Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 31 of 292
Found at i:8195058 original size:17 final size:18
Alignment explanation
Indices: 8195036--8195074 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
8195026 TGCATACACA
8195036 AATTAATTCAG-CACATT
1 AATTAATTCAGACACATT
*
8195053 AATTAATTTAGACACATT
1 AATTAATTCAGACACATT
8195071 AATT
1 AATT
8195075 TCCGGCTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAATTCAGACACATT
Found at i:8202535 original size:11 final size:10
Alignment explanation
Indices: 8202511--8202581 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 10
8202501 AAGTACTATA
8202511 TATGTATA--
1 TATGTATATT
8202519 TATGTATACTT
1 TATGTATA-TT
8202530 TATGTATA-T
1 TATGTATATT
8202539 TATGTATATGTAT
1 TATGTATA--T-T
8202552 ATATGTATACTT
1 -TATGTATA-TT
8202564 TATGTATA-T
1 TATGTATATT
8202573 TATGTATAT
1 TATGTATAT
8202582 ATTTTTATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
8 8 0.15
9 18 0.34
11 16 0.30
12 1 0.02
13 2 0.04
14 8 0.15
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (10 bp):
TATGTATATT
Found at i:8202535 original size:19 final size:20
Alignment explanation
Indices: 8202511--8202580 Score: 91
Period size: 19 Copynumber: 3.9 Consensus size: 20
8202501 AAGTACTATA
8202511 TATGTATA-TATGTATACTT
1 TATGTATATTATGTATACTT
8202530 TATGTATATTATG--TA---
1 TATGTATATTATGTATACTT
8202545 TATGTATA-TATGTATACTT
1 TATGTATATTATGTATACTT
8202564 TATGTATATTATGTATA
1 TATGTATATTATGTATA
8202581 TATTTTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
14 4 0.09
15 8 0.18
16 2 0.05
18 2 0.05
19 16 0.36
20 12 0.27
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
TATGTATATTATGTATACTT
Found at i:8202548 original size:34 final size:34
Alignment explanation
Indices: 8202509--8202581 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
8202499 TTAAGTACTA
8202509 TATATGTATATATGTATACTTTATGTATATTATG
1 TATATGTATATATGTATACTTTATGTATATTATG
8202543 TATATGTATATATGTATACTTTATGTATATTATG
1 TATATGTATATATGTATACTTTATGTATATTATG
8202577 TATAT
1 TATAT
8202582 ATTTTTATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (34 bp):
TATATGTATATATGTATACTTTATGTATATTATG
Found at i:8202550 original size:15 final size:14
Alignment explanation
Indices: 8202507--8202608 Score: 63
Period size: 13 Copynumber: 7.5 Consensus size: 14
8202497 TTTTAAGTAC
*
8202507 TATATATGTATATA
1 TATATATGTATATG
*
8202521 TGTATACT-T-TATG
1 TATATA-TGTATATG
8202534 TATATTATGTATATG
1 TATA-TATGTATATG
*
8202549 TATATATGTATACTT
1 TATATATGTATA-TG
* *
8202564 TATGTATAT-TATG
1 TATATATGTATATG
* *
8202577 TATATAT-T-TTTA
1 TATATATGTATATG
*
8202589 TAAATAT-TATATG
1 TATATATGTATATG
8202602 TATATAT
1 TATATAT
8202609 ATGTATCTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
12 10 0.15
13 22 0.32
14 19 0.28
15 17 0.25
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (14 bp):
TATATATGTATATG
Found at i:8202602 original size:34 final size:34
Alignment explanation
Indices: 8202509--8202614 Score: 115
Period size: 34 Copynumber: 3.1 Consensus size: 34
8202499 TTAAGTACTA
* **
8202509 TATATGTATATATGTATACTTTATGTATATTATG
1 TATATATATATATAAATACTTTATGTATATTATG
* **
8202543 TATATGTATATATGTATACTTTATGTATATTATG
1 TATATATATATATAAATACTTTATGTATATTATG
* *
8202577 TATATATTTTTATAAATA-TTATATGTATATATATG
1 TATATATATATATAAATACTT-TATGTATAT-TATG
8202612 TAT
1 TAT
8202615 CTTTTTAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
33 2 0.03
34 56 0.86
35 7 0.11
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (34 bp):
TATATATATATATAAATACTTTATGTATATTATG
Found at i:8203084 original size:18 final size:18
Alignment explanation
Indices: 8203063--8203104 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8203053 ATATTCTTAC
8203063 TATTATCATTACTATAT-T
1 TATTATCATTACTAT-TGT
* *
8203081 TATTACCATTATTATTGT
1 TATTATCATTACTATTGT
8203099 TATTAT
1 TATTAT
8203105 TTTTATCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATCATTACTATTGT
Found at i:8213341 original size:19 final size:20
Alignment explanation
Indices: 8213299--8213342 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8213289 CTATATTAAC
** *
8213299 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
8213319 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
8213338 ACAGT
1 ACAGT
8213343 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:8219674 original size:68 final size:67
Alignment explanation
Indices: 8219602--8219752 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 67
8219592 CATCATGTGT
* * *
8219602 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTA-GTCGCATGCGTGATACTAGTGAAGGACACCA
8219665 TGTAG
63 TGTAG
* * * *
8219670 ACAAGAGAGCTATG-G-GATATATGTAGCTAGTCGCATGCGTGGTTCTAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGTCGCATGCGTGATACTA-GTGAAGGACACCATG
8219733 TAG
65 TAG
8219736 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
8219753 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
63 15 0.21
64 9 0.13
65 5 0.07
66 26 0.37
67 2 0.03
68 13 0.19
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGTCGCATGCGTGATACTAGTGAAGGACACCATGT
AG
Found at i:8220949 original size:391 final size:390
Alignment explanation
Indices: 8220196--8220983 Score: 1567
Period size: 391 Copynumber: 2.0 Consensus size: 390
8220186 AATGAGATAT
8220196 AAAATTAGAGCTTAATGAGTCTATTTTCATATAAAAAAACAGAGCAAGCAAAAGAATTCTATATT
1 AAAATTAGAGCTTAATGAGTCTATTTTCATATAAAAAAACAGAGCAAGCAAAAGAATTCTATATT
8220261 ATGAGATATTTAAGTTTTTGAGAGACTGGTTTAGAATGACTACGTGATCCCCTGTTCTGACTTGG
66 ATGAGATATTTAAGTTTTTGAGAGACTGGTTTAGAATGACTACGTGATCCCCTGTTCTGACTTGG
8220326 AAAAATCATTAAAAATTGTAGAAAAATAATTAGGGGATATAATTTATATGCTTGAAATCCTTAAT
131 AAAAATCATTAAAAATTGTAGAAAAATAATTAGGGGATATAATTTATATGCTTGAAATCCTTAAT
8220391 GAGTATAGTTTTAAATGAATAAATGAGAACATCCTTTGAATTCTGTACGAGGAGAAAATTGATTC
196 GAGTATAGTTTTAAATGAATAAATGAGAACATCCTTTGAATTCTGTACGAGGAGAAAATTGATTC
8220456 GTAGTGAAGAGTGGTCAGAACAGTTGACCAGTGAAATAGGTGTAAATTTAATGAATAAACTGTAC
261 GTAGTGAAGAGTGGTCAGAACAGTTGACCAGTGAAATAGGTGTAAATTTAATGAATAAACTGTAC
8220521 TAATTGACTTGACCAAAAATTCTGAAAATTTTATGGTAAGAATATATGTGAATCTAGTTTCAAGG
326 TAATTGACTTGACCAAAAATTCTGAAAATTTTATGGTAAGAATATATGTGAATCTAGTTTCAAGG
8220586 AAAATTAGAGCTTAATGAGTCTATTTTCATATAAAAAAAACAGAGCAAGCAAAAGAATTCTATAT
1 AAAATTAGAGCTTAATGAGTCTATTTTCATAT-AAAAAAACAGAGCAAGCAAAAGAATTCTATAT
8220651 TATGAGATATTTAAGTTTTTGAGAGACTGGTTTAGAATGACTACGTGATCCCCTGTTCTGACTTG
65 TATGAGATATTTAAGTTTTTGAGAGACTGGTTTAGAATGACTACGTGATCCCCTGTTCTGACTTG
8220716 GAAAAATCATTAAAAATTGTAGAAAAATAATTAGGGGATATAATTTATATGCTTGAAATCCTTAA
130 GAAAAATCATTAAAAATTGTAGAAAAATAATTAGGGGATATAATTTATATGCTTGAAATCCTTAA
8220781 TGAGTATAGTTTTAAATGAATAAATGAGAACATCCTTTGAATTCTGTACGAGGAGAAAATTGATT
195 TGAGTATAGTTTTAAATGAATAAATGAGAACATCCTTTGAATTCTGTACGAGGAGAAAATTGATT
8220846 CGTAGTGAAGAGTGGTCAGAACAGTTGACCAGTGAAATAGGTGTAAATTTAATGAATAAACTGTA
260 CGTAGTGAAGAGTGGTCAGAACAGTTGACCAGTGAAATAGGTGTAAATTTAATGAATAAACTGTA
8220911 CTAATTGACTTGACCAAAAATTCTGAAAATTTTATGGTAAGAATATATGTGAATCTAGTTTCAAG
325 CTAATTGACTTGACCAAAAATTCTGAAAATTTTATGGTAAGAATATATGTGAATCTAGTTTCAAG
8220976 G
390 G
8220977 AAAATTA
1 AAAATTA
8220984 ACAGTTTGTA
Statistics
Matches: 397, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
390 32 0.08
391 365 0.92
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.32
Consensus pattern (390 bp):
AAAATTAGAGCTTAATGAGTCTATTTTCATATAAAAAAACAGAGCAAGCAAAAGAATTCTATATT
ATGAGATATTTAAGTTTTTGAGAGACTGGTTTAGAATGACTACGTGATCCCCTGTTCTGACTTGG
AAAAATCATTAAAAATTGTAGAAAAATAATTAGGGGATATAATTTATATGCTTGAAATCCTTAAT
GAGTATAGTTTTAAATGAATAAATGAGAACATCCTTTGAATTCTGTACGAGGAGAAAATTGATTC
GTAGTGAAGAGTGGTCAGAACAGTTGACCAGTGAAATAGGTGTAAATTTAATGAATAAACTGTAC
TAATTGACTTGACCAAAAATTCTGAAAATTTTATGGTAAGAATATATGTGAATCTAGTTTCAAGG
Found at i:8223116 original size:16 final size:16
Alignment explanation
Indices: 8223095--8223125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8223085 ATCCCAATTA
8223095 TTAAAAATAATTTTAT
1 TTAAAAATAATTTTAT
*
8223111 TTAAAAATATTTTTA
1 TTAAAAATAATTTTA
8223126 AAAATATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATAATTTTAT
Found at i:8223788 original size:22 final size:22
Alignment explanation
Indices: 8223761--8223805 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8223751 TATGTAATAT
8223761 TTTTTTTAAAAATACG-ATTAAA
1 TTTTTTTAAAAATA-GAATTAAA
*
8223783 TTTTTTTTAAAATAGAATTAAA
1 TTTTTTTAAAAATAGAATTAAA
8223805 T
1 T
8223806 ACACAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTTTTTAAAAATAGAATTAAA
Found at i:8224243 original size:2 final size:2
Alignment explanation
Indices: 8224236--8224274 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
8224226 TTTTAAGAAA
8224236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
8224275 TATGGAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8228894 original size:2 final size:2
Alignment explanation
Indices: 8228889--8228925 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8228879 CAAACTAGAT
8228889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8228926 TCCAGGTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8229851 original size:3 final size:3
Alignment explanation
Indices: 8229833--8229876 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
8229823 TCATAATACA
8229833 ATT ATT -TT ACTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8229877 AAGAGTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8229988 original size:1 final size:1
Alignment explanation
Indices: 8229982--8230013 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
8229972 AGCAACTAAC
8229982 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8230014 GAAGAAGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8230909 original size:6 final size:6
Alignment explanation
Indices: 8230898--8230945 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
8230888 ATATATACAC
*
8230898 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ACGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
8230946 CAGTTTATGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:8234545 original size:17 final size:17
Alignment explanation
Indices: 8234520--8234554 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8234510 TTCGATTTGG
*
8234520 TTAAATCAATTTTGATT
1 TTAAATCAATTTTAATT
*
8234537 TTAAGTCAATTTTAATT
1 TTAAATCAATTTTAATT
8234554 T
1 T
8234555 GGTTAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTAAATCAATTTTAATT
Found at i:8235148 original size:48 final size:48
Alignment explanation
Indices: 8235120--8235222 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
8235110 GTGGCTGAGT
*
8235120 TGGTGGTGTAGGTGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
1 TGGTGGTGTAGGAGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
*
8235168 TGGTGGTGTAGGAGCTGTTGGTTCATGTGGGAGACTAGGAGCCATGAC
1 TGGTGGTGTAGGAGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
8235216 TGGTGGT
1 TGGTGGT
8235223 TCATATGGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.17, C:0.12, G:0.42, T:0.29
Consensus pattern (48 bp):
TGGTGGTGTAGGAGCTGTTGGTTCATATGGGAGACTAGGAGCCATGAC
Found at i:8235237 original size:33 final size:33
Alignment explanation
Indices: 8235186--8235255 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
8235176 TAGGAGCTGT
* *
8235186 TGGTTCATGTGGGAGACTAGGAGCCATGACTGG
1 TGGTTCATATGGGAGACTAGGAACCATGACTGG
*
8235219 TGGTTCATAT-GGAGGACTAGGAACCTTGACTGG
1 TGGTTCATATGGGA-GACTAGGAACCATGACTGG
8235252 TGGT
1 TGGT
8235256 GGAGCTGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.27
Consensus pattern (33 bp):
TGGTTCATATGGGAGACTAGGAACCATGACTGG
Found at i:8236315 original size:19 final size:19
Alignment explanation
Indices: 8236292--8236330 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8236282 AATTTATTAA
8236292 AAAAATAAATTTTGAATTTT
1 AAAAAT-AATTTTGAATTTT
*
8236312 AAAAATTATTTTGAATTTT
1 AAAAATAATTTTGAATTTT
8236331 TTTTTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
AAAAATAATTTTGAATTTT
Found at i:8239171 original size:16 final size:16
Alignment explanation
Indices: 8239150--8239183 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8239140 AATATGATTC
*
8239150 TGTGTATTGTGATATA
1 TGTGTAATGTGATATA
8239166 TGTGTAATGTGATATA
1 TGTGTAATGTGATATA
8239182 TG
1 TG
8239184 CCTAAACGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (16 bp):
TGTGTAATGTGATATA
Found at i:8242413 original size:40 final size:40
Alignment explanation
Indices: 8242386--8242568 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
8242376 TACTTACTCG
* *
8242386 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
8242426 AATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
8242466 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
8242506 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
8242546 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
8242569 TTATCATCCA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:8242485 original size:80 final size:79
Alignment explanation
Indices: 8242351--8242568 Score: 298
Period size: 80 Copynumber: 2.7 Consensus size: 79
8242341 AAGCCAAGTA
* * * *
8242351 CCTTCGGGATTTAA-CCGGATATAGCTACTTA-CTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAG-TAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
8242414 GTAACTCGCACCAATG
64 GTAACTCGCACAAATG
*
8242430 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAACCCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
8242495 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
8242510 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGGATA-TAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
8242569 TTATCATCCA
Statistics
Matches: 125, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 16 0.13
80 109 0.87
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:8244001 original size:23 final size:21
Alignment explanation
Indices: 8243971--8244022 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 21
8243961 AAATCACTAA
8243971 CATAACATGTTTATGACATTGCC
1 CATAACATGTTTATGACA-TG-C
8243994 CATAACATGTTTATGACATGC
1 CATAACATGTTTATGACATGC
8244015 CATAACAT
1 CATAACAT
8244023 TTTGTCCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 9 0.31
22 2 0.07
23 18 0.62
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
CATAACATGTTTATGACATGC
Found at i:8250532 original size:40 final size:39
Alignment explanation
Indices: 8250488--8250709 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 39
8250478 TACTTACTCG
* *
8250488 AATGCCTTCAGGA-TATAGCCCGAATATAGTAACTCGCACC
1 AATGCCTTC-GGACT-TAGCCCGGATATAGTAACTCGCACA
*
8250528 AATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACA
*
8250567 AATACCTTCGAGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCG-GACTTAGCCCGGATATAGTAACTCGCACA
8250607 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCACA
* * *
8250647 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTC-GGACTTAGCCCGGATA-TAGTAACTCGCACA
8250687 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTC-GGACTTAGCCCGG
8250710 TTATCATCCA
Statistics
Matches: 171, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 37 0.22
40 133 0.78
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:8254129 original size:15 final size:15
Alignment explanation
Indices: 8254102--8254135 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8254092 GTAAAACTGG
8254102 TGGTATAGATTTTGT
1 TGGTATAGATTTTGT
8254117 TGGTA-AGAGTTTTGT
1 TGGTATAGA-TTTTGT
8254132 TGGT
1 TGGT
8254136 TTTGATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (15 bp):
TGGTATAGATTTTGT
Found at i:8255569 original size:17 final size:17
Alignment explanation
Indices: 8255534--8255567 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8255524 TATATTTTAG
*
8255534 ATTAATTTTTATTTAAA
1 ATTAATTTTTATTAAAA
8255551 ATTAATTTTT-TTAAAA
1 ATTAATTTTTATTAAAA
8255567 A
1 A
8255568 ATATAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTAATTTTTATTAAAA
Found at i:8279258 original size:49 final size:49
Alignment explanation
Indices: 8279201--8279388 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
8279191 TAGTCGAAGC
* *
8279201 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
8279250 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * *
8279301 TTTCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
8279350 TATCCGATACACATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
8279389 CGTGACTTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 75 0.65
50 2 0.02
51 39 0.34
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:8279328 original size:100 final size:100
Alignment explanation
Indices: 8279206--8279393 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
8279196 GAAGCTATCT
* * *
8279206 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGATACACATAGTAGCC
8279271 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
8279306 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGATACACATAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGATACACATAGTAGCC
8279371 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
8279394 CTTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGATACACATAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:8283359 original size:12 final size:13
Alignment explanation
Indices: 8283334--8283363 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
8283324 GCAAATGAAT
8283334 CATTTCTCATTTC
1 CATTTCTCATTTC
8283347 CATTTCT-ATTTC
1 CATTTCTCATTTC
8283359 CATTT
1 CATTT
8283364 TGAACAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.57
Consensus pattern (13 bp):
CATTTCTCATTTC
Found at i:8286378 original size:49 final size:48
Alignment explanation
Indices: 8286136--8286401 Score: 194
Period size: 49 Copynumber: 5.6 Consensus size: 48
8286126 CATGAGTGCC
* * * * *
8286136 AGTGTAAGACATGTCAGGGACAT-GCATCAGCATTGA-G-ACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-TTGATGTATGAAAGCT
* * *
8286182 AGTATAAGACATGTCTGGGACAT-GCATCGGCCTCGA-GATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CTTGATG-TATGA-AAGCT
* * * * *
8286230 AGTGTAAGACCTGTTTGGGACATGGCATCAGCTTGTTGTGTG---TC-
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTGATGTATGAAAGCT
* * * * *
8286274 AGTGTAAGACCTGTCAGGGACATGGCATCGACACTGATAG-ATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-TTGAT-GTATGAAAGCT
* * *
8286323 AATGTAAGACCTGTTTGGGACATGGCATCGGTCTTGATGTATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CTTGATGTATGAAAGCT
*
8286372 AGTGTAAGACCTGTCTGGGACACGGCATCG
1 AGTGTAAGACCTGTCTGGGACATGGCATCG
8286402 ACTTTAATGT
Statistics
Matches: 172, Mismatches: 33, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
44 28 0.16
45 6 0.03
46 32 0.19
47 2 0.01
48 32 0.19
49 71 0.41
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCTTGATGTATGAAAGCT
Found at i:8286391 original size:142 final size:138
Alignment explanation
Indices: 8286135--8286400 Score: 331
Period size: 142 Copynumber: 1.9 Consensus size: 138
8286125 ACATGAGTGC
* * *
8286135 CAGTGTAAGACATGTCAGGGACATGCATCAGCATTGAGACGAGAGCTAGTATAAGACATGTCTGG
1 CAGTGTAAGACATGTCAGGGACATGCATCAGCACTGAGACGAGAGCCAATATAAGACATGTCTGG
* *
8286200 GACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTTTGGGACATGGCATCAGCTTG
66 GACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACACGGCATCAGCTTG
8286265 TTGTGTGT
131 TTGTGTGT
* * * *
8286273 CAGTGTAAGACCTGTCAGGGACATGGCATC-GACACTGATAGATGAGAGCCAATGTAAGACCTGT
1 CAGTGTAAGACATGTCAGGGACAT-GCATCAG-CACTG--AGACGAGAGCCAATATAAGACATGT
* * * *
8286337 TTGGGACATGGCATCGGTCTTGATG-TATGA-AAGTTAGTGTAAGACCTGTCTGGGACACGGCAT
62 CTGGGACAT-GCATCGGCCTCGA-GATAT-ACAAGCTAGTGTAAGACCTGTCTGGGACACGGCAT
8286400 C
124 C
8286401 GACTTTAATG
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
138 24 0.22
139 9 0.08
141 28 0.26
142 45 0.42
143 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACATGTCAGGGACATGCATCAGCACTGAGACGAGAGCCAATATAAGACATGTCTGG
GACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACACGGCATCAGCTTG
TTGTGTGT
Found at i:8288274 original size:43 final size:43
Alignment explanation
Indices: 8288194--8288344 Score: 132
Period size: 43 Copynumber: 3.5 Consensus size: 43
8288184 AGACATCGTA
* * *
8288194 TAAGACCGTGTCTGGGACA-CAGGCCTC-A-ATTGAGATTTACATA
1 TAAGACCATGTCTGGGACATC-GGCATCGATATT--GATTTACATG
*
8288237 TAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CGTG
1 TAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACATG
* * ** *
8288279 TAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACATG
* *
8288322 TAAGACCACGTCTGGGACGTCGG
1 TAAGACCATGTCTGGGACATCGG
8288345 TATTGTACTT
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 31 0.36
43 51 0.59
44 3 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACATG
Found at i:8288337 original size:85 final size:85
Alignment explanation
Indices: 8288189--8288344 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 85
8288179 GTTTGAGACA
* * *
8288189 TCGTATAAGACCGTGTCTGGGACACAGGCCTCAATTGAGATTTACATATAAGACCATGTCTGGGA
1 TCGTATAAGACCCTGTCTGGGACACAGGCATCAATTGAGATTTACATATAAGACCACGTCTGGGA
8288254 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * * *
8288274 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTGG
1 TCGTATAAGACCCTGTCTGGGACACAGGCATC-A-ATTGAGATTTACATATAAGACCACGTCTGG
*
8288337 GACGTCGG
64 GACATCGG
8288345 TATTGTACTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 54 0.89
86 2 0.03
87 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (85 bp):
TCGTATAAGACCCTGTCTGGGACACAGGCATCAATTGAGATTTACATATAAGACCACGTCTGGGA
CATCGGCATCGTATCTGATT
Found at i:8291702 original size:12 final size:12
Alignment explanation
Indices: 8291685--8291730 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
8291675 CACCAATTTA
*
8291685 TCAAGAATCATT
1 TCAAGAATTATT
8291697 TCAAGAATTATT
1 TCAAGAATTATT
8291709 TCAAGAATTATT
1 TCAAGAATTATT
8291721 TCAAGAATTA
1 TCAAGAATTA
8291731 ATTAATTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (12 bp):
TCAAGAATTATT
Found at i:8293430 original size:16 final size:18
Alignment explanation
Indices: 8293400--8293432 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8293390 CATATATGAT
8293400 ATTATAAAATCATCCAAA
1 ATTATAAAATCATCCAAA
8293418 ATTA-AAAAT-ATCCAA
1 ATTATAAAATCATCCAA
8293433 TGTCTAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTATAAAATCATCCAAA
Found at i:8310834 original size:31 final size:31
Alignment explanation
Indices: 8310796--8310854 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
8310786 ACATACATAC
*
8310796 GTATCTCATAAGTTGTATGGCATGCATATAT
1 GTATCTCATAACTTGTATGGCATGCATATAT
8310827 GTATCTCATAACTTGTATGGCATGCATA
1 GTATCTCATAACTTGTATGGCATGCATA
8310855 CCCCAAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (31 bp):
GTATCTCATAACTTGTATGGCATGCATATAT
Found at i:8318881 original size:19 final size:19
Alignment explanation
Indices: 8318846--8318885 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8318836 ACTTTTAAAA
*
8318846 ATTTAAAATTATTAAAATT
1 ATTTAAAATTATAAAAATT
8318865 ATTTGAAAA-TATAAAAATT
1 ATTT-AAAATTATAAAAATT
8318884 AT
1 AT
8318886 AAAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTAAAATTATAAAAATT
Found at i:8319338 original size:20 final size:21
Alignment explanation
Indices: 8319293--8319339 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
8319283 TTTGTTTTTA
*
8319293 ATTTTAGTCCACATTATCGTT
1 ATTTTAGTCCACATTATCGTG
*
8319314 ATTTT-GTCCACATTATTGTG
1 ATTTTAGTCCACATTATCGTG
*
8319334 GTTTTA
1 ATTTTA
8319340 CTTTGCCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (21 bp):
ATTTTAGTCCACATTATCGTG
Found at i:8322095 original size:21 final size:21
Alignment explanation
Indices: 8322065--8322123 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
8322055 ATTCAAGAAA
*
8322065 AAAATATTATTAATTTAAAAAT
1 AAAAT-TTATTTATTTAAAAAT
8322087 AAAATTTATTTATTTAAAAAT
1 AAAATTTATTTATTTAAAAAT
8322108 AAAATTTATTTATTTA
1 AAAATTTATTTATTTA
8322124 TTTATTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 31 0.86
22 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATTTATTTATTTAAAAAT
Found at i:8327236 original size:16 final size:16
Alignment explanation
Indices: 8327215--8327273 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
8327205 TTAATCTCTT
8327215 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
8327231 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* *
8327246 TAAATATTATATTAATT
1 T-AATATTAAATTAATA
8327263 TAATATTAAAT
1 TAATATTAAAT
8327274 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 6 0.18
16 22 0.65
17 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:8333261 original size:32 final size:31
Alignment explanation
Indices: 8333184--8333261 Score: 75
Period size: 32 Copynumber: 2.4 Consensus size: 31
8333174 TGCATTTAGT
* * *
8333184 ATTAAATTAGTTTATTTAAATTAATATTTTTA
1 ATTAAATTA-TTAATGTAAATTAATATTCTTA
* *
8333216 ATTACAGTAATTAATGTAAATTAATAATTCTTA
1 ATTA-AATTATTAATGTAAATTAAT-ATTCTTA
*
8333249 TTTAAATTATTAA
1 ATTAAATTATTAA
8333262 ATATAATTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
32 24 0.67
33 12 0.33
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (31 bp):
ATTAAATTATTAATGTAAATTAATATTCTTA
Found at i:8333533 original size:19 final size:19
Alignment explanation
Indices: 8333488--8333537 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
8333478 TTATTTTAAC
8333488 TTTTT-AAT-TAATAATTA
1 TTTTTAAATATAATAATTA
**
8333505 TAAATTAAATATAATAATTA
1 T-TTTTAAATATAATAATTA
8333525 TTTTTAAATATAA
1 TTTTTAAATATAA
8333538 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 13 0.50
20 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTAAATATAATAATTA
Found at i:8342902 original size:13 final size:13
Alignment explanation
Indices: 8342884--8342912 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8342874 GTTAGAACTC
8342884 AGACAAACATACA
1 AGACAAACATACA
8342897 AGACAAACATACA
1 AGACAAACATACA
8342910 AGA
1 AGA
8342913 AGTTTAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.21, G:0.10, T:0.07
Consensus pattern (13 bp):
AGACAAACATACA
Found at i:8352411 original size:6 final size:6
Alignment explanation
Indices: 8352400--8352426 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8352390 CAATTTGTGA
8352400 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
8352427 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:8354184 original size:28 final size:28
Alignment explanation
Indices: 8354148--8354209 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
8354138 CCAGCTCGAA
8354148 TATATTATGCTATAA-AAT-ATTATATTAAT
1 TATA-TATGCTA-AATAATAATTATA-TAAT
* *
8354177 TATATATGTTAAATAATAATTATATATT
1 TATATATGCTAAATAATAATTATATAAT
8354205 TATAT
1 TATAT
8354210 TTATATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 2 0.07
28 17 0.59
29 10 0.34
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
TATATATGCTAAATAATAATTATATAAT
Found at i:8356632 original size:30 final size:30
Alignment explanation
Indices: 8356598--8356657 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8356588 ACTTAACAAG
*
8356598 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
8356628 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
8356658 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:8357988 original size:21 final size:21
Alignment explanation
Indices: 8357959--8357999 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8357949 TAAAAATATA
*
8357959 TTATTTTAT-ATTAATATTTAT
1 TTATCTTATAATTAA-ATTTAT
8357980 TTATCTTATAATTAAATTTA
1 TTATCTTATAATTAAATTTA
8358000 AAAGAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATCTTATAATTAAATTTAT
Found at i:8363002 original size:31 final size:31
Alignment explanation
Indices: 8362966--8363036 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
8362956 ACCCACACGT
*
8362966 CTGTGTGGCATTC-CTATATGGGTCCACAAGC
1 CTGTGTGGCATTCTC-ATATGGGTCCAAAAGC
* * *
8362997 TTGTGTGGCATTCTCGTGTGGGTCCAAAAGC
1 CTGTGTGGCATTCTCATATGGGTCCAAAAGC
8363028 CTGTGTGGC
1 CTGTGTGGC
8363037 CCGCACACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (31 bp):
CTGTGTGGCATTCTCATATGGGTCCAAAAGC
Found at i:8363594 original size:11 final size:11
Alignment explanation
Indices: 8363580--8363605 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8363570 CAAATGACAA
8363580 GATTGTGATAG
1 GATTGTGATAG
8363591 GATTGTGATAG
1 GATTGTGATAG
8363602 GATT
1 GATT
8363606 TCAGAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (11 bp):
GATTGTGATAG
Found at i:8364304 original size:17 final size:17
Alignment explanation
Indices: 8364263--8364311 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
8364253 TATTATATAT
* *
8364263 TTTATATAATAATTAAA
1 TTTAAATAATTATTAAA
*
8364280 TTTAAATAATTATTAAC
1 TTTAAATAATTATTAAA
* *
8364297 TTTGAATATTTATTA
1 TTTAAATAATTATTA
8364312 TACATATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAAATAATTATTAAA
Found at i:8370653 original size:34 final size:34
Alignment explanation
Indices: 8370562--8370653 Score: 166
Period size: 34 Copynumber: 2.7 Consensus size: 34
8370552 GTATCAGTTT
* *
8370562 GGCCTTAGCCCATCTCAGTAATAATAAGCATTAG
1 GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
8370596 GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
1 GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
8370630 GGCCTTAGCCCATCTCAGTAACAG
1 GGCCTTAGCCCATCTCAGTAACAG
8370654 ATATGAAGAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (34 bp):
GGCCTTAGCCCATCTCAGTAACAGTAAGCATTAG
Found at i:8376465 original size:115 final size:115
Alignment explanation
Indices: 8376263--8376493 Score: 462
Period size: 115 Copynumber: 2.0 Consensus size: 115
8376253 ATGTAAAAAT
8376263 CGTCAACTCAATGACTTTAGTATGTCACTCGAGACTAAATCTAGTATTCTAGGTTAAGCAGCCCT
1 CGTCAACTCAATGACTTTAGTATGTCACTCGAGACTAAATCTAGTATTCTAGGTTAAGCAGCCCT
8376328 ATAGACCCGACTGTGGAGTTATCGATGGAGCGTACTGCGTAGACCTCAGA
66 ATAGACCCGACTGTGGAGTTATCGATGGAGCGTACTGCGTAGACCTCAGA
8376378 CGTCAACTCAATGACTTTAGTATGTCACTCGAGACTAAATCTAGTATTCTAGGTTAAGCAGCCCT
1 CGTCAACTCAATGACTTTAGTATGTCACTCGAGACTAAATCTAGTATTCTAGGTTAAGCAGCCCT
8376443 ATAGACCCGACTGTGGAGTTATCGATGGAGCGTACTGCGTAGACCTCAGA
66 ATAGACCCGACTGTGGAGTTATCGATGGAGCGTACTGCGTAGACCTCAGA
8376493 C
1 C
8376494 AAATGTCCTG
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (115 bp):
CGTCAACTCAATGACTTTAGTATGTCACTCGAGACTAAATCTAGTATTCTAGGTTAAGCAGCCCT
ATAGACCCGACTGTGGAGTTATCGATGGAGCGTACTGCGTAGACCTCAGA
Found at i:8377080 original size:16 final size:17
Alignment explanation
Indices: 8377059--8377091 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8377049 CAAATTGACG
*
8377059 GAAAAAA-AACTTAAAT
1 GAAAAAATAACATAAAT
8377075 GAAAAAATAACATAAAT
1 GAAAAAATAACATAAAT
8377092 AATTGTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
GAAAAAATAACATAAAT
Found at i:8381786 original size:13 final size:13
Alignment explanation
Indices: 8381770--8381814 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 13
8381760 CTTCCCCTTT
8381770 TAAAAAAATAAAA
1 TAAAAAAATAAAA
*
8381783 T---AAAATAACA
1 TAAAAAAATAAAA
8381793 TAAAAAAATAAATA
1 TAAAAAAATAAA-A
8381807 TAAAAAAA
1 TAAAAAAA
8381815 ACTTACAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
10 9 0.35
13 8 0.31
14 9 0.35
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:8382132 original size:33 final size:33
Alignment explanation
Indices: 8382094--8382159 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8382084 TAACCTCGGA
8382094 ACACTACCATAACATACTAAACATTAAAATTTC
1 ACACTACCATAACATACTAAACATTAAAATTTC
8382127 ACACTACCATAACATACTAAACATTAAAATTTC
1 ACACTACCATAACATACTAAACATTAAAATTTC
8382160 GCATACATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (33 bp):
ACACTACCATAACATACTAAACATTAAAATTTC
Found at i:8385544 original size:14 final size:16
Alignment explanation
Indices: 8385525--8385564 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
8385515 TTATTTTTCT
8385525 TATATATTCTT-TTA-
1 TATATATTCTTATTAG
8385539 TATATATT-TTATTATG
1 TATATATTCTTATTA-G
8385555 TATATATTCT
1 TATATATTCT
8385565 CTTTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.09
14 11 0.50
16 8 0.36
17 1 0.05
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (16 bp):
TATATATTCTTATTAG
Found at i:8388280 original size:12 final size:12
Alignment explanation
Indices: 8388265--8388296 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8388255 CACAAGGCCT
*
8388265 ACCACATGGGTG
1 ACCACACGGGTG
8388277 ACCACACGGGTG
1 ACCACACGGGTG
8388289 ACCACACG
1 ACCACACG
8388297 CTCGTGTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.34, G:0.28, T:0.09
Consensus pattern (12 bp):
ACCACACGGGTG
Found at i:8388847 original size:17 final size:18
Alignment explanation
Indices: 8388825--8388874 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
8388815 AAGAAAAGAA
8388825 AATAATAATAA-TAAAAT
1 AATAATAATAATTAAAAT
8388842 AATAAT-ATAATTAAAAT
1 AATAATAATAATTAAAAT
*
8388859 AAAAATAGA-AATTAAA
1 AATAATA-ATAATTAAA
8388875 GATTTCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.14
17 17 0.59
18 7 0.24
19 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AATAATAATAATTAAAAT
Found at i:8400100 original size:20 final size:20
Alignment explanation
Indices: 8400075--8400115 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8400065 TGTCATCAAC
8400075 ATAAAGAAGTAGATACACAA
1 ATAAAGAAGTAGATACACAA
8400095 ATAAAGAAGTAGATACACAA
1 ATAAAGAAGTAGATACACAA
8400115 A
1 A
8400116 AAAACTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (20 bp):
ATAAAGAAGTAGATACACAA
Found at i:8404315 original size:12 final size:12
Alignment explanation
Indices: 8404298--8404323 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8404288 AATGCTTTAT
8404298 GTTATCTAGTAA
1 GTTATCTAGTAA
8404310 GTTATCTAGTAA
1 GTTATCTAGTAA
8404322 GT
1 GT
8404324 GATAATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (12 bp):
GTTATCTAGTAA
Found at i:8405255 original size:6 final size:6
Alignment explanation
Indices: 8405246--8405280 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
8405236 TATGTATATC
8405246 TTTGTA TTTGTA TTTGTA TTTGTA TTTGTA TTTGT
1 TTTGTA TTTGTA TTTGTA TTTGTA TTTGTA TTTGT
8405281 TGCAATGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (6 bp):
TTTGTA
Found at i:8405611 original size:26 final size:26
Alignment explanation
Indices: 8405582--8405634 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
8405572 TAGTGATTTG
*
8405582 TTTTATATTCTAATTTTAATTTCTTA
1 TTTTATATTCTAATGTTAATTTCTTA
*
8405608 TTTTATATTCTGATGTTAATTTCTTA
1 TTTTATATTCTAATGTTAATTTCTTA
8405634 T
1 T
8405635 GTCCCATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTATATTCTAATGTTAATTTCTTA
Found at i:8407695 original size:35 final size:35
Alignment explanation
Indices: 8407637--8407731 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
8407627 ATAAATTTAG
* **
8407637 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
8407673 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
8407708 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
8407732 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:8407950 original size:21 final size:21
Alignment explanation
Indices: 8407926--8407978 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
8407916 CATTGTTTCT
* *
8407926 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
8407947 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
8407968 AATCTCACCGC
1 AATCTCACCGC
8407979 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:8411878 original size:14 final size:14
Alignment explanation
Indices: 8411844--8411878 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
8411834 ACCTCGATAA
8411844 TGGAAAAATCCTTT
1 TGGAAAAATCCTTT
*
8411858 TAG-AAAATCCTTT
1 TGGAAAAATCCTTT
8411871 TGGAAAAA
1 TGGAAAAA
8411879 AAAATCATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (14 bp):
TGGAAAAATCCTTT
Found at i:8415406 original size:6 final size:6
Alignment explanation
Indices: 8415389--8415443 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
8415379 AGGCAACCCA
*
8415389 ATTTTT ACTTTT ATTTTT A-TTTT A--TTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
8415434 ACTTTT ATTT
1 ATTTTT ATTT
8415444 ATTTTATCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.09
5 5 0.12
6 34 0.79
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:8415411 original size:5 final size:5
Alignment explanation
Indices: 8415391--8415469 Score: 67
Period size: 6 Copynumber: 15.4 Consensus size: 5
8415381 GCAACCCAAT
8415391 TTTTA CTTTTA TTTTTA TTTTA -TTTA TTTTTA TTTTTA TTTTTA CTTTTA
1 TTTTA -TTTTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA -TTTTA
*
8415441 -TTTA TTTTA TCTTA --TTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
8415470 CAGATATTAA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
3 3 0.05
4 8 0.12
5 23 0.35
6 31 0.48
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:8415427 original size:27 final size:27
Alignment explanation
Indices: 8415389--8415469 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
8415379 AGGCAACCCA
*
8415389 ATTTTTACTTTTATTTTTATTTTATTT
1 ATTTTTATTTTTATTTTTATTTTATTT
8415416 ATTTTTATTTTTATTTTTACTTTTATTT
1 ATTTTTATTTTTATTTTTA-TTTTATTT
8415444 A-TTTTATCTTATTA-TTTTATTTTATT
1 ATTTTTAT-TT-TTATTTTTATTTTATT
8415470 CAGATATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
27 31 0.62
28 16 0.32
29 3 0.06
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (27 bp):
ATTTTTATTTTTATTTTTATTTTATTT
Found at i:8415434 original size:33 final size:35
Alignment explanation
Indices: 8415389--8415466 Score: 101
Period size: 33 Copynumber: 2.3 Consensus size: 35
8415379 AGGCAACCCA
* *
8415389 ATTTTTACTTTTATTTTTATTT-TATTTAT-TT-TT
1 ATTTTTATTTTTACTTTTATTTAT-TTTATCTTATT
8415422 ATTTTTATTTTTACTTTTATTTATTTTATCTTATT
1 ATTTTTATTTTTACTTTTATTTATTTTATCTTATT
8415457 A-TTTTATTTT
1 ATTTTTATTTT
8415467 ATTCAGATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 25 0.62
34 12 0.30
35 3 0.08
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (35 bp):
ATTTTTATTTTTACTTTTATTTATTTTATCTTATT
Found at i:8419788 original size:2 final size:2
Alignment explanation
Indices: 8419781--8419817 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8419771 TATGTGTAAG
8419781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8419818 GTGTGTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8419822 original size:2 final size:2
Alignment explanation
Indices: 8419817--8419869 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
8419807 TATATATATA
8419817 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8419859 TG TG TG TG TG T
1 TG TG TG TG TG T
8419870 ACTTTCTCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:8420557 original size:30 final size:30
Alignment explanation
Indices: 8420516--8420627 Score: 188
Period size: 30 Copynumber: 3.7 Consensus size: 30
8420506 TTTCTCAACG
*
8420516 AGCCACTCCTTTTCCACCACCAACTCCACT
1 AGCCACACCTTTTCCACCACCAACTCCACT
8420546 AGCCACACCTTTTCCACCACCAACTCCACT
1 AGCCACACCTTTTCCACCACCAACTCCACT
* *
8420576 AGCCACTCTTTTTCCACCACCAACTCCACT
1 AGCCACACCTTTTCCACCACCAACTCCACT
*
8420606 AGCCACACCTTCTCCACCACCA
1 AGCCACACCTTTTCCACCACCA
8420628 CTTGTACCTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.25, C:0.50, G:0.04, T:0.21
Consensus pattern (30 bp):
AGCCACACCTTTTCCACCACCAACTCCACT
Found at i:8421200 original size:27 final size:27
Alignment explanation
Indices: 8421170--8421288 Score: 66
Period size: 27 Copynumber: 4.5 Consensus size: 27
8421160 ATTTTAAATT
8421170 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
8421197 CTATTTTA--TTTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* ** * *
8421222 TTATATTATTTATATATATTTTTTTCTA
1 CTATATTACGTATATATA-TATTTTATA
* * * *
8421250 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
8421276 CTATATTATGTAT
1 CTATATTACGTAT
8421289 GTATTTTTAA
Statistics
Matches: 67, Mismatches: 20, Indels: 11
0.68 0.20 0.11
Matches are distributed among these distances:
25 20 0.30
26 5 0.07
27 28 0.42
28 14 0.21
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:8421210 original size:25 final size:25
Alignment explanation
Indices: 8421182--8421322 Score: 90
Period size: 25 Copynumber: 5.5 Consensus size: 25
8421172 ATATTACGTA
*
8421182 TATATATATTTTATACTATTTTATT
1 TATATATATTTTATACTATATTATT
* * *
8421207 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATT
* * *
8421232 TATATATATTTTTTTCTACATGTTATCT
1 TATATATATTTTATACT--ATATTAT-T
* *
8421260 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATT
* * *
8421286 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATT
*
8421311 TACATAT-TTTTA
1 TATATATATTTTA
8421323 ATATTATCAC
Statistics
Matches: 90, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.03
24 6 0.07
25 53 0.59
26 2 0.02
27 12 0.13
28 3 0.03
29 2 0.02
30 9 0.10
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATT
Found at i:8421500 original size:16 final size:15
Alignment explanation
Indices: 8421476--8421523 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
8421466 TAATTATTAT
*
8421476 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
8421492 TATTTTAATATTTTA
1 TATTTTAATATTTTA
8421507 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
8421523 T
1 T
8421524 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:8421511 original size:7 final size:8
Alignment explanation
Indices: 8421476--8421527 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
8421466 TAATTATTAT
*
8421476 TATTCTAA
1 TATTTTAA
*
8421484 TATTTTGA
1 TATTTTAA
8421492 TATTTTAA
1 TATTTTAA
8421500 TATTTT-A
1 TATTTTAA
8421507 TATTTTATA
1 TATTTTA-A
*
8421516 TATTTTAT
1 TATTTTAA
8421524 TATT
1 TATT
8421528 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:8423187 original size:2 final size:2
Alignment explanation
Indices: 8423182--8423216 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8423172 CTCTCTCTCT
8423182 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8423217 TAAAAATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8425443 original size:25 final size:25
Alignment explanation
Indices: 8425386--8425476 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
8425376 GCAAACACAC
* *
8425386 CACAGCTCTTATGAGCTTACTGATT
1 CACAGCTCGTATGAGCTTACCGATT
** *
8425411 TTCTGCTCGTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
*
8425436 CACAGCTCGTGA-GAGCATACCGATT
1 CACAGCTCGT-ATGAGCTTACCGATT
* *
8425461 CATAGCTTGTATGAGC
1 CACAGCTCGTATGAGC
8425477 ATACATGTAC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:8425761 original size:12 final size:12
Alignment explanation
Indices: 8425744--8425768 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8425734 TATGTATGTT
8425744 TGAAAATTTTTA
1 TGAAAATTTTTA
8425756 TGAAAATTTTTA
1 TGAAAATTTTTA
8425768 T
1 T
8425769 TATTTACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:8427849 original size:20 final size:20
Alignment explanation
Indices: 8427806--8427851 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
8427796 ACTATTTTAT
*
8427806 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATCAA
* *
8427825 AATGGGCCCAACTGTGTCAA
1 TATGGGCCCAACTGTATCAA
8427845 TATGGGC
1 TATGGGC
8427852 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTATCAA
Found at i:8427920 original size:60 final size:59
Alignment explanation
Indices: 8427844--8427980 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
8427834 AACTGTGTCA
* *
8427844 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCCACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCCACGGCCCAGATTAATACTG
* * * *
8427904 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCCACGGCCCAGATTAATACTG
*
8427964 ATATGGGATAAGGCCCA
1 ATATGGGCT-AGGCCCA
8427981 GTGAACACTA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.76
61 15 0.23
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCCACGGCCCAGATTAATACTG
Found at i:8430410 original size:68 final size:66
Alignment explanation
Indices: 8430335--8430484 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
8430325 CATCATGTGT
* * * *
8430335 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGATCGCATGGGTGATACTA-TG-CGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGATCGCATGCGTGATACAAGTGAAGGACACCA
8430398 TGTAG
62 TGTAG
* * * *
8430403 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCAAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGATCGCATGCGTGATACAA-GTGAAGGACACCATGT
8430468 AG
65 AG
8430470 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
8430485 GATAAATTGG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 5 0.07
67 27 0.38
68 13 0.18
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGATCGCATGCGTGATACAAGTGAAGGACACCATGTA
G
Found at i:8432561 original size:18 final size:19
Alignment explanation
Indices: 8432524--8432561 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
8432514 AATTTGATTA
*
8432524 ATTATTGAGTTCATCCATG
1 ATTATTGAGTTCATACATG
*
8432543 ATTATTG-GTTCATATATG
1 ATTATTGAGTTCATACATG
8432561 A
1 A
8432562 ATTTACATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (19 bp):
ATTATTGAGTTCATACATG
Found at i:8432984 original size:20 final size:20
Alignment explanation
Indices: 8432942--8432984 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8432932 TAATGAGAGT
* *
8432942 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAATAAGG
8432962 AAATGCAAAT-GAAAATAAGG
1 AAATGC-AATGGAAAATAAGG
8432982 AAA
1 AAA
8432985 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (20 bp):
AAATGCAATGGAAAATAAGG
Found at i:8433536 original size:11 final size:11
Alignment explanation
Indices: 8433522--8433566 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
8433512 AGATAAATAT
8433522 TATTTTATTAA
1 TATTTTATTAA
*
8433533 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
8433546 TATTTTATTAT
1 TATTTTATTAA
8433557 TATTTTATTA
1 TATTTTATTA
8433567 GAATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:8433955 original size:46 final size:46
Alignment explanation
Indices: 8433903--8434130 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
8433893 AGTGTGCTCT
8433903 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
8433949 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8433995 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
8434041 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATTGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
8434087 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
8434131 TCACGTCAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:8434436 original size:23 final size:25
Alignment explanation
Indices: 8434391--8434437 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8434381 AATAAATATA
*
8434391 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
8434416 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
8434438 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:8438816 original size:14 final size:15
Alignment explanation
Indices: 8438797--8438825 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8438787 TTAAAAATAG
8438797 AAAAAGTTA-GAACT
1 AAAAAGTTATGAACT
8438811 AAAAAGTTATGAACT
1 AAAAAGTTATGAACT
8438826 CTAGAAACTT
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:0.07, G:0.14, T:0.24
Consensus pattern (15 bp):
AAAAAGTTATGAACT
Found at i:8440998 original size:136 final size:137
Alignment explanation
Indices: 8440754--8441039 Score: 493
Period size: 136 Copynumber: 2.1 Consensus size: 137
8440744 CATTGGGCCT
** * *
8440754 AAGCCCATTCAGGTAACAGTGGTACTGCGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGCGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
8440819 AGCCCCTTATTTAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
8440883 CATATGC
131 CATATGC
*
8440890 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGCGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
8440955 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
8441020 CATATGC
131 CATATGC
8441027 AAGCCCATTTGGG
1 AAGCCCATTTGGG
8441040 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 119 0.84
137 22 0.16
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGCGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:8442862 original size:26 final size:26
Alignment explanation
Indices: 8442826--8442961 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
8442816 CATGATATTC
*
8442826 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8442852 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8442878 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8442904 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
8442930 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8442956 TTATCA
1 TTATCA
8442962 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8446256 original size:27 final size:28
Alignment explanation
Indices: 8446226--8446280 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
8446216 GAGGAAAAAG
8446226 TTAGAAAACTTCAAATGTA-GGGTCACA
1 TTAGAAAACTTCAAATGTAGGGGTCACA
8446253 TTAGAAAACTTCAAATGTAGGGGTCACA
1 TTAGAAAACTTCAAATGTAGGGGTCACA
8446281 CGGCCATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (28 bp):
TTAGAAAACTTCAAATGTAGGGGTCACA
Found at i:8458085 original size:6 final size:6
Alignment explanation
Indices: 8458070--8458109 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
8458060 TCTTCCTATC
* *
8458070 TTTTTA TTTTATT TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTT
8458110 CAATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:8461041 original size:13 final size:13
Alignment explanation
Indices: 8461023--8461051 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8461013 TTTAGTTTAA
8461023 TTAGTTAATTAGT
1 TTAGTTAATTAGT
8461036 TTAGTTAATTAGT
1 TTAGTTAATTAGT
8461049 TTA
1 TTA
8461052 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:8461840 original size:38 final size:38
Alignment explanation
Indices: 8461789--8461866 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
8461779 TATAGAGATG
8461789 TTCCGTTAAAAGTTCAAGGGACAATTTTTCTGGCTAAC
1 TTCCGTTAAAAGTTCAAGGGACAATTTTTCTGGCTAAC
*
8461827 TTCCGTTAGAAGTTCAAGGGACAATTTTTCTGGCTAAC
1 TTCCGTTAAAAGTTCAAGGGACAATTTTTCTGGCTAAC
8461865 TT
1 TT
8461867 AATAGAGCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (38 bp):
TTCCGTTAAAAGTTCAAGGGACAATTTTTCTGGCTAAC
Found at i:8468031 original size:32 final size:32
Alignment explanation
Indices: 8467994--8468058 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
8467984 GATTTTAATC
*
8467994 TATAATTTAATTTTTACCCTATACACATTTAG
1 TATAATTCAATTTTTACCCTATACACATTTAG
*
8468026 TATAATTCAATTTTTACCCTATATACATTTAG
1 TATAATTCAATTTTTACCCTATACACATTTAG
8468058 T
1 T
8468059 CCTTATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.48
Consensus pattern (32 bp):
TATAATTCAATTTTTACCCTATACACATTTAG
Found at i:8469930 original size:16 final size:16
Alignment explanation
Indices: 8469900--8469929 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8469890 ATTTTATAAC
8469900 ATTTTTATAATTTTTA
1 ATTTTTATAATTTTTA
8469916 ATTTTTA-AATTTTT
1 ATTTTTATAATTTTT
8469930 TTCTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTATAATTTTTA
Found at i:8469957 original size:19 final size:18
Alignment explanation
Indices: 8469912--8469959 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
8469902 TTTTATAATT
*
8469912 TTTAATTTTTAAATTTTT
1 TTTAATTTTTAAATTTTA
* *
8469930 TTCTTATTTTTGAATTTATA
1 TT-TAATTTTTAAATTT-TA
8469950 TTTAATTTTT
1 TTTAATTTTT
8469960 TAAGTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.79
20 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTAATTTTTAAATTTTA
Found at i:8470736 original size:15 final size:17
Alignment explanation
Indices: 8470721--8470760 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8470711 TTTATGGTTT
8470721 AGGGTTA-GGTTTTTTA
1 AGGGTTATGGTTTTTTA
*
8470737 AGGTTTATGGTTTTTGTA
1 AGGGTTATGGTTTTT-TA
8470755 AGGGTT
1 AGGGTT
8470761 TAACTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (17 bp):
AGGGTTATGGTTTTTTA
Found at i:8470742 original size:22 final size:22
Alignment explanation
Indices: 8470685--8470748 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
8470675 TTGGGATTAG
*
8470685 GGTTTTTT-AGGGTTAGGGTTA
1 GGTTTTTTAAGGTTTAGGGTTA
* *
8470706 GGGTTTTTATGGTTTAGGGTTA
1 GGTTTTTTAAGGTTTAGGGTTA
*
8470728 GGTTTTTTAAGGTTTATGGTT
1 GGTTTTTTAAGGTTTAGGGTT
8470749 TTTGTAAGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (22 bp):
GGTTTTTTAAGGTTTAGGGTTA
Found at i:8470794 original size:26 final size:26
Alignment explanation
Indices: 8470760--8470827 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
8470750 TTGTAAGGGT
*
8470760 TTAACTAATTAAATTAGGGTATAAGA
1 TTAATTAATTAAATTAGGGTATAAGA
*
8470786 TTAATTAATTAAATTAGGGTGTAAGA
1 TTAATTAATTAAATTAGGGTATAAGA
8470812 TTAATTAATTAAATTA
1 TTAATTAATTAAATTA
8470828 AATATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.40
Consensus pattern (26 bp):
TTAATTAATTAAATTAGGGTATAAGA
Found at i:8471340 original size:126 final size:123
Alignment explanation
Indices: 8470956--8471344 Score: 451
Period size: 125 Copynumber: 3.1 Consensus size: 123
8470946 TTTTGGTTTT
* * * * *
8470956 TTTTTCTTCAGTAGTATCT-AAAAAA-AATTTAAGAAGAAGTTTCTGAAGAAATAGTATCCAAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTGAGAAGACGTTTCTGAA-AAATAGTGTCAAAAA
* * * *
8471019 CGCTTCAAGCAGGATTCACTGTCAGCAAAATTACTGAAAAATACTCCCACGTGGATGCTT
65 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA-GCTCCCACGTGGACGCTC
* * * *
8471079 TTTTTCTATAGTCGTATCTGAGAAAATAATTTTGAGAAGACGTTTCTGAAAAATAGTGTAAAAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAA-TTTGAGAAGACGTTTCTGAAAAATAGTGTCAAAAA
* * * *
8471144 CACTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACTCTC
65 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AAAAAGCTCCCACGTGGACGCTC
** * * *
8471204 TTTTGATACAGTGGTATCTGAAAAAATAATTGTGAGATGACCTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATT-TGAGAAGACGTTTCTGAA-AAATAGTGTCAAAA
* * * *
8471269 ATGCTTCATGCAGTATGCACTTTCAGCAAAATTACT-AAGACAAGCTCCCACGTGGACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAA-A-AAGCTCCCACGTGGACGCTC
8471330 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
8471345 TCCTATTTGG
Statistics
Matches: 222, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
123 16 0.07
124 9 0.04
125 101 0.45
126 96 0.43
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (123 bp):
TTTTTCTACAGTAGTATCTGAAAAAATAATTTGAGAAGACGTTTCTGAAAAATAGTGTCAAAAAC
GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAGCTCCCACGTGGACGCTC
Found at i:8473472 original size:36 final size:36
Alignment explanation
Indices: 8473432--8473509 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
8473422 TAAATCCTTT
*
8473432 TGTAATATTCAATTTATTCTTAATGGAAGAGTGGTA
1 TGTAATATTCAATTTATTCTGAATGGAAGAGTGGTA
* ***
8473468 TGTAATTTTTGCTTTATTCTGAATGGAAGAGTGGTA
1 TGTAATATTCAATTTATTCTGAATGGAAGAGTGGTA
8473504 TGTAAT
1 TGTAAT
8473510 TTTTGCTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (36 bp):
TGTAATATTCAATTTATTCTGAATGGAAGAGTGGTA
Found at i:8473510 original size:36 final size:36
Alignment explanation
Indices: 8473444--8473516 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
8473434 TAATATTCAA
*
8473444 TTTATTCTTAATGGAAGAGTGGTATGTAATTTTTGC
1 TTTATTCTGAATGGAAGAGTGGTATGTAATTTTTGC
8473480 TTTATTCTGAATGGAAGAGTGGTATGTAATTTTTGC
1 TTTATTCTGAATGGAAGAGTGGTATGTAATTTTTGC
8473516 T
1 T
8473517 ATCATCTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (36 bp):
TTTATTCTGAATGGAAGAGTGGTATGTAATTTTTGC
Found at i:8475058 original size:30 final size:30
Alignment explanation
Indices: 8475024--8475089 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
8475014 GTTGAAGTGT
* * * *
8475024 TGGGCCCGGTGATTGTGTGGGCGTTATTGA
1 TGGGCCAGCTGATTGTATGGGCATTATTGA
*
8475054 TGGGCCAGCTGATTGTATGGGCATTGTTGA
1 TGGGCCAGCTGATTGTATGGGCATTATTGA
8475084 TGGGCC
1 TGGGCC
8475090 TGGGTCATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.15, G:0.41, T:0.32
Consensus pattern (30 bp):
TGGGCCAGCTGATTGTATGGGCATTATTGA
Found at i:8475598 original size:7 final size:7
Alignment explanation
Indices: 8475588--8475639 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
8475578 TTGTATACAT
8475588 AATACTA
1 AATACTA
8475595 AATACTA
1 AATACTA
* *
8475602 AATAGTC
1 AATACTA
*
8475609 AATATTA
1 AATACTA
*
8475616 AATATTA
1 AATACTA
8475623 AATACTA
1 AATACTA
*
8475630 AATACAA
1 AATACTA
8475637 AAT
1 AAT
8475640 GATTATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:8476880 original size:10 final size:10
Alignment explanation
Indices: 8476835--8476882 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
8476825 GCTTTGAAAA
8476835 AATTTGAGAG
1 AATTTGAGAG
*
8476845 AATATGAGAG
1 AATTTGAGAG
*
8476855 AATTTTTAGAAG
1 AA-TTTGAG-AG
8476867 AATTTGAGAG
1 AATTTGAGAG
8476877 AATTTG
1 AATTTG
8476883 GAAATGAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 19 0.59
11 9 0.28
12 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:8484355 original size:20 final size:20
Alignment explanation
Indices: 8484330--8484368 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8484320 CATAAAACCT
8484330 TAAAAAATACTAAA-AATTAC
1 TAAAAAATA-TAAAGAATTAC
*
8484350 TAAAAATTATAAAGAATTA
1 TAAAAAATATAAAGAATTA
8484369 GGAAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAAAAATATAAAGAATTAC
Found at i:8484362 original size:9 final size:9
Alignment explanation
Indices: 8484330--8484535 Score: 78
Period size: 9 Copynumber: 21.7 Consensus size: 9
8484320 CATAAAACCT
*
8484330 TAAAAAATA
1 TAAAAATTA
8484339 CTAAAAATTA
1 -TAAAAATTA
8484349 CTAAAAATTA
1 -TAAAAATTA
8484359 TAAAGAATTA
1 TAAA-AATTA
* *
8484369 GGAAAAGTTA
1 -TAAAAATTA
*
8484379 TTAAAATTA
1 TAAAAATTA
8484388 TTAAAAA-TA
1 -TAAAAATTA
* *
8484397 GAAAAAATA
1 TAAAAATTA
8484406 TAAACAATTA
1 TAAA-AATTA
* *
8484416 T-ATAATCACA
1 TAAAAAT--TA
*
8484426 AAAAAAGTTTA
1 TAAAAA--TTA
* *
8484437 CACAAAAGTA
1 TA-AAAATTA
*
8484447 TTAAAATTA
1 TAAAAATTA
8484456 TTTAAAAATTA
1 --TAAAAATTA
* *
8484467 TGAAATTTA
1 TAAAAATTA
*
8484476 TTAAAATTA
1 TAAAAATTA
8484485 TTAAAAA-TA
1 -TAAAAATTA
* *
8484494 GAAAAAATA
1 TAAAAATTA
8484503 T-AAAATTA
1 TAAAAATTA
*
8484511 CAAAAATTA
1 TAAAAATTA
*
8484520 TATAAAAATA
1 TA-AAAATTA
8484530 TAAAAA
1 TAAAAA
8484536 GTACTAAAAT
Statistics
Matches: 147, Mismatches: 32, Indels: 35
0.69 0.15 0.16
Matches are distributed among these distances:
8 19 0.13
9 54 0.37
10 53 0.36
11 16 0.11
12 4 0.03
13 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:8484501 original size:29 final size:29
Alignment explanation
Indices: 8484445--8484501 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8484435 TACACAAAAG
* **
8484445 TATTAAAATTATTTAAAAATTATGAAATT
1 TATTAAAATTATTTAAAAATGAAAAAATT
8484474 TATTAAAATTA-TTAAAAATAGAAAAAAT
1 TATTAAAATTATTTAAAAAT-GAAAAAAT
8484502 ATAAAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TATTAAAATTATTTAAAAATGAAAAAATT
Found at i:8484509 original size:36 final size:36
Alignment explanation
Indices: 8484459--8484560 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 36
8484449 AAAATTATTT
* *
8484459 AAAAATTATGAAATTTATTAAAATTATTAAAAATAG
1 AAAAAATATAAAATTTATTAAAATTATTAAAAATAG
** *
8484495 AAAAAATATAAAA-TTACAAAAATTATATAAAAATAT
1 AAAAAATATAAAATTTATTAAAATTAT-TAAAAATAG
* *
8484531 AAAAAGTACTAAAATTTTTTTAAAA-TATTA
1 AAAAAATA-TAAAA-TTTATTAAAATTATTA
8484561 GAGATTTTAG
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
35 11 0.21
36 26 0.49
37 7 0.13
38 3 0.06
39 6 0.11
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (36 bp):
AAAAAATATAAAATTTATTAAAATTATTAAAAATAG
Found at i:8484575 original size:97 final size:95
Alignment explanation
Indices: 8484342--8484556 Score: 226
Period size: 97 Copynumber: 2.3 Consensus size: 95
8484332 AAAAATACTA
* * *
8484342 AAAATTACTAAAA--ATTATAAAGAATTAGGAAAAGTTATTAAAATTATTAAAAATAGAAAAAAT
1 AAAAGTACTAAAATTATT-TAAA-AATTATG-AAATTTATTAAAATTATTAAAAATAGAAAAAAT
* *
8484405 ATAAACAATTATATAATCACAAAAAAAGTTTACAC
63 ATAAACAATTAAAAAATCACAAAAAAA--TTACAC
*
8484440 AAAAGTATTAAAATTATTTAAAAATTATGAAATTTATTAAAATTATTAAAAATAGAAAAAATAT-
1 AAAAGTACTAAAATTATTTAAAAATTATGAAATTTATTAAAATTATTAAAAATAGAAAAAATATA
* * * *
8484504 AA-AATTACAAAAATTATATAAAAA-TATA-
66 AACAATTA-AAAAATCACAAAAAAATTACAC
* *
8484532 AAAAGTACTAAAATTTTTTTAAAAT
1 AAAAGTACTAAAATTATTTAAAAAT
8484557 ATTAGAGATT
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
92 22 0.22
93 3 0.03
95 5 0.05
96 13 0.13
97 34 0.34
98 17 0.17
99 4 0.04
100 3 0.03
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (95 bp):
AAAAGTACTAAAATTATTTAAAAATTATGAAATTTATTAAAATTATTAAAAATAGAAAAAATATA
AACAATTAAAAAATCACAAAAAAATTACAC
Found at i:8486351 original size:31 final size:31
Alignment explanation
Indices: 8486316--8486385 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
8486306 ATATTTTATT
* *
8486316 ATTTTAGTCACTCAAATTAGATAAATTGTCA
1 ATTTTAGTCACTCAAATTAAATAAATTGTAA
** *
8486347 ATTTTAGTCACTCCTATTAAATAAGTTGTAA
1 ATTTTAGTCACTCAAATTAAATAAATTGTAA
8486378 ATTTTAGT
1 ATTTTAGT
8486386 TACTTTACCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (31 bp):
ATTTTAGTCACTCAAATTAAATAAATTGTAA
Found at i:8487439 original size:26 final size:26
Alignment explanation
Indices: 8487410--8487465 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
8487400 GGCTTTTTTC
* *
8487410 TTTCTAAA-ACTACAGCCTTTGGTAAG
1 TTTCTAAACACT-CAACCTTTGGTAAA
8487436 TTTC-AAACACTCAACCTTTGGTAAA
1 TTTCTAAACACTCAACCTTTGGTAAA
8487461 TTTCT
1 TTTCT
8487466 TCCCTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTCTAAACACTCAACCTTTGGTAAA
Found at i:8493866 original size:28 final size:28
Alignment explanation
Indices: 8493822--8493876 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
8493812 TTGAGTAATT
* *
8493822 TTATATATTTCTATATTTTTATAAAATA
1 TTATATATTTATATATTATTATAAAATA
*
8493850 TTATAT-TTTATATTATTATTATGAAAT
1 TTATATATTTATA-TATTATTATAAAAT
8493877 TAAAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
TTATATATTTATATATTATTATAAAATA
Found at i:8493905 original size:18 final size:16
Alignment explanation
Indices: 8493873--8493908 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
8493863 TATTATTATG
8493873 AAATTAAAAATATAAA
1 AAATTAAAAATATAAA
8493889 AAATCTAAAATATATAAA
1 AAAT-TAAAA-ATATAAA
8493907 AA
1 AA
8493909 TGTTTAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 5 0.28
18 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATTAAAAATATAAA
Found at i:8494718 original size:13 final size:12
Alignment explanation
Indices: 8494698--8494728 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
8494688 TTAGATTATG
8494698 AAAAATTTATAA
1 AAAAATTTATAA
8494710 AATAAATTTATAA
1 AA-AAATTTATAA
8494723 AAAAAT
1 AAAAAT
8494729 AAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATTTATAA
Found at i:8496217 original size:17 final size:18
Alignment explanation
Indices: 8496195--8496228 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8496185 TTTTAGGGAC
8496195 TAAATTGAA-GGCAAAAG
1 TAAATTGAAGGGCAAAAG
*
8496212 TAAATTTAAGGGCAAAA
1 TAAATTGAAGGGCAAAA
8496229 AGCATGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (18 bp):
TAAATTGAAGGGCAAAAG
Found at i:8496455 original size:10 final size:10
Alignment explanation
Indices: 8496422--8496447 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8496412 GCTTTTATCT
8496422 TTATCTTTAA
1 TTATCTTTAA
8496432 TTATCTTTAA
1 TTATCTTTAA
8496442 TTATCT
1 TTATCT
8496448 GTATTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Done.