Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 16 of 333
Found at i:4651649 original size:26 final size:26
Alignment explanation
Indices: 4651613--4651715 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
4651603 ACAAATTGAC
*
4651613 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
*
4651639 AATGGATTAGGTAAATATTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
4651665 AATGGGTTAGGTAAATATTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
* *
4651691 AATGGTTTAGGT-AATGTTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
4651716 GGACATTTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
25 12 0.17
26 60 0.83
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
AATGGGTTAGGTAAATATTCCATGAT
Found at i:4657656 original size:46 final size:47
Alignment explanation
Indices: 4657598--4657817 Score: 245
Period size: 46 Copynumber: 4.8 Consensus size: 47
4657588 TTTGGGCATT
*
4657598 CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC
* * * *** * * * * *
4657644 TGAA-ATCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCATC
1 CGAAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACGTC
4657691 CG-AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-C
1 CGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC
*
4657736 CCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-C
1 CGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC
* *
4657782 CTAAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4657818 GCGGGTTACA
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
45 2 0.01
46 110 0.77
47 31 0.22
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (47 bp):
CGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC
Found at i:4657751 original size:93 final size:93
Alignment explanation
Indices: 4657592--4657763 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
4657582 AGGATATTTG
* * **
4657592 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAAATCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAAATCGTTGAG
*
4657657 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
4657685 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-ATCGTTGA
4657749 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
4657764 ACTTATGGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAAATCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:4660798 original size:15 final size:15
Alignment explanation
Indices: 4660778--4660846 Score: 93
Period size: 15 Copynumber: 4.6 Consensus size: 15
4660768 ATATCTTGGG
4660778 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
4660793 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
*
4660808 TTTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
4660823 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
4660838 TTTCTTTAT
1 TTTCTTTAT
4660847 TCGGTTTTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:4660847 original size:30 final size:30
Alignment explanation
Indices: 4660769--4660856 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
4660759 CATAGTATCA
* * * *
4660769 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
4660799 TAT-TCTGGATTTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
4660829 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
4660857 TGTTATCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.16
30 42 0.82
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:4663280 original size:46 final size:45
Alignment explanation
Indices: 4663227--4663491 Score: 236
Period size: 46 Copynumber: 5.7 Consensus size: 45
4663217 TGGGCATCCA
4663227 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
4663273 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* *** * *
4663320 AGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* *
4663367 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
4663412 AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCT
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
4663458 AAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4663492 GCGGGTTACA
Statistics
Matches: 196, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 4 0.02
46 104 0.53
47 79 0.40
48 1 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:4663338 original size:47 final size:47
Alignment explanation
Indices: 4663269--4663391 Score: 237
Period size: 47 Copynumber: 2.6 Consensus size: 47
4663259 GATGCGAATG
*
4663269 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
4663316 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
4663363 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
4663392 ACTTATGGAT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:4665182 original size:23 final size:24
Alignment explanation
Indices: 4665151--4665195 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4665141 TAATTGTATA
*
4665151 TATTAATTAAAATA-TATTTTATT
1 TATTAATTAAAAAATTATTTTATT
*
4665174 TATTTATTAAAAAATTATTTTA
1 TATTAATTAAAAAATTATTTTA
4665196 AATTTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTAATTAAAAAATTATTTTATT
Found at i:4676516 original size:62 final size:62
Alignment explanation
Indices: 4676448--4676617 Score: 286
Period size: 62 Copynumber: 2.7 Consensus size: 62
4676438 TTAAATTTAA
* * * *
4676448 TATTTATCTAGATTTTAATATGAGATATTAAATTAAATTTAATATTTATCTAGATAGTATTT
1 TATTTATTTAGATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAGACAATATTT
*
4676510 TATTTATTTAGATATTAATATGAGATATTAAATTAAATTAAATATTTATCTAGACAATATTT
1 TATTTATTTAGATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAGACAATATTT
*
4676572 TATTTATTTAGATATTAATATGAGATATTAAATTTAATTTAATATT
1 TATTTATTTAGATATTAATATGAGATATTAAATTAAATTTAATATT
4676618 AATGTGATTA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 101 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (62 bp):
TATTTATTTAGATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAGACAATATTT
Found at i:4679670 original size:21 final size:22
Alignment explanation
Indices: 4679641--4679681 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4679631 TTCATATATT
*
4679641 ATAACTAAAAT-TTTTTAACTA
1 ATAACTAAAATATGTTTAACTA
*
4679662 ATAATTAAAATATGTTTAAC
1 ATAACTAAAATATGTTTAAC
4679682 ATATTCTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAACTAAAATATGTTTAACTA
Found at i:4689706 original size:47 final size:47
Alignment explanation
Indices: 4689655--4689761 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 47
4689645 TTTAATATGA
* *
4689655 TCTATTTTCCATATATGT-TATTCTCTTTCC-TCTCTCATTTTTTATTC
1 TCTATTTTCCATATAT-TCTATTCTCTTTCCTTCTCT-ATATTTGATTC
** * *
4689702 TCTATTTTTTATATATTCTATTTTCTTTCCTTTTCTATATTTGATTC
1 TCTATTTTCCATATATTCTATTCTCTTTCCTTCTCTATATTTGATTC
*
4689749 TCTATTTCCCATA
1 TCTATTTTCCATA
4689762 AGTATTAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
46 1 0.02
47 44 0.90
48 4 0.08
ACGTcount: A:0.17, C:0.21, G:0.02, T:0.61
Consensus pattern (47 bp):
TCTATTTTCCATATATTCTATTCTCTTTCCTTCTCTATATTTGATTC
Found at i:4689710 original size:14 final size:15
Alignment explanation
Indices: 4689685--4689713 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4689675 TTCTCTTTCC
4689685 TCTCTCATTTTTTAT
1 TCTCTCATTTTTTAT
4689700 TCTCT-ATTTTTTAT
1 TCTCTCATTTTTTAT
4689714 ATATTCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TCTCTCATTTTTTAT
Found at i:4689950 original size:19 final size:19
Alignment explanation
Indices: 4689928--4689994 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 19
4689918 CTCTCTCTCG
4689928 TCTCTATCTTTCTCTCATA
1 TCTCTATCTTTCTCTCATA
*
4689947 TCTCT-T-TTTTTCTCAT-
1 TCTCTATCTTTCTCTCATA
* * *
4689963 CCTTATATTTTTCTCTCATA
1 TC-TCTATCTTTCTCTCATA
* *
4689983 TTTCTTTCTTTC
1 TCTCTATCTTTC
4689995 GTACTCTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 2 0.06
19 21 0.60
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (19 bp):
TCTCTATCTTTCTCTCATA
Found at i:4700329 original size:5 final size:5
Alignment explanation
Indices: 4700319--4700345 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4700309 TATAAGTAAT
4700319 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
4700346 ATAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:4700636 original size:21 final size:20
Alignment explanation
Indices: 4700595--4700639 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4700585 TCATGTTGAA
**
4700595 TAAATTGAAGAATTAGGAGT
1 TAAATTGAAGAATTACAAGT
*
4700615 TAAATTGATAGAATTTCAAGT
1 TAAATTGA-AGAATTACAAGT
4700636 TAAA
1 TAAA
4700640 AGTGAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.33
Consensus pattern (20 bp):
TAAATTGAAGAATTACAAGT
Found at i:4708900 original size:17 final size:18
Alignment explanation
Indices: 4708867--4708900 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4708857 ATCAATAATT
*
4708867 CCACAATATTCAACACAA
1 CCACAATATTAAACACAA
4708885 CCACAAT-TTAAACACA
1 CCACAATATTAAACACA
4708901 CGGTTTCCTA
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:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (18 bp):
CCACAATATTAAACACAA
Found at i:4711731 original size:2 final size:2
Alignment explanation
Indices: 4711726--4711757 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4711716 TGTTTTTTTC
4711726 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4711758 TATATATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4713320 original size:3 final size:3
Alignment explanation
Indices: 4713312--4713475 Score: 106
Period size: 3 Copynumber: 54.7 Consensus size: 3
4713302 ATAGTATGAC
* * * *
4713312 AAT AAT AAT AAT AGT AAC AAA AAT AAT AAT AAC AA- ATAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * *
4713356 ATAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT GAC AGT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
4713402 ACA- AAT AAA AAC AAT AGT AAC AAC AAT AAT AGA- AAT AAT AAT ACT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
4713447 CAA- AAT AAT AAT AA- ACAT AAT AAT AAT AA
1 -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA
4713476 ATATAAGACT
Statistics
Matches: 126, Mismatches: 23, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
2 7 0.06
3 113 0.90
4 6 0.05
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:4713336 original size:18 final size:19
Alignment explanation
Indices: 4713300--4713342 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4713290 CTAATTAATT
*
4713300 TAATAGTATGACAATAATAA
1 TAATAGTA-GACAAAAATAA
4713320 TAATAGTA-ACAAAAATAA
1 TAATAGTAGACAAAAATAA
4713338 TAATA
1 TAATA
4713343 ACAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.64
20 8 0.36
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (19 bp):
TAATAGTAGACAAAAATAA
Found at i:4714939 original size:47 final size:47
Alignment explanation
Indices: 4714830--4714940 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
4714820 TCGGGATAAG
* *
4714830 CACATAGTGCTTCATCGGAACAAATCCGGGACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
4714877 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
4714924 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
4714941 ACTCAAGGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:4718732 original size:24 final size:27
Alignment explanation
Indices: 4718703--4718752 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
4718693 CATTATAATA
4718703 TTTATA-TA-ATTAAAATAT-TCATAT
1 TTTATATTATATTAAAATATGTCATAT
*
4718727 TTTATATTATGTTAAAATATGTCATA
1 TTTATATTATATTAAAATATGTCATA
4718753 AGTTCATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 9 0.41
27 5 0.23
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (27 bp):
TTTATATTATATTAAAATATGTCATAT
Found at i:4719129 original size:18 final size:18
Alignment explanation
Indices: 4719098--4719145 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4719088 ATATATAAAG
*
4719098 AATATTATATAAAATT-T
1 AATATTAAATAAAATTGT
*
4719115 ATTATTGAAATAAAATTGT
1 AATATT-AAATAAAATTGT
4719134 AATATTAAATAA
1 AATATTAAATAA
4719146 TTTATCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 5 0.19
18 15 0.58
19 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATAAAATTGT
Found at i:4719466 original size:26 final size:25
Alignment explanation
Indices: 4719414--4719470 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
4719404 AGTTGTATTA
* * * *
4719414 TTTTTTATTTTTAAAGAATTTTTAT
1 TTTTTTATTTTTAAAAAAATATAAT
4719439 TTTTTTCATTTTTAAAAAAATATAAT
1 TTTTTT-ATTTTTAAAAAAATATAAT
4719465 TTTTTT
1 TTTTTT
4719471 GTTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTTATTTTTAAAAAAATATAAT
Found at i:4719467 original size:25 final size:25
Alignment explanation
Indices: 4719413--4719477 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
4719403 CAGTTGTATT
** *
4719413 ATTTTTTATTTTTAAAGAATTTTTA
1 ATTTTTTATTTTTAAAGAAAATATA
*
4719438 TTTTTTTCATTTTTAAA-AAAATATA
1 ATTTTTT-ATTTTTAAAGAAAATATA
*
4719463 ATTTTTT-TGTTTAAA
1 ATTTTTTATTTTTAAA
4719478 ATAAGTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 7 0.21
25 17 0.52
26 9 0.27
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (25 bp):
ATTTTTTATTTTTAAAGAAAATATA
Found at i:4728331 original size:31 final size:32
Alignment explanation
Indices: 4728296--4728355 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
4728286 TATTTTGTAC
*
4728296 TTAATTGAGCCA-TTGAACGTTAAAATTATAA
1 TTAATTAAGCCATTTGAACGTTAAAATTATAA
* * *
4728327 TTAATTAAGTCATTTGACCTTTAAAATTA
1 TTAATTAAGCCATTTGAACGTTAAAATTA
4728356 ACGATCAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 10 0.42
32 14 0.58
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (32 bp):
TTAATTAAGCCATTTGAACGTTAAAATTATAA
Found at i:4728660 original size:16 final size:16
Alignment explanation
Indices: 4728600--4728660 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
4728590 CATAACTTGT
*
4728600 AAAATATAAAATTTGTA
1 AAAATATAAAA-TTATA
* * *
4728617 AAAATTATGATATTTTA
1 AAAA-TATAAAATTATA
* *
4728634 AATATAGAAAATTATA
1 AAAATATAAAATTATA
4728650 AAAATATAAAA
1 AAAATATAAAA
4728661 ATTAATGAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
16 17 0.52
17 11 0.33
18 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
AAAATATAAAATTATA
Found at i:4729170 original size:9 final size:8
Alignment explanation
Indices: 4729146--4729202 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 8
4729136 CAATTTTCTA
4729146 TATATTTT
1 TATATTTT
*
4729154 AATAATTTT
1 TAT-ATTTT
4729163 CTATATTTT
1 -TATATTTT
4729172 TAATATTTT
1 T-ATATTTT
*
4729181 TATTTTTT
1 TATATTTT
*
4729189 TATAATTTA
1 TAT-ATTTT
4729198 TATAT
1 TATAT
4729203 CATGTTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 14 0.35
9 24 0.60
10 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
TATATTTT
Found at i:4729236 original size:21 final size:21
Alignment explanation
Indices: 4729212--4729268 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4729202 TCATGTTAAT
*
4729212 AATTTTTAATATTTTTTCTCC
1 AATTTTTAATATATTTTCTCC
*
4729233 AATTTTTTATATATTTTCT-C
1 AATTTTTAATATATTTTCTCC
* *
4729253 -ATTTTAAATAAATTTT
1 AATTTTTAATATATTTT
4729269 GTAGTTTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 13 0.42
20 1 0.03
21 17 0.55
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTTTAATATATTTTCTCC
Found at i:4729363 original size:20 final size:20
Alignment explanation
Indices: 4729316--4729397 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
4729306 TTTCTTCTAT
*
4729316 TTTTTATA-ATCTTTAA-AA
1 TTTTTATATATTTTTAATAA
* *
4729334 TGTTTAATATGTTTTTAATAA
1 T-TTTTATATATTTTTAATAA
*
4729355 TTTTTATATATTTGT-ATGAA
1 TTTTTATATATTTTTAAT-AA
4729375 TTTTTATA-A-TTTTAATAAA
1 TTTTTATATATTTTTAAT-AA
4729394 TTTT
1 TTTT
4729398 CAATAATTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 4 0.08
19 17 0.33
20 27 0.53
21 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTTATATATTTTTAATAA
Found at i:4730066 original size:15 final size:15
Alignment explanation
Indices: 4730040--4730077 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4730030 TTTGATGAAA
*
4730040 TTAATA-TTATTTTT
1 TTAATATTTATTTTC
4730054 TTAATATTTATTTTC
1 TTAATATTTATTTTC
4730069 TTAA-ATTTA
1 TTAATATTTA
4730078 GTCTATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTAATATTTATTTTC
Found at i:4743767 original size:7 final size:7
Alignment explanation
Indices: 4743756--4743806 Score: 84
Period size: 7 Copynumber: 7.3 Consensus size: 7
4743746 ATGCATCCCT
*
4743756 CAACATT
1 CAACATG
*
4743763 CAACATT
1 CAACATG
4743770 CAACATG
1 CAACATG
4743777 CAACATG
1 CAACATG
4743784 CAACATG
1 CAACATG
4743791 CAACATG
1 CAACATG
4743798 CAACATG
1 CAACATG
4743805 CA
1 CA
4743807 TGCATGCATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (7 bp):
CAACATG
Found at i:4746678 original size:17 final size:16
Alignment explanation
Indices: 4746645--4746678 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4746635 TCTAATAGTA
4746645 TATATTTTTATAAATT
1 TATATTTTTATAAATT
*
4746661 TATATTTTATATATATT
1 TATATTTT-TATAAATT
4746678 T
1 T
4746679 TAAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATTTTTATAAATT
Found at i:4746692 original size:25 final size:25
Alignment explanation
Indices: 4746643--4746693 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
4746633 CTTCTAATAG
*
4746643 TATATATTTTTATAAATTTATATTT
1 TATATATTTTTATAAATATATATTT
*
4746668 TATATATATTTTA-AAATA-ATAATT
1 TATATAT-TTTTATAAATATATATTT
4746692 TA
1 TA
4746694 AAATATGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 11 0.48
26 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATATATTTTTATAAATATATATTT
Found at i:4749154 original size:20 final size:20
Alignment explanation
Indices: 4749096--4749158 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 20
4749086 TCCATTAAAT
* * *
4749096 TATTAAATGTCATAAAATAT
1 TATTAAATATTATAAAATAC
* *
4749116 TA-AAAAAATT-TAAAA-AC
1 TATTAAATATTATAAAATAC
4749133 TATTAAATATTATAAAATAC
1 TATTAAATATTATAAAATAC
4749153 TATTAA
1 TATTAA
4749159 TAATTTATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 3 0.09
18 11 0.33
19 9 0.27
20 10 0.30
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
TATTAAATATTATAAAATAC
Found at i:4757303 original size:26 final size:25
Alignment explanation
Indices: 4757254--4757310 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
4757244 ATTAAAAAAG
*
4757254 AAAAAAAAATTATGAAAGATAAGGGA
1 AAAAAAAAATTATGAAAAATAA-GGA
4757280 AATAAAAAAA-TA-GAAAAATTAAGGA
1 AA-AAAAAAATTATGAAAAA-TAAGGA
4757305 AAAAAA
1 AAAAAA
4757311 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 4 0.14
25 10 0.36
26 7 0.25
27 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (25 bp):
AAAAAAAAATTATGAAAAATAAGGA
Found at i:4764250 original size:3 final size:3
Alignment explanation
Indices: 4764244--4764270 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4764234 TAAGGAAAAA
4764244 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
4764271 CAAACCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4764571 original size:17 final size:17
Alignment explanation
Indices: 4764549--4764586 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
4764539 TTAGTCTATG
4764549 TAATTTA-TTTTTATTT
1 TAATTTAGTTTTTATTT
4764565 ATAATTTAGTTTTTATTT
1 -TAATTTAGTTTTTATTT
4764583 TAAT
1 TAAT
4764587 AATATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TAATTTAGTTTTTATTT
Found at i:4765185 original size:17 final size:17
Alignment explanation
Indices: 4765163--4765195 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4765153 GTTTACTTTC
4765163 TTATATAATT-TTTAAAT
1 TTATAT-ATTATTTAAAT
4765180 TTATATATTATTTAAA
1 TTATATATTATTTAAA
4765196 AATTAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATATTATTTAAAT
Found at i:4774134 original size:21 final size:21
Alignment explanation
Indices: 4774109--4774168 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
4774099 AAAAATAGCA
*
4774109 GTAGCGGTGAGATCAG-TTATT
1 GTAGCGGTGAGAT-AGAATATT
*
4774130 GTAGCGGTGAGATTGAATATT
1 GTAGCGGTGAGATAGAATATT
4774151 GTAGCGGTGAGATTAGAA
1 GTAGCGGTGAGA-TAGAA
4774169 ACAATGGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.85
22 4 0.12
ACGTcount: A:0.28, C:0.07, G:0.35, T:0.30
Consensus pattern (21 bp):
GTAGCGGTGAGATAGAATATT
Found at i:4776237 original size:32 final size:32
Alignment explanation
Indices: 4776169--4776297 Score: 186
Period size: 32 Copynumber: 4.0 Consensus size: 32
4776159 CATAAAAAAT
4776169 ATCATACATTAGTTTTACATATAAAAAAAGTAG
1 ATCATACATTAGTTTTACATAT-AAAAAAGTAG
* * *
4776202 ATCATACATTAGGTTTACATATAACAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
***
4776234 ATCATACATTAGTTTTGTGTATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
4776266 ATAATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
4776298 TATAGTTATA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
32 62 0.75
33 21 0.25
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.35
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:4777657 original size:30 final size:30
Alignment explanation
Indices: 4777623--4777685 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
4777613 ATTTATTTTA
4777623 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
4777653 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
4777683 TTG
1 TTG
4777686 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:4779353 original size:35 final size:34
Alignment explanation
Indices: 4779307--4779405 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 34
4779297 TTTGGTACCT
4779307 ATACAAGTAGAAATCTCAATGTTAAGTACAGACCC
1 ATACAAGTAGAAATCTCAATGTT-AGTACAGACCC
4779342 ATACAAGTAGAAATCTC-A-GCTT-G--CA-ACCC
1 ATACAAGTAGAAATCTCAATG-TTAGTACAGACCC
*
4779371 ATACAAGTAGAAATCTCAATGTTAGGTATAGACCC
1 ATACAAGTAGAAATCTCAATGTTA-GTACAGACCC
4779406 CCAACATTCC
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
29 21 0.38
30 5 0.09
31 1 0.02
32 2 0.04
33 1 0.02
34 4 0.07
35 21 0.38
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (34 bp):
ATACAAGTAGAAATCTCAATGTTAGTACAGACCC
Found at i:4779529 original size:21 final size:21
Alignment explanation
Indices: 4779503--4779545 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4779493 AACCAAAGGG
4779503 ATAAATTTCAGCTTAACACTT
1 ATAAATTTCAGCTTAACACTT
4779524 ATAAATTTCAGCTTAACACTT
1 ATAAATTTCAGCTTAACACTT
4779545 A
1 A
4779546 CAATCATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (21 bp):
ATAAATTTCAGCTTAACACTT
Found at i:4784180 original size:12 final size:12
Alignment explanation
Indices: 4784163--4784188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4784153 ACCACGTGGA
4784163 AATTACGTGGCC
1 AATTACGTGGCC
4784175 AATTACGTGGCC
1 AATTACGTGGCC
4784187 AA
1 AA
4784189 AATATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (12 bp):
AATTACGTGGCC
Found at i:4784282 original size:13 final size:13
Alignment explanation
Indices: 4784264--4784288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4784254 AACACTTCAA
4784264 TAATTATTTTATG
1 TAATTATTTTATG
4784277 TAATTATTTTAT
1 TAATTATTTTAT
4784289 AGTCTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TAATTATTTTATG
Found at i:4788964 original size:17 final size:17
Alignment explanation
Indices: 4788942--4788974 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4788932 TTTGGGAAAC
*
4788942 ATTTTAGGTTTGGGTTG
1 ATTTTAGGTTCGGGTTG
4788959 ATTTTAGGTTCGGGTT
1 ATTTTAGGTTCGGGTT
4788975 CAAGTTGTGT
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:0.12, C:0.03, G:0.33, T:0.52
Consensus pattern (17 bp):
ATTTTAGGTTCGGGTTG
Found at i:4789174 original size:16 final size:16
Alignment explanation
Indices: 4789153--4789192 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
4789143 TAATTTCAAT
4789153 TTCATGTTAACGTGGG
1 TTCATGTTAACGTGGG
* *
4789169 TTCATGTCAACTTGGG
1 TTCATGTTAACGTGGG
4789185 TT-ATGTTA
1 TTCATGTTA
4789193 GAGGTTTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (16 bp):
TTCATGTTAACGTGGG
Found at i:4792376 original size:35 final size:35
Alignment explanation
Indices: 4792336--4792406 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
4792326 GCAAAGTTGG
4792336 TTCTGGGATTTAGTTCTTAGTATTGATTCAAAAGT
1 TTCTGGGATTTAGTTCTTAGTATTGATTCAAAAGT
4792371 TTCTGGGATTTAGTTCTTAGTATTGATTCAAAAGT
1 TTCTGGGATTTAGTTCTTAGTATTGATTCAAAAGT
4792406 T
1 T
4792407 CAACAATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.46
Consensus pattern (35 bp):
TTCTGGGATTTAGTTCTTAGTATTGATTCAAAAGT
Found at i:4804076 original size:38 final size:38
Alignment explanation
Indices: 4804033--4804105 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
4804023 AAGCAAAAAG
4804033 TTAGACATTTAAACCAGATTAAATTCAATTTAAAACAA
1 TTAGACATTTAAACCAGATTAAATTCAATTTAAAACAA
4804071 TTAGACATTTAAACCAGATTAAATTCAATTTAAAA
1 TTAGACATTTAAACCAGATTAAATTCAATTTAAAA
4804106 TAATCTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.33
Consensus pattern (38 bp):
TTAGACATTTAAACCAGATTAAATTCAATTTAAAACAA
Found at i:4806481 original size:5 final size:5
Alignment explanation
Indices: 4806471--4806497 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4806461 AATCCTTCAC
4806471 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
4806498 ATTTACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:4806612 original size:19 final size:19
Alignment explanation
Indices: 4806588--4806626 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4806578 ACCATTGATA
4806588 GATGATAGCACTAAGATTG
1 GATGATAGCACTAAGATTG
* *
4806607 GATGATAGTACTAATATTG
1 GATGATAGCACTAAGATTG
4806626 G
1 G
4806627 TAACAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (19 bp):
GATGATAGCACTAAGATTG
Found at i:4809124 original size:2 final size:2
Alignment explanation
Indices: 4809119--4809151 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4809109 GGGTGATGCT
*
4809119 GA GA GA GA GT GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4809152 GAAACTAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.03
Consensus pattern (2 bp):
GA
Found at i:4814296 original size:31 final size:31
Alignment explanation
Indices: 4814242--4814300 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4814232 TTTTTAATTT
4814242 TTTAAAAATATTTATATTATTTTAATTTAATA
1 TTTAAAAATATTTATATTATTTT-ATTTAATA
*
4814274 TTTAATAAT-TTTATA-TATTTTTATTTA
1 TTTAAAAATATTTATATTA-TTTTATTTA
4814301 TTAAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 7 0.28
31 10 0.40
32 8 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTAAAAATATTTATATTATTTTATTTAATA
Found at i:4814412 original size:5 final size:5
Alignment explanation
Indices: 4814402--4814433 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
4814392 AAAATATATA
4814402 AAGAT AAGAT AAGAT AAGAT AAGAT AAGAT AA
1 AAGAT AAGAT AAGAT AAGAT AAGAT AAGAT AA
4814434 AAGTATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AAGAT
Found at i:4815654 original size:23 final size:23
Alignment explanation
Indices: 4815624--4815669 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4815614 ATTATTACAA
4815624 AAAGCAAACAGTACTATAGACAT
1 AAAGCAAACAGTACTATAGACAT
4815647 AAAGCAAACAGTACTATAGACAT
1 AAAGCAAACAGTACTATAGACAT
4815670 CATTACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.17
Consensus pattern (23 bp):
AAAGCAAACAGTACTATAGACAT
Found at i:4815662 original size:54 final size:54
Alignment explanation
Indices: 4815592--4815704 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
4815582 CAAATAGTAC
* *
4815592 TAAAGCAGACAATACTATACACATTATTACAAAAAGCAAACAGTACTATAGACA
1 TAAAGCAAACAATACTATACACATCATTACAAAAAGCAAACAGTACTATAGACA
* * * *
4815646 TAAAGCAAACAGTACTATAGACATCATTACATAAAGCAAACAGTATTATAGACA
1 TAAAGCAAACAATACTATACACATCATTACAAAAAGCAAACAGTACTATAGACA
4815700 TAAAG
1 TAAAG
4815705 TAGCTGATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.21
Consensus pattern (54 bp):
TAAAGCAAACAATACTATACACATCATTACAAAAAGCAAACAGTACTATAGACA
Found at i:4824639 original size:18 final size:17
Alignment explanation
Indices: 4824592--4824670 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
4824582 TTAATATATA
4824592 TATAAATATATTATTTAAT
1 TATAAATATATTA-TT-AT
4824611 TATAAAGTATATTATTAT
1 TATAAA-TATATTATTAT
*
4824629 TGTAAAT-TA-TATTAAT
1 TATAAATATATTATT-AT
*
4824645 TAT-ATTATATTATTATAT
1 TATAAATATATTA-T-TAT
4824663 TATAAATA
1 TATAAATA
4824671 AACCAAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
15 6 0.12
16 8 0.16
17 3 0.06
18 13 0.27
19 12 0.24
20 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAAATATATTATTAT
Found at i:4824661 original size:13 final size:14
Alignment explanation
Indices: 4824634--4824666 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
4824624 ATTATTGTAA
4824634 ATTATATTAATTAT
1 ATTATATTAATTAT
4824648 ATTATATT-ATTAT
1 ATTATATTAATTAT
4824661 ATTATA
1 ATTATA
4824667 AATAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATATTAATTAT
Found at i:4824669 original size:34 final size:36
Alignment explanation
Indices: 4824586--4824669 Score: 86
Period size: 38 Copynumber: 2.3 Consensus size: 36
4824576 ATGTTTTTAA
*
4824586 TATATATATAAA-TATATTATTTAATTATAAAGTATAT
1 TATAT-TATAAATTATATTAATTAATTAT-AAGTATAT
*
4824623 TATTATTGTAAATTATATTAATTATATTAT-A-T-TAT
1 TA-TATTATAAATTATATTAATTA-ATTATAAGTATAT
4824658 TATATTATAAAT
1 TATATTATAAAT
4824670 AAACCAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
34 9 0.22
35 5 0.12
36 1 0.02
37 8 0.20
38 13 0.32
39 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (36 bp):
TATATTATAAATTATATTAATTAATTATAAGTATAT
Found at i:4824841 original size:19 final size:19
Alignment explanation
Indices: 4824817--4824867 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4824807 TAAACTAATT
* *
4824817 AAATAAAGGAAATAAAAAG
1 AAATAAAAGAAAGAAAAAG
*
4824836 AAATAAAAGATAGAAAAAG
1 AAATAAAAGAAAGAAAAAG
*
4824855 AGATAAATAGAAA
1 AAATAAA-AGAAA
4824868 CATAATAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.12
Consensus pattern (19 bp):
AAATAAAAGAAAGAAAAAG
Found at i:4825749 original size:32 final size:32
Alignment explanation
Indices: 4825708--4825769 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
4825698 GGGTGCCGTG
4825708 CTGGTGTGTTGGTTGGATCCGTGTATCCGTTA
1 CTGGTGTGTTGGTTGGATCCGTGTATCCGTTA
4825740 CTGGTGTGTTGGTTGGATCCGTGTATCCGT
1 CTGGTGTGTTGGTTGGATCCGTGTATCCGT
4825770 CAATATCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.08, C:0.16, G:0.35, T:0.40
Consensus pattern (32 bp):
CTGGTGTGTTGGTTGGATCCGTGTATCCGTTA
Found at i:4825885 original size:18 final size:18
Alignment explanation
Indices: 4825823--4825885 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
4825813 TCACTGACTA
* * *
4825823 TTACTAAATAATTAATTA
1 TTACTGAATAATTGATTG
* *
4825841 TTACTGAACAACTGATTG
1 TTACTGAATAATTGATTG
*
4825859 CTACTGAATAATTGATTG
1 TTACTGAATAATTGATTG
4825877 TTACTGAAT
1 TTACTGAAT
4825886 GATATTAGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:4825916 original size:18 final size:19
Alignment explanation
Indices: 4825895--4825932 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4825885 TGATATTAGT
*
4825895 AAATTGATTGATATTGAAA
1 AAATTGACTGATATTGAAA
4825914 AATATTGACTGATATTGAA
1 AA-ATTGACTGATATTGAA
4825933 CAATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.37
Consensus pattern (19 bp):
AAATTGACTGATATTGAAA
Found at i:4827656 original size:11 final size:11
Alignment explanation
Indices: 4827632--4827662 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
4827622 ATTTTACTGC
4827632 AAATATACATAA
1 AAATATA-ATAA
4827644 AAATATAATAA
1 AAATATAATAA
4827655 AAATATAA
1 AAATATAA
4827663 AAAGCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATATAATAA
Found at i:4827674 original size:10 final size:10
Alignment explanation
Indices: 4827661--4827685 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4827651 ATAAAAATAT
4827661 AAAAAGCAAA
1 AAAAAGCAAA
4827671 AAAAAGCAAA
1 AAAAAGCAAA
4827681 AAAAA
1 AAAAA
4827686 TTAGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGCAAA
Found at i:4827793 original size:16 final size:16
Alignment explanation
Indices: 4827774--4827809 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4827764 CTTTTCCCCC
4827774 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
4827790 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
4827806 CTCT
1 CTCT
4827810 TTCTTCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:4828280 original size:22 final size:19
Alignment explanation
Indices: 4828234--4828281 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
4828224 GTATTTATTA
4828234 TTAT-TATAGATCTTATAT
1 TTATGTATAGATCTTATAT
*
4828252 TTATGTATATATCTTAATAT
1 TTATGTATAGATCTT-ATAT
4828272 GTATATGTAT
1 -T-TATGTAT
4828282 GTATGTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 4 0.16
21 1 0.04
22 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (19 bp):
TTATGTATAGATCTTATAT
Found at i:4832096 original size:44 final size:44
Alignment explanation
Indices: 4832046--4832186 Score: 146
Period size: 44 Copynumber: 3.2 Consensus size: 44
4832036 AGATTTGCTT
*
4832046 TCTTCGATCCACTCCCTACCACTATAGGGAGACAGGACCTGTTA
1 TCTTCGATCCACTCCCTACCACTAAAGGGAGACAGGACCTGTTA
* * * * * **
4832090 TCTTCGATCTACTTCACGCTA--A-TACATGAAGACAAGATTTGCTT-
1 TCTTCGATCCAC-TC-C-CTACCACTAAAGGGAGACAGGACCTG-TTA
4832134 TCTTCGATCCACTCCCTACCACTAAAGGGAGACAGGACCTGTTA
1 TCTTCGATCCACTCCCTACCACTAAAGGGAGACAGGACCTGTTA
4832178 TCTTCGATC
1 TCTTCGATC
4832187 TACTTCACGC
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 5 0.07
44 57 0.76
45 5 0.07
46 1 0.01
47 3 0.04
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (44 bp):
TCTTCGATCCACTCCCTACCACTAAAGGGAGACAGGACCTGTTA
Found at i:4832362 original size:132 final size:132
Alignment explanation
Indices: 4832205--4833203 Score: 1757
Period size: 132 Copynumber: 7.6 Consensus size: 132
4832195 GCCAATACAT
* * * * * * * *
4832205 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAAGAAGACAGGACCAGCCATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
* * **
4832270 GATCTACTTCACGCCAATACGTGAAGATAAGATCT-TCTTTCTTTGATCTACTTCGCCACCAATA
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGT-TTTCTGCGATCTACTTCGCCACCAATA
4832334 TGG
130 TGG
* * * * *
4832337 AAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
4832402 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
4832467 GG
131 GG
*
4832469 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACTTGCTATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
4832534 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
4832599 GG
131 GG
*
4832601 GAAGACCAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
* *
4832666 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGTCACAAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
4832731 GG
131 GG
*
4832733 AAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
4832798 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
4832863 GG
131 GG
*
4832865 GAAGACCAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
4832930 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
4832995 GG
131 GG
*
4832997 GAAGACCAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
4833062 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
4833127 GG
131 GG
*
4833129 GAAGACCAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
4833194 GATCTACTTC
66 GATCTACTTC
4833204 TTGCCCCGGG
Statistics
Matches: 841, Mismatches: 25, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
132 840 1.00
133 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (132 bp):
GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT
GG
Found at i:4833546 original size:132 final size:134
Alignment explanation
Indices: 4833211--4834387 Score: 1895
Period size: 132 Copynumber: 8.8 Consensus size: 134
4833201 TTCTTGCCCC
** * * * * * * *
4833211 GGGAGATAGAACTATCAGCTTCAAAGTACGCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
4833276 AACCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
4833341 TACA
131 TACA
* * * *
4833345 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTACCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4833410 GATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
4833474 -CCA
131 TACA
* *
4833477 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTATAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4833542 GATCTGCTTTGCTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
4833606 -CCA
131 TACA
* *
4833609 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAAGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
4833674 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
4833739 TACA
131 TACA
* * * *
4833743 GGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4833808 GATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
4833872 -CCA
131 TACA
*
4833875 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4833940 GATCTGCTTTGCTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
4834004 -CCA
131 TACA
*
4834007 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4834072 GATCTGCTTTGCTGCTAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
4834137 TACA
131 TACA
* * *
4834141 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* *
4834206 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
4834271 TACA
131 TACA
4834275 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
4834340 GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG-ATATCTTCAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCA-ATCTTCAA
4834388 CCAGCTCTGC
Statistics
Matches: 981, Mismatches: 57, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
132 502 0.51
133 9 0.01
134 470 0.48
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (134 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:4833735 original size:46 final size:46
Alignment explanation
Indices: 4833685--4833871 Score: 125
Period size: 46 Copynumber: 4.2 Consensus size: 46
4833675 ATCTGCTTTG
*
4833685 CTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * * * * *
4833731 CTGCCAAATACAGGGAGATAGAGTTAT-CGA-CTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
*** * * * * ** * *
4833776 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
*
4833819 CTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
4833865 CTGCCAA
1 CTGCCAA
4833872 CCAGGGAGAT
Statistics
Matches: 98, Mismatches: 35, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
41 3 0.03
42 11 0.11
43 11 0.11
44 1 0.01
45 19 0.19
46 49 0.50
47 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:4833747 original size:266 final size:266
Alignment explanation
Indices: 4833211--4834387 Score: 1887
Period size: 266 Copynumber: 4.4 Consensus size: 266
4833201 TTCTTGCCCC
** * * * * * * *
4833211 GGGAGATAGAACTATCAGCTTCAAAGTACGCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
4833276 AACCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
* *
4833341 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTACCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
*
4833406 CTTTGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
196 CTTCGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
*
4833471 CAACCA
261 CAAACA
* *
4833477 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTATAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4833542 GATCTGCTTTGCTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
* * * *
4833606 -CCAGGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAAGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
*
4833670 CTTCGATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
196 CTTCGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
4833735 CAAATACA
261 C-AA-ACA
* * * *
4833743 GGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4833808 GATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
* * *
4833872 -CCAGGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
* *
4833936 CTTCGATCTGCTTTGCTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGC
196 CTTCGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
*
4834001 CAACCA
261 CAAACA
*
4834007 GGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
4834072 GATCTGCTTTGCTGCTAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
4834137 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
* *
4834202 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
196 CTTCGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
4834267 CAAATACA
261 C-AA-ACA
4834275 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
4834340 GATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG-ATATCTTCAA
66 GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCA-ATCTTCAA
4834388 CCAGCTCTGC
Statistics
Matches: 848, Mismatches: 56, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
264 244 0.29
265 8 0.01
266 485 0.57
267 3 0.00
268 108 0.13
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (266 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTTGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
CTTCGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
CAAACA
Found at i:4833947 original size:398 final size:398
Alignment explanation
Indices: 4833228--4834387 Score: 2097
Period size: 398 Copynumber: 2.9 Consensus size: 398
4833218 AGAACTATCA
* * * * * * * *
4833228 GCTTCAAAGTACGCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAACCTGCTTTGCTGCCA
1 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTGCCA
*
4833293 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
66 AATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
*
4833358 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTTCGCT
131 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
4833423 GCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAG
196 GCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAG
*
4833488 TTATTGGCTTCAATGTACTCCTCTATAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTG
261 TTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTG
4833553 CTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAG
326 CTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAG
4833618 AGTTATTG
391 AGTTATTG
*
4833626 GCTTCAATGTACTCCTCTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTGCCA
1 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTGCCA
4833691 AATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
66 AATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
*
4833756 ATCGACTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
131 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
4833821 GCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAG
196 GCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAG
4833886 TTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTG
261 TTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTG
4833951 CTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAG
326 CTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAG
4834016 AGTTATTG
391 AGTTATTG
*
4834024 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTGCTA
1 GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTGCCA
4834089 AATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
66 AATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
4834154 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
131 ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
* *
4834219 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
196 GCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA-CCAGGGAGATAG
*
4834284 AGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT
259 AGTTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT
* * * *
4834349 CGCTGCCAAATACAGGAAAGCAAGATCTG-ATATCTTCAA
324 TGCTGCCAAATATAGGAAGGTAAGATCTGCA-ATCTTCAA
4834388 CCAGCTCTGC
Statistics
Matches: 736, Mismatches: 23, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
398 625 0.85
399 3 0.00
400 108 0.15
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (398 bp):
GCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTGCTGCCA
AATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCT
GCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAG
TTATTGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTTG
CTGCCAAATATAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAG
AGTTATTG
Found at i:4834138 original size:46 final size:46
Alignment explanation
Indices: 4834083--4834276 Score: 130
Period size: 46 Copynumber: 4.3 Consensus size: 46
4834073 ATCTGCTTTG
* *
4834083 CTGCTAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * * ** * *
4834129 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
*** * * * * ** * *
4834174 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
4834217 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
4834263 CTGCCAAATACAGG
1 CTGCCAAATACAGG
4834277 GAGATAGAGT
Statistics
Matches: 103, Mismatches: 37, Indels: 16
0.66 0.24 0.10
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 11 0.11
44 1 0.01
45 19 0.18
46 55 0.53
47 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:4834458 original size:86 final size:87
Alignment explanation
Indices: 4834337--4834506 Score: 252
Period size: 86 Copynumber: 2.0 Consensus size: 87
4834327 ATCTGCCATC
* *
4834337 TTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTACA
1 TTCGATCTACTTCGCTGCCAAATACAGGAAAGCAAGATCTGATAACTTCAACCAGCTCTGCTACA
4834402 AACGAGAGAGGCAAGGTTTGTA
66 AACGAGAGAGGCAAGGTTTGTA
* * * * * *
4834424 TTCGATCTACTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGTTGCG
1 TTCGATCTACTTCGCTGCCAAATACAGGAAAGCAAGATCTGATAACTTCAACCAGCTCTGCTACA
*
4834488 ACCGAGAGAGGCAAGGTTT
66 AACGAGAGAGGCAAGGTTT
4834507 ATCTTTAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 57 0.77
87 17 0.23
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (87 bp):
TTCGATCTACTTCGCTGCCAAATACAGGAAAGCAAGATCTGATAACTTCAACCAGCTCTGCTACA
AACGAGAGAGGCAAGGTTTGTA
Found at i:4838028 original size:19 final size:20
Alignment explanation
Indices: 4837988--4838031 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
4837978 GTTTCTTTTG
* *
4837988 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
4838007 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
4838026 GCATTA
1 GCATTA
4838032 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:4842369 original size:46 final size:46
Alignment explanation
Indices: 4842307--4842756 Score: 239
Period size: 46 Copynumber: 10.0 Consensus size: 46
4842297 ATAACTCTAT
*
4842307 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
4842353 CTTCCTGTATTTGGCAGT-GAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATCTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
*** * * ** * * *
4842399 CTCCCTG-A-C-AATAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
4842441 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * * *
4842487 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATCTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * ** * * *
4842533 CTCCCTGTGA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGT-ATCTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
4842577 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * * *
4842623 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATCTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
4842669 CTCTCTGTGA-CT-ACAGTAGAGTAGATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGT-ATCTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
4842713 CTCCCTGTATTTGGCAGTGAAATAGATTGAAGATTGCAGATCTT
1 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTT
4842757 GTCTTCCCAT
Statistics
Matches: 282, Mismatches: 98, Indels: 48
0.66 0.23 0.11
Matches are distributed among these distances:
41 3 0.01
42 10 0.04
43 18 0.06
44 27 0.10
45 77 0.27
46 133 0.47
47 14 0.05
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:4842470 original size:45 final size:45
Alignment explanation
Indices: 4842411--4842608 Score: 116
Period size: 45 Copynumber: 4.4 Consensus size: 45
4842401 CCCTGACAAT
* * *
4842411 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGC
1 AGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGGC
** * * * * *
4842456 AGTGGAATAGATTGAAGATTGCAGATCT-TGCCTTCCTGTATTTGGC
1 AGTGGAATAGATTGAAG-CCG-ATAACTCTACCTCCCTGTATCTGGC
* * * ** ** * * *
4842502 AG-CGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGA-CT-AC
1 AGTGGAA-TAGATTGAAGCCGATA-ACTCTACCTCCCTGT-ATCTGGC
* * *
4842547 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGC
1 AGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGGC
4842592 AGTGGAATAGATTGAAG
1 AGTGGAATAGATTGAAG
4842609 ATTGCAGATC
Statistics
Matches: 107, Mismatches: 37, Indels: 18
0.66 0.23 0.11
Matches are distributed among these distances:
43 1 0.01
44 15 0.14
45 49 0.46
46 37 0.35
47 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (45 bp):
AGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGGC
Found at i:4842637 original size:136 final size:134
Alignment explanation
Indices: 4842199--4842763 Score: 950
Period size: 136 Copynumber: 4.2 Consensus size: 134
4842189 GCAGAGCTGG
* * *
4842199 TTGAATATTGCAGATCTTGCCTTCTTGTATTTGGCAGTGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
4842264 CCTCCCTGACAATAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAA
4842329 TAGA
131 TAGA
*
4842333 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGTGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
4842398 CCTCCCTGACAATAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAA
4842463 TAGA
131 TAGA
*
4842467 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
4842532 CCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGG
66 CCTCCC--TGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGG
4842597 AATAGA
129 AATAGA
*
4842603 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* * * * * *
4842668 CCTCTCTGTGACTACAGTAGAGTAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGA
66 CCTC-C-CTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGG
4842733 AATAGA
129 AATAGA
*
4842739 TTGAAGATTGCAGATCTTGTCTTCC
1 TTGAAGATTGCAGATCTTGCCTTCC
4842764 CATATTGGTG
Statistics
Matches: 415, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
134 201 0.48
136 213 0.51
137 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAA
TAGA
Found at i:4842840 original size:44 final size:44
Alignment explanation
Indices: 4842735--4843326 Score: 475
Period size: 44 Copynumber: 13.5 Consensus size: 44
4842725 GGCAGTGAAA
* * ** *
4842735 TAGATTGAAGATTGCAGATCTTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* * * *
4842780 TAGATCGCAGAAAGCAGATCTTATCTTCATGTATTGG-CGTGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* * * * *
4842824 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCGGAAG
* ** *
4842868 TGGATCGAAGAT-GCAGATCTTGTCTTCCCAT-TTGGTGGCGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* *
4842911 TAGATC-ACAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAG
1 TAGATCGA-AGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* * ** * *
4842955 TAGATCGAAGATAGTAGGTCCGGTCTTCCTATATTGGTAGGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCGGAAG
* * * ** *
4842999 TGGATCGACGAT-GCAGATCTTATCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* * *
4843043 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* ** * *
4843087 TAGATCGAAGATAGCAGGTCCGGTCTTCCTATATTGGTAGGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCGGAAG
* * ** *
4843131 TGGATCGACGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* * *
4843175 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
* * * * * *
4843219 TAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCGGAAG
* * ** * *
4843263 TGGATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCG-GAAG
*
4843307 TAGATCGAAGAAAGCAGATC
1 TAGATCGAAGATAGCAGATC
4843327 GACGATGGCG
Statistics
Matches: 430, Mismatches: 102, Indels: 30
0.77 0.18 0.05
Matches are distributed among these distances:
42 7 0.02
43 89 0.21
44 249 0.58
45 85 0.20
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
TAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGTCGGAAG
Found at i:4843095 original size:132 final size:132
Alignment explanation
Indices: 4842741--4843326 Score: 994
Period size: 132 Copynumber: 4.4 Consensus size: 132
4842731 GAAATAGATT
*
4842741 GAAGATTGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTATCT
1 GAAGA-TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCT
* * *
4842806 TCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGG
65 TCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGATCTTCCTATATTGGTAGGAAGTGG
4842871 ATC
130 ATC
*
4842874 GAAGATGCAGATCTTGTCTTCCCAT-TTGGTGGCGAAGTAGATCACAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
* *
4842938 CATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGA
66 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGATCTTCCTATATTGGTAGGAAGTGGA
4843003 TC
131 TC
* *
4843005 GACGATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
*
4843070 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGA
66 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGATCTTCCTATATTGGTAGGAAGTGGA
4843135 TC
131 TC
*
4843137 GACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
* *
4843202 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGA
66 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGATCTTCCTATATTGGTAGGAAGTGGA
4843267 TC
131 TC
* * * * *
4843269 CAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATC
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
4843327 GACGATGGCG
Statistics
Matches: 431, Mismatches: 21, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
131 122 0.28
132 304 0.71
133 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (132 bp):
GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGATCTTCCTATATTGGTAGGAAGTGGA
TC
Found at i:4844660 original size:3 final size:3
Alignment explanation
Indices: 4844635--4844689 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
4844625 AGTTTTTAGT
* *
4844635 TTA TT- TTA TTA ATA -TA GTTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
4844679 TTA TTA TTA TT
1 TTA TTA TTA TT
4844690 TTTTTATACT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4849888 original size:14 final size:14
Alignment explanation
Indices: 4849869--4849898 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4849859 AAAGTAAAAG
4849869 AATAATAAATGAAT
1 AATAATAAATGAAT
4849883 AATAATAAATGAAT
1 AATAATAAATGAAT
4849897 AA
1 AA
4849899 ATAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
AATAATAAATGAAT
Found at i:4850574 original size:10 final size:9
Alignment explanation
Indices: 4850558--4850582 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4850548 ATCCCTTCTT
4850558 CAAAAAAAA
1 CAAAAAAAA
4850567 CAAAAAAAA
1 CAAAAAAAA
4850576 CAAAAAA
1 CAAAAAA
4850583 GCTCTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:4857333 original size:19 final size:18
Alignment explanation
Indices: 4857287--4857340 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
4857277 TGACAATCTT
*
4857287 TTTAAA-AAATAAAACATA
1 TTTAAAGAAACAAAA-ATA
*
4857305 -TTAAAGAAACCAAAATA
1 TTTAAAGAAACAAAAATA
4857322 TTTAAAGAAAACAAAAATA
1 TTTAAAG-AAACAAAAATA
4857341 AACCATGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 8 0.27
18 12 0.40
19 10 0.33
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (18 bp):
TTTAAAGAAACAAAAATA
Found at i:4860503 original size:31 final size:31
Alignment explanation
Indices: 4860468--4860528 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
4860458 TTGTAAAGTA
4860468 GTTTAAAGTGATAGAATAAAGTTTTAATTGG
1 GTTTAAAGTGATAGAATAAAGTTTTAATTGG
4860499 GTTTAAAGTGATAGAATAAAGTTTTAATTG
1 GTTTAAAGTGATAGAATAAAGTTTTAATTG
4860529 AGAAAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (31 bp):
GTTTAAAGTGATAGAATAAAGTTTTAATTGG
Found at i:4862038 original size:46 final size:46
Alignment explanation
Indices: 4861986--4862255 Score: 283
Period size: 46 Copynumber: 5.8 Consensus size: 46
4861976 GCTCTCTGAA
* * *
4861986 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGACAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
*
4862032 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
* *
4862078 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
** * * *
4862124 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC-ACATTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-CTAAT
** * ** * * *
4862170 GGGCAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
** * * *
4862217 A-GAAAACTAGTAAAACCATAGTTGAAAGATACTATGGCA
1 ATGAAATGT-GTAAGACCATGGTTGAAAGATACCATGGCA
4862256 TCATGTCGAA
Statistics
Matches: 197, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
45 5 0.03
46 152 0.77
47 38 0.19
48 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
Found at i:4862143 original size:92 final size:93
Alignment explanation
Indices: 4861981--4862255 Score: 315
Period size: 92 Copynumber: 3.0 Consensus size: 93
4861971 AGTGTGCTCT
* * * * * *
4861981 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATATCATGACAGCCTAATATGAAATGTGTAAG
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAGTAAG
4862046 ACCATGGTTGAAAGATACCATGGCAAC-
66 ACCATGGTTGAAAGATACCATGGCAACA
* * *
4862073 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAACATGAAATGAATAAG
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAGTAAG
4862138 ACCATGGTTGAAAGATACCATGGC-ACA
66 ACCATGGTTGAAAGATACCATGGCAACA
* *** * ** *
4862165 TTGACGGGCAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACT-AGT
1 CTGAAATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAACATG-AAA-TGAGT
* * *
4862228 AAAACCATAGTTGAAAGATACTATGGCA
63 AAGACCATGGTTGAAAGATACCATGGCA
4862256 TCATGTCGAA
Statistics
Matches: 157, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
91 2 0.01
92 86 0.55
93 68 0.43
94 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (93 bp):
CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAACA
Found at i:4865163 original size:30 final size:30
Alignment explanation
Indices: 4865129--4865263 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
4865119 TAAATCTTAG
*
4865129 CCTTTTCCACCACCAACTCCACTGGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
4865159 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
4865189 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
4865219 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-TTCCACCACCAACTCCACTAGCCACA
*
4865249 -CTTGCTCCACCACCA
1 CCTT-TTCCACCACCA
4865264 CTTGTACCTA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 90 0.97
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:4865777 original size:23 final size:23
Alignment explanation
Indices: 4865740--4865871 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
4865730 TCCTTTTTAT
4865740 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
4865763 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
4865785 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
4865808 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
4865835 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
4865860 TATTATTTATAT
1 TATTATATATAT
4865872 ATATTTTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:4865845 original size:25 final size:25
Alignment explanation
Indices: 4865817--4865957 Score: 99
Period size: 25 Copynumber: 5.5 Consensus size: 25
4865807 ATATTACGTA
*
4865817 TATATATATTTTATACTATTTTATG
1 TATATATATTTTATACTATATTATG
* * * *
4865842 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATG
* * * *
4865867 TATATATATTTTTTTCTACATGTTATCT
1 TATATATATTTTATACT--ATATTAT-G
*
4865895 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATG
*
4865921 TATATAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATG
*
4865946 TACATAT-TTTTA
1 TATATATATTTTA
4865958 ATATTATCAC
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.03
24 7 0.08
25 53 0.58
26 2 0.02
27 12 0.13
28 3 0.03
29 2 0.02
30 9 0.10
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATG
Found at i:4866139 original size:16 final size:15
Alignment explanation
Indices: 4866115--4866162 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4866105 TAACTATTAT
*
4866115 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
4866131 TATTTTAATATTTTA
1 TATTTTAATATTTTA
4866146 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
4866162 T
1 T
4866163 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:4866150 original size:7 final size:8
Alignment explanation
Indices: 4866115--4866166 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4866105 TAACTATTAT
*
4866115 TATTCTAA
1 TATTTTAA
*
4866123 TATTTTGA
1 TATTTTAA
4866131 TATTTTAA
1 TATTTTAA
4866139 TATTTT-A
1 TATTTTAA
4866146 TATTTTATA
1 TATTTTA-A
*
4866155 TATTTTAT
1 TATTTTAA
4866163 TATT
1 TATT
4866167 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:4878297 original size:75 final size:75
Alignment explanation
Indices: 4878174--4878333 Score: 257
Period size: 75 Copynumber: 2.1 Consensus size: 75
4878164 CAATTTCTGT
* * * *
4878174 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAAACAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
4878239 CGCTGAGGTA
66 CGCTGAGGTA
* *
4878249 TTTTCAGTTTCTGCTCTTCAAAAAAAACAGCTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
1 TTTTCAATTTCTGCTCTTCAAAAAAAACAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
4878314 CGCTGAGGTA
66 CGCTGAGGTA
*
4878324 ATTTCAATTT
1 TTTTCAATTT
4878334 ATGTTTTTCA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (75 bp):
TTTTCAATTTCTGCTCTTCAAAAAAAACAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
CGCTGAGGTA
Found at i:4878386 original size:164 final size:167
Alignment explanation
Indices: 4878110--4878700 Score: 810
Period size: 178 Copynumber: 3.4 Consensus size: 167
4878100 TGTTCCAAAG
*
4878110 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
4878175 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
66 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
4878240 GCTGAGGTATTTTC-A-G-TTTCTGCTCTTCAAAAAA
131 GCTGAGGTATTTTCAATGTTTTCTGCTCTTCAAAAAA
* * * * *
4878274 AACAGCTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
4878339 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGGCAC
66 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
*
4878404 GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTACTCTTCAAAAAA
131 GCTGAGGTATTTTCAA----TG----T---TTTCTGCTCTTCAAAAAA
* * * *
4878452 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
* *
4878517 TTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
66 TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
*
4878582 GCTGAGGTATTTTCAATTTATGTTTTTCAATTTCTGCTCTTCAAAGAA
131 GCTGAGGTATTTTC-A---ATG----T---TTTCTGCTCTTCAAAAAA
*
4878630 ATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
4878695 TGTCAA
66 TTTCAA
4878701 AAATCAACTC
Statistics
Matches: 380, Mismatches: 29, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
164 137 0.36
165 1 0.00
170 1 0.00
178 239 0.63
179 1 0.00
182 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (167 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
TTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
GCTGAGGTATTTTCAATGTTTTCTGCTCTTCAAAAAA
Found at i:4878405 original size:89 final size:89
Alignment explanation
Indices: 4878249--4878700 Score: 724
Period size: 89 Copynumber: 5.1 Consensus size: 89
4878239 CGCTGAGGTA
* * * * * *
4878249 TTTTCAGTTTCTGCTCTTCAAAAAAAACAGCTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
4878314 CGCTGAGGTAATTTCAATTTATGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
4878338 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
4878403 CGCTGAGGTATTTTCAATTTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
4878427 TTTTCAATTTCTACTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
4878492 CGCTGAGGTATTTTCGATTTCTGC
66 CGCTGAGGTATTTTCAATTTCTGT
*
4878516 TTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
4878581 TGCTGAGGTATTTTCAATTTATGT
66 CGCTGAGGTATTTTCAATTTCTGT
* * *
4878605 TTTTCAATTTCTGCTCTTCAAAGAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGGACA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
*
4878670 CGCTGAGGTAATTTCAATTTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
4878694 TTGTCAA
1 TTTTCAA
4878701 AAATCAACTC
Statistics
Matches: 336, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 336 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (89 bp):
TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:4878760 original size:75 final size:75
Alignment explanation
Indices: 4878605--4878837 Score: 307
Period size: 73 Copynumber: 3.1 Consensus size: 75
4878595 CAATTTATGT
* *
4878605 TTTTCAATTTCTGCTCT-TCAAAGAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAGG--
1 TTTTCAATTTCTG-TTTGTC-AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCT
4878667 -ACACGCTGAGGTA
62 CACACGCTGAGGTA
* *
4878680 ATTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
* *
4878745 TGCTGAGGTC
66 CGCTGAGGTA
* * *
4878755 TTTTCAATTTCTGTTCGTC--AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCGCA
1 TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
4878818 CGCTGAGGTA
66 CGCTGAGGTA
4878828 TTTTCAATTT
1 TTTTCAATTT
4878838 TTTTTTTCAA
Statistics
Matches: 141, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
72 2 0.01
73 93 0.66
74 4 0.03
75 42 0.30
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
CGCTGAGGTA
Found at i:4878860 original size:14 final size:14
Alignment explanation
Indices: 4878828--4878872 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
4878818 CGCTGAGGTA
**
4878828 TTTTCAATTT-TTT
1 TTTTCAATTTATGC
4878841 TTTTCAATTTATGC
1 TTTTCAATTTATGC
4878855 TTTTCAATTTATGC
1 TTTTCAATTTATGC
4878869 TTTT
1 TTTT
4878873 TAAAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.18, C:0.11, G:0.04, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:4879764 original size:30 final size:30
Alignment explanation
Indices: 4879730--4879821 Score: 175
Period size: 30 Copynumber: 3.1 Consensus size: 30
4879720 CTAGATCTTA
4879730 ACCTTTTCCACCACCAACTCCACTAGCCAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
4879760 ACCTTTTCCACCACCAACTCCACTAGCCAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
*
4879790 ACCTTTTCCACCACCAAATCCACTAGCCAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
4879820 AC
1 AC
4879822 TTGCTCCATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.28, C:0.49, G:0.03, T:0.20
Consensus pattern (30 bp):
ACCTTTTCCACCACCAACTCCACTAGCCAC
Found at i:4879769 original size:18 final size:18
Alignment explanation
Indices: 4879748--4879800 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
4879738 CACCACCAAC
4879748 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
4879766 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
4879778 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
4879796 TCCAC
1 TCCAC
4879801 CACCAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 6 0.22
13 3 0.11
14 1 0.04
15 2 0.07
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:4879850 original size:60 final size:60
Alignment explanation
Indices: 4879730--4879865 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
4879720 CTAGATCTTA
* * *
4879730 ACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCAC
1 ACCTTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAACCAC
** * *
4879790 ACCTTTTCCACCACCAAATCCACTAGCCACA-CTTGCTCCATTACCTACTCTACTAACCAC
1 ACCTTTTCCACCACCAAATCCACTAGCCACACCTT-CTCCACCACCAACTCCACTAACCAC
*
4879850 A-CTTGCTCCACCACCA
1 ACCTT-TTCCACCACCA
4879866 CTTGTACCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
59 6 0.09
60 60 0.91
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (60 bp):
ACCTTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAACCAC
Found at i:4880387 original size:23 final size:23
Alignment explanation
Indices: 4880350--4880481 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
4880340 TTTTTTTTGT
4880350 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
4880373 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
4880395 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
4880418 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
4880445 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
4880470 TATTATTTATAT
1 TATTATATATAT
4880482 ATTTTTTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:4880455 original size:25 final size:25
Alignment explanation
Indices: 4880427--4880488 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
4880417 ATATTACGTA
*
4880427 TATATATATTTTATACTATTTTATG
1 TATATATATTTTATACTATATTATG
* * * *
4880452 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATG
*
4880477 TATATATTTTTT
1 TATATATATTTT
4880489 TTTTCTACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATG
Found at i:4880533 original size:22 final size:23
Alignment explanation
Indices: 4880505--4880563 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
4880495 ACATGTTATC
4880505 TTATGTATATATCTTAAC-TATA
1 TTATGTATATATCTTAACATATA
* *
4880527 TTATGTATGTATTTTTAACATTATA
1 TTATGTATATA-TCTTAACA-TATA
*
4880552 TTATGTACATAT
1 TTATGTATATAT
4880564 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 6 0.20
24 1 0.03
25 13 0.43
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.53
Consensus pattern (23 bp):
TTATGTATATATCTTAACATATA
Found at i:4880555 original size:25 final size:25
Alignment explanation
Indices: 4880523--4880575 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
4880513 ATATCTTAAC
**
4880523 TATATTATGTATGTATTTTTAACAT
1 TATATTATGTACATATTTTTAACAT
*
4880548 TATATTATGTACATATTTTTAATAT
1 TATATTATGTACATATTTTTAACAT
4880573 TAT
1 TAT
4880576 CACGTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.57
Consensus pattern (25 bp):
TATATTATGTACATATTTTTAACAT
Found at i:4880746 original size:16 final size:15
Alignment explanation
Indices: 4880722--4880769 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4880712 TAATTATTAT
*
4880722 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
4880738 TATTTTAATATTTTA
1 TATTTTAATATTTTA
4880753 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
4880769 T
1 T
4880770 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:4880757 original size:7 final size:8
Alignment explanation
Indices: 4880722--4880773 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4880712 TAATTATTAT
*
4880722 TATTCTAA
1 TATTTTAA
*
4880730 TATTTTGA
1 TATTTTAA
4880738 TATTTTAA
1 TATTTTAA
4880746 TATTTT-A
1 TATTTTAA
4880753 TATTTTATA
1 TATTTTA-A
*
4880762 TATTTTAT
1 TATTTTAA
4880770 TATT
1 TATT
4880774 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:4883608 original size:16 final size:17
Alignment explanation
Indices: 4883583--4883615 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4883573 TGATCATAGC
4883583 ATTATCATA-CTTTTTT
1 ATTATCATACCTTTTTT
*
4883599 ATTATTATACCTTTTTT
1 ATTATCATACCTTTTTT
4883616 GTCATTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATCATACCTTTTTT
Found at i:4885991 original size:21 final size:20
Alignment explanation
Indices: 4885957--4886001 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4885947 CTAAAATGTG
*
4885957 AATTGGATTGAATTGAATATA
1 AATTGGATTAAATTGAAT-TA
* *
4885978 AATTGTATTAAATTGAGTTA
1 AATTGGATTAAATTGAATTA
4885998 AATT
1 AATT
4886002 TACTCGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
AATTGGATTAAATTGAATTA
Found at i:4902479 original size:15 final size:15
Alignment explanation
Indices: 4902459--4902488 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4902449 AATAATAATT
4902459 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
4902474 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
4902489 GCTAAGTGGG
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:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:4902600 original size:18 final size:18
Alignment explanation
Indices: 4902577--4902642 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
4902567 AAATATATAT
4902577 TAATAATAGTAATAAATA
1 TAATAATAGTAATAAATA
4902595 TAATAATAGTAATAAATAGA
1 TAATAATAGTAATAAAT--A
* *
4902615 AAATAATAGTACAT-TA-A
1 TAATAATAGTA-ATAAATA
4902632 TAATAATAGTA
1 TAATAATAGTA
4902643 TATGTTGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 11 0.26
18 17 0.40
20 12 0.29
21 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (18 bp):
TAATAATAGTAATAAATA
Found at i:4902750 original size:21 final size:21
Alignment explanation
Indices: 4902705--4902751 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4902695 AAAAATATGT
* ** *
4902705 TAATAAAAATAACAATAGTAG
1 TAATAAAAATAAAAATAAAAA
4902726 TAATAAAAATAAAAATAAAAA
1 TAATAAAAATAAAAATAAAAA
4902747 TAATA
1 TAATA
4902752 GTAATAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (21 bp):
TAATAAAAATAAAAATAAAAA
Found at i:4902757 original size:15 final size:15
Alignment explanation
Indices: 4902712--4902758 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4902702 TGTTAATAAA
* *
4902712 AATAACAATAGTAGT
1 AATAAAAATAATAGT
4902727 AATAAAAATAA-A--
1 AATAAAAATAATAGT
4902739 AATAAAAATAATAGT
1 AATAAAAATAATAGT
4902754 AATAA
1 AATAA
4902759 TGATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 11 0.41
13 1 0.04
14 1 0.04
15 14 0.52
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATAGT
Found at i:4902770 original size:27 final size:27
Alignment explanation
Indices: 4902706--4902758 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
4902696 AAAATATGTT
* *
4902706 AATAAAAATAACAATAGTAGTAATAAA
1 AATAAAAATAAAAATAATAGTAATAAA
4902733 AATAAAAATAAAAATAATAGTAATAA
1 AATAAAAATAAAAATAATAGTAATAA
4902759 TGATATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (27 bp):
AATAAAAATAAAAATAATAGTAATAAA
Found at i:4902927 original size:3 final size:3
Alignment explanation
Indices: 4902921--4903035 Score: 76
Period size: 3 Copynumber: 38.7 Consensus size: 3
4902911 ATAGTTGTAG
* * * * * * *
4902921 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4902968 T-A TAA -AA -AA TAA TAA TAG TAA GGGAGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA --TA-A TAA TAA TAA TAA TAA TAA
* *
4903013 TAA TAA TGA TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
4903036 TAAATAAAAT
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
2 8 0.09
3 74 0.87
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:4902965 original size:20 final size:21
Alignment explanation
Indices: 4902926--4902965 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4902916 TGTAGTAATA
*
4902926 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
4902947 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
4902966 AATATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:4904785 original size:23 final size:23
Alignment explanation
Indices: 4904759--4904831 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
4904749 AGTGCCACAT
4904759 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4904782 TGATATGTAGCC-ATAGCTACCAC
1 TGATATGTAGCCGA-AGCTACCAC
*
4904805 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4904828 TGAT
1 TGAT
4904832 CAATAACACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:4904931 original size:8 final size:8
Alignment explanation
Indices: 4904918--4904946 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4904908 ACCCGGGACT
4904918 CACTGTAA
1 CACTGTAA
4904926 CACTGTAA
1 CACTGTAA
4904934 CACTGTAA
1 CACTGTAA
4904942 CACTG
1 CACTG
4904947 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:4912103 original size:23 final size:23
Alignment explanation
Indices: 4912077--4912149 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
4912067 AGTGCCACAT
4912077 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4912100 TGATATGTAGCC-ATAGCTACCAC
1 TGATATGTAGCCGA-AGCTACCAC
*
4912123 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4912146 TGAT
1 TGAT
4912150 CAATAACACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:4912249 original size:8 final size:8
Alignment explanation
Indices: 4912236--4912264 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4912226 ACCCGGGACT
4912236 CACTGTAA
1 CACTGTAA
4912244 CACTGTAA
1 CACTGTAA
4912252 CACTGTAA
1 CACTGTAA
4912260 CACTG
1 CACTG
4912265 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Done.