Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 366 of 373
Found at i:121018679 original size:38 final size:38
Alignment explanation
Indices: 121018634--121018707 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
121018624 AATTTGCTAC
* *
121018634 TAGCCTCTATGCCTTTTCAAAGGTCATGTTATATTTGT
1 TAGCCTCTATGCCTCTTCAAAGGTCATATTATATTTGT
*
121018672 TAGCCTCTATGCCTCTTCAAAGGTCGTATTATATTT
1 TAGCCTCTATGCCTCTTCAAAGGTCATATTATATTT
121018708 ATAAGCTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (38 bp):
TAGCCTCTATGCCTCTTCAAAGGTCATATTATATTTGT
Found at i:121019031 original size:26 final size:29
Alignment explanation
Indices: 121018995--121019060 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 29
121018985 ACTAGTAGTT
**
121018995 AAACGTAAATTTTGAAATCT-AAAA-A-AA
1 AAAC-TAAATTTTGAAAAATAAAAATATAA
*
121019022 AAACTAAATTTTTAAAAATAAAAATATAA
1 AAACTAAATTTTGAAAAATAAAAATATAA
121019051 AAACTAAATT
1 AAACTAAATT
121019061 CCAAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 12 0.36
27 8 0.24
28 1 0.03
29 12 0.36
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (29 bp):
AAACTAAATTTTGAAAAATAAAAATATAA
Found at i:121026861 original size:14 final size:15
Alignment explanation
Indices: 121026826--121026863 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
121026816 TTCCAACTCC
121026826 TCGTTTTTTCCCTCT
1 TCGTTTTTTCCCTCT
121026841 TCGTTTTTTCCCTCT
1 TCGTTTTTTCCCTCT
121026856 TC-TTTTTT
1 TCGTTTTTT
121026864 GAGTTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.00, C:0.29, G:0.05, T:0.66
Consensus pattern (15 bp):
TCGTTTTTTCCCTCT
Found at i:121028552 original size:21 final size:21
Alignment explanation
Indices: 121028528--121028568 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
121028518 ACATATTGTA
* *
121028528 TATTCATATCCTATTCAAAAG
1 TATTCACATCATATTCAAAAG
121028549 TATTCACATCATATTCAAAA
1 TATTCACATCATATTCAAAA
121028569 ATAGTAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (21 bp):
TATTCACATCATATTCAAAAG
Found at i:121032392 original size:11 final size:11
Alignment explanation
Indices: 121032333--121032393 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
121032323 ATTATAAATT
121032333 TATTTTAATAA
1 TATTTTAATAA
121032344 TTCATTTTAAATTAA
1 -T-ATTTT-AA-TAA
121032359 TATTTTAA-AA
1 TATTTTAATAA
**
121032369 TAATTTTTTTAA
1 T-ATTTTAATAA
121032381 TATTTTAATAA
1 TATTTTAATAA
121032392 TA
1 TA
121032394 AATATGTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 3 0.08
11 15 0.38
12 6 0.15
13 10 0.25
14 3 0.08
15 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:121032450 original size:24 final size:24
Alignment explanation
Indices: 121032423--121032471 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
121032413 ATTAAAATCT
121032423 AATAAAAATTATTTT-ATAATATAA
1 AATAAAAA-TATTTTAATAATATAA
**
121032447 AATATTAATATTTTAATAATATAA
1 AATAAAAATATTTTAATAATATAA
121032471 A
1 A
121032472 TATGAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAAAAATATTTTAATAATATAA
Found at i:121032460 original size:23 final size:23
Alignment explanation
Indices: 121032432--121032482 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
121032422 TAATAAAAAT
*
121032432 TATTTT-ATAATATAAAATATTAA
1 TATTTTAATAATAT-AAATATGAA
121032455 TATTTTAATAATATAAATATGAA
1 TATTTTAATAATATAAATATGAA
121032478 TATTT
1 TATTT
121032483 ATTTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATTTTAATAATATAAATATGAA
Found at i:121037085 original size:27 final size:28
Alignment explanation
Indices: 121037038--121037091 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
121037028 ACATTATTAA
**
121037038 TCACTTAATTATTATTTTTTAT-TTTTG
1 TCACTTAATTATTATAATTTATCTTTTG
121037065 TCACTTAATTATTCA-AATTTATCTTTT
1 TCACTTAATTATT-ATAATTTATCTTTT
121037092 TAGTCACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (28 bp):
TCACTTAATTATTATAATTTATCTTTTG
Found at i:121039515 original size:6 final size:6
Alignment explanation
Indices: 121039502--121039549 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
121039492 TAATAACTTT
* *
121039502 ATTATA ATTGTA ATTATA ATT-TAA ATTATA ATTATTA ATTAAA ATTAT
1 ATTATA ATTATA ATTATA ATTAT-A ATTATA ATTA-TA ATTATA ATTAT
121039550 TATAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 1 0.03
6 27 0.77
7 7 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:121039519 original size:12 final size:12
Alignment explanation
Indices: 121039502--121039559 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
121039492 TAATAACTTT
121039502 ATTATAATTGT-A
1 ATTATAATT-TAA
121039514 ATTATAATTTAA
1 ATTATAATTTAA
*
121039526 ATTATAATTATTA
1 ATTATAATT-TAA
*
121039539 ATTA-AAATT--
1 ATTATAATTTAA
121039548 ATTATAATTTAA
1 ATTATAATTTAA
121039560 TATTGACATT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 2 0.05
12 22 0.58
13 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
ATTATAATTTAA
Found at i:121039533 original size:18 final size:19
Alignment explanation
Indices: 121039502--121039549 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
121039492 TAATAACTTT
* *
121039502 ATTATAATTGTAATTA-TA
1 ATTAAAATTATAATTATTA
*
121039520 ATTTAAATTATAATTATTA
1 ATTAAAATTATAATTATTA
121039539 ATTAAAATTAT
1 ATTAAAATTAT
121039550 TATAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTAAAATTATAATTATTA
Found at i:121039547 original size:13 final size:13
Alignment explanation
Indices: 121039502--121039551 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 13
121039492 TAATAACTTT
*
121039502 ATTATAATT-GTA
1 ATTATAATTATTA
*
121039514 ATTATAATT-TAA
1 ATTATAATTATTA
121039526 ATTATAATTATTA
1 ATTATAATTATTA
*
121039539 ATTAAAATTATTA
1 ATTATAATTATTA
121039552 TAATTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
12 19 0.58
13 14 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
ATTATAATTATTA
Found at i:121046420 original size:13 final size:14
Alignment explanation
Indices: 121046404--121046439 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
121046394 CAATCTCATA
121046404 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
121046417 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
121046430 TCTC-ATTTCA
1 TCTCAATTTCA
121046440 TTCCAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:121046429 original size:18 final size:19
Alignment explanation
Indices: 121046391--121046431 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
121046381 TGGTTCATGT
121046391 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
121046410 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
121046428 TTTC
1 TTTC
121046432 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:121046642 original size:21 final size:21
Alignment explanation
Indices: 121046618--121046688 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
121046608 TGCCTAAAAT
*
121046618 GACACACGAGGTACCTGATAC
1 GACACACGAGGTGCCTGATAC
121046639 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
*
121046660 GACACACAAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG--ATAC
121046683 GACACA
1 GACACA
121046689 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.35, C:0.28, G:0.24, T:0.13
Consensus pattern (21 bp):
GACACACGAGGTGCCTGATAC
Found at i:121046644 original size:42 final size:43
Alignment explanation
Indices: 121046593--121046698 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
121046583 CCTGATCAAT
* *
121046593 ATACGACACATAAAGTGCCTAAAATGACACACGAGGTACCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACAAGGTACCTGA
** * * * *
121046635 ATACGACACACGAGGTGCCTGATACGACACACAAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACAAGGTACCTG-A
121046679 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
121046699 GATCGATAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 34 0.67
44 17 0.33
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACAAGGTACCTGA
Found at i:121046696 original size:23 final size:22
Alignment explanation
Indices: 121046593--121046700 Score: 105
Period size: 21 Copynumber: 5.0 Consensus size: 22
121046583 CCTGATCAAT
* *
121046593 ATACGACACATAAAGTGCCT-A
1 ATACGACACACAAGGTGCCTGA
* * * *
121046614 AAATGACACACGAGGTACCTG-
1 ATACGACACACAAGGTGCCTGA
*
121046635 ATACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
121046656 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* *
121046679 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
121046701 TCGATAAAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
21 52 0.72
22 1 0.01
23 19 0.26
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:121046887 original size:19 final size:19
Alignment explanation
Indices: 121046863--121046905 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
121046853 CCCATTTTCA
121046863 CAATTCATAC-AATATCA-TT
1 CAATTCA-ACAAATAT-ATTT
121046882 CAATTCAACAAATATATTT
1 CAATTCAACAAATATATTT
121046901 CAATT
1 CAATT
121046906 ATGCACATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (19 bp):
CAATTCAACAAATATATTT
Found at i:121047097 original size:15 final size:15
Alignment explanation
Indices: 121047072--121047129 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
121047062 TCATATATAT
121047072 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
121047088 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
121047103 AATAATTTCAATCAA
1 TATAAATTCAATCAA
121047118 TATAAATTCAAT
1 TATAAATTCAAT
121047130 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:121047114 original size:30 final size:28
Alignment explanation
Indices: 121047075--121047133 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
121047065 TATATATTAT
121047075 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
121047104 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
121047133 A
1 A
121047134 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:121058473 original size:6 final size:6
Alignment explanation
Indices: 121058462--121058500 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
121058452 TTTGAATTAT
* *
121058462 ATTTGA ATTTGA ATTTGT ATTTGA A-TTGA ATTTTA ATTT
1 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATTT
121058501 TTAATTCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (6 bp):
ATTTGA
Found at i:121058500 original size:17 final size:17
Alignment explanation
Indices: 121058452--121058496 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
121058442 GTAGAAAAAG
*
121058452 TTTGAATTATATTTGAA
1 TTTGAATTTTATTTGAA
121058469 TTTGAATTTGTATTTGAA
1 TTTGAATTT-TATTTGAA
121058487 -TTGAATTTTA
1 TTTGAATTTTA
121058497 ATTTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 16 0.62
18 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (17 bp):
TTTGAATTTTATTTGAA
Found at i:121059466 original size:58 final size:58
Alignment explanation
Indices: 121059369--121059490 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 58
121059359 ATTCTATAGT
* *
121059369 TAATTATAGAAGCTGCATTGATGTTTACATCCGCTAATCACTAATGCTTACTCTGTTA
1 TAATTATAGAAGCTGCATAGATGTTTACATCCGCTAATCACTAATGCTTACTCTGTCA
* * * *
121059427 TAATTATAGAAGCTGCATCAG-TGTTTACATTC-TTGAATCACTAATGTTTATTCTGTCA
1 TAATTATAGAAGCTGCAT-AGATGTTTACATCCGCT-AATCACTAATGCTTACTCTGTCA
121059485 T-ATTAT
1 TAATTAT
121059491 TTAAGAATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 6 0.11
58 49 0.88
59 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (58 bp):
TAATTATAGAAGCTGCATAGATGTTTACATCCGCTAATCACTAATGCTTACTCTGTCA
Found at i:121075631 original size:2 final size:2
Alignment explanation
Indices: 121075624--121075648 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
121075614 ATATTTGTTC
121075624 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 A
121075649 ACAAACTCTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121075996 original size:31 final size:30
Alignment explanation
Indices: 121075961--121076020 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
121075951 TTTCGAGAGT
* *
121075961 TTAATTAAGATTTTTGAAACTTTTGTAAGGC
1 TTAATTAAAATTTTTAAAACTTTTG-AAGGC
*
121075992 TTAATTAAAATTTTTAAAATTTTTGAAGG
1 TTAATTAAAATTTTTAAAACTTTTGAAGG
121076021 ATTTAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (30 bp):
TTAATTAAAATTTTTAAAACTTTTGAAGGC
Found at i:121080550 original size:16 final size:16
Alignment explanation
Indices: 121080496--121080550 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
121080486 TTAATTTTTG
*
121080496 TTATTTTTT-TAGAAA
1 TTATTTTTTATAGTAA
*
121080511 TTATTTTTATCATACTAA
1 TTATTTTT-T-ATAGTAA
*
121080529 TAATTTTTTATAGTAA
1 TTATTTTTTATAGTAA
121080545 TTATTT
1 TTATTT
121080551 AAAAAAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.25
16 12 0.38
17 1 0.03
18 11 0.34
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (16 bp):
TTATTTTTTATAGTAA
Found at i:121081508 original size:11 final size:11
Alignment explanation
Indices: 121081492--121081524 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
121081482 TCATAAACCC
121081492 TTTGATTTGAT
1 TTTGATTTGAT
121081503 TTTGATTTGAT
1 TTTGATTTGAT
121081514 TTTGATATTGA
1 TTTGAT-TTGA
121081525 AGTAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (11 bp):
TTTGATTTGAT
Found at i:121088374 original size:47 final size:47
Alignment explanation
Indices: 121088305--121088395 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 47
121088295 GGTTTCTAAA
* *
121088305 ATGAATAAACTTATGAAGCTCTTTGGCATTTACCAATAATAGACAAC
1 ATGAATAAACTTATGAAGCTCTTCGGCATTTACCAAAAATAGACAAC
*
121088352 ATGAATAAACTTGA-GAAGCTCTTCGGCATTTACTAAAAATAGAC
1 ATGAATAAACTT-ATGAAGCTCTTCGGCATTTACCAAAAATAGAC
121088396 TTGGTAATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 39 0.98
48 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (47 bp):
ATGAATAAACTTATGAAGCTCTTCGGCATTTACCAAAAATAGACAAC
Found at i:121090073 original size:20 final size:20
Alignment explanation
Indices: 121090050--121090091 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
121090040 TTTTCTACGT
121090050 AATAAAGC-ATAAATGAAAAA
1 AATAAAGCAATAAA-GAAAAA
*
121090070 AATAAATCAATAAAGAAAAA
1 AATAAAGCAATAAAGAAAAA
121090090 AA
1 AA
121090092 CCCTCATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (20 bp):
AATAAAGCAATAAAGAAAAA
Found at i:121094349 original size:33 final size:33
Alignment explanation
Indices: 121094294--121094356 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
121094284 TTTAACCAAA
*
121094294 CTATACAAAATTTTGGATTTAGCTTGTATAACC
1 CTATACAAAATTTTGGATTTAGCTCGTATAACC
121094327 CTATACAAAATTTTGGATTTAGCTCGTATA
1 CTATACAAAATTTTGGATTTAGCTCGTATA
121094357 CCACTAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (33 bp):
CTATACAAAATTTTGGATTTAGCTCGTATAACC
Found at i:121099754 original size:17 final size:19
Alignment explanation
Indices: 121099734--121099769 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
121099724 GAACAACAAT
121099734 TTATTTT-T-ATTTTCTAA
1 TTATTTTATCATTTTCTAA
121099751 TTATTTTATCATTTTCTAA
1 TTATTTTATCATTTTCTAA
121099770 GGCTACCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTATCATTTTCTAA
Found at i:121101689 original size:13 final size:13
Alignment explanation
Indices: 121101670--121101730 Score: 95
Period size: 13 Copynumber: 4.7 Consensus size: 13
121101660 TAAACTAAAT
121101670 TTTTCAAAAACAC
1 TTTTCAAAAACAC
*
121101683 TTCTCAAAAACAC
1 TTTTCAAAAACAC
* *
121101696 TTTTCCACAACAC
1 TTTTCAAAAACAC
121101709 TTTTCAAAAACAC
1 TTTTCAAAAACAC
121101722 TTTTCAAAA
1 TTTTCAAAA
121101731 GCATTACCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:121114326 original size:30 final size:29
Alignment explanation
Indices: 121114285--121114358 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
121114275 TAATTTATAT
*
121114285 TTTTATAATTTTTAAAAAATTAAAT-TAAAA
1 TTTTATTATTTTTAAAAAA-T-AATGTAAAA
* * *
121114315 TTTTATTATTTTTGAAGAATAATGTATAA
1 TTTTATTATTTTTAAAAAATAATGTAAAA
*
121114344 TTTTATTATTATTAA
1 TTTTATTATTTTTAA
121114359 TTTAAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 3 0.08
29 18 0.49
30 16 0.43
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
TTTTATTATTTTTAAAAAATAATGTAAAA
Found at i:121114346 original size:29 final size:28
Alignment explanation
Indices: 121114273--121114358 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 28
121114263 TTATTAATTT
* *
121114273 AATAATTTATATTTTTATAATTTTTAAAA
1 AATAA-TTATAATTTTATTATTTTTAAAA
* * *
121114302 AATTAAATTAAAATTTTATTATTTTTGAAG
1 AA-T-AATTATAATTTTATTATTTTTAAAA
*
121114332 AATAATGTATAATTTTATTATTATTAA
1 AATAAT-TATAATTTTATTATTTTTAA
121114359 TTTAAAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 3 0.07
29 20 0.43
30 21 0.46
31 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
AATAATTATAATTTTATTATTTTTAAAA
Found at i:121115202 original size:28 final size:24
Alignment explanation
Indices: 121115159--121115216 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 24
121115149 TGTATTAATA
*
121115159 AAAATATTGCATTAAAAATTAAAATCT
1 AAAATATTGCAGT--AAATTAAAAT-T
*
121115186 ATAAATATTTCAGTAAATTAAAATT
1 A-AAATATTGCAGTAAATTAAAATT
121115211 AAAATA
1 AAAATA
121115217 ATTATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 5 0.18
25 2 0.07
26 10 0.36
27 1 0.04
28 10 0.36
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (24 bp):
AAAATATTGCAGTAAATTAAAATT
Found at i:121115235 original size:20 final size:20
Alignment explanation
Indices: 121115210--121115255 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
121115200 AAATTAAAAT
*
121115210 TAAAATAATTATTTTTAAT-A
1 TAAAATAATTA-ATTTAATAA
121115230 TAAAAT-ATTAATTTAATAA
1 TAAAATAATTAATTTAATAA
121115249 TAAAATA
1 TAAAATA
121115256 CATAAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAAATAATTAATTTAATAA
Found at i:121115350 original size:17 final size:16
Alignment explanation
Indices: 121115326--121115363 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
121115316 TAGGAAAATA
121115326 TAAAATTA-ATTTATGT
1 TAAAATTATATTTAT-T
121115342 TAAATATTATATTTATT
1 TAAA-ATTATATTTATT
121115359 TAAAA
1 TAAAA
121115364 CTGATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 9 0.45
18 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATTATATTTATT
Found at i:121116967 original size:26 final size:25
Alignment explanation
Indices: 121116914--121116979 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
121116904 TGCATTCGAA
*
121116914 TATTTTAATATTTGATTAAAATTATT
1 TATTTTAA-ATTTGATTAAAAGTATT
121116940 TATTTTAAATTTGTATTAAAAAGT-TT
1 TATTTTAAATTTG-ATT-AAAAGTATT
* *
121116966 TAATTTAAACTTGA
1 TATTTTAAATTTGA
121116980 GTTTAATCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 6 0.17
26 24 0.69
27 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (25 bp):
TATTTTAAATTTGATTAAAAGTATT
Found at i:121119143 original size:23 final size:24
Alignment explanation
Indices: 121119097--121119144 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
121119087 TAGTTATTTC
*
121119097 TGATTGTTTGATTTTTACAGAAAT
1 TGATTGTTTGATTTTTACAAAAAT
121119121 TGATTGTTTGA-TTTTACAAAAAT
1 TGATTGTTTGATTTTTACAAAAAT
121119144 T
1 T
121119145 TTATAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (24 bp):
TGATTGTTTGATTTTTACAAAAAT
Found at i:121124850 original size:17 final size:16
Alignment explanation
Indices: 121124820--121124853 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
121124810 AATTAATTTT
121124820 TTAAAATTTAAAATTA
1 TTAAAATTTAAAATTA
*
121124836 TTAAAATTATTAAATTA
1 TTAAAATT-TAAAATTA
121124853 T
1 T
121124854 AAGAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATTTAAAATTA
Found at i:121134586 original size:154 final size:154
Alignment explanation
Indices: 121134365--121134676 Score: 615
Period size: 154 Copynumber: 2.0 Consensus size: 154
121134355 TTAGGTAATA
121134365 AAAAATGTCTAGCACATGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
1 AAAAATGTCTAGCACATGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
*
121134430 CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCGTATGATAAACAAGTGGAA
66 CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCATATGATAAACAAGTGGAA
121134495 ACATTCCTAAGAACATGCACAGAT
131 ACATTCCTAAGAACATGCACAGAT
121134519 AAAAATGTCTAGCACATGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
1 AAAAATGTCTAGCACATGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
121134584 CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCATATGATAAACAAGTGGAA
66 CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCATATGATAAACAAGTGGAA
121134649 ACATTCCTAAGAACATGCACAGAT
131 ACATTCCTAAGAACATGCACAGAT
121134673 AAAA
1 AAAA
121134677 TTAGAAAGTC
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 157 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (154 bp):
AAAAATGTCTAGCACATGGAAGGATACAGACCATCTAAAATCTAAATAAACGAGAAATATGTGAT
CGATAAGAAAATTAGATCTAAATCATCACTATAAACAGTCAAGTCCATATGATAAACAAGTGGAA
ACATTCCTAAGAACATGCACAGAT
Found at i:121138333 original size:19 final size:17
Alignment explanation
Indices: 121138292--121138351 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 17
121138282 ATTCTACATA
*
121138292 AAAAAAAATTAAAAAACT
1 AAAAAAATTTAAAAAA-T
*
121138310 CAAAAATATTTAAAAATAT
1 -AAAAAAATTTAAAAA-AT
121138329 AAAAAAATTCTAGAAAAAT
1 AAAAAAATT-TA-AAAAAT
121138348 AAAA
1 AAAA
121138352 TCTTAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 8 0.23
19 22 0.63
20 5 0.14
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAAAATTTAAAAAAT
Found at i:121139370 original size:31 final size:31
Alignment explanation
Indices: 121139327--121139397 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
121139317 AAGAGTTACA
121139327 ATTTAA-TTATTAAAATTTTTAAAAGTTT-TC
1 ATTTAAGTTATTAAAATTTTTAAAA-TTTATC
*
121139357 ATTTAAGTTATTAAAATTTTTAAAATTTATT
1 ATTTAAGTTATTAAAATTTTTAAAATTTATC
121139388 ATTTAAGTTA
1 ATTTAAGTTA
121139398 CTAAGTTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 9 0.24
31 29 0.76
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (31 bp):
ATTTAAGTTATTAAAATTTTTAAAATTTATC
Found at i:121147551 original size:269 final size:269
Alignment explanation
Indices: 121147072--121147610 Score: 988
Period size: 269 Copynumber: 2.0 Consensus size: 269
121147062 TTAAAGTTTT
* *
121147072 ATATATACATCTAAACTGAAAATTGAGTTTAATGTGTATGATTACACAAAAATCAAACTTCATTT
1 ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTACACAAAAATCAAACTTCATTT
121147137 ATTAAATTGTATCAAATTATATATTAAATCAAAATTAATGTATAAATTTAATATTTACCCCTAAA
66 ATTAAATTGTATCAAATTATATATTAAATCAAAATTAATGTATAAATTTAATATTTACCCCTAAA
* *
121147202 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACGTCTTATTCAGCTGAT
131 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACCTCTTATTCAGCTAAT
121147267 ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACAATAATGATACTTTAAGAGTCCGG
196 ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACAATAATGATACTTTAAGAGTCCGG
121147332 GGACATATA
261 GGACATATA
*
121147341 ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTACACAAAGATCAAACTTCATTT
1 ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTACACAAAAATCAAACTTCATTT
* * *
121147406 ATTAAATTGTATCAAATTATATATTAAATCAAAGTTGATGTATAAATTTAATATTTATCCCTAAA
66 ATTAAATTGTATCAAATTATATATTAAATCAAAATTAATGTATAAATTTAATATTTACCCCTAAA
121147471 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACCTCTTATTCAGCTAAT
131 AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACCTCTTATTCAGCTAAT
* *
121147536 GTTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACGATAATGATACTTTAAGAGTCCGG
196 ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACAATAATGATACTTTAAGAGTCCGG
121147601 GGACATATA
261 GGACATATA
121147610 A
1 A
121147611 CGCAGTTAAC
Statistics
Matches: 260, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
269 260 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (269 bp):
ATATATACATCTAAACCGAAAATTGAGTTTAATGTATATGATTACACAAAAATCAAACTTCATTT
ATTAAATTGTATCAAATTATATATTAAATCAAAATTAATGTATAAATTTAATATTTACCCCTAAA
AAAATAGTCTACCTCGATTTTAAAAATATTAGCTTTAAATATACTTTACCTCTTATTCAGCTAAT
ATTTAACATCCATTTGGACGAGAGAAGAACTTGATTAATACAATAATGATACTTTAAGAGTCCGG
GGACATATA
Found at i:121151275 original size:39 final size:39
Alignment explanation
Indices: 121151210--121151353 Score: 166
Period size: 39 Copynumber: 3.7 Consensus size: 39
121151200 TTCAGTGATG
* *
121151210 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAAT
*
121151249 TATATCCGGACTTAGAGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAAT
* * * *
121151288 TATATTCGGACTTA-AGGTCCGCAGGCTACGTGCTTGAAA
1 TATATCCGGACTTAGA-GTCCGCAGGCTATGTGCTGGAAT
* * *
121151327 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAGAGT-CCGCAGGCT
121151354 TCGAGCTGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 5 0.05
39 86 0.95
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAAT
Found at i:121151362 original size:78 final size:78
Alignment explanation
Indices: 121151210--121151373 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
121151200 TTCAGTGATG
* * * * * *
121151210 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTATATCCGGACTTAGAGTCCGTAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
121151275 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
121151288 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTTGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
121151352 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
121151366 TATA-CCGG
1 TATATCCGG
121151374 GTTTAAATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
77 9 0.13
78 62 0.87
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:121159428 original size:19 final size:18
Alignment explanation
Indices: 121159400--121159436 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
121159390 CATTAACCTT
*
121159400 AACAATGGCTAACAAAAAC
1 AACAAAGGCTAA-AAAAAC
121159419 AACAAAGGCTAAAAAAAC
1 AACAAAGGCTAAAAAAAC
121159437 GAAAATGGTA
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:0.62, C:0.19, G:0.11, T:0.08
Consensus pattern (18 bp):
AACAAAGGCTAAAAAAAC
Found at i:121160210 original size:22 final size:20
Alignment explanation
Indices: 121160178--121160219 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
121160168 AAAGAAAAGT
*
121160178 AAAAAAAAAAACTTTGATGG
1 AAAAAAAAAAACGTTGATGG
121160198 AAAAAATAGAAAACGTTGATGG
1 AAAAAA-A-AAAACGTTGATGG
121160220 CTAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.19, T:0.19
Consensus pattern (20 bp):
AAAAAAAAAAACGTTGATGG
Found at i:121160460 original size:21 final size:21
Alignment explanation
Indices: 121160434--121160487 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
121160424 CACCGCTATT
*
121160434 TCTAATCTCACTGCTACAATA
1 TCTAATCTCACCGCTACAATA
* *
121160455 TCTAATCTCACCGCTATAGTA
1 TCTAATCTCACCGCTACAATA
*
121160476 ACTAATCTCACC
1 TCTAATCTCACC
121160488 CCCACCGCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAATA
Found at i:121171995 original size:27 final size:27
Alignment explanation
Indices: 121171957--121172009 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
121171947 TGGAGCAAAT
121171957 ATATCATAATCTCAACATCAATATACC
1 ATATCATAATCTCAACATCAATATACC
121171984 ATATCATAATCTCAACATCAATATAC
1 ATATCATAATCTCAACATCAATATAC
121172010 TAAGTATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (27 bp):
ATATCATAATCTCAACATCAATATACC
Found at i:121172191 original size:259 final size:259
Alignment explanation
Indices: 121171726--121172197 Score: 824
Period size: 259 Copynumber: 1.8 Consensus size: 259
121171716 GGAGCAAATT
*
121171726 TATCACAATCTCAACATCAATATACTCAGTAACAAAGCAGGACTACATTCAACCAGTGTCCCATA
1 TATCACAATCTCAACATCAATATACTAAGTAACAAAGCAGGACTACATTCAACCAGTGTCCCATA
121171791 TTTAATATTTGCATACAATCTCTGCTCAAGGAAAAGTGAAACTAATTAAATATTAGGAACACAAT
66 TTTAATATTTGCATACAATCTCTGCTCAAGGAAAAGTGAAACTAATTAAATATTAGGAACACAAT
**
121171856 AAAACCATGCAGCTTCCTTGTGTCCTTCTAATCTCACATATAAAAGGAGGGCTCTTTTATTAACC
131 AAAACCATGCAGCTTCCTCATGTCCTTCTAATCTCACATATAAAAGGAGGGCTCTTTTATTAACC
121171921 ATTTATGGAAGTCCTAAGTATAGCAATGGAGCAAATATATCATAATCTCAACATCAATATACCA
196 ATTTATGGAAGTCCTAAGTATAGCAATGGAGCAAATATATCATAATCTCAACATCAATATACCA
* *
121171985 TATCATAATCTCAACATCAATATACTAAGTATCAAAGCAGGACTACATTTCAACCAGTGTCCCAT
1 TATCACAATCTCAACATCAATATACTAAGTAACAAAGCAGGACTACA-TTCAACCAGTGTCCCAT
** *
121172050 ATTTAATATTTGTGTACAATCTCTGCTC-GGAGAAAAGTGAAACTAATTAAATATTAGGAACACA
65 ATTTAATATTTGCATACAATCTCTGCTCAAG-GAAAAGTGAAACTAATTAAATATTAGGAACACA
121172114 AT-AAACCATAG-AGCTTCCTCATGTCCTTCTAATCTCACATATAAAAGGAGGGCTCTTTTATTA
129 ATAAAACCAT-GCAGCTTCCTCATGTCCTTCTAATCTCACATATAAAAGGAGGGCTCTTTTATTA
121172177 ACCATTTATGGAAGTCCTAAG
193 ACCATTTATGGAAGTCCTAAG
121172198 AAATTTTACC
Statistics
Matches: 202, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
259 123 0.61
260 79 0.39
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (259 bp):
TATCACAATCTCAACATCAATATACTAAGTAACAAAGCAGGACTACATTCAACCAGTGTCCCATA
TTTAATATTTGCATACAATCTCTGCTCAAGGAAAAGTGAAACTAATTAAATATTAGGAACACAAT
AAAACCATGCAGCTTCCTCATGTCCTTCTAATCTCACATATAAAAGGAGGGCTCTTTTATTAACC
ATTTATGGAAGTCCTAAGTATAGCAATGGAGCAAATATATCATAATCTCAACATCAATATACCA
Found at i:121177274 original size:16 final size:16
Alignment explanation
Indices: 121177255--121177304 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
121177245 TTCGGAATAT
*
121177255 ATATAATTTAGAAAAA
1 ATATAATTTATAAAAA
*
121177271 ATATAATTTATAAAAT
1 ATATAATTTATAAAAA
121177287 ATATAATTT-TAAAAA
1 ATATAATTTATAAAAA
121177302 ATA
1 ATA
121177305 ATTGAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATAATTTATAAAAA
Found at i:121177399 original size:22 final size:22
Alignment explanation
Indices: 121177369--121177431 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
121177359 AAACTGTAAA
*
121177369 TTTTTTAAAGTT-TAAAATAAT
1 TTTTTTAAAATTCTAAAATAAT
121177390 TTTTTATAAAATTCTAAAATATAT
1 TTTTT-TAAAATTCTAAAATA-AT
** *
121177414 AATTCTAAAATTCTAAAA
1 TTTTTTAAAATTCTAAAA
121177432 AAGCATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.14
22 6 0.17
23 20 0.57
24 4 0.11
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTTTAAAATTCTAAAATAAT
Found at i:121177412 original size:15 final size:15
Alignment explanation
Indices: 121177394--121177424 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
121177384 AATAATTTTT
121177394 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
121177409 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
121177424 T
1 T
121177425 TCTAAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:121177526 original size:29 final size:29
Alignment explanation
Indices: 121177493--121177563 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
121177483 TTTTTTAATT
*
121177493 TTTTAACATTTTTCAATTTAT-A-TATATTA
1 TTTTAACA-TTTTAAATTTATAATTATA-TA
*
121177522 TTTTAATATTTTAAATTTATAATTATATA
1 TTTTAACATTTTAAATTTATAATTATATA
121177551 TTTTAGA-ATTTTA
1 TTTTA-ACATTTTA
121177564 TAAAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 11 0.30
29 21 0.57
30 5 0.14
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTTAACATTTTAAATTTATAATTATATA
Found at i:121177551 original size:36 final size:36
Alignment explanation
Indices: 121177476--121177551 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
121177466 TGAAATTTAA
* *
121177476 ATATATATTTTTTAATTTTTTAACATTTTTCAATTT
1 ATATATATTTTTTAATATTTTAACATTTATCAATTT
121177512 ATATATATTATTTTAATATTTTAA-ATTTAT-AA-TT
1 ATATATATT-TTTTAATATTTTAACATTTATCAATTT
121177546 ATATAT
1 ATATAT
121177552 TTTAGAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 8 0.22
35 2 0.05
36 14 0.38
37 13 0.35
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (36 bp):
ATATATATTTTTTAATATTTTAACATTTATCAATTT
Found at i:121177573 original size:22 final size:21
Alignment explanation
Indices: 121177526--121177581 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
121177516 ATATTATTTT
*
121177526 AATATTTTAAATTTATAATTA
1 AATATTTTAAATTTATAATAA
*
121177547 TATATTTTAGAATTTTATAA-AA
1 AATATTTTA-AA-TTTATAATAA
121177569 AATATTTTTAAAT
1 AATA-TTTTAAAT
121177582 ATTTTTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 9 0.31
22 8 0.28
23 12 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATATTTTAAATTTATAATAA
Found at i:121177616 original size:10 final size:10
Alignment explanation
Indices: 121177570--121177622 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
121177560 TTTATAAAAA
*
121177570 ATATTTTTAA
1 ATATTTTTAT
*
121177580 ATATTTTTAA
1 ATATTTTTAT
*
121177590 ACATTTTTAT
1 ATATTTTTAT
121177600 ATA---TTAT
1 ATATTTTTAT
121177607 ATATTTTTAT
1 ATATTTTTAT
121177617 ATATTT
1 ATATTT
121177623 AATCAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.19
10 30 0.81
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:121184839 original size:5 final size:5
Alignment explanation
Indices: 121184829--121184853 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
121184819 AGAACTTATT
121184829 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
121184854 TAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:121185907 original size:25 final size:26
Alignment explanation
Indices: 121185873--121185926 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
121185863 CACTTTCAAG
121185873 AATTTT-AAAAATATTATTTTGT-TTT
1 AATTTTAAAAAATA-TATTTTGTATTT
*
121185898 AATTTTAAAAAATATATTTTTTATTT
1 AATTTTAAAAAATATATTTTGTATTT
121185924 AAT
1 AAT
121185927 AAAATATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
AATTTTAAAAAATATATTTTGTATTT
Found at i:121187168 original size:44 final size:45
Alignment explanation
Indices: 121187083--121187189 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
121187073 TTTTTTAAAT
*
121187083 TTTAAATAAATAATGATAAAATTGTACTTTATCTAAAAAAAAAGG
1 TTTAAATAAATAATGATAAAATTATACTTTATCTAAAAAAAAAGG
* * * *
121187128 TTTAAATTAGTAATGATAAATTTATACTTTATCTAAAAAAAACA-A
1 TTTAAATAAATAATGATAAAATTATACTTTATCTAAAAAAAA-AGG
*
121187173 TTTAAATCAATAATGAT
1 TTTAAATAAATAATGAT
121187190 TTTTTTTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (45 bp):
TTTAAATAAATAATGATAAAATTATACTTTATCTAAAAAAAAAGG
Found at i:121189087 original size:120 final size:120
Alignment explanation
Indices: 121188956--121189194 Score: 469
Period size: 120 Copynumber: 2.0 Consensus size: 120
121188946 TCTAAATAAA
121188956 AATATATTTTAAAATGATTAATTTAAATTCAAATACCTACTTAGTTTGCGAAAAGATATATATAA
1 AATATATTTTAAAATGATTAATTTAAATTCAAATACCTACTTAGTTTGCGAAAAGATATATATAA
121189021 TTCAAATTAATTTTTATGAAAATTTGTTTTTCGTATAATTTGTGTCTTTTTTTTC
66 TTCAAATTAATTTTTATGAAAATTTGTTTTTCGTATAATTTGTGTCTTTTTTTTC
*
121189076 AATATATTTTAAAATGATTAATTTAAATTCAAATACCTACTTAGTTTGCGAACAGATATATATAA
1 AATATATTTTAAAATGATTAATTTAAATTCAAATACCTACTTAGTTTGCGAAAAGATATATATAA
121189141 TTCAAATTAATTTTTATGAAAATTTGTTTTTCGTATAATTTGTGTCTTTTTTTT
66 TTCAAATTAATTTTTATGAAAATTTGTTTTTCGTATAATTTGTGTCTTTTTTTT
121189195 TCAAAAAAGA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (120 bp):
AATATATTTTAAAATGATTAATTTAAATTCAAATACCTACTTAGTTTGCGAAAAGATATATATAA
TTCAAATTAATTTTTATGAAAATTTGTTTTTCGTATAATTTGTGTCTTTTTTTTC
Found at i:121189603 original size:23 final size:23
Alignment explanation
Indices: 121189576--121189623 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
121189566 ATTCGCTTTT
121189576 GATTTGTTACATAAAATTTTTGG
1 GATTTGTTACATAAAATTTTTGG
* ** *
121189599 GATTTTTTTGATAAGATTTTTGG
1 GATTTGTTACATAAAATTTTTGG
121189622 GA
1 GA
121189624 ATTTTATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (23 bp):
GATTTGTTACATAAAATTTTTGG
Found at i:121194914 original size:82 final size:81
Alignment explanation
Indices: 121194788--121194945 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 81
121194778 TTTATTTTTA
** * *
121194788 AAAAATAGTAAATTGGTTTATGTAACTTAGATCAAAGAGCAAATTAGTATTTTTATTAAAAAATT
1 AAAAATAACAAATTGGTTTATATAACCTAGATCAAAGAGCAAATTAGTATTTTTATTAAAAAA-T
*
121194853 TATTTATTTTTACTGTT
65 TATTAATTTTTACTGTT
* * *
121194870 AAAAATAACAAATTGTTTTATATATCCTAGATTAAAGA-CTAAATTAGTATTTTTATTAAAAAAT
1 AAAAATAACAAATTGGTTTATATAACCTAGATCAAAGAGC-AAATTAGTATTTTTATTAAAAAAT
121194934 TATTAATTTTTA
65 TATTAATTTTTA
121194946 GGATTAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 13 0.19
82 54 0.81
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (81 bp):
AAAAATAACAAATTGGTTTATATAACCTAGATCAAAGAGCAAATTAGTATTTTTATTAAAAAATT
ATTAATTTTTACTGTT
Found at i:121198495 original size:21 final size:22
Alignment explanation
Indices: 121198462--121198502 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
121198452 GGAAAGACAA
*
121198462 CTATGTGCCAGTTTAAGTCTTT
1 CTATGTGCAAGTTTAAGTCTTT
*
121198484 CTAT-TGCAAGTTTTAGTCT
1 CTATGTGCAAGTTTAAGTCT
121198503 GTGTTATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (22 bp):
CTATGTGCAAGTTTAAGTCTTT
Found at i:121199219 original size:3 final size:3
Alignment explanation
Indices: 121199213--121199240 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
121199203 GTGGTTCTTG
121199213 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
121199241 AAGTTCAAAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:121208403 original size:31 final size:33
Alignment explanation
Indices: 121208368--121208434 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 33
121208358 CAAGTTGAAA
*
121208368 AAACTCAGGTACCA-AAA-TGAATATTGAAGTC
1 AAACTCAGGTACCACAAATTGAATATTGAAATC
*
121208399 AAACTCATGTACCACCAAATTGAATATTGAAATC
1 AAACTCAGGTACCA-CAAATTGAATATTGAAATC
121208433 AA
1 AA
121208435 GTTCAAGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 13 0.42
33 3 0.10
34 15 0.48
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (33 bp):
AAACTCAGGTACCACAAATTGAATATTGAAATC
Found at i:121208445 original size:34 final size:34
Alignment explanation
Indices: 121208378--121208445 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
121208368 AAACTCAGGT
* *
121208378 ACCAAAATGAATATTGAAGTCAAACTCATGTACC
1 ACCAAAATGAATATTGAAATCAAACTCAAGTACC
* **
121208412 ACCAAATTGAATATTGAAATCAAGTTCAAGTACC
1 ACCAAAATGAATATTGAAATCAAACTCAAGTACC
121208446 GAATAGTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (34 bp):
ACCAAAATGAATATTGAAATCAAACTCAAGTACC
Found at i:121211840 original size:31 final size:32
Alignment explanation
Indices: 121211787--121211848 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
121211777 AATAGTTATT
*
121211787 AAACTATTTGAAAGTTTTTTATTTAAGTCACA
1 AAACTATTCGAAAGTTTTTTATTTAAGTCACA
*
121211819 AAACTATTCGAGAG-TTTTTATTTAAGTCAC
1 AAACTATTCGAAAGTTTTTTATTTAAGTCAC
121211849 TGAGCTGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (32 bp):
AAACTATTCGAAAGTTTTTTATTTAAGTCACA
Found at i:121214612 original size:14 final size:15
Alignment explanation
Indices: 121214595--121214624 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
121214585 ATGGTATGTA
121214595 TTTT-CTTTTTTTTT
1 TTTTCCTTTTTTTTT
121214609 TTTTCCTTTTTTTTT
1 TTTTCCTTTTTTTTT
121214624 T
1 T
121214625 CTCTATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCCTTTTTTTTT
Found at i:121214802 original size:21 final size:20
Alignment explanation
Indices: 121214764--121214803 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
121214754 GAAAATACAA
* *
121214764 AATTTAAAAAAAATATAAAG
1 AATTCAAAAAAAAGATAAAG
121214784 AATTCAAAAAATAAGATAAA
1 AATTCAAAAAA-AAGATAAA
121214804 ATAATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AATTCAAAAAAAAGATAAAG
Found at i:121216061 original size:18 final size:18
Alignment explanation
Indices: 121216040--121216088 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
121216030 TAAATCAGAT
121216040 TTAAAATTAAAAT-TAAAA
1 TTAAAA-TAAAATGTAAAA
121216058 TTAAAATAAAATGTAAAGTA
1 TTAAAATAAAATGTAAA--A
121216078 TTTAAAATAAA
1 -TTAAAATAAA
121216089 TAAATATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
20 1 0.04
21 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TTAAAATAAAATGTAAAA
Found at i:121216088 original size:5 final size:6
Alignment explanation
Indices: 121216040--121216074 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
121216030 TAAATCAGAT
121216040 TTAAAA TTAAAA TTAAAA TTAAAA -TAAAA TGTAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T-TAAA
121216075 GTATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 18 0.67
7 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (6 bp):
TTAAAA
Found at i:121216351 original size:10 final size:9
Alignment explanation
Indices: 121216336--121216396 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
121216326 AAATAACTTG
121216336 AATATTATAA
1 AATATTA-AA
121216346 AATATTAAA
1 AATATTAAA
121216355 AA-ATATAAA
1 AATAT-TAAA
121216364 AATA-TAAA
1 AATATTAAA
*
121216372 AGTTCATTAAA
1 A-AT-ATTAAA
*
121216383 AATTTTAAA
1 AATATTAAA
121216392 AATAT
1 AATAT
121216397 ATATACGTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.17
9 20 0.48
10 10 0.24
11 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
AATATTAAA
Found at i:121218251 original size:175 final size:177
Alignment explanation
Indices: 121217931--121218259 Score: 450
Period size: 175 Copynumber: 1.9 Consensus size: 177
121217921 TTTAATCTCA
* * *
121217931 TTTTTGCATTAAGATCTTGTTTAGCAATGAACATTTGATTTATATGGTTGGTTTTATGTATGATG
1 TTTTTGCATTAAAATCTTGTTTAGCAATGAACATTTGA-GTATAT-GATGG-TTTATGTATGATG
* * * * *
121217996 TTTCCTTATCTATATAGCTTTAAAATCAATCAATTTTATCTTATATCTCTTCTTGTATGAATGAA
63 ATTACTTATATATATAGCTTTAAAATCAAGCAATTTTATCTTATATCTCTTCTTATATGAATGAA
*
121218061 CTACTTGCCAGCCCCATGGTGTTGGTATCTTTTAATGTTTTAACTTGGTT
128 CTACTTGCCAGCCCCATGATGTTGGTATCTTTTAATGTTTTAACTTGGTT
*
121218111 TTTTTGCATTAAAAATCTTGTTTAGCAATGATCATTTG-GTATAT-ATGG-TTATGTATGATGAT
1 TTTTTGCATT-AAAATCTTGTTTAGCAATGAACATTTGAGTATATGATGGTTTATGTATGATGAT
* * *
121218173 TACTTGTATATATAGCTTTGAAATCAAGCAATTTTATCTTATAAT-TGTTCTTATATGAATGAAC
65 TACTTATATATATAGCTTTAAAATCAAGCAATTTTATCTTAT-ATCTCTTCTTATATGAATGAAC
* *
121218237 TGCTTGCTAGCCCCATGATGTTG
129 TACTTGCCAGCCCCATGATGTTG
121218260 TAATATAATT
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
175 87 0.66
176 2 0.02
177 3 0.02
179 5 0.04
180 10 0.08
181 25 0.19
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (177 bp):
TTTTTGCATTAAAATCTTGTTTAGCAATGAACATTTGAGTATATGATGGTTTATGTATGATGATT
ACTTATATATATAGCTTTAAAATCAAGCAATTTTATCTTATATCTCTTCTTATATGAATGAACTA
CTTGCCAGCCCCATGATGTTGGTATCTTTTAATGTTTTAACTTGGTT
Found at i:121223851 original size:22 final size:22
Alignment explanation
Indices: 121223826--121223869 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
121223816 TTTAAAAACG
*
121223826 TTGGAGGGTCTAATTAAAATTT
1 TTGGAAGGTCTAATTAAAATTT
* *
121223848 TTGGAAGGTTTAATTAGAATTT
1 TTGGAAGGTCTAATTAAAATTT
121223870 CTAAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (22 bp):
TTGGAAGGTCTAATTAAAATTT
Found at i:121225638 original size:6 final size:6
Alignment explanation
Indices: 121225627--121225658 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
121225617 TAGATTTAAA
*
121225627 AAAAAG AAAAAG AAAAGG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
121225659 GACTTAGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:121228106 original size:13 final size:13
Alignment explanation
Indices: 121228088--121228129 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
121228078 TCAAGGTGGG
121228088 TTCTTCTTTTGTT
1 TTCTTCTTTTGTT
*
121228101 TTCTTCTTTGGATT
1 TTCTTCTTTTG-TT
*
121228115 TT-TTTTTTTGTT
1 TTCTTCTTTTGTT
121228127 TTC
1 TTC
121228130 CTTTCAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.02, C:0.12, G:0.10, T:0.76
Consensus pattern (13 bp):
TTCTTCTTTTGTT
Found at i:121238918 original size:25 final size:22
Alignment explanation
Indices: 121238890--121238934 Score: 63
Period size: 25 Copynumber: 1.9 Consensus size: 22
121238880 TTTCCCTATT
121238890 TTTTTAACAATACAAATGAATAAGA
1 TTTTTAAC-ATA-AAA-GAATAAGA
121238915 TTTTTAACATAAAAGAATAA
1 TTTTTAACATAAAAGAATAA
121238935 TTTTCTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 3 0.15
25 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (22 bp):
TTTTTAACATAAAAGAATAAGA
Found at i:121244186 original size:6 final size:6
Alignment explanation
Indices: 121244168--121244224 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
121244158 ACCATCACCA
* * * *
121244168 TCATCT TCTTTT TCATTT TCATCT TCATCT CCATCT TCATCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
121244216 TCATCT TCA
1 TCATCT TCA
121244225 ACATCATCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.53
Consensus pattern (6 bp):
TCATCT
Found at i:121244231 original size:18 final size:18
Alignment explanation
Indices: 121244192--121244232 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
121244182 ATTTTCATCT
* *
121244192 TCATCTCCATCTTCATCT
1 TCATCTCCATCTTCAACA
*
121244210 TCATCTTCATCTTCAACA
1 TCATCTCCATCTTCAACA
121244228 TCATC
1 TCATC
121244233 CTCTCCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (18 bp):
TCATCTCCATCTTCAACA
Found at i:121245446 original size:131 final size:131
Alignment explanation
Indices: 121245306--121245549 Score: 391
Period size: 131 Copynumber: 1.9 Consensus size: 131
121245296 AGCTTCACAT
* * * *
121245306 CTTTTTCCTTCAATTTTGGGTCCCGGCTTCTCACCTACATGAAAACATTGAAATTTCATGACAAA
1 CTTTTTCCTTCAATTTTGGATCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAA
*
121245371 AA-ATCACTAATAAATTGACAAAAATTTCAATTTTCACACCAATTAGCAAAAAAAAAAAAAAAAA
66 AAGATCACTAATAAATTAACAAAAATTTCAATTTTCACA-CAATTAGCAAAAAAAAAAAAAAAAA
121245435 CA
130 CA
* * *
121245437 CTTTTTCCTTCAATTTTGGATCACTGCTTCTCGCCTACATGAAAACATTGAAATCTCAAGATAAA
1 CTTTTTCCTTCAATTTTGGATCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAA
*
121245502 AAGATCACTAATAAATTAACAAAAATTTCAATTTTCACACAGTTAGCA
66 AAGATCACTAATAAATTAACAAAAATTTCAATTTTCACACAATTAGCA
121245550 GAACAACAAC
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
131 68 0.66
132 35 0.34
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (131 bp):
CTTTTTCCTTCAATTTTGGATCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAA
AAGATCACTAATAAATTAACAAAAATTTCAATTTTCACACAATTAGCAAAAAAAAAAAAAAAAAC
A
Found at i:121246880 original size:6 final size:6
Alignment explanation
Indices: 121246869--121246903 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
121246859 GGTATGCCAC
*
121246869 TTTCTT TTTCTT TTTCTT TCTCTT TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
121246904 AATTTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:121254068 original size:6 final size:6
Alignment explanation
Indices: 121254054--121254082 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
121254044 ATCTGCAACA
121254054 AAAAT- AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
121254083 GGAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:121259019 original size:44 final size:43
Alignment explanation
Indices: 121258940--121259032 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
121258930 TAGGATTCAT
** *
121258940 TTATTCCATGTTATCATTTTTTATAAAATATTTATTCAACATTA
1 TTATTCCATGTTAGAATTATTTATAAAATATTTATTCAACA-TA
* *
121258984 TTATTCCATGTTAAGAATTATTTATTAAAA-A-TTATTTAATATA
1 TTATTCCATGTT-AGAATTATTTA-TAAAATATTTATTCAACATA
121259027 TTATTC
1 TTATTC
121259033 ATAAAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 8 0.19
44 20 0.48
45 9 0.21
46 5 0.12
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.52
Consensus pattern (43 bp):
TTATTCCATGTTAGAATTATTTATAAAATATTTATTCAACATA
Found at i:121260375 original size:15 final size:16
Alignment explanation
Indices: 121260350--121260385 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
121260340 AAGTGAAGAA
121260350 TATTATTAAAAATTAT
1 TATTATTAAAAATTAT
*
121260366 TATT-TTAAAATTTAT
1 TATTATTAAAAATTAT
121260381 TATTA
1 TATTA
121260386 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTAAAAATTAT
Found at i:121260389 original size:13 final size:13
Alignment explanation
Indices: 121260350--121260389 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
121260340 AAGTGAAGAA
*
121260350 TATTATTAAAAAT
1 TATTATTAAAATT
121260363 TATTATTTTAAAATT
1 TATTA--TTAAAATT
121260378 TATTATTAAAAT
1 TATTATTAAAAT
121260390 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTATTAAAATT
Found at i:121260862 original size:19 final size:19
Alignment explanation
Indices: 121260840--121260903 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
121260830 GAAAATTTTG
121260840 AAAACAGATGAATATTATAA
1 AAAACAGATGAATATTAT-A
* * * *
121260860 AAAATAATGATGAAAATTTTG
1 AAAA-CA-GATGAATATTATA
121260881 AAAACAGATGAATATTATA
1 AAAACAGATGAATATTATA
121260900 AAAA
1 AAAA
121260904 ATAATGTTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 14 0.41
20 5 0.15
21 5 0.15
22 10 0.29
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
AAAACAGATGAATATTATA
Found at i:121260873 original size:41 final size:41
Alignment explanation
Indices: 121260828--121260909 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
121260818 ATGGTTTAAA
121260828 ATGAAAATTTTGAAAACAGATGAATATTATAAAAAATAATG
1 ATGAAAATTTTGAAAACAGATGAATATTATAAAAAATAATG
121260869 ATGAAAATTTTGAAAACAGATGAATATTATAAAAAATAATG
1 ATGAAAATTTTGAAAACAGATGAATATTATAAAAAATAATG
121260910 TTGTCAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (41 bp):
ATGAAAATTTTGAAAACAGATGAATATTATAAAAAATAATG
Found at i:121260891 original size:22 final size:21
Alignment explanation
Indices: 121260828--121260891 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
121260818 ATGGTTTAAA
121260828 ATGAAAATTTTGAAAAC-A-G
1 ATGAAAATTTTGAAAACAATG
* ** *
121260847 ATGAATATTATAAAAAATAATG
1 ATGAAAATT-TTGAAAACAATG
121260869 ATGAAAATTTTGAAAACAGATG
1 ATGAAAATTTTGAAAACA-ATG
121260891 A
1 A
121260892 ATATTATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 8 0.24
20 5 0.15
21 7 0.21
22 13 0.39
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (21 bp):
ATGAAAATTTTGAAAACAATG
Found at i:121263266 original size:71 final size:71
Alignment explanation
Indices: 121263132--121263275 Score: 198
Period size: 71 Copynumber: 2.0 Consensus size: 71
121263122 GATTATGGAT
* * *
121263132 AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGTTAAAAGAGTGCTGATAGAGCATAAAGTTAGTA
1 AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGCTAAAAGAGTGCTGACAGAGCATAAACTTAGTA
121263197 TTATTG
66 TTATTG
* * * * * *
121263203 AATGGTGGAGAAAAGAATGTAAAGGCTAAGGGCTAAAAGAGTGTTGGCAGAGTATAGACTTAGTA
1 AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGCTAAAAGAGTGCTGACAGAGCATAAACTTAGTA
*
121263268 TTTTTG
66 TTATTG
121263274 AA
1 AA
121263276 GGGTTGATCA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.25
Consensus pattern (71 bp):
AATGGTGGAGAAAAGAACGTAAAAGCTAAGGGCTAAAAGAGTGCTGACAGAGCATAAACTTAGTA
TTATTG
Found at i:121280661 original size:3 final size:3
Alignment explanation
Indices: 121280653--121280703 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
121280643 GATCATATTT
*
121280653 ATA ATA ATA ATA ATA ACA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
121280700 ATA A
1 ATA A
121280704 AAGAAGAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:121280684 original size:23 final size:23
Alignment explanation
Indices: 121280656--121280702 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
121280646 CATATTTATA
121280656 ATAATAATAATAACAATAATAAT
1 ATAATAATAATAACAATAATAAT
*
121280679 ATAATAATAATAATAATAATAAT
1 ATAATAATAATAACAATAATAAT
121280702 A
1 A
121280703 AAAGAAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAATAATAATAACAATAATAAT
Found at i:121283089 original size:11 final size:11
Alignment explanation
Indices: 121283068--121283121 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
121283058 GATTAGTTCG
121283068 ATTTAATTAAAA
1 ATTT-ATTAAAA
121283080 ATTTATTAAAA
1 ATTTATTAAAA
121283091 ATTTA-TAAAA
1 ATTTATTAAAA
* *
121283101 ATTAAATAAAA
1 ATTTATTAAAA
121283112 A-TTATTAAAA
1 ATTTATTAAAA
121283122 TAAAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 16 0.42
11 18 0.47
12 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTTATTAAAA
Found at i:121283100 original size:21 final size:20
Alignment explanation
Indices: 121283075--121283135 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
121283065 TCGATTTAAT
* *
121283075 TAAAAATTTATTAAAAATTTA
1 TAAAAATTAAATAAAAA-TTA
121283096 TAAAAATTAAATAAAAATTA
1 TAAAAATTAAATAAAAATTA
* *
121283116 TTAAAATAAAAATAAAAATT
1 TAAAAAT-TAAATAAAAATT
121283136 CAATTCAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.26
21 26 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAATTAAATAAAAATTA
Found at i:121283120 original size:10 final size:10
Alignment explanation
Indices: 121283073--121283121 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
121283063 GTTCGATTTA
121283073 ATTAAAAATTT
1 ATTAAAAA-TT
121283084 ATTAAAAATT
1 ATTAAAAATT
121283094 -TATAAAAATT
1 AT-TAAAAATT
*
121283104 AAATAAAAATT
1 -ATTAAAAATT
121283115 ATTAAAA
1 ATTAAAA
121283122 TAAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 1 0.03
10 16 0.48
11 16 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:121286235 original size:126 final size:126
Alignment explanation
Indices: 121286006--121286235 Score: 322
Period size: 126 Copynumber: 1.8 Consensus size: 126
121285996 AGTTTTAAGA
* * *
121286006 GGATATTCGAATACTTAAAACGAATAAAGAAAACGAAACCCAGTACGTTAAGGCACGATTCTTTG
1 GGATATTCGAATACTTAAAACAAACAAAGAAAACGAAACCCAGTACGTTAAGGCACGATTCTCTG
* * *
121286071 AATTCTTTAAATACCAAACATTGCTTTCGTTTTGAAAATTTTTTAGAGTGAACCGATAAAG
66 AATTCTTTAAATACCAAACATTGCATTCATTTTAAAAATTTTTTAGAGTGAACCGATAAAG
* * *
121286132 GGATATTCTG-ATA-TTCAAAACAAACAAAGAAAGCGAAACCCAGTATGTTAGGGCACGATTCTC
1 GGATATTC-GAATACTT-AAAACAAACAAAGAAAACGAAACCCAGTACGTTAAGGCACGATTCTC
*
121286195 TGAATTCTTTAAATACCGAACATTGTCATT-ATTTTAAAAAT
64 TGAATTCTTTAAATACCAAACATTG-CATTCATTTTAAAAAT
121286236 GATTGAAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
125 2 0.02
126 85 0.93
127 4 0.04
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (126 bp):
GGATATTCGAATACTTAAAACAAACAAAGAAAACGAAACCCAGTACGTTAAGGCACGATTCTCTG
AATTCTTTAAATACCAAACATTGCATTCATTTTAAAAATTTTTTAGAGTGAACCGATAAAG
Found at i:121286428 original size:18 final size:18
Alignment explanation
Indices: 121286402--121286461 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
121286392 TAATCAAGAC
*
121286402 CATAGTAAAAAAAGATAA
1 CATAATAAAAAAAGATAA
* *
121286420 CATAAT-AAACAAG--AC
1 CATAATAAAAAAAGATAA
*
121286435 CATAGTAAAAAAAGATAA
1 CATAATAAAAAAAGATAA
121286453 CATAATAAA
1 CATAATAAA
121286462 CATAGCAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
15 6 0.19
16 6 0.19
17 6 0.19
18 14 0.44
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.17
Consensus pattern (18 bp):
CATAATAAAAAAAGATAA
Found at i:121286433 original size:33 final size:33
Alignment explanation
Indices: 121286388--121286463 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
121286378 AGAATTAATA
*
121286388 ATAATAATCAAGACCATAGTAAAAAAAGATAAC
1 ATAATAAACAAGACCATAGTAAAAAAAGATAAC
121286421 ATAATAAACAAGACCATAGTAAAAAAAGATAAC
1 ATAATAAACAAGACCATAGTAAAAAAAGATAAC
121286454 ATAATAAACA
1 ATAATAAACA
121286464 TAGCAATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.63, C:0.12, G:0.08, T:0.17
Consensus pattern (33 bp):
ATAATAAACAAGACCATAGTAAAAAAAGATAAC
Found at i:121286854 original size:21 final size:23
Alignment explanation
Indices: 121286810--121286872 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 23
121286800 ATAGTTAACT
121286810 TTTAATAA-AATATATAAAAAGA
1 TTTAATAATAATATATAAAAAGA
* *
121286832 -TTAATAATAATA-ATATAATGA
1 TTTAATAATAATATATAAAAAGA
121286853 TTTAA-AATAA-ATAGTAAAAA
1 TTTAATAATAATATA-TAAAAA
121286873 AACAGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 1 0.03
21 20 0.61
22 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TTTAATAATAATATATAAAAAGA
Found at i:121288070 original size:30 final size:32
Alignment explanation
Indices: 121288036--121288115 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
121288026 AGTGAAAGTG
*
121288036 AAAAATAATAAATAATAATAA-TTTAGTATA-
1 AAAAATAATAAATAATAATAACTATAGTATAT
* ** * *
121288066 AAAAATATTTGATAA-AAAAACTATGGTATAT
1 AAAAATAATAAATAATAATAACTATAGTATAT
121288097 AAAAATAATAAA-AATAATA
1 AAAAATAATAAATAATAATA
121288116 TAGTAAGTCT
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
29 4 0.11
30 21 0.57
31 12 0.32
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (32 bp):
AAAAATAATAAATAATAATAACTATAGTATAT
Found at i:121288202 original size:14 final size:14
Alignment explanation
Indices: 121288183--121288212 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
121288173 TAAAAATTAT
121288183 AAATAATAATAGTA
1 AAATAATAATAGTA
*
121288197 AAATAATAGTAGTA
1 AAATAATAATAGTA
121288211 AA
1 AA
121288213 CGGTAAAAAA
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:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AAATAATAATAGTA
Found at i:121289844 original size:43 final size:43
Alignment explanation
Indices: 121289788--121289876 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
121289778 ACATAGCTAC
*
121289788 TAATATGTATTTCATTTATTTCAAAACATGACACCGATGAATT
1 TAATACGTATTTCATTTATTTCAAAACATGACACCGATGAATT
*
121289831 TAATACGTGTTTCATTTATTTCAAAACATGACACCGATGAATT
1 TAATACGTATTTCATTTATTTCAAAACATGACACCGATGAATT
121289874 TAA
1 TAA
121289877 CTAAAAGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (43 bp):
TAATACGTATTTCATTTATTTCAAAACATGACACCGATGAATT
Found at i:121290972 original size:27 final size:29
Alignment explanation
Indices: 121290942--121290996 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
121290932 AACTTTAATT
* *
121290942 TTAAACCAAA-TATTTGA-ATATTAAATC
1 TTAAACCAAACAAATTGATATATTAAATC
*
121290969 TTAAATCAAACAAATTGATATATTAAAT
1 TTAAACCAAACAAATTGATATATTAAAT
121290997 TTATACAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 9 0.39
28 5 0.22
29 9 0.39
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (29 bp):
TTAAACCAAACAAATTGATATATTAAATC
Found at i:121294905 original size:10 final size:9
Alignment explanation
Indices: 121294871--121294901 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
121294861 TTTTATACCT
121294871 TTTTAATAA
1 TTTTAATAA
121294880 TTTTAATAA
1 TTTTAATAA
121294889 TTTTAATAA
1 TTTTAATAA
121294898 TTTT
1 TTTT
121294902 TAATTTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:121301021 original size:163 final size:164
Alignment explanation
Indices: 121300746--121301072 Score: 541
Period size: 163 Copynumber: 2.0 Consensus size: 164
121300736 TCAAAATTTG
* * * *
121300746 AACATTAAATCATGCGGTTTTGGATGTAGTATGGTGCAGAGGAAGTAAAACTTGGTTGCTTATTG
1 AACACTAAATCATGCGGTTTTAGATGTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTG
* * *
121300811 TCTTCCAGTAAATAACATTTAAATTTTCTATGTTCTTGTTGGTTGAGAATCTTCTGTTTTGATTC
66 TCTGCCAGTAAATAACATTTAAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTC
*
121300876 TGATTGAGGTCA-GGTCATTTTTATCAATATAGT
131 TGATTGAGGTCATGATCATTTTTATCAATATAGT
*
121300909 AACACTAAATCATGTGGTTTTAGATGTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTG
1 AACACTAAATCATGCGGTTTTAGATGTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTG
*
121300974 TCTGCCTA-TAAATAACATTTTAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATT
66 TCTGCC-AGTAAATAACATTTAAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATT
121301038 CTGATTGAGGTCATGATCATTTTTATCAATATAGT
130 CTGATTGAGGTCATGATCATTTTTATCAATATAGT
121301073 TAAATTCTTT
Statistics
Matches: 152, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
163 131 0.86
164 21 0.14
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.42
Consensus pattern (164 bp):
AACACTAAATCATGCGGTTTTAGATGTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTG
TCTGCCAGTAAATAACATTTAAATTTGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTC
TGATTGAGGTCATGATCATTTTTATCAATATAGT
Found at i:121307649 original size:47 final size:46
Alignment explanation
Indices: 121307588--121307699 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 46
121307578 TGCAACTGAA
* * *
121307588 TAATATTTTCTGTAATTACACAAATACACATAACATTACCGAAGTTG
1 TAATATTTT-TGTAATTACACAAATACACAAAACATTACAGAAGTAG
* *
121307635 TAATAGTTTTTGTAATTACATAAATATACAAAACATTACAGAAGTAG
1 TAATA-TTTTTGTAATTACACAAATACACAAAACATTACAGAAGTAG
121307682 TAATAATTTTTGTAATTA
1 TAAT-ATTTTTGTAATTA
121307700 GGTAATGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
47 53 0.91
48 5 0.09
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (46 bp):
TAATATTTTTGTAATTACACAAATACACAAAACATTACAGAAGTAG
Found at i:121318702 original size:6 final size:6
Alignment explanation
Indices: 121318691--121318774 Score: 60
Period size: 6 Copynumber: 14.0 Consensus size: 6
121318681 CCCAGGGAGC
* ** * * * **
121318691 TGGAAT TGGAAT TGGGAT TCAAAT TGGAAG TGGAAC TGGGAT TCAAAT
1 TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT
* * **
121318739 TGGAAA TGGAAT TGGAAT TGGGAT TCAAAT TGGAAT
1 TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT TGGAAT
121318775 GCGCATCCCC
Statistics
Matches: 55, Mismatches: 23, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.31, T:0.30
Consensus pattern (6 bp):
TGGAAT
Found at i:121318749 original size:30 final size:30
Alignment explanation
Indices: 121318715--121318773 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
121318705 GGATTCAAAT
121318715 TGGAAGTGGAACTGGGATTCAAATTGGAAA
1 TGGAAGTGGAACTGGGATTCAAATTGGAAA
* *
121318745 TGGAATTGGAATTGGGATTCAAATTGGAA
1 TGGAAGTGGAACTGGGATTCAAATTGGAA
121318774 TGCGCATCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.32, T:0.27
Consensus pattern (30 bp):
TGGAAGTGGAACTGGGATTCAAATTGGAAA
Found at i:121318774 original size:24 final size:24
Alignment explanation
Indices: 121318691--121318753 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
121318681 CCCAGGGAGC
*
121318691 TGGAATTGGAATTGGGATTCAAAT
1 TGGAAATGGAATTGGGATTCAAAT
* *
121318715 TGGAAGTGGAACTGGGATTCAAAT
1 TGGAAATGGAATTGGGATTCAAAT
121318739 TGGAAATGGAATTGG
1 TGGAAATGGAATTGG
121318754 AATTGGGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.33, T:0.29
Consensus pattern (24 bp):
TGGAAATGGAATTGGGATTCAAAT
Found at i:121320273 original size:12 final size:12
Alignment explanation
Indices: 121320256--121320304 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
121320246 TTTAATTTGC
121320256 TTTAATGTTTAA
1 TTTAATGTTTAA
**
121320268 TTTAA--TTTGC
1 TTTAATGTTTAA
121320278 TTTAATGTTTAA
1 TTTAATGTTTAA
*
121320290 TTTAATATTTAA
1 TTTAATGTTTAA
121320302 TTT
1 TTT
121320305 TTTTCAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
10 8 0.27
12 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (12 bp):
TTTAATGTTTAA
Found at i:121320273 original size:22 final size:22
Alignment explanation
Indices: 121320246--121320295 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
121320236 GACTTTAATG
121320246 TTTAATTTGCTTTAATGTTTAA
1 TTTAATTTGCTTTAATGTTTAA
121320268 TTTAATTTGCTTTAATGTTTAA
1 TTTAATTTGCTTTAATGTTTAA
121320290 TTTAAT
1 TTTAAT
121320296 ATTTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (22 bp):
TTTAATTTGCTTTAATGTTTAA
Found at i:121320292 original size:17 final size:18
Alignment explanation
Indices: 121320233--121320270 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
121320223 TTCAACTGAG
121320233 TTTGACTTTAATGTTTAA
1 TTTGACTTTAATGTTTAA
121320251 TTTG-CTTTAATGTTTAA
1 TTTGACTTTAATGTTTAA
121320268 TTT
1 TTT
121320271 AATTTGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.61
Consensus pattern (18 bp):
TTTGACTTTAATGTTTAA
Found at i:121324927 original size:22 final size:22
Alignment explanation
Indices: 121324900--121324944 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
121324890 CCAAGATATA
121324900 AGAGCATCTCACACTTGGTAAG
1 AGAGCATCTCACACTTGGTAAG
121324922 AGAGCATCTCACACTTGGTAAG
1 AGAGCATCTCACACTTGGTAAG
121324944 A
1 A
121324945 TTGATATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
AGAGCATCTCACACTTGGTAAG
Found at i:121325821 original size:73 final size:74
Alignment explanation
Indices: 121325682--121325825 Score: 227
Period size: 73 Copynumber: 2.0 Consensus size: 74
121325672 AACCTTAATT
* * * *
121325682 TCTTTTTAGATTATTTTTATTCTCAACTTTCAAATCTTTAATCAAATTATTTAATTTAGATGAAA
1 TCTTTTCAAATTATTTTGATTCTCAACCTTCAAATCTTTAATCAAATTATTTAATTTAGATGAAA
121325747 AAGTTACTA
66 AAGTTACTA
* *
121325756 TCTTTTCAAATTATTTTGATTTTCAACCTTCAAATC-TTAATCAAATTATTTATTTTAGATGAAA
1 TCTTTTCAAATTATTTTGATTCTCAACCTTCAAATCTTTAATCAAATTATTTAATTTAGATGAAA
121325820 AAGTTA
66 AAGTTA
121325826 ATTAAACCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
73 33 0.52
74 31 0.48
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (74 bp):
TCTTTTCAAATTATTTTGATTCTCAACCTTCAAATCTTTAATCAAATTATTTAATTTAGATGAAA
AAGTTACTA
Found at i:121333211 original size:23 final size:23
Alignment explanation
Indices: 121333183--121333228 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
121333173 GTTCCTTAGC
121333183 CCAAAATGAGACCGCATTAACAG
1 CCAAAATGAGACCGCATTAACAG
121333206 CCAAAATGAGACCGCATTAACAG
1 CCAAAATGAGACCGCATTAACAG
121333229 TAGTAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.13
Consensus pattern (23 bp):
CCAAAATGAGACCGCATTAACAG
Found at i:121334939 original size:16 final size:16
Alignment explanation
Indices: 121334918--121334950 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
121334908 GTCCATCATT
121334918 ATACACTAAAATTGCC
1 ATACACTAAAATTGCC
*
121334934 ATACACTAAAGTTGCC
1 ATACACTAAAATTGCC
121334950 A
1 A
121334951 AACATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (16 bp):
ATACACTAAAATTGCC
Found at i:121339981 original size:26 final size:26
Alignment explanation
Indices: 121339943--121339998 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
121339933 GGATTTTGTC
* *
121339943 AAATATAAGTATCGCATTA-AAAAAA
1 AAATACAAATATCGCATTAGAAAAAA
**
121339968 TAAATACAAATATCTTATTAGAAAAAA
1 -AAATACAAATATCGCATTAGAAAAAA
121339995 AAAT
1 AAAT
121339999 TGTGAAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (26 bp):
AAATACAAATATCGCATTAGAAAAAA
Found at i:121340465 original size:24 final size:25
Alignment explanation
Indices: 121340419--121340465 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
121340409 TGATGGTTGG
* **
121340419 TTTAATTAAATAATTAATTTATAAA
1 TTTAATTAAAAAATTAAAATATAAA
121340444 TTTAA-TAAAAAATTAAAATATA
1 TTTAATTAAAAAATTAAAATATA
121340466 TTGAAAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTAATTAAAAAATTAAAATATAAA
Found at i:121343057 original size:39 final size:39
Alignment explanation
Indices: 121342998--121343098 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
121342988 ATCGTGATCT
** *
121342998 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
121343037 GCAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
121343076 GAAACCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
121343099 TCATCAGAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.37, C:0.25, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Done.