Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 42 of 113
Found at i:11840005 original size:11 final size:11
Alignment explanation
Indices: 11839946--11840007 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 11
11839936 TTTTTTCATT
11839946 TCTTTCTTTTTC
1 TCTTT-TTTTTC
*
11839958 TTTTTTTTTTC
1 TCTTTTTTTTC
11839969 T-TTTTTTTTC
1 TCTTTTTTTTC
*
11839979 -CTTTTTTCATC
1 TCTTTTTT-TTC
11839990 ATCTTTTTTTTC
1 -TCTTTTTTTTC
11840002 TCTTTT
1 TCTTTT
11840008 CTCATTTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
10 15 0.35
11 15 0.35
12 6 0.14
13 7 0.16
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTTTTTC
Found at i:11843986 original size:57 final size:57
Alignment explanation
Indices: 11843923--11844270 Score: 479
Period size: 57 Copynumber: 6.0 Consensus size: 57
11843913 CTTGTGTGGA
*
11843923 GAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTAGAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAG
**
11843980 GAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTGTTTTTGAAACTTTGATTTCCAAG
1 GAAAATTGATACTTTCAACTTTTCCCT-AAAAATATT-TTTTTGAAA-TTT-ATTTTTAAG
*
11844040 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAG
*
11844097 GAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTG-AAATTTATTTTTAAG
* **
11844154 GAAAATTGATACTTTCAACTTTT-CTTCAAAAACCCTTTTTTTGAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTGAAATTTATTTTTAAG
*
11844212 AAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTTTTA
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTT-GAAA-TTT-ATTTTTA
11844271 TTTAAAGAAA
Statistics
Matches: 260, Mismatches: 16, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
55 2 0.01
56 11 0.04
57 111 0.43
58 60 0.23
59 24 0.09
60 42 0.16
61 10 0.04
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAG
Found at i:11844071 original size:117 final size:115
Alignment explanation
Indices: 11843923--11844267 Score: 491
Period size: 117 Copynumber: 3.0 Consensus size: 115
11843913 CTTGTGTGGA
11843923 GAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATT
1 GAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATT
*
11843987 GATACTTTCAACTTTTCCTCAAAAATATTGTTTTTGAAACTTTGATTTCCAAG
65 GATACTTTCAACTTTTCC-CAAAAATATT-TTTTTGAAAATTTGATTTCCAAG
*
11844040 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATTG
**
11844105 ATACTTTCAACTTTTCCCAAAAA-ATATTTTTTGAAAATTT-ATTTTTAAG
66 ATACTTTCAACTTTTCCCAAAAATAT-TTTTTTGAAAATTTGATTTCCAAG
* ** * *
11844154 GAAAATTGATACTTTCAACTTTT-CTTCAAAAACCCTTTTTTTGAAATTTATTTTTAAGAAAAAT
1 GAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTAGAAATTTATTTTTAAGGAAAAT
*
11844218 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTT
64 TGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTT-GAAAATTTGATTT
11844268 TTATTTAAAG
Statistics
Matches: 209, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
113 2 0.01
114 35 0.17
115 61 0.29
116 19 0.09
117 80 0.38
118 8 0.04
119 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (115 bp):
GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTGATTTCCAAG
Found at i:11844254 original size:174 final size:176
Alignment explanation
Indices: 11843923--11844270 Score: 548
Period size: 174 Copynumber: 2.0 Consensus size: 176
11843913 CTTGTGTGGA
11843923 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATTG
1 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATTG
* *
11843988 ATACTTTCAACTTTTCCTCAAAAATATTGTTTTTGAAACTTTGATTTCCAAGGAAAATTGATACT
66 ATACTTTCAACTTTTCCTCAAAAACATTGTTTTTGAAACTTTGATTTCCAAGAAAAATTGATACT
11844053 TTCAACTTTTCCCTAAAAATATTTTTTGGAAA-TTT-ATTTTTAAG
131 TTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTTAAG
11844097 GAAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTT-GAAAATTTATTTTTAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTAG-AAATTTATTTTTAAGGAAAAT
* * **
11844160 TGATACTTTCAACTTTTCTTCAAAAACCCTT-TTTTTGAAA-TTT-ATTTTTAAGAAAAATTGAT
64 TGATACTTTCAACTTTTCCTCAAAAA-CATTGTTTTTGAAACTTTGATTTCCAAGAAAAATTGAT
11844222 ACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTTTTA
128 ACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTTGATTTTTA
11844271 TTTAAAGAAA
Statistics
Matches: 161, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
172 40 0.25
173 11 0.07
174 98 0.61
175 5 0.03
176 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (176 bp):
GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAACATTGTTTTTGAAACTTTGATTTCCAAGAAAAATTGATACT
TTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTTAAG
Found at i:11844298 original size:17 final size:16
Alignment explanation
Indices: 11844273--11844319 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
11844263 GATTTTTATT
*
11844273 TAAAGAAAATAGAATAA
1 TAAAAAAAATA-AATAA
11844290 TAAAAAAAATAAATAA
1 TAAAAAAAATAAATAA
*
11844306 -AAATAAAA-AAATAA
1 TAAAAAAAATAAATAA
11844320 AGAAAAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 7 0.25
16 5 0.18
17 10 0.36
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (16 bp):
TAAAAAAAATAAATAA
Found at i:11844311 original size:6 final size:6
Alignment explanation
Indices: 11844278--11844348 Score: 56
Period size: 6 Copynumber: 11.5 Consensus size: 6
11844268 TTATTTAAAG
* * *
11844278 AAAATA GAATAATA AAAAAA ATAAATA AAAATA AAAA-A ATAAAGA AAAGT-
1 AAAATA -AA-AATA AAAATA A-AAATA AAAATA AAAATA A-AAATA AAAATA
*
11844328 AAAACA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
11844349 TTAAGATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
5 5 0.10
6 32 0.62
7 11 0.21
8 4 0.08
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:11844315 original size:18 final size:18
Alignment explanation
Indices: 11844292--11844430 Score: 88
Period size: 18 Copynumber: 7.4 Consensus size: 18
11844282 TAGAATAATA
11844292 AAAAAAATAAATAAAAAT
1 AAAAAAATAAATAAAAAT
* *
11844310 AAAAAAATAAAGAAAAGT
1 AAAAAAATAAATAAAAAT
*
11844328 AAAACAA-AAATAAAAAT
1 AAAAAAATAAATAAAAAT
11844345 AAAATTAAGATAAA-AAGAATATT
1 AAAA--AA-ATAAATAA-AA-A-T
* *
11844368 AAATAAACCTAATCTAATAAAT
1 AAA-AAA-ATAA-ATAA-AAAT
*
11844390 AAAAAAA-AAA-ACAAAT
1 AAAAAAATAAATAAAAAT
* *
11844406 AAACAAATAAATGAAAAT
1 AAAAAAATAAATAAAAAT
11844424 AAAAAAA
1 AAAAAAA
11844431 ATTCAAAAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
16 10 0.11
17 16 0.17
18 32 0.35
19 3 0.03
20 3 0.03
21 8 0.09
22 10 0.11
23 5 0.05
24 5 0.05
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAAAAATAAATAAAAAT
Found at i:11844318 original size:27 final size:29
Alignment explanation
Indices: 11844278--11844343 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
11844268 TTATTTAAAG
* * *
11844278 AAAATAGAATAATAAA-AAAAATAAA-TA
1 AAAATAAAAAAATAAAGAAAAATAAAACA
*
11844305 AAAATAAAAAAATAAAGAAAAGTAAAACA
1 AAAATAAAAAAATAAAGAAAAATAAAACA
11844334 AAAATAAAAA
1 AAAATAAAAA
11844344 TAAAATTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 14 0.42
28 8 0.24
29 11 0.33
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (29 bp):
AAAATAAAAAAATAAAGAAAAATAAAACA
Found at i:11844325 original size:11 final size:10
Alignment explanation
Indices: 11844291--11844349 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
11844281 ATAGAATAAT
11844291 AAAAAAAATA
1 AAAAAAAATA
*
11844301 AATAAAAAT-
1 AAAAAAAATA
11844310 -AAAAAAATA
1 AAAAAAAATA
* *
11844319 AAGAAAAGTA
1 AAAAAAAATA
11844329 AAACAAAAATA
1 AAA-AAAAATA
11844340 AAAATAAAAT
1 AAAA-AAAAT
11844350 TAAGATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 7 0.18
10 18 0.46
11 14 0.36
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:11844344 original size:27 final size:27
Alignment explanation
Indices: 11844273--11844348 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 27
11844263 GATTTTTATT
11844273 TAAAGAAAATAGAATAATAAAAAAAATAAA
1 TAAA-AAAATA-AA-AATAAAAAAAATAAA
*
11844303 TAAAAATAA-AAAAATAAAGAAAAGTAAA
1 TAAAAA-AATAAAAATAAA-AAAAATAAA
*
11844331 -ACAAAAATAAAAATAAAA
1 TAAAAAAATAAAAATAAAA
11844349 TTAAGATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
26 3 0.07
27 19 0.46
28 10 0.24
29 3 0.07
30 6 0.15
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.14
Consensus pattern (27 bp):
TAAAAAAATAAAAATAAAAAAAATAAA
Found at i:11844357 original size:17 final size:16
Alignment explanation
Indices: 11844335--11844374 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11844325 AGTAAAACAA
*
11844335 AAATAAAAATAAAATT
1 AAATAAAAAGAAAATT
*
11844351 AAGATAAAAAGAATATT
1 AA-ATAAAAAGAAAATT
11844368 AAATAAA
1 AAATAAA
11844375 CCTAATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
AAATAAAAAGAAAATT
Found at i:11845339 original size:23 final size:22
Alignment explanation
Indices: 11845289--11845344 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
11845279 TAATTAGAAA
*
11845289 AGATAAATAAAAAAAATACTAT
1 AGATAAATAAAAAAAATAATAT
11845311 AGGATAAATAAAAAAAATAATAT
1 A-GATAAATAAAAAAAATAATAT
*
11845334 CAGATATATAA
1 -AGATAAATAA
11845345 TTAGATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 1 0.03
23 28 0.93
24 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.23
Consensus pattern (22 bp):
AGATAAATAAAAAAAATAATAT
Found at i:11845344 original size:27 final size:23
Alignment explanation
Indices: 11845290--11845333 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
11845280 AATTAGAAAA
*
11845290 GATAAATAAAAAAAATACTATAG
1 GATAAATAAAAAAAATAATATAG
11845313 GATAAATAAAAAAAATAATAT
1 GATAAATAAAAAAAATAATAT
11845334 CAGATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (23 bp):
GATAAATAAAAAAAATAATATAG
Found at i:11845366 original size:8 final size:8
Alignment explanation
Indices: 11845355--11845393 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
11845345 TTAGATAAAT
11845355 AAAAATAC
1 AAAAATAC
*
11845363 AAAAATAA
1 AAAAATAC
11845371 ATAAAATAC
1 A-AAAATAC
11845380 AAAAATA-
1 AAAAATAC
11845387 AAAAATA
1 AAAAATA
11845394 ATAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAATAC
Found at i:11845377 original size:23 final size:22
Alignment explanation
Indices: 11845351--11845399 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
11845341 ATAATTAGAT
11845351 AAAT-AAAAATACAAAAATAAATA
1 AAATAAAAAATA-AAAAAT-AATA
11845374 AAATACAAAAATAAAAAATAATA
1 AAATA-AAAAATAAAAAATAATA
11845397 AAA
1 AAA
11845400 ATATATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 11 0.46
24 6 0.25
25 7 0.29
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (22 bp):
AAATAAAAAATAAAAAATAATA
Found at i:11845378 original size:17 final size:18
Alignment explanation
Indices: 11845349--11845400 Score: 74
Period size: 17 Copynumber: 3.0 Consensus size: 18
11845339 ATATAATTAG
11845349 ATAAATAAAAATACAAAA
1 ATAAATAAAAATACAAAA
11845367 ATAAAT-AAAATACAAAA
1 ATAAATAAAAATACAAAA
11845384 ATAAA-AAATAATA-AAAA
1 ATAAATAAA-AATACAAAA
11845401 TATATATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAATAAAAATACAAAA
Found at i:11845473 original size:6 final size:7
Alignment explanation
Indices: 11845446--11845479 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
11845436 TAGGATATAC
11845446 ATAAAAT
1 ATAAAAT
11845453 ATAAAAT
1 ATAAAAT
11845460 ATAAAAT
1 ATAAAAT
11845467 A-AAAAT
1 ATAAAAT
11845473 A-AAAAT
1 ATAAAAT
11845479 A
1 A
11845480 CCAATGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAAAT
Found at i:11846045 original size:45 final size:45
Alignment explanation
Indices: 11845994--11846084 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
11845984 CATTAAAATA
11845994 TATTTAAAATATTAATGAAATATGTGATAATATTTTAGCATCCTT
1 TATTTAAAATATTAATGAAATATGTGATAATATTTTAGCATCCTT
* *
11846039 TATTTAAAATATTATTGAAATATTTGATAATATTTTAGCATCCTT
1 TATTTAAAATATTAATGAAATATGTGATAATATTTTAGCATCCTT
11846084 T
1 T
11846085 TGAAGCTGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (45 bp):
TATTTAAAATATTAATGAAATATGTGATAATATTTTAGCATCCTT
Found at i:11856953 original size:14 final size:14
Alignment explanation
Indices: 11856909--11856987 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
11856899 TATTACATAT
11856909 TGTGTATGTATGTG
1 TGTGTATGTATGTG
* ***
11856923 TGAGTATG-ACAAAG
1 TGTGTATGTA-TGTG
11856937 TGTGTATGTATGTG
1 TGTGTATGTATGTG
* *
11856951 TGTGTATGACAT-AG
1 TGTGTATG-TATGTG
*
11856965 TGTCTATGTATGTG
1 TGTGTATGTATGTG
*
11856979 TGTATATGT
1 TGTGTATGT
11856988 GCAGAACATT
Statistics
Matches: 47, Mismatches: 14, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
13 3 0.06
14 41 0.87
15 3 0.06
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (14 bp):
TGTGTATGTATGTG
Found at i:11856981 original size:28 final size:28
Alignment explanation
Indices: 11856903--11856986 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
11856893 AAATTCTATT
* *
11856903 ACATATTGTGTATGTATGTGTGAGTATG
1 ACATAGTGTGTATGTATGTGTGTGTATG
*
11856931 ACAAAGTGTGTATGTATGTGTGTGTATG
1 ACATAGTGTGTATGTATGTGTGTGTATG
* *
11856959 ACATAGTGTCTATGTATGTGTGTATATG
1 ACATAGTGTGTATGTATGTGTGTGTATG
11856987 TGCAGAACAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.25, C:0.05, G:0.29, T:0.42
Consensus pattern (28 bp):
ACATAGTGTGTATGTATGTGTGTGTATG
Found at i:11858700 original size:15 final size:15
Alignment explanation
Indices: 11858680--11858713 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11858670 GATTTAAGGA
11858680 TTTTGATTTCTTTAT
1 TTTTGATTTCTTTAT
*
11858695 TTTTGATTTTTTTAT
1 TTTTGATTTCTTTAT
11858710 TTTT
1 TTTT
11858714 CAGTGACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTGATTTCTTTAT
Found at i:11862641 original size:17 final size:17
Alignment explanation
Indices: 11862598--11862682 Score: 57
Period size: 17 Copynumber: 4.9 Consensus size: 17
11862588 TTAAGTTATT
*
11862598 TAATTTTATTT-AATCCA
1 TAATTTTATTTAAAT-AA
* *
11862615 TAAATATATTTAAATAA
1 TAATTTTATTTAAATAA
**
11862632 TAATTTTATTTATTTAA
1 TAATTTTATTTAAATAA
*
11862649 TTATCTTATATTTAAATTAA
1 TAAT-TT-TATTTAAA-TAA
*
11862669 T-TTTTTATTTAAAT
1 TAATTTTATTTAAAT
11862683 CTTGATAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.02
17 34 0.64
18 7 0.13
19 7 0.13
20 4 0.08
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTTTATTTAAATAA
Found at i:11865026 original size:17 final size:17
Alignment explanation
Indices: 11864999--11865032 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11864989 TTGAAATCTA
11864999 ATTTTAAAAATA-ATTC
1 ATTTTAAAAATATATTC
11865015 ATTTTCAAAAATATATTC
1 ATTTT-AAAAATATATTC
11865033 CAATATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTAAAAATATATTC
Found at i:11865750 original size:22 final size:20
Alignment explanation
Indices: 11865725--11865778 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
11865715 AGCTAAAAAA
11865725 TTTTCTCTTCTTTCAGATTTTT
1 TTTTCTCTTCTTTC--ATTTTT
* *
11865747 TTTTCACTCTCTTTCCTTTTT
1 TTTTCTCT-TCTTTCATTTTT
*
11865768 CTTTCTCTTCT
1 TTTTCTCTTCT
11865779 CTTTTGTCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 11 0.41
22 7 0.26
23 6 0.22
ACGTcount: A:0.06, C:0.26, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTCTCTTCTTTCATTTTT
Found at i:11865795 original size:17 final size:16
Alignment explanation
Indices: 11865753--11865795 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
11865743 TTTTTTTTCA
11865753 CTCTCTTTC-CTTTTT
1 CTCTCTTTCTCTTTTT
*
11865768 CTTTCTCTTCTCTTTTGT
1 CTCTCT-TTCTCTTTT-T
11865786 CTCTCTTTCT
1 CTCTCTTTCT
11865796 AGAGAAGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.22
16 3 0.13
17 9 0.39
18 6 0.26
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (16 bp):
CTCTCTTTCTCTTTTT
Found at i:11865901 original size:19 final size:20
Alignment explanation
Indices: 11865879--11865919 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11865869 TGGGTTTCTT
11865879 ATTG-AAACTTTTGTTGAAA
1 ATTGAAAACTTTTGTTGAAA
*
11865898 ATTGAAAATTTTTGTTGAAA
1 ATTGAAAACTTTTGTTGAAA
11865918 AT
1 AT
11865920 CTAGGGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (20 bp):
ATTGAAAACTTTTGTTGAAA
Found at i:11867102 original size:27 final size:27
Alignment explanation
Indices: 11867075--11867136 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
11867065 GTATTTAATA
* * *
11867075 AAAATT-TTAAATTATTTAACATTTAT
1 AAAATTATTAAATAATTAAAAATTTAT
11867101 AAAATTATTAAATAATTAAAAATTTAT
1 AAAATTATTAAATAATTAAAAATTTAT
*
11867128 TAAATTATT
1 AAAATTATT
11867137 TTTATGTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATTATTAAATAATTAAAAATTTAT
Found at i:11869104 original size:22 final size:21
Alignment explanation
Indices: 11869077--11869173 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 21
11869067 TTGTAAATAT
*
11869077 ATAATAATATAGTACTTAATTA
1 ATAATAAT-TAGTAATTAATTA
* * *
11869099 AGAATAACTTATTAGTTAATTA
1 ATAATAA-TTAGTAATTAATTA
* *
11869121 TTAATAATTTAGTAATAAATTA
1 ATAATAA-TTAGTAATTAATTA
*
11869143 ATAATAACTTAATAA-TACATTA
1 ATAATAA-TTAGTAATTA-ATTA
11869165 ATAATAATT
1 ATAATAATT
11869174 TAATAATAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
21 3 0.05
22 56 0.93
23 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATAATAATTAGTAATTAATTA
Found at i:11869134 original size:44 final size:44
Alignment explanation
Indices: 11869077--11869184 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
11869067 TTGTAAATAT
* * * * *
11869077 ATAATAATATAGTACTTAATTAAGAATAACTTATTAGTTA-ATTA
1 ATAATAATTTAGTAATAAATTAAGAATAACTTAATA-ATACATTA
* *
11869121 TTAATAATTTAGTAATAAATTAATAATAACTTAATAATACATTA
1 ATAATAATTTAGTAATAAATTAAGAATAACTTAATAATACATTA
*
11869165 ATAATAATTTAATAATAAAT
1 ATAATAATTTAGTAATAAAT
11869185 GAATTTTAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 52 0.96
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (44 bp):
ATAATAATTTAGTAATAAATTAAGAATAACTTAATAATACATTA
Found at i:11869136 original size:11 final size:11
Alignment explanation
Indices: 11869122--11869206 Score: 82
Period size: 11 Copynumber: 7.7 Consensus size: 11
11869112 AGTTAATTAT
*
11869122 TAATAATTTAG
1 TAATAATTTAA
*
11869133 TAATAAATTAA
1 TAATAATTTAA
*
11869144 TAATAACTTAA
1 TAATAATTTAA
11869155 TAATACA-TTAA
1 TAATA-ATTTAA
11869166 TAATAATTTAA
1 TAATAATTTAA
* *
11869177 TAATAAATGAA
1 TAATAATTTAA
**
11869188 TTTTAATTTAA
1 TAATAATTTAA
*
11869199 TAGTAATT
1 TAATAATT
11869207 AATTGATAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
10 1 0.02
11 59 0.97
12 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (11 bp):
TAATAATTTAA
Found at i:11869176 original size:22 final size:22
Alignment explanation
Indices: 11869116--11869209 Score: 109
Period size: 22 Copynumber: 4.3 Consensus size: 22
11869106 CTTATTAGTT
* *
11869116 AATTATTAATAATTTAGTAATA
1 AATTAATAATAATTTAATAATA
*
11869138 AATTAATAATAACTTAATAATA
1 AATTAATAATAATTTAATAATA
*
11869160 CATTAATAATAATTTAATAATA
1 AATTAATAATAATTTAATAATA
* ** *
11869182 AATGAATTTTAATTTAATAGT-
1 AATTAATAATAATTTAATAATA
11869203 AATTAAT
1 AATTAAT
11869210 TGATAGTAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
21 6 0.10
22 55 0.90
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (22 bp):
AATTAATAATAATTTAATAATA
Found at i:11869377 original size:22 final size:22
Alignment explanation
Indices: 11869347--11869612 Score: 69
Period size: 22 Copynumber: 12.3 Consensus size: 22
11869337 TTAATTAGTG
*
11869347 ATAACTTAATAGTAAATCATAT
1 ATAATTTAATAGTAAATCATAT
11869369 ATAATTTAATA-TAAATCGATA-
1 ATAATTTAATAGTAAATC-ATAT
** * * *
11869390 AT-ATTTGGT-GTTGACTCATAG
1 ATAATTTAATAG-TAAATCATAT
* *
11869411 ATAATTTAGT-GATAAATCGAT-G
1 ATAATTTAATAG-TAAATC-ATAT
* * * *
11869433 ATAATTTTATAATATATAAT-T
1 ATAATTTAATAGTAAATCATAT
* *
11869454 AAAAATTAAGTAGTAAATCA-AT
1 ATAATTTAA-TAGTAAATCATAT
* *
11869476 AATTAA-ATAATATTAAAT-ATAT
1 -A-TAATTTAATAGTAAATCATAT
* *
11869498 AAAAATATAATAGTAAATCA-AT
1 -ATAATTTAATAGTAAATCATAT
*
11869520 AATAATTTAGTAGTAAATCACTA-
1 -ATAATTTAATAGTAAATCA-TAT
** *
11869543 ATAACGTAATAGTAAATTACTA-
1 ATAATTTAATAGTAAATCA-TAT
* * * *
11869565 ATGACTTAGTTGTAAATCA-AT
1 ATAATTTAATAGTAAATCATAT
*
11869586 GATAATTTAGTAGTAAATCA-AT
1 -ATAATTTAATAGTAAATCATAT
11869608 -TAATT
1 ATAATT
11869613 GTTGATAATT
Statistics
Matches: 185, Mismatches: 41, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
20 14 0.08
21 25 0.14
22 136 0.74
23 7 0.04
24 3 0.02
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATAT
Found at i:11869553 original size:44 final size:44
Alignment explanation
Indices: 11869505--11869607 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
11869495 TATAAAAATA
* *
11869505 TAATAGTAAATCAATAATAATTTAGTAGTAAATCACTAATAACG
1 TAATAGTAAATCAATAATAACTTAGTAGTAAATCAATAATAACG
* * * * * **
11869549 TAATAGTAAATTACTAATGACTTAGTTGTAAATCAATGATAATT
1 TAATAGTAAATCAATAATAACTTAGTAGTAAATCAATAATAACG
*
11869593 TAGTAGTAAATCAAT
1 TAATAGTAAATCAAT
11869608 TAATTGTTGA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.35
Consensus pattern (44 bp):
TAATAGTAAATCAATAATAACTTAGTAGTAAATCAATAATAACG
Found at i:11869553 original size:66 final size:66
Alignment explanation
Indices: 11869457--11869612 Score: 174
Period size: 66 Copynumber: 2.3 Consensus size: 66
11869447 TATAATTAAA
* *
11869457 AATTAAGTAGTAAATCAATAATTAAATAATATTAAATATA-TAA-AAATATAATAGTAAATCAAT
1 AATTTAGTAGTAAATCAATAATTAAATAATAGTAAAT-TACTAATAAAT-TAATAGTAAATCAAT
11869520 AAT
64 AAT
* * * * * * *
11869523 AATTTAGTAGTAAATCACTAA-TAACGTAATAGTAAATTACTAATGACTTAGTTGTAAATCAATG
1 AATTTAGTAGTAAATCAATAATTAA-ATAATAGTAAATTACTAATAAATTAATAGTAAATCAATA
11869587 AT
65 AT
11869589 AATTTAGTAGTAAATCAATTAATT
1 AATTTAGTAGTAAATCAA-TAATT
11869613 GTTGATAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
65 5 0.07
66 64 0.85
67 5 0.07
68 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (66 bp):
AATTTAGTAGTAAATCAATAATTAAATAATAGTAAATTACTAATAAATTAATAGTAAATCAATAA
T
Found at i:11869591 original size:25 final size:22
Alignment explanation
Indices: 11869508--11869607 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
11869498 AAAAATATAA
*
11869508 TAGTAAATCAATAATAATTTAG
1 TAGTAAATCAATGATAATTTAG
* * ** *
11869530 TAGTAAATCACTAATAACGTAA
1 TAGTAAATCAATGATAATTTAG
* * * * *
11869552 TAGTAAATTACTAATGACTTAG
1 TAGTAAATCAATGATAATTTAG
*
11869574 TTGTAAATCAATGATAATTTAG
1 TAGTAAATCAATGATAATTTAG
11869596 TAGTAAATCAAT
1 TAGTAAATCAAT
11869608 TAATTGTTGA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATGATAATTTAG
Found at i:11869698 original size:22 final size:22
Alignment explanation
Indices: 11869648--11869824 Score: 128
Period size: 22 Copynumber: 8.0 Consensus size: 22
11869638 GGTAAGTTAT
11869648 TAGTAAATCAATT-ATAACTTT-A
1 TAGTAAATC-ATTAATAA-TTTAA
* * *
11869670 TAATAAATTATTAATAATTTAG
1 TAGTAAATCATTAATAATTTAA
* ** *
11869692 TGGTAAATCACAAACAATTTAA
1 TAGTAAATCATTAATAATTTAA
*
11869714 T-GATAAATCATTCATAATTTAA
1 TAG-TAAATCATTAATAATTTAA
* * * * *
11869736 TGGTAAATTATTTATAAATTAG
1 TAGTAAATCATTAATAATTTAA
* *
11869758 TAGTAAATCATTGATAATTTAG
1 TAGTAAATCATTAATAATTTAA
* *
11869780 TAGTAAATCATTTATAACTTAA
1 TAGTAAATCATTAATAATTTAA
*
11869802 TAGTAAATAACTT-ATAATTTAA
1 TAGTAAATCA-TTAATAATTTAA
11869824 T
1 T
11869825 GCTAATCATT
Statistics
Matches: 123, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
21 7 0.06
22 113 0.92
23 3 0.02
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (22 bp):
TAGTAAATCATTAATAATTTAA
Found at i:11869777 original size:66 final size:66
Alignment explanation
Indices: 11869648--11869818 Score: 175
Period size: 66 Copynumber: 2.6 Consensus size: 66
11869638 GGTAAGTTAT
* * * * *
11869648 TAGTAAATCAATT-ATAACTTTATAATAAATTATTAATAATTTAGTGGTAAATCACAAACAATTT
1 TAGTAAATC-ATTCATAACTTAATAGTAAATTATTTATAAATTAGTAGTAAATCACAAACAATTT
11869712 AA
65 AA
* * *** *
11869714 T-GATAAATCATTCATAATTTAATGGTAAATTATTTATAAATTAGTAGTAAATCATTGATAATTT
1 TAG-TAAATCATTCATAACTTAATAGTAAATTATTTATAAATTAGTAGTAAATCACAAACAATTT
*
11869778 AG
65 AA
* * *
11869780 TAGTAAATCATTTATAACTTAATAGTAAATAACTTATAA
1 TAGTAAATCATTCATAACTTAATAGTAAATTATTTATAA
11869819 TTTAATGCTA
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
65 4 0.05
66 80 0.94
67 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (66 bp):
TAGTAAATCATTCATAACTTAATAGTAAATTATTTATAAATTAGTAGTAAATCACAAACAATTTA
A
Found at i:11870139 original size:22 final size:22
Alignment explanation
Indices: 11870114--11870276 Score: 73
Period size: 22 Copynumber: 7.4 Consensus size: 22
11870104 AAAATAAGTA
* *
11870114 ATAACTTAGTAATTAAT-AATTG
1 ATAATTTAGTAATAAATCAA-TG
*
11870136 ATAATTTAATAATAAATCAATG
1 ATAATTTAGTAATAAATCAATG
* * *
11870158 ATAATTTAGTAGTAAATTAGTG
1 ATAATTTAGTAATAAATCAATG
** * * *
11870180 ATAACATAATAATAAATTAATT
1 ATAATTTAGTAATAAATCAATG
* * * *
11870202 TTAGTTTAATAGTAATTAATTAAT-
1 ATA-ATT--TAGTAATAAATCAATG
*
11870226 A-AATTTAGTAGTAAATC-ATG
1 ATAATTTAGTAATAAATCAATG
** * *
11870246 AATAGCTTAGTAGTAAATTAATG
1 -ATAATTTAGTAATAAATCAATG
11870269 ATAATTTA
1 ATAATTTA
11870277 ATAGTTAATC
Statistics
Matches: 104, Mismatches: 29, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.02
20 9 0.09
21 1 0.01
22 73 0.70
23 6 0.06
25 13 0.12
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (22 bp):
ATAATTTAGTAATAAATCAATG
Found at i:11870167 original size:44 final size:44
Alignment explanation
Indices: 11870097--11870196 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 44
11870087 CAATGATAGA
* * * *
11870097 TTAATAAAAAATAAGTAATAACTTAGTAATTAATAATTGATAAT
1 TTAATAATAAATAAGTAATAACTTAGTAATAAATAAGTGATAAC
* * * *
11870141 TTAATAATAAATCAA-TGATAATTTAGTAGTAAATTAGTGATAAC
1 TTAATAATAAAT-AAGTAATAACTTAGTAATAAATAAGTGATAAC
*
11870185 ATAATAATAAAT
1 TTAATAATAAAT
11870197 TAATTTTAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (44 bp):
TTAATAATAAATAAGTAATAACTTAGTAATAAATAAGTGATAAC
Found at i:11870200 original size:11 final size:11
Alignment explanation
Indices: 11870082--11870389 Score: 53
Period size: 11 Copynumber: 28.1 Consensus size: 11
11870072 AGTATATTAG
* *
11870082 TAAATCAATGA
1 TAAATTAATAA
*
11870093 TAGATTAATAA
1 TAAATTAATAA
*
11870104 -AAAATAAGTAA
1 TAAATTAA-TAA
* *
11870115 TAACTTAGTAA
1 TAAATTAATAA
* *
11870126 TTAA-TAATTGA
1 TAAATTAA-TAA
*
11870137 TAATTTAATAA
1 TAAATTAATAA
* *
11870148 TAAATCAATGA
1 TAAATTAATAA
* * *
11870159 TAATTTAGTAG
1 TAAATTAATAA
* *
11870170 TAAATTAGTGA
1 TAAATTAATAA
11870181 TAACA-TAATAA
1 TAA-ATTAATAA
**
11870192 TAAATTAATTT
1 TAAATTAATAA
** *
11870203 TAGTTTAATAG
1 TAAATTAATAA
11870214 T-AATTAATTAA
1 TAAATTAA-TAA
* *
11870225 TAAATTTAGTAG
1 TAAA-TTAATAA
*
11870237 TAAA-TCATGAA
1 TAAATTAAT-AA
** * *
11870248 TAGCTTAGTAG
1 TAAATTAATAA
*
11870259 TAAATTAATGA
1 TAAATTAATAA
* *
11870270 TAATTTAATAG
1 TAAATTAATAA
* * *
11870281 TTAA-TCATTA
1 TAAATTAATAA
11870291 TAAACTTAA-AA
1 TAAA-TTAATAA
*
11870302 GTAAATAAAT-A
1 -TAAATTAATAA
* * *
11870313 TAACTTAGTAG
1 TAAATTAATAA
*
11870324 TTAATTAATAA
1 TAAATTAATAA
* *
11870335 TAACTTAATAG
1 TAAATTAATAA
11870346 TAAATT-ATAAA
1 TAAATTAAT-AA
*
11870357 TAATTTAAT-A
1 TAAATTAATAA
*
11870367 TAAA-TAAGTGA
1 TAAATTAA-TAA
*
11870378 TAAATTGATAA
1 TAAATTAATAA
11870389 T
1 T
11870390 GAATCATGGT
Statistics
Matches: 195, Mismatches: 81, Indels: 42
0.61 0.25 0.13
Matches are distributed among these distances:
9 3 0.02
10 33 0.17
11 128 0.66
12 28 0.14
13 3 0.02
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:11870281 original size:22 final size:22
Alignment explanation
Indices: 11870134--11870380 Score: 139
Period size: 22 Copynumber: 11.3 Consensus size: 22
11870124 AATTAATAAT
* *
11870134 TGATAATTTAATAATAAATCAA
1 TGATAATTTAATAGTAAATTAA
* *
11870156 TGATAATTTAGTAGTAAATTAG
1 TGATAATTTAATAGTAAATTAA
** *
11870178 TGATAACATAATAATAAATTAA
1 TGATAATTTAATAGTAAATTAA
** *
11870200 TTTTAGTTTAATAGT-AATTAA
1 TGATAATTTAATAGTAAATTAA
* * *
11870221 TTAATAAATTTAGTAGTAAA-TCA
1 -TGAT-AATTTAATAGTAAATTAA
** *
11870244 TGAATAGCTTAGTAGTAAATTAA
1 TG-ATAATTTAATAGTAAATTAA
* *
11870267 TGATAATTTAATAGTTAA-TCA
1 TGATAATTTAATAGTAAATTAA
* * * *
11870288 TTATAAACTTAAAAGTAAATAAA
1 TGAT-AATTTAATAGTAAATTAA
* * *
11870311 T-ATAACTTAGTAGTTAATTAA
1 TGATAATTTAATAGTAAATTAA
* *
11870332 TAATAACTTAATAGTAAATT-A
1 TGATAATTTAATAGTAAATTAA
*
11870353 TAAATAATTTAATA-TAAA-TAA
1 T-GATAATTTAATAGTAAATTAA
11870374 GTGATAA
1 -TGATAA
11870381 ATTGATAATG
Statistics
Matches: 171, Mismatches: 43, Indels: 23
0.72 0.18 0.10
Matches are distributed among these distances:
20 1 0.01
21 37 0.22
22 112 0.65
23 19 0.11
24 2 0.01
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (22 bp):
TGATAATTTAATAGTAAATTAA
Found at i:11870340 original size:43 final size:44
Alignment explanation
Indices: 11870257--11870350 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 44
11870247 ATAGCTTAGT
* * * *
11870257 AGTAAATTAATGATAATTTAATAGTTAATCATTATAAACTTAAA
1 AGTAAATAAATGATAACTTAATAGTTAATAATAATAAACTTAAA
* *
11870301 AGTAAATAAAT-ATAACTTAGTAGTTAATTAATAAT-AACTTAAT
1 AGTAAATAAATGATAACTTAATAGTTAA-TAATAATAAACTTAAA
11870344 AGTAAAT
1 AGTAAAT
11870351 TATAAATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
43 28 0.65
44 15 0.35
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (44 bp):
AGTAAATAAATGATAACTTAATAGTTAATAATAATAAACTTAAA
Found at i:11870440 original size:34 final size:33
Alignment explanation
Indices: 11870400--11870477 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
11870390 GAATCATGGT
**
11870400 TAATTTAGTAATAAATTAGTGATAGTTTTATTGA
1 TAATTTAGTAATAAATTAGTGATA-ACTTATTGA
* *
11870434 TAATTTAG-ATGTAAATTATTGATAACTTATTGA
1 TAATTTAGTA-ATAAATTAGTGATAACTTATTGA
*
11870467 TAACTTAGTAA
1 TAATTTAGTAA
11870478 AAAGTCATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
33 15 0.42
34 21 0.58
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.45
Consensus pattern (33 bp):
TAATTTAGTAATAAATTAGTGATAACTTATTGA
Found at i:11870465 original size:11 final size:11
Alignment explanation
Indices: 11870427--11870473 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
11870417 AGTGATAGTT
*
11870427 TTATTGATAAT
1 TTATTGATAAC
* *
11870438 TTAGATG-TAAA
1 TTA-TTGATAAC
11870449 TTATTGATAAC
1 TTATTGATAAC
11870460 TTATTGATAAC
1 TTATTGATAAC
11870471 TTA
1 TTA
11870474 GTAAAAAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 26 0.87
12 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (11 bp):
TTATTGATAAC
Found at i:11870517 original size:21 final size:22
Alignment explanation
Indices: 11870486--11870526 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11870476 AAAAAGTCAT
*
11870486 TAATAAATTAGTTGTAAATTGG
1 TAATAAATTAGTAGTAAATTGG
11870508 TAAT-AATTAGTAGTAAATT
1 TAATAAATTAGTAGTAAATT
11870527 AGTTAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (22 bp):
TAATAAATTAGTAGTAAATTGG
Found at i:11870715 original size:22 final size:22
Alignment explanation
Indices: 11870531--11870715 Score: 108
Period size: 22 Copynumber: 8.4 Consensus size: 22
11870521 TAAATTAGTT
* * *
11870531 AATCATTGATGATTTTGTAAAA
1 AATCATTGATAATTTAGTAATA
* * * *
11870553 AATAATTGATAAATTAATAGTA
1 AATCATTGATAATTTAGTAATA
* *
11870575 AATTAATT-ATAACTTTA-TAACA
1 AA-TCATTGATAA-TTTAGTAATA
**
11870597 AATCATCAAATAATTTAGTAATA
1 AATCAT-TGATAATTTAGTAATA
*
11870620 AATCA-TGTATAATTTAGTAGTA
1 AATCATTG-ATAATTTAGTAATA
* * * *
11870642 AATCATTCATAAATTAATGATA
1 AATCATTGATAATTTAGTAATA
* * *
11870664 AATAAATGTTAATTTAGTAATA
1 AATCATTGATAATTTAGTAATA
*
11870686 AATTATTGATAATTTAGCT-ATA
1 AATCATTGATAATTTAG-TAATA
*
11870708 TATCATTG
1 AATCATTG
11870716 CTAGTTTTGT
Statistics
Matches: 122, Mismatches: 33, Indels: 16
0.71 0.19 0.09
Matches are distributed among these distances:
21 3 0.02
22 96 0.79
23 23 0.19
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (22 bp):
AATCATTGATAATTTAGTAATA
Found at i:11871129 original size:21 final size:20
Alignment explanation
Indices: 11871099--11871203 Score: 104
Period size: 21 Copynumber: 5.1 Consensus size: 20
11871089 ATTACATTAA
*
11871099 AAGGTTATCAAAATTTTATT
1 AAGGTTATCAAAATTGTATT
*
11871119 GAAGATTATCAAAATTGTA-T
1 -AAGGTTATCAAAATTGTATT
* *
11871139 AATGGTTACCAAAATTATATT
1 AA-GGTTATCAAAATTGTATT
* *
11871160 ATAAGTTACCAAAATTGTATT
1 A-AGGTTATCAAAATTGTATT
*
11871181 AGAGGTTATCAAAATTTTATT
1 A-AGGTTATCAAAATTGTATT
11871202 AA
1 AA
11871204 AAGTTACTGA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 15 0.21
21 52 0.74
22 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (20 bp):
AAGGTTATCAAAATTGTATT
Found at i:11871152 original size:41 final size:42
Alignment explanation
Indices: 11871100--11871210 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 42
11871090 TTACATTAAA
*
11871100 AGGTTATCAAAATTTTATT-GAAGATTATCAAAATTGTA-TA-
1 AGGTTATCAAAATTTTATTAGAAG-TTACCAAAATTGTATTAG
* * *
11871140 ATGGTTACCAAAATTATATTATAAGTTACCAAAATTGTATTAG
1 A-GGTTATCAAAATTTTATTAGAAGTTACCAAAATTGTATTAG
*
11871183 AGGTTATCAAAATTTTATTAAAAGTTAC
1 AGGTTATCAAAATTTTATTAGAAGTTAC
11871211 TGAAATTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.02
41 29 0.48
42 29 0.48
43 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (42 bp):
AGGTTATCAAAATTTTATTAGAAGTTACCAAAATTGTATTAG
Found at i:11871191 original size:62 final size:63
Alignment explanation
Indices: 11871079--11871196 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 63
11871069 GTTATCAAAA
* * *
11871079 GGTTACTAAAATTACATTAAAAGGTTATCAAAATTTTATTGAAGATTATCAAAATTGTATAAT
1 GGTTACCAAAATTACATTAAAAGGTTACCAAAATTGTATTGAAGATTATCAAAATTGTATAAT
* * *
11871142 GGTTACCAAAATTATATTATAA-GTTACCAAAATTGTATT-AGAGGTTATCAAAATT
1 GGTTACCAAAATTACATTAAAAGGTTACCAAAATTGTATTGA-AGATTATCAAAATT
11871197 TTATTAAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 1 0.02
62 28 0.58
63 19 0.40
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (63 bp):
GGTTACCAAAATTACATTAAAAGGTTACCAAAATTGTATTGAAGATTATCAAAATTGTATAAT
Found at i:11871217 original size:42 final size:40
Alignment explanation
Indices: 11871099--11871217 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 40
11871089 ATTACATTAA
*
11871099 AAGGTTATCAAAATTTTATT-GAAGATTA-TCAAAATTGTAT
1 AAGGTTATCAAAATTTTATTAAAAG-TTACT-AAAATTGTAT
* * * *
11871139 AATGGTTACCAAAATTATATTATAAGTTACCAAAATTGTATT
1 AA-GGTTATCAAAATTTTATTAAAAGTTACTAAAATTGTA-T
*
11871181 AGAGGTTATCAAAATTTTATTAAAAGTTACTGAAATT
1 A-AGGTTATCAAAATTTTATTAAAAGTTACTAAAATT
11871218 AAAATTATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.03
41 28 0.43
42 34 0.52
43 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.39
Consensus pattern (40 bp):
AAGGTTATCAAAATTTTATTAAAAGTTACTAAAATTGTAT
Found at i:11872877 original size:52 final size:53
Alignment explanation
Indices: 11872798--11872921 Score: 171
Period size: 52 Copynumber: 2.4 Consensus size: 53
11872788 TATAACCATA
* *
11872798 CAAACTTGCCCATTAATAA-TCCATTTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATTCCATTTCCTCTTAGAATTCTTCTCCTGTAAGT
* * *
11872850 CAAACTTGCTTATTAAGAATTCC-TTTCCTCTTTGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATTCCATTTCCTCTTAGAATTCTTCTCCTGTAAGT
* *
11872902 TAAACTTACCTATTAAGAAT
1 CAAACTTGCCTATTAAGAAT
11872922 CTTCTTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 60 0.95
53 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATTCCATTTCCTCTTAGAATTCTTCTCCTGTAAGT
Found at i:11872994 original size:11 final size:11
Alignment explanation
Indices: 11872978--11873020 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
11872968 AGTAATATCT
*
11872978 AACAAATTTCA
1 AACAAATCTCA
*
11872989 AACAAATCTCT
1 AACAAATCTCA
*
11873000 AACAAATCCCA
1 AACAAATCTCA
11873011 AACAAATCTC
1 AACAAATCTC
11873021 TTATGGGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:11873000 original size:22 final size:22
Alignment explanation
Indices: 11872975--11873021 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
11872965 TCAAGTAATA
**
11872975 TCTAACAAATTTCAAACAAATC
1 TCTAACAAATCCCAAACAAATC
11872997 TCTAACAAATCCCAAACAAATC
1 TCTAACAAATCCCAAACAAATC
11873019 TCT
1 TCT
11873022 TATGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
TCTAACAAATCCCAAACAAATC
Found at i:11873295 original size:25 final size:25
Alignment explanation
Indices: 11873266--11873315 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
11873256 ATGCACTTCT
11873266 CACATATTAAACCTTT-AGCTCTTTC
1 CACATATTAAA-CTTTAAGCTCTTTC
*
11873291 CACATCTTAAACTTTAAGCTCTTTC
1 CACATATTAAACTTTAAGCTCTTTC
11873316 ACGTCTCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CACATATTAAACTTTAAGCTCTTTC
Found at i:11873790 original size:23 final size:23
Alignment explanation
Indices: 11873760--11873806 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11873750 TGTGAACCCT
11873760 CTCAGTCTCTTCTAGTCCATTCA
1 CTCAGTCTCTTCTAGTCCATTCA
*
11873783 CTCAGTCTCTTCTAGTTCATTCA
1 CTCAGTCTCTTCTAGTCCATTCA
11873806 C
1 C
11873807 AAACAAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.09, T:0.40
Consensus pattern (23 bp):
CTCAGTCTCTTCTAGTCCATTCA
Found at i:11874076 original size:52 final size:52
Alignment explanation
Indices: 11873941--11874095 Score: 150
Period size: 52 Copynumber: 3.0 Consensus size: 52
11873931 TATAACCATA
* * * * * *
11873941 CAAACTTGCCCATTAAAAATCTATTTCCTCTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
* ** * * * *
11873993 TAAACTTGTCTGTTAAGAATTTTTTTCCTTTTTGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
* * *
11874045 CAAACTTACCTATTAGGAATCCTCTTT-CTTTTAGAATTCTTTTTTTGCAAG
1 CAAACTTACCTATTAAGAAT-CTCTTTCCTTTTAGAATTCTTCTCTTGCAAG
11874096 CCTTTTTATC
Statistics
Matches: 82, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
52 78 0.95
53 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
Found at i:11874137 original size:11 final size:11
Alignment explanation
Indices: 11874121--11874160 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11874111 AGCAATATCT
11874121 AACAAATTTCA
1 AACAAATTTCA
* *
11874132 AACAAATCTCT
1 AACAAATTTCA
*
11874143 AACAAATTCCA
1 AACAAATTTCA
11874154 AACAAAT
1 AACAAAT
11874161 CTCTTATGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (11 bp):
AACAAATTTCA
Found at i:11874143 original size:22 final size:22
Alignment explanation
Indices: 11874118--11874164 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
11874108 TTAAGCAATA
*
11874118 TCTAACAAATTTCAAACAAATC
1 TCTAACAAATTCCAAACAAATC
11874140 TCTAACAAATTCCAAACAAATC
1 TCTAACAAATTCCAAACAAATC
11874162 TCT
1 TCT
11874165 TATGGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
TCTAACAAATTCCAAACAAATC
Found at i:11880008 original size:17 final size:17
Alignment explanation
Indices: 11879988--11880025 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11879978 TGGTAATTTA
*
11879988 ATCACCAAGGTGATCTT
1 ATCACCAAGGAGATCTT
*
11880005 ATCACCAATGAGATCTT
1 ATCACCAAGGAGATCTT
11880022 ATCA
1 ATCA
11880026 TTATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (17 bp):
ATCACCAAGGAGATCTT
Found at i:11882778 original size:19 final size:20
Alignment explanation
Indices: 11882742--11882779 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
11882732 AGACATTTCA
11882742 ATTTATTAATTTTGATTTTG
1 ATTTATTAATTTTGATTTTG
11882762 ATTT-TTAACTTTT-ATTTT
1 ATTTATTAA-TTTTGATTTT
11882780 AATCATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTATTAATTTTGATTTTG
Found at i:11883694 original size:6 final size:6
Alignment explanation
Indices: 11883683--11883709 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11883673 TACCAAGAAG
11883683 CTGTAA CTGTAA CTGTAA CTGTAA CTG
1 CTGTAA CTGTAA CTGTAA CTGTAA CTG
11883710 GTAATGAGAG
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:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (6 bp):
CTGTAA
Found at i:11884305 original size:20 final size:21
Alignment explanation
Indices: 11884267--11884307 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11884257 TACATCCTAC
11884267 ATTAGATAAAAAAATTTAATT
1 ATTAGATAAAAAAATTTAATT
11884288 ATTAG-TAAATAAAA-TTAATT
1 ATTAGATAAA-AAAATTTAATT
11884308 TTTATGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATTAGATAAAAAAATTTAATT
Found at i:11887357 original size:146 final size:147
Alignment explanation
Indices: 11887178--11887472 Score: 513
Period size: 147 Copynumber: 2.0 Consensus size: 147
11887168 GAAACTTTGT
* *
11887178 TGTACCTTAAAGGCATAATTACCTTT-AAAAAAA-ATTCTTCACACCTTAAAGCCAATTTTTTTT
1 TGTACCCTAAAGGCATAATTACCTTTAAAAAAAATATTCTTCACACCCTAAAGCCAA-TTTTTTT
*
11887241 TATTATTTCTATTCTTTCATTTATTTTTTCTAACAATATATGTCAAAATATTAATTTAAAAAAAA
65 TATTATTTCTATTATTTCATTTATTTTTTCTAACAATATATGTCAAAATATTAATTTAAAAAAAA
11887306 GTCTTGGTAGAAGGTTGG
130 GTCTTGGTAGAAGGTTGG
11887324 TGTACCCTAAAGGCATAATTACCTTTAAAAAAAATATTCTTCACACCCTAAAGCCAATTTTTTTT
1 TGTACCCTAAAGGCATAATTACCTTTAAAAAAAATATTCTTCACACCCTAAAGCCAATTTTTTTT
* * *
11887389 ATTATTTCTATTATTTTATTTATTTTTTCTAACAATATATGTCAAAATATTAGTTTCAAAAAAAG
66 ATTATTTCTATTATTTCATTTATTTTTTCTAACAATATATGTCAAAATATTAATTTAAAAAAAAG
11887454 TCTTGGTAGAAGGTTGG
131 TCTTGGTAGAAGGTTGG
11887471 TG
1 TG
11887473 AACGTTATTT
Statistics
Matches: 141, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
146 25 0.18
147 95 0.67
148 21 0.15
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (147 bp):
TGTACCCTAAAGGCATAATTACCTTTAAAAAAAATATTCTTCACACCCTAAAGCCAATTTTTTTT
ATTATTTCTATTATTTCATTTATTTTTTCTAACAATATATGTCAAAATATTAATTTAAAAAAAAG
TCTTGGTAGAAGGTTGG
Found at i:11887410 original size:21 final size:21
Alignment explanation
Indices: 11887380--11887419 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11887370 CCTAAAGCCA
*
11887380 ATTTTTTTTATTATTTCTATT
1 ATTTTATTTATTATTTCTATT
*
11887401 ATTTTATTTATTTTTTCTA
1 ATTTTATTTATTATTTCTA
11887420 ACAATATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTTTATTTATTATTTCTATT
Found at i:11890569 original size:42 final size:43
Alignment explanation
Indices: 11890474--11890586 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
11890464 ATATTTTAGG
* *
11890474 TTCTATTGTTCTTCATAGTTAGCCAT-TTTGTGGTTAAGGGTT
1 TTCTATTGTTCTTCATAGTTAGGCATATTTGTGGTTAAGGATT
* * *
11890516 TTTTGTTGTTCTTCAAAGTTAGGCATATTT-TGGTTTAA-GATT
1 TTCTATTGTTCTTCATAGTTAGGCATATTTGTGG-TTAAGGATT
* **
11890558 TTCTATAGTTCTTCATTCTTAGGCATATT
1 TTCTATTGTTCTTCATAGTTAGGCATATT
11890587 CTAATTTATA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
42 51 0.88
43 7 0.12
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (43 bp):
TTCTATTGTTCTTCATAGTTAGGCATATTTGTGGTTAAGGATT
Found at i:11890642 original size:41 final size:41
Alignment explanation
Indices: 11890596--11890692 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
11890586 TCTAATTTAT
*
11890596 AGTTTTCTGTTATTGTTCTTAATTGCTCAAATTTATAGTTA
1 AGTTTTCTGTTATTATTCTTAATTGCTCAAATTTATAGTTA
* * **
11890637 AGTTTTTTGTTGTTATTCTTAATTGCTTGAATTTATAGTTA
1 AGTTTTCTGTTATTATTCTTAATTGCTCAAATTTATAGTTA
*
11890678 AGGTTTTCTGCTATT
1 A-GTTTTCTGTTATT
11890693 TAGGCATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 37 0.79
42 10 0.21
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (41 bp):
AGTTTTCTGTTATTATTCTTAATTGCTCAAATTTATAGTTA
Found at i:11892155 original size:33 final size:33
Alignment explanation
Indices: 11892093--11892187 Score: 88
Period size: 33 Copynumber: 2.9 Consensus size: 33
11892083 TAAAAAGGTG
*
11892093 ATTAAGGA-AGCAAGGGTAGAGAA-TAAAGAT-AT
1 ATTAA-GACAGCAAGGGTA-AGAACTGAAGATGAT
* *
11892125 AATTGAGGCAGCAAGGGTAAGAACTGAAGATGAT
1 -ATTAAGACAGCAAGGGTAAGAACTGAAGATGAT
* * *
11892159 ATTAAGATAGCAAGGGTAGGAACCGAAGA
1 ATTAAGACAGCAAGGGTAAGAACTGAAGA
11892188 CATGGTTAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
32 5 0.10
33 44 0.86
34 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.17
Consensus pattern (33 bp):
ATTAAGACAGCAAGGGTAAGAACTGAAGATGAT
Found at i:11892261 original size:24 final size:24
Alignment explanation
Indices: 11892213--11892261 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11892203 AATGGTAATA
*
11892213 AGGGTAAAACATGAAGATGCGGCT
1 AGGGTAAAACATGAAGATGCAGCT
** *
11892237 AGGGTAAAAGTTGAAGATGTAGCT
1 AGGGTAAAACATGAAGATGCAGCT
11892261 A
1 A
11892262 ATAAAAATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (24 bp):
AGGGTAAAACATGAAGATGCAGCT
Found at i:11896018 original size:37 final size:37
Alignment explanation
Indices: 11895972--11896048 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
11895962 CAATTTCCTA
* * * *
11895972 CAATTACACCAA-AGAAATATCAATAAGCAAATTCTAG
1 CAATCACACCAAGA-AAATATCAAGAAACAAATACTAG
11896009 CAATCACACCAAGAAAATATCAAGAAACAAATACTAG
1 CAATCACACCAAGAAAATATCAAGAAACAAATACTAG
11896046 CAA
1 CAA
11896049 AAACATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.55, C:0.21, G:0.08, T:0.17
Consensus pattern (37 bp):
CAATCACACCAAGAAAATATCAAGAAACAAATACTAG
Found at i:11896063 original size:37 final size:37
Alignment explanation
Indices: 11895977--11896064 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
11895967 TCCTACAATT
* * * * **
11895977 ACACCAAAGAAATATCAATAAGCAAATTCTAGCAATC
1 ACACCAAAAAAATATCAAGAAACAAATACTAGCAAAA
*
11896014 ACACCAAGAAAATATCAAGAAACAAATACTAGCAAAA
1 ACACCAAAAAAATATCAAGAAACAAATACTAGCAAAA
**
11896051 ACATTAAAAAAATA
1 ACACCAAAAAAATA
11896065 CCAGTAAATT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.59, C:0.18, G:0.07, T:0.16
Consensus pattern (37 bp):
ACACCAAAAAAATATCAAGAAACAAATACTAGCAAAA
Found at i:11897522 original size:18 final size:17
Alignment explanation
Indices: 11897488--11897520 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11897478 GTTTAGGAAT
11897488 TTTTTTTTAATTTTTTG
1 TTTTTTTTAATTTTTTG
*
11897505 TTTTTTTTACTTTTTT
1 TTTTTTTTAATTTTTT
11897521 TGATATGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTTTTAATTTTTTG
Found at i:11900704 original size:14 final size:14
Alignment explanation
Indices: 11900685--11900719 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11900675 TTTAATTCAT
*
11900685 ATATTAAATGAGTA
1 ATATTAAATGACTA
11900699 ATATTAAATGACTA
1 ATATTAAATGACTA
*
11900713 TTATTAA
1 ATATTAA
11900720 TTTTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (14 bp):
ATATTAAATGACTA
Found at i:11900826 original size:20 final size:21
Alignment explanation
Indices: 11900798--11900837 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11900788 TCTAATTATT
11900798 TTTGATGATCCAAAATTACTC
1 TTTGATGATCCAAAATTACTC
*
11900819 TTTG-TGATCTAAAATTACT
1 TTTGATGATCCAAAATTACT
11900838 GTTACATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTGATGATCCAAAATTACTC
Found at i:11906664 original size:38 final size:37
Alignment explanation
Indices: 11906593--11906665 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
11906583 TATTTAATGG
* *
11906593 TAAAAATTTTTACTAAAAATATTATCAACATTTTTAC
1 TAAAAATATTTACTAAAAATATTATCAAAATTTTTAC
*
11906630 TAAAAATATTTATCTAAAAA-ATATATTAAAATTTTT
1 TAAAAATATTTA-CTAAAAATAT-TATCAAAATTTTT
11906666 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 13 0.42
38 18 0.58
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (37 bp):
TAAAAATATTTACTAAAAATATTATCAAAATTTTTAC
Found at i:11912023 original size:17 final size:17
Alignment explanation
Indices: 11911996--11912029 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11911986 TCGAAATCTA
11911996 ATTTTAAAAATA-ATTC
1 ATTTTAAAAATATATTC
11912012 ATTTTCAAAAATATATTC
1 ATTTT-AAAAATATATTC
11912030 CAATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTAAAAATATATTC
Found at i:11912088 original size:37 final size:36
Alignment explanation
Indices: 11912013--11912097 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 36
11912003 AAATAATTCA
*
11912013 TTTTCAAAAATATATTCCAATATATTAGTCAGACTT
1 TTTTCAAAATTATATTCCAATATATTAGTCAGACTT
* *
11912049 TTTGTCAAAATTATCTTCCAATATATTGGT-AGGA-TT
1 TTT-TCAAAATTATATTCCAATATATTAGTCA-GACTT
*
11912085 TTTTTAAAATTAT
1 TTTTCAAAATTAT
11912098 TTTTTTTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
35 9 0.21
36 9 0.21
37 25 0.58
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (36 bp):
TTTTCAAAATTATATTCCAATATATTAGTCAGACTT
Found at i:11912774 original size:21 final size:21
Alignment explanation
Indices: 11912720--11912774 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
11912710 AGCTAAAAAA
11912720 TTTTCTCTTC-TTTCAATTTTT
1 TTTTCTCTTCTTTTC-ATTTTT
*
11912741 TTTTCAC-TCTTTTC-TTTTT
1 TTTTCTCTTCTTTTCATTTTT
11912760 TCTTTCTCTTCTTTT
1 T-TTTCTCTTCTTTT
11912775 TTGTCTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 6 0.21
20 7 0.24
21 16 0.55
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCTCTTCTTTTCATTTTT
Found at i:11912783 original size:16 final size:16
Alignment explanation
Indices: 11912739--11912785 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
11912729 CTTTCAATTT
* *
11912739 TTTTTTCACTCTTTTC
1 TTTTTTCTCTCTCTTC
*
11912755 TTTTTTCTTTCTCTTC
1 TTTTTTCTCTCTCTTC
*
11912771 TTTTTTGTCTCTCTT
1 TTTTTTCTCTCTCTT
11912786 TCTAGAGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTTTCTCTCTCTTC
Found at i:11912893 original size:19 final size:20
Alignment explanation
Indices: 11912871--11912911 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11912861 TGGGTTTCTT
11912871 ATTG-AAACTTTCGTTGAAA
1 ATTGAAAACTTTCGTTGAAA
* *
11912890 ATTGAAAATTTTTGTTGAAA
1 ATTGAAAACTTTCGTTGAAA
11912910 AT
1 AT
11912912 CTAAGGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTGAAAACTTTCGTTGAAA
Found at i:11916150 original size:22 final size:22
Alignment explanation
Indices: 11916125--11916204 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
11916115 AATATACTAC
* * *
11916125 TTAATTAAGAATAACTTATTAG
1 TTAATTAATAATAACTTAGTAA
* *
11916147 TTAATTATTAATAATTTAGTAA
1 TTAATTAATAATAACTTAGTAA
* *
11916169 TAAATTAATAATAACTTAATAA
1 TTAATTAATAATAACTTAGTAA
11916191 -TACATTAATAATAA
1 TTA-ATTAATAATAA
11916205 TTTAATAGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAATTAATAATAACTTAGTAA
Found at i:11916169 original size:11 final size:11
Alignment explanation
Indices: 11916155--11916239 Score: 82
Period size: 11 Copynumber: 7.7 Consensus size: 11
11916145 AGTTAATTAT
*
11916155 TAATAATTTAG
1 TAATAATTTAA
*
11916166 TAATAAATTAA
1 TAATAATTTAA
*
11916177 TAATAACTTAA
1 TAATAATTTAA
11916188 TAATACA-TTAA
1 TAATA-ATTTAA
11916199 TAATAATTTAA
1 TAATAATTTAA
* *
11916210 TAGTAAATTAA
1 TAATAATTTAA
**
11916221 TTTTAATTTAA
1 TAATAATTTAA
*
11916232 TAGTAATT
1 TAATAATT
11916240 AATTGATAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
10 1 0.02
11 60 0.97
12 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (11 bp):
TAATAATTTAA
Found at i:11916192 original size:33 final size:33
Alignment explanation
Indices: 11916149--11916242 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 33
11916139 CTTATTAGTT
* *
11916149 AATTATTAATAATTTAGTAATAAATTAATAATA
1 AATTAATAATAATTTAATAATAAATTAATAATA
* * *
11916182 ACTTAATAATACA-TTAATAATAATTTAATAGTA
1 AATTAATAATA-ATTTAATAATAAATTAATAATA
** *
11916215 AATTAATTTTAATTTAATAGT-AATTAAT
1 AATTAATAATAATTTAATAATAAATTAAT
11916243 TGATAGTAGT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
32 7 0.14
33 41 0.84
34 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (33 bp):
AATTAATAATAATTTAATAATAAATTAATAATA
Found at i:11916203 original size:44 final size:44
Alignment explanation
Indices: 11916127--11916242 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
11916117 TATACTACTT
* * * * *
11916127 AATTAAGAATAACTTATTAGTTAATTATTAATAATTTAGTAATA
1 AATTAATAATAACTTAATAGATAATTAATAATAATTTAATAATA
*
11916171 AATTAATAATAACTTAATA-ATACATTAATAATAATTTAATAGTA
1 AATTAATAATAACTTAATAGATA-ATTAATAATAATTTAATAATA
** *
11916215 AATTAATTTTAATTTAATAG-TAATTAAT
1 AATTAATAATAACTTAATAGATAATTAAT
11916243 TGATAGTAGT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 8 0.13
44 53 0.87
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (44 bp):
AATTAATAATAACTTAATAGATAATTAATAATAATTTAATAATA
Found at i:11916209 original size:22 final size:22
Alignment explanation
Indices: 11916149--11916242 Score: 109
Period size: 22 Copynumber: 4.3 Consensus size: 22
11916139 CTTATTAGTT
* *
11916149 AATTATTAATAATTTAGTAATA
1 AATTAATAATAATTTAATAATA
*
11916171 AATTAATAATAACTTAATAATA
1 AATTAATAATAATTTAATAATA
* *
11916193 CATTAATAATAATTTAATAGTA
1 AATTAATAATAATTTAATAATA
** *
11916215 AATTAATTTTAATTTAATAGT-
1 AATTAATAATAATTTAATAATA
11916236 AATTAAT
1 AATTAAT
11916243 TGATAGTAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
21 7 0.11
22 56 0.89
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (22 bp):
AATTAATAATAATTTAATAATA
Found at i:11916287 original size:22 final size:22
Alignment explanation
Indices: 11916249--11916310 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
11916239 TAATTGATAG
* *
11916249 TAGTAAATC-ATAAATAATTTAC
1 TAGTAAATCAAT-TATAAATTAC
*
11916271 TAGTAAATCAATTATAAATTAG
1 TAGTAAATCAATTATAAATTAC
*
11916293 TAGTAAAT-AATTAAAAAT
1 TAGTAAATCAATTATAAAT
11916311 CGTCGAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.26
22 24 0.69
23 2 0.06
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATTATAAATTAC
Found at i:11916625 original size:22 final size:22
Alignment explanation
Indices: 11916543--11916618 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 22
11916533 TAAAATATAA
*
11916543 TAGTAAATCAATAATAACTTAG
1 TAGTAAATCACTAATAACTTAG
* *
11916565 TAGTAAATCACTAATAACGTAA
1 TAGTAAATCACTAATAACTTAG
*
11916587 TAGTAAATTACTAATAACTTAG
1 TAGTAAATCACTAATAACTTAG
*
11916609 TTGTAAATCA
1 TAGTAAATCA
11916619 GTGATAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (22 bp):
TAGTAAATCACTAATAACTTAG
Found at i:11916728 original size:22 final size:22
Alignment explanation
Indices: 11916703--11916864 Score: 103
Period size: 22 Copynumber: 7.4 Consensus size: 22
11916693 AACTTTATAA
*
11916703 TAAATTATTAATAATTTAATGG
1 TAAATCATTAATAATTTAATGG
** * *
11916725 TAAATCACAAACAATTTAATGA
1 TAAATCATTAATAATTTAATGG
*
11916747 TAAATCATTCATAATTTAATGG
1 TAAATCATTAATAATTTAATGG
* * * * * *
11916769 CAAATTATTTATAAATTAGTAG
1 TAAATCATTAATAATTTAATGG
* * **
11916791 TAAATCATTGATAATTTAGTAA
1 TAAATCATTAATAATTTAATGG
* * * *
11916813 TAAATCATTTATAACTTAGTAG
1 TAAATCATTAATAATTTAATGG
*
11916835 TAAATAACTT-ATAATTTAAT-G
1 TAAATCA-TTAATAATTTAATGG
*
11916856 TTAATCATT
1 TAAATCATT
11916865 GATATCTTTT
Statistics
Matches: 110, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
20 2 0.02
21 6 0.05
22 100 0.91
23 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (22 bp):
TAAATCATTAATAATTTAATGG
Found at i:11916728 original size:44 final size:43
Alignment explanation
Indices: 11916680--11916855 Score: 131
Period size: 44 Copynumber: 4.0 Consensus size: 43
11916670 TAAGTTATTA
*
11916680 GTAAATCAATTATAACTTTA-TAATAAATTATTAATAATTTAATG
1 GTAAATCAATTATAA-TTTAGTAATAAATCATT-ATAATTTAATG
* * * *
11916724 GTAAATCACA-AACAATTTAATGATAAATCATTCATAATTTAATG
1 GTAAATCA-ATTATAATTTAGTAATAAATCATT-ATAATTTAATG
* * * * * * *
11916768 GCAAATTATTTATAAATTAGTAGTAAATCATTGATAATTTAGTA
1 GTAAATCAATTATAATTTAGTAATAAATCATT-ATAATTTAATG
* * * * *
11916812 ATAAATCATTTATAACTTAGTAGTAAATAACTTATAATTTAATG
1 GTAAATCAATTATAATTTAGTAATAAATCA-TTATAATTTAATG
11916856 TTAATCATTG
Statistics
Matches: 104, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
43 4 0.04
44 97 0.93
45 3 0.03
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (43 bp):
GTAAATCAATTATAATTTAGTAATAAATCATTATAATTTAATG
Found at i:11917345 original size:21 final size:22
Alignment explanation
Indices: 11917234--11917399 Score: 83
Period size: 22 Copynumber: 7.6 Consensus size: 22
11917224 TAATTTTAGT
* * *
11917234 TTAATAGTAATTAATTAATAAAT
1 TTAATAGTAAATAAATAAT-AAC
* * *
11917257 TTAGTAGTAAAT-CATAAATAGC
1 TTAATAGTAAATAAAT-AATAAC
* * * *
11917279 TTAGTAGT-AATTAATGATAAT
1 TTAATAGTAAATAAATAATAAC
* * *
11917300 TTAATAGTTAAT-CATGATAAAC
1 TTAATAGTAAATAAATAAT-AAC
*
11917322 TTAAAAGTAAATAAAT-ATAAC
1 TTAATAGTAAATAAATAATAAC
* * *
11917343 TTAGTAGTTAATTAATAATAAC
1 TTAATAGTAAATAAATAATAAC
* *
11917365 TTAATAGTAAAT-TATAAATAAT
1 TTAATAGTAAATAAAT-AATAAC
11917387 TTAATA-TAAATAA
1 TTAATAGTAAATAA
11917400 GTGATAAATT
Statistics
Matches: 110, Mismatches: 25, Indels: 17
0.72 0.16 0.11
Matches are distributed among these distances:
21 40 0.36
22 55 0.50
23 15 0.14
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (22 bp):
TTAATAGTAAATAAATAATAAC
Found at i:11917547 original size:22 final size:21
Alignment explanation
Indices: 11917499--11917552 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
11917489 TAAAAAGTCA
* *
11917499 TTAATAAATTAGTTGTAAATTG
1 TTAAT-AATTGGTAGTAAATTG
*
11917521 GTAATAATTGGTAGTAAATTAG
1 TTAATAATTGGTAGTAAATT-G
*
11917543 TTAATCATTG
1 TTAATAATTG
11917553 ATGATTTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.43
Consensus pattern (21 bp):
TTAATAATTGGTAGTAAATTG
Found at i:11917591 original size:22 final size:22
Alignment explanation
Indices: 11917566--11917715 Score: 99
Period size: 22 Copynumber: 6.8 Consensus size: 22
11917556 ATTTTGTAAA
* *
11917566 AAATAATTGATAAATTAATAGT
1 AAATAATTGATAATTTAATAAT
*
11917588 AAATTAATT-ATAACTTT-ATAAC
1 AAA-TAATTGATAA-TTTAATAAT
* ** *
11917610 AAATCATCAATAATTTAGTAAT
1 AAATAATTGATAATTTAATAAT
* * *
11917632 AAATCA-TGTATAATTTAGTAGT
1 AAATAATTG-ATAATTTAATAAT
* * * *
11917654 AAATCATTCATAAATTAATGAT
1 AAATAATTGATAATTTAATAAT
* *
11917676 AAATAAATGTTAATTTAATAAT
1 AAATAATTGATAATTTAATAAT
*
11917698 AAATTATTGATAATTTAA
1 AAATAATTGATAATTTAA
11917716 CGATATATCA
Statistics
Matches: 98, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
21 6 0.06
22 84 0.86
23 8 0.08
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (22 bp):
AAATAATTGATAATTTAATAAT
Found at i:11917677 original size:11 final size:11
Alignment explanation
Indices: 11917663--11917720 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
11917653 TAAATCATTC
11917663 ATAAATTAATG
1 ATAAATTAATG
*
11917674 ATAAATAAATG
1 ATAAATTAATG
* * *
11917685 TTAATTTAATA
1 ATAAATTAATG
*
11917696 ATAAATTATTG
1 ATAAATTAATG
* *
11917707 ATAATTTAACG
1 ATAAATTAATG
11917718 ATA
1 ATA
11917721 TATCATTGCT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (11 bp):
ATAAATTAATG
Found at i:11917678 original size:44 final size:43
Alignment explanation
Indices: 11917630--11917726 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 43
11917620 TAATTTAGTA
* * *
11917630 ATAAATCATGTATAATTTAGTAGTAAATCATTCATAAATTAATG
1 ATAAATCATGT-TAATTTAATAATAAATCATTCATAAATTAACG
* * * *
11917674 ATAAATAAATGTTAATTTAATAATAAATTATTGATAATTTAACG
1 ATAAAT-CATGTTAATTTAATAATAAATCATTCATAAATTAACG
*
11917718 ATATATCAT
1 ATAAATCAT
11917727 TGCTAGTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
43 2 0.05
44 37 0.86
45 4 0.09
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (43 bp):
ATAAATCATGTTAATTTAATAATAAATCATTCATAAATTAACG
Found at i:11920277 original size:13 final size:12
Alignment explanation
Indices: 11920248--11920302 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
11920238 GTTGTTCTGC
11920248 TTTT-TTTTTT-
1 TTTTATTTTTTA
11920258 TTATTATTTTTGTA
1 TT-TTATTTTT-TA
*
11920272 TTTTATATTTTA
1 TTTTATTTTTTA
*
11920284 TTTTTATTTTATA
1 -TTTTATTTTTTA
11920297 TTTTAT
1 TTTTAT
11920303 ATATATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 2 0.05
11 2 0.05
12 13 0.35
13 18 0.49
14 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:11920280 original size:18 final size:18
Alignment explanation
Indices: 11920266--11920302 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11920256 TTTTATTATT
11920266 TTTGTATTTTATATTTTA
1 TTTGTATTTTATATTTTA
*
11920284 TTTTTATTTTATATTTTA
1 TTTGTATTTTATATTTTA
11920302 T
1 T
11920303 ATATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTGTATTTTATATTTTA
Found at i:11920301 original size:7 final size:7
Alignment explanation
Indices: 11920261--11920304 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
11920251 TTTTTTTTTA
11920261 TTAT-TT
1 TTATATT
*
11920267 TTGTATT
1 TTATATT
11920274 TTATA-T
1 TTATATT
11920280 TT-TATT
1 TTATATT
11920286 TT-TATT
1 TTATATT
11920292 TTATATT
1 TTATATT
11920299 TTATAT
1 TTATAT
11920305 ATATATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 2 0.06
6 15 0.45
7 16 0.48
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (7 bp):
TTATATT
Found at i:11920309 original size:13 final size:12
Alignment explanation
Indices: 11920270--11920312 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
11920260 ATTATTTTTG
*
11920270 TATTTTATATTT
1 TATTTTATATTA
*
11920282 TATTTTTATTTTA
1 TA-TTTTATATTA
11920295 TATTTTATATATA
1 TATTTTATAT-TA
11920308 TATTT
1 TATTT
11920313 CTTTTCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTATATTA
Found at i:11920406 original size:9 final size:9
Alignment explanation
Indices: 11920389--11920421 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11920379 CTTTATTTTT
11920389 TTTTC-TTC
1 TTTTCTTTC
11920397 TTTTCTTTC
1 TTTTCTTTC
11920406 TTTTTCTTTC
1 -TTTTCTTTC
11920416 TTTTCT
1 TTTTCT
11920422 GTTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 9 0.39
10 9 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:11920410 original size:10 final size:10
Alignment explanation
Indices: 11920388--11920419 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11920378 TCTTTATTTT
11920388 TTTTTC-TTC
1 TTTTTCTTTC
11920397 -TTTTCTTTC
1 TTTTTCTTTC
11920406 TTTTTCTTTC
1 TTTTTCTTTC
11920416 TTTT
1 TTTT
11920420 CTGTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.24
9 3 0.14
10 13 0.62
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:11920518 original size:39 final size:43
Alignment explanation
Indices: 11920427--11920519 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 43
11920417 TTTCTGTTAA
* * *
11920427 TATTTATATATATATATATTATTTATCTAGTTATATATTTATT
1 TATTTATTTATATATATATAATTTATCTAGTTATATATTGATT
*
11920470 TATTCATTTATATAT-TATAATTTATCTA-TTAT-TA-TGATT
1 TATTTATTTATATATATATAATTTATCTAGTTATATATTGATT
*
11920509 TTTTTATTTAT
1 TATTTATTTAT
11920520 CTTGTAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 13 0.30
40 2 0.05
41 4 0.09
42 12 0.27
43 13 0.30
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (43 bp):
TATTTATTTATATATATATAATTTATCTAGTTATATATTGATT
Found at i:11920550 original size:19 final size:21
Alignment explanation
Indices: 11920508--11920586 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
11920498 TTATTATGAT
*
11920508 TTTTTTATTTATCTTGTAATA
1 TTTTTTATTTATCTTATAATA
*
11920529 TTTTTTATTTATCTTATAATT
1 TTTTTTATTTATCTTATAATA
*
11920550 TTTTTCTAATTATC-TATTAATA
1 TTTTT-TATTTATCTTA-TAATA
11920572 TTTTTT-TTTAT-TTAT
1 TTTTTTATTTATCTTAT
11920587 TTATCTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 6 0.12
21 27 0.54
22 16 0.32
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (21 bp):
TTTTTTATTTATCTTATAATA
Found at i:11920554 original size:43 final size:41
Alignment explanation
Indices: 11920507--11920586 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 41
11920497 ATTATTATGA
*
11920507 TTTTTT-TATTTATCT-TGTAATATTTTTTATTTATCTTATAAT
1 TTTTTTCTAATTATCTAT-TAATATTTTTT-TTTAT-TTATAAT
11920549 TTTTTTCTAATTATCTATTAATATTTTTTTTTATTTAT
1 TTTTTTCTAATTATCTATTAATATTTTTTTTTATTTAT
11920587 TTATCTGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
41 4 0.11
42 11 0.31
43 19 0.54
44 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (41 bp):
TTTTTTCTAATTATCTATTAATATTTTTTTTTATTTATAAT
Found at i:11921463 original size:13 final size:12
Alignment explanation
Indices: 11921425--11921528 Score: 67
Period size: 11 Copynumber: 8.6 Consensus size: 12
11921415 TTCCCAGGTT
*
11921425 TTTTTTTATTT-
1 TTTTATTATTTA
11921436 TTTTATTATTTA
1 TTTTATTATTTA
11921448 TTATTTATTA-TTA
1 -T-TTTATTATTTA
* *
11921461 TTATATTA-TGA
1 TTTTATTATTTA
*
11921472 TTGTT-TAATATT-
1 TT-TTATTAT-TTA
11921484 TTTT-TTATTTA
1 TTTTATTATTTA
11921495 TTTTCATTATTTTA
1 TTTT-ATTA-TTTA
11921509 TTTTATTTATTTA
1 TTTTA-TTATTTA
11921522 TTTTATT
1 TTTTATT
11921529 TTCTCTAAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
10 2 0.03
11 31 0.41
12 6 0.08
13 18 0.24
14 18 0.24
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:11921526 original size:18 final size:18
Alignment explanation
Indices: 11921480--11921530 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
11921470 GATTGTTTAA
*
11921480 TATTTTTTTTA-TTTATT
1 TATTTATTTTATTTTATT
11921497 T-TCATTATTTTATTTTATT
1 TAT--TTATTTTATTTTATT
11921516 TATTTATTTTATTTT
1 TATTTATTTTATTTT
11921531 CTCTAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 19 0.66
19 7 0.24
20 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTTATTTTATTTTATT
Found at i:11921529 original size:13 final size:13
Alignment explanation
Indices: 11921429--11921529 Score: 72
Period size: 13 Copynumber: 7.9 Consensus size: 13
11921419 CAGGTTTTTT
11921429 TTTATTTT-TTTA
1 TTTATTTTATTTA
11921441 -TTA-TTTA-TTA
1 TTTATTTTATTTA
11921451 TTTATTATTA-TTA
1 TTTATT-TTATTTA
* *
11921464 TATTATGATTGTTTA
1 T-TTAT-TTTATTTA
* *
11921479 -ATATTTTTTTTA
1 TTTATTTTATTTA
11921491 TTTATTTTCA-TTA
1 TTTATTTT-ATTTA
11921504 TTTTATTTTATTTA
1 -TTTATTTTATTTA
11921518 TTTATTTTATTT
1 TTTATTTTATTT
11921530 TCTCTAAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
10 6 0.08
11 6 0.08
12 7 0.10
13 32 0.45
14 17 0.24
15 3 0.04
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:11921708 original size:59 final size:59
Alignment explanation
Indices: 11921556--11921748 Score: 232
Period size: 59 Copynumber: 3.3 Consensus size: 59
11921546 AAAAAAAACA
* * * *
11921556 AAAAAAAAATTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTT--AAGAATAAAATTTTT
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCTTCGAA-ATTAAAATTTTC
* * * *
11921614 AAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCCATTTTCTTCGAAATTAAAAATTTC
1 AAAAAAATA-TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAATTTTC
*
11921675 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT-TCTCGAAATTAAAGTTTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCT-TCGAAATTAAAATTTTC
11921734 AAAAAAATATTTTTA
1 AAAAAAATATTTTTA
11921749 AAGTTTCCAA
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
58 9 0.08
59 57 0.49
60 13 0.11
61 36 0.31
62 2 0.02
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAATTTTC
Found at i:11921779 original size:79 final size:81
Alignment explanation
Indices: 11921677--11921826 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 81
11921667 AAAATTTCAA
*
11921677 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTT-TCTCGAAATTAAAGTTTTCAAAAAA
1 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCTCGAAATTAAAATTTT-AAAAAA
11921740 ATATTTTTAAAGTTTCC
65 ATATTTTTAAAGTTTCC
* *
11921757 AAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCTCGAAATTAAAATTTTTAAAAAA
1 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCTCGAAATTAAAATTTTAAAAAAA
11921821 TATTTT
66 TATTTT
11921827 AGGGAAAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
79 25 0.38
80 23 0.35
81 17 0.26
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (81 bp):
AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCTCGAAATTAAAATTTTAAAAAAA
TATTTTTAAAGTTTCC
Found at i:11927202 original size:43 final size:42
Alignment explanation
Indices: 11927154--11927259 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
11927144 GCCTTTGAAC
11927154 TCAAATGAGAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAGAAGCTTTGAATTTTTGGATGTGAAT-TCCAAAAT
* * **
11927197 TCAAATGAAAAGCTTT-AGATTTTTGGATTTGAATTCCAAGTT
1 TCAAATGAGAAGCTTTGA-ATTTTTGGATGTGAATTCCAAAAT
*
11927239 TGCCAAATGAGAATCTTTGAA
1 T--CAAATGAGAAGCTTTGAA
11927260 AAAAAAGCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 8 0.15
43 30 0.57
44 14 0.26
45 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (42 bp):
TCAAATGAGAAGCTTTGAATTTTTGGATGTGAATTCCAAAAT
Found at i:11927593 original size:41 final size:42
Alignment explanation
Indices: 11927542--11927874 Score: 323
Period size: 41 Copynumber: 7.8 Consensus size: 42
11927532 AACCATTTAC
11927542 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-T
1 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATT
* *
11927583 TTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGTAATTTA-T
1 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATT
* * *
11927624 TTCTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACT
1 TTTTCAAAGTCGTGG-TGCCTCTGTTTAGAGGAGCAATTTATT
* * * *
11927667 TTTT-AAAGTCATAGTGCCTCTGTTTAGAAGAGCAATTTACT
1 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATT
* *
11927708 TTTT-AAAGTCGTGGTGCCTCTGATTAGAGGAGCATTTTATT
1 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATT
* * ** * *
11927749 TTTTCAAAGTCATTGAACCTCTGATTAGAGGAGCATTGTTTATT
1 TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA--ATTTATT
* * * * *
11927793 CATTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCATTGTTTATT
1 --TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA--ATTTATT
* * * *
11927839 CATTTTCAAAGTCGTTGAGCCTATGCTTAGAGGAGC
1 --TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
11927875 CTTGATCAAA
Statistics
Matches: 257, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
41 117 0.46
42 56 0.22
43 4 0.02
44 6 0.02
46 74 0.29
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (42 bp):
TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATT
Found at i:11927675 original size:83 final size:82
Alignment explanation
Indices: 11927536--11927783 Score: 331
Period size: 83 Copynumber: 3.0 Consensus size: 82
11927526 TCAAGGAACC
* * *
11927536 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCATAGTAC
*
11927601 CTCTGTTTAGAGGAGTA
66 CTCTGTTTAGAGGAGCA
11927618 ATTTA-TTTCTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTACTTTTT-AAAGTCATAG
1 ATTTACTTT-TCAAAGTCGTGG-TGCCTCTATTTAGAGGAGCAATTTA-TTTTTCAAAGTCATAG
* *
11927681 TGCCTCTGTTTAGAAGAGCA
63 TACCTCTGTTTAGAGGAGCA
* * * *
11927701 ATTTACTTTTTAAAGTCGTGGTGCCTCTGA-TTAGAGGAGCATTTTATTTTTTCAAAGTCATTGA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCT-ATTTAGAGGAGCAATTTA-TTTTTCAAAGTCATAGT
*
11927765 ACCTCTGATTAGAGGAGCA
64 ACCTCTGTTTAGAGGAGCA
11927784 TTGTTTATTC
Statistics
Matches: 146, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
81 3 0.02
82 44 0.30
83 91 0.62
84 8 0.05
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (82 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCATAGTAC
CTCTGTTTAGAGGAGCA
Found at i:11927770 original size:124 final size:124
Alignment explanation
Indices: 11927536--11927783 Score: 331
Period size: 124 Copynumber: 2.0 Consensus size: 124
11927526 TCAAGGAACC
* * *
11927536 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTCATAGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTCGTGGTAC
* * * **
11927601 CTCTGTTTAGAGGAGTAATTTATTTCTCAAAGTCGTGGTTGCCTCT-ATTTAGAGGAGCA
66 CTCTGATTAGAGGAGCAATTTATTTCTCAAAGTCATGGTAACCTCTGA-TTAGAGGAGCA
* *
11927660 ATTTACTTTTTAAAGTCATAGTGCCTCTGTTTAGAAGAGCAATTTACTTTTT-AAAGTCGTGGTG
1 ATTTACTTTTCAAAGTCATAGTGCCTCTGTTTAGAAGAGCAATTTA-TTTTTCAAAGTCGTGGTA
* * *
11927724 CCTCTGATTAGAGGAGCATTTTATTTTTTCAAAGTCATTG-AACCTCTGATTAGAGGAGCA
65 CCTCTGATTAGAGGAGCAATTTA-TTTCTCAAAGTCATGGTAACCTCTGATTAGAGGAGCA
11927784 TTGTTTATTC
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
124 89 0.82
125 19 0.18
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (124 bp):
ATTTACTTTTCAAAGTCATAGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTCGTGGTAC
CTCTGATTAGAGGAGCAATTTATTTCTCAAAGTCATGGTAACCTCTGATTAGAGGAGCA
Found at i:11927816 original size:46 final size:46
Alignment explanation
Indices: 11927707--11927874 Score: 236
Period size: 46 Copynumber: 3.7 Consensus size: 46
11927697 AGCAATTTAC
* * *
11927707 TTTTTAAAGTCGTGGTGCCTCTGATTAGAGGAGCA-T-TTTATT--
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTGTTTATTCA
* *
11927749 TTTTCAAAGTCATTGAACCTCTGATTAGAGGAGCATTGTTTATTCA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTGTTTATTCA
*
11927795 TTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCATTGTTTATTCA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTGTTTATTCA
* *
11927841 TTTTCAAAGTCGTTGAGCCTATGCTTAGAGGAGC
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
11927875 CTTGATCAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 30 0.27
43 1 0.01
44 6 0.05
46 74 0.67
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (46 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTGTTTATTCA
Found at i:11928111 original size:25 final size:25
Alignment explanation
Indices: 11928067--11928117 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11928057 TTCTGTTTAG
* *
11928067 TTTTTTTTTATTTTTGTATTTTATA
1 TTTTTTTTTATTTTTATATTATATA
11928092 TTTTATTTTTA-TTTTATATTATATA
1 TTTT-TTTTTATTTTTATATTATATA
11928117 T
1 T
11928118 ATATTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTTTTTTATTTTTATATTATATA
Found at i:11928122 original size:18 final size:18
Alignment explanation
Indices: 11928083--11928123 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11928073 TTTATTTTTG
* * *
11928083 TATTTTATATTTTATTTT
1 TATTTTATATTATATATA
11928101 TATTTTATATTATATATA
1 TATTTTATATTATATATA
11928119 TATTT
1 TATTT
11928124 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTATATTATATATA
Found at i:11928267 original size:21 final size:20
Alignment explanation
Indices: 11928224--11928330 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
11928214 TTTCTTTTTC
*
11928224 TTTATTT-TCTGTTA-ATAT
1 TTTATTTATCTATTATATAT
*
11928242 TTTA--TATATA-TATATAT
1 TTTATTTATCTATTATATAT
11928259 TTTATTTATCTAGTTATATA-
1 TTTATTTATCTA-TTATATAT
11928279 TTTATTTAT-TCATTTATATAT
1 TTTATTTATCT-A-TTATATAT
*
11928300 TATAATTTATCTATTATTATGAT
1 T-TTATTTATCTATTA-TAT-AT
11928323 TTT-TTTAT
1 TTTATTTAT
11928331 TTATCTTGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 21
0.72 0.06 0.21
Matches are distributed among these distances:
16 3 0.04
17 10 0.14
18 4 0.06
19 6 0.08
20 17 0.24
21 15 0.21
22 12 0.17
23 4 0.06
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTATTTATCTATTATATAT
Found at i:11928284 original size:20 final size:19
Alignment explanation
Indices: 11928242--11928330 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 19
11928232 CTGTTAATAT
*
11928242 TTTATATATATATATATTTTA
1 TTTATCTAT-TATATA-TTTA
11928263 TTTATCTAGTTATATATTTA
1 TTTATCTA-TTATATATTTA
11928283 TTTAT-TCATTTATATATTATAA
1 TTTATCT-A-TTATATATT-T-A
*
11928305 TTTATCTATTATTATGATTTT
1 TTTATCTATTA-TAT-ATTTA
11928326 TTTAT
1 TTTAT
11928331 TTATCTTGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
19 1 0.02
20 19 0.33
21 22 0.38
22 12 0.21
23 4 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATCTATTATATATTTA
Found at i:11928333 original size:39 final size:41
Alignment explanation
Indices: 11928252--11928334 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 41
11928242 TTTATATATA
* *
11928252 TATATATTTTATTTATCTAGTTATATATTTATTTATTCATT
1 TATATATTTAATTTATCTAGTTATATATTGATTTATTCATT
* *
11928293 TATATATTATAATTTATCTA-TTAT-TA-TGATTTTTTTATT
1 TATATATT-TAATTTATCTAGTTATATATTGATTTATTCATT
11928332 TAT
1 TAT
11928335 CTTGTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 13 0.35
40 2 0.05
41 12 0.32
42 10 0.27
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (41 bp):
TATATATTTAATTTATCTAGTTATATATTGATTTATTCATT
Found at i:11928347 original size:21 final size:20
Alignment explanation
Indices: 11928322--11928401 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 20
11928312 ATTATTATGA
11928322 TTTTTTTATTTATCTTGTAAT
1 TTTTTTTATTTATCTT-TAAT
*
11928343 ATTTTTTATTTATCTTATAATT
1 TTTTTTTATTTATCTT-TAA-T
*
11928365 TTTTTTCTAATTATCTATTAAT
1 TTTTTT-TATTTATCT-TTAAT
11928387 TTTTTTTATTTATCT
1 TTTTTTTATTTATCT
11928402 GATTTTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
21 26 0.51
22 13 0.25
23 11 0.22
24 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTTTTATTTATCTTTAAT
Found at i:11928410 original size:21 final size:21
Alignment explanation
Indices: 11928322--11928411 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 21
11928312 ATTATTATGA
*
11928322 TTTTTTTATTTATCTTG-TAAT
1 TTTTTTTATTTATC-TGATTAT
* * *
11928343 ATTTTTTATTTATCTTATAATT
1 TTTTTTTATTTATCTGATTA-T
*
11928365 TTTTTTCTAATTATCT-ATTAAT
1 TTTTTT-TATTTATCTGATT-AT
11928387 TTTTTTTATTTATCTGATT-T
1 TTTTTTTATTTATCTGATTAT
11928407 TTTTT
1 TTTTT
11928412 CTTTTTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
20 7 0.12
21 24 0.41
22 18 0.31
23 9 0.16
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTTTATTTATCTGATTAT
Found at i:11928411 original size:44 final size:43
Alignment explanation
Indices: 11928322--11928411 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 43
11928312 ATTATTATGA
* *
11928322 TTTTTTTATTTATCTTGTAATATTTTTTATTTATCTTATAATT
1 TTTTTTTAATTATCTTGTAATATTTTTTATTTATCTGATAATT
*
11928365 TTTTTTCTAATTATCTAT-TAATTTTTTTTATTTATCTGAT--TT
1 TTTTTT-TAATTATCT-TGTAATATTTTTTATTTATCTGATAATT
11928407 TTTTT
1 TTTTT
11928412 CTTTTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 7 0.17
43 6 0.14
44 28 0.67
45 1 0.02
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (43 bp):
TTTTTTTAATTATCTTGTAATATTTTTTATTTATCTGATAATT
Done.