAAGTTATTAAT
9273382 AATTTACTATAAAGTTATTAAT
1 AATTTACTATAAAGTTATTAAT
* *
9273404 GATTTACTATAAAATTATTAAT
1 AATTTACTATAAAGTTATTAAT
*
9273426 AATTAACTA
1 AATTTACTA
9273435 ATTTATAACT
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 3 0.04
22 77 0.96
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (22 bp):
AATTTACTATAAAGTTATTAAT
Found at i:9273378 original size:44 final size:44
Alignment explanation
Indices: 9273281--9273409 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 44
9273271 TGATTTATCG
* * * * * *
9273281 CTAAGTTATAGATGATTTATTATTAAATTATAAACAATTTATTA
1 CTAAGTTATTGATAATTTACTATTAAGTTATTAATAATTTATTA
*
9273325 CTAAATTATTGATAATTTACTATTAAGTTATTAATAATTTATT-
1 CTAAGTTATTGATAATTTACTATTAAGTTATTAATAATTTATTA
* * *
9273368 TTAATGTTATT-ACTAATTTACTATAAAGTTATTAATGATTTA
1 CTAA-GTTATTGA-TAATTTACTATTAAGTTATTAATAATTTA
9273410 CTATAAAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
43 4 0.06
44 68 0.94
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (44 bp):
CTAAGTTATTGATAATTTACTATTAAGTTATTAATAATTTATTA
Found at i:9273459 original size:22 final size:22
Alignment explanation
Indices: 9273433--9273497 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
9273423 AATAATTAAC
9273433 TAATTTATAACTAAATTATCAT
1 TAATTTATAACTAAATTATCAT
*
9273455 TAATTTATAAATAAATTATCAT
1 TAATTTATAACTAAATTATCAT
** *
9273477 TGTTTTACAACTAAATTATCA
1 TAATTTATAACTAAATTATCA
9273498 ATGTTTTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATTTATAACTAAATTATCAT
Found at i:9273502 original size:22 final size:22
Alignment explanation
Indices: 9273436--9273506 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
9273426 AATTAACTAA
* **
9273436 TTTATAACTAAATTATCATTAA
1 TTTACAACTAAATTATCATTGT
* *
9273458 TTTATAAATAAATTATCATTGT
1 TTTACAACTAAATTATCATTGT
*
9273480 TTTACAACTAAATTATCAATGT
1 TTTACAACTAAATTATCATTGT
9273502 TTTAC
1 TTTAC
9273507 TATTATGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (22 bp):
TTTACAACTAAATTATCATTGT
Found at i:9273577 original size:22 final size:22
Alignment explanation
Indices: 9273466--9273690 Score: 93
Period size: 22 Copynumber: 10.3 Consensus size: 22
9273456 AATTTATAAA
* * * *
9273466 TAAATTATCATTGTTTTACAAC
1 TAAATTATTAATGATTTACTAC
* * *
9273488 TAAATTATCAATGTTTTACTAT
1 TAAATTATTAATGATTTACTAC
** * *
9273510 TATGTTATTAGTGATTTACTAT
1 TAAATTATTAATGATTTACTAC
* ** * *
9273532 TAAGTTATCGATAATTTACAAC
1 TAAATTATTAATGATTTACTAC
9273554 TAAATTATTAATGATTTACTAC
1 TAAATTATTAATGATTTACTAC
* * *
9273576 TATATTGTT-ATGCATTTGCTAC
1 TAAATTATTAATG-ATTTACTAC
*** *
9273598 TTTGTTA-TAATTGATTTATTAC
1 TAAATTATTAA-TGATTTACTAC
* * *
9273620 TAAGTT-TTAGTGA-TTAGCTAT
1 TAAATTATTAATGATTTA-CTAC
* *
9273641 TAAATTATCATTGATTTA-T-C
1 TAAATTATTAATGATTTACTAC
* *
9273661 GTTAAGTTATTTATGATTTACTAC
1 --TAAATTATTAATGATTTACTAC
9273685 TAAATT
1 TAAATT
9273691 TATAATTTAA
Statistics
Matches: 150, Mismatches: 42, Indels: 22
0.70 0.20 0.10
Matches are distributed among these distances:
20 3 0.02
21 15 0.10
22 125 0.83
23 6 0.04
24 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (22 bp):
TAAATTATTAATGATTTACTAC
Found at i:9273615 original size:66 final size:66
Alignment explanation
Indices: 9273470--9273615 Score: 145
Period size: 66 Copynumber: 2.2 Consensus size: 66
9273460 TATAAATAAA
* * * * *
9273470 TTATCATTGTTTTACAACTAAATTATCAATGTTTTACTATTATGTTATTAGTGATTTACTATTAA
1 TTATAATTGATTTACAACTAAATTATCAATGATTTACTACTATATTATTAGTGATTTACTATTAA
9273535 G
66 G
* * * * *
9273536 TTATCGA-TAATTTACAACTAAATTATTAATGATTTACTACTATATTGTTA-TGCATTTGCTACT
1 TTAT-AATTGATTTACAACTAAATTATCAATGATTTACTACTATATTATTAGTG-ATTTACTA-T
*
9273599 T-TG
63 TAAG
9273602 TTATAATTGATTTA
1 TTATAATTGATTTA
9273616 TTACTAAGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
65 3 0.05
66 58 0.91
67 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (66 bp):
TTATAATTGATTTACAACTAAATTATCAATGATTTACTACTATATTATTAGTGATTTACTATTAA
G
Found at i:9274098 original size:22 final size:22
Alignment explanation
Indices: 9273502--9274121 Score: 154
Period size: 22 Copynumber: 28.2 Consensus size: 22
9273492 TTATCAATGT
* *
9273502 TTTACTATTATGTTATTAGTGA
1 TTTACTATTAAGTTATTATTGA
* *
9273524 TTTACTATTAAGTTATCGA-TAA
1 TTTACTATTAAGTTAT-TATTGA
* * * *
9273546 TTTACAACTAAATTATTAATGA
1 TTTACTATTAAGTTATTATTGA
* *
9273568 TTTACTACTATA-TTGTTA-TGCA
1 TTTACTATTA-AGTTATTATTG-A
* * *
9273590 TTTGCTACTT-TGTTATAATTGA
1 TTTACTA-TTAAGTTATTATTGA
* * *
9273612 TTTATTACTAAGTT-TTAGTGA
1 TTTACTATTAAGTTATTATTGA
* *
9273633 -TTAGCTATTAAATTATCATTGA
1 TTTA-CTATTAAGTTATTATTGA
*
9273655 TTTA-TCGTTAAGTTATT-TATGA
1 TTTACT-ATTAAGTTATTAT-TGA
* * * *
9273677 TTTACTACTAAATTTATAATTTA
1 TTTACTA-TTAAGTTATTATTGA
* ** ** **
9273700 ATTACTATTAAACTAAAATAAA
1 TTTACTATTAAGTTATTATTGA
* * * * *
9273722 TTTACTATTATGCTATCACTAA
1 TTTACTATTAAGTTATTATTGA
* *
9273744 TTTACTACTAAGTTTTTATTGA
1 TTTACTATTAAGTTATTATTGA
** * *
9273766 TTTACTA-CCAGATTATCAATGA
1 TTTACTATTAAG-TTATTATTGA
*
9273788 -TTAGCTATTAAGCTATTATT--
1 TTTA-CTATTAAGTTATTATTGA
* * *
9273808 TTT-TTATGAAGTTATTATTAA
1 TTTACTATTAAGTTATTATTGA
* * **
9273829 TTTA-TAACTATGTTATTATACA
1 TTTACT-ATTAAGTTATTATTGA
* * * *
9273851 TTTACAATTACGTTATAATAGA
1 TTTACTATTAAGTTATTATTGA
* * *
9273873 TTTATTATTAAGTTATT-CTGC
1 TTTACTATTAAGTTATTATTGA
* *
9273894 TTTGACTATTATA-TTATTACTAA
1 TTT-ACTATTA-AGTTATTATTGA
* * *
9273917 TTTACTACTAAATTATAATTGA
1 TTTACTATTAAGTTATTATTGA
* *
9273939 TATACTATTAAGTTACATCT-TTAA
1 TTTACTATTAAGTT--AT-TATTGA
* * *
9273963 TTCACTATACTAAATTATTATTAA
1 TTTACTAT--TAAGTTATTATTGA
* * *
9273987 TTAACTATTAATTTACTGA-TGA
1 TTTACTATTAAGTTA-TTATTGA
9274009 -TTACTATTAAGTTA-TATTGA
1 TTTACTATTAAGTTATTATTGA
* *
9274029 TTTA-TTTTAATTTTTAATTATT-A
1 TTTACTATTAA--GTT-ATTATTGA
* * *
9274052 ATTACTATTTAGTTATAAATT-A
1 TTTACTATTAAGTTAT-TATTGA
*
9274074 TTTACTATTAAATTATTATTGA
1 TTTACTATTAAGTTATTATTGA
* * *
9274096 TTTATTACTAAGCTATT-TATGA
1 TTTACTATTAAGTTATTAT-TGA
9274118 TTTA
1 TTTA
9274122 TTACTAAATT
Statistics
Matches: 430, Mismatches: 122, Indels: 92
0.67 0.19 0.14
Matches are distributed among these distances:
19 14 0.03
20 11 0.03
21 55 0.13
22 272 0.63
23 40 0.09
24 33 0.08
26 5 0.01
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTACTATTAAGTTATTATTGA
Found at i:9274450 original size:22 final size:22
Alignment explanation
Indices: 9274422--9274863 Score: 159
Period size: 22 Copynumber: 20.5 Consensus size: 22
9274412 ACTGAATCTT
9274422 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
*
9274444 ATGTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
* * *
9274466 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCATTA
* *
9274488 ATTAACTATTAAATTATCACTT-
1 ATTTACTATTAAGTTATCA-TTA
** *
9274510 ATTTTTTATTAAGTTATCCTTA
1 ATTTACTATTAAGTTATCATTA
* * *
9274532 ATTTACTAATATGTGT-T-ATAA
1 ATTTACTATTAAGT-TATCATTA
* * * * *
9274553 ATTTACAATTATG-TATAAATG
1 ATTTACTATTAAGTTATCATTA
* * *
9274574 ATTTACTGTTAAGTTAT-TTGTT
1 ATTTACTATTAAGTTATCAT-TA
* ** * *
9274596 ATTTCCTGCTATGTTATTATGT-
1 ATTTACTATTAAGTTATCAT-TA
* * *
9274618 ATTTATTATTATGCTATCA-T-
1 ATTTACTATTAAGTTATCATTA
*
9274638 A--CACTATT---TTATCAATT-
1 ATTTACTATTAAGTTATC-ATTA
* * * * *
9274655 ATTTATTATTAAATCATTATTT
1 ATTTACTATTAAGTTATCATTA
*
9274677 ATTTACTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
* *
9274699 TTTTACTATTAAGCTATTCA-TA
1 ATTTACTATTAAGTTA-TCATTA
9274721 ATTTACTA-TACAGTTATCATTA
1 ATTTACTATTA-AGTTATCATTA
* * * * *
9274743 ATTTAGTATAAAATTATTATTT
1 ATTTACTATTAAGTTATCATTA
** * *
9274765 ATTTTGT-TTAAATTATCACTA
1 ATTTACTATTAAGTTATCATTA
* * *
9274786 ATTTA-TAATAAAATTATCAATA
1 ATTTACT-ATTAAGTTATCATTA
* *
9274808 ATTTACTACTATA-TTATTA-TA
1 ATTTACTATTA-AGTTATCATTA
* * *
9274829 TATTTACTACTAAGTTATAATTG
1 -ATTTACTATTAAGTTATCATTA
*
9274852 ATTTACCATTAA
1 ATTTACTATTAA
9274864 ATCTTCTATA
Statistics
Matches: 315, Mismatches: 78, Indels: 54
0.70 0.17 0.12
Matches are distributed among these distances:
15 4 0.01
16 1 0.00
17 2 0.01
18 5 0.02
19 6 0.02
20 4 0.01
21 51 0.16
22 231 0.73
23 11 0.03
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:9274465 original size:11 final size:11
Alignment explanation
Indices: 9274429--9274506 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
9274419 CTTATTTACT
9274429 ATTAAGTTATC
1 ATTAAGTTATC
9274440 ATTAA-TGTA-C
1 ATTAAGT-TATC
9274450 TATTAAGTTATC
1 -ATTAAGTTATC
* *
9274462 ATTAATTTATT
1 ATTAAGTTATC
*
9274473 ACTAAGTTATC
1 ATTAAGTTATC
* *
9274484 AATAA-TTAAC
1 ATTAAGTTATC
*
9274494 TATTAAATTATC
1 -ATTAAGTTATC
9274506 A
1 A
9274507 CTTATTTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
10 6 0.12
11 40 0.77
12 6 0.12
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (11 bp):
ATTAAGTTATC
Found at i:9276168 original size:35 final size:37
Alignment explanation
Indices: 9276125--9276203 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 37
9276115 TACCCTTTCA
**
9276125 GAGT-ATATT-AAAAAAGGCTAATTG-AAAAATAAGT
1 GAGTGATATTAAAAAAAAACTAATTGAAAAAATAAGT
9276159 GAGTGATATTAAAAAAAAAACTAATTGAAAAAATAAGT
1 GAGTGATATT-AAAAAAAAACTAATTGAAAAAATAAGT
9276197 GAGTGAT
1 GAGTGAT
9276204 GTGTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 4 0.10
35 5 0.13
37 13 0.33
38 17 0.44
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.25
Consensus pattern (37 bp):
GAGTGATATTAAAAAAAAACTAATTGAAAAAATAAGT
Found at i:9277107 original size:17 final size:17
Alignment explanation
Indices: 9277087--9277135 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
9277077 TTTAATATAG
9277087 TTTAATTTGATATAAAT
1 TTTAATTTGATATAAAT
*
9277104 TTT-ATTTG-TA-AATT
1 TTTAATTTGATATAAAT
*
9277118 TTTAA-TTGATTTAAAT
1 TTTAATTTGATATAAAT
9277134 TT
1 TT
9277136 AAATAACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 10 0.38
17 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTAATTTGATATAAAT
Found at i:9277389 original size:150 final size:153
Alignment explanation
Indices: 9277131--9277421 Score: 383
Period size: 150 Copynumber: 1.9 Consensus size: 153
9277121 AATTGATTTA
* *
9277131 AATTTAAATAACTAACGAATAAAAAGTTATATATTTAATAATAAATAATCTTTATTAAATAAATA
1 AATTTAAATAACTAACGAATAAAAAGCTATATATTTAATAATAAATAATCTTTAATAAATAAATA
* * * * *
9277196 AATAAATGCTAGAGATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGGTATTTATGCTA
66 AATAAATGCTAGAAATTTAAAGGTAAATTTATTATTTCTTAAAATTCAAAAAGGTATTTATGCTA
9277261 TTAACTTTTAACACTTTTGAATT
131 TTAACTTTTAACACTTTTGAATT
* * * * * *
9277284 AATTTAAATAATTAACTAA-GAAATGCTATATATTTAATGGA-AAATAATCTTTAATACATAAAT
1 AATTTAAATAACTAACGAATAAAAAGCTATATATTTAAT-AATAAATAATCTTTAATAAATAAAT
* * *
9277347 AAA-AAATGTTA-AAATTTAAAGGTAAATTTATTATTTCTTAAAATTTAAAAAGGTATTTATGTT
65 AAATAAATGCTAGAAATTTAAAGGTAAATTTATTATTTCTTAAAATTCAAAAAGGTATTTATGCT
* *
9277410 ATTTATTTTTAA
130 ATTAACTTTTAA
9277422 TAATTTTAGA
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
150 55 0.46
151 7 0.06
152 39 0.33
153 18 0.15
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (153 bp):
AATTTAAATAACTAACGAATAAAAAGCTATATATTTAATAATAAATAATCTTTAATAAATAAATA
AATAAATGCTAGAAATTTAAAGGTAAATTTATTATTTCTTAAAATTCAAAAAGGTATTTATGCTA
TTAACTTTTAACACTTTTGAATT
Found at i:9292068 original size:31 final size:31
Alignment explanation
Indices: 9292013--9292075 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
9292003 TTTCATATTT
9292013 TAAAAGTTATTATTAAATTATTTAAGTTTTA
1 TAAAAGTTATTATTAAATTATTTAAGTTTTA
* * *
9292044 TAAAATTTAATTATTATATT-TTTAATTTTTA
1 TAAAAGTT-ATTATTAAATTATTTAAGTTTTA
9292075 T
1 T
9292076 TATCTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (31 bp):
TAAAAGTTATTATTAAATTATTTAAGTTTTA
Found at i:9292622 original size:17 final size:18
Alignment explanation
Indices: 9292600--9292640 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9292590 GATTTAATTT
*
9292600 TTTAAATATT-ATGATAA
1 TTTAAATATTGATGAGAA
*
9292617 TTTAAA-ATTGATTAGAA
1 TTTAAATATTGATGAGAA
9292634 TTTAAAT
1 TTTAAAT
9292641 CAAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (18 bp):
TTTAAATATTGATGAGAA
Found at i:9292795 original size:17 final size:16
Alignment explanation
Indices: 9292775--9292808 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9292765 TATTTTACTA
9292775 AAATTTAAAATAAATAT
1 AAATTTAAAA-AAATAT
*
9292792 AAATTTATAAAAATAT
1 AAATTTAAAAAAATAT
9292808 A
1 A
9292809 TCACTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTTAAAAAAATAT
Found at i:9293678 original size:13 final size:13
Alignment explanation
Indices: 9293660--9293684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9293650 AAAATAAATT
9293660 TTAAATTTATTTA
1 TTAAATTTATTTA
9293673 TTAAATTTATTT
1 TTAAATTTATTT
9293685 TATATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAAATTTATTTA
Found at i:9293922 original size:21 final size:21
Alignment explanation
Indices: 9293875--9293917 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
9293865 AAGTTAAAAA
9293875 TAAA-TTTATTTAACAAATTT
1 TAAATTTTATTTAACAAATTT
9293895 TAAATTTTATTT-A-AAATTT
1 TAAATTTTATTTAACAAATTT
9293914 TAAA
1 TAAA
9293918 AATTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 5 0.23
21 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATTTTATTTAACAAATTT
Found at i:9294802 original size:18 final size:18
Alignment explanation
Indices: 9294779--9294813 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9294769 ATTGAATTAA
* *
9294779 ATTTATGATAACATAATT
1 ATTTATAATAAAATAATT
9294797 ATTTATAATAAAATAAT
1 ATTTATAATAAAATAAT
9294814 AAAATATTTA
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:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTTATAATAAAATAATT
Found at i:9297782 original size:17 final size:17
Alignment explanation
Indices: 9297760--9297794 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9297750 CCAGAAGGTC
9297760 TCCTTTTTTGC-TTCTCT
1 TCCTTTTTT-CTTTCTCT
9297777 TCCTTTTTTCTTTCTCT
1 TCCTTTTTTCTTTCTCT
9297794 T
1 T
9297795 TCGTGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.69
Consensus pattern (17 bp):
TCCTTTTTTCTTTCTCT
Found at i:9303145 original size:161 final size:157
Alignment explanation
Indices: 9302956--9303277 Score: 565
Period size: 161 Copynumber: 2.0 Consensus size: 157
9302946 TTATATATAC
9302956 AAAGTTGGTTTATCCATACCAAAGGCAAAAAGAATCAAGAACATAACTGTGAAAAAATAAAGACT
1 AAAGTTGGTTTATCCATACCAAAGGCAAAAAGAATCAAGAACATAACTGTGAAAAAATAAAGACT
9303021 GTAAAAACAAAACCC-ATCTCGGAGGCAGGTCATCATCTGAAAGCAATCCATGTGAAAAAAGGTA
66 GTAAAAACAAAACCCAATCTCGGAGGCAGGTCATCATCT----G-AATCCATGTGAAAAAAGGTA
9303085 ACATGTGAAACGAGTGCTGCTTGAGAATTCAA
126 ACATGTGAAACGAGTGCTGCTTGAGAATTCAA
*
9303117 AAAGTTGGTTTATCCCTACCAAAGGCAAAAAGAATCAAGAACATAACTGTGAAAAAATAAAGACT
1 AAAGTTGGTTTATCCATACCAAAGGCAAAAAGAATCAAGAACATAACTGTGAAAAAATAAAGACT
9303182 GTAAAAACAAAACCCATGATCTCGGAGGCAGGTCATCATCTGAATCCATGTGAAAAAAGGTAACA
66 GTAAAAACAAAACCCA--ATCTCGGAGGCAGGTCATCATCTGAATCCATGTGAAAAAAGGTAACA
9303247 TGTGAAACGAGTGCTGCTTGAGAATTCAA
129 TGTGAAACGAGTGCTGCTTGAGAATTCAA
9303276 AA
1 AA
9303278 TATACGAACC
Statistics
Matches: 157, Mismatches: 1, Indels: 8
0.95 0.01 0.05
Matches are distributed among these distances:
159 54 0.34
160 1 0.01
161 79 0.50
164 23 0.15
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (157 bp):
AAAGTTGGTTTATCCATACCAAAGGCAAAAAGAATCAAGAACATAACTGTGAAAAAATAAAGACT
GTAAAAACAAAACCCAATCTCGGAGGCAGGTCATCATCTGAATCCATGTGAAAAAAGGTAACATG
TGAAACGAGTGCTGCTTGAGAATTCAA
Found at i:9303946 original size:2 final size:2
Alignment explanation
Indices: 9303939--9303971 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9303929 TGTAATAAGT
9303939 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9303972 TTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9308109 original size:87 final size:87
Alignment explanation
Indices: 9307963--9308136 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
9307953 GTTTCAGCTG
9307963 TCCTTGGTGCTTCTATTCAAGTTGCAAGTAAGGTGCATTTGAAGGTTTTAGGCTATAGTCCACGA
1 TCCTTGGTGCTTCTATTCAAGTTGCAAGTAAGGTGCATTTGAAGGTTTTAGGCTATAGTCCACGA
9308028 GACTGAATATTTAATGTACATC
66 GACTGAATATTTAATGTACATC
9308050 TCCTTGGTGCTTCTATTCAAGTTGCAAGTAAGGTGCATTTGAAGGTTTTAGGCTATAGTCCACGA
1 TCCTTGGTGCTTCTATTCAAGTTGCAAGTAAGGTGCATTTGAAGGTTTTAGGCTATAGTCCACGA
*
9308115 GACTGAATGTTTAATGTACATC
66 GACTGAATATTTAATGTACATC
9308137 ATGTGTGTAT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (87 bp):
TCCTTGGTGCTTCTATTCAAGTTGCAAGTAAGGTGCATTTGAAGGTTTTAGGCTATAGTCCACGA
GACTGAATATTTAATGTACATC
Found at i:9318805 original size:27 final size:27
Alignment explanation
Indices: 9318773--9318830 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
9318763 TCGCTTACTG
9318773 CTTCTGGGTTTGTCTTCAAATCTAGAT
1 CTTCTGGGTTTGTCTTCAAATCTAGAT
9318800 CTTCTGGGTTTGTCTTCAAATCTAGAT
1 CTTCTGGGTTTGTCTTCAAATCTAGAT
9318827 CTTC
1 CTTC
9318831 AGGGATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (27 bp):
CTTCTGGGTTTGTCTTCAAATCTAGAT
Found at i:9325052 original size:2 final size:2
Alignment explanation
Indices: 9325047--9325076 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9325037 TCTCTCTCTC
9325047 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9325077 CACTTTAGTT
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):
TA
Found at i:9325988 original size:26 final size:25
Alignment explanation
Indices: 9325940--9326002 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
9325930 CTATGGATGG
* *
9325940 TATTTTTTTTTTAATTTTCTCTTAGA
1 TATTTTTTTTTT-ATTGTCTCTTAAA
*
9325966 T-TGTTTTTTTTTTTTGTCATCTTAAA
1 TAT-TTTTTTTTTATTGTC-TCTTAAA
9325992 TATTTTTTTTT
1 TATTTTTTTTT
9326003 GACAGTGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 5 0.16
26 25 0.81
27 1 0.03
ACGTcount: A:0.16, C:0.06, G:0.05, T:0.73
Consensus pattern (25 bp):
TATTTTTTTTTTATTGTCTCTTAAA
Found at i:9345654 original size:3 final size:3
Alignment explanation
Indices: 9345639--9345671 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
9345629 TCTCAGATGA
*
9345639 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9345672 TTGCATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9350040 original size:7 final size:7
Alignment explanation
Indices: 9350028--9350063 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
9350018 CTTAACTTTC
9350028 CTTCCTT
1 CTTCCTT
9350035 CTTCCTT
1 CTTCCTT
9350042 CTTCCTT
1 CTTCCTT
9350049 -TTCCTT
1 CTTCCTT
9350055 CTTCCTT
1 CTTCCTT
9350062 CT
1 CT
9350064 CCAAACCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCCTT
Found at i:9350054 original size:13 final size:14
Alignment explanation
Indices: 9350028--9350063 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
9350018 CTTAACTTTC
9350028 CTTCCTTCTTCCTT
1 CTTCCTTCTTCCTT
9350042 CTTCCTT-TTCCTT
1 CTTCCTTCTTCCTT
9350055 CTTCCTTCT
1 CTTCCTTCT
9350064 CCAAACCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (14 bp):
CTTCCTTCTTCCTT
Found at i:9352861 original size:19 final size:18
Alignment explanation
Indices: 9352820--9352860 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9352810 TTTGATAATC
*
9352820 TAAAACATGATACTATTA
1 TAAAACATGACACTATTA
9352838 TAAAACATGAACACTA-TA
1 TAAAACATG-ACACTATTA
9352856 TAAAA
1 TAAAA
9352861 AATAATAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (18 bp):
TAAAACATGACACTATTA
Found at i:9358774 original size:34 final size:34
Alignment explanation
Indices: 9358727--9358799 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
9358717 CTCTCGCTTT
* *
9358727 CAAT-CAATGTACAAGGCAACTTCACTTGATTAA
1 CAATGCAATCTACAAGGCAACTTCACTTAATTAA
*
9358760 CTATGCAATCTACAAGGCAACTTCACTTAATTAA
1 CAATGCAATCTACAAGGCAACTTCACTTAATTAA
9358794 CAATGC
1 CAATGC
9358800 CTAGATGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.27
Consensus pattern (34 bp):
CAATGCAATCTACAAGGCAACTTCACTTAATTAA
Found at i:9370776 original size:28 final size:27
Alignment explanation
Indices: 9370724--9370778 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
9370714 TTTTATGTGT
*
9370724 TTAATTGATTATTTAATTATATTTTTA
1 TTAATTGATTATTTAATAATATTTTTA
9370751 TTAATTTGATTAATTTAA-AAT-TTTTTA
1 TTAA-TTGATT-ATTTAATAATATTTTTA
9370778 T
1 T
9370779 CTGATAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 11 0.44
28 8 0.32
29 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TTAATTGATTATTTAATAATATTTTTA
Found at i:9384408 original size:5 final size:5
Alignment explanation
Indices: 9384398--9384423 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9384388 AGAGCAGCAA
9384398 TCATT TCATT TCATT TCATT TCATT T
1 TCATT TCATT TCATT TCATT TCATT T
9384424 ATTGAAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (5 bp):
TCATT
Found at i:9389767 original size:2 final size:2
Alignment explanation
Indices: 9389760--9389785 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9389750 ATTACCTCTC
9389760 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
9389786 GAACACCTGA
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):
AT
Found at i:9392492 original size:18 final size:18
Alignment explanation
Indices: 9392469--9392504 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9392459 TCTTTGTTTG
*
9392469 GAAATGAATGAAGTAATA
1 GAAATGAATGAAGAAATA
*
9392487 GAAATGCATGAAGAAATA
1 GAAATGAATGAAGAAATA
9392505 TCTTTTGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.22, T:0.19
Consensus pattern (18 bp):
GAAATGAATGAAGAAATA
Found at i:9408534 original size:13 final size:11
Alignment explanation
Indices: 9408508--9408551 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 11
9408498 ATCACGAGCT
9408508 ATTTAAATTCG
1 ATTTAAATTCG
9408519 ATTTAAATAATCG
1 ATTTAAAT--TCG
*
9408532 ATTTAAATTTG
1 ATTTAAATTCG
9408543 AATTTAAAT
1 -ATTTAAAT
9408552 AATTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 10 0.34
12 8 0.28
13 11 0.38
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (11 bp):
ATTTAAATTCG
Found at i:9408540 original size:24 final size:25
Alignment explanation
Indices: 9408508--9408554 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9408498 ATCACGAGCT
9408508 ATTTAAATTCG-ATTTAAATAATCG
1 ATTTAAATTCGAATTTAAATAATCG
*
9408532 ATTTAAATTTGAATTTAAATAAT
1 ATTTAAATTCGAATTTAAATAAT
9408555 TTAATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (25 bp):
ATTTAAATTCGAATTTAAATAATCG
Found at i:9410152 original size:2 final size:2
Alignment explanation
Indices: 9410145--9410172 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9410135 TGGCGGTTAA
9410145 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
9410173 TTTACCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9413509 original size:34 final size:35
Alignment explanation
Indices: 9413471--9413547 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
9413461 CAATTTTTTT
* **
9413471 TTTTTTTTCCTTGAATTTTTGTTTTTGT-TTTTGG
1 TTTTTTTTCCTTGAATTTTTGGTTTTGTATTTTCC
** *
9413505 TTTTTTTTTTTTTAATTTTTGGTTTTGTATTTTCC
1 TTTTTTTTCCTTGAATTTTTGGTTTTGTATTTTCC
9413540 TTTTTTTT
1 TTTTTTTT
9413548 GTGTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 24 0.67
35 12 0.33
ACGTcount: A:0.06, C:0.05, G:0.10, T:0.78
Consensus pattern (35 bp):
TTTTTTTTCCTTGAATTTTTGGTTTTGTATTTTCC
Found at i:9413882 original size:106 final size:105
Alignment explanation
Indices: 9413653--9413897 Score: 296
Period size: 105 Copynumber: 2.3 Consensus size: 105
9413643 CTTACAAGTC
* * * * * *
9413653 TTAAAATTTTTGCATGCTCCTTATATATTAGAGTCGTTAAAATTTTAAAAATTTAAAATACTTTT
1 TTAAAATTTTTGAATGTTCCTCATACATTAGAGGCATTAAAATTTTAAAAATTTAAAATACTTTT
* * * * *
9413718 TTCGAAGGTCTTAAGGATTGTGCCCAGAGTTTTAAAGATT
66 TTCGAAGGTCTTAAAGATTATGCCCAAAATCTTAAAGATT
* *
9413758 TTAAAATTTTTGAATGTTCCTCGTACATTAGAGGCATTGAAATTTTAAAAATTTAAAATA-TTTT
1 TTAAAATTTTTGAATGTTCCTCATACATTAGAGGCATTAAAATTTTAAAAATTTAAAATACTTTT
* * *
9413822 GTTC-AGAGGTTTTAAAGATTATGTTCGAAAATCTTAAAGATT
66 -TTCGA-AGGTCTTAAAGATTATG-CCCAAAATCTTAAAGATT
*
9413864 TTAAAATTTTTGAATGTTCTTCATACATTAGAGG
1 TTAAAATTTTTGAATGTTCCTCATACATTAGAGG
9413898 TTTTGAGGCT
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
104 5 0.04
105 69 0.58
106 45 0.38
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (105 bp):
TTAAAATTTTTGAATGTTCCTCATACATTAGAGGCATTAAAATTTTAAAAATTTAAAATACTTTT
TTCGAAGGTCTTAAAGATTATGCCCAAAATCTTAAAGATT
Found at i:9413979 original size:114 final size:107
Alignment explanation
Indices: 9413653--9414179 Score: 369
Period size: 106 Copynumber: 4.9 Consensus size: 107
9413643 CTTACAAGTC
* * * * * **
9413653 TTAAAATTTTTGCATGCTCCTT-ATATATTAGAGTCGTTAAAATTTTAAAAATTTAAAATACTTT
1 TTAAAATATTTGAATGCTTCTTCATACATTAGAGACGTTAAAACATTAAAAATTTAAAAT-CTTT
** * ** **
9413717 TTTC-GAAGGTCTTAAGGATTGTGC--CCAGAGTTTTAAAGATT
65 TACCTGAAAGTCTTAAAAATTGTGCTTGAAG-GTTTTAAAGATT
* * * * * * ** *
9413758 TTAAAATTTTTGAATG-TTCCTCGTACATTAGAGGCATTGAAATTTTAAAAATTTAAAATATTTT
1 TTAAAATATTTGAATGCTTCTTCATACATTAGAGACGTTAAAACATTAAAAATTTAAAATCTTTT
** * * * * * ** *
9413822 -GTTCAGAGGTTTTAAAGATTATG-TTCGAAAATCTTAAAGATT
66 ACCTGA-AAGTCTTAAAAATTGTGCTT-GAAGGTTTTAAAGATT
* * * * *
9413864 TTAAAATTTTTGAATG-TTCTTCATACATTAGAGGTTTTGAGGCTTTGAAACATTGAAACTTTAA
1 TTAAAATATTTGAATGCTTCTTCATACATTAGA------GA--CGTTAAAACATTAAAAATTTAA
* *
9413928 AATGTTTTACTCT-AAAGTCTTAAAGATTGTGCTTGAAGGTTTT-AAGAATT
58 AATCTTTTAC-CTGAAAGTCTTAAAAATTGTGCTTGAAGGTTTTAAAG-ATT
* * *
9413978 TTAAAATCTGTGAATGCTT-TTCATACATTAGAGACGTTAAAACTTTAAAAATTTAAAATCTTTT
1 TTAAAATATTTGAATGCTTCTTCATACATTAGAGACGTTAAAACATTAAAAATTTAAAATCTTTT
9414042 ACCTGAAAGTCTTAAAAATTGTGCTTGAAGGTTTTAAAGATT
66 ACCTGAAAGTCTTAAAAATTGTGCTTGAAGGTTTTAAAGATT
* * * * *
9414084 TCAAAATATTTGAATGCTTCTT-ATACATTAGATG-CATGAAAACTTTAAAAATTTAAAATATTT
1 TTAAAATATTTGAATGCTTCTTCATACATTAGA-GACGTTAAAACATTAAAAATTTAAAATCTTT
* * *
9414147 TACCCGAAAATCTTAAAAATTGTGCTCGAAGGT
65 TACCTGAAAGTCTTAAAAATTGTGCTTGAAGGT
9414180 CTTAGAGTTT
Statistics
Matches: 344, Mismatches: 55, Indels: 45
0.77 0.12 0.10
Matches are distributed among these distances:
104 8 0.02
105 63 0.18
106 180 0.52
107 7 0.02
108 2 0.01
112 1 0.00
113 3 0.01
114 74 0.22
115 5 0.01
116 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (107 bp):
TTAAAATATTTGAATGCTTCTTCATACATTAGAGACGTTAAAACATTAAAAATTTAAAATCTTTT
ACCTGAAAGTCTTAAAAATTGTGCTTGAAGGTTTTAAAGATT
Found at i:9414078 original size:53 final size:53
Alignment explanation
Indices: 9414021--9414179 Score: 135
Period size: 53 Copynumber: 3.0 Consensus size: 53
9414011 ACGTTAAAAC
* *
9414021 TTTAAAAATTTAAAATCTTTTACCTGAAAGTCTTAAAAATTGTGCTTGAAGGT
1 TTTAAAAATTTAAAATATTTTACCTGAAAATCTTAAAAATTGTGCTTGAAGGT
* * * ** * * * ***
9414074 TTTAAAGATTTCAAAATATTTGA-ATG--CTTCTTATACATTAGATGCATGAAAAC
1 TTTAAAAATTT-AAAATATTTTACCTGAAAATCTTAAAAATT-G-TGCTTGAAGGT
* *
9414127 TTTAAAAATTTAAAATATTTTACCCGAAAATCTTAAAAATTGTGCTCGAAGGT
1 TTTAAAAATTTAAAATATTTTACCTGAAAATCTTAAAAATTGTGCTTGAAGGT
9414180 CTTAGAGTTT
Statistics
Matches: 75, Mismatches: 25, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
51 9 0.12
52 11 0.15
53 36 0.48
54 10 0.13
55 9 0.12
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.38
Consensus pattern (53 bp):
TTTAAAAATTTAAAATATTTTACCTGAAAATCTTAAAAATTGTGCTTGAAGGT
Found at i:9414213 original size:22 final size:21
Alignment explanation
Indices: 9414150--9414213 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
9414140 AATATTTTAC
* * *
9414150 CCGAAAATCTTAAAAATTGTG
1 CCGAAAGTCTTAAAGATTTTG
* * *
9414171 CTCGAAGGTCTTAGAGTTTTTG
1 C-CGAAAGTCTTAAAGATTTTG
9414193 TCCGAAAGTCTTAAAGATTTT
1 -CCGAAAGTCTTAAAGATTTT
9414214 AAAATCTTTG
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (21 bp):
CCGAAAGTCTTAAAGATTTTG
Found at i:9416087 original size:16 final size:16
Alignment explanation
Indices: 9416062--9416100 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
9416052 TTATTTTTTA
9416062 AATAAAAATAAAAATT
1 AATAAAAATAAAAATT
*
9416078 AATAATAATAAAAATT
1 AATAAAAATAAAAATT
9416094 AATAAAA
1 AATAAAA
9416101 TTTTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAAAATAAAAATT
Found at i:9417003 original size:18 final size:18
Alignment explanation
Indices: 9416977--9417011 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9416967 AAATGATGCT
9416977 AATGAAAATGTCAATGTG
1 AATGAAAATGTCAATGTG
*
9416995 AATGCAAATGTCAATGT
1 AATGAAAATGTCAATGT
9417012 AAATATAAGA
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:0.43, C:0.09, G:0.20, T:0.29
Consensus pattern (18 bp):
AATGAAAATGTCAATGTG
Found at i:9417394 original size:85 final size:85
Alignment explanation
Indices: 9417185--9417648 Score: 373
Period size: 85 Copynumber: 5.3 Consensus size: 85
9417175 CAAATACCAG
* * * *
9417185 TGCAAATGCAAGTGATACAAATGC-AA-AT-GTTTTTCTTATGATGCAGATGCAAGAGATGCAAA
1 TGCAAATGCAAGTGATGCAAATGCAAATATATTTTTTCTTGTGATGCAGATGCAAGTGATGCAAA
* *
9417247 TGCAAA-ATTTTTTTCTTGA
66 TGCAAATATCTTTTTCATGA
* * * * * * *
9417266 TGCAAATGCAAGTTATGTAAATGTAAATGTTTTTTTTTCTTGTGATGCAGGTGCTAGTGATGCAA
1 TGCAAATGCAAGTGATGCAAATGCAAAT-ATATTTTTTCTTGTGATGCAGATGCAAGTGATGCAA
* *
9417331 ATACGAATATCTTTTTCATGA
65 ATGCAAATATCTTTTTCATGA
* * * ** *
9417352 TACAAATGCAAGTGATGCAAATACAAATATATATTTTT-TTGTGATACAGATGCAAGCAACGCAA
1 TGCAAATGCAAGTGATGCAAATGCAAATATAT-TTTTTCTTGTGATGCAGATGCAAGTGATGCAA
* * *
9417416 ATACAAATGTCTTTTTCATAA
65 ATGCAAATATCTTTTTCATGA
* * * *
9417437 TGCATATGTAAGTACGAATGCGAATGATACAAATATGAATGTCTTTTTCTTGTGATGCAAATGCA
1 TGCAAATGCAAGT--G-ATGC-AA--ATGCAAATAT--A--T-TTTTTCTTGTGATGCAGATGCA
* * * *
9417502 AGTTATGTAAATGTAAATATCTTTTTTATGA
55 AGTGATGCAAATGCAAATATCTTTTTCATGA
* * * *
9417533 TGCAAATGCAAGAT-ATACAAATGTAAATGTCTTTTTTCTTGTGATGCAGATGCAAGTGATGCAA
1 TGCAAATGCAAG-TGATGCAAATGCAAATATATTTTTTCTTGTGATGCAGATGCAAGTGATGCAA
* *
9417597 ATGCAAATATTTTTTTCTTGTGA
65 ATGCAAATATCTTTTTC--ATGA
* *
9417620 TGCAGATGCAAGCGATGCAAAATGCAAAT
1 TGCAAATGCAAGTGATGC-AAATGCAAAT
9417649 TTCTTTTTCA
Statistics
Matches: 298, Mismatches: 63, Indels: 37
0.75 0.16 0.09
Matches are distributed among these distances:
81 20 0.07
82 2 0.01
84 1 0.00
85 126 0.42
86 40 0.13
87 18 0.06
88 13 0.04
89 2 0.01
90 7 0.02
91 10 0.03
92 2 0.01
93 4 0.01
95 6 0.02
96 46 0.15
97 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (85 bp):
TGCAAATGCAAGTGATGCAAATGCAAATATATTTTTTCTTGTGATGCAGATGCAAGTGATGCAAA
TGCAAATATCTTTTTCATGA
Found at i:9417593 original size:15 final size:15
Alignment explanation
Indices: 9417573--9417602 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9417563 CTTTTTTCTT
*
9417573 GTGATGCAGATGCAA
1 GTGATGCAAATGCAA
9417588 GTGATGCAAATGCAA
1 GTGATGCAAATGCAA
9417603 ATATTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (15 bp):
GTGATGCAAATGCAA
Found at i:9417637 original size:43 final size:43
Alignment explanation
Indices: 9417185--9417657 Score: 290
Period size: 41 Copynumber: 10.9 Consensus size: 43
9417175 CAAATACCAG
* * *
9417185 TGCAAATGCAAGTGATACAAATGC-AA-ATGTTTTTCTTATGA
1 TGCAAATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
* *
9417226 TGCAGATGCAAGAGATGCAAATGCAAA-ATTTTTTTC-T-TGA
1 TGCAAATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
* * * *
9417266 TGCAAATGCAAGTTATGTAAATGTAAATGTTTTTTTTTCTTGTGA
1 TGCAAATGCAAGTGATGCAAATGCAAA--TATTTTTTTCTTGTGA
** * * * * *
9417311 TGCAGGTGCTAGTGATGCAAATACGAATATCTTTTTC--ATGA
1 TGCAAATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
* *
9417352 TACAAATGCAAGTGATGCAAATACAAATATATATTTTT-TTGTGA
1 TGCAAATGCAAGTGATGCAAATGCAAATAT-T-TTTTTCTTGTGA
* * ** * * * * * *
9417396 TACAGATGCAAGCAACGCAAATACAAATGTCTTTTTC--ATAA
1 TGCAAATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
* * *
9417437 TGCATATGTAAGTACGAATGCGAATGATACAAATATGAATGTCTTTTTCTTGTGA
1 TGCAAATGCAAGT--G-ATGC-AA--ATGC-AA-AT--AT-T-TTTTTCTTGTGA
* * * * *
9417492 TGCAAATGCAAGTTATGTAAATGTAAATA-TCTTTT-TTATGA
1 TGCAAATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
* * *
9417533 TGCAAATGCAAGAT-ATACAAATGTAAATGTCTTTTTTCTTGTGA
1 TGCAAATGCAAG-TGATGCAAATGCAAATAT-TTTTTTCTTGTGA
*
9417577 TGCAGATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
1 TGCAAATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
* *
9417620 TGCAGATGCAAGCGATGCAAAATGCAAAT-TTCTTTTTC
1 TGCAAATGCAAGTGATGC-AAATGCAAATATT-TTTTTC
9417658 AAAATGCAAA
Statistics
Matches: 336, Mismatches: 64, Indels: 61
0.73 0.14 0.13
Matches are distributed among these distances:
40 25 0.07
41 90 0.27
42 20 0.06
43 60 0.18
44 77 0.23
45 25 0.07
47 6 0.02
48 4 0.01
49 4 0.01
51 3 0.01
52 3 0.01
53 6 0.02
55 13 0.04
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (43 bp):
TGCAAATGCAAGTGATGCAAATGCAAATATTTTTTTCTTGTGA
Found at i:9417662 original size:20 final size:20
Alignment explanation
Indices: 9417637--9417674 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9417627 GCAAGCGATG
*
9417637 CAAAATGCAAATTTCTTTTT
1 CAAAATGCAAACTTCTTTTT
9417657 CAAAATGCAAACTTCTTT
1 CAAAATGCAAACTTCTTT
9417675 CTTATGGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (20 bp):
CAAAATGCAAACTTCTTTTT
Found at i:9417860 original size:13 final size:13
Alignment explanation
Indices: 9417842--9417875 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9417832 GAATTTAAAG
9417842 ATTTTTTTATTTC
1 ATTTTTTTATTTC
*
9417855 A-TTTTTTGTTTC
1 ATTTTTTTATTTC
9417867 ATTTTTTTA
1 ATTTTTTTA
9417876 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (13 bp):
ATTTTTTTATTTC
Found at i:9419205 original size:18 final size:18
Alignment explanation
Indices: 9419182--9419230 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
9419172 GTCTTTATTT
9419182 TTTTTGCTCTTTTTTT-TC
1 TTTTTG-TCTTTTTTTATC
*
9419200 TTTTTGTTTTTTTTTATC
1 TTTTTGTCTTTTTTTATC
*
9419218 TTTTTATCTTTTT
1 TTTTTGTCTTTTT
9419231 GTTTTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTGTCTTTTTTTATC
Found at i:9419221 original size:26 final size:27
Alignment explanation
Indices: 9419192--9419243 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
9419182 TTTTTGCTCT
*
9419192 TTTTTTTCTTTTTGTTTT-TTTTTATC
1 TTTTTATCTTTTTGTTTTGTTTTTATC
9419218 TTTTTATCTTTTTGTTTTGTTTTTAT
1 TTTTTATCTTTTTGTTTTGTTTTTAT
9419244 GAAAACCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (27 bp):
TTTTTATCTTTTTGTTTTGTTTTTATC
Found at i:9425281 original size:3 final size:3
Alignment explanation
Indices: 9425273--9425311 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9425263 CTTCTTTAAA
9425273 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9425312 GACTTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9427576 original size:20 final size:19
Alignment explanation
Indices: 9427551--9427608 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 19
9427541 TTCTAGTTCC
9427551 TTTTTTATTTTGTAATTTA
1 TTTTTTATTTTGTAATTTA
9427570 TTCTTTTATTTTGTAA-TTA
1 TT-TTTTATTTTGTAATTTA
*
9427589 ATTTTTATTTT-T-ATTTA
1 TTTTTTATTTTGTAATTTA
9427606 TTT
1 TTT
9427609 ATAATTTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 9 0.26
19 6 0.17
20 13 0.37
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTTATTTTGTAATTTA
Found at i:9438121 original size:56 final size:56
Alignment explanation
Indices: 9438060--9438168 Score: 193
Period size: 56 Copynumber: 1.9 Consensus size: 56
9438050 TTTTTTCTTG
9438060 CTAATTAAGTTTAATTTTTTAGATCTCTTGCAG-TGGTGGTTTTGGACCCAATTTGT
1 CTAATTAAGTTTAATTTTTTAGATCTCTTGC-GTTGGTGGTTTTGGACCCAATTTGT
*
9438116 CTAATTAAGTTTAATTTTTTAGATCTCTTGCGTTGGTGGTTTTGGATCCAATT
1 CTAATTAAGTTTAATTTTTTAGATCTCTTGCGTTGGTGGTTTTGGACCCAATT
9438169 CGTATATGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
55 1 0.02
56 50 0.98
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (56 bp):
CTAATTAAGTTTAATTTTTTAGATCTCTTGCGTTGGTGGTTTTGGACCCAATTTGT
Found at i:9443969 original size:18 final size:18
Alignment explanation
Indices: 9443936--9443985 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
9443926 CATCCATAAA
9443936 AATAAATTAAATAATCAATT
1 AATAAATT--ATAATCAATT
* *
9443956 ATTATATTATAATCAATT
1 AATAAATTATAATCAATT
9443974 AATAAATTATAA
1 AATAAATTATAA
9443986 CTTAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 20 0.77
20 6 0.23
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAATTATAATCAATT
Found at i:9444063 original size:15 final size:15
Alignment explanation
Indices: 9444043--9444074 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9444033 AATCACTTCA
*
9444043 TACTAATTGCAATAT
1 TACTAATTACAATAT
9444058 TACTAATTACAATAT
1 TACTAATTACAATAT
9444073 TA
1 TA
9444075 TTATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (15 bp):
TACTAATTACAATAT
Found at i:9454461 original size:2 final size:2
Alignment explanation
Indices: 9454454--9454479 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9454444 AGTCAGACTA
9454454 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
9454480 ATATATATAT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Done.