Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 3 of 117
Found at i:507724 original size:9 final size:9
Alignment explanation
Indices: 507695--507728 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
507685 TAAAATCAGA
507695 ATCATAACC
1 ATCATAACC
*
507704 ATCAAAACC
1 ATCATAACC
*
507713 ATCATAAGC
1 ATCATAACC
507722 ATCATAA
1 ATCATAA
507729 TCATACCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.26, G:0.03, T:0.21
Consensus pattern (9 bp):
ATCATAACC
Found at i:509645 original size:6 final size:6
Alignment explanation
Indices: 509630--509664 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
509620 TTCCGACTTC
* *
509630 GTTTCG GTTTCA GTTTGA GTTTCA GTTTCA GTTTC
1 GTTTCA GTTTCA GTTTCA GTTTCA GTTTCA GTTTC
509665 GGCATCGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.51
Consensus pattern (6 bp):
GTTTCA
Found at i:514903 original size:24 final size:24
Alignment explanation
Indices: 514876--514940 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
514866 AAAATCTTGT
*
514876 ATTTTTAATATTAAAAAA-TAAAA
1 ATTTTAAATATTAAAAAAGTAAAA
* *
514899 AATTTAAA-ATATAAAAAAGTAAGA
1 ATTTTAAATAT-TAAAAAAGTAAAA
* *
514923 GTTTTGAATATTAAAAAA
1 ATTTTAAATATTAAAAAA
514941 ATTAATTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 16 0.48
25 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
ATTTTAAATATTAAAAAAGTAAAA
Found at i:514907 original size:16 final size:16
Alignment explanation
Indices: 514886--514916 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
514876 ATTTTTAATA
514886 TTAAAAAATAAAAAAT
1 TTAAAAAATAAAAAAT
*
514902 TTAAAATATAAAAAA
1 TTAAAAAATAAAAAA
514917 GTAAGAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TTAAAAAATAAAAAAT
Found at i:514932 original size:23 final size:21
Alignment explanation
Indices: 514906--514962 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
514896 AAAAATTTAA
*
514906 AATATAAAAAAGTAAGAGTTTTG
1 AATATAAAAAAATAA-A-TTTTG
*
514929 AATATTAAAAAAATTAATTTTG
1 AATA-TAAAAAAATAAATTTTG
514951 AGATATAAAAAA
1 A-ATATAAAAAA
514963 TGAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 13 0.43
23 8 0.27
24 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (21 bp):
AATATAAAAAAATAAATTTTG
Found at i:522874 original size:14 final size:14
Alignment explanation
Indices: 522855--522881 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
522845 TTCTCTTTAT
522855 TAAAATGTTGTGAA
1 TAAAATGTTGTGAA
522869 TAAAATGTTGTGA
1 TAAAATGTTGTGA
522882 CAGCGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (14 bp):
TAAAATGTTGTGAA
Found at i:527575 original size:2 final size:2
Alignment explanation
Indices: 527568--527618 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
527558 AAACACCGTG
527568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
527610 TA TA TA TA T
1 TA TA TA TA T
527619 GTGTGTGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:529345 original size:14 final size:14
Alignment explanation
Indices: 529328--529357 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
529318 CCATATATGT
*
529328 TAATTTCGTTTTAG
1 TAATTTCGATTTAG
529342 TAATTTCGATTTAG
1 TAATTTCGATTTAG
529356 TA
1 TA
529358 TTGGTCGTTA
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:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TAATTTCGATTTAG
Found at i:529798 original size:28 final size:28
Alignment explanation
Indices: 529745--529799 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
529735 TTTTTATCTT
**
529745 AATATTTATATAACAAAATACTTATTTA
1 AATATTTATATAACAAAATAAGTATTTA
*
529773 AATA-TTATATAATCAAATTAAGTATTT
1 AATATTTATATAA-CAAAATAAGTATTT
529800 CAAAAAAAAT
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:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
AATATTTATATAACAAAATAAGTATTTA
Found at i:530426 original size:13 final size:13
Alignment explanation
Indices: 530396--530442 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
530386 TTTGATAGTT
* *
530396 TAAAATATAATAC
1 TAAAATATAAAAA
*
530409 GAAAATATAAAAA
1 TAAAATATAAAAA
530422 TAAAATATAAAAA
1 TAAAATATAAAAA
*
530435 TAACATAT
1 TAAAATAT
530443 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (13 bp):
TAAAATATAAAAA
Found at i:530549 original size:29 final size:28
Alignment explanation
Indices: 530487--530550 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
530477 ATAAGATAAA
530487 AAATAT-ATTTTATATTAAAAAATTTAT
1 AAATATAATTTTATATTAAAAAATTTAT
*
530514 AACATATAATTTT-TATATAAAAAATTATCT
1 AA-ATATAATTTTATAT-TAAAAAATT-TAT
530544 AAATATA
1 AAATATA
530551 TAAATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.06
28 7 0.22
29 19 0.59
30 4 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATAATTTTATATTAAAAAATTTAT
Found at i:530559 original size:31 final size:30
Alignment explanation
Indices: 530493--530564 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
530483 TAAAAAATAT
530493 ATTTTATATTAAAAAATTTATAACATATAA
1 ATTTTATATTAAAAAATTTATAACATATAA
* * *
530523 TTTTTATA-TAAAAAATTATCTAAATATATAA
1 ATTTTATATTAAAAAATT-TAT-AACATATAA
530554 ATTTTAATATT
1 ATTTT-ATATT
530565 TTATATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 9 0.26
30 9 0.26
31 12 0.35
32 3 0.09
33 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTTATATTAAAAAATTTATAACATATAA
Found at i:537242 original size:47 final size:47
Alignment explanation
Indices: 537169--537266 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
537159 TGAATGAACC
*
537169 TGCTTGTATTAGATTCCATTGTATGAGATCAACTTCTGTAGTATTGG
1 TGCTTGTATTAGATTCCATTGGATGAGATCAACTTCTGTAGTATTGG
537216 TGCTTGTATTAGATTCCATTGGATGAGATCAACTTCTGTAGTATTGG
1 TGCTTGTATTAGATTCCATTGGATGAGATCAACTTCTGTAGTATTGG
537263 TGCT
1 TGCT
537267 CTAAGGACCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (47 bp):
TGCTTGTATTAGATTCCATTGGATGAGATCAACTTCTGTAGTATTGG
Found at i:542315 original size:117 final size:117
Alignment explanation
Indices: 542183--542408 Score: 373
Period size: 117 Copynumber: 1.9 Consensus size: 117
542173 AAAAACCCAA
*
542183 AATATAAAATTATTTTAGTTGATTTTTACTTAAAATCACTTAATTTTATTGATAATTATTTTTAG
1 AATATAAAATTATTTTAGTTGATTTTTACTTAAAATCACTTAATTTTATTGATAATTATTTCT-G
** *
542248 AA-TTTTCCTTTTTTTACATGGTCATACAGATATCAAATCCAACTCGTTCACT
65 AATTTTTCCTTTTTTTACATACTCATACAAATATCAAATCCAACTCGTTCACT
542300 AATATAAAATTATTTTAGTTGATTTTTACTTAAAATCACTTAATTTTATTGATAATTATTTCTGA
1 AATATAAAATTATTTTAGTTGATTTTTACTTAAAATCACTTAATTTTATTGATAATTATTTCTGA
* * *
542365 ATTTTTCTTTTTTTTACATACTCATACAAATATTAAATCTAACT
66 ATTTTTCCTTTTTTTACATACTCATACAAATATCAAATCCAACT
542409 AATTTATTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 3 0.03
117 98 0.97
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (117 bp):
AATATAAAATTATTTTAGTTGATTTTTACTTAAAATCACTTAATTTTATTGATAATTATTTCTGA
ATTTTTCCTTTTTTTACATACTCATACAAATATCAAATCCAACTCGTTCACT
Found at i:544069 original size:24 final size:24
Alignment explanation
Indices: 544042--544097 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
544032 AGGGTGGAGG
544042 ATTTTGTACTTTTAAGTGAAGAGA
1 ATTTTGTACTTTTAAGTGAAGAGA
544066 ATTTTGTACTTTTAAGTGAAGAGA
1 ATTTTGTACTTTTAAGTGAAGAGA
544090 ATTTTGTA
1 ATTTTGTA
544098 AAGCAGCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (24 bp):
ATTTTGTACTTTTAAGTGAAGAGA
Found at i:552104 original size:36 final size:35
Alignment explanation
Indices: 552048--552119 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
552038 GTTTAAGTTG
*
552048 ATCTATAATTGATTCTTATTCTGTAATCTTAATGATA
1 ATCTATAATTGATTCCTATTCTGTAAT-TTAAT-ATA
552085 ATCTATAA-TGATTCCTATTCTGTAATTTAATATA
1 ATCTATAATTGATTCCTATTCTGTAATTTAATATA
552119 A
1 A
552120 CCATATTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 4 0.12
35 5 0.15
36 17 0.50
37 8 0.24
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (35 bp):
ATCTATAATTGATTCCTATTCTGTAATTTAATATA
Found at i:558910 original size:52 final size:52
Alignment explanation
Indices: 558827--558929 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
558817 ATAACGTTTA
* *
558827 ATTTGGGGTTTATAAAAGGGTTAGAGTTAGGGTTTGAAGAAACAGGAAAAAG
1 ATTTAGGGTTTATAAAAGCGTTAGAGTTAGGGTTTGAAGAAACAGGAAAAAG
* *
558879 ATTTAGGGTTTGTAAAAGCGTTACG-GTTAGGGTTTGAAGAAAGAGGAAAAA
1 ATTTAGGGTTTATAAAAGCGTTA-GAGTTAGGGTTTGAAGAAACAGGAAAAA
558930 AAGTTAAAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 45 0.98
53 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.32, T:0.27
Consensus pattern (52 bp):
ATTTAGGGTTTATAAAAGCGTTAGAGTTAGGGTTTGAAGAAACAGGAAAAAG
Found at i:561905 original size:26 final size:26
Alignment explanation
Indices: 561865--561921 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
561855 ACATATCTGC
561865 TTTTA-GTTGACATGACTTAACATCA
1 TTTTAGGTTGACATGACTTAACATCA
* *
561890 TTTTAGGTTTACATGACTTAGCATCA
1 TTTTAGGTTGACATGACTTAACATCA
561916 TTTTAG
1 TTTTAG
561922 CCCACCTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (26 bp):
TTTTAGGTTGACATGACTTAACATCA
Found at i:565187 original size:120 final size:120
Alignment explanation
Indices: 564974--565209 Score: 445
Period size: 120 Copynumber: 2.0 Consensus size: 120
564964 GGTGACTAGC
564974 TAACTTCTGATGCTGCTCTTTCAGGTTCTAGAGCACAATACTCTAGAGGAACTGCTAGCTAATGA
1 TAACTTCTGATGCTGCTCTTTCAGGTTCTAGAGCACAATACTCTAGAGGAACTGCTAGCTAATGA
*
565039 AGAAAGCACATTCTCTAAAATGGTTCAAAGCACACAGCCTGCTAATGCAGATAGA
66 AGAAAGCACATTCTCTAAAATGGTTCAAAGCACACAGCCCGCTAATGCAGATAGA
565094 TAACTTCTGATGCTGCTCTTTCAGGTTCTAGAGCACAATACTCTAGAGGAACTGCTAGCTAATGA
1 TAACTTCTGATGCTGCTCTTTCAGGTTCTAGAGCACAATACTCTAGAGGAACTGCTAGCTAATGA
* *
565159 AGAAAGCACATTCTCTGAAATGGTTCAAAGCACACGGCCCGCTAATGCAGA
66 AGAAAGCACATTCTCTAAAATGGTTCAAAGCACACAGCCCGCTAATGCAGA
565210 ATAGTACGTA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (120 bp):
TAACTTCTGATGCTGCTCTTTCAGGTTCTAGAGCACAATACTCTAGAGGAACTGCTAGCTAATGA
AGAAAGCACATTCTCTAAAATGGTTCAAAGCACACAGCCCGCTAATGCAGATAGA
Found at i:567896 original size:30 final size:30
Alignment explanation
Indices: 567860--567918 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
567850 TCCAGCGAGG
*
567860 ATGTTAACCTTGAATCTTTATTAGATAATA
1 ATGTTAACCATGAATCTTTATTAGATAATA
*
567890 ATGTTAACCATGAATCTTTGTTAGATAAT
1 ATGTTAACCATGAATCTTTATTAGATAAT
567919 CATACATTTT
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:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
ATGTTAACCATGAATCTTTATTAGATAATA
Found at i:568858 original size:2 final size:2
Alignment explanation
Indices: 568851--568875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
568841 CTTGCTGGCC
568851 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
568876 TTGTCTTGTC
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
Found at i:571656 original size:25 final size:25
Alignment explanation
Indices: 571627--571683 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
571617 ACATGTCTAC
*
571627 TTTTAGTTGGCATGACTTAACATCA
1 TTTTAGTTGACATGACTTAACATCA
* *
571652 TTTTAGGTTTACATGACTTAGCATCA
1 TTTTA-GTTGACATGACTTAACATCA
571678 TTTTAG
1 TTTTAG
571684 CCCTCCTCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (25 bp):
TTTTAGTTGACATGACTTAACATCA
Found at i:594259 original size:23 final size:24
Alignment explanation
Indices: 594228--594272 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
594218 AGCTAGATTA
*
594228 ATATGTAAA-AATAAGCTCGATTTT
1 ATATGTAAACAA-AAACTCGATTTT
594252 ATAT-TAAACAAAAACTCGATT
1 ATATGTAAACAAAAACTCGATT
594273 ATTTGTGCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (24 bp):
ATATGTAAACAAAAACTCGATTTT
Found at i:598584 original size:2 final size:2
Alignment explanation
Indices: 598577--598607 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
598567 CCTTTTTGCC
598577 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
598608 ATTTTGCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:602180 original size:42 final size:42
Alignment explanation
Indices: 602129--602211 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
602119 TTTGTGAAAC
* * *
602129 GGAAAAGCAATCGTGAGGCAATTC-ACATTTCTTTTGAAAGTA
1 GGAAAAGCAATCATAAGGCAACTCAAC-TTTCTTTTGAAAGTA
*
602171 GGAAAAGCAATCATAAGGCAGCTCAACTTTCTTTTGAAAGT
1 GGAAAAGCAATCATAAGGCAACTCAACTTTCTTTTGAAAGT
602212 TCAAATCTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (42 bp):
GGAAAAGCAATCATAAGGCAACTCAACTTTCTTTTGAAAGTA
Found at i:622042 original size:3 final size:3
Alignment explanation
Indices: 622034--622077 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
622024 TATGCGTTTT
622034 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
622078 ATTATAGCGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:622596 original size:137 final size:136
Alignment explanation
Indices: 622351--622598 Score: 460
Period size: 137 Copynumber: 1.8 Consensus size: 136
622341 CTGTACAGAT
622351 TAAAAGTATATACACATGTACATTAATCAGATAAGCGAATTGTGGAACCAAAAAGAAAAAAGGTT
1 TAAAAGTATATACACATGTACATTAATCAGATAAGCGAATTGTGGAACCAAAAAGAAAAAAGGTT
*
622416 GAGATCACAGAATCAAAAGTTAATAGTTAACTAAAACTTCCCATACTCATAACTTATCATTCTCT
66 GAGATCAAAGAATCAAAAGTTAATAGTTAACTAAAACTTCCCATACTCATAACTTATCATTCTCT
622481 TTCCAC
131 TTCCAC
*
622487 TAAAAGTATATACACATGTACATTAATCAGATAAGTGAATTGTGGAAACCAAAAAGAAAAAAGGT
1 TAAAAGTATATACACATGTACATTAATCAGATAAGCGAATTGTGG-AACCAAAAAGAAAAAAGGT
*
622552 TGAGATCAAAGAATCAAAAGTTAATAGTTAACTAAACCTTCCCATAC
65 TGAGATCAAAGAATCAAAAGTTAATAGTTAACTAAAACTTCCCATAC
622599 CTGTTATTTT
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 44 0.41
137 64 0.59
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.26
Consensus pattern (136 bp):
TAAAAGTATATACACATGTACATTAATCAGATAAGCGAATTGTGGAACCAAAAAGAAAAAAGGTT
GAGATCAAAGAATCAAAAGTTAATAGTTAACTAAAACTTCCCATACTCATAACTTATCATTCTCT
TTCCAC
Found at i:624855 original size:22 final size:23
Alignment explanation
Indices: 624830--624877 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
624820 ATGTGAATCA
*
624830 GCTAATATAAAT-ACAAACAATT
1 GCTAATAGAAATCACAAACAATT
*
624852 GCT-ATAGAAATCACATACAATT
1 GCTAATAGAAATCACAAACAATT
624874 GCTA
1 GCTA
624878 TGGAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (23 bp):
GCTAATAGAAATCACAAACAATT
Found at i:624878 original size:22 final size:21
Alignment explanation
Indices: 624838--624885 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
624828 CAGCTAATAT
624838 AAATACAAACAATTGCTATAG
1 AAATACAAACAATTGCTATAG
* *
624859 AAATCACATACAATTGCTATGG
1 AAAT-ACAAACAATTGCTATAG
624881 AAATA
1 AAATA
624886 AGTTATCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (21 bp):
AAATACAAACAATTGCTATAG
Found at i:629517 original size:326 final size:326
Alignment explanation
Indices: 628924--629573 Score: 1282
Period size: 326 Copynumber: 2.0 Consensus size: 326
628914 TGTCTAGGCT
628924 ATAACTAAGGTCTTCCTAGTATGTGAAACTGTCAAGTGTTCACTGCATGAGGGAATCAGACAAGT
1 ATAACTAAGGTCTTCCTAGTATGTGAAACTGTCAAGTGTTCACTGCATGAGGGAATCAGACAAGT
* *
628989 GATGTCCTACAAACATAGTTGATTCAAAGACAAGTTTTTCTCACTACAATACAGTGGTCGCTTGA
66 GATGTCCTACAAACATAGTTGATTCAAAGACAAGTTTTTCTCACTACAATAAAGTGGTCACTTGA
629054 AGATAAATCCTATAAAGCAGACTAGGTAGTTCCACAAGCGTGTCAAGGACAATAATATCTGTTTT
131 AGATAAATCCTATAAAGCAGACTAGGTAGTTCCACAAGCGTGTCAAGGACAATAATATCTGTTTT
629119 CCAGAATGGAAATAAACTTATGGTACGACATAAACCAATTGCAAAGTGTTCATGTTGAAATTAAC
196 CCAGAATGGAAATAAACTTATGGTACGACATAAACCAATTGCAAAGTGTTCATGTTGAAATTAAC
629184 AGAAAAGGCAATGTCACTGAAACATATTAGGTTCTCTATTGATATTGTGATCAAATCCTAGAAAA
261 AGAAAAGGCAATGTCACTGAAACATATTAGGTTCTCTATTGATATTGTGATCAAATCCTAGAAAA
629249 C
326 C
629250 ATAACTAAGGTCTTCCTAGTATGTGAAACTGTCAAGTGTTCACTGCATGAGGGAATCAGACAAGT
1 ATAACTAAGGTCTTCCTAGTATGTGAAACTGTCAAGTGTTCACTGCATGAGGGAATCAGACAAGT
629315 GATGTCCTACAAACATAGTTGATTCAAAGACAAGTTTTTCTCACTACAATAAAGTGGTCACTTGA
66 GATGTCCTACAAACATAGTTGATTCAAAGACAAGTTTTTCTCACTACAATAAAGTGGTCACTTGA
629380 AGATAAATCCTATAAAGCAGACTAGGTAGTTCCACAAGCGTGTCAAGGACAATAATATCTGTTTT
131 AGATAAATCCTATAAAGCAGACTAGGTAGTTCCACAAGCGTGTCAAGGACAATAATATCTGTTTT
629445 CCAGAATGGAAATAAACTTATGGTACGACATAAACCAATTGCAAAGTGTTCATGTTGAAATTAAC
196 CCAGAATGGAAATAAACTTATGGTACGACATAAACCAATTGCAAAGTGTTCATGTTGAAATTAAC
629510 AGAAAAGGCAATGTCACTGAAACATATTAGGTTCTCTATTGATATTGTGATCAAATCCTAGAAA
261 AGAAAAGGCAATGTCACTGAAACATATTAGGTTCTCTATTGATATTGTGATCAAATCCTAGAAA
629574 GCAGACTAGG
Statistics
Matches: 322, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
326 322 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (326 bp):
ATAACTAAGGTCTTCCTAGTATGTGAAACTGTCAAGTGTTCACTGCATGAGGGAATCAGACAAGT
GATGTCCTACAAACATAGTTGATTCAAAGACAAGTTTTTCTCACTACAATAAAGTGGTCACTTGA
AGATAAATCCTATAAAGCAGACTAGGTAGTTCCACAAGCGTGTCAAGGACAATAATATCTGTTTT
CCAGAATGGAAATAAACTTATGGTACGACATAAACCAATTGCAAAGTGTTCATGTTGAAATTAAC
AGAAAAGGCAATGTCACTGAAACATATTAGGTTCTCTATTGATATTGTGATCAAATCCTAGAAAA
C
Found at i:634368 original size:17 final size:17
Alignment explanation
Indices: 634334--634372 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
634324 TTAATATAAA
*
634334 ATTTTCATTATATTATT
1 ATTTTCATTATATCATT
634351 ATTTT-ATTATTATCATT
1 ATTTTCATTA-TATCATT
634368 ATTTT
1 ATTTT
634373 TATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTCATTATATCATT
Found at i:637848 original size:14 final size:15
Alignment explanation
Indices: 637829--637862 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
637819 AAATATTTAT
*
637829 ATATTTTT-ATATAA
1 ATATTTTTAATAAAA
637843 ATATTTTTAATAAAA
1 ATATTTTTAATAAAA
637858 ATATT
1 ATATT
637863 AATATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTTTAATAAAA
Found at i:642989 original size:18 final size:18
Alignment explanation
Indices: 642962--642996 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
642952 CAATGAAGAA
642962 GAGGAAGAGGAAGAAAGT
1 GAGGAAGAGGAAGAAAGT
* *
642980 GAGGAGGAGGATGAAAG
1 GAGGAAGAGGAAGAAAG
642997 CTTTGGTGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.49, T:0.06
Consensus pattern (18 bp):
GAGGAAGAGGAAGAAAGT
Found at i:647931 original size:17 final size:17
Alignment explanation
Indices: 647911--647963 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
647901 ATTTGTCTCT
647911 TATAAATATAAATTTTA
1 TATAAATATAAATTTTA
* *
647928 TATAAATTGATAGATATTA
1 TATAAA-T-ATAAATTTTA
* *
647947 TATAATTTTAAATTTTA
1 TATAAATATAAATTTTA
647964 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAAATATAAATTTTA
Found at i:648036 original size:15 final size:15
Alignment explanation
Indices: 648016--648045 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
648006 GCACAGGCCT
648016 TGAGCCCAATGGTTA
1 TGAGCCCAATGGTTA
*
648031 TGAGCCGAATGGTTA
1 TGAGCCCAATGGTTA
648046 AGACAGCAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (15 bp):
TGAGCCCAATGGTTA
Found at i:656058 original size:29 final size:28
Alignment explanation
Indices: 656009--656063 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
655999 ATTACACTAA
* *
656009 ATTTTTTAGCAAGCCATAAGTTTGATAT
1 ATTTTTTAGAAAGCCACAAGTTTGATAT
*
656037 ATTTTTTTGAAAGACCACAAGTTTGAT
1 ATTTTTTAGAAAG-CCACAAGTTTGAT
656064 TTTAAACAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (28 bp):
ATTTTTTAGAAAGCCACAAGTTTGATAT
Found at i:667877 original size:2 final size:2
Alignment explanation
Indices: 667872--667912 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
667862 ACACACACGC
* *
667872 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
667913 AAGATCAAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:672025 original size:4 final size:4
Alignment explanation
Indices: 672016--672042 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
672006 TACCTATATA
672016 CATC CATC CATC CATC CATC CATC CAT
1 CATC CATC CATC CATC CATC CATC CAT
672043 ACATGCATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.48, G:0.00, T:0.26
Consensus pattern (4 bp):
CATC
Found at i:674219 original size:37 final size:37
Alignment explanation
Indices: 674177--674251 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
674167 AAATCGAATT
* * *
674177 ATTCAAACCCATTCAATTAAATTTAATTAATACAAAA
1 ATTCAAACACACTCAATTAAATTAAATTAATACAAAA
*
674214 ATTCAAACACACTCAATTAAATTAAATTAATATAAAA
1 ATTCAAACACACTCAATTAAATTAAATTAATACAAAA
674251 A
1 A
674252 AATAAACTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.31
Consensus pattern (37 bp):
ATTCAAACACACTCAATTAAATTAAATTAATACAAAA
Found at i:676558 original size:39 final size:38
Alignment explanation
Indices: 676506--676581 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
676496 AACCAAATAA
676506 AAATAAATACCGGATCAG-TTTGCAAATAGTAACTGAAAT
1 AAATAAATACCGGATC-GCTTTGCAAATAGTAAC-GAAAT
* *
676545 AAATATATGCCGGATCGCTTTGCAAATAGTAACGAAA
1 AAATAAATACCGGATCGCTTTGCAAATAGTAACGAAA
676582 CTATTATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (38 bp):
AAATAAATACCGGATCGCTTTGCAAATAGTAACGAAAT
Found at i:682660 original size:15 final size:14
Alignment explanation
Indices: 682640--682684 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
682630 ATCGATTTGA
682640 TTTAATTTATTGATT
1 TTTAATTTATT-ATT
* *
682655 TTTAATTTTTTAAT
1 TTTAATTTATTATT
*
682669 TTTAATATATTATT
1 TTTAATTTATTATT
682683 TT
1 TT
682685 AATATAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTAATTTATTATT
Found at i:682685 original size:13 final size:13
Alignment explanation
Indices: 682667--682705 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
682657 TAATTTTTTA
682667 ATTTTAATATATT
1 ATTTTAATATATT
**
682680 ATTTTAATATAAA
1 ATTTTAATATATT
682693 ATTTTAATATATT
1 ATTTTAATATATT
682706 TAAGTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:690883 original size:31 final size:31
Alignment explanation
Indices: 690845--690906 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
690835 AATATGACTT
690845 AGCTTGTGTTATTGACTATGTTAAATTGAGC
1 AGCTTGTGTTATTGACTATGTTAAATTGAGC
*
690876 AGCTTGTGTTATTGATTATGTTAAATTGAGC
1 AGCTTGTGTTATTGACTATGTTAAATTGAGC
690907 TATCTTTCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (31 bp):
AGCTTGTGTTATTGACTATGTTAAATTGAGC
Found at i:695123 original size:252 final size:255
Alignment explanation
Indices: 694668--695159 Score: 706
Period size: 252 Copynumber: 1.9 Consensus size: 255
694658 TCATTGATTG
* * * * * * *
694668 TTTTTGGAGGGTTTTGGTTATATTTTCTTTAAACATTTTAATCTTTCTCTTTTAATCCTTATACT
1 TTTTTGGAGGGTTTTGGTAATACTTTCTTTAAACATTTAAACCTTTCTCTATCAACCCTTATACT
** *
694733 ATGGTACTACTATGTATTTTTCATGATTTCCACAGAAAGGACGAAAATGAAAGAAATTAAAAAGT
66 ATACTACTACTATGTATTTTTAATGATTTCCACAGAAAGGACGAAAATGAAAGAAATTAAAAAGT
* *
694798 TGACAACATCACATTTTCACTCTACGTATTAAGGTTATTTCTGTCATTGCACTAATTTATTCAGA
131 TGACAACATCACATTTTCACTCCACGTATTAAGGTTATTTCTGTCATTGCACTAATTAATTCAGA
* * * *
694863 AATGTGACCATATTAAATAAATAATTAATTAATTAGTTATAAAAAGACTTACAATTAATT
196 AATGTGACCATAGTAAATAAATAAATAATTAATTAATTAAAAAAAGACTTACAATTAATT
* *
694923 TTTTTGG-GGGTTTTGGTAATACTTTCTTTCAACATTTAAACCTTTCTCTATCAACCCTTGTACT
1 TTTTTGGAGGGTTTTGGTAATACTTTCTTTAAACATTTAAACCTTTCTCTATCAACCCTTATACT
* * * *
694987 ATACTGCTGCTATGTATTTTTAATTA-TTCCACA-AAAGGACGAAAATGAAAGGAATTAAAAAGT
66 ATACTACTACTATGTATTTTTAATGATTTCCACAGAAAGGACGAAAATGAAAGAAATTAAAAAGT
* *
695050 TGAC-AC-TGCCACATTTTCGCTCCACGTATTAAGGTTATTTCTGTCATTGCACTAATTAATTTA
131 TGACAACAT--CACATTTTCACTCCACGTATTAAGGTTATTTCTGTCATTGCACTAATTAATTCA
*
695113 GAAATGTGACCATGGTAAATAAATAAATAATTAATTAATTAAAAAAA
194 GAAATGTGACCATAGTAAATAAATAAATAATTAATTAATTAAAAAAA
695160 AAACTTTCAA
Statistics
Matches: 210, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
250 1 0.00
251 2 0.01
252 125 0.60
253 7 0.03
254 68 0.32
255 7 0.03
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (255 bp):
TTTTTGGAGGGTTTTGGTAATACTTTCTTTAAACATTTAAACCTTTCTCTATCAACCCTTATACT
ATACTACTACTATGTATTTTTAATGATTTCCACAGAAAGGACGAAAATGAAAGAAATTAAAAAGT
TGACAACATCACATTTTCACTCCACGTATTAAGGTTATTTCTGTCATTGCACTAATTAATTCAGA
AATGTGACCATAGTAAATAAATAAATAATTAATTAATTAAAAAAAGACTTACAATTAATT
Found at i:710511 original size:16 final size:16
Alignment explanation
Indices: 710475--710505 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
710465 TAACACTTCT
*
710475 CTTTTCTTTCTCTTTG
1 CTTTTCTTTTTCTTTG
710491 CTTTTCTTTTTCTTT
1 CTTTTCTTTTTCTTT
710506 TTTTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (16 bp):
CTTTTCTTTTTCTTTG
Found at i:719212 original size:22 final size:20
Alignment explanation
Indices: 719174--719214 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
719164 ATGCTCGATA
*
719174 TATATTTTTTTGTAATATTT
1 TATATTTTTTTGAAATATTT
719194 TATATTTTTAATTGAAATATT
1 TATATTTTT--TTGAAATATT
719215 AAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TATATTTTTTTGAAATATTT
Found at i:725197 original size:17 final size:16
Alignment explanation
Indices: 725175--725231 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
725165 ATTTTCACCT
725175 ATATAATTAAATAATAC
1 ATATAATTAAAT-ATAC
**
725192 ATATAATTATCTAT-C
1 ATATAATTAAATATAC
* *
725207 ATATAATTAGATTATAG
1 ATATAATTA-AATATAC
725224 ATATAATT
1 ATATAATT
725232 TATCTATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 10 0.30
16 5 0.15
17 18 0.55
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (16 bp):
ATATAATTAAATATAC
Found at i:725215 original size:32 final size:33
Alignment explanation
Indices: 725175--725238 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
725165 ATTTTCACCT
725175 ATATAATTAAATAATACATATAA-TTATCTATC
1 ATATAATTAAATAATACATATAATTTATCTATC
* * *
725207 ATATAATTAGATTATAGATATAATTTATCTAT
1 ATATAATTAAATAATACATATAATTTATCTAT
725239 AATCTTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (33 bp):
ATATAATTAAATAATACATATAATTTATCTATC
Found at i:725239 original size:17 final size:17
Alignment explanation
Indices: 725188--725239 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
725178 TAATTAAATA
725188 ATACATATAA-TTATCT
1 ATACATATAATTTATCT
*
725204 AT-CATATAATTAGAT-T
1 ATACATATAATT-TATCT
*
725220 ATAGATATAATTTATCT
1 ATACATATAATTTATCT
725237 ATA
1 ATA
725240 ATCTTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 7 0.24
16 8 0.28
17 14 0.48
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (17 bp):
ATACATATAATTTATCT
Found at i:725699 original size:22 final size:24
Alignment explanation
Indices: 725664--725711 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
725654 AGGTTTTTTA
725664 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATATATT
725686 TTAAATTAAT-TAAATTAATATATT
1 TTAAA-TAATATAAATTAATATATT
725710 TT
1 TT
725712 TATTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.48
23 6 0.26
24 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAAATAATATAAATTAATATATT
Found at i:725729 original size:23 final size:22
Alignment explanation
Indices: 725658--725730 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 22
725648 CTAAATAGGT
725658 TTTTTATTAAATAATATAAATTATTA
1 TTTTTATTAAA-AATAT-AA-TA-TA
*
725684 TTTTAAATTAATTAAAT-TAATATA
1 TTTT-TATTAA--AAATATAATATA
725708 TTTTTATTAAAAATAT-ATATA
1 TTTTTATTAAAAATATAATATA
725729 TT
1 TT
725731 AATATATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
21 11 0.27
22 1 0.02
23 5 0.12
24 6 0.15
25 2 0.05
26 6 0.15
27 6 0.15
28 3 0.07
29 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTATTAAAAATATAATATA
Found at i:725886 original size:24 final size:23
Alignment explanation
Indices: 725858--725909 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
725848 ATGAATAAAA
* *
725858 ATAAATTTAAA-ATATTTATTAAGT
1 ATAAATATAAATATATGTA-TAA-T
725882 ATAAATATAAATATATGTATAAT
1 ATAAATATAAATATATGTATAAT
725905 ATAAA
1 ATAAA
725910 AATTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 13 0.52
25 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
ATAAATATAAATATATGTATAAT
Found at i:734372 original size:37 final size:37
Alignment explanation
Indices: 734330--734405 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
734320 ATATACTCCT
734330 TACTATCATTTGCTTTGTAAATGATTGCTAATAGCCA
1 TACTATCATTTGCTTTGTAAATGATTGCTAATAGCCA
*
734367 TACTATCATTTGCTTTGTAAATTATTGCTAATAGCCA
1 TACTATCATTTGCTTTGTAAATGATTGCTAATAGCCA
734404 TA
1 TA
734406 GTTTCAATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (37 bp):
TACTATCATTTGCTTTGTAAATGATTGCTAATAGCCA
Found at i:742877 original size:17 final size:17
Alignment explanation
Indices: 742851--742895 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
742841 AGATTCGATG
742851 ATATAATATAAAA-ATA
1 ATATAATATAAAATATA
742867 ATATAAATATAAAATATA
1 ATAT-AATATAAAATATA
*
742885 AAATAATATAA
1 ATATAATATAA
742896 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 16 0.62
18 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATATAATATAAAATATA
Found at i:742891 original size:23 final size:21
Alignment explanation
Indices: 742858--742902 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
742848 ATGATATAAT
742858 ATAAAAATAATATAAATATAAA
1 ATAAAAATAATAT-AATATAAA
742880 ATATAAAATAATATAAT-TAAA
1 ATA-AAAATAATATAATATAAA
742901 AT
1 AT
742903 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAAAATAATATAATATAAA
Found at i:744229 original size:2 final size:2
Alignment explanation
Indices: 744222--744261 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
744212 TTTGATTCCC
744222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
744262 TGATATCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:748505 original size:94 final size:94
Alignment explanation
Indices: 748344--748535 Score: 384
Period size: 94 Copynumber: 2.0 Consensus size: 94
748334 TTGTGGGAGG
748344 TTTTTAGTGAGATTAAAATCATGAGAATGTGTATTTTTATCCTGTGCTGAAAAGTTTTCATGTTG
1 TTTTTAGTGAGATTAAAATCATGAGAATGTGTATTTTTATCCTGTGCTGAAAAGTTTTCATGTTG
748409 GTACTTAGCTTCATTCTTCACTCAATTTC
66 GTACTTAGCTTCATTCTTCACTCAATTTC
748438 TTTTTAGTGAGATTAAAATCATGAGAATGTGTATTTTTATCCTGTGCTGAAAAGTTTTCATGTTG
1 TTTTTAGTGAGATTAAAATCATGAGAATGTGTATTTTTATCCTGTGCTGAAAAGTTTTCATGTTG
748503 GTACTTAGCTTCATTCTTCACTCAATTTC
66 GTACTTAGCTTCATTCTTCACTCAATTTC
748532 TTTT
1 TTTT
748536 ACCCATTCTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 98 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.46
Consensus pattern (94 bp):
TTTTTAGTGAGATTAAAATCATGAGAATGTGTATTTTTATCCTGTGCTGAAAAGTTTTCATGTTG
GTACTTAGCTTCATTCTTCACTCAATTTC
Found at i:748542 original size:25 final size:25
Alignment explanation
Indices: 748514--748564 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
748504 TACTTAGCTT
748514 CATTCTTCACTCAATTTCTTTTACC
1 CATTCTTCACTCAATTTCTTTTACC
748539 CATTCTTCACTCAATTTCTTTTACC
1 CATTCTTCACTCAATTTCTTTTACC
748564 C
1 C
748565 TTTATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (25 bp):
CATTCTTCACTCAATTTCTTTTACC
Found at i:748696 original size:2 final size:2
Alignment explanation
Indices: 748689--748732 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
748679 TAGTGGATAG
* * * *
748689 AT AT AT AT AT AT AT AT AT AT AC AT AC AT AC AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
748731 AT
1 AT
748733 GATTTAAATG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:749655 original size:1 final size:1
Alignment explanation
Indices: 749644--749678 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
749634 GCTTAACCAG
*
749644 AAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
749679 CACTATAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:756311 original size:20 final size:20
Alignment explanation
Indices: 756271--756311 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
756261 ATTCGACACT
*
756271 ATTTTTATTATCTCTTAATA
1 ATTTTTATTATCTATTAATA
* *
756291 ATTTTTATTATTTATTTATA
1 ATTTTTATTATCTATTAATA
756311 A
1 A
756312 ATATGATCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTATTATCTATTAATA
Found at i:760147 original size:22 final size:23
Alignment explanation
Indices: 760122--760165 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
760112 TGTTATCTCT
760122 TTTCAGCAGGTAAATTT-ATTTG
1 TTTCAGCAGGTAAATTTGATTTG
*
760144 TTTCAGCTGGTAAATTTGATTT
1 TTTCAGCAGGTAAATTTGATTT
760166 CTTCCAACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (23 bp):
TTTCAGCAGGTAAATTTGATTTG
Found at i:765781 original size:65 final size:64
Alignment explanation
Indices: 765724--765843 Score: 154
Period size: 65 Copynumber: 1.9 Consensus size: 64
765714 AATTTTAATG
* * * *
765724 AAAA-TTTTTTCTCTTATACATCA-TCTCATCCCAATTTTAAATTAATTTTAAAGTAAATAATTT
1 AAAATTTTTTTCTATTATACATCACT-TCATCCCAAATTAAAATCAATTTTAAAGTAAAT-ATTT
765787 T
64 T
* *
765788 AAAATTTTTTTTTATTATACATCACTTCATCTCAAATTAAAATCAATTTTAAAGTA
1 AAAATTTTTTTCTATTATACATCACTTCATCCCAAATTAAAATCAATTTTAAAGTA
765844 TTTTTTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 4 0.08
65 43 0.90
66 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (64 bp):
AAAATTTTTTTCTATTATACATCACTTCATCCCAAATTAAAATCAATTTTAAAGTAAATATTTT
Found at i:765786 original size:15 final size:16
Alignment explanation
Indices: 765761--765790 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
765751 ATCCCAATTT
765761 TAAATTAATTTTAAAG
1 TAAATTAATTTTAAAG
765777 TAAA-TAATTTTAAA
1 TAAATTAATTTTAAA
765791 ATTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAATTAATTTTAAAG
Found at i:766397 original size:18 final size:20
Alignment explanation
Indices: 766378--766414 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
766368 TAATTGATAT
766378 AATA-AAATTATGTGTCATA
1 AATACAAATTATGTGTCATA
*
766397 AATACAACTTATGTGTCA
1 AATACAAATTATGTGTCA
766415 ATTGTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
AATACAAATTATGTGTCATA
Found at i:766914 original size:15 final size:16
Alignment explanation
Indices: 766890--766922 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
766880 TATTTAAGTG
*
766890 AATCATGAAA-TTTAA
1 AATCAAGAAATTTTAA
766905 AATCAAGAAATTTTAA
1 AATCAAGAAATTTTAA
766921 AA
1 AA
766923 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (16 bp):
AATCAAGAAATTTTAA
Found at i:766930 original size:23 final size:22
Alignment explanation
Indices: 766903--766945 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
766893 CATGAAATTT
766903 AAAATCAAGAAATTTTAAAAAAA
1 AAAATCAAGAAA-TTTAAAAAAA
*
766926 AAAATTAAGAAATTTAAAAA
1 AAAATCAAGAAATTTAAAAA
766946 TCTAAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (22 bp):
AAAATCAAGAAATTTAAAAAAA
Found at i:769669 original size:42 final size:42
Alignment explanation
Indices: 769623--769704 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
769613 TTAATAATCT
769623 ATAGATTAAAGAAAATTTGGCTCTTCAT-TATCATAATTCTCA
1 ATAGATTAAAGAAAATTTGGCTCTTCATCT-TCATAATTCTCA
*
769665 ATAGATTAAAGAAATTTTGGCTCTTCATCTTCATAATTCT
1 ATAGATTAAAGAAAATTTGGCTCTTCATCTTCATAATTCT
769705 GATCTGCTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (42 bp):
ATAGATTAAAGAAAATTTGGCTCTTCATCTTCATAATTCTCA
Found at i:771128 original size:54 final size:54
Alignment explanation
Indices: 771064--771173 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
771054 GATCTGCTGC
* *
771064 TATTGGATTTATGGATGATCACTAGTGTCTCTTCAGCTTTTTAAATTAAAAAAT
1 TATTGGATTTATAGATGATCAATAGTGTCTCTTCAGCTTTTTAAATTAAAAAAT
771118 TATTGGATTTATAGATGATCAATAGTGTCTCTTCAGCTTTTTAAATTAAAAAAT
1 TATTGGATTTATAGATGATCAATAGTGTCTCTTCAGCTTTTTAAATTAAAAAAT
771172 TA
1 TA
771174 AGTGCCATGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (54 bp):
TATTGGATTTATAGATGATCAATAGTGTCTCTTCAGCTTTTTAAATTAAAAAAT
Found at i:781801 original size:5 final size:5
Alignment explanation
Indices: 781791--781818 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
781781 TACAGAAGCA
781791 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
781819 TGAAGACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:787737 original size:17 final size:17
Alignment explanation
Indices: 787703--787736 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
787693 ATTAGAAGCA
787703 TTCTTTTGCTTTTCTTT
1 TTCTTTTGCTTTTCTTT
787720 TTCTTTTG-TTTT-TTT
1 TTCTTTTGCTTTTCTTT
787735 TT
1 TT
787737 TATCTTGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (17 bp):
TTCTTTTGCTTTTCTTT
Found at i:797810 original size:20 final size:20
Alignment explanation
Indices: 797787--797826 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
797777 AAAAAATTAA
797787 ATTAAATTATATATAATTTT
1 ATTAAATTATATATAATTTT
* * *
797807 ATTAGATTGTATATACTTTT
1 ATTAAATTATATATAATTTT
797827 TAGATTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTAAATTATATATAATTTT
Found at i:805234 original size:17 final size:17
Alignment explanation
Indices: 805212--805244 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
805202 ATATGTACAT
805212 ATAAAAA-ATAAAAAAAA
1 ATAAAAAGA-AAAAAAAA
805229 ATAAAAAGAAAAAAAA
1 ATAAAAAGAAAAAAAA
805245 GAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (17 bp):
ATAAAAAGAAAAAAAAA
Found at i:809886 original size:28 final size:28
Alignment explanation
Indices: 809854--809909 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
809844 GGTTTGGGCT
*
809854 TTGCATTGATCTGCTGTCATCGTTACAG
1 TTGCATTGATCTGCTATCATCGTTACAG
809882 TTGCATTGATCTGCTATCATCGTTACAG
1 TTGCATTGATCTGCTATCATCGTTACAG
809910 CTTTCTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (28 bp):
TTGCATTGATCTGCTATCATCGTTACAG
Found at i:811221 original size:15 final size:15
Alignment explanation
Indices: 811201--811247 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
811191 TATCTCATTT
*
811201 TCTTCCTCATCCTCC
1 TCTTCCTCTTCCTCC
*
811216 TCTTCCTCTTCTTCC
1 TCTTCCTCTTCCTCC
* *
811231 TCATCATCTTCCTCC
1 TCTTCCTCTTCCTCC
811246 TC
1 TC
811248 CTCATGCCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.06, C:0.49, G:0.00, T:0.45
Consensus pattern (15 bp):
TCTTCCTCTTCCTCC
Found at i:811252 original size:15 final size:15
Alignment explanation
Indices: 811210--811252 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
811200 TTCTTCCTCA
* *
811210 TCCTCCTCTTCCTCT
1 TCCTCCTCATCATCT
*
811225 TCTTCCTCATCATCT
1 TCCTCCTCATCATCT
*
811240 TCCTCCTCCTCAT
1 TCCTCCTCATCAT
811253 GCCTCTCTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.07, C:0.49, G:0.00, T:0.44
Consensus pattern (15 bp):
TCCTCCTCATCATCT
Found at i:822812 original size:17 final size:17
Alignment explanation
Indices: 822790--822822 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
822780 CTCAGAAGTA
822790 GTATTCCACATATCCTT
1 GTATTCCACATATCCTT
*
822807 GTATTCCATATATCCT
1 GTATTCCACATATCCT
822823 GCCTTTCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
GTATTCCACATATCCTT
Found at i:833120 original size:122 final size:122
Alignment explanation
Indices: 832954--833206 Score: 332
Period size: 122 Copynumber: 2.1 Consensus size: 122
832944 AAACGAACTT
*
832954 TATGCTTTATATTTTAAAATTTCATTTATTATAGAATTTCAACTA-AAAAAATTTACCTGGACCT
1 TATG-TTTACATTTTAAAATTTCATTTATTATAGAATTTCAACTATAAAAAA-TTACCTGGACCT
* * * * *
833018 ATCCCA-TTTAAAACTAACAAAAGGAATGCAAAGGATATGGCCTCACGTCTTGGCTTTA
64 ATCCCATTTTAAAACAAACAAAAAGAAGGCAAAAGATATGGCCCCACGTCTTGGCTTTA
* * ** *
833076 TATGATTTACATTTTAAAATTTTATTTATTATAGAA-TTCAAACTATAAAAGATTATTTGGACGT
1 TATG-TTTACATTTTAAAATTTCATTTATTATAGAATTTC-AACTATAAAAAATTACCTGGACCT
* *
833140 ATCCCATTTTAAGACAAACAAAAAGAAGGCAAAAGATATGTCCCCACGTCTTGGCTTTA
64 ATCCCATTTTAAAACAAACAAAAAGAAGGCAAAAGATATGGCCCCACGTCTTGGCTTTA
833199 TATGTTTA
1 TATGTTTA
833207 TATGATGTTA
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
121 3 0.03
122 57 0.50
123 54 0.47
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (122 bp):
TATGTTTACATTTTAAAATTTCATTTATTATAGAATTTCAACTATAAAAAATTACCTGGACCTAT
CCCATTTTAAAACAAACAAAAAGAAGGCAAAAGATATGGCCCCACGTCTTGGCTTTA
Found at i:834764 original size:3 final size:3
Alignment explanation
Indices: 834756--834795 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
834746 ATTTTAATGT
834756 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
834796 ATAGTTTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:837799 original size:17 final size:18
Alignment explanation
Indices: 837777--837817 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
837767 TCCAGGGACC
837777 CAAAAA-CCCGTTGGTGA
1 CAAAAAGCCCGTTGGTGA
*
837794 CAAAAAGGCCGTTGGTGA
1 CAAAAAGCCCGTTGGTGA
837812 -AAAAAG
1 CAAAAAG
837818 TTGACATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (18 bp):
CAAAAAGCCCGTTGGTGA
Found at i:837805 original size:18 final size:17
Alignment explanation
Indices: 837784--837817 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
837774 ACCCAAAAAC
837784 CCGTTGGTGACAAAAAGG
1 CCGTTGGTGA-AAAAAGG
837802 CCGTTGGTGAAAAAAG
1 CCGTTGGTGAAAAAAG
837818 TTGACATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (17 bp):
CCGTTGGTGAAAAAAGG
Found at i:839880 original size:2 final size:2
Alignment explanation
Indices: 839873--839900 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
839863 ACGTACAATC
839873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
839901 GATGTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:840046 original size:2 final size:2
Alignment explanation
Indices: 840039--840066 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
840029 GTAAGCTTGA
840039 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
840067 GCTTCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:840262 original size:24 final size:24
Alignment explanation
Indices: 840235--840284 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
840225 AATCTATATA
840235 TATATAGATTGTACGTGCCAGTTT
1 TATATAGATTGTACGTGCCAGTTT
*
840259 TATATATATTGTACGTGCCAGTTT
1 TATATAGATTGTACGTGCCAGTTT
840283 TA
1 TA
840285 GTTCAACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (24 bp):
TATATAGATTGTACGTGCCAGTTT
Found at i:840429 original size:2 final size:2
Alignment explanation
Indices: 840424--840463 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
840414 TATTGTTTTT
840424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
840464 GATTGTAGCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:840492 original size:200 final size:197
Alignment explanation
Indices: 840259--840652 Score: 691
Period size: 200 Copynumber: 2.0 Consensus size: 197
840249 GTGCCAGTTT
*
840259 TATATATATTGTACGTGCCAGTTTTAGTTCAACCTTGAGGATTGATATATGACATACATATGTGA
1 TATATAGATTGTACGTGCCAGTTTTAGTTCAACCTTGAGGATTGATATATGACATACATATGTGA
*
840324 AATAGTGATAGGGAGTTGAAACATCTATATAGCTATTCTAGAAGTTGAATTTTCATATCTATTGT
66 AATAGTGATAGGGAGTTGAAACATCTATATAGCTATTATAGAAGTTGAATTTTCATATCTATTG-
** *
840389 ATATATATTAGAAATCTCTTGTTGCTATTGTTTTTTATA-TATATATATATATATATATATATAT
130 -TATATATTAGAAATCTCTTGTTGCTATTGTTTTAGA-AGCATATATATATATATATATATATAT
840453 ATATA
193 ATATA
840458 TATATAGATTGTAGCGTGCCAGTTTTAGTTCAACCTTGAGGATTGATATATGACATACATATGTG
1 TATATAGATTGTA-CGTGCCAGTTTTAGTTCAACCTTGAGGATTGATATATGACATACATATGTG
840523 AAATAGTGATAGGGAGTTGAAACATCTATATAGCTATTATAGAAGTTGAATTTTCATATCTATTG
65 AAATAGTGATAGGGAGTTGAAACATCTATATAGCTATTATAGAAGTTGAATTTTCATATCTATTG
*
840588 TATATGTTAGAAATCTCTTGTTGCTATTGTTTTAGAAGCATATATATATATATATATATATATAT
130 TATATATTAGAAATCTCTTGTTGCTATTGTTTTAGAAGCATATATATATATATATATATATATAT
840653 TCAAGCTTAC
Statistics
Matches: 187, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
197 1 0.01
198 59 0.32
199 12 0.06
200 115 0.61
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (197 bp):
TATATAGATTGTACGTGCCAGTTTTAGTTCAACCTTGAGGATTGATATATGACATACATATGTGA
AATAGTGATAGGGAGTTGAAACATCTATATAGCTATTATAGAAGTTGAATTTTCATATCTATTGT
ATATATTAGAAATCTCTTGTTGCTATTGTTTTAGAAGCATATATATATATATATATATATATATA
TA
Found at i:840634 original size:2 final size:2
Alignment explanation
Indices: 840627--840652 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
840617 TTTTAGAAGC
840627 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
840653 TCAAGCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:843713 original size:34 final size:34
Alignment explanation
Indices: 843617--843725 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 34
843607 ATGCTCAAAG
* * ** *
843617 CTTTTTGAAATTAGATATCCAAAGATAATTTAAT
1 CTTTTTGAAAATAAATATCCAAAGATCTTTTAAA
* * * *
843651 CTTCTTGAAAATGAATATTCAAGGATCTTTTAAA
1 CTTTTTGAAAATAAATATCCAAAGATCTTTTAAA
* *
843685 CTTTTTGAAAATAAATATCCAAAAATCTTTAAAA
1 CTTTTTGAAAATAAATATCCAAAGATCTTTTAAA
*
843719 TTTTTTG
1 CTTTTTG
843726 GATATTTATT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (34 bp):
CTTTTTGAAAATAAATATCCAAAGATCTTTTAAA
Found at i:844842 original size:72 final size:72
Alignment explanation
Indices: 844752--844897 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
844742 TGATCATTGA
* *
844752 TGTTTACACATGATATCGAATATGTAATTGAATTAGTGTCTTGATCTTTCCCTTCTAGTGCACAT
1 TGTTTACACATGATATCGAATATGTAATTGAATTAATGTCTTGATCTTTCCCTTCTAGTACACAT
844817 TCATATG
66 TCATATG
844824 TGTTTACACATGATATCGAATATGTAATTGAATTAATGTCTTGATCTTTCCCTTCTAGTACACAT
1 TGTTTACACATGATATCGAATATGTAATTGAATTAATGTCTTGATCTTTCCCTTCTAGTACACAT
*
844889 TGATATG
66 TCATATG
844896 TG
1 TG
844898 ACACTTATAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (72 bp):
TGTTTACACATGATATCGAATATGTAATTGAATTAATGTCTTGATCTTTCCCTTCTAGTACACAT
TCATATG
Found at i:847032 original size:26 final size:26
Alignment explanation
Indices: 847003--847062 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
846993 CATCCCCACC
*
847003 ACCCCCCAAATCCCATGGCTAACACT
1 ACCCCACAAATCCCATGGCTAACACT
847029 ACCCCACAAATCCCATGGCTAACACT
1 ACCCCACAAATCCCATGGCTAACACT
847055 ACCCCACA
1 ACCCCACA
847063 GCAGTAACAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.33, C:0.47, G:0.07, T:0.13
Consensus pattern (26 bp):
ACCCCACAAATCCCATGGCTAACACT
Found at i:850352 original size:3 final size:3
Alignment explanation
Indices: 850344--850378 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
850334 TTGAAAAATT
850344 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
850379 TGTTTTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:852879 original size:3 final size:3
Alignment explanation
Indices: 852871--852906 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
852861 GTTCATTGGC
852871 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
852907 TATTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:856971 original size:34 final size:34
Alignment explanation
Indices: 856889--856981 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 34
856879 ACTTAAAATA
* *
856889 TTTTAAAAATGAATATCCGAGAA-CATTTCAATT
1 TTTTAAAAATAAATATTCGAGAATCATTTCAATT
* *
856922 TTCTTGAAAAATAAATATTTGAGAATC-TTTTAAGTT
1 TT-TT-AAAAATAAATATTCGAGAATCATTTCAA-TT
856958 TTTTAAAAATAAATATTCGAGAAT
1 TTTTAAAAATAAATATTCGAGAAT
856982 TCTTAAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
33 2 0.04
34 21 0.41
35 23 0.45
36 5 0.10
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.40
Consensus pattern (34 bp):
TTTTAAAAATAAATATTCGAGAATCATTTCAATT
Found at i:856994 original size:34 final size:34
Alignment explanation
Indices: 856881--856996 Score: 110
Period size: 34 Copynumber: 3.4 Consensus size: 34
856871 TTGAAAAGAC
* * *
856881 TTAAAATATTTTAAAAATGAATATCCGAGAA-CA
1 TTAAAATTTTTTAAAAATAAATATTCGAGAATCA
** * *
856914 TTTCAATTTTCTTGAAAAATAAATATTTGAGAATCT
1 TTAAAATTTT-TT-AAAAATAAATATTCGAGAATCA
* *
856950 TTTAAGTTTTTTAAAAATAAATATTCGAGAATTC-
1 TTAAAATTTTTTAAAAATAAATATTCGAGAA-TCA
856984 TTAAAATTTTTTA
1 TTAAAATTTTTTA
856997 GATATTTATT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
33 7 0.10
34 31 0.46
35 20 0.30
36 9 0.13
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (34 bp):
TTAAAATTTTTTAAAAATAAATATTCGAGAATCA
Found at i:858466 original size:41 final size:41
Alignment explanation
Indices: 858411--858493 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
858401 CTTGCATCTT
* * *
858411 TTTATAATCGAATTTTTAATAACATAGAATAAACTTTTCTC
1 TTTATAATCGAATTTTTAACAACACAAAATAAACTTTTCTC
* *
858452 TTTATAATTGAATTTTTAACAATACAAAATAAACTTTTCTC
1 TTTATAATCGAATTTTTAACAACACAAAATAAACTTTTCTC
858493 T
1 T
858494 ATCTCTCTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.45
Consensus pattern (41 bp):
TTTATAATCGAATTTTTAACAACACAAAATAAACTTTTCTC
Found at i:858890 original size:78 final size:78
Alignment explanation
Indices: 858807--858965 Score: 282
Period size: 78 Copynumber: 2.0 Consensus size: 78
858797 AATAGTGATG
* *
858807 TGTGATTTGTTTTGTTAGTGCTAATATAGGTTTTCATCGTTTTTTTGCATGTGTTTTCTTTCTCT
1 TGTGATTTGTTTTGTTAGTGCTAATATAGGTTTTCATCATTTTTTTACATGTGTTTTCTTTCTCT
858872 TGCTTTAGTCCTT
66 TGCTTTAGTCCTT
* *
858885 TGTGATTTGTTTTGTTAGTGCTAATGTAGGTTTTCATCATTTTTTTACGTGTGTTTTCTTTCTCT
1 TGTGATTTGTTTTGTTAGTGCTAATATAGGTTTTCATCATTTTTTTACATGTGTTTTCTTTCTCT
858950 TGCTTTAGTCCTT
66 TGCTTTAGTCCTT
858963 TGT
1 TGT
858966 TTCTCTTTTA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.11, C:0.13, G:0.18, T:0.58
Consensus pattern (78 bp):
TGTGATTTGTTTTGTTAGTGCTAATATAGGTTTTCATCATTTTTTTACATGTGTTTTCTTTCTCT
TGCTTTAGTCCTT
Found at i:859549 original size:30 final size:30
Alignment explanation
Indices: 859506--859566 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
859496 AATTAATTAA
* * * *
859506 TTAATTATATATATTTATATAATGATATTT
1 TTAAATATATATATTTAAAAAATAATATTT
*
859536 TTAAATATTTATATTTAAAAAATAATATTT
1 TTAAATATATATATTTAAAAAATAATATTT
859566 T
1 T
859567 ATTAATTTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TTAAATATATATATTTAAAAAATAATATTT
Found at i:862700 original size:22 final size:21
Alignment explanation
Indices: 862657--862701 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
862647 AACCTGTCAA
**
862657 TTTTTTTAAGGGTTTTTTTTT
1 TTTTTTTAAGGGTTTTCATTT
*
862678 TTTTTCTTATGGGTTTTCATTT
1 TTTTT-TTAAGGGTTTTCATTT
862700 TT
1 TT
862702 GAAAACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.09, C:0.04, G:0.13, T:0.73
Consensus pattern (21 bp):
TTTTTTTAAGGGTTTTCATTT
Found at i:865239 original size:141 final size:141
Alignment explanation
Indices: 864981--865253 Score: 352
Period size: 141 Copynumber: 1.9 Consensus size: 141
864971 TTTTCTCATG
* ** * *
864981 GGTTTTCTCCACCCTTATTGCCCACATTATATACCTTAACTTTCTTTCATTAAGAACCTTTTTCA
1 GGTTTTCTCCAACCACATTGCCCACAGTATATACCTTAACTTTCTTTCATCAAGAACCTTTTTCA
* * * * *
865046 ATTCACATGGCCTCTCTATCTTAGGGCTCAATCTGATTTTTGGGTTCCTAAGGGAATTGATTTTG
66 ATTCACATGGCCTCTATATCTTAAGGCTCAATCTAATTTTTGGATTCCTAAGGGAATCGATTTTG
865111 CTCGCTGCCTA
131 CTCGCTGCCTA
* * * **
865122 GGTTTTCTCCAACCACATTGCCCACAGTATATA-TTGTATCTTTCTTTTATCAAGAATGTTTTTC
1 GGTTTTCTCCAACCACATTGCCCACAGTATATACCT-TAACTTTCTTTCATCAAGAACCTTTTTC
* * *
865186 AGTTCACATGGGCCTCTATGTCTTAAGGCTCAATCTAATTTTTGGATT-TTAAGGGAATCGATTT
65 AATTCACAT-GGCCTCTATATCTTAAGGCTCAATCTAATTTTTGGATTCCTAAGGGAATCGATTT
865250 TGCT
129 TGCT
865254 AACTGCTAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
140 1 0.01
141 78 0.70
142 33 0.29
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (141 bp):
GGTTTTCTCCAACCACATTGCCCACAGTATATACCTTAACTTTCTTTCATCAAGAACCTTTTTCA
ATTCACATGGCCTCTATATCTTAAGGCTCAATCTAATTTTTGGATTCCTAAGGGAATCGATTTTG
CTCGCTGCCTA
Found at i:866072 original size:41 final size:41
Alignment explanation
Indices: 866015--866096 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
866005 CCATTTGCAC
* *
866015 CTCTTTATAACCAAATTCTTAACAACATAGAACAGACTTCT
1 CTCTTTATAACCAAATTCTTAACAACAAAAAACAGACTTCT
* *
866056 CTCTTTATAACTAAATTCTTAACAATAAAAAACAGACTTCT
1 CTCTTTATAACCAAATTCTTAACAACAAAAAACAGACTTCT
866097 TTCTGTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (41 bp):
CTCTTTATAACCAAATTCTTAACAACAAAAAACAGACTTCT
Found at i:874351 original size:4 final size:4
Alignment explanation
Indices: 874342--874376 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
874332 ATACAATGGA
874342 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
874377 TATATATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:875596 original size:11 final size:11
Alignment explanation
Indices: 875563--875596 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
875553 CCAAACAAAT
875563 GAAAAAAAAAA
1 GAAAAAAAAAA
*
875574 AAAAAAAAAAA
1 GAAAAAAAAAA
*
875585 GAAACAAAAAA
1 GAAAAAAAAAA
875596 G
1 G
875597 TTTCAGTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:876326 original size:14 final size:14
Alignment explanation
Indices: 876307--876336 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
876297 GGTATCAGAG
876307 CGAGGTTCCAGGTT
1 CGAGGTTCCAGGTT
*
876321 CGAGGTTCTAGGTT
1 CGAGGTTCCAGGTT
876335 CG
1 CG
876337 TGGGTCCAAG
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:0.13, C:0.20, G:0.37, T:0.30
Consensus pattern (14 bp):
CGAGGTTCCAGGTT
Found at i:880302 original size:23 final size:23
Alignment explanation
Indices: 880250--880298 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
880240 CTTGGAAACA
880250 ATTTGGAATTTATTACAGCTAGA-
1 ATTTGGAATTTATTACAGCTA-AC
*
880273 ATTTGGAATTTATTTC-GCTAAC
1 ATTTGGAATTTATTACAGCTAAC
880295 ATTT
1 ATTT
880299 TGGATATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 8 0.33
23 15 0.62
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTTGGAATTTATTACAGCTAAC
Found at i:883496 original size:19 final size:18
Alignment explanation
Indices: 883448--883496 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 18
883438 TTGTCAAGTT
883448 TAATAAAAAATAT-AATC
1 TAATAAAAAATATAAATC
883465 --AT-AAAAATCATAAGATC
1 TAATAAAAAAT-ATAA-ATC
883482 TAATAAAAAATATAA
1 TAATAAAAAATATAA
883497 TCAGACCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
14 6 0.23
15 4 0.15
16 1 0.04
17 3 0.12
19 6 0.23
20 6 0.23
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (18 bp):
TAATAAAAAATATAAATC
Found at i:889846 original size:80 final size:80
Alignment explanation
Indices: 889709--889863 Score: 265
Period size: 80 Copynumber: 1.9 Consensus size: 80
889699 GACGTCAAGC
*
889709 GATGGTATTACAGCAGTCATCAGTCGGCAGCCATGGGAATCACTAAGTGCTATACGATGGTCTGG
1 GATGGTATTACAGCAGTCATCAGTCGGCAGCCATGGGAATCACTAAGTGCTACACGATGGTCTGG
889774 TGTGATCTTGGTCTT
66 TGTGATCTTGGTCTT
* * * *
889789 GATGGTATTACAGCGGTCATCAGTCGGCAGTCATGGGAGTTACTAAGTGCTACACGATGGTCTGG
1 GATGGTATTACAGCAGTCATCAGTCGGCAGCCATGGGAATCACTAAGTGCTACACGATGGTCTGG
889854 TGTGATCTTG
66 TGTGATCTTG
889864 ATCCTGTGGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (80 bp):
GATGGTATTACAGCAGTCATCAGTCGGCAGCCATGGGAATCACTAAGTGCTACACGATGGTCTGG
TGTGATCTTGGTCTT
Found at i:889874 original size:193 final size:192
Alignment explanation
Indices: 889544--889981 Score: 673
Period size: 193 Copynumber: 2.3 Consensus size: 192
889534 TTGGCAGTCA
* * *
889544 AGCCATGGGAGTCATTAAGTGTTACACGGTGATCTGGTGTGATCTTGGTCTTGATGGTATTACAG
1 AGCCATGGGAGTCACTAAGTGCTACACGGTGGTCTGGTGTGATCTTGGTCTTGATGGTATTACAG
* *
889609 TGGTCATCAGTCGGCAATCATGGGAGTCACTAAGTGCTACACAGTGGTCTGGTGTGATCTTGGTC
66 CGGTCATCAGTCGGCAATCATGGGAGTCACTAAGTGCTACACAGTGGTCTGGTGTGATCTTGATC
* **
889674 TTGTGGATGGACTCGACCTGACA-GAGACGTCAAGCGATGGTATTACAGCAGTCATCAGTCGGC
131 CTGTGGATGGACTCGACCTGACAGGA-ACGTCAAGC-ATGGTATTACAGCAGTCATCAGTAAGC
* * *
889737 AGCCATGGGAATCACTAAGTGCTATACGATGGTCTGGTGTGATCTTGGTCTTGATGGTATTACAG
1 AGCCATGGGAGTCACTAAGTGCTACACGGTGGTCTGGTGTGATCTTGGTCTTGATGGTATTACAG
* *
889802 CGGTCATCAGTCGGCAGTCATGGGAGTTACTAAGTGCTACAC-GATGGTCTGGTGTGATCTTGAT
66 CGGTCATCAGTCGGCAATCATGGGAGTCACTAAGTGCTACACAG-TGGTCTGGTGTGATCTTGAT
*** *
889866 CCTGTGGATGGACTCGGTTTGACAGGAACGTCAAGCATGGTATTACAGCGGTCATCAGTAAGC
130 CCTGTGGATGGACTCGACCTGACAGGAACGTCAAGCATGGTATTACAGCAGTCATCAGTAAGC
*
889929 AACCATGGGAGTCACTAAGTGCTACACGGTGGTCTGGTGTGATCTTGGTCTTG
1 AGCCATGGGAGTCACTAAGTGCTACACGGTGGTCTGGTGTGATCTTGGTCTTG
889982 TGGATGGACT
Statistics
Matches: 222, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
192 74 0.33
193 146 0.66
194 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (192 bp):
AGCCATGGGAGTCACTAAGTGCTACACGGTGGTCTGGTGTGATCTTGGTCTTGATGGTATTACAG
CGGTCATCAGTCGGCAATCATGGGAGTCACTAAGTGCTACACAGTGGTCTGGTGTGATCTTGATC
CTGTGGATGGACTCGACCTGACAGGAACGTCAAGCATGGTATTACAGCAGTCATCAGTAAGC
Found at i:889987 original size:112 final size:112
Alignment explanation
Indices: 889790--890015 Score: 355
Period size: 112 Copynumber: 2.0 Consensus size: 112
889780 CTTGGTCTTG
** ** *
889790 ATGGTATTACAGCGGTCATCAGTCGGCAGTCATGGGAGTTACTAAGTGCTACACGATGGTCTGGT
1 ATGGTATTACAGCGGTCATCAGTAAGCAACCATGGGAGTCACTAAGTGCTACACGATGGTCTGGT
*
889855 GTGATCTTGATCCTGTGGATGGACTCGGTTTGAC-AGGAACGTCAAGC
66 GTGATCTTGATCCTGTGGATGGACTCGGCTTGACAAGG-ACGTCAAGC
*
889902 ATGGTATTACAGCGGTCATCAGTAAGCAACCATGGGAGTCACTAAGTGCTACACGGTGGTCTGGT
1 ATGGTATTACAGCGGTCATCAGTAAGCAACCATGGGAGTCACTAAGTGCTACACGATGGTCTGGT
* *
889967 GTGATCTTGGTCTTGTGGATGGACTCGGCTTGACAAGGACGTCAAGC
66 GTGATCTTGATCCTGTGGATGGACTCGGCTTGACAAGGACGTCAAGC
890014 AT
1 AT
890016 TAAAGGTGGG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 101 0.97
113 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (112 bp):
ATGGTATTACAGCGGTCATCAGTAAGCAACCATGGGAGTCACTAAGTGCTACACGATGGTCTGGT
GTGATCTTGATCCTGTGGATGGACTCGGCTTGACAAGGACGTCAAGC
Found at i:896931 original size:15 final size:16
Alignment explanation
Indices: 896911--896952 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
896901 AATTAATTTT
896911 AATTATACAAAAAA-A
1 AATTATACAAAAAATA
896926 AATTATGTACAAAAAATA
1 AATTA--TACAAAAAATA
*
896944 TATTATACA
1 AATTATACA
896953 TTTTGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 9 0.39
18 5 0.22
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (16 bp):
AATTATACAAAAAATA
Found at i:897291 original size:15 final size:15
Alignment explanation
Indices: 897267--897304 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
897257 GTTTTGTTTG
897267 TTTTGTAAAAAATCAT
1 TTTTGT-AAAAATCAT
*
897283 TTTTG-AAAAATGAT
1 TTTTGTAAAAATCAT
897297 TTTTGTAA
1 TTTTGTAA
897305 TTTTACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 13 0.65
15 2 0.10
16 5 0.25
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (15 bp):
TTTTGTAAAAATCAT
Found at i:897964 original size:38 final size:37
Alignment explanation
Indices: 897922--898003 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
897912 TTTTGTTATG
*
897922 TTTTAATA-ATAGATAATTTTCAAT-ATAACATATAACTA
1 TTTTAATAGATAAAT-ATTTT-AATAATAA-ATATAACTA
*
897960 TTTTAATAGTATAAATATTTTAATAATAAATATTACTA
1 TTTTAATAG-ATAAATATTTTAATAATAAATATAACTA
897998 TTTTAA
1 TTTTAA
898004 CATTAATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 25 0.64
39 9 0.23
40 5 0.13
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (37 bp):
TTTTAATAGATAAATATTTTAATAATAAATATAACTA
Found at i:897978 original size:17 final size:16
Alignment explanation
Indices: 897951--897993 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
897941 TCAATATAAC
*
897951 ATATAACTATTTTAAT
1 ATATAAATATTTTAAT
897967 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
897984 A-ATAAATATT
1 ATATAAATATT
897994 ACTATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 15 0.60
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:898191 original size:26 final size:25
Alignment explanation
Indices: 898157--898206 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
898147 ATTAAATATT
898157 AATAATTTTAAAAATAAATAATTTC
1 AATAATTTTAAAAATAAATAATTTC
*
898182 AATATATTTTAATAATAAATAATTT
1 AATA-ATTTTAAAAATAAATAATTT
898207 TTAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
AATAATTTTAAAAATAAATAATTTC
Found at i:898891 original size:10 final size:10
Alignment explanation
Indices: 898859--898938 Score: 54
Period size: 10 Copynumber: 7.5 Consensus size: 10
898849 AACTTTAATG
898859 AATTTTTGAAA
1 AATTTTT-AAA
898870 AA-TTTTAAA
1 AATTTTTAAA
898879 AATTTTTAAA
1 AATTTTTAAA
* *
898889 AATCATTCAAA
1 AAT-TTTTAAA
*
898900 CATTTATTTTCAAA
1 -A---ATTTTTAAA
*
898914 AATGTTTAAA
1 AATTTTTAAA
*
898924 ATTTTTTAAA
1 AATTTTTAAA
898934 AATTT
1 AATTT
898939 ATTCATGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
9 5 0.09
10 33 0.60
11 7 0.13
12 1 0.02
13 1 0.02
14 6 0.11
15 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:900390 original size:14 final size:15
Alignment explanation
Indices: 900371--900399 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
900361 TCTATTTTTA
900371 AAAATTTTA-TAAAT
1 AAAATTTTATTAAAT
900385 AAAATTTTATTAAAT
1 AAAATTTTATTAAAT
900400 TAATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATTTTATTAAAT
Found at i:908228 original size:39 final size:39
Alignment explanation
Indices: 908184--908262 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
908174 CATTTCTACG
908184 AGAGATT-CCCTGCCTGCAACAGCAGCCGCCTTCAGAAAA
1 AGAGATTCCCCT-CCTGCAACAGCAGCCGCCTTCAGAAAA
* * * *
908223 AGAGATTCCCCTTCTGCAAGAGGAGCCGTCTTCAGAAAA
1 AGAGATTCCCCTCCTGCAACAGCAGCCGCCTTCAGAAAA
908262 A
1 A
908263 ACTTTGAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.89
40 4 0.11
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.18
Consensus pattern (39 bp):
AGAGATTCCCCTCCTGCAACAGCAGCCGCCTTCAGAAAA
Found at i:909634 original size:17 final size:17
Alignment explanation
Indices: 909609--909642 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
909599 TTAATATTAT
*
909609 AAATGTTAATAAATAAA
1 AAATGTTAAAAAATAAA
*
909626 AAATTTTAAAAAATAAA
1 AAATGTTAAAAAATAAA
909643 TTTATTTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATGTTAAAAAATAAA
Found at i:923181 original size:34 final size:33
Alignment explanation
Indices: 923124--923190 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
923114 ATAAATTTTA
*
923124 TAAAAAATATTTATATAAATTAAAACAT-AAAT
1 TAAAAAATATTTATACAAATTAAAACATGAAAT
*
923156 TAAAAAATCTTTAATAACAAATTAAAACATGAAAT
1 TAAAAAATATTT-AT-ACAAATTAAAACATGAAAT
923191 CAGAAATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 11 0.37
33 2 0.07
34 13 0.43
35 4 0.13
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (33 bp):
TAAAAAATATTTATACAAATTAAAACATGAAAT
Found at i:927320 original size:12 final size:13
Alignment explanation
Indices: 927303--927335 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
927293 AAAATGATTC
927303 AATAAAAAA-TAA
1 AATAAAAAATTAA
*
927315 AATAAAAAATTTA
1 AATAAAAAATTAA
927328 AATAAAAA
1 AATAAAAA
927336 GGTTAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAAAATTAA
Found at i:927423 original size:12 final size:13
Alignment explanation
Indices: 927394--927428 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
927384 ATTTAGTAAA
*
927394 ATTTTTCCTAATT
1 ATTTTTACTAATT
927407 ATTTTTACTAATT
1 ATTTTTACTAATT
927420 -TTTTTACTA
1 ATTTTTACTA
927429 TTAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTTACTAATT
Done.