Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 70 of 208
Found at i:25712663 original size:167 final size:168
Alignment explanation
Indices: 25712363--25712665 Score: 464
Period size: 167 Copynumber: 1.8 Consensus size: 168
25712353 ATAGATAATC
* * * * *
25712363 AAGAAAAGTTGTTCAGTATTCATCACTGATTCATTTCAGCTATCTAATGAAGTTCCAGTTCCAAC
1 AAGAAAAGCTGTTCAATATTCATCAATGATTCATTTCAGCAATCTAATGAAGTTCCAATTCCAAC
* * *
25712428 ACAGATGAATGAATGATTGTCTAATTAACAGGTGCTAGTTCAAGAACAATGACTTCCAATTATTA
66 ACAGATCAATGAATGATTGTCTAATTAACAGCTGCTAGTTCAAGAACAATAACTTCCAATTATTA
25712493 CCCAATATTTAACGTTTCATTTCAGCAATTTGTAAATA
131 CCCAATATTTAACGTTTCATTTCAGCAATTTGTAAATA
* * *
25712531 AAGAAAA-CTGTTCAATATTCATCAATGTTTCATTTCAGCAATTTAATGAAGTTCCAATTCCAAT
1 AAGAAAAGCTGTTCAATATTCATCAATGATTCATTTCAGCAATCTAATGAAGTTCCAATTCCAAC
* * * *
25712595 ACAGATCAATGAATGATTGTGTAATTAACAGCTGCTAGTTCAAGAACAATAACTTTCATTTTTTA
66 ACAGATCAATGAATGATTGTCTAATTAACAGCTGCTAGTTCAAGAACAATAACTTCCAATTATTA
25712660 CCCAAT
131 CCCAAT
25712666 CTTTCAAGCA
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
167 113 0.94
168 7 0.06
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (168 bp):
AAGAAAAGCTGTTCAATATTCATCAATGATTCATTTCAGCAATCTAATGAAGTTCCAATTCCAAC
ACAGATCAATGAATGATTGTCTAATTAACAGCTGCTAGTTCAAGAACAATAACTTCCAATTATTA
CCCAATATTTAACGTTTCATTTCAGCAATTTGTAAATA
Found at i:25713469 original size:59 final size:62
Alignment explanation
Indices: 25713389--25713525 Score: 135
Period size: 63 Copynumber: 2.2 Consensus size: 62
25713379 AAAATATAAA
* *
25713389 AAATAATTTATTATAACTTA-TTGTT-AATATT-TT-AATATATAATATTA-ATTTTAAATATTT
1 AAATAATTAATTATAACTTATTTATTAAAT-TTATTAAATATATAA-ATTATA-TTTAAATATTT
25713449 AAATAATTAA-TATTAA-TTATTTATTAAATTTAATTAGAATATATAAATTATATTTAAATATTT
1 AAATAATTAATTA-TAACTTATTTATTAAATTT-ATTA-AATATATAAATTATATTTAAATATTT
*
25713512 AAATATAATAATTA
1 AAATA-ATTAATTA
25713526 AATATTTGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
59 5 0.08
60 18 0.28
61 3 0.05
62 2 0.03
63 20 0.31
64 14 0.22
65 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (62 bp):
AAATAATTAATTATAACTTATTTATTAAATTTATTAAATATATAAATTATATTTAAATATTT
Found at i:25713497 original size:19 final size:18
Alignment explanation
Indices: 25713447--25713530 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 18
25713437 TTTTAAATAT
*
25713447 TTAAATA-ATTAATATTAA
1 TTAAATATATAAAT-TTAA
**
25713465 TTATTTAT-TAAATTTAA
1 TTAAATATATAAATTTAA
*
25713482 TTAGAATATATAAATTATAT
1 TTA-AATATATAAATT-TAA
*
25713502 TTAAATATTTAAATATAATAA
1 TTAAATATATAAAT-T--TAA
25713523 TTAAATAT
1 TTAAATAT
25713531 TTGTAATTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
17 7 0.13
18 12 0.23
19 16 0.31
20 6 0.12
21 11 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
TTAAATATATAAATTTAA
Found at i:25713524 original size:27 final size:26
Alignment explanation
Indices: 25713443--25713525 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 26
25713433 TTAATTTTAA
25713443 ATATTTAAATAATT-AATAT-TAATT
1 ATATTTAAATAATTAAATATATAATT
*
25713467 ATTTATTAAATTTAATTAGAATATATAAATT
1 ATAT-TTAAA--TAATTA-AATATAT-AATT
*
25713498 ATATTTAAATATTTAAATATAATAATT
1 ATATTTAAATAATTAAATAT-ATAATT
25713525 A
1 A
25713526 AATATTTGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
24 3 0.06
25 5 0.10
27 15 0.31
28 7 0.15
29 5 0.10
30 6 0.12
31 7 0.15
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
ATATTTAAATAATTAAATATATAATT
Found at i:25715032 original size:71 final size:71
Alignment explanation
Indices: 25714948--25715131 Score: 368
Period size: 71 Copynumber: 2.6 Consensus size: 71
25714938 GGCGAGCAAA
25714948 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
1 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
25715013 TTCCAG
66 TTCCAG
25715019 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
1 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
25715084 TTCCAG
66 TTCCAG
25715090 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAG
1 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAG
25715132 GTTTTCACAA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 113 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (71 bp):
CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
TTCCAG
Found at i:25715670 original size:4 final size:4
Alignment explanation
Indices: 25715661--25716090 Score: 594
Period size: 4 Copynumber: 107.5 Consensus size: 4
25715651 TTAGCTTTCA
* * * *
25715661 ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATTT ATGT ATGG ATGG ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
25715709 ATGT ATGT ATGG ATGT ATGT ATGG ATGT CTGT ATGG ATGG ATGG ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
25715757 ATGT ATGT ATGT ATGT ATGG ATGT ATGT ATGG ATGT ATGT ATGG ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
25715805 ATGG ATGT ATGT ATGT ATGT ATGG ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
25715853 ATGG ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAG- ATGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT
* *
25715901 ATGG ATGT ATGT ATGT ATGG ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
25715949 ATGT GTGT ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
25715997 ATGC ATGT ATAG- ATGC ATGT ATGT ATGC ATGT ATGT ATGT ATGG ATGT
1 ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25716045 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
25716091 AAGACTCTGT
Statistics
Matches: 380, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
3 2 0.01
4 376 0.99
5 2 0.01
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:25717783 original size:25 final size:25
Alignment explanation
Indices: 25717747--25717808 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
25717737 ATGGTGGAGA
* *
25717747 AGAGGAACAAAGAACCGGCACAGGGC
1 AGAGG-ACAAAGAACCAGCACAGGAC
*
25717773 AGAGGACAAAGAACCAGCAGAGGAC
1 AGAGGACAAAGAACCAGCACAGGAC
25717798 AGA--ACAAAGAA
1 AGAGGACAAAGAA
25717809 TCAGTAGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.24
25 20 0.61
26 5 0.15
ACGTcount: A:0.50, C:0.19, G:0.31, T:0.00
Consensus pattern (25 bp):
AGAGGACAAAGAACCAGCACAGGAC
Found at i:25717808 original size:23 final size:23
Alignment explanation
Indices: 25717751--25717818 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
25717741 TGGAGAAGAG
* * *
25717751 GAACAAAGAACCGGCACAGGGCA
1 GAACAAAGAACCAGCAGAGGACA
25717774 GAGGACAAAGAACCAGCAGAGGACA
1 GA--ACAAAGAACCAGCAGAGGACA
* *
25717799 GAACAAAGAATCAGTAGAGG
1 GAACAAAGAACCAGCAGAGG
25717819 GTAGAGATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 18 0.47
25 20 0.53
ACGTcount: A:0.47, C:0.19, G:0.31, T:0.03
Consensus pattern (23 bp):
GAACAAAGAACCAGCAGAGGACA
Found at i:25717935 original size:14 final size:15
Alignment explanation
Indices: 25717909--25717937 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25717899 TATTAAGATC
25717909 ATTTTTAATAATATA
1 ATTTTTAATAATATA
25717924 ATTTTTAA-AATATA
1 ATTTTTAATAATATA
25717938 TATTACCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTTAATAATATA
Found at i:25719474 original size:21 final size:21
Alignment explanation
Indices: 25719450--25719496 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
25719440 GTGATTGTCT
25719450 AGATTGACAATACATCA-AACA
1 AGATTGACAATACAT-ATAACA
* *
25719471 AGATCGACAATGCATATAACA
1 AGATTGACAATACATATAACA
25719492 AGATT
1 AGATT
25719497 CGAGTTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (21 bp):
AGATTGACAATACATATAACA
Found at i:25721602 original size:42 final size:42
Alignment explanation
Indices: 25721532--25721668 Score: 125
Period size: 42 Copynumber: 3.3 Consensus size: 42
25721522 CCGAAGGCTG
* ** * * *
25721532 AACAAAAGCTCATGAGAGCTAAAAAGAAACCCATAAGGGTTGA
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACCCATAAAGGTT-A
* ** *
25721575 AA-GGAAGCTCGTAAGAGCTGACCAGAAACCCATAAAGGTTA
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACCCATAAAGGTTA
* *
25721616 AACAGAAGCTCAAAAGAGCTGAACAGAAACTCAT-ATGAGTTA
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACCCATAAAG-GTTA
*
25721658 AATAGAAGCTC
1 AACAGAAGCTC
25721669 GTGAAAGCTA
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
41 5 0.06
42 70 0.91
43 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTGAACAGAAACCCATAAAGGTTA
Found at i:25728883 original size:42 final size:41
Alignment explanation
Indices: 25728811--25728967 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 41
25728801 GCCCGAAGGC
*
25728811 TAAACAAAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGT
1 TAAAC-AAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* ** *
25728853 TGAACGAAAGCTCATAAGAGCTGGATAGAAACCCATAAGGGT
1 TAAAC-AAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * * * *
25728895 TAAACATAAGCTCAAAAGAGCTCAACGGAAACTCATATGAGT
1 TAAACA-AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * *
25728937 TAAACAAAAGCTCGTGAGAGCTAAACGGAAA
1 TAAAC-AAAGCTCATAAGAGCTAAACAGAAA
25728968 GTAAACATGA
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 92 0.98
43 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (41 bp):
TAAACAAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:25731213 original size:16 final size:17
Alignment explanation
Indices: 25731192--25731263 Score: 65
Period size: 17 Copynumber: 3.9 Consensus size: 17
25731182 TATATTTATT
25731192 TTTTAAAAT-TTTTTAA
1 TTTTAAAATATTTTTAA
25731208 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTT---A-A
*
25731229 CTTTTTAAAATTTTTTTTAA
1 --TTTTAAAA-TATTTTTAA
25731249 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
25731264 TAAATACTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
16 9 0.20
17 11 0.24
18 8 0.17
20 2 0.04
21 2 0.04
23 8 0.17
24 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:25731253 original size:30 final size:33
Alignment explanation
Indices: 25731217--25731293 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 33
25731207 ATTTTAAAAT
25731217 ATTTTTAAAATACTTTTTAAA-A-TTTTTTTTA
1 ATTTTTAAAATACTTTTTAAATATTTTTTTTTA
*
25731248 A-TTTTAAAATATTTTTTAAATACTTTTTTTTTTA
1 ATTTTTAAAATACTTTTTAAATA--TTTTTTTTTA
25731282 ATTTTTAAAATA
1 ATTTTTAAAATA
25731294 AATTTTTGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 18 0.45
31 2 0.05
34 10 0.25
35 10 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (33 bp):
ATTTTTAAAATACTTTTTAAATATTTTTTTTTA
Found at i:25731255 original size:41 final size:39
Alignment explanation
Indices: 25731191--25731275 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 39
25731181 ATATATTTAT
25731191 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
*
25731230 TTTTTAAAATTTTTTTTAATTTTAAAATATTTTTTAAATAC
1 TTTTTAAAA--TTTTTTAATTTTAAAATATTTTTAAAATAC
25731271 TTTTT
1 TTTTT
25731276 TTTTTAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 9 0.21
41 34 0.79
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:25731263 original size:11 final size:11
Alignment explanation
Indices: 25731208--25731275 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
25731198 AATTTTTTAA
25731208 TTTTAAAATAT
1 TTTTAAAATAT
25731219 TTTTAAAATACT
1 TTTTAAAATA-T
25731231 TTTTAAAAT-T
1 TTTTAAAATAT
* *
25731241 TTTT---TTAA
1 TTTTAAAATAT
25731249 TTTTAAAATAT
1 TTTTAAAATAT
*
25731260 TTTTTAAATACT
1 TTTTAAAATA-T
25731272 TTTT
1 TTTT
25731276 TTTTTAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
10 5 0.11
11 21 0.46
12 15 0.33
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:25731276 original size:12 final size:11
Alignment explanation
Indices: 25731188--25731276 Score: 59
Period size: 11 Copynumber: 8.7 Consensus size: 11
25731178 TAAATATATT
25731188 TATTTTTTAAA
1 TATTTTTTAAA
25731199 -ATTTTTT--A
1 TATTTTTTAAA
*
25731207 -A-TTTTAAAA
1 TATTTTTTAAA
*
25731216 TATTTTTAAAA
1 TATTTTTTAAA
*
25731227 TACTTTTTAAA
1 TATTTTTTAAA
*
25731238 -ATTTTTT--T
1 TATTTTTTAAA
* *
25731246 TAATTTTAAAA
1 TATTTTTTAAA
25731257 TATTTTTTAAA
1 TATTTTTTAAA
25731268 TACTTTTTT
1 TA-TTTTTT
25731277 TTTTAATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
7 4 0.07
8 2 0.03
9 6 0.10
10 14 0.23
11 28 0.47
12 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTTAAA
Found at i:25732048 original size:20 final size:20
Alignment explanation
Indices: 25732025--25732065 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
25732015 TTAATTTTTA
25732025 TAAAAAC-ATATAAAAATTAT
1 TAAAAACTA-ATAAAAATTAT
*
25732045 TAAAAACTAATAAATATTAT
1 TAAAAACTAATAAAAATTAT
25732065 T
1 T
25732066 CAATTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAACTAATAAAAATTAT
Found at i:25732574 original size:18 final size:17
Alignment explanation
Indices: 25732544--25732577 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25732534 TACCTAATAA
*
25732544 TTATAGTATATTCGAAT
1 TTATAGTAGATTCGAAT
25732561 TTATGAGTAGATTCGAA
1 TTAT-AGTAGATTCGAA
25732578 GAATTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
TTATAGTAGATTCGAAT
Found at i:25735449 original size:7 final size:7
Alignment explanation
Indices: 25735437--25735467 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
25735427 CTAAATCTCT
25735437 CTACGGC
1 CTACGGC
25735444 CTACGGC
1 CTACGGC
25735451 CTACGGC
1 CTACGGC
25735458 CTACGGC
1 CTACGGC
25735465 CTA
1 CTA
25735468 TGCATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.42, G:0.26, T:0.16
Consensus pattern (7 bp):
CTACGGC
Found at i:25745541 original size:124 final size:123
Alignment explanation
Indices: 25745320--25745574 Score: 377
Period size: 124 Copynumber: 2.1 Consensus size: 123
25745310 AAATAGTGGG
** * * * *
25745320 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
*
25745385 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
25745444 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* *
25745509 TCGCTACAGTTGGTCATGT-AGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAG-TGGTCATGTGA-GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
25745568 AAATCGC
1 AAATCGC
25745575 GCCCTCATGG
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 90 0.76
125 28 0.24
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (123 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:25748797 original size:28 final size:28
Alignment explanation
Indices: 25748749--25749783 Score: 976
Period size: 28 Copynumber: 38.5 Consensus size: 28
25748739 AATTAGGGTT
25748749 TTTAATTAAA-TAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25748776 TTTAATTAAATTAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25748799 TTTAATT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25748826 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25748854 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25748877 TTAAATTAGGTTAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25748900 TTTAATT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25748927 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* * *
25748955 -TTAAGT--A--GGGTTACGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
25748978 TTTAATTAAATAAGGTTAGGGTTTTAAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25749006 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25749034 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25749062 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25749090 TTTAA-TAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
*
25749118 TTTAATTAAATTAGGTTATGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
25749146 -TTAAGT--A--GGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25749169 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25749197 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
25749226 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25749254 TTTAATTAAA-TAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25749276 TTTAATTAAATTAGGTTAGGG-TTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25749303 TTTAATTAAATAAGGTTAGGG-TTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25749330 -TTAA-T--ATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25749354 TTTAATT-AATTAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25749376 TTTAATT--ATTAGGTTA-GGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
25749401 TTTAATAAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
*
25749430 TTTAATTAAATTAGGTTATGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
25749458 -TTAAGT--A--GGGTTTAGGGTTTTTAA
1 TTTAATTAAATTAGG-TTAGGGTTTTTAA
*
25749482 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25749510 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
*
25749539 TTTAATTAAATTAGGTTAGGGCTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25749567 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25749595 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
25749623 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
25749651 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
25749679 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* ** * *
25749707 TTAAATTAGGTTAGGTTA-GGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT--TTTA----A
*
25749740 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAATTA-GG-TTAGGGTTTTTAA
25749769 TTTAATTAAATTAGG
1 TTTAATTAAATTAGG
25749784 GTTTTTAATT
Statistics
Matches: 830, Mismatches: 96, Indels: 162
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.00
21 9 0.01
22 39 0.05
23 84 0.10
24 34 0.04
25 28 0.03
26 16 0.02
27 116 0.14
28 374 0.45
29 96 0.12
30 6 0.01
31 6 0.01
32 2 0.00
33 11 0.01
34 3 0.00
35 4 0.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (28 bp):
TTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:25748886 original size:18 final size:21
Alignment explanation
Indices: 25748836--25748878 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
25748826 TTTAATTAAA
25748836 TAAG-GTTAGGGTTTTTAATT
1 TAAGAGTTAGGGTTTTTAATT
25748856 TAAGTAGGTTAGGGTTTTTAATT
1 TAAG-A-GTTAGGGTTTTTAATT
25748879 AAATTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
23 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TAAGAGTTAGGGTTTTTAATT
Found at i:25748936 original size:18 final size:20
Alignment explanation
Indices: 25748831--25748930 Score: 67
Period size: 22 Copynumber: 4.4 Consensus size: 20
25748821 TTTAATTTAA
*
25748831 TTAAATAAG-GTTAGGGTTT
1 TTAATTAAGAGTTAGGGTTT
25748850 TTAATTTAAGTAGGTTAGGGTTT
1 TTAA-TTAAG-A-GTTAGGGTTT
25748873 TTAATTAAATTAGGTTAGGTTAGGGTTT
1 TTAATT--A--A-G--A-GTTAGGGTTT
25748901 TTAATTAAGTAGGTTAGGGTTT
1 TTAATTAAG-A-GTTAGGGTTT
25748923 TTAATTAA
1 TTAATTAA
25748931 ATTAGGTTAG
Statistics
Matches: 70, Mismatches: 1, Indels: 17
0.80 0.01 0.19
Matches are distributed among these distances:
19 4 0.06
20 4 0.06
22 23 0.33
23 15 0.21
24 2 0.03
26 2 0.03
27 1 0.01
28 19 0.27
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (20 bp):
TTAATTAAGAGTTAGGGTTT
Found at i:25749397 original size:20 final size:22
Alignment explanation
Indices: 25749216--25749815 Score: 239
Period size: 23 Copynumber: 23.7 Consensus size: 22
25749206 ATTAGGTTAG
25749216 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATT-AATTA
25749239 GGTTAGGGTTTTTAATTTAATTAAATA
1 GGTTAGGGTTTTTAA-TTAA-T---TA
25749266 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATT-AATTA
*
25749289 GGTTAGGGTTTTAATTTAATTAAATAA
1 GGTTAGGG--TT--TTTAATT-AATTA
25749316 GGTTAGGG-TTTTAATTAATATTA
1 GGTTAGGGTTTTTAATT-A-ATTA
25749339 GGTTAGGGTTTTTAATTTAATTAATTA
1 GGTTAGGG---TT--TTTAATTAATTA
25749366 GGTTAGGGTTTTTAATT-ATTA
1 GGTTAGGGTTTTTAATTAATTA
25749387 GGTTA-GGTTTTTAATTTAATAAAATTA
1 GGTTAGGGTTTTTAA--T--T--AATTA
25749414 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTA-GG-----GTTTTTAATT-AATTA
* *
25749443 GGTTATGGTTTTTAATTAAGTA
1 GGTTAGGGTTTTTAATTAATTA
25749465 GGGTTTAGGGTTTTTAATTTAATTAAATAA
1 -GG-TTAGGGTTTTTAA-TTAA-T---T-A
25749495 GGTTAGGGTTTTTAATTTAATTAAATTA
1 GGTTAGGG---TT--TTTAATT-AATTA
25749523 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGG------TTTTTAATT-AATTA
*
25749552 GGTTAGGGCTTTTAATTTAATTAAATAA
1 GGTTAGGG---TT--TTTAATT-AATTA
25749580 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT--A--A--TTA
25749608 GGTTAGGGTTTTTAATTTAATTAAATAA
1 GGTTAGGGTTTTTAA-TTAA-T---T-A
25749636 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT--A--A--TTA
25749664 GGTTAGGGTTTTTAATTTAATTAAATTA
1 GGTTAGGGTTTTT-----AATT-AATTA
25749692 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATT-AATTA
**
25749715 GGTTA-GG---TT-A--GGTTA
1 GGTTAGGGTTTTTAATTAATTA
*
25749730 GGTTAGGGTTTTTAATTAAGTA
1 GGTTAGGGTTTTTAATTAATTA
25749752 GGGTTTAGGGTTTTTAATTTAATTA
1 -GG-TTAGGGTTTTTAA-TTAATTA
** *
25749777 AATTAGGGTTTTTAATTAAGTA
1 GGTTAGGGTTTTTAATTAATTA
*
25749799 GGGTTAGGGATTTTAAT
1 -GGTTAGGGTTTTTAAT
25749816 CAAATAATGT
Statistics
Matches: 468, Mismatches: 28, Indels: 162
0.71 0.04 0.25
Matches are distributed among these distances:
15 8 0.02
16 2 0.00
18 1 0.00
19 4 0.01
20 10 0.02
21 9 0.02
22 31 0.07
23 100 0.21
24 35 0.07
25 15 0.03
26 6 0.01
27 65 0.14
28 100 0.21
29 48 0.10
30 3 0.01
31 5 0.01
32 7 0.01
33 11 0.02
34 8 0.02
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.47
Consensus pattern (22 bp):
GGTTAGGGTTTTTAATTAATTA
Found at i:25749720 original size:5 final size:5
Alignment explanation
Indices: 25749712--25749736 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25749702 TTTAATTAAA
25749712 TTAGG TTAGG TTAGG TTAGG TTAGG
1 TTAGG TTAGG TTAGG TTAGG TTAGG
25749737 GTTTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
TTAGG
Found at i:25749802 original size:17 final size:18
Alignment explanation
Indices: 25749769--25749803 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25749759 GGGTTTTTAA
*
25749769 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
25749787 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
25749804 AGGGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:25752102 original size:18 final size:19
Alignment explanation
Indices: 25752072--25752108 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25752062 ATCCGGCCAT
25752072 TTTTGAAAATA-TTAAAAA
1 TTTTGAAAATATTTAAAAA
25752090 TTTT-AAAATTATTTAAAAA
1 TTTTGAAAA-TATTTAAAAA
25752109 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTTGAAAATATTTAAAAA
Found at i:25752212 original size:22 final size:22
Alignment explanation
Indices: 25752182--25752223 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25752172 ATTTGGAGAT
*
25752182 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
25752204 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
25752224 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:25752243 original size:52 final size:51
Alignment explanation
Indices: 25752173--25752275 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
25752163 TTAATATGGA
* * *
25752173 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
25752224 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
25752276 AAATTTTGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:25752250 original size:22 final size:22
Alignment explanation
Indices: 25752225--25752316 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 22
25752215 ATTTGAGAGT
25752225 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTT-GAAGGAAA
* *
25752247 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAGGAAA
25752269 TTGAGAGAAATTTTGACAGG-AA
1 TTGAGAGAAATTTTGA-AGGAAA
* *
25752291 TTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAGGAAA
25752313 TTGA
1 TTGA
25752317 TATTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 2 0.03
22 51 0.82
23 9 0.15
ACGTcount: A:0.41, C:0.01, G:0.27, T:0.30
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAGGAAA
Found at i:25755362 original size:18 final size:19
Alignment explanation
Indices: 25755341--25755381 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
25755331 AATAAATTAT
25755341 AAAATTAATA-TTTTTTAA
1 AAAATTAATATTTTTTTAA
25755359 AAAATTAATATTTTTTTAA
1 AAAATTAATATTTTTTTAA
25755378 AAAA
1 AAAA
25755382 CATTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTAATATTTTTTTAA
Found at i:25757229 original size:35 final size:34
Alignment explanation
Indices: 25757163--25757229 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 34
25757153 CAGTAAAATA
25757163 TTTTCCGTAAAATGATTTTGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTTGGGAAAATATTTTAC
*
25757197 TTTTCTGTAAAATGATTTACT-GGAAAATATTTT
1 TTTTCCGTAAAATGATTT--TGGGAAAATATTTT
25757230 CGGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 17 0.57
35 12 0.40
36 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTTGGGAAAATATTTTAC
Found at i:25758527 original size:9 final size:9
Alignment explanation
Indices: 25758514--25758547 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
25758504 GAATAGCATT
25758514 ACAAAATAA
1 ACAAAATAA
*
25758523 TCAAAATAA
1 ACAAAATAA
*
25758532 ACAAAAGAA
1 ACAAAATAA
25758541 ACAAAAT
1 ACAAAAT
25758548 GAGTAAGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (9 bp):
ACAAAATAA
Found at i:25763025 original size:9 final size:9
Alignment explanation
Indices: 25763012--25763045 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
25763002 GAATAGCATT
25763012 ACAAAATAA
1 ACAAAATAA
*
25763021 TCAAAATAA
1 ACAAAATAA
*
25763030 ACAAAAGAA
1 ACAAAATAA
25763039 ACAAAAT
1 ACAAAAT
25763046 GAGTAAGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (9 bp):
ACAAAATAA
Found at i:25764047 original size:31 final size:30
Alignment explanation
Indices: 25764012--25764080 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
25764002 TTTTTCTGAT
25764012 TTTTATAGA-AATTT-AATATGTTTTTATAAAA
1 TTTTATA-ATAATTTAAATATG-TTTTAT-AAA
*
25764043 TTTTA-AATAATTTAAATATGTTTTATTAA
1 TTTTATAATAATTTAAATATGTTTTATAAA
25764072 TTTTATAAT
1 TTTTATAAT
25764081 TTATTAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 8 0.24
30 15 0.44
31 11 0.32
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (30 bp):
TTTTATAATAATTTAAATATGTTTTATAAA
Found at i:25764096 original size:27 final size:27
Alignment explanation
Indices: 25764066--25764137 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
25764056 AAATATGTTT
25764066 TATTAATTTTATAATTTATTAGAATTG
1 TATTAATTTTATAATTTATTAGAATTG
*
25764093 TATTAATTTTATAATTTATTAGAATTT
1 TATTAATTTTATAATTTATTAGAATTG
* *
25764120 TTTTATTTTTTATAATTT
1 TATTA-ATTTTATAATTT
25764138 TATAACTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 30 0.73
28 11 0.27
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTAATTTTATAATTTATTAGAATTG
Found at i:25764120 original size:18 final size:18
Alignment explanation
Indices: 25764097--25764142 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
25764087 GAATTGTATT
25764097 AATTTTATAATTTATTAG
1 AATTTTATAATTTATTAG
* * * *
25764115 AATTTTTTTATTTTTTAT
1 AATTTTATAATTTATTAG
25764133 AATTTTATAA
1 AATTTTATAA
25764143 CTTGATATCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
AATTTTATAATTTATTAG
Found at i:25764137 original size:10 final size:10
Alignment explanation
Indices: 25764099--25764223 Score: 56
Period size: 10 Copynumber: 13.3 Consensus size: 10
25764089 ATTGTATTAA
25764099 TTTTATAATT
1 TTTTATAATT
* *
25764109 TATTAGAATT
1 TTTTATAATT
25764119 TTTT-T-ATT
1 TTTTATAATT
25764127 TTTTATAA--
1 TTTTATAATT
*
25764135 TTTTATAACT
1 TTTTATAATT
**
25764145 TGATATCAA-T
1 TTTTAT-AATT
25764155 TTTTATATATT
1 TTTTATA-ATT
*
25764166 TTTTA-AATA
1 TTTTATAATT
*
25764175 TTTAATAA-T
1 TTTTATAATT
*
25764184 TTGTAT-A-T
1 TTTTATAATT
25764192 TTTTA-AATAT
1 TTTTATAAT-T
*
25764202 TTTTATGATT
1 TTTTATAATT
*
25764212 TTTAAT-ATT
1 TTTTATAATT
25764221 TTT
1 TTT
25764224 ATAGGAAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 25
0.68 0.12 0.20
Matches are distributed among these distances:
8 22 0.25
9 18 0.21
10 37 0.43
11 10 0.11
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:25764194 original size:37 final size:38
Alignment explanation
Indices: 25764096--25764213 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 38
25764086 AGAATTGTAT
* *
25764096 TAATTTTATAA-TTTATTAGAATTTTT-T-TATTTTTTA
1 TAATTTTATAACTTGA-TATAATTTTTATATATTTTTTA
25764132 TAATTTTATAACTTGATATCAATTTTTATATATTTTTTA
1 TAATTTTATAACTTGATAT-AATTTTTATATATTTTTTA
* *
25764171 -AATATTTAATAATTTG-TAT-ATTTTTAAATA-TTTTTA
1 TAAT-TTT-ATAACTTGATATAATTTTTATATATTTTTTA
*
25764207 TGATTTT
1 TAATTTT
25764214 TAATATTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
36 22 0.31
37 22 0.31
38 4 0.06
39 15 0.21
40 7 0.10
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (38 bp):
TAATTTTATAACTTGATATAATTTTTATATATTTTTTA
Found at i:25764203 original size:18 final size:17
Alignment explanation
Indices: 25764153--25764226 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 17
25764143 CTTGATATCA
*
25764153 ATTTTTATATATTTTTTAA
1 ATTTTTA-ATA-TTTTTAT
* *
25764172 ATATTTAATAATTTGTAT
1 ATTTTTAAT-ATTTTTAT
25764190 ATTTTTAAATATTTTTAT
1 ATTTTT-AATATTTTTAT
25764208 GATTTTTAATATTTTTAT
1 -ATTTTTAATATTTTTAT
25764226 A
1 A
25764227 GGAAAAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
17 1 0.02
18 30 0.64
19 16 0.34
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTTTTAATATTTTTAT
Found at i:25766336 original size:28 final size:27
Alignment explanation
Indices: 25766305--25766360 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
25766295 TTTTTCCTTC
*
25766305 ACATTACTTATCTTATACTTTTATATAT
1 ACATTACTTATCTTAT-CTTATATATAT
* *
25766333 ACATTATTTATTTTATCTTATATATAT
1 ACATTACTTATCTTATCTTATATATAT
25766360 A
1 A
25766361 TATATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (27 bp):
ACATTACTTATCTTATCTTATATATAT
Found at i:25769759 original size:14 final size:15
Alignment explanation
Indices: 25769740--25769774 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
25769730 GGGCCGAATG
25769740 TAATTTTATCTTTA-
1 TAATTTTATCTTTAC
25769754 TAATTTTATCTTTAC
1 TAATTTTATCTTTAC
25769769 TAATTT
1 TAATTT
25769775 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
TAATTTTATCTTTAC
Found at i:25781291 original size:14 final size:14
Alignment explanation
Indices: 25781268--25781297 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25781258 TCATGCGCAA
25781268 TTATTAGAGATGAT
1 TTATTAGAGATGAT
*
25781282 TTATTTGAGATGAT
1 TTATTAGAGATGAT
25781296 TT
1 TT
25781298 TAATTTGGAA
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:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
TTATTAGAGATGAT
Found at i:25802460 original size:17 final size:17
Alignment explanation
Indices: 25802421--25802466 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
25802411 ACTCCCCTTA
25802421 TTTACTTTCCCTC-AAACT
1 TTTA-TTTCCC-CAAAACT
25802439 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
25802456 TTTATTTCCCC
1 TTTATTTCCCC
25802467 CCCTAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 5 0.20
18 10 0.40
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:25806891 original size:21 final size:21
Alignment explanation
Indices: 25806865--25806916 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
25806855 ATGGCCTTTT
25806865 ACTACCTTAATTTTTGGGTAA
1 ACTACCTTAATTTTTGGGTAA
25806886 ACTACCTTAATTTTTGGGTAA
1 ACTACCTTAATTTTTGGGTAA
*
25806907 ACTACATTAA
1 ACTACCTTAA
25806917 AATTATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
ACTACCTTAATTTTTGGGTAA
Found at i:25809954 original size:31 final size:31
Alignment explanation
Indices: 25809913--25809973 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
25809903 TTAATATCCC
25809913 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAACTTTTGAATAGTTT
*
25809944 AGTGATTTAAATAAAAACTTTTGAATAGTT
1 AGTGACTTAAATAAAAACTTTTGAATAGTT
25809974 CAATGACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTT
Found at i:25814394 original size:60 final size:60
Alignment explanation
Indices: 25814307--25814445 Score: 199
Period size: 60 Copynumber: 2.3 Consensus size: 60
25814297 TATGATTTTT
* *
25814307 TTTTCTTTTTTTGGTCACTTAAATATGAAAAGTTACAAGACGGTTACCCAACTATTAGTAA
1 TTTTC-TTTTTTGGTCACTTAAATATGAAAAGTTACAAAACGGTCACCCAACTATTAGTAA
* * *
25814368 TTTTCTTTTTTGGTCA-TATAACTATGAAAAGTTACAAAATGGTCACTCAACTATTAGTAA
1 TTTTCTTTTTTGGTCACT-TAAATATGAAAAGTTACAAAACGGTCACCCAACTATTAGTAA
*
25814428 ATTTCTTTTTTGGTCACT
1 TTTTCTTTTTTGGTCACT
25814446 CAACTTTATT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
59 1 0.01
60 63 0.90
61 6 0.09
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (60 bp):
TTTTCTTTTTTGGTCACTTAAATATGAAAAGTTACAAAACGGTCACCCAACTATTAGTAA
Found at i:25818701 original size:14 final size:15
Alignment explanation
Indices: 25818682--25818720 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
25818672 ATAATTTAAA
*
25818682 ATTTTAAAA-AATAT
1 ATTTTAAAATAAAAT
25818696 ATTTTAAAATAAAAT
1 ATTTTAAAATAAAAT
*
25818711 ATTATAAAAT
1 ATTTTAAAAT
25818721 GTATAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAAATAAAAT
Found at i:25818719 original size:37 final size:37
Alignment explanation
Indices: 25818670--25818741 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
25818660 TAAAATATAT
*
25818670 AAATAATTTAAAAT-TTTAAAAAATATATTTTAAAATA
1 AAATAATTTAAAATGTAT-AAAAATATATTTTAAAATA
*
25818707 AAAT-ATTATAAAATGTATAAATATATATTTTAAAA
1 AAATAATT-TAAAATGTATAAAAATATATTTTAAAA
25818742 ATTCAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 3 0.10
37 26 0.84
38 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (37 bp):
AAATAATTTAAAATGTATAAAAATATATTTTAAAATA
Found at i:25818797 original size:20 final size:19
Alignment explanation
Indices: 25818732--25818797 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
25818722 TATAAATATA
*
25818732 TATTTTAAAAATTCAAAAT
1 TATTTAAAAAATTCAAAAT
* * * *
25818751 AATATATAAAATTAAAAAT
1 TATTTAAAAAATTCAAAAT
25818770 T-TTGTAAAAAATTTCAAAAT
1 TATT-TAAAAAA-TTCAAAAT
25818790 TATTTAAA
1 TATTTAAA
25818798 TTTTAGAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
18 1 0.03
19 20 0.57
20 12 0.34
21 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
TATTTAAAAAATTCAAAAT
Found at i:25819280 original size:21 final size:22
Alignment explanation
Indices: 25819256--25819300 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
25819246 AGAAATATTG
*
25819256 TTAAAATGT-TTAA-ATTTTTTT
1 TTAAAAT-TATTAACATTATTTT
25819277 TTAAAATTATTAACATTATTTT
1 TTAAAATTATTAACATTATTTT
25819299 TT
1 TT
25819301 CTATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 11 0.52
22 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAAAATTATTAACATTATTTT
Found at i:25822126 original size:18 final size:18
Alignment explanation
Indices: 25822092--25822142 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
25822082 AGGGGTGTGC
25822092 AAAATTCGGTTAAAACCGAA
1 AAAATTCGGTT--AACCGAA
*
25822112 AAAATTCGGTTAACCGAC
1 AAAATTCGGTTAACCGAA
**
25822130 CGAATTCGGTTAA
1 AAAATTCGGTTAA
25822143 TCGGTCGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (18 bp):
AAAATTCGGTTAACCGAA
Found at i:25822371 original size:7 final size:7
Alignment explanation
Indices: 25822359--25822417 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
25822349 CCAAGAACAA
25822359 TTCATGT
1 TTCATGT
25822366 TTCATGT
1 TTCATGT
25822373 TTCATGT
1 TTCATGT
*
25822380 TTCACGAT
1 TTCATG-T
25822388 TTCATGT
1 TTCATGT
**
25822395 TTCATAC
1 TTCATGT
*
25822402 TGCATGT
1 TTCATGT
25822409 TTCATGT
1 TTCATGT
25822416 TT
1 TT
25822418 TATTCTGTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.53
Consensus pattern (7 bp):
TTCATGT
Found at i:25822708 original size:37 final size:37
Alignment explanation
Indices: 25822665--25822770 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 37
25822655 TGTGTTAAAG
*
25822665 ACTTATGTAATGTTTTTAATTATTTAGTGATTCAAAA
1 ACTTATGTAATGTTTTTAATTATATAGTGATTCAAAA
* * * *
25822702 ATTTATGTAATGTTTTTAGTTATGTAGTGATTCAAAG
1 ACTTATGTAATGTTTTTAATTATATAGTGATTCAAAA
*
25822739 ACTTATGTAATTTTTTTAATTATATAGTGATT
1 ACTTATGTAATGTTTTTAATTATATAGTGATT
25822771 TAAATCGGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (37 bp):
ACTTATGTAATGTTTTTAATTATATAGTGATTCAAAA
Found at i:25822789 original size:9 final size:9
Alignment explanation
Indices: 25822770--25822871 Score: 116
Period size: 9 Copynumber: 11.4 Consensus size: 9
25822760 ATATAGTGAT
*
25822770 TTAAATCGG
1 TTAAGTCGG
*
25822779 TTAAGTTGG
1 TTAAGTCGG
*
25822788 TTAAATCGG
1 TTAAGTCGG
* *
25822797 TTAAATTGG
1 TTAAGTCGG
25822806 TTAAGTCGG
1 TTAAGTCGG
25822815 TTAAGTCGG
1 TTAAGTCGG
*
25822824 TTAAATCGG
1 TTAAGTCGG
25822833 TTAAGTCGG
1 TTAAGTCGG
25822842 TTAA-TCGG
1 TTAAGTCGG
* *
25822850 TTAAATAGG
1 TTAAGTCGG
*
25822859 TTAAATCGG
1 TTAAGTCGG
25822868 TTAA
1 TTAA
25822872 TTTTTAACCA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
8 8 0.10
9 73 0.90
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.36
Consensus pattern (9 bp):
TTAAGTCGG
Found at i:25822793 original size:18 final size:18
Alignment explanation
Indices: 25822770--25822871 Score: 143
Period size: 18 Copynumber: 5.7 Consensus size: 18
25822760 ATATAGTGAT
*
25822770 TTAAATCGGTTAAGTTGG
1 TTAAATCGGTTAAGTCGG
* *
25822788 TTAAATCGGTTAAATTGG
1 TTAAATCGGTTAAGTCGG
*
25822806 TTAAGTCGGTTAAGTCGG
1 TTAAATCGGTTAAGTCGG
25822824 TTAAATCGGTTAAGTCGG
1 TTAAATCGGTTAAGTCGG
* *
25822842 TT-AATCGGTTAAATAGG
1 TTAAATCGGTTAAGTCGG
25822859 TTAAATCGGTTAA
1 TTAAATCGGTTAA
25822872 TTTTTAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
17 15 0.20
18 61 0.80
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.36
Consensus pattern (18 bp):
TTAAATCGGTTAAGTCGG
Found at i:25822800 original size:27 final size:27
Alignment explanation
Indices: 25822770--25822871 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
25822760 ATATAGTGAT
*
25822770 TTAAATCGGTTAAGTTGGTTAAATCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
* *
25822797 TTAAATTGGTTAAGTCGGTTAAGTCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
25822824 TTAAATCGGTTAAGTCGGTT-AATCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
* *
25822850 TTAAATAGGTTAAATCGGTTAA
1 TTAAATCGGTTAAGTCGGTTAA
25822872 TTTTTAACCA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.34
27 44 0.66
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.36
Consensus pattern (27 bp):
TTAAATCGGTTAAGTCGGTTAAATCGG
Found at i:25825373 original size:23 final size:24
Alignment explanation
Indices: 25825337--25825382 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
25825327 ATTTATTTTC
*
25825337 TTTTTTGTTTCTCTATTTGTTTGA
1 TTTTTTGTTACTCTATTTGTTTGA
*
25825361 TTTTTT-TTACTCTTTTTGTTTG
1 TTTTTTGTTACTCTATTTGTTTG
25825383 GAGTATATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.07, C:0.09, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTTTGTTACTCTATTTGTTTGA
Found at i:25827832 original size:14 final size:15
Alignment explanation
Indices: 25827810--25827886 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
25827800 CATCCAAACA
25827810 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
25827824 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
25827839 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
25827859 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
25827873 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
25827887 ACTGCCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:25827851 original size:20 final size:20
Alignment explanation
Indices: 25827826--25827865 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25827816 AATATTTTCC
*
25827826 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
25827846 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
25827866 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:25827871 original size:34 final size:35
Alignment explanation
Indices: 25827814--25827880 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
25827804 CAAACACCAG
*
25827814 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
25827849 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
25827881 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:25827887 original size:14 final size:14
Alignment explanation
Indices: 25827849--25827888 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25827839 ACAGAAAAGT
*
25827849 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
25827863 AAATCATTTTACGG
1 AAAACATTTTACAG
25827877 AAAACATTTTAC
1 AAAACATTTTAC
25827889 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:25828297 original size:23 final size:24
Alignment explanation
Indices: 25828261--25828311 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
25828251 AAATTATTTC
*
25828261 TATTTTTCATGTTATTATTATAAT
1 TATTTTTCATGTTACTATTATAAT
* *
25828285 TATTTTTTA-GTTACTATTATTAT
1 TATTTTTCATGTTACTATTATAAT
25828308 TATT
1 TATT
25828312 CCTATTGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TATTTTTCATGTTACTATTATAAT
Found at i:25829810 original size:21 final size:21
Alignment explanation
Indices: 25829786--25829836 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25829776 CATTATTTCT
* * *
25829786 AATCTCACTGTTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
25829807 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
25829828 AATCTCACC
1 AATCTCACC
25829837 TCCACCACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.27
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:25830851 original size:28 final size:28
Alignment explanation
Indices: 25830806--25830864 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
25830796 AAATCATTTT
25830806 AAAAATTACATAGTATCAATTT-AATTA
1 AAAAATTACATAGTATCAATTTAAATTA
*
25830833 AAAAATTACAAATA-TATCATTTTAAATTA
1 AAAAATTAC--ATAGTATCAATTTAAATTA
25830862 AAA
1 AAA
25830865 TAAAATACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 9 0.32
28 8 0.29
29 11 0.39
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (28 bp):
AAAAATTACATAGTATCAATTTAAATTA
Found at i:25831491 original size:16 final size:18
Alignment explanation
Indices: 25831465--25831497 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25831455 AATCTGATGC
25831465 ATTTGTGCTTA-AATTTT
1 ATTTGTGCTTACAATTTT
25831482 ATTT-TGCTTACAATTT
1 ATTTGTGCTTACAATTT
25831498 AATCTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (18 bp):
ATTTGTGCTTACAATTTT
Found at i:25832402 original size:28 final size:26
Alignment explanation
Indices: 25832341--25832406 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
25832331 GGGTTAGAAG
*
25832341 AAGAAAGAGAAGAAAAAGGAAATAGA
1 AAGAAAGAAAAGAAAAAGGAAATAGA
* * *
25832367 GAGAAAAGAAAAGAAAAGAGGATATTGAA
1 AAG-AAAGAAAAGAAAA-AGGAAATAG-A
25832396 AAGAAAGAAAA
1 AAGAAAGAAAA
25832407 TCAAAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 12 0.38
28 15 0.47
29 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (26 bp):
AAGAAAGAAAAGAAAAAGGAAATAGA
Found at i:25846997 original size:30 final size:31
Alignment explanation
Indices: 25846963--25847032 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
25846953 TTGCCCATGA
* *
25846963 GTAAATATTTAAAATTTGAAGGGTTAA-AGT
1 GTAAATATTTAAAAGTTGAAGGATTAATAGT
* *
25846993 GTAAATA-TAAAAAGTTGAAGGATTAATTGT
1 GTAAATATTTAAAAGTTGAAGGATTAATAGT
*
25847023 GCAAATATTT
1 GTAAATATTT
25847033 TAAGGGTGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 16 0.50
30 15 0.47
31 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (31 bp):
GTAAATATTTAAAAGTTGAAGGATTAATAGT
Found at i:25860315 original size:13 final size:13
Alignment explanation
Indices: 25860297--25860330 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25860287 ACTAGAGATA
*
25860297 ATTTTATCACTAT
1 ATTTTAACACTAT
*
25860310 ATTTTAACTCTAT
1 ATTTTAACACTAT
25860323 ATTTTAAC
1 ATTTTAAC
25860331 CAGAGATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTTAACACTAT
Found at i:25863323 original size:15 final size:15
Alignment explanation
Indices: 25863278--25863385 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
25863268 CCAATATCTC
*
25863278 GATACTCATATCTTT
1 GATACCCATATCTTT
** *
25863293 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25863308 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25863323 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
25863338 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25863353 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
25863368 GATACCCATATCTTT
1 GATACCCATATCTTT
25863383 GAT
1 GAT
25863386 TTTCCATAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 14 0.21
15 41 0.60
16 13 0.19
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25863392 original size:30 final size:30
Alignment explanation
Indices: 25863278--25863392 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
25863268 CCAATATCTC
* *
25863278 GATACTCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
25863308 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
25863338 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
*
25863368 GATACCCATATCTTTGATTTTCCAT
1 GATACCCATATCTTTGACTTTCCAT
25863393 AAATATGGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.46
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCATTATTT
Found at i:25868947 original size:10 final size:9
Alignment explanation
Indices: 25868918--25868944 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
25868908 TTTTACTATT
25868918 TATTTTTAA
1 TATTTTTAA
25868927 TATTTTTAA
1 TATTTTTAA
25868936 TATTTTTAA
1 TATTTTTAA
25868945 ATACAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:25871052 original size:30 final size:30
Alignment explanation
Indices: 25871006--25871129 Score: 196
Period size: 30 Copynumber: 4.1 Consensus size: 30
25870996 TTTTATTATG
*
25871006 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
25871037 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25871067 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
25871097 -CAATTATTTGATACTCATATCTTTGATTTT
1 CCAA-TATTTGATACCCATATCTTTGACTTT
25871127 CCA
1 CCA
25871130 TAAATATGGA
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
29 3 0.03
30 76 0.86
31 9 0.10
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:25871061 original size:15 final size:15
Alignment explanation
Indices: 25871016--25871123 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
25871006 CCAATATCTC
25871016 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25871031 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25871046 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25871061 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25871076 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
25871091 GACTTTCAAT-TATTT
1 GA-TACCCATATCTTT
*
25871106 GATACTCATATCTTT
1 GATACCCATATCTTT
25871121 GAT
1 GAT
25871124 TTTCCATAAA
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.65
16 12 0.18
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25875750 original size:30 final size:30
Alignment explanation
Indices: 25875704--25875797 Score: 127
Period size: 30 Copynumber: 3.1 Consensus size: 30
25875694 TTTTATTATG
*
25875704 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
25875735 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
25875765 -CAATTATTTAATACTCATATCTTTGATTTT
1 CCAA-TATTTGATACCCATATCTTTGACTTT
25875795 CCA
1 CCA
25875798 TAAATATGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.05
30 45 0.79
31 9 0.16
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:25875759 original size:15 final size:15
Alignment explanation
Indices: 25875714--25875760 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25875704 CCAATATCTC
25875714 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25875729 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25875744 GATACCCATATCTTT
1 GATACCCATATCTTT
25875759 GA
1 GA
25875761 CTTTCAATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25877830 original size:15 final size:16
Alignment explanation
Indices: 25877807--25877842 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
25877797 AGAGGAAGAA
*
25877807 AAAGGAAAAAG-ATAT
1 AAAGTAAAAAGAATAT
25877822 AAAGTAAAAAGAATAT
1 AAAGTAAAAAGAATAT
25877838 AAAGT
1 AAAGT
25877843 TTTAAAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAGTAAAAAGAATAT
Found at i:25878584 original size:48 final size:48
Alignment explanation
Indices: 25878495--25878588 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
25878485 TTCTTGGCTT
* * *
25878495 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
25878543 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
25878589 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:25881100 original size:48 final size:48
Alignment explanation
Indices: 25881011--25881104 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
25881001 TTCTTGGCTT
* * *
25881011 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
25881059 TAAAAACGCCTAAGTCAG-CTCAAC-TCACAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
25881105 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:25889107 original size:17 final size:16
Alignment explanation
Indices: 25889085--25889116 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
25889075 GCCTCCTCCT
25889085 CGCGCGTGCTGCGCCTA
1 CGCGCGTG-TGCGCCTA
25889102 CGCGCGTGTGCGCCT
1 CGCGCGTGTGCGCCT
25889117 TCGTCCACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.03, C:0.41, G:0.38, T:0.19
Consensus pattern (16 bp):
CGCGCGTGTGCGCCTA
Found at i:25889728 original size:17 final size:17
Alignment explanation
Indices: 25889706--25889748 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
25889696 TCGTTTTGAA
*
25889706 GACCCGATCTGAACGGT
1 GACCCGACCTGAACGGT
25889723 GACCCGACCTGAACGGT
1 GACCCGACCTGAACGGT
25889740 GACCCGACC
1 GACCCGACC
25889749 CGAGAAGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.37, G:0.28, T:0.12
Consensus pattern (17 bp):
GACCCGACCTGAACGGT
Found at i:25892729 original size:87 final size:87
Alignment explanation
Indices: 25892578--25892752 Score: 314
Period size: 87 Copynumber: 2.0 Consensus size: 87
25892568 GTTTTAGAAA
*
25892578 CAGAGAGTTCTGTATTCTGAATACTGTAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
1 CAGAGAGTTCTGTATTCTGAATACTGAAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
25892643 TAGTTTAGGCCCTTAATCATTT
66 TAGTTTAGGCCCTTAATCATTT
* * *
25892665 CAGAGAGTTCTGTATTCTGAATATTGAAGCTTGAAAATTTTTTTTACACCATGTTTATGTATTTA
1 CAGAGAGTTCTGTATTCTGAATACTGAAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
25892730 TAGTTTAGGCCCTTAATCATTT
66 TAGTTTAGGCCCTTAATCATTT
25892752 C
1 C
25892753 TTAACTACTT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (87 bp):
CAGAGAGTTCTGTATTCTGAATACTGAAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
TAGTTTAGGCCCTTAATCATTT
Found at i:25892795 original size:43 final size:43
Alignment explanation
Indices: 25892747--25892833 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
25892737 GGCCCTTAAT
25892747 CATTTCTTAA-CTACTTAACTATTATAACTAACAACCCAATAAC
1 CATTTCTTAATC-ACTTAACTATTATAACTAACAACCCAATAAC
* * * * *
25892790 CATTTCTTAATCATTTGATTATTATAATTAACAACTCAATAAC
1 CATTTCTTAATCACTTAACTATTATAACTAACAACCCAATAAC
25892833 C
1 C
25892834 CACTAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.01, T:0.37
Consensus pattern (43 bp):
CATTTCTTAATCACTTAACTATTATAACTAACAACCCAATAAC
Found at i:25901235 original size:25 final size:25
Alignment explanation
Indices: 25901201--25901252 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
25901191 TCATTTAGGA
25901201 AGTGTTTGGTTGAATAGAAAAGTGG
1 AGTGTTTGGTTGAATAGAAAAGTGG
25901226 AGTGTTTGGTTGAATAGAAAAGTGG
1 AGTGTTTGGTTGAATAGAAAAGTGG
25901251 AG
1 AG
25901253 GGATGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.31
Consensus pattern (25 bp):
AGTGTTTGGTTGAATAGAAAAGTGG
Found at i:25906298 original size:19 final size:21
Alignment explanation
Indices: 25906276--25906325 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
25906266 TTTTAGGAGG
25906276 TAATTTTTATTT-T-TTATTT
1 TAATTTTTATTTCTATTATTT
* *
25906295 TAATATTTTGTTTCTATTTTTT
1 TAAT-TTTTATTTCTATTATTT
25906317 TAATTTTTA
1 TAATTTTTA
25906326 ATCAAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 4 0.16
20 7 0.28
21 5 0.20
22 9 0.36
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
TAATTTTTATTTCTATTATTT
Found at i:25909038 original size:24 final size:24
Alignment explanation
Indices: 25909005--25909056 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
25908995 TTTAATCATA
*
25909005 AAAAATAAAAATTTC-TAAAAATTAT
1 AAAAATAAAAA-CTCATAAAAA-TAT
25909030 AAAAA-AAAAACTCATAAAAATAT
1 AAAAATAAAAACTCATAAAAATAT
25909053 AAAA
1 AAAA
25909057 CTCTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 11 0.44
25 5 0.20
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (24 bp):
AAAAATAAAAACTCATAAAAATAT
Found at i:25919797 original size:13 final size:13
Alignment explanation
Indices: 25919757--25919798 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
25919747 TTAAAACTTA
25919757 ATTCTAAAAGTAT
1 ATTCTAAAAGTAT
* *
25919770 ATTTTCAAAAATAT
1 ATTCT-AAAAGTAT
25919784 ATTCTAAAAGTAT
1 ATTCTAAAAGTAT
25919797 AT
1 AT
25919799 AAATTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (13 bp):
ATTCTAAAAGTAT
Found at i:25930754 original size:29 final size:30
Alignment explanation
Indices: 25930687--25930755 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
25930677 AAATATCGAT
* *
25930687 TTTATACATTAACTTTGTTTTCATATGTAA
1 TTTATACATGAACTTTGATTTCATATGTAA
*
25930717 TTTGATACATGAACTTTGATTT-A-GTGTAA
1 TTT-ATACATGAACTTTGATTTCATATGTAA
25930746 TTATATACAT
1 TT-TATACAT
25930756 AAAACTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 13 0.38
30 5 0.15
31 16 0.47
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTATACATGAACTTTGATTTCATATGTAA
Found at i:25931830 original size:31 final size:31
Alignment explanation
Indices: 25931757--25931839 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 31
25931747 TAAAAATTTA
*
25931757 ATCAAATTAAAATTTAATATATAAAATCGCAC
1 ATCAAATTAAAA-TTCATATATAAAATCGCAC
* * *
25931789 A--AAATCAAAATTCATATATAACATTGCAC
1 ATCAAATTAAAATTCATATATAAAATCGCAC
*
25931818 ATCAAATTAAAATTCATGTATA
1 ATCAAATTAAAATTCATATATA
25931840 GTTTAATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
32 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (31 bp):
ATCAAATTAAAATTCATATATAAAATCGCAC
Found at i:25937648 original size:39 final size:40
Alignment explanation
Indices: 25937605--25937772 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
25937595 CTCGTTCAAG
* * * *
25937605 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
25937644 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
25937684 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
25937724 GGCCTTCGGGACTTGACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
25937764 TGCCTTCGG
1 TGCCTTCGG
25937773 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 80 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:25937785 original size:40 final size:40
Alignment explanation
Indices: 25937642--25937825 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
25937632 TAACTCATAC
* *
25937642 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
25937682 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
25937722 AAGGCCTTCGGGACTTGACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
25937762 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
25937803 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25937826 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:25937785 original size:80 final size:79
Alignment explanation
Indices: 25937605--25937825 Score: 220
Period size: 80 Copynumber: 2.8 Consensus size: 79
25937595 CTCGTTCAAG
* * * * * * * *
25937605 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT-ACCCGGATAT
*
25937669 TAAAACTCGCACGAA
65 TAAAACTCGCACAAA
*
25937684 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTGACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTT-ACCCGGA
25937746 -ATTAATAACTCGCACAAA
62 TATTAA-AACTCGCACAAA
**
25937764 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTA-CCCGGA
25937826 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 35 0.29
80 70 0.59
81 10 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTACCCGGATATT
AAAACTCGCACAAA
Found at i:25943557 original size:6 final size:6
Alignment explanation
Indices: 25943546--25943570 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25943536 TACTTTACAA
25943546 CGATGG CGATGG CGATGG CGATGG C
1 CGATGG CGATGG CGATGG CGATGG C
25943571 CAGCAAGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (6 bp):
CGATGG
Found at i:25969794 original size:23 final size:23
Alignment explanation
Indices: 25969768--25969819 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
25969758 TAATTTTTAA
* *
25969768 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
25969791 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
25969814 ATTTAG
1 ATTTAG
25969820 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:25979455 original size:13 final size:13
Alignment explanation
Indices: 25979437--25979479 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
25979427 AAATTTAAAT
25979437 TATTTAGTGATAA
1 TATTTAGTGATAA
*
25979450 TATTTA--GA-AT
1 TATTTAGTGATAA
25979460 TATTTAGTGATAA
1 TATTTAGTGATAA
25979473 TATTTAG
1 TATTTAG
25979480 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:25979460 original size:23 final size:23
Alignment explanation
Indices: 25979429--25979479 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
25979419 GATTTGTAAA
25979429 ATTTA-AATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
25979451 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
25979474 ATTTAG
1 ATTTAG
25979480 GAAAAATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:25980400 original size:30 final size:31
Alignment explanation
Indices: 25980335--25980400 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
25980325 ATTTTCTTAA
25980335 ATTTA-TTTATTTTTCGCATTTTTGAATCTGT
1 ATTTATTTTATTTTTCGCATTTTT-AATCTGT
* * *
25980366 -TTTATTTTATTTTTTGTATTTTT-TTCTGT
1 ATTTATTTTATTTTTCGCATTTTTAATCTGT
25980395 ATTTAT
1 ATTTAT
25980401 CTTAACCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 5 0.17
30 9 0.30
31 16 0.53
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.70
Consensus pattern (31 bp):
ATTTATTTTATTTTTCGCATTTTTAATCTGT
Found at i:25981211 original size:14 final size:14
Alignment explanation
Indices: 25981192--25981221 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25981182 AACCCAATCT
*
25981192 ATATTTAAAATTAC
1 ATATTTAAAAGTAC
25981206 ATATTTAAAAGTAC
1 ATATTTAAAAGTAC
25981220 AT
1 AT
25981222 CATTCTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (14 bp):
ATATTTAAAAGTAC
Found at i:25983794 original size:16 final size:16
Alignment explanation
Indices: 25983749--25983795 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
25983739 AAAGTTCATT
25983749 TTAAAATTATTTTTTG
1 TTAAAATTATTTTTTG
* * *
25983765 TTCAAATAATTTTTTT
1 TTAAAATTATTTTTTG
25983781 TATAAAATTATTTTT
1 T-TAAAATTATTTTT
25983796 CAAAACATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TTAAAATTATTTTTTG
Found at i:25983837 original size:13 final size:13
Alignment explanation
Indices: 25983819--25983850 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
25983809 GAAATGAAAT
25983819 AAAATAATTTCAA
1 AAAATAATTTCAA
25983832 AAAAT-ATTTCAA
1 AAAATAATTTCAA
25983844 AAAATAA
1 AAAATAA
25983851 ATGAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATAATTTCAA
Found at i:25989134 original size:21 final size:21
Alignment explanation
Indices: 25989108--25989148 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25989098 ATCTGCTCAA
* *
25989108 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
25989129 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
25989149 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:25994141 original size:20 final size:20
Alignment explanation
Indices: 25994103--25994142 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25994093 TATTTTTTCA
* **
25994103 AATCGAGTCGAGTCGAATTG
1 AATCGAATCGAGTAAAATTG
25994123 AATCGAATCGAGTAAAATTG
1 AATCGAATCGAGTAAAATTG
25994143 TTTAAGTTAA
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:0.12, G:0.25, T:0.25
Consensus pattern (20 bp):
AATCGAATCGAGTAAAATTG
Found at i:25997208 original size:8 final size:8
Alignment explanation
Indices: 25997187--25997261 Score: 62
Period size: 8 Copynumber: 8.9 Consensus size: 8
25997177 TTAAATTTTA
25997187 ATAAAAA-
1 ATAAAAAT
*
25997194 ATTAAAAT
1 ATAAAAAT
25997202 ATAAAAATT
1 ATAAAAA-T
*
25997211 AGAAAAAT
1 ATAAAAAT
25997219 ATAAAAATT
1 ATAAAAA-T
*
25997228 GTAAAAAATT
1 AT-AAAAA-T
25997238 ATAAAATAT
1 ATAAAA-AT
*
25997247 ATAGAAAT
1 ATAAAAAT
25997255 ATAAAAA
1 ATAAAAA
25997262 ATTATAAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
7 6 0.11
8 21 0.38
9 19 0.35
10 9 0.16
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (8 bp):
ATAAAAAT
Found at i:25997219 original size:17 final size:17
Alignment explanation
Indices: 25997197--25997265 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 17
25997187 ATAAAAAATT
25997197 AAAATATAAAAATTAGA
1 AAAATATAAAAATTAGA
25997214 AAAATATAAAAATT-GTAA
1 AAAATATAAAAATTAG--A
25997232 AAAATTATAAAATATATAGA
1 AAAA-TATAAAA-AT-TAGA
*
25997252 AATATA-AAAAATTA
1 AAAATATAAAAATTA
25997266 TAAATTTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
16 3 0.07
17 16 0.36
18 9 0.20
19 9 0.20
20 6 0.13
21 1 0.02
22 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AAAATATAAAAATTAGA
Found at i:25997234 original size:10 final size:10
Alignment explanation
Indices: 25997204--25997269 Score: 54
Period size: 10 Copynumber: 7.2 Consensus size: 10
25997194 ATTAAAATAT
*
25997204 AAAAATTA-G
1 AAAAATTATA
25997213 AAAAA-TAT-
1 AAAAATTATA
*
25997221 AAAAATTGTA
1 AAAAATTATA
25997231 AAAAATTATA
1 AAAAATTATA
*
25997241 AAATA-TAT-
1 AAAAATTATA
*
25997249 AGAAA-TATA
1 AAAAATTATA
25997258 AAAAATTATA
1 AAAAATTATA
25997268 AA
1 AA
25997270 TTTTATAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 13 0.28
9 14 0.30
10 19 0.41
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:25997234 original size:27 final size:27
Alignment explanation
Indices: 25997197--25997265 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
25997187 ATAAAAAATT
25997197 AAAATAT-AAAAATTAGAAAA-ATATA
1 AAAATATAAAAAATTAGAAAATATATA
* *
25997222 AAAATTGTAAAAAATTATAAAATATATA
1 AAAA-TATAAAAAATTAGAAAATATATA
*
25997250 GAAATATAAAAAATTA
1 AAAATATAAAAAATTA
25997266 TAAATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.11
26 2 0.05
27 23 0.62
28 8 0.22
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (27 bp):
AAAATATAAAAAATTAGAAAATATATA
Found at i:25999175 original size:108 final size:106
Alignment explanation
Indices: 25998986--25999185 Score: 269
Period size: 108 Copynumber: 1.9 Consensus size: 106
25998976 TGGATTAAGA
* * * * *
25998986 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCTAGTACATTAGAGCACATTT
1 TTTAAAAGGATATTTGACTATTTGATCAAACGAGAAAACGAAACCTAGCACATTAGAGCACATTT
*
25999051 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
* *
25999092 TTTAAAAGGATATTTGACTATTTGAT-AGAACGAGAAAAAACGAAATCC-AGCACATTAGGGCAT
1 TTTAAAAGGATATTTGACTATTTGATCA-AACGAG--AAAACGAAA-CCTAGCACATTAGAGCAC
*
25999155 GTTTTCTCGAATCTCCAAACGCAAAACATTG
62 ATTTTCTCGAATCTCCAAACGCAAAACATTG
25999186 GCTTTATTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
105 1 0.01
106 29 0.36
108 49 0.60
109 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACTATTTGATCAAACGAGAAAACGAAACCTAGCACATTAGAGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
Found at i:26000009 original size:18 final size:18
Alignment explanation
Indices: 25999986--26000022 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25999976 TAATTAATGG
25999986 TAATAATAAAAATAAAAA
1 TAATAATAAAAATAAAAA
* *
26000004 TAATAATGATAATAAAAA
1 TAATAATAAAAATAAAAA
26000022 T
1 T
26000023 GATCATAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (18 bp):
TAATAATAAAAATAAAAA
Found at i:26000017 original size:12 final size:12
Alignment explanation
Indices: 25999988--26000030 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
25999978 ATTAATGGTA
*
25999988 ATAATAAAAATA
1 ATAATAAAAATG
* *
26000000 AAAATAATAATG
1 ATAATAAAAATG
26000012 ATAATAAAAATG
1 ATAATAAAAATG
*
26000024 ATCATAA
1 ATAATAA
26000031 CACTAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (12 bp):
ATAATAAAAATG
Found at i:26001572 original size:7 final size:7
Alignment explanation
Indices: 26001556--26001588 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
26001546 AAAGTATTTT
*
26001556 AAAATTA
1 AAAATAA
26001563 AAAATAA
1 AAAATAA
26001570 AAAAT-A
1 AAAATAA
26001576 AAAATAA
1 AAAATAA
26001583 AAAATA
1 AAAATA
26001589 TATATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:26001577 original size:13 final size:13
Alignment explanation
Indices: 26001556--26001588 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
26001546 AAAGTATTTT
*
26001556 AAAATTAAAAATA
1 AAAAATAAAAATA
26001569 AAAAATAAAAATA
1 AAAAATAAAAATA
26001582 AAAAATA
1 AAAAATA
26001589 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:26001845 original size:34 final size:34
Alignment explanation
Indices: 26001802--26001875 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
26001792 ATTCATAAAT
26001802 AATTCATTGAAGTCTAAAATTTTCAAACAAAAAG
1 AATTCATTGAAGTCTAAAATTTTCAAACAAAAAG
26001836 AATTCATTGAAGTCTAAAATTTTCAAACAAAAAG
1 AATTCATTGAAGTCTAAAATTTTCAAACAAAAAG
26001870 AATTCA
1 AATTCA
26001876 ATTTGATCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (34 bp):
AATTCATTGAAGTCTAAAATTTTCAAACAAAAAG
Found at i:26004849 original size:18 final size:17
Alignment explanation
Indices: 26004806--26004861 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
26004796 TAATGGAGAT
*
26004806 ATTAATACAAATGAATACA
1 ATTAATA-AAATAAATA-A
* *
26004825 TTTAATAAAGATAATTAA
1 ATTAATAAA-ATAAATAA
26004843 ATTAATAAAATAAATAA
1 ATTAATAAAATAAATAA
26004860 AT
1 AT
26004862 AAATTATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 9 0.29
18 11 0.35
19 11 0.35
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (17 bp):
ATTAATAAAATAAATAA
Found at i:26009423 original size:46 final size:46
Alignment explanation
Indices: 26009364--26010131 Score: 613
Period size: 46 Copynumber: 16.4 Consensus size: 46
26009354 AATATCCTTC
* * *
26009364 AGAGA-GGTTTGAAAATATCTCTAGGGAAAGT-TGAAAGCATCCTCG
1 AGAGAGGGTTTGAAAATATCTCAAGGGAGA-TCTAAAAGCATCCTCG
* ** *
26009409 AGATAGGGTTTGAAAATATCTCAAGAAAGATCTAAAAGCATCCTCA
1 AGAGAGGGTTTGAAAATATCTCAAGGGAGATCTAAAAGCATCCTCG
* * * *
26009455 AGAGAGGGTTTGAAAATATATCTCATA-GGAGATTTGAAAGCATCATGG
1 AGAGAGGGTTTG-AAA-ATATCTCA-AGGGAGATCTAAAAGCATCCTCG
* * **
26009503 AGATAGGGTTTGAAAATATCTCAAGCGAGATCTAAAAGCATCCTTA
1 AGAGAGGGTTTGAAAATATCTCAAGGGAGATCTAAAAGCATCCTCG
* * *
26009549 AGAGAGGGCTTCAAAATAAATCTCATA-GGAGATCTGAAAGCATCCTCG
1 AGAGAGGGTTTGAAAAT--ATCTCA-AGGGAGATCTAAAAGCATCCTCG
* * *
26009597 AGATAGGATTTGAAAATATCTCAAGAGAGATCTAAAAGCATCCTCG
1 AGAGAGGGTTTGAAAATATCTCAAGGGAGATCTAAAAGCATCCTCG
** * * * **
26009643 AGAGA-GGACTCAAAAGTATCTCAAGGGAGATCTACAAGTATCCTTA
1 AGAGAGGGTTTGAAAA-TATCTCAAGGGAGATCTAAAAGCATCCTCG
* * * * *
26009689 AGAGAGCGTTTGAAGATATATCTCAAGGGAGATATGAAAGCTTCCTTG
1 AGAGAGGGTTTGAA-A-ATATCTCAAGGGAGATCTAAAAGCATCCTCG
* *
26009737 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATAAAAGCA-CCATTG
1 AGAGAGGGTTTG-AAA-ATATCTCAAGGGAGATCTAAAAGCATCC-TCG
* * *
26009785 AG-GTAGGATTTGAAAATATCTCAAGGGAGATCTAAAAGTATCCTCA
1 AGAG-AGGGTTTGAAAATATCTCAAGGGAGATCTAAAAGCATCCTCG
* * * * *
26009831 AGAGAGGGTTTGAAAATATATTTCATGAGAGATCTGAAAGCATCTTCG
1 AGAGAGGGTTTG-AAA-ATATCTCAAGGGAGATCTAAAAGCATCCTCG
* * * * * *
26009879 AGAG-GGGACTCGAAAGTATCTCAAGGGAGACCTACAAA-TATCCTCA
1 AGAGAGGG-TTTGAAAATATCTCAAGGGAGATCTA-AAAGCATCCTCG
* * * * *
26009925 AGTGAGGGTTTGAAAATATATCTCAAGAGAGATATGAAAGCATTCTCG
1 AGAGAGGGTTTG-AAA-ATATCTCAAGGGAGATCTAAAAGCATCCTCG
* * * * * * **
26009973 AGGGAAGATTT-AAAAGCATCTCAAGGGAGATCTAAAAGTATACTTA
1 AGAGAGGGTTTGAAAA-TATCTCAAGGGAGATCTAAAAGCATCCTCG
* *
26010019 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCG
1 AGAGAGGGTTTG-AAA-ATATCTCAAGGGAGATCTAAAAGCATCCTCG
* * * ** *
26010067 AGAGA-GGATTCAAAAGTATCTCAAGAGAGATCTAAAAGTGTCCTCA
1 AGAGAGGGTTTGAAAA-TATCTCAAGGGAGATCTAAAAGCATCCTCG
26010113 AGAGAGGGTTTGAAAATAT
1 AGAGAGGGTTTGAAAATAT
26010132 ATCTAAAAGC
Statistics
Matches: 566, Mismatches: 124, Indels: 65
0.75 0.16 0.09
Matches are distributed among these distances:
45 15 0.03
46 263 0.46
47 52 0.09
48 230 0.41
49 6 0.01
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (46 bp):
AGAGAGGGTTTGAAAATATCTCAAGGGAGATCTAAAAGCATCCTCG
Found at i:26009508 original size:94 final size:94
Alignment explanation
Indices: 26009364--26010135 Score: 771
Period size: 94 Copynumber: 8.2 Consensus size: 94
26009354 AATATCCTTC
* *
26009364 AGAGA-GGTTTG-AAA-ATATCTCTAGGGAAAGT-TGAAAGCATCCTCGAGATAGGGTTTGAAAA
1 AGAGAGGGTTTGAAAATATATCTCAAGGGAGA-TATGAAAGCATCCTCGAGATAGGGTTTGAAAA
**
26009425 TATCTCAAGAAAGATCTAAAAGCATCCTCA
65 TATCTCAAGGGAGATCTAAAAGCATCCTCA
* * *
26009455 AGAGAGGGTTTGAAAATATATCTCATA-GGAGATTTGAAAGCATCATGGAGATAGGGTTTGAAAA
1 AGAGAGGGTTTGAAAATATATCTCA-AGGGAGATATGAAAGCATCCTCGAGATAGGGTTTGAAAA
* *
26009519 TATCTCAAGCGAGATCTAAAAGCATCCTTA
65 TATCTCAAGGGAGATCTAAAAGCATCCTCA
* * * * *
26009549 AGAGAGGGCTTCAAAATAAATCTCATA-GGAGATCTGAAAGCATCCTCGAGATAGGATTTGAAAA
1 AGAGAGGGTTTGAAAATATATCTCA-AGGGAGATATGAAAGCATCCTCGAGATAGGGTTTGAAAA
* *
26009613 TATCTCAAGAGAGATCTAAAAGCATCCTCG
65 TATCTCAAGGGAGATCTAAAAGCATCCTCA
** * * * * ** * *
26009643 AGAGA-GGACTCAAAA-GTATCTCAAGGGAGATCT-ACAAGTATCCTTAAGAGAGCGTTTGAAGA
1 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGA-AAGCATCCTCGAGATAGGGTTTGAA-A
* * * **
26009705 TATATCTCAAGGGAGATATGAAAGCTTCCTTG
64 -ATATCTCAAGGGAGATCTAAAAGCATCCTCA
* * * *
26009737 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATAAAAGCA-CCATTGAGGTAGGATTTGAAAA
1 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCC-TCGAGATAGGGTTTGAAAA
*
26009801 TATCTCAAGGGAGATCTAAAAGTATCCTCA
65 TATCTCAAGGGAGATCTAAAAGCATCCTCA
* * * * * * * * *
26009831 AGAGAGGGTTTGAAAATATATTTCATGAGAGATCTGAAAGCATCTTCGAGA-GGGGACTCGAAAG
1 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCGAGATAGGG-TTTGAAAA
* *
26009895 TATCTCAAGGGAGACCTACAAA-TATCCTCA
65 TATCTCAAGGGAGATCTA-AAAGCATCCTCA
* * * ** * *
26009925 AGTGAGGGTTTGAAAATATATCTCAAGAGAGATATGAAAGCATTCTCGAGGGAAGATTT-AAAAG
1 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCGAGATAGGGTTTGAAAA-
* * * *
26009989 CATCTCAAGGGAGATCTAAAAGTATACTTA
65 TATCTCAAGGGAGATCTAAAAGCATCCTCA
* * *
26010019 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCGAGAGA-GGATTCAAAAG
1 AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCGAGATAGGGTTTGAAAA-
* **
26010083 TATCTCAAGAGAGATCTAAAAGTGTCCTCA
65 TATCTCAAGGGAGATCTAAAAGCATCCTCA
26010113 AGAGAGGGTTTGAAAATATATCT
1 AGAGAGGGTTTGAAAATATATCT
26010136 AAAAGCATCT
Statistics
Matches: 570, Mismatches: 91, Indels: 37
0.82 0.13 0.05
Matches are distributed among these distances:
91 7 0.01
92 39 0.07
93 24 0.04
94 451 0.79
95 16 0.03
96 32 0.06
97 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (94 bp):
AGAGAGGGTTTGAAAATATATCTCAAGGGAGATATGAAAGCATCCTCGAGATAGGGTTTGAAAAT
ATCTCAAGGGAGATCTAAAAGCATCCTCA
Found at i:26010093 original size:21 final size:23
Alignment explanation
Indices: 26009946--26010118 Score: 84
Period size: 23 Copynumber: 7.4 Consensus size: 23
26009936 GAAAATATAT
* * * *
26009946 CTCAAGAGAGATATGAAAGCATT
1 CTCAAGAGAGATCTAAAAGTATC
* * * *
26009969 CTCGAGGGAAGATTTAAAAGCAT-
1 CTCAAGAG-AGATCTAAAAGTATC
* *
26009992 CTCAAGGGAGATCTAAAAGTATA
1 CTCAAGAGAGATCTAAAAGTATC
* * * *
26010015 CTTAAGAGAGGGTTTGAAAA-TATAT
1 CTCAAGAGA-GATCT-AAAAGTAT-C
* * * *
26010040 CTCAAGGGAGATATGAAAGCATC
1 CTCAAGAGAGATCTAAAAGTATC
*
26010063 CTCGAGAGAGGAT-TCAAAAGTAT-
1 CTCAAGAGA-GATCT-AAAAGTATC
*
26010086 CTCAAGAGAGATCTAAAAGTGTC
1 CTCAAGAGAGATCTAAAAGTATC
26010109 CTCAAGAGAG
1 CTCAAGAGAG
26010119 GGTTTGAAAA
Statistics
Matches: 115, Mismatches: 25, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
22 22 0.19
23 50 0.43
24 32 0.28
25 11 0.10
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (23 bp):
CTCAAGAGAGATCTAAAAGTATC
Found at i:26013500 original size:27 final size:22
Alignment explanation
Indices: 26013443--26013488 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
26013433 AAGCATTTTT
26013443 AATGATTAATTTAGTTAAATTA
1 AATGATTAATTTAGTTAAATTA
26013465 AATGATTAATTTAGTTAAATTA
1 AATGATTAATTTAGTTAAATTA
26013487 AA
1 AA
26013489 CATGATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
AATGATTAATTTAGTTAAATTA
Found at i:26014722 original size:16 final size:16
Alignment explanation
Indices: 26014701--26014732 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26014691 GTGATTATGC
26014701 ATGTCTTAAAAACATA
1 ATGTCTTAAAAACATA
26014717 ATGTCTTAAAAACATA
1 ATGTCTTAAAAACATA
26014733 CGTATACGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
ATGTCTTAAAAACATA
Found at i:26020312 original size:24 final size:24
Alignment explanation
Indices: 26020275--26020322 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26020265 TGCTTTCTGA
* *
26020275 TTAAGTGCTCTTTGAAGCTTCTCG
1 TTAAGTGCTATTTGAAGCTACTCG
* *
26020299 TTAAGTGTTATTTGGAGCTACTCG
1 TTAAGTGCTATTTGAAGCTACTCG
26020323 ATATAGGCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (24 bp):
TTAAGTGCTATTTGAAGCTACTCG
Done.