Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 42 of 131
Found at i:8946730 original size:12 final size:12
Alignment explanation
Indices: 8946715--8946741 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8946705 CAAAAAAATA
8946715 AAAAAAATTTCC
1 AAAAAAATTTCC
8946727 AAAAAAATTTCC
1 AAAAAAATTTCC
8946739 AAA
1 AAA
8946742 TCATCTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAAAATTTCC
Found at i:8947138 original size:3 final size:3
Alignment explanation
Indices: 8947130--8947216 Score: 75
Period size: 3 Copynumber: 29.0 Consensus size: 3
8947120 AGAAAAGGAA
* * * * **
8947130 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT ATT ATT ATT AAT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * *
8947178 AAT AAT AAT TCT AAT AAT AAT AAG AAC GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8947217 TTATATAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:8952395 original size:25 final size:25
Alignment explanation
Indices: 8952360--8952421 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
8952350 AACTCAAAAT
** *
8952360 TAAAAAAAAAATCTCAAAATTTTAA
1 TAAAAAAAAAAAATCAAAATTCTAA
* *
8952385 TAAAAATAAAAAATCAAAATTCTAT
1 TAAAAAAAAAAAATCAAAATTCTAA
8952410 TAAAAAAAAAAA
1 TAAAAAAAAAAA
8952422 TTTTAATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (25 bp):
TAAAAAAAAAAAATCAAAATTCTAA
Found at i:8952421 original size:18 final size:18
Alignment explanation
Indices: 8952389--8952435 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
8952379 TTTTAATAAA
*
8952389 AATAAAAAATCAAAATTCT
1 AATAAAAAA-AAAAATTCT
* *
8952408 ATTAAAAAAAAAAATTTT
1 AATAAAAAAAAAAATTCT
8952426 AATAAAAAAA
1 AATAAAAAAA
8952436 TTTTTCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAAAAAAAAAATTCT
Found at i:8952453 original size:17 final size:15
Alignment explanation
Indices: 8952414--8952463 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
8952404 TTCTATTAAA
*
8952414 AAAAAAAATTTTAAT
1 AAAAAAAATTTTCAT
*
8952429 AAAAAAATTTTTCAT
1 AAAAAAAATTTTCAT
8952444 AAAAATAAATTTTCAT
1 AAAAA-AAATTTTCAT
8952460 AAAA
1 AAAA
8952464 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAAAAATTTTCAT
Found at i:8952469 original size:17 final size:16
Alignment explanation
Indices: 8952413--8952463 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
8952403 ATTCTATTAA
* *
8952413 AAAAAAAAATTTTAAT
1 AAAAATAAATTTTCAT
*
8952429 AAAAA-AATTTTTCAT
1 AAAAATAAATTTTCAT
8952444 AAAAATAAATTTTCAT
1 AAAAATAAATTTTCAT
8952460 AAAA
1 AAAA
8952464 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 13 0.42
16 18 0.58
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATAAATTTTCAT
Found at i:8952502 original size:7 final size:7
Alignment explanation
Indices: 8952491--8952542 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
8952481 CCAAAACTTA
8952491 AAAAATT
1 AAAAATT
*
8952498 GAAAATT
1 AAAAATT
8952505 AAAAAATT
1 -AAAAATT
8952513 AAAAATTTT
1 AAAAA--TT
8952522 AAAAACTTT
1 AAAAA--TT
8952531 AAAAATT
1 AAAAATT
8952538 AAAAA
1 AAAAA
8952543 ATCTAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
7 18 0.46
8 6 0.15
9 15 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:8952502 original size:9 final size:8
Alignment explanation
Indices: 8952483--8952544 Score: 63
Period size: 8 Copynumber: 7.8 Consensus size: 8
8952473 AGATCTCACC
*
8952483 AAAACTTA
1 AAAAATTA
8952491 AAAAATT-
1 AAAAATTA
*
8952498 GAAAATTA
1 AAAAATTA
8952506 AAAAATTA
1 AAAAATTA
*
8952514 AAAATTTTA
1 AAAA-ATTA
* *
8952523 AAAACTTT
1 AAAAATTA
8952531 AAAAATTA
1 AAAAATTA
8952539 AAAAAT
1 AAAAAT
8952545 CTAATTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
7 6 0.14
8 31 0.70
9 7 0.16
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (8 bp):
AAAAATTA
Found at i:8952524 original size:32 final size:31
Alignment explanation
Indices: 8952488--8952565 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
8952478 TCACCAAAAC
*
8952488 TTAAAAAATTGAAAATTAAAAAAT-TAAAAATT
1 TTAAAAATTTGAAAATTAAAAAATCT--AAATT
* *
8952520 TTAAAAACTTTAAAAATTAAAAAATCTAATTT
1 TTAAAAA-TTTGAAAATTAAAAAATCTAAATT
8952552 TTAAAAATTTGAAA
1 TTAAAAATTTGAAA
8952566 TTTTATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.15
32 18 0.45
33 15 0.38
34 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (31 bp):
TTAAAAATTTGAAAATTAAAAAATCTAAATT
Found at i:8952535 original size:10 final size:9
Alignment explanation
Indices: 8952499--8952658 Score: 54
Period size: 8 Copynumber: 18.2 Consensus size: 9
8952489 TAAAAAATTG
8952499 AAAA-TTAA
1 AAAATTTAA
8952507 AAAA-TTAA
1 AAAATTTAA
*
8952515 AAATTTTAA
1 AAAATTTAA
*
8952524 AAACTTT-A
1 AAAATTTAA
8952532 AAAA-TTAA
1 AAAATTTAA
*
8952540 AAAATCT--
1 AAAATTTAA
* *
8952547 -AATTTTTA
1 AAAATTTAA
*
8952555 AAAATTT-G
1 AAAATTTAA
*
8952563 AAATTTTATA
1 AAAATTTA-A
**
8952573 TAAAATTTTTT
1 -AAAA-TTTAA
8952584 AAAATTT-A
1 AAAATTTAA
8952592 AAAA-TTAA
1 AAAATTTAA
8952600 AAAATTTCAA
1 AAAATTT-AA
* *
8952610 AAAA-CTGA
1 AAAATTTAA
* *
8952618 AATATGGTAAA
1 AAAAT--TTAA
8952629 AAAATTTAAA
1 AAAATTT-AA
8952639 AAAATTTAA
1 AAAATTTAA
*
8952648 AAAATCTAA
1 AAAATTTAA
8952657 AA
1 AA
8952659 CTAAAATTAA
Statistics
Matches: 112, Mismatches: 23, Indels: 33
0.67 0.14 0.20
Matches are distributed among these distances:
6 4 0.04
7 4 0.04
8 39 0.35
9 35 0.31
10 19 0.17
11 8 0.07
12 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAATTTAA
Found at i:8954848 original size:40 final size:40
Alignment explanation
Indices: 8954771--8955141 Score: 223
Period size: 40 Copynumber: 9.2 Consensus size: 40
8954761 GAAAATAAAT
** * * *
8954771 AATGCTCCTTTAAACAAAGGCTTAACAACTTTAAAACATA
1 AATGCTCCACTAAACAGAGGCTCAACAACTTTGAAACATA
* * *
8954811 AATGTTCCACTAAATAGAGGCTCAACGACTTTGAAACATA
1 AATGCTCCACTAAACAGAGGCTCAACAACTTTGAAACATA
* *** *
8954851 AATGGTCTTTTAAACAGAGG-TCCAACAACTTTGAAAAAATA
1 AATGCTCCACTAAACAGAGGCT-CAACAACTTTG-AAACATA
* * * * * *
8954892 AAGGCTCCTCTAATCAAAGTCTCAATAACTTTGAAACATA
1 AATGCTCCACTAAACAGAGGCTCAACAACTTTGAAACATA
* *** * *
8954932 AATGGTCTTTTAAACAAAGG-TCCAACAACTTTGAAAAAATA
1 AATGCTCCACTAAACAGAGGCT-CAACAACTTTG-AAACATA
* * *
8954973 AAGGCT-CATCTAAACA-AGTCTCAACGACTTTGAAACATA
1 AATGCTCCA-CTAAACAGAGGCTCAACAACTTTGAAACATA
* * * * * *
8955012 AATGCTCCATTAAATAGAGGCTTAATAACTTTCAAAAATAAA
1 AATGCTCCACTAAACAGAGGCTCAACAACTTTGAAACAT--A
* * * * * *
8955054 CAAGGCTCCTCTAAGCAGAGGCTTAACCACTTTGAAAAATA
1 -AATGCTCCACTAAACAGAGGCTCAACAACTTTGAAACATA
* * *
8955095 AAAGCTCCTCTAAACA-AGGCACAACAACTTTAGAAA-ATA
1 AATGCTCCACTAAACAGAGGCTCAACAACTTT-GAAACATA
*
8955134 AAAGCTCC
1 AATGCTCC
8955142 TCAACAATCA
Statistics
Matches: 256, Mismatches: 62, Indels: 27
0.74 0.18 0.08
Matches are distributed among these distances:
39 41 0.16
40 135 0.53
41 47 0.18
42 2 0.01
43 31 0.12
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (40 bp):
AATGCTCCACTAAACAGAGGCTCAACAACTTTGAAACATA
Found at i:8954925 original size:81 final size:81
Alignment explanation
Indices: 8954771--8955143 Score: 335
Period size: 81 Copynumber: 4.6 Consensus size: 81
8954761 GAAAATAAAT
* ** * * * * * * *
8954771 AATGCTCCTTTAAACAAAGGCTTAACAACTTT-AAAACATAAATGTTCCACTAAATAGAGGCTCA
1 AATGCTCCTTTAAACAGAGGCACAACAACTTTGAAAAAATAAAGGCTCCTCTAAACAAAGTCTCA
*
8954835 ACGACTTTGAAACATA
66 ACAACTTTGAAACATA
* * *
8954851 AATGGTCTTTTAAACAGAGGTC-CAACAACTTTGAAAAAATAAAGGCTCCTCTAATCAAAGTCTC
1 AATGCTCCTTTAAACAGAGG-CACAACAACTTTGAAAAAATAAAGGCTCCTCTAAACAAAGTCTC
*
8954915 AATAACTTTGAAACATA
65 AACAACTTTGAAACATA
* * * *
8954932 AATGGTCTTTTAAACAAAGGTC-CAACAACTTTGAAAAAATAAAGGCTCATCTAAAC-AAGTCTC
1 AATGCTCCTTTAAACAGAGG-CACAACAACTTTGAAAAAATAAAGGCTCCTCTAAACAAAGTCTC
*
8954995 AACGACTTTGAAACATA
65 AACAACTTTGAAACATA
* * ** * * * * * *
8955012 AATGCTCCATTAAATAGAGGCTTAATAACTTTCAAAAATAAACAAGGCTCCTCTAAGCAGAGGCT
1 AATGCTCCTTTAAACAGAGGCACAACAACTTTGAAAAA-ATA-AAGGCTCCTCTAAACAAAGTCT
* * *
8955077 TAACCACTTTGAAAAATA
64 CAACAACTTTGAAACATA
* * * *
8955095 AAAGCTCCTCTAAACA-AGGCACAACAACTTT-AGAAAATAAAAGCTCCTC
1 AATGCTCCTTTAAACAGAGGCACAACAACTTTGAAAAAATAAAGGCTCCTC
8955144 AACAATCATG
Statistics
Matches: 242, Mismatches: 45, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
79 10 0.04
80 78 0.32
81 98 0.40
82 25 0.10
83 31 0.13
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (81 bp):
AATGCTCCTTTAAACAGAGGCACAACAACTTTGAAAAAATAAAGGCTCCTCTAAACAAAGTCTCA
ACAACTTTGAAACATA
Found at i:8955074 original size:43 final size:40
Alignment explanation
Indices: 8954955--8955143 Score: 134
Period size: 39 Copynumber: 4.7 Consensus size: 40
8954945 ACAAAGGTCC
* * * * * *
8954955 AACAACTTTGAAAAAATAAAGGCTCATCTAAACA-AGTCTC
1 AACAACTTT-CAAAAATAAAAGCTCCTCTAAGCAGAGGCTT
* * * * **
8954995 AACGACTTTGAAACATAAATGCTCCAT-TAAATAGAGGCTT
1 AACAACTTTCAAAAATAAAAGCTCC-TCTAAGCAGAGGCTT
*
8955035 AATAACTTTCAAAAATAAACAAGGCTCCTCTAAGCAGAGGCTT
1 AACAACTTTCAAAAAT-AA-AA-GCTCCTCTAAGCAGAGGCTT
* * * **
8955078 AACCACTTTGAAAAATAAAAGCTCCTCTAAACA-AGGCAC
1 AACAACTTTCAAAAATAAAAGCTCCTCTAAGCAGAGGCTT
8955117 AACAACTTT-AGAAAATAAAAGCTCCTC
1 AACAACTTTCA-AAAATAAAAGCTCCTC
8955144 AACAATCATG
Statistics
Matches: 120, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 45 0.38
40 37 0.31
41 4 0.03
42 4 0.03
43 29 0.24
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (40 bp):
AACAACTTTCAAAAATAAAAGCTCCTCTAAGCAGAGGCTT
Found at i:8955134 original size:161 final size:158
Alignment explanation
Indices: 8954774--8955140 Score: 380
Period size: 161 Copynumber: 2.3 Consensus size: 158
8954764 AATAAATAAT
* * * *
8954774 GCTCCTTTAAACAAAGGCTTAACAACTTTAAAACATAAATGTTCCACTAAATAGAGGCTCAACGA
1 GCTCCTTTAAACAAAGGC-CAACAACTTTAAAA-ATAAAAGCT-CACTAAACAGAGGCTCAACGA
* ** * *
8954839 CTTTGAAACATAAATGGTCTTTTAAACAGAGGTCCAACAACTTTGAAAAAATAAAGGCTCCTCTA
63 CTTTGAAACATAAATGCTCCATTAAACAGAGGTCCAACAACTTTCAAAAAAAAAAGGCTCCTCTA
* * * * *
8954904 ATCAAAGTCTCAATAACTTTGAAACATAAAT
128 AGCAAAGGCTCAACAACTTTGAAAAATAAAA
* * * *
8954935 GGTCTTTTAAACAAAGGTCCAACAACTTTGAAAAAATAAAGGCTCATCTAAACA-AGTCTCAACG
1 GCTCCTTTAAACAAAGG-CCAACAACTTT--AAAAATAAAAGCTCA-CTAAACAGAGGCTCAACG
* * *
8954999 ACTTTGAAACATAAATGCTCCATTAAATAGAGG-CTTAATAACTTTCAAAAATAAACAAGGCTCC
62 ACTTTGAAACATAAATGCTCCATTAAACAGAGGTC-CAACAACTTTCAAAAA-AAA-AAGGCTCC
* * *
8955063 TCTAAGCAGAGGCTTAACCACTTTGAAAAATAAAA
124 TCTAAGCAAAGGCTCAACAACTTTGAAAAATAAAA
*
8955098 GCTCCTCTAAAC-AAGGCACAACAACTTTAGAAAATAAAAGCTC
1 GCTCCTTTAAACAAAGGC-CAACAACTTTA-AAAATAAAAGCTC
8955141 CTCAACAATC
Statistics
Matches: 170, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
160 2 0.01
161 90 0.53
162 30 0.18
163 48 0.28
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (158 bp):
GCTCCTTTAAACAAAGGCCAACAACTTTAAAAATAAAAGCTCACTAAACAGAGGCTCAACGACTT
TGAAACATAAATGCTCCATTAAACAGAGGTCCAACAACTTTCAAAAAAAAAAGGCTCCTCTAAGC
AAAGGCTCAACAACTTTGAAAAATAAAA
Found at i:8960576 original size:11 final size:11
Alignment explanation
Indices: 8960554--8960587 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
8960544 ATAATATATA
8960554 AAAAAATCTTTT
1 AAAAAAT-TTTT
8960566 AAAAAATTTTT
1 AAAAAATTTTT
8960577 AAAAAATTTTT
1 AAAAAATTTTT
8960588 TACCTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAAAATTTTT
Found at i:8960588 original size:12 final size:12
Alignment explanation
Indices: 8960554--8960589 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8960544 ATAATATATA
*
8960554 AAAAAATCTTTT
1 AAAAAATTTTTT
8960566 AAAAAA-TTTTT
1 AAAAAATTTTTT
8960577 AAAAAATTTTTT
1 AAAAAATTTTTT
8960589 A
1 A
8960590 CCTAAATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
AAAAAATTTTTT
Found at i:8966950 original size:9 final size:8
Alignment explanation
Indices: 8966934--8966965 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
8966924 ACTAAATACC
8966934 TATTTTTT
1 TATTTTTT
*
8966942 CATTTTTT
1 TATTTTTT
8966950 TATTTTTT
1 TATTTTTT
8966958 TATTTTTT
1 TATTTTTT
8966966 ATTCTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TATTTTTT
Found at i:8967145 original size:20 final size:20
Alignment explanation
Indices: 8967117--8967164 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8967107 TAATTTTTAA
8967117 AAAAG-TTTTACA-AGTTTTT
1 AAAAGTTTTTACATA-TTTTT
*
8967136 AAAAGTTTTTATATATTTTT
1 AAAAGTTTTTACATATTTTT
8967156 AAAA-TTTTT
1 AAAAGTTTTT
8967165 TGATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 10 0.38
20 15 0.58
21 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (20 bp):
AAAAGTTTTTACATATTTTT
Found at i:8967280 original size:27 final size:27
Alignment explanation
Indices: 8967250--8967303 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
8967240 TCTCTTTTTT
*
8967250 AATT-TCAAATTTTTTTGTTTTTGTTAA
1 AATTGTCAAATTTTTTTATTTTT-TTAA
* *
8967277 AATTGTGAGATTTTTTTATTTTTTTAA
1 AATTGTCAAATTTTTTTATTTTTTTAA
8967304 GTTTTCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (27 bp):
AATTGTCAAATTTTTTTATTTTTTTAA
Found at i:8967375 original size:24 final size:25
Alignment explanation
Indices: 8967317--8967370 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
8967307 TTCATATATA
8967317 TTTTTAA-TTTTTTAAATATTTTAG
1 TTTTTAATTTTTTTAAATATTTTAG
8967341 TTTTTAATTTTTTTAAATATTTTAG
1 TTTTTAATTTTTTTAAATATTTTAG
8967366 TTTTT
1 TTTTT
8967371 TTTTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTTAATTTTTTTAAATATTTTAG
Found at i:8967757 original size:60 final size:60
Alignment explanation
Indices: 8967688--8967806 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
8967678 ATTGGTAATA
* * **
8967688 TAGTAATTTTGATAAATTATGAGATGAAGGTATTTCTGTAACTATGATA-GAAGGGTATTG
1 TAGTAATTTTGATAAATTATAAGAAGAAAATATTTCTGTAACTATGATATG-AGGGTATTG
* * *
8967748 TAGTAATTTTGGTCAATTATAAGAAGAAAATATTTTTGTAACTATGATATGAGGGTATT
1 TAGTAATTTTGATAAATTATAAGAAGAAAATATTTCTGTAACTATGATATGAGGGTATT
8967807 ATAATGAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 50 0.98
61 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (60 bp):
TAGTAATTTTGATAAATTATAAGAAGAAAATATTTCTGTAACTATGATATGAGGGTATTG
Found at i:8968560 original size:55 final size:55
Alignment explanation
Indices: 8968474--8968581 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
8968464 TCTTAACCAT
* * *
8968474 TTATAAAAAGAAAGGTATTTTCATAACTATAATATGAGAGTATTATAGTAAATAA
1 TTATAAAAAGAAAGGTATTTACATAACTATAATATGAGAATATAATAGTAAATAA
* *
8968529 TTATAAAAAG-AAGGATATTTACATAATTATAATATGATAATATAATAGTAAAT
1 TTATAAAAAGAAAGG-TATTTACATAACTATAATATGAGAATATAATAGTAAAT
8968582 TTAAACACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 4 0.09
55 43 0.91
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (55 bp):
TTATAAAAAGAAAGGTATTTACATAACTATAATATGAGAATATAATAGTAAATAA
Found at i:8968698 original size:127 final size:129
Alignment explanation
Indices: 8968521--8968761 Score: 310
Period size: 128 Copynumber: 1.9 Consensus size: 129
8968511 GAGTATTATA
* * * * *
8968521 GTAAATAATTATAAAAAGAAGGATATTTACATAATTATAATATGATAATATAATAGTAAATTT-A
1 GTAAACAATTATAAAAAGAAGGAAATTTACATAATTATAATATAAAAATATAATAATAAATTTGA
**
8968585 AACACATTAAATTCTTATCAAATATGAGAAAG-GATATTATAGTAATTTAATTGAGAATAATTTT
66 AACACATTAAATTCTTATCAAATACAAGAAAGAG-TATTATAGTAATTTAATTGAGAATAATTTT
* * *
8968649 GTAAACAATTAT-AAAATAAGGAGAATTTTC-TAATTATAATATAAAAATATTATAATAAATTTG
1 GTAAACAATTATAAAAAGAAGGA-AATTTACATAATTATAATATAAAAATATAATAATAAATTTG
* * * *
8968712 AAATATATTAAATTTTTATCAAATACAAGGAAGAGTATTATAGTAATTTA
65 AAACACATTAAATTCTTATCAAATACAAGAAAGAGTATTATAGTAATTTA
8968762 TATAGAGATT
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
127 37 0.39
128 58 0.60
129 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (129 bp):
GTAAACAATTATAAAAAGAAGGAAATTTACATAATTATAATATAAAAATATAATAATAAATTTGA
AACACATTAAATTCTTATCAAATACAAGAAAGAGTATTATAGTAATTTAATTGAGAATAATTTT
Found at i:8970977 original size:13 final size:13
Alignment explanation
Indices: 8970959--8970985 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8970949 TCATTAGATT
8970959 TTATATATATATA
1 TTATATATATATA
8970972 TTATATATATATA
1 TTATATATATATA
8970985 T
1 T
8970986 GTAGAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATATATATA
Found at i:8975917 original size:135 final size:135
Alignment explanation
Indices: 8975682--8975936 Score: 422
Period size: 135 Copynumber: 1.9 Consensus size: 135
8975672 CTCATACTTG
* * *
8975682 GTGTTGTAGAGCTGCTAACCCATTTTATCATCACAGAATCTGGAGAATGAGGCAGTGGTCCACTC
1 GTGTTGTAAAGCTGCTAACCCATTTTATCATCACAGAATCTGGAGAAGGAGGCAGTGCTCCACTC
*
8975747 TTCAACAACCCAACCTCATCTGCTGAAATATCCATCTCTTCTGCCTTTTCTTTATTGTTACCTAT
66 TTCAACAACCCAACCTCATCTGCTGAAATATCCATCTCTTCTGCCTTTCCTTTATTGTTACCTAT
8975812 ACTCA
131 ACTCA
* *
8975817 GTGTTGTAAAGCTGCTAACCCATTTTATC-TCCACAGAATCTGGAGAAGGAGGCTGTGCTTCACT
1 GTGTTGTAAAGCTGCTAACCCATTTTATCAT-CACAGAATCTGGAGAAGGAGGCAGTGCTCCACT
* *
8975881 CTTCAACAACCCAACCTCGTCTGTTGAAATATCCATCTCTTCTGCCTTTCCTTTAT
65 CTTCAACAACCCAACCTCATCTGCTGAAATATCCATCTCTTCTGCCTTTCCTTTAT
8975937 CGTAATCCTC
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
134 1 0.01
135 110 0.99
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (135 bp):
GTGTTGTAAAGCTGCTAACCCATTTTATCATCACAGAATCTGGAGAAGGAGGCAGTGCTCCACTC
TTCAACAACCCAACCTCATCTGCTGAAATATCCATCTCTTCTGCCTTTCCTTTATTGTTACCTAT
ACTCA
Found at i:8977362 original size:92 final size:93
Alignment explanation
Indices: 8977250--8977434 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 93
8977240 TCCGGTCTGA
*
8977250 AATAGAAAAAAAAAAATTGAAAACAGAACTAAAGGGTTAAGATTCGTGTGATACCAAACAGGCAA
1 AATAGAAAAAAAAAAATTGAAAACAGAAATAAAGGGTTAAGATTCGTGTGATACCAAACAGGCAA
8977315 AATCTATCAGGTAAAATTTAAACATATT
66 AATCTATCAGGTAAAATTTAAACATATT
* *
8977343 AATAG-AAAAAAAAAATTGAAAACATAAATAAAGGGTTAAGATTCGTGTGATACGAAACAGGCAA
1 AATAGAAAAAAAAAAATTGAAAACAGAAATAAAGGGTTAAGATTCGTGTGATACCAAACAGGCAA
*
8977407 AATCTATCAGGTAAAATTTAGACATATT
66 AATCTATCAGGTAAAATTTAAACATATT
8977435 TGTCTGCAAC
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 83 0.94
93 5 0.06
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.23
Consensus pattern (93 bp):
AATAGAAAAAAAAAAATTGAAAACAGAAATAAAGGGTTAAGATTCGTGTGATACCAAACAGGCAA
AATCTATCAGGTAAAATTTAAACATATT
Found at i:8981747 original size:14 final size:14
Alignment explanation
Indices: 8981730--8981759 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8981720 TAGAAAATGA
*
8981730 TTTTCAAAAAATAT
1 TTTTAAAAAAATAT
8981744 TTTTAAAAAAATAT
1 TTTTAAAAAAATAT
8981758 TT
1 TT
8981760 ATATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTTAAAAAAATAT
Found at i:8981850 original size:17 final size:19
Alignment explanation
Indices: 8981830--8981867 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
8981820 TTATTTGATT
*
8981830 ATTTTTTGAAA-AAT-TTA
1 ATTTTTTCAAATAATATTA
8981847 ATTTTTTCAAATAATATTA
1 ATTTTTTCAAATAATATTA
8981866 AT
1 AT
8981868 ATAATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTTTCAAATAATATTA
Found at i:8981932 original size:16 final size:15
Alignment explanation
Indices: 8981907--8981946 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
8981897 TTTTTAAAAT
*
8981907 ATATTGAAATTATTTA
1 ATATTAAAATTA-TTA
*
8981923 TTATTAAAATTATTA
1 ATATTAAAATTATTA
8981938 ATATTAAAA
1 ATATTAAAA
8981947 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:8981943 original size:25 final size:25
Alignment explanation
Indices: 8981871--8981943 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
8981861 TATTAATATA
8981871 ATTATTAAAA-TATTAAAAATTATTT
1 ATTATTAAAATTATT-AAAATTATTT
* *
8981896 ATTTTTAAAATATATTGAAATTATTT
1 ATTATTAAAAT-TATTAAAATTATTT
*
8981922 ATTATTAAAATTATTAATATTA
1 ATTATTAAAATTATTAAAATTA
8981944 AAAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.44
26 19 0.46
27 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
ATTATTAAAATTATTAAAATTATTT
Found at i:8981944 original size:15 final size:16
Alignment explanation
Indices: 8981907--8981984 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
8981897 TTTTTAAAAT
*
8981907 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
8981923 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
* *
8981938 ATATTAAAAAATAATTA
1 ATATT-AAAATTATTTA
*
8981955 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TATTTA
8981975 ATATTAAAAT
1 ATATTAAAAT
8981985 ATTATGTTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
15 7 0.15
16 16 0.33
17 5 0.10
18 9 0.19
19 6 0.12
20 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:8982051 original size:15 final size:15
Alignment explanation
Indices: 8982033--8982166 Score: 117
Period size: 15 Copynumber: 8.5 Consensus size: 15
8982023 TTATTTTCTT
8982033 TATATTATTTATTAA
1 TATATTATTTATTAA
*
8982048 TATATTATAATATT-A
1 TATATTAT-TTATTAA
* * *
8982063 TTTATTAATATATTAT
1 TATATT-ATTTATTAA
*
8982079 TATAATATTTATTAA
1 TATATTATTTATTAA
* *
8982094 TTAAATTAATATTATTTAT
1 -TATATT-AT-TTA-TTAA
8982113 TATATTATTTATTAA
1 TATATTATTTATTAA
* *
8982128 TATATTATATTAATAG
1 TATATTAT-TTATTAA
8982144 TATATTATTTATTAA
1 TATATTATTTATTAA
8982159 TATATTAT
1 TATATTAT
8982167 AATATTATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
15 50 0.53
16 30 0.32
17 4 0.04
18 8 0.08
19 3 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:8982064 original size:23 final size:23
Alignment explanation
Indices: 8982034--8982183 Score: 147
Period size: 23 Copynumber: 6.7 Consensus size: 23
8982024 TATTTTCTTT
8982034 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
*
8982057 ATATTATTTATTAATATATTATT
1 ATATTATTTATTAATATATTATA
* *
8982080 ATAATATTTATTAAT-TA-AATTA
1 ATATTATTTATTAATATATTA-TA
8982102 ATATTATTTATT-ATATTATTTATTA
1 ATATTATTTATTAATA-TA-TTA-TA
*
8982127 ATA-TATTATATT-A-ATA--GT-
1 ATATTATT-TATTAATATATTATA
8982145 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
*
8982168 ATATTATTTGTTAATA
1 ATATTATTTATTAATA
8982184 GTATATTATT
Statistics
Matches: 106, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
18 7 0.07
19 6 0.06
20 3 0.03
21 3 0.03
22 15 0.14
23 55 0.52
24 5 0.05
25 12 0.11
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:8982077 original size:31 final size:30
Alignment explanation
Indices: 8982042--8982174 Score: 125
Period size: 31 Copynumber: 4.4 Consensus size: 30
8982032 TTATATTATT
8982042 TATTAATATATTATAATATTATTTATTAATA
1 TATT-ATATATTATAATATTATTTATTAATA
* *
8982073 TATTAT-TATAAT-AT-TTATTAATTAA-A
1 TATTATATATTATAATATTATTTATTAATA
* *
8982099 T-TAATATTATTTATTATATTATTTATTAATA
1 TATTATA-TA-TTATAATATTATTTATTAATA
*
8982130 TATTATAT-TAATAGTATATTATTTATTAATA
1 TATTATATATTATA--ATATTATTTATTAATA
8982161 TATTATAATATTAT
1 TATTAT-ATATTAT
8982175 TTGTTAATAG
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
25 3 0.04
26 2 0.02
27 12 0.15
28 5 0.06
29 10 0.12
30 12 0.15
31 29 0.35
32 6 0.07
33 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
TATTATATATTATAATATTATTTATTAATA
Found at i:8985824 original size:18 final size:18
Alignment explanation
Indices: 8985801--8985837 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8985791 AGTGAATAAC
*
8985801 AATATTTTAATACTAAAT
1 AATATTTTAATACAAAAT
8985819 AATATTTTAATACAAAAT
1 AATATTTTAATACAAAAT
8985837 A
1 A
8985838 TTAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATTTTAATACAAAAT
Found at i:8985921 original size:40 final size:40
Alignment explanation
Indices: 8985877--8986003 Score: 105
Period size: 41 Copynumber: 3.1 Consensus size: 40
8985867 TGAAAATAAT
8985877 ATTAAAAATATTATGATTAAATTAATATTTAATATATTAA
1 ATTAAAAATATTATGATTAAATTAATATTTAATATATTAA
* * *
8985917 ATT-AATAT-TTAAGATTATTAAATAATATTTAATATTATTAA
1 ATTAAAAATATTATGATTA--AATTAATATTTAATA-TATTAA
* * ** * * * *
8985958 ATCATAGTTAATATTATTAAATTAATATATACTAATATTAA
1 ATTAAAAATATTATGATTAAATTAATATTTAAT-ATATTAA
8985999 ATTAA
1 ATTAA
8986004 TATTGAGTAT
Statistics
Matches: 66, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
38 8 0.12
39 4 0.06
40 17 0.26
41 28 0.42
42 3 0.05
43 6 0.09
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (40 bp):
ATTAAAAATATTATGATTAAATTAATATTTAATATATTAA
Found at i:8985937 original size:21 final size:21
Alignment explanation
Indices: 8985892--8986065 Score: 210
Period size: 21 Copynumber: 8.4 Consensus size: 21
8985882 AAATATTATG
8985892 ATTAAATTAATATTTAATA-T
1 ATTAAATTAATATTTAATATT
*
8985912 ATTAAATTAATATTTAAGATT
1 ATTAAATTAATATTTAATATT
8985933 ATTAAA-TAATATTTAATATT
1 ATTAAATTAATATTTAATATT
* *
8985953 ATTAAA-TCATAGTTAATATT
1 ATTAAATTAATATTTAATATT
* * *
8985973 ATTAAATTAATATATACTAAT
1 ATTAAATTAATATTTAATATT
* *
8985994 ATTAAATTAATATTGAGTATT
1 ATTAAATTAATATTTAATATT
* * *
8986015 ATTATATTTATATTGAATATT
1 ATTAAATTAATATTTAATATT
*
8986036 ATTAAAATAATATTTAATATT
1 ATTAAATTAATATTTAATATT
*
8986057 TTTAAATTA
1 ATTAAATTA
8986066 TTACAAATTA
Statistics
Matches: 130, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
20 55 0.42
21 75 0.58
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (21 bp):
ATTAAATTAATATTTAATATT
Found at i:8986187 original size:12 final size:13
Alignment explanation
Indices: 8986165--8986202 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
8986155 ATTCATTTTT
8986165 ATTA-AATAATAA
1 ATTATAATAATAA
*
8986177 ATT-TGATAATAA
1 ATTATAATAATAA
8986189 ATTATAATAATAA
1 ATTATAATAATAA
8986202 A
1 A
8986203 ATAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAATAATAA
Found at i:8992548 original size:14 final size:13
Alignment explanation
Indices: 8992529--8992562 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8992519 TATGCTCTGA
8992529 ATTGAAAATAATTT
1 ATTGAAAAT-ATTT
8992543 ATTGAAAATATTT
1 ATTGAAAATATTT
8992556 ACTTGAA
1 A-TTGAA
8992563 GTTATTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (13 bp):
ATTGAAAATATTT
Found at i:8999636 original size:19 final size:20
Alignment explanation
Indices: 8999602--8999639 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8999592 ATGTTTGTTA
8999602 GGTAAATTTCAATTTTTATT
1 GGTAAATTTCAATTTTTATT
*
8999622 GGTAAA-TTCATTTTTTAT
1 GGTAAATTTCAATTTTTAT
8999640 CCCTTTGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
GGTAAATTTCAATTTTTATT
Found at i:9004466 original size:15 final size:16
Alignment explanation
Indices: 9004435--9004473 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
9004425 ATATAAAATA
*
9004435 ATATATTTTATTATTT
1 ATATAATTTATTATTT
*
9004451 ATTTAATTTA-TATTT
1 ATATAATTTATTATTT
9004466 ATATAATT
1 ATATAATT
9004474 AAGTTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATAATTTATTATTT
Found at i:9012058 original size:17 final size:17
Alignment explanation
Indices: 9012011--9012059 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
9012001 TACTTTTCCT
*
9012011 TAATTTGCTTTGTGAAA
1 TAATTTGCTTTGGGAAA
*
9012028 TAGACTAT-CTTTGGGAAA
1 TA-A-TTTGCTTTGGGAAA
9012046 TAATTTGCTTTGGG
1 TAATTTGCTTTGGG
9012060 CAATCGACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.08
17 10 0.38
18 12 0.46
19 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (17 bp):
TAATTTGCTTTGGGAAA
Found at i:9014432 original size:25 final size:28
Alignment explanation
Indices: 9014392--9014452 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 28
9014382 ATTAAATATA
9014392 TTATATTAAAATTTTG-ATATAATAAAT
1 TTATATTAAAATTTTGAATATAATAAAT
*
9014419 TTAT-TTAAAA-TTTGAATATAATAATTT
1 TTATATTAAAATTTTGAATATAATAA-AT
9014446 TTATATT
1 TTATATT
9014453 TAAAGTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.13
26 15 0.50
27 9 0.30
28 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
TTATATTAAAATTTTGAATATAATAAAT
Found at i:9014521 original size:27 final size:28
Alignment explanation
Indices: 9014481--9014542 Score: 99
Period size: 27 Copynumber: 2.2 Consensus size: 28
9014471 TAGATTAAAG
*
9014481 TTATTTATTCATATTAAATTAATAAATT
1 TTATTTATTCATATTAAACTAATAAATT
9014509 TTATTTATT-ATATTAAACTAATAAATT
1 TTATTTATTCATATTAAACTAATAAATT
*
9014536 TTTTTTA
1 TTATTTA
9014543 ACAAAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.72
28 9 0.28
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATTTATTCATATTAAACTAATAAATT
Found at i:9014814 original size:5 final size:5
Alignment explanation
Indices: 9014804--9014830 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9014794 GTAATAGAAT
9014804 CCAAA CCAAA CCAAA CCAAA CCAAA CC
1 CCAAA CCAAA CCAAA CCAAA CCAAA CC
9014831 CTACTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAA
Found at i:9015807 original size:7 final size:8
Alignment explanation
Indices: 9015789--9015815 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9015779 ATTTTAAATC
9015789 AAAAATTA
1 AAAAATTA
9015797 AAAAATTA
1 AAAAATTA
9015805 AAAAATTA
1 AAAAATTA
9015813 AAA
1 AAA
9015816 TTGAATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATTA
Found at i:9024717 original size:30 final size:29
Alignment explanation
Indices: 9024683--9024750 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
9024673 TTTAATACAC
*
9024683 CAAATAAACTTTTAACATATAATTCATATA
1 CAAATAAAC-ATTAACATATAATTCATATA
* * * *
9024713 CAAATAAGACATTAACTTTTAATTTATATT
1 CAAATAA-ACATTAACATATAATTCATATA
9024743 CAAATAAA
1 CAAATAAA
9024751 TCCTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.03
30 29 0.91
31 2 0.06
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (29 bp):
CAAATAAACATTAACATATAATTCATATA
Found at i:9024766 original size:30 final size:31
Alignment explanation
Indices: 9024700--9024780 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
9024690 ACTTTTAACA
* *
9024700 TATAATTCATATACAAATAAGACATTAACTT
1 TATAATTTATATTCAAATAAGACATTAACTT
*
9024731 T-TAATTTATATTCAAATAA-ATCCTTAA-TT
1 TATAATTTATATTCAAATAAGA-CATTAACTT
*
9024760 TATAATTTATATTTAAATAAG
1 TATAATTTATATTCAAATAAG
9024781 TTCTTAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 4 0.09
30 38 0.88
31 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (31 bp):
TATAATTTATATTCAAATAAGACATTAACTT
Found at i:9031436 original size:192 final size:192
Alignment explanation
Indices: 9031109--9031494 Score: 754
Period size: 192 Copynumber: 2.0 Consensus size: 192
9031099 AAGATTGTGA
9031109 TTGAGATATTCTTTGTACTCCTCATGTTTTATAATAAAGTTGCTTTGGTCCTTTGTGCAATTAAA
1 TTGAGATATTCTTTGTACTCCTCATGTTTTATAATAAAGTTGCTTTGGTCCTTTGTGCAATTAAA
9031174 ATTTAAAATGTTGAATCTGAAACTGCAATGAAGAAAAACAAATTTTCTGCTTTCAAATCCTTTTC
66 ATTTAAAATGTTGAATCTGAAACTGCAATGAAGAAAAACAAATTTTCTGCTTTCAAATCCTTTTC
*
9031239 CAGATCAAAGGGATTTTTTTTTTTTTAATTATATGAAATTAGAGTTTGAAAAAAAAATTGTT
131 CAGATCAAAGGGATTTTGTTTTTTTTAATTATATGAAATTAGAGTTTGAAAAAAAAATTGTT
9031301 TTGAGATATTCTTTGTACTCCTCATGTTTTATAATAAAGTTGCTTTGGTCCTTTGTGCAATTAAA
1 TTGAGATATTCTTTGTACTCCTCATGTTTTATAATAAAGTTGCTTTGGTCCTTTGTGCAATTAAA
*
9031366 ATTTAAAATGTTGAATCTGCAACTGCAATGAAGAAAAACAAATTTTCTGCTTTCAAATCCTTTTC
66 ATTTAAAATGTTGAATCTGAAACTGCAATGAAGAAAAACAAATTTTCTGCTTTCAAATCCTTTTC
9031431 CAGATCAAAGGGATTTTGTTTTTTTTAATTATATGAAATTAGAGTTTGAAAAAAAAATTGTT
131 CAGATCAAAGGGATTTTGTTTTTTTTAATTATATGAAATTAGAGTTTGAAAAAAAAATTGTT
9031493 TT
1 TT
9031495 TCTTCTATTT
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 192 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (192 bp):
TTGAGATATTCTTTGTACTCCTCATGTTTTATAATAAAGTTGCTTTGGTCCTTTGTGCAATTAAA
ATTTAAAATGTTGAATCTGAAACTGCAATGAAGAAAAACAAATTTTCTGCTTTCAAATCCTTTTC
CAGATCAAAGGGATTTTGTTTTTTTTAATTATATGAAATTAGAGTTTGAAAAAAAAATTGTT
Found at i:9034992 original size:18 final size:17
Alignment explanation
Indices: 9034971--9035004 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9034961 AAAATACAAT
9034971 TAATAATAAAAAAGAAAA
1 TAATAA-AAAAAAGAAAA
*
9034989 TAATAAAAAAAGGAAA
1 TAATAAAAAAAAGAAA
9035005 GAAGAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (17 bp):
TAATAAAAAAAAGAAAA
Found at i:9036403 original size:3 final size:3
Alignment explanation
Indices: 9036395--9036440 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
9036385 TTAACTCTTT
9036395 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9036441 AAGTTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9044496 original size:34 final size:35
Alignment explanation
Indices: 9044445--9044736 Score: 172
Period size: 34 Copynumber: 8.5 Consensus size: 35
9044435 CTATTGTTCA
* *
9044445 ACTCACAGCTCATTCTCGAT-TTCATTATTCTCTG
1 ACTCACAGTTCAATCTCGATCTTCATTATTCTCTG
* *
9044479 ACTCACAGTTCAATCTCGATC-TCATTATTCTTTA
1 ACTCACAGTTCAATCTCGATCTTCATTATTCTCTG
* * * *
9044513 ACTCAC-GATTTAATC-CTAGTCATCATTATTCTATG
1 ACTCACAG-TTCAATCTCGA-TCTTCATTATTCTCTG
*
9044548 ACTCGCAGTTCAATCTCGATC-TCATTATTCTCTG
1 ACTCACAGTTCAATCTCGATCTTCATTATTCTCTG
* * * * * * *
9044582 GCTCACGGTTTAATCCCTAT-TGTCATTATTTTATG
1 ACTCACAGTTCAATCTCGATCT-TCATTATTCTCTG
*** * * *
9044617 ACTCGTGGTTCAATCTTGATCTT-ATTATTTTTTG
1 ACTCACAGTTCAATCTCGATCTTCATTATTCTCTG
*** * * * *
9044651 ACTCGTGGTTTAATCACAATCATCATTATTCTCTG
1 ACTCACAGTTCAATCTCGATCTTCATTATTCTCTG
* *
9044686 ACTCACCA-TTCAATCTC-AGTCTTTATTATCCT-TG
1 ACTCA-CAGTTCAATCTCGA-TCTTCATTATTCTCTG
* *
9044720 ACTCACGGTTTAATCTC
1 ACTCACAGTTCAATCTC
9044737 AGTCGACATT
Statistics
Matches: 200, Mismatches: 45, Indels: 26
0.74 0.17 0.10
Matches are distributed among these distances:
33 4 0.02
34 113 0.56
35 79 0.40
36 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (35 bp):
ACTCACAGTTCAATCTCGATCTTCATTATTCTCTG
Found at i:9044557 original size:69 final size:68
Alignment explanation
Indices: 9044466--9044734 Score: 274
Period size: 69 Copynumber: 3.9 Consensus size: 68
9044456 ATTCTCGATT
* * * *
9044466 TCATTATTCTCTGACTCACAGTTCAATCTCGATCTCATTATTCTTTAACTCACGATTTAATCCTA
1 TCATTATTCTATGACTCGCAGTTCAATCTCGATCTCATTATTCTTTGACTCACGGTTTAATCCTA
9044531 GTCA
66 -TCA
* *
9044535 TCATTATTCTATGACTCGCAGTTCAATCTCGATCTCATTATTCTCTGGCTCACGGTTTAATCCCT
1 TCATTATTCTATGACTCGCAGTTCAATCTCGATCTCATTATTCTTTGACTCACGGTTTAAT-CCT
**
9044600 ATTG
65 ATCA
* ** * * * ** *
9044604 TCATTATTTTATGACTCGTGGTTCAATCTTGATCTTATTATTTTTTGACTCGTGGTTTAATCACA
1 TCATTATTCTATGACTCGCAGTTCAATCTCGATCTCATTATTCTTTGACTCACGGTTTAATC-CT
9044669 ATCA
65 ATCA
* * * *
9044673 TCATTATTCTCTGACTCACCA-TTCAATCTC-AGTCTTTATTA-TCCTTGACTCACGGTTTAATC
1 TCATTATTCTATGACTC-GCAGTTCAATCTCGA-TC-TCATTATTCTTTGACTCACGGTTTAATC
9044735 TCAGTCGACA
Statistics
Matches: 164, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
68 2 0.01
69 152 0.93
70 10 0.06
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (68 bp):
TCATTATTCTATGACTCGCAGTTCAATCTCGATCTCATTATTCTTTGACTCACGGTTTAATCCTA
TCA
Found at i:9044725 original size:138 final size:139
Alignment explanation
Indices: 9044486--9044770 Score: 321
Period size: 138 Copynumber: 2.1 Consensus size: 139
9044476 CTGACTCACA
*
9044486 GTTCAATCTCGATCTCATTATTCTTTAACTCACGATTTAATCCTAGTCATCATTATTCTATGACT
1 GTTCAATCTCGATCTCATTATTCTTTAACTCACGATTTAATCCTAATCATCATTATTCTATGACT
* * * * *
9044551 CGCAGTTCAATCTCGATCTCATTATTCTCTGGCTCACGGTTTAATCCCTA-TTGTCATTATTTT-
66 CCCAGTTCAATCTCGATCTCATTATCCTCTGACTCACGGTTTAATCCC-AGTCGACATTATTTTC
*
9044614 ATGACTCGTG
130 ATGACACGTG
* * * * ** * *
9044624 GTTCAATCTTGATCTTATTATTTTTTGACTCGTGGTTTAATCAC-AATCATCATTATTCTCTGAC
1 GTTCAATCTCGATCTCATTATTCTTTAACTCACGATTTAATC-CTAATCATCATTATTCTATGAC
* *
9044688 TCACCA-TTCAATCTC-AGTCTTTATTATCCT-TGACTCACGGTTTAATCTCAGTCGACATTATT
65 TC-CCAGTTCAATCTCGA-TC-TCATTATCCTCTGACTCACGGTTTAATCCCAGTCGACATTATT
*
9044750 TTCTTGACACGTG
127 TTCATGACACGTG
9044763 GTTCAATC
1 GTTCAATC
9044771 CTAATTGTTT
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
137 2 0.02
138 94 0.76
139 27 0.22
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (139 bp):
GTTCAATCTCGATCTCATTATTCTTTAACTCACGATTTAATCCTAATCATCATTATTCTATGACT
CCCAGTTCAATCTCGATCTCATTATCCTCTGACTCACGGTTTAATCCCAGTCGACATTATTTTCA
TGACACGTG
Found at i:9044748 original size:34 final size:33
Alignment explanation
Indices: 9044648--9044748 Score: 76
Period size: 34 Copynumber: 2.9 Consensus size: 33
9044638 TTATTATTTT
** * * *
9044648 TTGACTCGTGGTTTAATCACAATCATCATTATTC
1 TTGACTCACGGTTTAATCTCAGTCA-CATTATCC
** * **
9044682 TCTGACTCACCATTCAATCTCAGTCTTTATTATCC
1 T-TGACTCACGGTTTAATCTCAGTC-ACATTATCC
9044717 TTGACTCACGGTTTAATCTCAGTCGACATTAT
1 TTGACTCACGGTTTAATCTCAGTC-ACATTAT
9044749 TTTCTTGACA
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
34 26 0.53
35 23 0.47
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.40
Consensus pattern (33 bp):
TTGACTCACGGTTTAATCTCAGTCACATTATCC
Found at i:9044820 original size:36 final size:36
Alignment explanation
Indices: 9044745--9044865 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
9044735 TCAGTCGACA
* * * * *
9044745 TTATTTTCTTGACACGTGGTTCAATCCTAATTGTTT
1 TTATCTTCTTGACTCGCGGTTCAATCCTAATTATCT
*
9044781 TTATCTTCTTGACTCGCGGTTCAAT-CTCGATTATCT
1 TTATCTTCTTGACTCGCGGTTCAATCCT-AATTATCT
* * * * *
9044817 TTATCCTCTTAACTCGCAGTTCAATCCTAATCATCA
1 TTATCTTCTTGACTCGCGGTTCAATCCTAATTATCT
*
9044853 TTAT-TCCTTGACT
1 TTATCTTCTTGACT
9044866 TGTAGTTCGA
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
35 8 0.12
36 58 0.85
37 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (36 bp):
TTATCTTCTTGACTCGCGGTTCAATCCTAATTATCT
Found at i:9046546 original size:15 final size:16
Alignment explanation
Indices: 9046528--9046559 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9046518 TTTTCCAAAA
9046528 TTTTATTGTTAT-TAT
1 TTTTATTGTTATATAT
9046543 TTTTATTGTTATATAT
1 TTTTATTGTTATATAT
9046559 T
1 T
9046560 ATGTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
TTTTATTGTTATATAT
Found at i:9046690 original size:20 final size:20
Alignment explanation
Indices: 9046652--9046702 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
9046642 TTTTTGTTTT
*
9046652 ATAATAA-TAATTAACAATA
1 ATAATAATTAAATAACAATA
*
9046671 ATAATAATTAAATGACAATA
1 ATAATAATTAAATAACAATA
*
9046691 ACAATAATTAAA
1 ATAATAATTAAA
9046703 ATTCAAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATAATTAAATAACAATA
Found at i:9046794 original size:3 final size:3
Alignment explanation
Indices: 9046786--9046821 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
9046776 TAAAATATGC
*
9046786 ATA ATA ATA ATA AT- ATT ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9046822 CTTTTCTCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:9047134 original size:22 final size:21
Alignment explanation
Indices: 9047108--9047151 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9047098 AATCAAAACC
*
9047108 CTAAACCCTTCAAACCTTAAAA
1 CTAAACCC-TAAAACCTTAAAA
*
9047130 CTAAACCCTAAAACCTTTAAA
1 CTAAACCCTAAAACCTTAAAA
9047151 C
1 C
9047152 CCCGAAATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAAACCCTAAAACCTTAAAA
Found at i:9047166 original size:30 final size:29
Alignment explanation
Indices: 9047097--9047172 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
9047087 TGTAACACTA
* **
9047097 AAATCAAAACCCTAAACCCTTCAAACCTT
1 AAATCAAAACCCTAAAACCTTCAAACCCG
* * *
9047126 AAAACTAAACCCTAAAACCTTTAAACCCCG
1 AAATCAAAACCCTAAAACCTTCAAA-CCCG
*
9047156 AAATCGAAACCCTAAAA
1 AAATCAAAACCCTAAAA
9047173 TCCAAAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.49, C:0.32, G:0.03, T:0.17
Consensus pattern (29 bp):
AAATCAAAACCCTAAAACCTTCAAACCCG
Found at i:9048784 original size:38 final size:38
Alignment explanation
Indices: 9048741--9048822 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
9048731 TATATATATT
*
9048741 ATATTTTATATAAAAATTATACATTATAATTCATGTTA
1 ATATTTTATATAAAAATTATACATTATAATTCATGTGA
* * **
9048779 ATATTTTTTATTAAAATTATATGTTATAATTCATGTGA
1 ATATTTTATATAAAAATTATACATTATAATTCATGTGA
9048817 A-ATTTT
1 ATATTTT
9048823 TTAATTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (38 bp):
ATATTTTATATAAAAATTATACATTATAATTCATGTGA
Found at i:9049585 original size:19 final size:18
Alignment explanation
Indices: 9049559--9049627 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
9049549 TATTAAATGT
9049559 AAAAAAAAAACAAAAAGG
1 AAAAAAAAAACAAAAAGG
*
9049577 AAGAAAAAATTA-AAAAAGG
1 AA-AAAAAA-AACAAAAAGG
*
9049596 AAAAAAGAAACGACAAAAAGTT
1 AAAAAA-AAA--ACAAAAAG-G
9049618 AAAAAAAAAA
1 AAAAAAAAAA
9049628 ATTGAGTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
18 6 0.15
19 18 0.44
20 2 0.05
21 9 0.22
22 6 0.15
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAACAAAAAGG
Found at i:9049593 original size:30 final size:28
Alignment explanation
Indices: 9049553--9049628 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
9049543 ATATTTTATT
* * *
9049553 AAATGTAAAAAAAAAACAAAAAGGAAGAAA
1 AAAT-TAAAAAAAAAAAAAAAACG-ACAAA
*
9049583 AAATTAAAAAAGGAAAAAAGAAACGACAAA
1 AAATTAAAAAA--AAAAAAAAAACGACAAA
*
9049613 AAGTTAAAAAAAAAAA
1 AAATTAAAAAAAAAAA
9049629 TTGAGTTGGC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 5 0.13
29 7 0.18
30 18 0.46
31 9 0.23
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (28 bp):
AAATTAAAAAAAAAAAAAAAACGACAAA
Found at i:9050617 original size:14 final size:16
Alignment explanation
Indices: 9050589--9050625 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9050579 ATAAAAATTT
9050589 TAAAAAATATGAAAT-A
1 TAAAAAATA-GAAATGA
9050605 TAAAAAATA-AAATGA
1 TAAAAAATAGAAATGA
9050620 TAAAAA
1 TAAAAA
9050626 CTTACCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (16 bp):
TAAAAAATAGAAATGA
Found at i:9050834 original size:10 final size:9
Alignment explanation
Indices: 9050804--9050842 Score: 51
Period size: 10 Copynumber: 4.0 Consensus size: 9
9050794 ATTAATTTTA
9050804 TAAAAAAAT
1 TAAAAAAAT
9050813 ATATAAAAAAT
1 -TA-AAAAAAT
9050824 TAAAAACAAT
1 TAAAAA-AAT
9050834 TAAAAAAAT
1 TAAAAAAAT
9050843 ATTGAGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.26
10 13 0.48
11 7 0.26
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:9054582 original size:37 final size:39
Alignment explanation
Indices: 9054541--9054624 Score: 91
Period size: 42 Copynumber: 2.1 Consensus size: 39
9054531 AAGAAGTGTG
* * *
9054541 GCTTC-TCTATTCTTATTATTA-TTTATCTTGACCCATT
1 GCTTCTTCTATCCTTATCATTACTTTATCTTGAACCATT
*
9054578 GCTTCTTTTCTGTCCTTATCATTATCTTTATCTTGAACCATT
1 GCTTC--TTCTATCCTTATCATTA-CTTTATCTTGAACCATT
9054620 GCTTC
1 GCTTC
9054625 CATATGCCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
37 5 0.13
40 13 0.34
42 20 0.53
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.52
Consensus pattern (39 bp):
GCTTCTTCTATCCTTATCATTACTTTATCTTGAACCATT
Found at i:9056357 original size:13 final size:13
Alignment explanation
Indices: 9056323--9056358 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9056313 TTGAAATAGA
**
9056323 TTTAGGGTAAAAG
1 TTTAGGGTTTAAG
9056336 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
9056349 TTTAGGGTTT
1 TTTAGGGTTT
9056359 GAGGTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:9057786 original size:11 final size:11
Alignment explanation
Indices: 9057766--9057807 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
9057756 GCCACCTTAC
*
9057766 TTTTTGTTTTTC
1 TTTTT-TTTTTA
9057778 TTTTTTTTTTA
1 TTTTTTTTTTA
9057789 TTTTTTTTGTTA
1 TTTTTTTT-TTA
9057801 TTTTTTT
1 TTTTTTT
9057808 ATAATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.05, C:0.02, G:0.05, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:9057828 original size:23 final size:22
Alignment explanation
Indices: 9057802--9057848 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
9057792 TTTTTGTTAT
*
9057802 TTTTTTATAATAATTAATAATTA
1 TTTTTTAAAATAATT-ATAATTA
* *
9057825 TTTTTTAAAATTATTATTATTA
1 TTTTTTAAAATAATTATAATTA
9057847 TT
1 TT
9057849 ATTATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTAAAATAATTATAATTA
Found at i:9057840 original size:3 final size:3
Alignment explanation
Indices: 9057834--9057878 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
9057824 ATTTTTTAAA
** *
9057834 ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT AAT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9057879 AAATGAAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:9058230 original size:22 final size:23
Alignment explanation
Indices: 9058198--9058248 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
9058188 TACTGCGATT
*
9058198 CAAAATTATGC-CTGGAGGTCTTA
1 CAAAATCATGCTC-GGAGGTCTTA
*
9058221 -AAAATCATGCTCGGAGGTTTTA
1 CAAAATCATGCTCGGAGGTCTTA
9058243 CAAAAT
1 CAAAAT
9058249 TGACCGGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (23 bp):
CAAAATCATGCTCGGAGGTCTTA
Found at i:9059074 original size:32 final size:32
Alignment explanation
Indices: 9059037--9059466 Score: 387
Period size: 33 Copynumber: 13.5 Consensus size: 32
9059027 TTTGGGTAAA
* *
9059037 ATAAACTGGGCTTAAATTTTATTGAAGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAG
* * **
9059069 CTAAACTGAGCTTAAAACCTCATTGATGGCCAG
1 ATAAACTGGGCTT-AAATTTCATTGATGGCCAG
* * *
9059102 ATAAAATGGGCTTAAATGTCATTGATGACCAG
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAG
* * **
9059134 ATAAACTGGACTTAAAACTTCATTGATGGTTAG
1 ATAAACTGGGCTT-AAATTTCATTGATGGCCAG
* * *
9059167 ATAAACTAGGCTTAAATGTCATTGATGACCAG
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAG
*
9059199 ATAAACTGGACTTAAAGTTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAA-TTTCATTGATGGCCAG
** *
9059232 ATAAACTTAGCTTAAATGTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAG
*
9059264 ATAAACTGGGGTT-AA----A---ATGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAG
*
9059288 ATAAATTGGGCTTAAAACTTT-ATTGATGGCCA-
1 ATAAACTGGGCTT-AAA-TTTCATTGATGGCCAG
* * *
9059320 ATTAAACTAGGCTTAAATGTCATTGATGACCAG
1 A-TAAACTGGGCTTAAATTTCATTGATGGCCAG
* * *
9059353 ATAAAGTGAGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAA-TTTCATTGATGGCCAG
* * *
9059386 ACAAA-TGGGGTTTAAATGTCATTGATGGCCAG
1 ATAAACT-GGGCTTAAATTTCATTGATGGCCAG
* * *
9059418 ATAAATTGGGCTTAAAGCTTCATTGATGACCAG
1 ATAAACTGGGCTTAAA-TTTCATTGATGGCCAG
*
9059451 ATAAACTGAGCTTAAA
1 ATAAACTGGGCTTAAA
9059467 ATTTATTCTT
Statistics
Matches: 318, Mismatches: 61, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
24 19 0.06
26 2 0.01
27 1 0.00
30 1 0.00
31 4 0.01
32 144 0.45
33 147 0.46
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (32 bp):
ATAAACTGGGCTTAAATTTCATTGATGGCCAG
Found at i:9059115 original size:65 final size:65
Alignment explanation
Indices: 9059037--9059468 Score: 376
Period size: 65 Copynumber: 6.8 Consensus size: 65
9059027 TTTGGGTAAA
* * * **
9059037 ATAAACTGGGCTTAAATTTTATTGAAGGCCAGCTAAACTGAGCTTAAAACCTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAGATAAACTGAGCTTAAAATGTCATTGATGGCCAG
* * * **
9059102 ATAAAATGGGCTTAAATGTCATTGATGACCAGATAAACTG-GACTTAAAACT-TCATTGATGGTT
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAGATAAACTGAG-CTTAAAA-TGTCATTGATGGCC
9059165 AG
64 AG
* * * * *
9059167 ATAAACTAGGCTTAAATGTCATTGATGACCAGATAAACTG-GACTTAAAGTTTCATTGATGGCCA
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAGATAAACTGAG-CTTAAAATGTCATTGATGGCCA
9059231 G
65 G
** * * *
9059232 ATAAACTTAGCTTAAATGTCATTGATGGCCAGATAAACTGGGGTT--AA----A---ATGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGATGGCCAGATAAACTGAGCTTAAAATGTCATTGATGGCCAG
* *
9059288 ATAAATTGGGCTTAAAACTTT-ATTGATGGCCA-ATTAAACT-AGGCTT-AAATGTCATTGATGA
1 ATAAACTGGGCTT-AAA-TTTCATTGATGGCCAGA-TAAACTGA-GCTTAAAATGTCATTGATGG
9059349 CCAG
62 CCAG
* * * * * * *
9059353 ATAAAGTGAGCTTAAAGCTTCATTGATGGCCAGACAAA-TGGGGTTTAAATGTCATTGATGGCCA
1 ATAAACTGGGCTTAAA-TTTCATTGATGGCCAGATAAACTGAGCTTAAAATGTCATTGATGGCCA
9059417 G
65 G
* * *
9059418 ATAAATTGGGCTTAAAGCTTCATTGATGACCAGATAAACTGAGCTTAAAAT
1 ATAAACTGGGCTTAAA-TTTCATTGATGGCCAGATAAACTGAGCTTAAAAT
9059469 TTATTCTTTT
Statistics
Matches: 305, Mismatches: 41, Indels: 41
0.79 0.11 0.11
Matches are distributed among these distances:
56 19 0.06
57 23 0.08
58 4 0.01
59 1 0.00
62 1 0.00
63 1 0.00
64 11 0.04
65 234 0.77
66 11 0.04
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (65 bp):
ATAAACTGGGCTTAAATTTCATTGATGGCCAGATAAACTGAGCTTAAAATGTCATTGATGGCCAG
Found at i:9059283 original size:24 final size:24
Alignment explanation
Indices: 9059256--9059304 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9059246 AATGTCATTG
*
9059256 ATGGCCAGATAAACTGGGGTTAAA
1 ATGGCCAGATAAACTGGGCTTAAA
*
9059280 ATGGCCAGATAAATTGGGCTTAAA
1 ATGGCCAGATAAACTGGGCTTAAA
9059304 A
1 A
9059305 CTTTATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (24 bp):
ATGGCCAGATAAACTGGGCTTAAA
Found at i:9059326 original size:154 final size:158
Alignment explanation
Indices: 9059037--9059467 Score: 493
Period size: 154 Copynumber: 2.7 Consensus size: 158
9059027 TTTGGGTAAA
* * * * **
9059037 ATAAACTGGGCTTAAA-TTTTATTGAAGGCCAGCTAAACTGAGCTTAAAACCTCATTGATGGCCA
1 ATAAACTGGACTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTT-AAATGTCATTGATGGCCA
**
9059101 GATAAAATGGGCTTAAATGTCATTGATGACCAGATAAACTGGACTTAAAACTTCATTGATGGTTA
65 GATAAAATGGGCTTAAA--T-ATTGA-GACCAGATAAACTGGACTTAAAACTTCATTGATGGCCA
9059166 GATAAACTAGGCTTAAATGTCATTGATGACCAG
126 GATAAACTAGGCTTAAATGTCATTGATGACCAG
*
9059199 ATAAACTGGACTTAAAGTTTCATTGATGGCCAGATAAACTTAGCTTAAATGTCATTGATGGCCAG
1 ATAAACTGGACTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTTAAATGTCATTGATGGCCAG
* * * * *
9059264 ATAAACTGGGGTTAAA-A-TG-G-CCAGATAAATTGGGCTTAAAACTTTATTGATGGCCA-ATTA
66 ATAAAATGGGCTTAAATATTGAGACCAGATAAACTGGACTTAAAACTTCATTGATGGCCAGA-TA
9059324 AACTAGGCTTAAATGTCATTGATGACCAG
130 AACTAGGCTTAAATGTCATTGATGACCAG
* * * * *
9059353 ATAAAGT-GAGCTTAAAGCTTCATTGATGGCCAGACAAA-TGGGGTTTAAATGTCATTGATGGCC
1 ATAAACTGGA-CTTAAAGTTTCATTGATGGCCAGATAAACT-GAGCTTAAATGTCATTGATGGCC
*
9059416 AGATAAATTGGGCTTAAAGCTTCATTGATGACCAGATAAACT-GAGCTTAAAA
64 AGATAAAATGGGCTTAAA---T-ATTGA-GACCAGATAAACTGGA-CTTAAAA
9059468 TTTATTCTTT
Statistics
Matches: 231, Mismatches: 24, Indels: 27
0.82 0.09 0.10
Matches are distributed among these distances:
153 4 0.02
154 130 0.56
155 1 0.00
157 2 0.01
158 1 0.00
159 1 0.00
160 2 0.01
162 48 0.21
163 42 0.18
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (158 bp):
ATAAACTGGACTTAAAGTTTCATTGATGGCCAGATAAACTGAGCTTAAATGTCATTGATGGCCAG
ATAAAATGGGCTTAAATATTGAGACCAGATAAACTGGACTTAAAACTTCATTGATGGCCAGATAA
ACTAGGCTTAAATGTCATTGATGACCAG
Found at i:9059368 original size:89 final size:89
Alignment explanation
Indices: 9059195--9059468 Score: 247
Period size: 89 Copynumber: 3.0 Consensus size: 89
9059185 TCATTGATGA
* *
9059195 CCAGATAAACTGGACTTAAAGTTTCATTGATGGCCAGATAAACTTAGCTTAAATGTCATTGATGG
1 CCAGATAAACTGGACTTAAACTTTCATTGATGGCCAGATAAACTTAGCTTAAATGTCATTGATGA
* *
9059260 CCAGATAAACTGGGGTTAAAATGG
66 CCAGATAAACTGAGCTTAAAATGG
* *
9059284 CCAGATAAATTGGGCTTAAAACTTT-ATTGATGGCCA-ATTAAAC-TAGGCTTAAATGTCATTGA
1 CCAGATAAACTGGACTT-AAACTTTCATTGATGGCCAGA-TAAACTTA-GCTTAAATGTCATTGA
*
9059346 TGACCAGATAAAGTGAGCTTAAAGCTTCATTGATGG
63 TGACCAGATAAACTGAGCTT-AA-----A---ATGG
* ** * *
9059382 CCAGACAAA-TGGGGTTTAAA-TGTCATTGATGGCCAGATAAA-TTGGGCTTAAA-GCTTCATTG
1 CCAGATAAACT-GGACTTAAACTTTCATTGATGGCCAGATAAACTT-AGCTTAAATG--TCATTG
9059443 ATGACCAGATAAACTGAGCTTAAAAT
62 ATGACCAGATAAACTGAGCTTAAAAT
9059469 TTATTCTTTT
Statistics
Matches: 154, Mismatches: 12, Indels: 38
0.75 0.06 0.19
Matches are distributed among these distances:
88 3 0.02
89 65 0.42
90 8 0.05
92 1 0.01
95 1 0.01
96 3 0.02
97 29 0.19
98 44 0.29
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (89 bp):
CCAGATAAACTGGACTTAAACTTTCATTGATGGCCAGATAAACTTAGCTTAAATGTCATTGATGA
CCAGATAAACTGAGCTTAAAATGG
Found at i:9059457 original size:219 final size:219
Alignment explanation
Indices: 9059063--9059466 Score: 580
Period size: 219 Copynumber: 1.8 Consensus size: 219
9059053 TTTTATTGAA
* *
9059063 GGCCAGCTAAACTGAGCTTAAAACCTCATTGATGGCCAGATAAAATGGGCTTAAATGTCATTGAT
1 GGCCAGATAAACTGAGCTTAAAACCTCATTGATGGCCAGATAAAATAGGCTTAAATGTCATTGAT
** *
9059128 GACCAGATAAACTGGACTTAAAACTTCATTGATGGTTAGATAAACTAGGCTTAAATGTCATTGAT
66 GACCAGATAAACTGGACTTAAAACTTCATTGATGGCCAGACAAACTAGGCTTAAATGTCATTGAT
* * *
9059193 GACCAGATAAACTGGACTTAAAGTTTCATTGATGGCCAGATAAACTTAGCTTAAATGTCATTGAT
131 GACCAGATAAACTGGACTTAAAGCTTCATTGATGACCAGATAAACTGAGCTTAAATGTCATTGAT
9059258 GGCCAGATAAACTGGGGTTAAAAT
196 GGCCAGATAAACTGGGGTTAAAAT
* * * * *
9059282 GGCCAGATAAATTGGGCTTAAAACTTTATTGATGGCCA-ATTAAACTAGGCTTAAATGTCATTGA
1 GGCCAGATAAACTGAGCTTAAAACCTCATTGATGGCCAGA-TAAAATAGGCTTAAATGTCATTGA
* * * *
9059346 TGACCAGATAAAGT-GAGCTTAAAGCTTCATTGATGGCCAGACAAA-TGGGGTTTAAATGTCATT
65 TGACCAGATAAACTGGA-CTTAAAACTTCATTGATGGCCAGACAAACT-AGGCTTAAATGTCATT
* * *
9059409 GATGGCCAGATAAATTGGGCTTAAAGCTTCATTGATGACCAGATAAACTGAGCTTAAA
128 GATGACCAGATAAACTGGACTTAAAGCTTCATTGATGACCAGATAAACTGAGCTTAAA
9059467 ATTTATTCTT
Statistics
Matches: 162, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
218 4 0.02
219 158 0.98
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (219 bp):
GGCCAGATAAACTGAGCTTAAAACCTCATTGATGGCCAGATAAAATAGGCTTAAATGTCATTGAT
GACCAGATAAACTGGACTTAAAACTTCATTGATGGCCAGACAAACTAGGCTTAAATGTCATTGAT
GACCAGATAAACTGGACTTAAAGCTTCATTGATGACCAGATAAACTGAGCTTAAATGTCATTGAT
GGCCAGATAAACTGGGGTTAAAAT
Found at i:9061456 original size:12 final size:12
Alignment explanation
Indices: 9061439--9061468 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9061429 CAAAACTTCA
9061439 TTTTTTT-CTTT
1 TTTTTTTGCTTT
9061450 TTTTTTTGCTTT
1 TTTTTTTGCTTT
9061462 TTTTTTT
1 TTTTTTT
9061469 CAATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (12 bp):
TTTTTTTGCTTT
Found at i:9068690 original size:8 final size:8
Alignment explanation
Indices: 9068668--9068709 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
9068658 CCCTACTTTC
*
9068668 TATTTTTC
1 TATTTTTT
9068676 TA-TTTTT
1 TATTTTTT
9068683 TATTTTTT
1 TATTTTTT
9068691 T-TGTTTTT
1 TAT-TTTTT
9068699 TATTTTTT
1 TATTTTTT
9068707 TAT
1 TAT
9068710 AATAATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
7 7 0.23
8 22 0.73
9 1 0.03
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
TATTTTTT
Found at i:9068745 original size:3 final size:3
Alignment explanation
Indices: 9068739--9068783 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
9068729 TTTAAAAAAA
* * *
9068739 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA AAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9068784 ATTGAAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:9068746 original size:22 final size:24
Alignment explanation
Indices: 9068698--9068748 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
9068688 TTTTTGTTTT
* *
9068698 TTATTTTTTTATAATAATTAATAA
1 TTATTTTTTTATAAAAAATAATAA
*
9068722 TTATTTTTTTA-AAAAAAT-ATTA
1 TTATTTTTTTATAAAAAATAATAA
9068744 TTATT
1 TTATT
9068749 ATTATTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 5 0.21
24 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTTTTTTATAAAAAATAATAA
Found at i:9070594 original size:2 final size:2
Alignment explanation
Indices: 9070587--9070622 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9070577 ACTAAACATC
* *
9070587 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9070623 CCTCCCTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9079719 original size:121 final size:125
Alignment explanation
Indices: 9079595--9079891 Score: 380
Period size: 121 Copynumber: 2.4 Consensus size: 125
9079585 AATAATATGA
*
9079595 TATTAATAAATAATATTATAATATATTAATAAATAATATATTAT-ATAATAAATATT-A-TT-AT
1 TATTAATAAATAATATTATAATATATTAATAAATAATATATAATAATAAT-AATATTAATTTAAT
* * * **
9079656 AAATAAATATTATACTCATATATTAATTTTAATAAAATAATATT-ATATTAATA-AAT-CTTA-
65 AAATAAATATTATAATAATATATTAA--TAAATAAAATAATATTAATA-TAATATAATAAATAT
* *
9079716 TATTAATAAATAATATTGTAATATATTAATAAATAAT-TATAATAATAATAATATTAATTTAATT
1 TATTAATAAATAATATTATAATATATTAATAAATAATATATAATAATAATAATATTAATTTAATA
* *
9079780 AATAAATATTATAATAATATATTAATAAATAATATACTATTAATATAATATAATAAATAT
66 AATAAATATTATAATAATATATTAATAAATAAAATAATATTAATATAATATAATAAATAT
*
9079840 TATTAATAAATAATATTATAATTATATTAATAAATAATATA-AAGAATAATAA
1 TATTAATAAATAATATTATAA-TATATTAATAAATAATATATAATAATAATAA
9079892 ATAGTTTTAT
Statistics
Matches: 154, Mismatches: 12, Indels: 16
0.85 0.07 0.09
Matches are distributed among these distances:
120 11 0.07
121 60 0.39
122 8 0.05
123 27 0.18
124 20 0.13
125 26 0.17
126 2 0.01
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (125 bp):
TATTAATAAATAATATTATAATATATTAATAAATAATATATAATAATAATAATATTAATTTAATA
AATAAATATTATAATAATATATTAATAAATAAAATAATATTAATATAATATAATAAATAT
Found at i:9079762 original size:3 final size:3
Alignment explanation
Indices: 9079742--9079891 Score: 55
Period size: 3 Copynumber: 50.0 Consensus size: 3
9079732 TGTAATATAT
* * *
9079742 TAA TAAA TAA TTA TAA TAA TAA TAA TAT TAA T-T TAA TTAA TAA -ATA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TA-A
* * * *
9079788 TTA TAA TAA T-A TAT TAA TAAA TAA T-A TAC TAT TAA T-A TAA T-A
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
9079830 TAA TAAA TAT TAT TAA TAAA TAA T-A TTA TAA TTA TAT TAA TAAA TAA
1 TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
*
9079877 T-A TAAA GAA TAA TAA
1 TAA T-AA TAA TAA TAA
9079892 ATAGTTTTAT
Statistics
Matches: 109, Mismatches: 22, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
2 14 0.13
3 76 0.70
4 19 0.17
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:9079782 original size:24 final size:24
Alignment explanation
Indices: 9079755--9079835 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 24
9079745 TAAATAATTA
9079755 TAATAATAATAATATTAATTTAAT
1 TAATAATAATAATATTAATTTAAT
*
9079779 TAATAAATATTATAATAAT-ATATTAAT
1 TAAT-AATA--ATAATATTAAT-TTAAT
* * *
9079806 AAATAAT-ATACTATTAATATAAT
1 TAATAATAATAATATTAATTTAAT
9079829 ATAATAA
1 -TAATAA
9079836 ATATTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 10 0.22
24 11 0.24
25 4 0.09
26 5 0.11
27 15 0.33
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATAATAATAATATTAATTTAAT
Found at i:9079880 original size:15 final size:15
Alignment explanation
Indices: 9079510--9079880 Score: 162
Period size: 15 Copynumber: 26.8 Consensus size: 15
9079500 AATTTTACTT
9079510 ATAAAT-ATATATTA
1 ATAAATAATATATTA
9079524 ATAAATAATATCATATAA
1 ATAAATAATAT-AT-T-A
*
9079542 ATAAATAATATACT-
1 ATAAATAATATATTA
*
9079556 ATTAAT-A-ATATT-
1 ATAAATAATATATTA
* *
9079568 AT-TATAATATATTC
1 ATAAATAATATATTA
9079582 ATAAATAATATGA-T-
1 ATAAATAATAT-ATTA
* *
9079596 ATTAATAA-ATAAT-
1 ATAAATAATATATTA
*
9079609 AT-TATAATATATTA
1 ATAAATAATATATTA
9079623 ATAAATAATATATT-
1 ATAAATAATATATTA
9079637 ATATAATAA-ATATTA
1 ATA-AATAATATATTA
9079652 TTATAAATAA-ATATT-
1 --ATAAATAATATATTA
* *
9079667 AT-ACTCATATATTA
1 ATAAATAATATATTA
**
9079681 AT-TTTAATA-A--A
1 ATAAATAATATATTA
*
9079692 AT-AATATTATATTA
1 ATAAATAATATATTA
**
9079706 ATAAATCTTATATTA
1 ATAAATAATATATTA
9079721 ATAAAT-A-ATA-T-
1 ATAAATAATATATTA
*
9079732 -T--GTAATATATTA
1 ATAAATAATATATTA
*
9079744 ATAAATAATTATAATA
1 ATAAATAA-TATATTA
9079760 AT-AATAATATTAATTTA
1 ATAAATAATA-T-A-TTA
*
9079777 ATTAATAA-ATATT-
1 ATAAATAATATATTA
9079790 AT-AATAATATATTA
1 ATAAATAATATATTA
*
9079804 ATAAATAATATACT-
1 ATAAATAATATATTA
*
9079818 ATTAAT-ATA-ATATA
1 ATAAATAATATAT-TA
9079832 ATAAAT-AT-TATTA
1 ATAAATAATATATTA
9079845 ATAAAT-A-ATATT-
1 ATAAATAATATATTA
9079857 AT-AAT--TATATTA
1 ATAAATAATATATTA
9079869 ATAAATAATATA
1 ATAAATAATATA
9079881 AAGAATAATA
Statistics
Matches: 283, Mismatches: 27, Indels: 93
0.70 0.07 0.23
Matches are distributed among these distances:
8 1 0.00
9 1 0.00
10 4 0.01
11 18 0.06
12 27 0.10
13 54 0.19
14 59 0.21
15 68 0.24
16 24 0.08
17 10 0.04
18 17 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (15 bp):
ATAAATAATATATTA
Found at i:9079996 original size:16 final size:16
Alignment explanation
Indices: 9079929--9080003 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
9079919 TTAACGTAAT
*
9079929 ATTTTAATATTAAATA
1 ATTTTAATAATAAATA
*
9079945 TTATTATTAA-AATATAATT
1 --ATT-TTAATAATA-AATA
*
9079964 ATTTTAAT-ATTAATA
1 ATTTTAATAATAAATA
9079979 ATTTTAATAATAAATA
1 ATTTTAATAATAAATA
*
9079995 ATTTCAATA
1 ATTTTAATA
9080004 TATTTTAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 11 0.23
16 20 0.43
17 3 0.06
18 6 0.13
19 7 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTAATAATAAATA
Found at i:9079996 original size:25 final size:24
Alignment explanation
Indices: 9079968--9080038 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
9079958 ATAATTATTT
*
9079968 TAATATTAATAATTTTAATAATAAA
1 TAAT-TTAATAATTTTAATAACAAA
9079993 TAATTTCAATATATTTTAATAACAAA
1 TAATTT-AATA-ATTTTAATAACAAA
9080019 TAATTTTTAAT-ATTTTAATA
1 TAA--TTTAATAATTTTAATA
9080039 GTTATATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
24 2 0.05
25 17 0.41
26 16 0.39
27 3 0.07
28 3 0.07
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATTTAATAATTTTAATAACAAA
Found at i:9080012 original size:26 final size:26
Alignment explanation
Indices: 9079975--9080038 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
9079965 TTTTAATATT
*
9079975 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAACAAATAATTTC
*
9080000 AATATATTTTAATAACAAATAATTTT
1 AATATATTTTAATAACAAATAATTTC
*
9080026 TA-ATATTTTAATA
1 AATATATTTTAATA
9080039 GTTATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (26 bp):
AATATATTTTAATAACAAATAATTTC
Found at i:9082068 original size:26 final size:26
Alignment explanation
Indices: 9082013--9082069 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
9082003 TATTATTTCT
*
9082013 TAAAAATAATAATACATTTATTCATA
1 TAAAAATAATAATACATTTATTAATA
* *
9082039 TAAAAATAATAA-ATATTTATTTAATC
1 TAAAAATAATAATACATTTA-TTAATA
9082065 TAAAA
1 TAAAA
9082070 GTGCATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (26 bp):
TAAAAATAATAATACATTTATTAATA
Found at i:9083461 original size:22 final size:23
Alignment explanation
Indices: 9083427--9083476 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
9083417 CGGTTCAGGT
* * *
9083427 ATTTTTCTTTATTTTTCTTTCTA
1 ATTTTTCTATATTATTATTTCTA
9083450 ATTTTT-TATATTATTATTTCTA
1 ATTTTTCTATATTATTATTTCTA
*
9083472 GTTTT
1 ATTTT
9083477 ATTTTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTTTCTATATTATTATTTCTA
Found at i:9083605 original size:3 final size:3
Alignment explanation
Indices: 9083597--9083624 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9083587 AAAATGCTAA
9083597 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9083625 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9083710 original size:3 final size:3
Alignment explanation
Indices: 9083697--9083730 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
9083687 GGGGAATTAT
*
9083697 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9083731 AAAATTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9083898 original size:15 final size:15
Alignment explanation
Indices: 9083880--9083971 Score: 84
Period size: 15 Copynumber: 6.3 Consensus size: 15
9083870 TCAAAAAAAG
*
9083880 TAAAATCTAAAACCT
1 TAAAATCTAAAACCC
*
9083895 TAAAATCTAAACCCC
1 TAAAATCTAAAACCC
9083910 TAAAAT-TCAAAACCC
1 TAAAATCT-AAAACCC
* *
9083925 TAAAATCT-AAATCT
1 TAAAATCTAAAACCC
* *
9083939 TTAAAT-TGAAAACTC
1 TAAAATCT-AAAACCC
9083954 TAAAATC-AAAACCC
1 TAAAATCTAAAACCC
9083968 TAAA
1 TAAA
9083972 CCTTTCATAC
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
13 1 0.02
14 20 0.33
15 39 0.64
16 1 0.02
ACGTcount: A:0.52, C:0.22, G:0.01, T:0.25
Consensus pattern (15 bp):
TAAAATCTAAAACCC
Found at i:9085198 original size:26 final size:26
Alignment explanation
Indices: 9085169--9085218 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9085159 TATTAATAAT
* *
9085169 TATTGGATTTAATTAGTTTTATTTGA
1 TATTGAATTTAATTACTTTTATTTGA
* *
9085195 TATTTAATTTAATTCCTTTTATTT
1 TATTGAATTTAATTACTTTTATTT
9085219 TATTTTTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.08, T:0.62
Consensus pattern (26 bp):
TATTGAATTTAATTACTTTTATTTGA
Found at i:9087446 original size:24 final size:24
Alignment explanation
Indices: 9087411--9087472 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
9087401 GTCGTGCATT
9087411 CACTCATTCATTCATTCATTTGTG
1 CACTCATTCATTCATTCATTTGTG
*
9087435 CATTCATTCATTCATTCATTTGTG
1 CACTCATTCATTCATTCATTTGTG
9087459 CACTCATTCATTCA
1 CACTCATTCATTCA
9087473 ATATAATGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (24 bp):
CACTCATTCATTCATTCATTTGTG
Found at i:9087466 original size:28 final size:27
Alignment explanation
Indices: 9087404--9087472 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 27
9087394 TTTGTTAGTC
*
9087404 GTGCATTCACTCATTCATTCATTCATTT
1 GTGCA-TCATTCATTCATTCATTCATTT
9087432 GTG---CATTCATTCATTCATTCATTT
1 GTGCATCATTCATTCATTCATTCATTT
9087456 GTGCACTCATTCATTCA
1 GTGCA-TCATTCATTCA
9087473 ATATAATGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
24 23 0.64
28 13 0.36
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.45
Consensus pattern (27 bp):
GTGCATCATTCATTCATTCATTCATTT
Found at i:9087472 original size:4 final size:4
Alignment explanation
Indices: 9087407--9087454 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
9087397 GTTAGTCGTG
* ** *
9087407 CATT CACT CATT CATT CATT CATT TGTG CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
9087455 TGTGCACTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.23, C:0.25, G:0.04, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:9091305 original size:33 final size:33
Alignment explanation
Indices: 9091268--9091350 Score: 157
Period size: 33 Copynumber: 2.5 Consensus size: 33
9091258 CATTAACAAA
9091268 GTTTTAAGCCTAGTTTATTTGACCCCAAATAAG
1 GTTTTAAGCCTAGTTTATTTGACCCCAAATAAG
9091301 GTTTTAAGCCTAGTTTATTTGACCCCAAATAAG
1 GTTTTAAGCCTAGTTTATTTGACCCCAAATAAG
*
9091334 GTTTTAAGCCCAGTTTA
1 GTTTTAAGCCTAGTTTA
9091351 GCTGGCACAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (33 bp):
GTTTTAAGCCTAGTTTATTTGACCCCAAATAAG
Found at i:9091721 original size:22 final size:22
Alignment explanation
Indices: 9091669--9091721 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 22
9091659 CTACATAAAT
9091669 TTTAAGCCCAGTGTAGCTAGCC
1 TTTAAGCCCAGTGTAGCTAGCC
*
9091691 TCCAATTAAGCCCAGTTTAGCTAGCC
1 T----TTAAGCCCAGTGTAGCTAGCC
9091717 TTTAA
1 TTTAA
9091722 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
22 5 0.19
26 21 0.81
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
TTTAAGCCCAGTGTAGCTAGCC
Found at i:9091754 original size:32 final size:32
Alignment explanation
Indices: 9091696--9091973 Score: 157
Period size: 33 Copynumber: 8.5 Consensus size: 32
9091686 TAGCCTCCAA
* * * *
9091696 TTAAGCCCAGTTTAGCTAGCCTTTAATAAAAT
1 TTAAGCCCAGTTTATCTGGCCATCAATAAAAT
* * **
9091728 TTTAGCCCAGTTTATCTGGCCATTAATGAAGTT
1 TTAAGCCCAGTTTATCTGGCCATCAAT-AAAAT
* * * * * *
9091761 TTAAGCCTAATTTTTTTGGCCATCAA-GAGAT
1 TTAAGCCCAGTTTATCTGGCCATCAATAAAAT
* * *
9091792 TTGAAACCCAGTTTAGCTGGCCCTCAA-AGAAAT
1 TT-AAGCCCAGTTTATCTGGCCATCAATA-AAAT
* * *
9091825 TTAAGCCCAATCTATCTGGCCTTCAA-AGAAGAT
1 TTAAGCCCAGTTTATCTGGCCATCAATA-AA-AT
* * *
9091858 TTAAGCCTAGTGTATTTGGCCATCAATAAAAT
1 TTAAGCCCAGTTTATCTGGCCATCAATAAAAT
* * * **
9091890 TCTAAGTCTAGTTTATCTGGCCATTAATGAAGTT
1 T-TAAGCCCAGTTTATCTGGCCATCAAT-AAAAT
* * * *
9091924 TTAAGTCCAATTTAGCTGGCCATCAAAAAAGAT
1 TTAAGCCCAGTTTATCTGGCCATCAATAAA-AT
* *
9091957 CTAAGCCCAATTTATCT
1 TTAAGCCCAGTTTATCT
9091974 AGCCCTAAAT
Statistics
Matches: 189, Mismatches: 49, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
31 5 0.03
32 68 0.36
33 111 0.59
34 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (32 bp):
TTAAGCCCAGTTTATCTGGCCATCAATAAAAT
Found at i:9091876 original size:97 final size:97
Alignment explanation
Indices: 9091701--9091883 Score: 235
Period size: 97 Copynumber: 1.9 Consensus size: 97
9091691 TCCAATTAAG
* * * * * * *
9091701 CCCAGTTTAGCTAGCCTTTAATAAAATTTTAGCCCAGTTTATCTGGCCATTAATGAAGTTTTAAG
1 CCCAGTTTAGCTAGCCCTCAATAAAATTTAAGCCCAATCTATCTGGCCATTAAAGAAGATTTAAG
* *
9091766 CCTAATTTTTTTGGCCATCAAGAGATTTGAAA
66 CCTAATGTATTTGGCCATCAAGAGATTTGAAA
*
9091798 CCCAGTTTAGCTGGCCCTCAA-AGAAATTTAAGCCCAATCTATCTGGCC-TTCAAAGAAGATTTA
1 CCCAGTTTAGCTAGCCCTCAATA-AAATTTAAGCCCAATCTATCTGGCCATT-AAAGAAGATTTA
*
9091861 AGCCTAGTGTATTTGGCCATCAA
64 AGCCTAATGTATTTGGCCATCAA
9091884 TAAAATTCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
96 3 0.04
97 70 0.96
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (97 bp):
CCCAGTTTAGCTAGCCCTCAATAAAATTTAAGCCCAATCTATCTGGCCATTAAAGAAGATTTAAG
CCTAATGTATTTGGCCATCAAGAGATTTGAAA
Found at i:9092420 original size:110 final size:110
Alignment explanation
Indices: 9092223--9092455 Score: 281
Period size: 110 Copynumber: 2.1 Consensus size: 110
9092213 GAACATGATT
* * * * *
9092223 TGTAAGACC-TCTGGGCATAATCTTTAAGACCTCCAGGCATAATTTCAATTTATGGTGTTGTCCC
1 TGTAAGACCTTC-GGGCATAATATTTAAAACCTCCAAGCATAATTTCAATTTATGATGTTGTCAC
* *
9092287 AATCGATTCTTTATTTTTCGACTTGA-GGTGTTATCCTAGTCAATTC
65 AATCGATTCTTTATTTTTCGACTT-ATAGTGTTATCCCAGTCAATTC
* * **
9092333 TGTAAGACCTTCGGGCATAATATTTAAAACCTCCAAGCATAATTTCGATTTGTGATGTTGTCATG
1 TGTAAGACCTTCGGGCATAATATTTAAAACCTCCAAGCATAATTTCAATTTATGATGTTGTCACA
* * * *
9092398 ATGGATTCTTTATTTTTTGACTTATAGTGTTGTCCCAGTCAATTT
66 ATCGATTCTTTATTTTTCGACTTATAGTGTTATCCCAGTCAATTC
* *
9092443 TGCAAGATCTTCG
1 TGTAAGACCTTCG
9092456 AACATGATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
109 1 0.01
110 101 0.97
111 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (110 bp):
TGTAAGACCTTCGGGCATAATATTTAAAACCTCCAAGCATAATTTCAATTTATGATGTTGTCACA
ATCGATTCTTTATTTTTCGACTTATAGTGTTATCCCAGTCAATTC
Found at i:9092612 original size:22 final size:22
Alignment explanation
Indices: 9092572--9092618 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9092562 CCCGATCGAT
* * *
9092572 TTTGTAAGACCTTCGGGCATGA
1 TTTGTAAGACCTCCAGGCATAA
9092594 TTTGTAAGACCTCCAGGCATAA
1 TTTGTAAGACCTCCAGGCATAA
9092616 TTT
1 TTT
9092619 TGATTCATGA
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:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (22 bp):
TTTGTAAGACCTCCAGGCATAA
Found at i:9092633 original size:109 final size:110
Alignment explanation
Indices: 9092520--9092718 Score: 276
Period size: 110 Copynumber: 1.8 Consensus size: 110
9092510 CAATTCGCAG
* * * *
9092520 TATTATCCCGATCGATTTTTTA-ATTTCAACTTGCAGG-GTTGTCCCGATCGATTTTGTAAGACC
1 TATTATCCCAATCGATTTTTTATATTTCAACTTGC-GGTGTTATCCCAATCGATTCTGTAAGACC
* *
9092583 TTCGGGCATGATTTGTAAGACCTCCAGGCATAATTTTGATTCATGA
65 TTCGGGCATAATTTCTAAGACCTCCAGGCATAATTTTGATTCATGA
* * *
9092629 TATTATCCCAATTGATTTTTTATTTTTTAACTTGCGGTGTTATCCCAATCGATTCTGTAAGACCT
1 TATTATCCCAATCGATTTTTTATATTTCAACTTGCGGTGTTATCCCAATCGATTCTGTAAGACCT
* *
9092694 TCGGGTATAATTTCTAGGACCTCCA
66 TCGGGCATAATTTCTAAGACCTCCA
9092719 AACTTAATCT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
109 22 0.29
110 55 0.71
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (110 bp):
TATTATCCCAATCGATTTTTTATATTTCAACTTGCGGTGTTATCCCAATCGATTCTGTAAGACCT
TCGGGCATAATTTCTAAGACCTCCAGGCATAATTTTGATTCATGA
Found at i:9092709 original size:241 final size:240
Alignment explanation
Indices: 9092162--9092816 Score: 706
Period size: 241 Copynumber: 2.7 Consensus size: 240
9092152 CCTAGTCGAA
* *
9092162 TCTTTATTTTTTGACTTGTGGTGTTGTCCCAGTCAATTCTGTAAGACCTCCGAACATGATTTGTA
1 TCTTTATTTTTTGACTTGTGGTGTTGTCCCAGTCAATTCTGTAAGACCTTCGAACATGATTTCTA
* * * * * *
9092227 AGACCTCTGGGCATAATCTTTAAGACCTCCAGGCATAATTTCAATTTATGGTGTTGTCCCAATCG
66 AGACCTCCGAGCATAATCTTTAAGACCTCTAGGCATAATTTCAA-TT-CGGTATTGTCCCGATCG
* * * *
9092292 ATTCTTTATTTTTCGACTTG-AGGTGTTATCCTAGTCAATTCTGTAAGACCTTCGGGCATAATAT
129 ATTCTTTA-TTTTCGACTTGCAGGTGTTATCCCAATCGATTTTGTAAGACCTTCGGGCATAATAT
** * * **
9092356 TTAAAACCTCCAAGCATAATTTCGATTTGTGATGTTGTCATGATGGAT
193 TTAAAACCTCCAAGCATAATTTCGATTCATGATATTATCACAATGGAT
* * * * *
9092404 TCTTTATTTTTTGACTTATAGTGTTGTCCCAGTCAATTTTGCAAGATCTTCGAACATGATTTCTA
1 TCTTTATTTTTTGACTTGTGGTGTTGTCCCAGTCAATTCTGTAAGACCTTCGAACATGATTTCTA
* * *
9092469 AGATCTCCGAGCATAATCTTTAAGACCTCTAAGCATAATTTCAATTCGCAGTATTATCCCGATCG
66 AGACCTCCGAGCATAATCTTTAAGACCTCTAGGCATAATTTCAATTCG--GTATTGTCCCGATCG
* * * * * *
9092534 ATTTTTTAATTTCAACTTGCAGG-GTTGTCCCGATCGATTTTGTAAGACCTTCGGGCATGAT-TT
129 ATTCTTTATTTTCGACTTGCAGGTGTTATCCCAATCGATTTTGTAAGACCTTCGGGCATAATATT
* * * * *
9092597 GTAAGACCTCCAGGCATAATTTTGATTCATGATATTATCCCAATTGAT
194 -TAAAACCTCCAAGCATAATTTCGATTCATGATATTATCACAATGGAT
* * * * * * *** *
9092645 TTTTTATTTTTTAACTTGCGGTGTTATCCCAATCGATTCTGTAAGACCTTCGGGTATAATTTCTA
1 TCTTTATTTTTTGACTTGTGGTGTTGTCCCAGTCAATTCTGTAAGACCTTCGAACATGATTTCTA
* * * * * ** *
9092710 GGACCTCCAAACTTAATCTTTAAGAACTCTAGGGCATAATTTTGATTACGGTATTGTCTCGATCG
66 AGACCTCCGAGCATAATCTTTAAGACCTCTA-GGCATAATTTCAATT-CGGTATTGTCCCGATCG
9092775 ATTCTTTATTTCTCGACTTGC-GGTGTTATCCCAATCGATTTT
129 ATTCTTTATTT-TCGACTTGCAGGTGTTATCCCAATCGATTTT
9092817 TTACTTCTCG
Statistics
Matches: 337, Mismatches: 68, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
240 3 0.01
241 177 0.53
242 155 0.46
243 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (240 bp):
TCTTTATTTTTTGACTTGTGGTGTTGTCCCAGTCAATTCTGTAAGACCTTCGAACATGATTTCTA
AGACCTCCGAGCATAATCTTTAAGACCTCTAGGCATAATTTCAATTCGGTATTGTCCCGATCGAT
TCTTTATTTTCGACTTGCAGGTGTTATCCCAATCGATTTTGTAAGACCTTCGGGCATAATATTTA
AAACCTCCAAGCATAATTTCGATTCATGATATTATCACAATGGAT
Found at i:9092825 original size:37 final size:37
Alignment explanation
Indices: 9092771--9092903 Score: 142
Period size: 37 Copynumber: 3.6 Consensus size: 37
9092761 TATTGTCTCG
* * * * *
9092771 ATCGATTCTTTATTTCTCGACTTGCGGTGTTATCCCA
1 ATCGATTTTTTACTTCTCAACTCGCGGTGTTGTCCCA
* * *
9092808 ATCGATTTTTTACTTCTCGACTCACGGTGTTGTCCCG
1 ATCGATTTTTTACTTCTCAACTCGCGGTGTTGTCCCA
* * *
9092845 ATCGTTTTTTTACTTTTCAACTCGTGGTGTTGTCCCA
1 ATCGATTTTTTACTTCTCAACTCGCGGTGTTGTCCCA
*
9092882 ATCG-TCTTCTTACTTCTCAACT
1 ATCGAT-TTTTTACTTCTCAACT
9092904 TTTTCTTTTA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
36 1 0.01
37 80 0.99
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (37 bp):
ATCGATTTTTTACTTCTCAACTCGCGGTGTTGTCCCA
Found at i:9094790 original size:45 final size:43
Alignment explanation
Indices: 9094739--9094839 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 43
9094729 AAAAAAAAAA
*
9094739 TTAAAATCAAAACCTAAAATTTCTAAACCCCT-AAATTCCAAAACC
1 TTAAAATCAAAACCTAAAA--TCCAAACCCCTAAAATT-CAAAACC
* *
9094784 TTAAAATCCAAACCCTTAAATCCAAACCCCTAAAATTCAAAACC
1 TTAAAAT-CAAAACCTAAAATCCAAACCCCTAAAATTCAAAACC
*
9094828 CTAAAATTCAAA
1 TTAAAA-TCAAA
9094840 CCCCAAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
44 26 0.53
45 13 0.27
46 10 0.20
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (43 bp):
TTAAAATCAAAACCTAAAATCCAAACCCCTAAAATTCAAAACC
Found at i:9094793 original size:15 final size:15
Alignment explanation
Indices: 9094740--9094839 Score: 89
Period size: 15 Copynumber: 6.7 Consensus size: 15
9094730 AAAAAAAAAT
9094740 TAAAAT-CAAAA-CC
1 TAAAATCCAAAACCC
* *
9094753 TAAAATTTCTAAACCCC
1 TAAAA--TCCAAAACCC
* *
9094770 TAAATTCCAAAACCT
1 TAAAATCCAAAACCC
9094785 TAAAATCC-AAACCC
1 TAAAATCCAAAACCC
* *
9094799 TTAAATCCAAACCCC
1 TAAAATCCAAAACCC
*
9094814 TAAAATTCAAAACCC
1 TAAAATCCAAAACCC
*
9094829 TAAAATTCAAA
1 TAAAATCCAAA
9094840 CCCCAAAACT
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
13 5 0.07
14 12 0.17
15 43 0.62
16 3 0.04
17 6 0.09
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAAATCCAAAACCC
Found at i:9094862 original size:30 final size:30
Alignment explanation
Indices: 9094751--9094847 Score: 99
Period size: 29 Copynumber: 3.2 Consensus size: 30
9094741 AAAATCAAAA
* * *
9094751 CCTAAAATTTCTAAACCCCTAAATTCCAAAAC
1 CCTAAAA-TTC-AAAACCCTAAAATCCAAACC
* * *
9094783 CTTAAAA-TCCAAACCCTTAAATCCAAACC
1 CCTAAAATTCAAAACCCTAAAATCCAAACC
*
9094812 CCTAAAATTCAAAACCCTAAAATTCAAACC
1 CCTAAAATTCAAAACCCTAAAATCCAAACC
9094842 CC-AAAA
1 CCTAAAA
9094848 CTTTTAAAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
29 25 0.46
30 23 0.43
32 6 0.11
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (30 bp):
CCTAAAATTCAAAACCCTAAAATCCAAACC
Found at i:9094868 original size:21 final size:22
Alignment explanation
Indices: 9094842--9094884 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9094832 AATTCAAACC
*
9094842 CCAAAACTTT-TAAAACCTAAA
1 CCAAAAATTTCTAAAACCTAAA
*
9094863 CCAAAAATTTCTAAACCCTAAA
1 CCAAAAATTTCTAAAACCTAAA
9094885 ATCAAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (22 bp):
CCAAAAATTTCTAAAACCTAAA
Found at i:9098421 original size:17 final size:18
Alignment explanation
Indices: 9098399--9098434 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9098389 TACAAGTATA
*
9098399 TTATTTTT-ATTCAAATT
1 TTATTTTTAATGCAAATT
9098416 TTATTTTTAATGCAAATT
1 TTATTTTTAATGCAAATT
9098434 T
1 T
9098435 CTTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (18 bp):
TTATTTTTAATGCAAATT
Found at i:9099881 original size:19 final size:21
Alignment explanation
Indices: 9099835--9099880 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
9099825 AATTATATAA
*
9099835 TTATATTTTAAAAATAATATT
1 TTATATTTAAAAAATAATATT
9099856 TTATATTTAAAAAATAATATT
1 TTATATTTAAAAAATAATATT
9099877 TTAT
1 TTAT
9099881 TAATTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATATTTAAAAAATAATATT
Found at i:9101057 original size:25 final size:26
Alignment explanation
Indices: 9101029--9101081 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
9101019 TTTTAATATG
**
9101029 ATTTAATTTAAAATTAT-ATATTAAA
1 ATTTAATAAAAAATTATAATATTAAA
*
9101054 ATTTAGTAAAAAATTATAAATATTAAA
1 ATTTAATAAAAAATTAT-AATATTAAA
9101081 A
1 A
9101082 AAAATCCCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 14 0.61
27 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTTAATAAAAAATTATAATATTAAA
Found at i:9101518 original size:18 final size:19
Alignment explanation
Indices: 9101486--9101521 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9101476 TATTTTATTA
9101486 ATTAAAATAATAAAAATTT
1 ATTAAAATAATAAAAATTT
9101505 ATTAAAAT-ATAAAAATT
1 ATTAAAATAATAAAAATT
9101522 AGATTAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTAAAATAATAAAAATTT
Found at i:9101527 original size:19 final size:19
Alignment explanation
Indices: 9101482--9101529 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
9101472 GAGATATTTT
9101482 ATTAATTAAAATAATAAAA
1 ATTAATTAAAATAATAAAA
*
9101501 ATTTATTAAAAT-ATAAAA
1 ATTAATTAAAATAATAAAA
9101519 ATTAGATTAAA
1 ATTA-ATTAAA
9101530 CTCGTGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTAATTAAAATAATAAAA
Found at i:9101982 original size:30 final size:29
Alignment explanation
Indices: 9101916--9101985 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
9101906 ATAATCGATT
*
9101916 AAATTTTAATATTTTATTACAATTAATTA
1 AAATTTTAATTTTTTATTACAATTAATTA
* * *
9101945 AAATTTTAATTTTTTATTTCGATTTAATTG
1 AAATTTTAATTTTTTATTAC-AATTAATTA
*
9101975 AACTTTTAATT
1 AAATTTTAATT
9101986 AAATAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (29 bp):
AAATTTTAATTTTTTATTACAATTAATTA
Found at i:9102094 original size:14 final size:14
Alignment explanation
Indices: 9102075--9102102 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9102065 AAAGAGAAAC
9102075 AATAAAGAATAAAA
1 AATAAAGAATAAAA
9102089 AATAAAGAATAAAA
1 AATAAAGAATAAAA
9102103 TTTTATTTTA
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:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AATAAAGAATAAAA
Found at i:9103071 original size:2 final size:2
Alignment explanation
Indices: 9103066--9103090 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9103056 TCTCTCTCTC
9103066 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 T
9103091 TCACTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.