Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 16 of 373
Found at i:4599388 original size:21 final size:21
Alignment explanation
Indices: 4599349--4599404 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
4599339 CGGGCTCTCA
*
4599349 ACACGGCCATGTGACCTAGCG
1 ACACGGCCGTGTGACCTAGCG
** * *
4599370 ACATTGCCGTGTGATCTAGTG
1 ACACGGCCGTGTGACCTAGCG
4599391 ACACGGCCGTGTGA
1 ACACGGCCGTGTGA
4599405 GTCACACAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.21
Consensus pattern (21 bp):
ACACGGCCGTGTGACCTAGCG
Found at i:4607009 original size:8 final size:8
Alignment explanation
Indices: 4606998--4607049 Score: 81
Period size: 8 Copynumber: 6.8 Consensus size: 8
4606988 ATATATTAAT
4606998 TTATATTA
1 TTATATTA
4607006 TTATATTA
1 TTATATTA
4607014 TTATATTA
1 TTATATTA
*
4607022 TTACATTA
1 TTATATTA
4607030 -TATA-TA
1 TTATATTA
4607036 TTATATTA
1 TTATATTA
4607044 TTATAT
1 TTATAT
4607050 ATATGTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 2 0.05
7 7 0.17
8 31 0.77
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:4614356 original size:30 final size:28
Alignment explanation
Indices: 4614282--4614350 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
4614272 CGGTTTCTAT
4614282 TAAAAAGAGAGAATTTTCATTTTCACCC
1 TAAAAAGAGAGAATTTTCATTTTCACCC
4614310 TAAAAAGAGAGAATTTTCATTTTCACCC
1 TAAAAAGAGAGAATTTTCATTTTCACCC
*
4614338 TAAAAAAAGAGAA
1 TAAAAAGAGAGAA
4614351 AATTTTTTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (28 bp):
TAAAAAGAGAGAATTTTCATTTTCACCC
Found at i:4619818 original size:40 final size:40
Alignment explanation
Indices: 4619678--4619807 Score: 242
Period size: 40 Copynumber: 3.2 Consensus size: 40
4619668 TATGTGCATA
4619678 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
4619718 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTTCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
4619758 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
4619798 GCATTCGTGC
1 GCATTCGTGC
4619808 TGATTGTTAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:4624169 original size:30 final size:30
Alignment explanation
Indices: 4624135--4624192 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
4624125 GTTAGTCGAT
4624135 AAATTGAAAAATTGAAAAA-TT-AGTGTTGCA
1 AAATT-AAAAATT-AAAAATTTAAGTGTTGCA
*
4624165 AAATTAAATATTAAAAATTTAAGTGTTG
1 AAATTAAAAATTAAAAATTTAAGTGTTG
4624193 AATTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 5 0.20
29 8 0.32
30 12 0.48
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (30 bp):
AAATTAAAAATTAAAAATTTAAGTGTTGCA
Found at i:4624290 original size:45 final size:44
Alignment explanation
Indices: 4624206--4624290 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
4624196 TTAAATTATA
* ** *
4624206 AAATTGTTTGATATATTATTTAAAATTAATTATGGAATATAATT
1 AAATTATTTGATATATTATTTAAAATTAAAAATAGAATATAATT
*
4624250 AAATTATTTGATATA-TATTTTTAAATTATAAAATAGAATAT
1 AAATTATTTGATATATTA-TTTAAAATTA-AAAATAGAATAT
4624291 TTTATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.06
44 23 0.68
45 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (44 bp):
AAATTATTTGATATATTATTTAAAATTAAAAATAGAATATAATT
Found at i:4625734 original size:20 final size:19
Alignment explanation
Indices: 4625705--4625745 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
4625695 TAATTTGATT
4625705 TTAAAAAATT-ATAAAATAA
1 TTAAAAAATTAATAAAA-AA
4625724 TTAATAAAATTAATAAAAAA
1 TTAA-AAAATTAATAAAAAA
4625744 TT
1 TT
4625746 TATTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAAATTAATAAAAAA
Found at i:4628035 original size:5 final size:5
Alignment explanation
Indices: 4628020--4628049 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
4628010 AAAATTAATA
4628020 TAGGC -AGGC TAGGC TAGGC TAGGC TAGGC T
1 TAGGC TAGGC TAGGC TAGGC TAGGC TAGGC T
4628050 TGAGTTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
TAGGC
Found at i:4640653 original size:29 final size:30
Alignment explanation
Indices: 4640606--4640673 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4640596 TGGCCTAAGA
* *
4640606 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
4640636 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
4640666 GCAAATAT
1 GTAAATAT
4640674 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:4643139 original size:46 final size:46
Alignment explanation
Indices: 4643087--4643360 Score: 424
Period size: 46 Copynumber: 6.0 Consensus size: 46
4643077 AGTGTGCTCT
*
4643087 CTGATATGAAATGTGTAAGACCATGGATGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4643133 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4643179 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4643225 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
4643271 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
4643317 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4643361 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 212 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4643962 original size:5 final size:5
Alignment explanation
Indices: 4643952--4643989 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
4643942 AATAATTAAG
4643952 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
4643990 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:4647883 original size:57 final size:57
Alignment explanation
Indices: 4647790--4647928 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 57
4647780 GTATACAACA
* * ** ** * * *
4647790 AGATTATCAGTCTAGGCTAAATCCTTTTTATGACATATGCTCTA-AGGAGCTT-GATC
1 AGATTACCCGTCTAGGCTAAATCCAATCCATAACATATGCTCAAGAGGA-CTTATATC
4647846 TAGATTACCCGTCTAGGCTAAATCCAATCCATAACATATGCTCAAGAGGACTTATATC
1 -AGATTACCCGTCTAGGCTAAATCCAATCCATAACATATGCTCAAGAGGACTTATATC
*
4647904 AGGATTACCCGTCTGGGCTAAATCC
1 A-GATTACCCGTCTAGGCTAAATCC
4647929 TTTCTGTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
57 40 0.58
58 29 0.42
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (57 bp):
AGATTACCCGTCTAGGCTAAATCCAATCCATAACATATGCTCAAGAGGACTTATATC
Found at i:4648734 original size:15 final size:15
Alignment explanation
Indices: 4648714--4648743 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4648704 AGTATGAAAG
4648714 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
4648729 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
4648744 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:4649379 original size:43 final size:43
Alignment explanation
Indices: 4649316--4649444 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
4649306 ATAGGATTTC
* *
4649316 CGATATGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTATTCTCGAGTAAGACCACGTCTGGGACGTTGGCAT
*
4649359 CGATATGTATTCTCGAGTAAGACC-CTGTCTAGGACAG-TGGCAT
1 CGATATGTATTCTCGAGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * *
4649402 CGATATGTGATT-AC-ATGTAAGACCACATTTGGGACGTTGGCAT
1 CGATATGT-ATTCTCGA-GTAAGACCACGTCTGGGACGTTGGCAT
4649445 TGTACGATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.04
43 65 0.89
44 5 0.07
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
CGATATGTATTCTCGAGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:4653375 original size:49 final size:45
Alignment explanation
Indices: 4653287--4653388 Score: 132
Period size: 49 Copynumber: 2.2 Consensus size: 45
4653277 TCTATATAGA
* *
4653287 ACTACACTTCTTTTATTTTATTTTAGAATAAGGTTTTTCAACATT
1 ACTACACTTCGTTTATTTTATTTTAGAATAAGGTGTTTCAACATT
* *
4653332 ATTACACTTCGTTTATTTGATATTGATTAGAATAAGGTGTTTCAACCTT
1 ACTACACTTCGTTTATTT--TATT--TTAGAATAAGGTGTTTCAACATT
4653381 ACTACACT
1 ACTACACT
4653389 CCTTCTATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 16 0.33
47 4 0.08
49 28 0.58
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (45 bp):
ACTACACTTCGTTTATTTTATTTTAGAATAAGGTGTTTCAACATT
Found at i:4656353 original size:6 final size:6
Alignment explanation
Indices: 4656344--4656370 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4656334 AAAAGAAAAG
4656344 AAAGCC AAAGCC AAAGCC AAAGCC AAA
1 AAAGCC AAAGCC AAAGCC AAAGCC AAA
4656371 CGAAAACAGA
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:0.56, C:0.30, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGCC
Found at i:4657337 original size:19 final size:17
Alignment explanation
Indices: 4657289--4657323 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4657279 GTGAATTTTA
*
4657289 AATATTCAATTGTGCTT
1 AATATTTAATTGTGCTT
4657306 AATATTTAATTGTGCTT
1 AATATTTAATTGTGCTT
4657323 A
1 A
4657324 TTATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (17 bp):
AATATTTAATTGTGCTT
Found at i:4664289 original size:18 final size:17
Alignment explanation
Indices: 4664259--4664292 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4664249 GGAGTGTGCT
*
4664259 TGATTTTTTTTTATTTA
1 TGATTTTTGTTTATTTA
4664276 TGATTTTTGGTTTATTT
1 TGATTTTT-GTTTATTT
4664293 TGTTTATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (17 bp):
TGATTTTTGTTTATTTA
Found at i:4665237 original size:31 final size:31
Alignment explanation
Indices: 4665202--4665263 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4665192 AAATGGAGTT
4665202 GCAAGTAATCTTAGAAATAGGACGATATAAA
1 GCAAGTAATCTTAGAAATAGGACGATATAAA
4665233 GCAAGTAATCTTAGAAATAGGACGATATAAA
1 GCAAGTAATCTTAGAAATAGGACGATATAAA
4665264 TCTACTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (31 bp):
GCAAGTAATCTTAGAAATAGGACGATATAAA
Found at i:4668797 original size:16 final size:15
Alignment explanation
Indices: 4668757--4668797 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
4668747 TTAAAATTTT
4668757 ATTTTAATAAT-AAA
1 ATTTTAATAATAAAA
*
4668771 A-TTTAACAATAAAA
1 ATTTTAATAATAAAA
4668785 ATTTTAAATAATA
1 ATTTT-AATAATA
4668798 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 3 0.14
16 6 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTTAATAATAAAA
Found at i:4668894 original size:21 final size:21
Alignment explanation
Indices: 4668871--4668922 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
4668861 ATATTTAATA
*
4668871 ATAAATGTTTTATAGTATATAAT
1 ATAAATATTTTA-AGTATAT-AT
*
4668894 ATAAATATTTTAATTATATAT
1 ATAAATATTTTAAGTATATAT
4668915 ATAAATAT
1 ATAAATAT
4668923 GAGTATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATAAATATTTTAAGTATATAT
Found at i:4668913 original size:24 final size:23
Alignment explanation
Indices: 4668861--4668922 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
4668851 CAATTTATAA
* *
4668861 ATATTTAATAATAAATGTTTTAT
1 ATATATAATAATAAATATTTTAT
4668884 AGTATATAAT-ATAAATATTTTA-
1 A-TATATAATAATAAATATTTTAT
4668906 AT-TAT-ATATATAAATAT
1 ATATATAATA-ATAAATAT
4668923 GAGTATTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 9 0.26
22 1 0.03
23 12 0.35
24 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
ATATATAATAATAAATATTTTAT
Found at i:4675125 original size:42 final size:41
Alignment explanation
Indices: 4675066--4675187 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 41
4675056 TAGGGTTAGT
4675066 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
4675108 TGAGACTTCGTGTAAGACCATAGCTGAGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
4675151 TGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATGGCAT
4675188 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:4675316 original size:20 final size:20
Alignment explanation
Indices: 4675271--4675316 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4675261 GGAAAAGTTT
*
4675271 AAGTTGTGAAAGACTATGGT
1 AAGTTGTGAAAGACTATGGC
* *
4675291 ATGTTGTGAAAGATTATGGC
1 AAGTTGTGAAAGACTATGGC
4675311 AAGTTG
1 AAGTTG
4675317 CAAGTTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (20 bp):
AAGTTGTGAAAGACTATGGC
Found at i:4680391 original size:33 final size:33
Alignment explanation
Indices: 4680354--4680505 Score: 94
Period size: 32 Copynumber: 4.7 Consensus size: 33
4680344 TACCCAAATG
* *
4680354 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* * * *
4680387 GTAC-ATTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* * * * *
4680419 ATACCA-TATGAAAATGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGTAAGGTACACTTTGTGT
* * * * ***
4680452 GTACCACTTGGAAAGG-AATGTACACCTCAAGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* *
4680484 GTACAACTGGAAAAGGAAAGGT
1 GTACAACTTGAAAAGGTAAGGT
4680506 CCATCGGAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
32 51 0.55
33 41 0.44
34 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:4680402 original size:32 final size:33
Alignment explanation
Indices: 4680365--4680476 Score: 102
Period size: 33 Copynumber: 3.5 Consensus size: 33
4680355 TACAACTTGA
* *
4680365 AAAGGTTATGTACACTTTGTGTGTA-CATTTGG
1 AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
* * * * *
4680397 AAAGGTTAGGTATACTTTGTGTATACCATATGA
1 AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
* * * *
4680430 AAATGAAAGGTATACTTTGTGTGTACCACTTGG
1 AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
*
4680463 AAAGG-AATGTACAC
1 AAAGGTAAGGTACAC
4680477 CTCAAGTGTA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
32 29 0.45
33 35 0.55
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (33 bp):
AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
Found at i:4680679 original size:16 final size:16
Alignment explanation
Indices: 4680658--4680700 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
4680648 ATTGAATAAG
4680658 TTAATGAACATATTAC
1 TTAATGAACATATTAC
* * *
4680674 TTAATGTATAAATTAC
1 TTAATGAACATATTAC
*
4680690 TTGATGAACAT
1 TTAATGAACAT
4680701 GAATGGTAAG
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (16 bp):
TTAATGAACATATTAC
Found at i:4683186 original size:42 final size:42
Alignment explanation
Indices: 4683139--4683222 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4683129 AAGAATACTT
4683139 ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
1 ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
4683181 ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
1 ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
4683223 TGGCTAGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (42 bp):
ACCTAATCAAGCAAAATAAGTTGGCTTGAGCTTAGGTTGCCA
Found at i:4698397 original size:27 final size:27
Alignment explanation
Indices: 4698362--4698425 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
4698352 AATAACATTT
*
4698362 AATACATAAATGATATA-TACATATAAA
1 AATATATAAATGA-ATAGTACATATAAA
* *
4698389 AATATATAAAAGAATAGTATATATAAA
1 AATATATAAATGAATAGTACATATAAA
4698416 AATATA-AAAT
1 AATATATAAAT
4698426 AAAGTGAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (27 bp):
AATATATAAATGAATAGTACATATAAA
Found at i:4698774 original size:12 final size:12
Alignment explanation
Indices: 4698757--4698781 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4698747 TTTTAAAATT
4698757 ATGAATAATATA
1 ATGAATAATATA
4698769 ATGAATAATATA
1 ATGAATAATATA
4698781 A
1 A
4698782 AACATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:4698838 original size:11 final size:11
Alignment explanation
Indices: 4698822--4698864 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
4698812 TATACATAAC
4698822 ATATAATAAAA
1 ATATAATAAAA
* *
4698833 AAATAAGT-AAT
1 ATATAA-TAAAA
4698844 ATATAATAAAA
1 ATATAATAAAA
4698855 ATATAATAAA
1 ATATAATAAA
4698865 TGTTATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 24 0.92
12 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:4698862 original size:25 final size:23
Alignment explanation
Indices: 4698817--4698895 Score: 72
Period size: 25 Copynumber: 3.4 Consensus size: 23
4698807 TACGATATAC
*
4698817 ATAACATATAAT-AAAAAAATAA
1 ATAATATATAATAAAAAAAATAA
*
4698839 GTAATATATAATAAAAATATAATAA
1 ATAATATATAATAAAAA-A-AATAA
** * *
4698864 ATGTTATATAATAAATAAATTAA
1 ATAATATATAATAAAAAAAATAA
4698887 AT-ATATATA
1 ATAATATATA
4698896 GGAAAATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 16 0.35
23 10 0.22
24 2 0.04
25 18 0.39
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (23 bp):
ATAATATATAATAAAAAAAATAA
Found at i:4698874 original size:22 final size:22
Alignment explanation
Indices: 4698822--4698922 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 22
4698812 TATACATAAC
*
4698822 ATATAATAAAAAAATAAGT-AAT-
1 ATAT-ATAAAAATATAA-TAAATG
4698844 ATATAATAAAAATATAATAAATG
1 ATAT-ATAAAAATATAATAAATG
*
4698867 TTATATAATAAATA-AATTAAAT-
1 ATATATAA-AAATATAA-TAAATG
* *
4698889 ATATATAGGAAA-ATAATATATG
1 ATATATA-AAAATATAATAAATG
*
4698911 ATAAATAAAAAT
1 ATATATAAAAAT
4698923 TTTATATAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
21 9 0.14
22 42 0.66
23 13 0.20
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
ATATATAAAAATATAATAAATG
Found at i:4706396 original size:17 final size:19
Alignment explanation
Indices: 4706354--4706399 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4706344 TATTATAGTA
*
4706354 ATAAAAGAAATAAAGAAAG
1 ATAAAAGAAATAAAGAAAC
*
4706373 ATAAAAGAAA-AAGGAAAC
1 ATAAAAGAAATAAAGAAAC
4706391 AT-AAAGAAA
1 ATAAAAGAAA
4706400 GAAAAAGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 8 0.32
19 10 0.40
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (19 bp):
ATAAAAGAAATAAAGAAAC
Found at i:4714525 original size:40 final size:39
Alignment explanation
Indices: 4714454--4714541 Score: 90
Period size: 40 Copynumber: 2.2 Consensus size: 39
4714444 GAATTATAAA
* ** *
4714454 AAAATTATTAGATATTGTAAATATTGTAAAAA-ATATATAC
1 AAAATTATTAGAGATCATAAAGATTGTAAAAATA-ATAT-C
*
4714494 AAAATTATTAGAGATCATAAAAGATTG-AAAAATAATATT
1 AAAATTATTAGAGATCAT-AAAGATTGTAAAAATAATATC
4714533 AAAATTATT
1 AAAATTATT
4714542 CAAAATAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 9 0.22
40 24 0.59
41 8 0.20
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (39 bp):
AAAATTATTAGAGATCATAAAGATTGTAAAAATAATATC
Found at i:4731129 original size:13 final size:13
Alignment explanation
Indices: 4731111--4731140 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4731101 ATTTTATTCT
*
4731111 TTTTTATTTCTTC
1 TTTTTATCTCTTC
4731124 TTTTTATCTCTTC
1 TTTTTATCTCTTC
4731137 TTTT
1 TTTT
4731141 CCTTTTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATCTCTTC
Found at i:4733236 original size:39 final size:39
Alignment explanation
Indices: 4733178--4733264 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
4733168 CTACTTTCAC
4733178 TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
1 TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
*
4733217 TTCTTCCTTTTTGGGTTCAACTTTTACAATCTCCTTCTT
1 TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
4733256 TTCTTCCTT
1 TTCTTCCTT
4733265 AGCCTCCATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.11, C:0.28, G:0.06, T:0.55
Consensus pattern (39 bp):
TTCTTCCTTTTTGGCTTCAACTTTTACAATCTCCTTCTT
Found at i:4734534 original size:28 final size:29
Alignment explanation
Indices: 4734463--4734534 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 29
4734453 ATTTAAGTCG
* *
4734463 ATTTACCAAAATATGCTGATTTTTTTTTA
1 ATTTACCGAAATATGCTGATTTTTGTTTA
*
4734492 ATTTGA--GAATCTATGCTG-TTTTTGTTTA
1 ATTT-ACCGAA-ATATGCTGATTTTTGTTTA
4734520 ATTTACCGAAATATG
1 ATTTACCGAAATATG
4734535 TCAAATTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
27 1 0.03
28 19 0.54
29 14 0.40
30 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (29 bp):
ATTTACCGAAATATGCTGATTTTTGTTTA
Found at i:4744510 original size:15 final size:14
Alignment explanation
Indices: 4744483--4744519 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
4744473 TGCGTCTTTC
4744483 TTTCTTTTTTCCTT
1 TTTCTTTTTTCCTT
4744497 TTTCTTTCTTTCCTT
1 TTTCTTT-TTTCCTT
*
4744512 TTTGTTTT
1 TTTCTTTT
4744520 CGTTTGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTCTTTTTTCCTT
Found at i:4744599 original size:21 final size:20
Alignment explanation
Indices: 4744551--4744601 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
4744541 TCTTCTTTTT
*
4744551 TTATTCATT-TACTTATTTTA
1 TTATT-ATTATACTTAGTTTA
4744571 TT-TTATTATACATTAGTTTA
1 TTATTATTATAC-TTAGTTTA
4744591 TTATTATTATA
1 TTATTATTATA
4744602 ATGTATATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 5 0.19
20 11 0.41
21 8 0.30
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATTATTATACTTAGTTTA
Found at i:4745984 original size:51 final size:51
Alignment explanation
Indices: 4745871--4745974 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
4745861 CTGATCACAT
*
4745871 TTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTAATCAGATAAGTGTAACTAAAACTACCACTTATCAC
* * *
4745922 TTATCACTTGTCACTGATCAGATATGTGTAACTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTAATCAGATAAGTGTAACTAAAACTACCACTTATCAC
4745973 TT
1 TT
4745975 GTTGCTTGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTAATCAGATAAGTGTAACTAAAACTACCACTTATCAC
Found at i:4754983 original size:34 final size:34
Alignment explanation
Indices: 4754933--4755000 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
4754923 AATTTTAATA
* *
4754933 AAAAGTATAAAAATATTTAAAATGTATTAAAAAT
1 AAAAGTATAAAAATATTTAAAAAGAATTAAAAAT
4754967 AAAA-TATAAAAAATATTTAAAAAGAATTAAAAAT
1 AAAAGTAT-AAAAATATTTAAAAAGAATTAAAAAT
4755001 TATAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 3 0.10
34 28 0.90
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (34 bp):
AAAAGTATAAAAATATTTAAAAAGAATTAAAAAT
Found at i:4755852 original size:16 final size:17
Alignment explanation
Indices: 4755821--4755853 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4755811 TTAAAAAATA
4755821 TAATAAAAAGTATTTTT
1 TAATAAAAAGTATTTTT
*
4755838 TAATAATAA-TATTTTT
1 TAATAAAAAGTATTTTT
4755854 ATATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TAATAAAAAGTATTTTT
Found at i:4755881 original size:17 final size:17
Alignment explanation
Indices: 4755832--4755883 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
4755822 AATAAAAAGT
* *
4755832 ATTTTTT-AATAATAAT
1 ATTTTTTAAATATTAAA
* *
4755848 ATTTTTATATATTTTAAA
1 ATTTTT-TAAATATTAAA
4755866 ATTTTTTAAATATTAAA
1 ATTTTTTAAATATTAAA
4755883 A
1 A
4755884 AATTAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 11 0.39
18 11 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTTAAATATTAAA
Found at i:4755885 original size:19 final size:19
Alignment explanation
Indices: 4755849--4755887 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4755839 AATAATAATA
* **
4755849 TTTTTATATATTTTAAAAT
1 TTTTTAAATATTAAAAAAT
4755868 TTTTTAAATATTAAAAAAT
1 TTTTTAAATATTAAAAAAT
4755887 T
1 T
4755888 AATTAAATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTAAATATTAAAAAAT
Found at i:4756294 original size:16 final size:16
Alignment explanation
Indices: 4756275--4756308 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4756265 TAAAAATATA
*
4756275 TAATTATTTTTTAATT
1 TAATTATCTTTTAATT
*
4756291 TAATTATCTTTTATTT
1 TAATTATCTTTTAATT
4756307 TA
1 TA
4756309 GTTAAAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTATCTTTTAATT
Found at i:4756956 original size:66 final size:66
Alignment explanation
Indices: 4756850--4756981 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
4756840 GGTCTCCACT
4756850 ACGCCCCACCACTAATTTTTACCACATACATTGTAGATGTGTCATAATCTAATATACTTAAAGCT
1 ACGCCCCACCACTAATTTTTACCACATACATTGTAGATGTGTCATAATCTAATATACTTAAAGCT
4756915 C
66 C
4756916 ACGCCCCACCACTAATTTTTACCACATACATTGTAGATGTGTCATAATCTAATATACTTAAAGCT
1 ACGCCCCACCACTAATTTTTACCACATACATTGTAGATGTGTCATAATCTAATATACTTAAAGCT
4756981 C
66 C
4756982 TTGATTGAGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (66 bp):
ACGCCCCACCACTAATTTTTACCACATACATTGTAGATGTGTCATAATCTAATATACTTAAAGCT
C
Found at i:4760396 original size:22 final size:22
Alignment explanation
Indices: 4760368--4760421 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4760358 TTTTCGATTT
4760368 AATTATTTAA-TTAATCAAAGTA
1 AATTATTTAATTTAATCAAA-TA
* *
4760390 ATTTATTTAATTTAATTAAATA
1 AATTATTTAATTTAATCAAATA
4760412 AATTATTTAA
1 AATTATTTAA
4760422 AAATATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTATTTAATTTAATCAAATA
Found at i:4761466 original size:6 final size:6
Alignment explanation
Indices: 4761455--4761483 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4761445 TATAAATAAA
4761455 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
4761484 AAAAGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:4763664 original size:18 final size:19
Alignment explanation
Indices: 4763605--4763670 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
4763595 AAAAAATTCA
*
4763605 TTAAAAAATTCATTGTTTTT
1 TTAAAAAA-TCATTATTTTT
4763625 TT-AAAAATCATTA--TTT
1 TTAAAAAATCATTATTTTT
**
4763641 AAAAAAAAT-ATTATTTTT
1 TTAAAAAATCATTATTTTT
4763659 TTAAAATAATCA
1 TTAAAA-AATCA
4763671 CGAGATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
16 7 0.19
17 6 0.17
18 12 0.33
19 8 0.22
20 3 0.08
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
TTAAAAAATCATTATTTTT
Found at i:4777967 original size:9 final size:9
Alignment explanation
Indices: 4777922--4777969 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
4777912 CACTCAAATC
4777922 CAATTCTCTT
1 CAATTCTC-T
4777932 C-ATTCTCT
1 CAATTCTCT
**
4777940 TTATTCTCT
1 CAATTCTCT
*
4777949 CATTTCTCT
1 CAATTCTCT
4777958 CAATTCTCT
1 CAATTCTCT
4777967 CAA
1 CAA
4777970 GATTAGTTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
8 1 0.03
9 30 0.94
10 1 0.03
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (9 bp):
CAATTCTCT
Found at i:4778945 original size:17 final size:19
Alignment explanation
Indices: 4778923--4778965 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4778913 ATGAAAATAT
4778923 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
4778940 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
4778959 AATCTTA
1 AATCTTA
4778966 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:4778955 original size:19 final size:19
Alignment explanation
Indices: 4778931--4778967 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4778921 ATAATCTTCA
4778931 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4778950 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
4778968 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:4778993 original size:22 final size:22
Alignment explanation
Indices: 4778931--4778990 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
4778921 ATAATCTTCA
4778931 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
4778950 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
4778972 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
4778991 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:4786871 original size:47 final size:47
Alignment explanation
Indices: 4786817--4787225 Score: 647
Period size: 47 Copynumber: 8.6 Consensus size: 47
4786807 TATTTGAATA
4786817 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
4786864 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
4786911 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
4786960 AATGTGAAAGTATATATATGTGATAAGGCCTAATGGGCCGATATGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GGCCGATGTGATG
4787008 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
4787055 AATGTTGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AA---TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
4787105 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
4787152 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
4787199 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
4787226 TTCCGAAGGG
Statistics
Matches: 340, Mismatches: 16, Indels: 12
0.92 0.04 0.03
Matches are distributed among these distances:
47 204 0.60
48 45 0.13
49 44 0.13
50 47 0.14
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:4791308 original size:20 final size:18
Alignment explanation
Indices: 4791286--4791351 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 18
4791276 TTTGTAAAAA
4791286 ATAATATATAATAAATGAT
1 ATAATATATAAT-AATGAT
*
4791305 AATAATATAAAATAATG-T
1 -ATAATATATAATAATGAT
*
4791323 ATAATA-A-AATAATTAT
1 ATAATATATAATAATGAT
4791339 ATAATATATAATA
1 ATAATATATAATA
4791352 TAAAGATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 7 0.17
18 5 0.12
19 4 0.10
20 11 0.27
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAATATATAATAATGAT
Found at i:4791317 original size:30 final size:28
Alignment explanation
Indices: 4791283--4791353 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 28
4791273 TAGTTTGTAA
4791283 AAAATAATATATAATAAATGATAATAATAT
1 AAAATAATATATAATAAA--ATAATAATAT
* *
4791313 AAAATAATGTATAATAAAATAATTATAT
1 AAAATAATATATAATAAAATAATAATAT
4791341 AATATATAATATA
1 AA-A-ATAATATA
4791354 AAGATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 11 0.31
29 1 0.03
30 24 0.67
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATAATATATAATAAAATAATAATAT
Found at i:4791348 original size:23 final size:23
Alignment explanation
Indices: 4791283--4791351 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
4791273 TAGTTTGTAA
* *
4791283 AAAATAA-TATATAATAAATGAT
1 AAAATAATTATATAATATATAAT
* * *
4791305 AATAAT-ATAAAATAATGTATAAT
1 AA-AATAATTATATAATATATAAT
4791328 AAAATAATTATATAATATATAAT
1 AAAATAATTATATAATATATAAT
4791351 A
1 A
4791352 TAAAGATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
22 6 0.17
23 30 0.83
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
AAAATAATTATATAATATATAAT
Found at i:4791349 original size:15 final size:13
Alignment explanation
Indices: 4791283--4791355 Score: 58
Period size: 15 Copynumber: 5.2 Consensus size: 13
4791273 TAGTTTGTAA
4791283 AAAATAATATATAAT
1 AAAATAAT-TAT-AT
*
4791298 AAATGATAATAATAT
1 AAA--ATAATTATAT
4791313 AAAATAATGTATAAT
1 AAAATAAT-TAT-AT
4791328 AAAATAATTATAT
1 AAAATAATTATAT
* *
4791341 AATAT-ATAATAT
1 AAAATAATTATAT
4791353 AAA
1 AAA
4791356 GATATATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
12 8 0.16
13 11 0.22
14 5 0.10
15 18 0.37
16 2 0.04
17 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AAAATAATTATAT
Found at i:4791360 original size:20 final size:18
Alignment explanation
Indices: 4791286--4791361 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 18
4791276 TTTGTAAAAA
*
4791286 ATAATATATAATAAATGAT
1 ATAATATAAAAT-AATGAT
4791305 AATAATATAAAATAATG-T
1 -ATAATATAAAATAATGAT
*
4791323 AT-A-ATAAAATAATTAT
1 ATAATATAAAATAATGAT
*
4791339 ATAATATATAATATAAAGAT
1 ATAATATA-AA-ATAATGAT
4791359 ATA
1 ATA
4791362 TAAACATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
15 10 0.21
16 4 0.09
17 3 0.06
18 4 0.09
19 6 0.13
20 20 0.43
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (18 bp):
ATAATATAAAATAATGAT
Found at i:4794987 original size:220 final size:220
Alignment explanation
Indices: 4794604--4795193 Score: 964
Period size: 220 Copynumber: 2.7 Consensus size: 220
4794594 CAGGCTAAAG
* * * * * * * *
4794604 CATAGCAGATTTGACCTGCAGGTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCCCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCAGATCTAAGATGATTTAACATCTCTGTA
* * * * *
4794669 TTGTCAGAAAACAAATCGAAGAAACAGATTTGACATCTCTATATTCGATGGAGAGAAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
4794734 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
4794799 GCGTTGACAAGGAGCAGATCGAAGA
196 ACGTTGACAAGGAGCAGATCGAAGA
4794824 CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCAGATCTAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCAGATCTAAGATGATTTAACATCTCTGTA
* * **
4794889 TTTTCAGAGAACAAATCAAAGAAACAGATTTGGTTTCTCCATATTCGACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
4794954 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
4795019 ACGTTGACAAGGAGCAGATCGAAGA
196 ACGTTGACAAGGAGCAGATCGAAGA
* **
4795044 CATAGCAGATTTGGCTTTCACATGTTTACGCTAAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCAGATCTAAGATGATTTAACATCTCTGTA
*
4795109 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
4795174 ACATAGCAGATCTGACCTTC
131 ACATAGCAGATCTAACCTTC
4795194 ATTGAAGCAG
Statistics
Matches: 342, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
220 342 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTAAAGCAGATCTAAGATGATTTAACATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
ACGTTGACAAGGAGCAGATCGAAGA
Found at i:4795248 original size:78 final size:78
Alignment explanation
Indices: 4795135--4795490 Score: 516
Period size: 78 Copynumber: 4.4 Consensus size: 78
4795125 CGAAGAAACA
** * * * *
4795135 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
4795200 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
4795213 GACTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
4795278 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
4795291 GATTTGGCATCTTTGTATTAGACGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACC
1 GATTTGGCATC----T-CT----GTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACC
4795356 TTCATTGAAGCAGATCCAAGAT
57 TTCATTGAAGCAGATCCAAGAT
*
4795378 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TAGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCT-GACCTTCATTGA
4795442 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
4795456 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
4795491 TGACCTTCAT
Statistics
Matches: 253, Mismatches: 15, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
77 1 0.00
78 175 0.69
82 2 0.01
83 2 0.01
87 73 0.29
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:4795350 original size:165 final size:165
Alignment explanation
Indices: 4795150--4795479 Score: 581
Period size: 165 Copynumber: 2.0 Consensus size: 165
4795140 GGCATCTCCA
* *
4795150 TATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
1 TATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
*
4795215 CTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAACAGATCT-GACCTTCATTGAAG
66 CTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGAT-TAGACCTTCATTGAAG
*
4795279 CAGATCCAAGATGATTTGGCATCTTTGTATTAGACG
130 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACG
*
4795315 TATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
1 TATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
* *
4795380 TTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTAGACCTTCATTGAAGC
66 CTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTAGACCTTCATTGAAGC
4795445 AGATCCAAGATGATTTGGCATCTCTGTATTAGACG
131 AGATCCAAGATGATTTGGCATCTCTGTATTAGACG
4795480 GGGAGCAGAT
Statistics
Matches: 157, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
164 1 0.01
165 156 0.99
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (165 bp):
TATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
CTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATTAGACCTTCATTGAAGC
AGATCCAAGATGATTTGGCATCTCTGTATTAGACG
Found at i:4795373 original size:87 final size:86
Alignment explanation
Indices: 4795227--4795479 Score: 380
Period size: 87 Copynumber: 3.0 Consensus size: 86
4795217 TGGCATCTCT
*
4795227 GTATTAGATGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATG
1 GTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATG
4795292 ATTTGGCATCTTTGTATTAGAC
66 ATTTGGCATC-TTGTATTAGAC
*
4795314 GTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATG
1 GTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATG
*
4795379 ATTTGGCATC---T-CT----
66 ATTTGGCATCTTGTATTAGAC
*
4795392 GTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TAGACCTTCATTGAAGCAGATCCAAGAT
1 GTATTAGACGGGGAGCAGATCGAAGACACAACAGATCT-GACCTTCATTGAAGCAGATCCAAGAT
4795456 GATTTGGCATCTCTGTATTAGAC
65 GATTTGGCATCT-TGTATTAGAC
4795479 G
1 G
4795480 GGGAGCAGAT
Statistics
Matches: 150, Mismatches: 6, Indels: 20
0.85 0.03 0.11
Matches are distributed among these distances:
77 1 0.01
78 71 0.47
82 2 0.01
83 2 0.01
87 74 0.49
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (86 bp):
GTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATG
ATTTGGCATCTTGTATTAGAC
Found at i:4795580 original size:44 final size:45
Alignment explanation
Indices: 4795514--4795655 Score: 205
Period size: 45 Copynumber: 3.2 Consensus size: 45
4795504 TTTACATCGA
* * *
4795514 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
4795559 AGCAGATTGAAGA-AGCAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
4795603 AACAGATCGAAGATAACATATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
4795648 AGCAGATC
1 AGCAGATC
4795656 AAATATAGCA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 39 0.46
45 46 0.54
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:4796049 original size:19 final size:19
Alignment explanation
Indices: 4796022--4796092 Score: 117
Period size: 19 Copynumber: 3.8 Consensus size: 19
4796012 ATCTTCAATT
4796022 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
* *
4796041 ATATACAATTTTAGATATG
1 ATATGCAATCTTAGATATG
4796060 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
4796078 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
4796093 AGATATGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
18 16 0.34
19 31 0.66
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:4796115 original size:42 final size:37
Alignment explanation
Indices: 4796025--4796102 Score: 111
Period size: 37 Copynumber: 2.0 Consensus size: 37
4796015 TTCAATTATA
*
4796025 TGCAATCTTAGATATGATATACAATTTTAGATATGAT
1 TGCAATCTTAGATATGATATACAATTTAAGATATGAT
*
4796062 TGCAATCTTAGATATGATATGCAATCTTAGAAGATATGAT
1 TGCAATCTTAGATATGATATACAAT-TT--AAGATATGAT
4796102 T
1 T
4796103 TTGTAATCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 24 0.67
38 2 0.06
40 10 0.28
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (37 bp):
TGCAATCTTAGATATGATATACAATTTAAGATATGAT
Found at i:4796118 original size:22 final size:22
Alignment explanation
Indices: 4796022--4796115 Score: 73
Period size: 19 Copynumber: 4.7 Consensus size: 22
4796012 ATCTTCAATT
4796022 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
* *
4796041 ATATACAAT-TT--TAGATATG
1 ATATGCAATCTTAGAAGATATG
4796060 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
4796078 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
4796100 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
4796116 GATTTAATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
18 16 0.25
19 28 0.44
22 8 0.12
23 12 0.19
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:4799141 original size:21 final size:23
Alignment explanation
Indices: 4799098--4799148 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
4799088 TAAAAGAGGG
4799098 TAATAAACAAATAGATGAATAGA
1 TAATAAACAAATAGATGAATAGA
4799121 TAATAATA-AAATA-AT-AATAGA
1 TAATAA-ACAAATAGATGAATAGA
4799142 TAATAAA
1 TAATAAA
4799149 ATACCAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 2 0.07
23 11 0.41
24 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (23 bp):
TAATAAACAAATAGATGAATAGA
Found at i:4799157 original size:18 final size:17
Alignment explanation
Indices: 4799120--4799162 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
4799110 AGATGAATAG
*
4799120 ATAATAATAAAATAATA
1 ATAATAATAAAATAACA
*
4799137 ATAGATAATAAAATACCA
1 ATA-ATAATAAAATAACA
4799155 ATAATAAT
1 ATAATAAT
4799163 GAAGGCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAATAATAAAATAACA
Found at i:4799157 original size:21 final size:21
Alignment explanation
Indices: 4799115--4799160 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4799105 CAAATAGATG
*
4799115 AATAGATAATAATAAAATAAT
1 AATAGATAATAATAAAACAAT
*
4799136 AATAGATAATAA-AATACCAAT
1 AATAGATAATAATAA-AACAAT
4799157 AATA
1 AATA
4799161 ATGAAGGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (21 bp):
AATAGATAATAATAAAACAAT
Found at i:4799331 original size:36 final size:38
Alignment explanation
Indices: 4799269--4799349 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 38
4799259 ATGAATAATG
*
4799269 TATAAATAGAAAAGTAAATTAATAAACAAATGAATAAA
1 TATAAATAGAAAAGTAAATTAATAAACAAATAAATAAA
*
4799307 -ATAAA-AGAATAA-TAAA-TAACTAAACAAGTAAATAAA
1 TATAAATAGAA-AAGTAAATTAA-TAAACAAATAAATAAA
4799343 TATAAAT
1 TATAAAT
4799350 GGATAAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
35 3 0.08
36 22 0.59
37 12 0.32
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (38 bp):
TATAAATAGAAAAGTAAATTAATAAACAAATAAATAAA
Found at i:4799823 original size:5 final size:5
Alignment explanation
Indices: 4799792--4799820 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4799782 TTATTCTGCA
4799792 CTTTT CTTTT CTTTT CTTTT CTTTT -TTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
4799821 TTTAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
CTTTT
Found at i:4804293 original size:88 final size:86
Alignment explanation
Indices: 4804008--4804326 Score: 267
Period size: 88 Copynumber: 3.7 Consensus size: 86
4803998 TTTCAGGATA
** * * *
4804008 TATAATAATCAC-AATTTATTTTATTTCATTTTT----TATCAGGGCTTGAGTCTGGTACTGCAT
1 TATAATAATCACTAA-TTATTTTATTTCATTTTTGAGGTATTTGGTCTTGAGTATGGTGCTGCAT
*
4804068 TTTTTTTAATTTTTCGAGATAAT
65 TTTTTTTAA-TTTTCGAGAAAAT
* * * * ** *
4804091 TACAATAATCACTATTTATTTCATTTCATTTTTGAGGGACTTTGGT-TTGAGCCTGGCTGCTACA
1 TATAATAATCACTAATTATTTTATTTCATTTTTGAGGTA-TTTGGTCTTGAGTATGG-TGCTGC-
* * *
4804155 ATAATTCTTTTAATTTTCTA-ATATAAA
63 AT--TTTTTTTAATTTTCGAGA-A-AAT
* * *
4804182 TATAATAATCACTATTTATTTTATTTTATTTTTGAGGTATTTGGTCTTGAGTATGGTGTTGCAGT
1 TATAATAATCACTAATTATTTTATTTCATTTTTGAGGTATTTGGTCTTGAGTATGGTGCTGCA-T
*
4804247 TTTTTTTAGTTTTACGAGAAAAT
65 TTTTTTTAATTTT-CGAGAAAAT
* * *
4804270 TATAATAATCACTAATTATTTTATTTCATTTTCGAGGAACTTGAG-CTTGAGTATGGT
1 TATAATAATCACTAATTATTTTATTTCATTTTTGAGGTATTTG-GTCTTGAGTATGGT
4804327 ACTGTAATAT
Statistics
Matches: 188, Mismatches: 31, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
83 28 0.15
84 1 0.01
87 10 0.05
88 70 0.37
89 8 0.04
90 18 0.10
91 53 0.28
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (86 bp):
TATAATAATCACTAATTATTTTATTTCATTTTTGAGGTATTTGGTCTTGAGTATGGTGCTGCATT
TTTTTTAATTTTCGAGAAAAT
Found at i:4804370 original size:97 final size:94
Alignment explanation
Indices: 4804269--4804441 Score: 231
Period size: 97 Copynumber: 1.8 Consensus size: 94
4804259 TACGAGAAAA
* * * *
4804269 TTATAATAATCACTAATTATTTTATTTCATTTTC-GAGGAACTTGAGCTTGAGTATGGTACTGTA
1 TTATAATAATAACTAATTATTTCATTTCATTTTCTG-GGAACTTGAACTTGAGTATGATACTGTA
4804333 ATATTTAGTTTTTTTTTAATTTTTTTGAGATGG
65 A-ATTT--TTTTTTTTTAATTTTTTTGAGATGG
* * * *
4804366 TTATAATAATAACTATTTATTTCATTTCGTTTTCTGGGCACTTGAACTTGAGTATGATGCTGTAA
1 TTATAATAATAACTAATTATTTCATTTCATTTTCTGGGAACTTGAACTTGAGTATGATACTGTAA
4804431 ATTTTTTTTTT
66 ATTTTTTTTTT
4804442 AGAATAATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
94 7 0.10
96 4 0.06
97 55 0.82
98 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (94 bp):
TTATAATAATAACTAATTATTTCATTTCATTTTCTGGGAACTTGAACTTGAGTATGATACTGTAA
ATTTTTTTTTTTTAATTTTTTTGAGATGG
Found at i:4804732 original size:86 final size:86
Alignment explanation
Indices: 4804539--4804749 Score: 223
Period size: 87 Copynumber: 2.4 Consensus size: 86
4804529 TAATTTTCTG
* * * *
4804539 GGATAATTATAATAATCACTTTTTATTTCATTTCATTTTTAGGGCACTTCGACTTGAGTCTATAC
1 GGATAATTATAATAATAACTATTTATTTCATTTCATTTTTAGGGCACTGCGACTTGAGTATATAC
4804604 TGCAATAATTTATTTTTAATCA
66 TGCAATAATTTATTTTT-ATCA
* * * ** * *
4804626 AGAAAATTATAATAATAACTATTTATTTCATTTCATTTTTAGGG-ACTGGGGTTTGAGTATGGTG
1 GGATAATTATAATAATAACTATTTATTTCATTTCATTTTTAGGGCACTGCGACTTGAGTAT-ATA
*
4804690 CTGTGAA-AAGTTTATTTGTT-T-A
65 CTG-CAATAA-TTTATTT-TTATCA
**
4804712 GGATAATTATAATAATAACTATTTATTTTGTTTCATTT
1 GGATAATTATAATAATAACTATTTATTTCATTTCATTT
4804750 CATTTTCAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
86 46 0.44
87 47 0.45
88 9 0.09
89 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (86 bp):
GGATAATTATAATAATAACTATTTATTTCATTTCATTTTTAGGGCACTGCGACTTGAGTATATAC
TGCAATAATTTATTTTTATCA
Found at i:4805186 original size:85 final size:86
Alignment explanation
Indices: 4805070--4805291 Score: 215
Period size: 90 Copynumber: 2.5 Consensus size: 86
4805060 TTTCCAAGAA
* * * * *
4805070 AATTATAAAAATCATTATTTATTTC-TCTTCATGTT-TAGGACCCTTGGACTTGAGTC-TTATGC
1 AATTATAATAATCACTATTTATTTCAT-TTCAT-TTCAAGG-CACTTGGACTTG-GTCAAT-TGC
*
4805132 TGCAACA-ATTT-TT-TTT-TGGGGAT
61 TGCAACATATTTATTATTTCT-GGAAT
4805155 AATTATAATAATCACTATTTATTTCATTTCATTTGCAAGGCACTTGGACTTGGTCAATTGCTGCA
1 AATTATAATAATCACTATTTATTTCATTTCATTT-CAAGGCACTTGGACTTGGTCAATTGCTGCA
*
4805220 ATATATTTATTAAAATTTCTGGAAT
65 ACATATTTATT---ATTTCTGGAAT
* *
4805245 AATTATAATAATTACTATTTATTTCATTTCATTTTCAAGGCATTTGG
1 AATTATAATAATCACTATTTATTTCATTTCA-TTTCAAGGCACTTGG
4805292 GCTTAAGTCT
Statistics
Matches: 116, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
84 14 0.12
85 44 0.38
86 6 0.05
90 48 0.41
91 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (86 bp):
AATTATAATAATCACTATTTATTTCATTTCATTTCAAGGCACTTGGACTTGGTCAATTGCTGCAA
CATATTTATTATTTCTGGAAT
Found at i:4814914 original size:2 final size:2
Alignment explanation
Indices: 4814907--4814937 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4814897 CTTGAAAACT
4814907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4814938 TTTTTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4829705 original size:18 final size:17
Alignment explanation
Indices: 4829669--4829707 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4829659 AAGGTTGAGG
* *
4829669 TTTTCTCATTCTTTTTC
1 TTTTCGCATCCTTTTTC
4829686 TTTTCGCATCCTTGTTTC
1 TTTTCGCATCCTT-TTTC
4829704 TTTT
1 TTTT
4829708 TTCACCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.05, C:0.23, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTCGCATCCTTTTTC
Found at i:4830432 original size:17 final size:17
Alignment explanation
Indices: 4830402--4830434 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4830392 TTCCAAACGC
4830402 TTTCATATACTATTATA
1 TTTCATATACTATTATA
4830419 TTTCTATATA-TATTAT
1 TTTC-ATATACTATTAT
4830435 CTATATTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCATATACTATTATA
Found at i:4830641 original size:15 final size:16
Alignment explanation
Indices: 4830621--4830650 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4830611 AATTCATTTG
4830621 TATATTAC-TATTTAA
1 TATATTACTTATTTAA
4830636 TATATTACTTATTTA
1 TATATTACTTATTTA
4830651 TATTTTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTACTTATTTAA
Found at i:4832763 original size:20 final size:20
Alignment explanation
Indices: 4832738--4832791 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
4832728 AGGGGCACAT
*
4832738 GCCCGTGTGGCCTGGGACAC
1 GCCCGTGTGGCCTGGAACAC
* *
4832758 GCCCGTGTGTCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
4832778 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
4832792 CCCATGGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.09, C:0.33, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:4834528 original size:21 final size:21
Alignment explanation
Indices: 4834469--4834520 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
4834459 GAAACAGAAA
* *
4834469 GTGCCTAAAACGACACACGAG
1 GTGCCTGAAACAACACACGAG
*
4834490 GTGCCTGATACAACACACGAG
1 GTGCCTGAAACAACACACGAG
4834511 GTGCCTGAAA
1 GTGCCTGAAA
4834521 TATGACACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.25, T:0.13
Consensus pattern (21 bp):
GTGCCTGAAACAACACACGAG
Found at i:4834939 original size:15 final size:14
Alignment explanation
Indices: 4834915--4834954 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
4834905 TATATATTAT
4834915 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
4834929 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
4834944 ATAAATTCAAT
1 AT-AATTCAAT
4834955 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:4836043 original size:13 final size:14
Alignment explanation
Indices: 4836025--4836053 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4836015 GATTAACTTC
4836025 ATAAATATTTT-TA
1 ATAAATATTTTCTA
4836038 ATAAATATTTTCTA
1 ATAAATATTTTCTA
4836052 AT
1 AT
4836054 CCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:4836374 original size:13 final size:13
Alignment explanation
Indices: 4836356--4836386 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4836346 AGATAATTAG
4836356 CAAATCATACATA
1 CAAATCATACATA
4836369 CAAATCATACATA
1 CAAATCATACATA
*
4836382 TAAAT
1 CAAAT
4836387 TTATACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:4836786 original size:40 final size:37
Alignment explanation
Indices: 4836716--4836809 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 37
4836706 ACCAGAATGG
*
4836716 CGACCAACGCCTCATCGGATAGTTCAAAGCAAATAAGTGA
1 CGACCAACGCCTCATCGGATAGTCCAAAGC--A-AAGTGA
* * * *
4836756 CGACCAACGTCTCATCGGCTAAG-CCGAAGCAAAGTGG
1 CGACCAACGCCTCATCGGAT-AGTCCAAAGCAAAGTGA
4836793 CGACCAACGCCTCATCG
1 CGACCAACGCCTCATCG
4836810 AATCTATCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
37 21 0.45
38 1 0.02
40 23 0.49
41 2 0.04
ACGTcount: A:0.32, C:0.31, G:0.22, T:0.15
Consensus pattern (37 bp):
CGACCAACGCCTCATCGGATAGTCCAAAGCAAAGTGA
Found at i:4837807 original size:16 final size:16
Alignment explanation
Indices: 4837788--4837818 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4837778 TTTCTTTTGT
*
4837788 TTCTTTATTTTATTTA
1 TTCTTTATTTCATTTA
4837804 TTCTTTATTTCATTT
1 TTCTTTATTTCATTT
4837819 TATTTACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCATTTA
Found at i:4837969 original size:3 final size:3
Alignment explanation
Indices: 4837942--4837985 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
4837932 CTATCTCAAT
*
4837942 TAA TAGA TAA -AA T-A TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4837986 GTAAATATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4848139 original size:72 final size:71
Alignment explanation
Indices: 4848058--4848200 Score: 189
Period size: 72 Copynumber: 2.0 Consensus size: 71
4848048 TCGATAATTT
* *
4848058 TATAATGTAATTAGAAC-AGTTTGAAATTTGAAAACCAATTTAAAATTAAGATCATAATTTGGGA
1 TATAATGTAATTAAAACGA-TTTGAAATTTGAAAACAAATTTAAAATTAAGATCATAATTTGGGA
4848122 TGCCTGA
65 TGCCTGA
* ** * *
4848129 TATAATTGTAATTAAAACGATTTGAAATTTGAGAGTAAATTTAAAATTAAGATTATAGTTTGGGA
1 TATAA-TGTAATTAAAACGATTTGAAATTTGAAAACAAATTTAAAATTAAGATCATAATTTGGGA
*
4848194 TGTCTGA
65 TGCCTGA
4848201 AGCAATTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
71 5 0.08
72 56 0.90
73 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (71 bp):
TATAATGTAATTAAAACGATTTGAAATTTGAAAACAAATTTAAAATTAAGATCATAATTTGGGAT
GCCTGA
Found at i:4849786 original size:27 final size:28
Alignment explanation
Indices: 4849738--4849792 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
4849728 GAATAATGAG
** *
4849738 AATTAAAATGATCTTAGCCATTGGATTA
1 AATTAAAATGATCTTAAACATTAGATTA
*
4849766 AATT-AAATGATTTTAAACATTAGATTA
1 AATTAAAATGATCTTAAACATTAGATTA
4849793 TGTATTTATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (28 bp):
AATTAAAATGATCTTAAACATTAGATTA
Found at i:4850381 original size:31 final size:31
Alignment explanation
Indices: 4850288--4850478 Score: 129
Period size: 31 Copynumber: 6.4 Consensus size: 31
4850278 TTAATAGAAC
* * * *
4850288 ATTTGGCACCTAAATTTGACACGTTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
**
4850319 ATTTGGTACCTAAA-TT---TTTTTTTCC-A
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* * *
4850345 GTTTGGTACTTAAACTTAACACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* *
4850376 ATTTGGTACCTAAATTTGACAC-TTTT-CTT
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
*
4850405 ATGTTGGTA-CTAAATCTT----TTTTGGGTTCC-A
1 AT-TTGGTACCTAAA-CTTGACACTTT---TTCCTA
*
4850435 ATTTGGTACCTAAACTTGACTCTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
4850466 ATTTGGTACCTAA
1 ATTTGGTACCTAA
4850479 TCTTTTTTTG
Statistics
Matches: 124, Mismatches: 18, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
26 13 0.10
27 9 0.07
29 18 0.15
30 34 0.27
31 47 0.38
33 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTA
Found at i:4850454 original size:59 final size:61
Alignment explanation
Indices: 4850370--4850486 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
4850360 TTAACACTTT
* *
4850370 TTCCTAATTTGGTACCTAAATTTGACAC-TTTT-CTTATGTTGGTA-CTAAATCTTTTTTGGG
1 TTCCTAATTTGGTACCTAAACTTGACACTTTTTCCTAAT-TTGGTACCT-AATCTTTTTTGGG
*
4850430 TTCC-AATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTACCTAATCTTTTTT
1 TTCCTAATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAATCTTTTTT
4850487 TGTTCGATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
59 21 0.41
60 24 0.47
61 6 0.12
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (61 bp):
TTCCTAATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAATCTTTTTTGGG
Found at i:4850462 original size:90 final size:88
Alignment explanation
Indices: 4850288--4850478 Score: 271
Period size: 90 Copynumber: 2.1 Consensus size: 88
4850278 TTAATAGAAC
* *
4850288 ATTTGGCACCTAAATTTGACACGTTTTCTTAATTTGGTACCTAAATTTTTTTTTCCAGTTTGGTA
1 ATTTGGTACCTAAATTTGACACGTTTTCTTAATTTGGTACCTAAATTTTTTTTTCCAATTTGGTA
*
4850353 CTTAAACTTAACACTTTTTCCTA
66 CCTAAACTTAACACTTTTTCCTA
4850376 ATTTGGTACCTAAATTTGACAC-TTTTCTT-ATGTTGGTA-CTAAATCTTTTTTGGGTTCCAATT
1 ATTTGGTACCTAAATTTGACACGTTTTCTTAAT-TTGGTACCTAAAT-TTTTTT---TTCCAATT
* *
4850438 TGGTACCTAAACTTGACTCTTTTTCCTA
61 TGGTACCTAAACTTAACACTTTTTCCTA
4850466 ATTTGGTACCTAA
1 ATTTGGTACCTAA
4850479 TCTTTTTTTG
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
86 8 0.09
87 19 0.20
88 21 0.23
90 45 0.48
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (88 bp):
ATTTGGTACCTAAATTTGACACGTTTTCTTAATTTGGTACCTAAATTTTTTTTTCCAATTTGGTA
CCTAAACTTAACACTTTTTCCTA
Found at i:4850952 original size:60 final size:60
Alignment explanation
Indices: 4850880--4851017 Score: 172
Period size: 59 Copynumber: 2.3 Consensus size: 60
4850870 AACTCTTTGG
** * * * * *
4850880 TACCAAATTAGGAAAAAAATGTCAAGTTCAGGTACTAAATTGGGCCCAAAAAAGTTTA-A
1 TACCAAATTAGGAAAAAAATGTCAAGTTCAAATACGAAATTAGGACAAAAAAAATTTAGA
* *
4850939 GTATCAAATTAGG-AAAAAGTGTCAAGTTCAAATACGAAATTAGGACAAAAAAAATTTAGA
1 -TACCAAATTAGGAAAAAAATGTCAAGTTCAAATACGAAATTAGGACAAAAAAAATTTAGA
4850999 TACCAAATTAGGAAAAAAA
1 TACCAAATTAGGAAAAAAA
4851018 AATGCCAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 48 0.74
60 17 0.26
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (60 bp):
TACCAAATTAGGAAAAAAATGTCAAGTTCAAATACGAAATTAGGACAAAAAAAATTTAGA
Found at i:4854063 original size:31 final size:31
Alignment explanation
Indices: 4854028--4854096 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
4854018 TTAACAGTTC
*
4854028 AGTGACTTAAATAAAAACTTTTGAATAACTT-
1 AGTGACTTAAATAAAAACTTTTAAATAA-TTG
* *
4854059 AGTGACTTAAATGAAAATTTTTAAATAATTG
1 AGTGACTTAAATAAAAACTTTTAAATAATTG
4854090 AGTGACT
1 AGTGACT
4854097 AACTTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTAAATAATTG
Found at i:4867411 original size:30 final size:29
Alignment explanation
Indices: 4867376--4867433 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
4867366 TGGAATTAGG
4867376 TTTTGGAGGTCT-AATGAAAATTTCAAAAAT
1 TTTTGGA-GTCTAAATGAAAATTT-AAAAAT
*
4867406 TTTTGGAGTTTAAATGAAAATTTAAAAA
1 TTTTGGAGTCTAAATGAAAATTTAAAAA
4867434 GAAAAAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (29 bp):
TTTTGGAGTCTAAATGAAAATTTAAAAAT
Found at i:4871921 original size:174 final size:174
Alignment explanation
Indices: 4871436--4871923 Score: 617
Period size: 174 Copynumber: 2.8 Consensus size: 174
4871426 CCGCAAAGTG
* * * * * *
4871436 GAGGTAAATATATAGTTACTTGATGTCATTAAACATGTACCACACTATGCTAAGTTTTGGAAGGA
1 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTTGAAAAGA
* * * * * *
4871501 ATTATGCAATAGCAAAAAGAAGCTAGCCAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTTTGC
66 ATTGTGCACTAACAAAAAAAAGCTAGCTAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTCTGC
4871566 TATCATAAAAAAAAAAAAGATACCCCTAAAACTTCCAGTAAAATA
131 TATCAT-AAAAAAAAAAAGATACCCCTAAAACTTCCAGTAAAATA
* *
4871611 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTGTGCAAAGTTTTGGAAAAA
1 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTT-GAAAAG
* * * *
4871676 AATTGTGCACTAACAAAAACAAGCTAGTTGGGTT-AACAAGGTAAGTATGAGAGAAAATGTTTCT
65 AATTGTGCACTAACAAAAAAAAGCTAGCTAGGTTGAA-AAGGTAAGTATGAGAGAAAATGTCTCT
*
4871740 GCTATCAT-CAAAAAAAAAGATACCCCTAAAACTTTCCA-TAAAATA
129 GCTATCATAAAAAAAAAAAGATACCCCTAAAAC-TTCCAGTAAAATA
*
4871785 GAGGTAAATATATCGTGACTTGATGTCATTAAAAATGTATCACACTAT-C-AAGTTTTGAAAAGA
1 GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTTGAAAAGA
* * * ** * *
4871848 ATTGTACACTAACAAAAAAAAAAAACTAACTAATTTGAAAAGGGAAGTACGAGAGAAAATGTCTC
66 ATTGTGCACTAAC---AAAAAAAAGCTAGCTAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTC
**
4871913 CACTATCATAA
128 TGCTATCATAA
4871924 GAAGATATCC
Statistics
Matches: 270, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
171 18 0.07
172 7 0.03
173 1 0.00
174 119 0.44
175 62 0.23
176 63 0.23
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (174 bp):
GAGGTAAATATATCGTTACTTGATGTCATTAAAAATGTATCACACTATGCAAAGTTTTGAAAAGA
ATTGTGCACTAACAAAAAAAAGCTAGCTAGGTTGAAAAGGTAAGTATGAGAGAAAATGTCTCTGC
TATCATAAAAAAAAAAAGATACCCCTAAAACTTCCAGTAAAATA
Found at i:4876833 original size:31 final size:32
Alignment explanation
Indices: 4876783--4876847 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
4876773 ATTTAGTCAT
*
4876783 TAAACTATTCAAAA-GTTTTTATTTAAATCAC
1 TAAACTATTCAAAACTTTTTTATTTAAATCAC
* * *
4876814 TAAATTATTGAAAACTTTTTTATTTAAGTCAC
1 TAAACTATTCAAAACTTTTTTATTTAAATCAC
4876846 TA
1 TA
4876848 GGTTGTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.45
Consensus pattern (32 bp):
TAAACTATTCAAAACTTTTTTATTTAAATCAC
Found at i:4878592 original size:16 final size:16
Alignment explanation
Indices: 4878573--4878603 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4878563 AGAGAAATGA
*
4878573 GAAGGAGAAGAAGAAG
1 GAAGAAGAAGAAGAAG
4878589 GAAGAAGAAGAAGAA
1 GAAGAAGAAGAAGAA
4878604 AAAAGGTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (16 bp):
GAAGAAGAAGAAGAAG
Found at i:4878893 original size:93 final size:94
Alignment explanation
Indices: 4878796--4878970 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 94
4878786 ATTAGGTTGC
4878796 AAATTGTTAGTGTTTAGT-GTATTAGTGTATT-GTG-A-T-TTTTTTTAGTAATAATATATTTAA
1 AAATTGTTAGTGTTTAGTAGT-TTAGTGTATTAGTGTATTATTTTTTTAGTAAT-ATAT-TTTAA
4878856 AAAATAATAATTTTATAGTTGATTTGGTTATAT
63 AAAA-AATAATTTTATAGTTGATTTGGTTATAT
*
4878889 AAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTTA
1 AAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTA-T-T-ATTTTTTTAGTAATATATTTTAA
4878954 AAAAAATAATTTTATAG
63 AAAAAATAATTTTATAG
4878971 CTATTTTATT
Statistics
Matches: 73, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
93 28 0.38
94 5 0.07
95 1 0.01
97 13 0.18
98 9 0.12
99 4 0.05
100 13 0.18
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (94 bp):
AAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTATTTTTTTAGTAATATATTTTAAAAA
AAATAATTTTATAGTTGATTTGGTTATAT
Found at i:4879008 original size:115 final size:115
Alignment explanation
Indices: 4878876--4879203 Score: 481
Period size: 115 Copynumber: 2.9 Consensus size: 115
4878866 TTTTATAGTT
* *
4878876 GATTTGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAATGTATTGTGATTTTTTTAG
4878941 TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * * *
4878991 GATTAGGTTATATAAATTGTTAGTGTTTAGCAGTTTAGTATATTAACGTATTGTAATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAATGTATTGTGATTTTTTTAG
4879056 TAATATATTTTT-AAAAAA-AA-TTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
4879103 GATTAGGTTATAT--ATTGTTAGCGTTTAGTGGTTTAGTGTGTATTAATGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTA--GTGTATTAATGTATTGTGA-TTTTTT
* * *
4879166 TAGTAGTGTA--TTTAAAAAAATAATTTTATAGTTATTTT
63 TAGTAATATATTTTTAAAAAAATAATTTTATAGCTATTTT
4879204 GTGTTAGTAT
Statistics
Matches: 192, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
110 19 0.10
111 3 0.02
112 62 0.32
113 18 0.09
114 19 0.10
115 71 0.37
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (115 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAATGTATTGTGATTTTTTTAG
TAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:4879289 original size:15 final size:16
Alignment explanation
Indices: 4879260--4879291 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
4879250 TTGTGATTTT
4879260 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
4879276 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
4879291 T
1 T
4879292 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:4881383 original size:33 final size:34
Alignment explanation
Indices: 4881346--4881441 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
4881336 ATTTATCTCA
*
4881346 GTACTCTACTCCTTCC-GGCCCGTATCCACCCA-T
1 GTACTCTACTCC-TCCAGGCCCGTATCCACCCACC
*
4881379 GTACTCAACTCCTCCAGAG-CCGTATCCA-CCACC
1 GTACTCTACTCCTCCAG-GCCCGTATCCACCCACC
* *
4881412 GTACTCTACTCCTCCTGGCCCATATCCACC
1 GTACTCTACTCCTCCAGGCCCGTATCCACC
4881442 TCCATATTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
32 7 0.13
33 44 0.83
34 2 0.04
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (34 bp):
GTACTCTACTCCTCCAGGCCCGTATCCACCCACC
Found at i:4886043 original size:11 final size:11
Alignment explanation
Indices: 4886027--4886053 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4886017 TTAATGTTTA
4886027 AATTTATTTGT
1 AATTTATTTGT
4886038 AATTTATTTGT
1 AATTTATTTGT
4886049 AATTT
1 AATTT
4886054 TTAAATAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
AATTTATTTGT
Found at i:4886631 original size:25 final size:25
Alignment explanation
Indices: 4886602--4886651 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4886592 TCATTTTCCA
4886602 ATCGAAATAAAATTCAATTGATGGT
1 ATCGAAATAAAATTCAATTGATGGT
4886627 ATCGAAATAAAATTCAATTGATGGT
1 ATCGAAATAAAATTCAATTGATGGT
4886652 CATAATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (25 bp):
ATCGAAATAAAATTCAATTGATGGT
Found at i:4898365 original size:14 final size:15
Alignment explanation
Indices: 4898346--4898378 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4898336 ATTGAGATGA
*
4898346 TGATACTTAT-TTGT
1 TGATACTAATATTGT
4898360 TGATACTAATATTGT
1 TGATACTAATATTGT
4898375 TGAT
1 TGAT
4898379 GCTGTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (15 bp):
TGATACTAATATTGT
Found at i:4903645 original size:16 final size:15
Alignment explanation
Indices: 4903616--4903644 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4903606 CCGAAGTTAA
4903616 TTTTAAAATATATAT
1 TTTTAAAATATATAT
4903631 TTTTAAAA-ATATAT
1 TTTTAAAATATATAT
4903645 AAAGAGAATC
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):
TTTTAAAATATATAT
Found at i:4904052 original size:6 final size:6
Alignment explanation
Indices: 4904041--4904076 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
4904031 CTATAGCTTT
4904041 CAAAAA CAAAAA CAAAAAA CAAAAAA CAAAAA CAAA
1 CAAAAA CAAAAA C-AAAAA C-AAAAA CAAAAA CAAA
4904077 GATAACCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:4904058 original size:7 final size:7
Alignment explanation
Indices: 4904042--4904076 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
4904032 TATAGCTTTC
4904042 AAAAAC-
1 AAAAACA
4904048 AAAAACA
1 AAAAACA
4904055 AAAAACA
1 AAAAACA
4904062 AAAAAC-
1 AAAAACA
4904068 AAAAACA
1 AAAAACA
4904075 AA
1 AA
4904077 GATAACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:4904060 original size:13 final size:13
Alignment explanation
Indices: 4904041--4904076 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4904031 CTATAGCTTT
4904041 CAAAAAC-AAAAA
1 CAAAAACAAAAAA
4904053 CAAAAAACAAAAAA
1 C-AAAAACAAAAAA
4904067 CAAAAACAAA
1 CAAAAACAAA
4904077 GATAACCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 15 0.68
14 6 0.27
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAACAAAAAA
Found at i:4904091 original size:25 final size:21
Alignment explanation
Indices: 4904042--4904082 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
4904032 TATAGCTTTC
4904042 AAAAACAAAAACAAAA-AACA
1 AAAAACAAAAACAAAATAACA
4904062 AAAAACAAAAACAAAGATAAC
1 AAAAACAAAAACAAA-ATAAC
4904083 CCTAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 1 0.05
22 3 0.16
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAACAAAAACAAAATAACA
Found at i:4906821 original size:20 final size:22
Alignment explanation
Indices: 4906784--4906824 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4906774 TATAATACAT
*
4906784 TATATTATGTTATTTTTATAAA
1 TATATTATGTTATATTTATAAA
4906806 TATATTATG-TA-ATTTATAA
1 TATATTATGTTATATTTATAA
4906825 CACATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TATATTATGTTATATTTATAAA
Found at i:4913014 original size:47 final size:47
Alignment explanation
Indices: 4912944--4913038 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
4912934 TCTGTCCCTT
4912944 CCAACAATATTGTCTCCAAAGTTTGAACCTACTTTTTATTTTCTCTC
1 CCAACAATATTGTCTCCAAAGTTTGAACCTACTTTTTATTTTCTCTC
*
4912991 CCAATAATATTGTCTCCAAAGTTTGAACCTACTTTTTATTTTCTCTC
1 CCAACAATATTGTCTCCAAAGTTTGAACCTACTTTTTATTTTCTCTC
4913038 C
1 C
4913039 TTGAAAGTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.43
Consensus pattern (47 bp):
CCAACAATATTGTCTCCAAAGTTTGAACCTACTTTTTATTTTCTCTC
Found at i:4928015 original size:6 final size:6
Alignment explanation
Indices: 4928006--4928071 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
4927996 GAAGTCTAAG
* ** *
4928006 AAAATA AAAA-A AAACATA AAAATA GAAATA AATTTA AAAATA GAAATA
1 AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA
4928054 AAAAT- AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AA
4928072 TAGACTCAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
5 14 0.29
6 31 0.63
7 4 0.08
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:4934675 original size:22 final size:23
Alignment explanation
Indices: 4934645--4934690 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
4934635 TAAATCATCC
4934645 AAAAGCATGCCAAGCATGGGATT
1 AAAAGCATGCCAAGCATGGGATT
4934668 AAAA-CATGCCAAGCATGGGATT
1 AAAAGCATGCCAAGCATGGGATT
4934690 A
1 A
4934691 GCATCCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (23 bp):
AAAAGCATGCCAAGCATGGGATT
Found at i:4934873 original size:32 final size:32
Alignment explanation
Indices: 4934832--4934894 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
4934822 TGACTCTCCG
4934832 TTAGCCTACCATGAAGCACACTATCCAACCAT
1 TTAGCCTACCATGAAGCACACTATCCAACCAT
4934864 TTAGCCTACCATGAAGCACACTATCCAACCA
1 TTAGCCTACCATGAAGCACACTATCCAACCA
4934895 ATCACATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.35, G:0.10, T:0.21
Consensus pattern (32 bp):
TTAGCCTACCATGAAGCACACTATCCAACCAT
Found at i:4945788 original size:20 final size:20
Alignment explanation
Indices: 4945755--4945793 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4945745 TGTATCGCCA
* *
4945755 ATTATATTTTTTATGATTAC
1 ATTATATATATTATGATTAC
*
4945775 ATTATATATATTATTATTA
1 ATTATATATATTATGATTA
4945794 TTAAATCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTATATATATTATGATTAC
Found at i:4947558 original size:18 final size:19
Alignment explanation
Indices: 4947535--4947611 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 19
4947525 ATTAAGCCCT
4947535 TTTAAAATT-TAAAAATTA
1 TTTAAAATTATAAAAATTA
*
4947553 TTTAAAATCATAAAAAAATTTA
1 TTTAAAAT--TATAAAAA-TTA
*
4947575 TTTAAAAAATT-TATAAATT-
1 TTT--AAAATTATAAAAATTA
*
4947594 TATAAAATTATAAAAATT
1 TTTAAAATTATAAAAATT
4947612 TTATTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.13
18 15 0.32
19 2 0.04
20 3 0.06
21 9 0.19
22 7 0.15
24 5 0.11
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAAAATTATAAAAATTA
Found at i:4947600 original size:17 final size:16
Alignment explanation
Indices: 4947574--4947607 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4947564 AAAAAAATTT
4947574 ATTTAAAAAATTTATAA
1 ATTTAAAAAA-TTATAA
*
4947591 ATTTATAAAATTATAA
1 ATTTAAAAAATTATAA
4947607 A
1 A
4947608 AATTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAAAAAATTATAA
Done.