Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 18 of 127
Found at i:4191327 original size:50 final size:50
Alignment explanation
Indices: 4191265--4191363 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
4191255 AATAAAAAAT
* *
4191265 CAAAATCAAATAATTTT-AGATAATTAAAATTTTAATTAAAACTTTTAAAC
1 CAAAATCAAATAATTTTAAG-TAATTAAAAGTTCAATTAAAACTTTTAAAC
4191315 CAAAAT-AGAATAATTTTAAGTAATTAAAAGTTCAATTAAAACTTTTAAA
1 CAAAATCA-AATAATTTTAAGTAATTAAAAGTTCAATTAAAACTTTTAAA
4191364 AGTTTAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.02
50 42 0.93
51 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (50 bp):
CAAAATCAAATAATTTTAAGTAATTAAAAGTTCAATTAAAACTTTTAAAC
Found at i:4202219 original size:14 final size:13
Alignment explanation
Indices: 4202197--4202229 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4202187 AGCAAGTAGC
4202197 AAAAA-ATAAATA
1 AAAAATATAAATA
4202209 AATAAATATAAATA
1 AA-AAATATAAATA
4202223 AAAAATA
1 AAAAATA
4202230 AAAAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 8 0.42
14 9 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATATAAATA
Found at i:4207435 original size:15 final size:17
Alignment explanation
Indices: 4207407--4207501 Score: 60
Period size: 16 Copynumber: 5.8 Consensus size: 17
4207397 TGTTGCGGAT
4207407 TTAATATATTAATTTA-A
1 TTAATATA-TAATTTATA
4207424 TTAATATA-AATTTATA
1 TTAATATATAATTTATA
* *
4207440 TT-ATTTAATAA-ATATA
1 TTAATAT-ATAATTTATA
*
4207456 TTAACAT-TAAATTTATA
1 TTAATATAT-AATTTATA
*
4207473 TTAA-ATATTAA-ATATA
1 TTAATATA-TAATTTATA
*
4207489 TTAATTTATAATT
1 TTAATATATAATT
4207502 AATTAGATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
15 10 0.17
16 25 0.42
17 24 0.40
18 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATATATAATTTATA
Found at i:4207465 original size:18 final size:17
Alignment explanation
Indices: 4207444--4207531 Score: 51
Period size: 17 Copynumber: 5.3 Consensus size: 17
4207434 TTTATATTAT
4207444 TTAATAAATATATTAACA
1 TTAATAAATATATTAA-A
**
4207462 TTAA-ATTTATATTAAA
1 TTAATAAATATATTAAA
*
4207478 -TATTAAATATATT-AA
1 TTAATAAATATATTAAA
* * *
4207493 TTTATAATTA-ATTAGAT
1 TTAATAAATATATTA-AA
*
4207510 TTAATGAATAT-TATAAA
1 TTAATAAATATAT-TAAA
4207527 TTAAT
1 TTAAT
4207532 GAATGATTAA
Statistics
Matches: 51, Mismatches: 13, Indels: 13
0.66 0.17 0.17
Matches are distributed among these distances:
15 7 0.14
16 14 0.27
17 24 0.47
18 6 0.12
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (17 bp):
TTAATAAATATATTAAA
Found at i:4207470 original size:33 final size:33
Alignment explanation
Indices: 4207430--4207492 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
4207420 TTAATTAATA
**
4207430 TAAATTTATATTATTTAATAAATATATTAACAT
1 TAAATTTATATTAAATAATAAATATATTAACAT
*
4207463 TAAATTTATATTAAATATTAAATATATTAA
1 TAAATTTATATTAAATAATAAATATATTAA
4207493 TTTATAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
TAAATTTATATTAAATAATAAATATATTAACAT
Found at i:4207699 original size:16 final size:17
Alignment explanation
Indices: 4207664--4207702 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
4207654 AATTAATTAC
4207664 ATTTATAAATATAATAA
1 ATTTATAAATATAATAA
*
4207681 ATTTATAAATAT-TTAA
1 ATTTATAAATATAATAA
4207697 ATTTAT
1 ATTTAT
4207703 GAATTGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTATAAATATAATAA
Found at i:4210357 original size:152 final size:152
Alignment explanation
Indices: 4210081--4210530 Score: 785
Period size: 152 Copynumber: 3.0 Consensus size: 152
4210071 TTTACCAAGT
* *
4210081 AATTAGTTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* * *
4210146 CTCACCTCAGGAGTATGCAAGAAAAACTACCGTTTCACTTGCAGGGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
4210211 TAAAGAAAAAACAAAATCATCC
131 TAAAGAAAAAACAAAATCATCC
* * *
4210233 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGTAGAAAGTTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
4210298 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
4210363 TAAA-AAAAATACAAAATCATCC
131 TAAAGAAAAA-ACAAAATCATCC
4210385 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* *
4210450 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGTAGAGGCTCCGTCGTCGGATTAAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
*
4210515 TAAAGAAAAAAGAAAA
131 TAAAGAAAAAACAAAA
4210531 AAAAATCAAG
Statistics
Matches: 282, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
151 5 0.02
152 272 0.96
153 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (152 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
TAAAGAAAAAACAAAATCATCC
Found at i:4210578 original size:10 final size:11
Alignment explanation
Indices: 4210562--4210591 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
4210552 AGTCAAATAA
4210562 AAAAAAAATTC
1 AAAAAAAATTC
4210573 AAAAAAAATTC
1 AAAAAAAATTC
4210584 AAAAAAAA
1 AAAAAAAA
4210592 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:4211022 original size:20 final size:20
Alignment explanation
Indices: 4210997--4211040 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
4210987 CGGAAATTCA
*
4210997 CCGGTTTCTGGGATTCTTTG
1 CCGGTTTCTGGGATTCTTCG
4211017 CCGGTTTCTGGGATTCTTCG
1 CCGGTTTCTGGGATTCTTCG
4211037 CCGG
1 CCGG
4211041 AAACTGGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.05, C:0.25, G:0.32, T:0.39
Consensus pattern (20 bp):
CCGGTTTCTGGGATTCTTCG
Found at i:4211047 original size:20 final size:20
Alignment explanation
Indices: 4211004--4211048 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4210994 TCACCGGTTT
* ***
4211004 CTGGGATTCTTTGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
4211024 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
4211044 CTGGG
1 CTGGG
4211049 CAGTTCGCCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:4211470 original size:14 final size:16
Alignment explanation
Indices: 4211451--4211488 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4211441 TCAACCTTCC
4211451 AAAAAA-AAA-ATAAA
1 AAAAAATAAATATAAA
4211465 AAAAAATAAATATAAA
1 AAAAAATAAATATAAA
*
4211481 AAATAATA
1 AAAAAATA
4211489 GATAATTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 3 0.14
16 12 0.57
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAATAAATATAAA
Found at i:4211484 original size:13 final size:14
Alignment explanation
Indices: 4211451--4211493 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
4211441 TCAACCTTCC
4211451 AAAAAAA-AAATAA
1 AAAAAAATAAATAA
4211464 AAAAAAATAAATATA
1 AAAAAAATAAATA-A
*
4211479 AAAAATAATAGATAA
1 AAAAA-AATAAATAA
4211494 TTAGAACAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 7 0.27
16 7 0.27
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (14 bp):
AAAAAAATAAATAA
Found at i:4211626 original size:3 final size:3
Alignment explanation
Indices: 4211618--4211643 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4211608 ATCTTACAAA
4211618 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4211644 ATATATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4211928 original size:1 final size:1
Alignment explanation
Indices: 4211918--4212012 Score: 64
Period size: 1 Copynumber: 95.0 Consensus size: 1
4211908 CAACTCAACA
* ** * * * ** ** **
4211918 TTTTTATTTTTTGATTTTTTTTTTATTTTTGTTTTTATTTTTTTGATTTTTTTGATTTTTTTGAT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
4211983 TTTTTTGTTTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4212013 GGCCGAAGCT
Statistics
Matches: 70, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (1 bp):
T
Found at i:4211938 original size:9 final size:9
Alignment explanation
Indices: 4211924--4211996 Score: 86
Period size: 9 Copynumber: 8.7 Consensus size: 9
4211914 AACATTTTTA
4211924 TTTTTTGAT
1 TTTTTTGAT
4211933 TTTTTT--T
1 TTTTTTGAT
4211940 TTATTTT--T
1 TT-TTTTGAT
*
4211948 GTTTTT-AT
1 TTTTTTGAT
4211956 TTTTTTGAT
1 TTTTTTGAT
4211965 TTTTTTGAT
1 TTTTTTGAT
4211974 TTTTTTGAT
1 TTTTTTGAT
4211983 TTTTTTG-T
1 TTTTTTGAT
4211991 TTTTTT
1 TTTTTT
4211997 TTTTGTTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
7 7 0.12
8 19 0.32
9 33 0.56
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:4211946 original size:18 final size:17
Alignment explanation
Indices: 4211918--4212013 Score: 94
Period size: 18 Copynumber: 5.8 Consensus size: 17
4211908 CAACTCAACA
*
4211918 TTTTTATTTTTTGATTT
1 TTTTTTTTTTTTGATTT
4211935 TTTTTTTATTTTTG---T
1 TTTTTTT-TTTTTGATTT
*
4211950 TTTTATTTTTTTGATTT
1 TTTTTTTTTTTTGATTT
*
4211967 TTTTGATTTTTTTGATTT
1 TTTT-TTTTTTTTGATTT
4211985 TTTTGTTTTTTTT--TTT
1 TTTT-TTTTTTTTGATTT
*
4212001 GTTTTTTTTTTTG
1 TTTTTTTTTTTTG
4212014 GCCGAAGCTC
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
14 6 0.09
15 15 0.22
16 6 0.09
17 11 0.16
18 31 0.45
ACGTcount: A:0.07, C:0.00, G:0.08, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTTTTGATTT
Found at i:4211997 original size:9 final size:9
Alignment explanation
Indices: 4211934--4212012 Score: 72
Period size: 9 Copynumber: 8.7 Consensus size: 9
4211924 TTTTTTGATT
*
4211934 TTTTTTTTA
1 TTTTTTTTG
*
4211943 TTTTTGTTTT
1 TTTTT-TTTG
4211953 TATTTTTTTG
1 T-TTTTTTTG
*
4211963 ATTTTTTTG
1 TTTTTTTTG
*
4211972 ATTTTTTTG
1 TTTTTTTTG
*
4211981 ATTTTTTTG
1 TTTTTTTTG
4211990 TTTTTTTT-
1 TTTTTTTTG
4211998 TTTGTTTTT-
1 TTT-TTTTTG
4212007 TTTTTT
1 TTTTTT
4212013 GGCCGAAGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
8 6 0.10
9 46 0.73
10 7 0.11
11 4 0.06
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:4212148 original size:42 final size:41
Alignment explanation
Indices: 4212020--4212666 Score: 894
Period size: 42 Copynumber: 15.5 Consensus size: 41
4212010 TTTGGCCGAA
* * * * *
4212020 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAATAAATT
* * *
4212061 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACG-ACTTTGAAAAATAAATT
4212101 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAATAAATT
4212143 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAATAAATT
* *
4212185 GCTCCTCTCAATAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
* *
4212226 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACG-ACTTTGAAAAATAAATT
* * *
4212266 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCAC-GACTTTGAAAAATAAATT
4212306 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTG-AAAAATAAATT
*
4212348 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
4212389 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTG-AAAAATAAATT
4212431 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
*
4212472 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAAAAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
*
4212513 GCTCCTCTCAACAGAGGCACCACGAGGCACCACGACTTTGAAAAAAAAATT
1 GCTCCTCT---C--A---A-CA-GAGGCACCACGACTTTGAAAAATAAATT
4212564 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTG-AAAAATAAATT
4212606 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAA-ATAAATT
*
4212648 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTCAACAGAGGCA
4212667 ACGGAACTTT
Statistics
Matches: 565, Mismatches: 18, Indels: 45
0.90 0.03 0.07
Matches are distributed among these distances:
39 10 0.02
40 102 0.18
41 178 0.32
42 231 0.41
43 1 0.00
44 1 0.00
46 2 0.00
48 1 0.00
49 1 0.00
50 2 0.00
51 36 0.06
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (41 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
Found at i:4212239 original size:83 final size:83
Alignment explanation
Indices: 4212020--4212666 Score: 900
Period size: 83 Copynumber: 7.7 Consensus size: 83
4212010 TTTGGCCGAA
* * * * *
4212020 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
*
4212082 GAACTTTGG-AAAGTAAATT
65 G-ACTTTGGAAAAATAAATT
*
4212101 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
4212166 GACTTTGGAAAAATAAATT
65 GACTTTGGAAAAATAAATT
* *
4212185 GCTCCTCTCAATAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
*
4212248 AACTTT-GAAAAGTAAATT
66 -ACTTTGGAAAAATAAATT
* *
4212266 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTCAACAGAGGCACCAC-GACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
*
4212329 GACTTTGAAAAAATAAATT
65 GACTTTGGAAAAATAAATT
4212348 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
*
4212413 ACTTTGAAAAAATAAATT
66 ACTTTGGAAAAATAAATT
*
4212431 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
*
4212496 ACTTT-GAAAAAAAAATT
66 ACTTTGGAAAAATAAATT
**
4212513 GCTCCTCTCAACAGAGGCACCACGAGGCACCACGACTTTGAAAAAAAAATTGCTCCTCTCAACAG
1 GCTCCTCT---C--A---A-CA-GAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAG
*
4212578 AGGCACCACGACTTTGAAAAAATAAATT
56 AGGCACCACGACTTTGGAAAAATAAATT
*
4212606 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGATAAATTGCTCCTCTAAACAGAGGCA
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAG-TAAATTGCTCCTCTCAACAGAGGCA
4212667 ACGGAACTTT
Statistics
Matches: 514, Mismatches: 28, Indels: 45
0.88 0.05 0.08
Matches are distributed among these distances:
79 2 0.00
80 38 0.07
81 59 0.11
82 81 0.16
83 185 0.36
84 67 0.13
85 2 0.00
87 1 0.00
88 1 0.00
90 2 0.00
91 2 0.00
92 56 0.11
93 18 0.04
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (83 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
ACTTTGGAAAAATAAATT
Found at i:4212561 original size:51 final size:51
Alignment explanation
Indices: 4212485--4212630 Score: 213
Period size: 51 Copynumber: 3.0 Consensus size: 51
4212475 CCTCTCAACA
4212485 GAGGCACCACGACTTTGAAAAAAAAATTGCTCCTCTCAACAGAGGCACCAC
1 GAGGCACCACGACTTTGAAAAAAAAATTGCTCCTCTCAACAGAGGCACCAC
4212536 GAGGCACCACGACTTTGAAAAAAAAATTGCTCCTCT---C--A---A-CA-
1 GAGGCACCACGACTTTGAAAAAAAAATTGCTCCTCTCAACAGAGGCACCAC
4212577 GAGGCACCACGACTTTGAAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GAGGCACCACGACTTTGAAAAAA-AAATTGCTCCTCTCAACAGAGGCACCAC
4212629 GA
1 GA
4212631 CTTTGAAAAG
Statistics
Matches: 84, Mismatches: 0, Indels: 21
0.80 0.00 0.20
Matches are distributed among these distances:
41 23 0.27
42 15 0.18
43 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
50 1 0.01
51 38 0.45
52 2 0.02
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (51 bp):
GAGGCACCACGACTTTGAAAAAAAAATTGCTCCTCTCAACAGAGGCACCAC
Found at i:4213943 original size:20 final size:21
Alignment explanation
Indices: 4213913--4213956 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
4213903 CTTTTTTTCA
4213913 TTTTCTCATTTTTTCCTTTTT
1 TTTTCTCATTTTTTCCTTTTT
*
4213934 TTTTCT-ATTTTTTTCTTTTT
1 TTTTCTCATTTTTTCCTTTTT
4213954 TTT
1 TTT
4213957 CATCATCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTCTCATTTTTTCCTTTTT
Found at i:4214369 original size:1 final size:1
Alignment explanation
Indices: 4214363--4214387 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4214353 CCTTTTGTGG
4214363 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4214388 CAAAAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4217872 original size:152 final size:152
Alignment explanation
Indices: 4217596--4218045 Score: 767
Period size: 152 Copynumber: 3.0 Consensus size: 152
4217586 TTTACCAAGT
* *
4217596 AATTAGTTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* * *
4217661 CTCACCTCAGGAGTATGCAAGAAAAACTACCGTTTCACTTGCAGGGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
4217726 TAAAGAAAAAACAAAATCATCC
131 TAAAGAAAAAACAAAATCATCC
* * *
4217748 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGTAGAAAGTTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
*
4217813 CTCACCTCAAGAGTATACAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
4217878 TAAA-AAAAATACAAAATCATCC
131 TAAAGAAAAA-ACAAAATCATCC
4217900 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* * *
4217965 CTCACCTCAAGAGTATGCAAGAAAAACTATTGTTTCACTTGTAGAGGCTCCGTCGTCGGATTAAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
*
4218030 TAAAGAAAAAAGAAAA
131 TAAAGAAAAAACAAAA
4218046 AAAAAATCAA
Statistics
Matches: 279, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
151 5 0.02
152 269 0.96
153 5 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (152 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
TAAAGAAAAAACAAAATCATCC
Found at i:4218091 original size:18 final size:17
Alignment explanation
Indices: 4218070--4218103 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
4218060 AAAATCAAAG
4218070 TCAAATAAAAAAAAAAAT
1 TCAAA-AAAAAAAAAAAT
4218088 TCAAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAAA
4218104 AACCTGGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (17 bp):
TCAAAAAAAAAAAAAAT
Found at i:4218104 original size:18 final size:18
Alignment explanation
Indices: 4218070--4218104 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4218060 AAAATCAAAG
*
4218070 TCAAATAAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAAT
4218088 TCAAAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAAAA
4218105 ACCTGGAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (18 bp):
TCAAAAAAAAAAAAAAAT
Found at i:4218468 original size:20 final size:20
Alignment explanation
Indices: 4218439--4218484 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4218429 GGAAGATTCA
*
4218439 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
4218459 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
4218479 CCGGAA
1 CCGGAA
4218485 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:4218970 original size:10 final size:11
Alignment explanation
Indices: 4218954--4218990 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
4218944 TCAACCTTCC
4218954 AAAAAAAAAAT
1 AAAAAAAAAAT
4218965 AAAAAAAAAAT
1 AAAAAAAAAAT
4218976 AAATATAAAAAAT
1 AAA-A-AAAAAAT
4218989 AA
1 AA
4218991 TAGATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.58
12 1 0.04
13 9 0.38
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:4218974 original size:15 final size:17
Alignment explanation
Indices: 4218954--4218987 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4218944 TCAACCTTCC
4218954 AAAAAA-AAA-ATAAAA
1 AAAAAATAAATATAAAA
4218969 AAAAAATAAATATAAAA
1 AAAAAATAAATATAAAA
4218986 AA
1 AA
4218988 TAATAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 3 0.18
17 8 0.47
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAATATAAAA
Found at i:4218985 original size:16 final size:15
Alignment explanation
Indices: 4218954--4218997 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
4218944 TCAACCTTCC
4218954 AAAAAAA-AAATAAA
1 AAAAAAATAAATAAA
4218968 AAAAAAATAAATATAA
1 AAAAAAATAAATA-AA
* *
4218984 AAAATAATAGATAA
1 AAAAAAATAAATAA
4218998 TTAGAACAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 13 0.50
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAAAAATAAATAAA
Found at i:4219130 original size:3 final size:3
Alignment explanation
Indices: 4219122--4219147 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4219112 ATCTTACAAA
4219122 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4219148 ATATATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4221885 original size:24 final size:25
Alignment explanation
Indices: 4221852--4221899 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
4221842 GTTGTTGCGG
*
4221852 ATTTAATATTATTTAATTAATATAA
1 ATTTAATATTATTTAATAAATATAA
4221877 ATTT-ATATTATTTAATAAATATA
1 ATTTAATATTATTTAATAAATATA
4221900 TTAACATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTAATATTATTTAATAAATATAA
Found at i:4221909 original size:18 final size:17
Alignment explanation
Indices: 4221888--4221988 Score: 52
Period size: 17 Copynumber: 6.1 Consensus size: 17
4221878 TTTATATTAT
4221888 TTAATAAATATATTAACA
1 TTAATAAATATATTAA-A
**
4221906 TTAA-ATTTATATTAAA
1 TTAATAAATATATTAAA
*
4221922 -TATTAAATATATT-AA
1 TTAATAAATATATTAAA
* * *
4221937 TTCATAATTA-ATTAGAT
1 TTAATAAATATATTA-AA
*
4221954 TTAATGAATAT-TATAAA
1 TTAATAAATATAT-TAAA
* *
4221971 TTAATGATTA-ATTAAA
1 TTAATAAATATATTAAA
4221987 TT
1 TT
4221989 TCATTTAATT
Statistics
Matches: 62, Mismatches: 14, Indels: 16
0.67 0.15 0.17
Matches are distributed among these distances:
15 7 0.11
16 20 0.32
17 29 0.47
18 6 0.10
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (17 bp):
TTAATAAATATATTAAA
Found at i:4221914 original size:33 final size:33
Alignment explanation
Indices: 4221874--4221936 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
4221864 TTAATTAATA
**
4221874 TAAATTTATATTATTTAATAAATATATTAACAT
1 TAAATTTATATTAAATAATAAATATATTAACAT
*
4221907 TAAATTTATATTAAATATTAAATATATTAA
1 TAAATTTATATTAAATAATAAATATATTAA
4221937 TTCATAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
TAAATTTATATTAAATAATAAATATATTAACAT
Found at i:4222129 original size:16 final size:17
Alignment explanation
Indices: 4222094--4222132 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
4222084 AATTAATTAC
4222094 ATTTATAAATATAATAA
1 ATTTATAAATATAATAA
*
4222111 ATTTATAAATAT-TTAA
1 ATTTATAAATATAATAA
4222127 ATTTAT
1 ATTTAT
4222133 GAATTGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTATAAATATAATAA
Found at i:4223577 original size:5 final size:5
Alignment explanation
Indices: 4223527--4223561 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
4223517 AAAAATAGTT
4223527 AAATA AAATAAA AAATA AAATA AAATA AAATA AAA
1 AAATA AAAT--A AAATA AAATA AAATA AAATA AAA
4223562 AGCTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:4223611 original size:16 final size:15
Alignment explanation
Indices: 4223535--4223612 Score: 70
Period size: 16 Copynumber: 4.9 Consensus size: 15
4223525 TTAAATAAAA
4223535 TAAAAAATAAAATA-
1 TAAAAAATAAAATAG
*
4223549 AAATAAAATAAAA-AG
1 TAA-AAAATAAAATAG
*
4223564 CTTAAAAAATAAAAATGG
1 --TAAAAAAT-AAAATAG
4223582 TAAAAAATTAAAATAG
1 TAAAAAA-TAAAATAG
4223598 TAAATAAATAAAATA
1 TAAA-AAATAAAATA
4223613 AAATAAAAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
14 3 0.06
15 9 0.17
16 29 0.56
17 10 0.19
18 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (15 bp):
TAAAAAATAAAATAG
Found at i:4223979 original size:20 final size:20
Alignment explanation
Indices: 4223954--4224026 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
4223944 AATTTTCCAA
4223954 AAATTCAAACTTAAACCTAG
1 AAATTCAAACTTAAACCTAG
*
4223974 AAATTCAAACTCACAATCCTAG
1 AAATTCAAACTTA-AA-CCTAG
* *
4223996 AACTTCGAA-TCTAAACCTAG
1 AAATTCAAACT-TAAACCTAG
4224016 AAATTCAAACT
1 AAATTCAAACT
4224027 CTCAATCCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
20 24 0.56
21 6 0.14
22 13 0.30
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (20 bp):
AAATTCAAACTTAAACCTAG
Found at i:4224014 original size:42 final size:42
Alignment explanation
Indices: 4223965--4224064 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
4223955 AATTCAAACT
4223965 TAAACCTAGAAATTCAAACTCACAATCCTAGAACTTCGAATC
1 TAAACCTAGAAATTCAAACTCACAATCCTAGAACTTCGAATC
* *
4224007 TAAACCTAGAAATTCAAACTCTCAATCCTAGAATTTCGAATC
1 TAAACCTAGAAATTCAAACTCACAATCCTAGAACTTCGAATC
* *
4224049 TAAACCCAAAAATTCA
1 TAAACCTAGAAATTCA
4224065 GACCACTCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (42 bp):
TAAACCTAGAAATTCAAACTCACAATCCTAGAACTTCGAATC
Found at i:4224373 original size:3 final size:3
Alignment explanation
Indices: 4224365--4224399 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4224355 CAAAAAAGGA
4224365 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4224400 AACACCGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4225590 original size:28 final size:28
Alignment explanation
Indices: 4225558--4225613 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
4225548 TCGGACTACC
4225558 ATATGACTGCTTTGAATATGGGACATAT
1 ATATGACTGCTTTGAATATGGGACATAT
* *
4225586 ATATGACTGCTTTGAATGTGGGATATAT
1 ATATGACTGCTTTGAATATGGGACATAT
4225614 TAATGGGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (28 bp):
ATATGACTGCTTTGAATATGGGACATAT
Found at i:4227210 original size:23 final size:23
Alignment explanation
Indices: 4227164--4227210 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4227154 ATATGATATT
* *
4227164 TTGATAGTCATTTGATAAGTCTA
1 TTGATAGTCATTTAATAAGACTA
* *
4227187 TTGATAGTCTTTTAATATGACTA
1 TTGATAGTCATTTAATAAGACTA
4227210 T
1 T
4227211 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (23 bp):
TTGATAGTCATTTAATAAGACTA
Found at i:4229311 original size:125 final size:125
Alignment explanation
Indices: 4229089--4229338 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 125
4229079 TGGCTTCCAG
*
4229089 CAATCTAGGGTTTAAATCTTAATATTTGCATCCTTTTCTTTCATCATTAGGCTTCTACGTCCTTT
1 CAATCTAGGGTTTAAATCTTAATATTTGCATCCTTTTCTTTCATCATTAAGCTTCTACGTCCTTT
4229154 ATTAAAAAAATAAATACTTCTAATTAATTCAATTGTAAGTCAATCTATTAAGAATTATAT
66 ATTAAAAAAATAAATACTTCTAATTAATTCAATTGTAAGTCAATCTATTAAGAATTATAT
4229214 CAATCTAGGGTTTAAATCTTAATATTTGCATCCTTTTCTTTCATCATTAAGCTTCTACGTCCTTT
1 CAATCTAGGGTTTAAATCTTAATATTTGCATCCTTTTCTTTCATCATTAAGCTTCTACGTCCTTT
4229279 ATTAAAAAAATAAATACTTCTAATTAATTCAATTGTAAGTCAATCTATTAAGAATTATAT
66 ATTAAAAAAATAAATACTTCTAATTAATTCAATTGTAAGTCAATCTATTAAGAATTATAT
4229339 GTAAAATTAA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (125 bp):
CAATCTAGGGTTTAAATCTTAATATTTGCATCCTTTTCTTTCATCATTAAGCTTCTACGTCCTTT
ATTAAAAAAATAAATACTTCTAATTAATTCAATTGTAAGTCAATCTATTAAGAATTATAT
Found at i:4233443 original size:244 final size:244
Alignment explanation
Indices: 4233012--4233741 Score: 1166
Period size: 244 Copynumber: 3.0 Consensus size: 244
4233002 AAACAATACA
* * * *
4233012 ATCTTATATAAATATATAAAAGTCGAAGCTTTTGATAAAAAA--AAATAGTCTC-ATGTGGATAG
1 ATCTTATATAAATATATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTC-CAATGTGGATAG
* * * * * ****
4233074 TTTATATTTTTGACATATAGAT-AGATTAAAAAA--ATCACTGTGTTCTCTAATAAGCACATTTT
65 CTTACATTTTTTACATGTAGATGAGTTTAAAAAATTATC-CTGTGTTCTCTAATAAATGTATTTT
* * * *
4233136 ACTTATTTAAAATATTTTTATTATTTTTTATAGTAACATTTGTATTACTTAAAAAACAATTAGTT
129 ATTTATTTAAAACATTTTTATCA-TTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTT
4233201 AAACTAAATTAATTACATTTATTTCCTTTTAAATATCCAATATTTTTACCTT
193 AAACTAAATTAATTACATTTATTTCCTTTTAAATATCCAATATTTTTACCTT
4233253 ATCTTATATAAATATATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTCCAATGTGGATAGC
1 ATCTTATATAAATATATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTCCAATGTGGATAGC
4233318 TTACATTTTTTACATGTAGATGAGTTTAAAAAATTATCCTGTGTTCTCTAATAAATGTATTTTAT
66 TTACATTTTTTACATGTAGATGAGTTTAAAAAATTATCCTGTGTTCTCTAATAAATGTATTTTAT
4233383 TTATTTAAAACATTTTTATCATTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAAA
131 TTATTTAAAACATTTTTATCATTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAAA
4233448 CTAAATTAATTACATTTATTTCCTTTTAAATATCCAATATTTTTACCTT
196 CTAAATTAATTACATTTATTTCCTTTTAAATATCCAATATTTTTACCTT
* *
4233497 GTCTTATATAAATGTATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTCCAATGTGGATAGC
1 ATCTTATATAAATATATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTCCAATGTGGATAGC
*
4233562 TTACATTTTTTACATGTAGATGAGTTTAAAAAATTATCATGTGTTCTCTAATAAATGTATTTTAT
66 TTACATTTTTTACATGTAGATGAGTTTAAAAAATTATCCTGTGTTCTCTAATAAATGTATTTTAT
* **
4233627 TTATTTAAAACATTTTTATCATTTTTATAGTAACATTTTTATTACTTAAAAAATAATTAGTTGGA
131 TTATTTAAAACATTTTTATCATTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAAA
* *
4233692 CCAAATTAATTACATTTATTACCTTTTAAATATCCAATATTTTTACCTT
196 CTAAATTAATTACATTTATTTCCTTTTAAATATCCAATATTTTTACCTT
4233741 A
1 A
4233742 AATGAATAAG
Statistics
Matches: 457, Mismatches: 26, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
241 39 0.09
242 1 0.00
243 35 0.08
244 338 0.74
245 41 0.09
246 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (244 bp):
ATCTTATATAAATATATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTCCAATGTGGATAGC
TTACATTTTTTACATGTAGATGAGTTTAAAAAATTATCCTGTGTTCTCTAATAAATGTATTTTAT
TTATTTAAAACATTTTTATCATTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAAA
CTAAATTAATTACATTTATTTCCTTTTAAATATCCAATATTTTTACCTT
Found at i:4234007 original size:18 final size:19
Alignment explanation
Indices: 4233979--4234016 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
4233969 TGTTCTCTAA
*
4233979 TAAATACATTTTATTTATT
1 TAAATACATTTTAATTATT
4233998 TAAA-ACATTTTAATTATT
1 TAAATACATTTTAATTATT
4234016 T
1 T
4234017 TTTATAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAATACATTTTAATTATT
Found at i:4234829 original size:583 final size:591
Alignment explanation
Indices: 4233253--4235051 Score: 2370
Period size: 611 Copynumber: 3.0 Consensus size: 591
4233243 TTTTTACCTT
* * *
4233253 ATCTTATATAAATATATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTCCAATGTGGATAGC
1 ATCTTATATAAATATAT-AAAATCAAAGTCTTTGATAAAAAAGGAAATAGTCCAATGTGGATAAC
* *
4233318 TTACATTTTTTACATGTAGATGAGTTTAAAAAATTATCC-TGTGTTCTCTAATAAATGTATTTTA
65 TTACATTTTTTACATGTAGATGA-TTTAAAAAATTA-CCATATGTTCTCTAATAAATGCATTTTA
*
4233382 TTTATTTAAAACATTTTTATCATTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAA
128 TTTATTTAAAACATTTTTAT--TTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAG
* * **
4233447 ACTAAATTAATTACATTTATTTCCTTTTAAATATCCAATATTTTTACCTTGTCTTATATAAATGT
191 ACTAAATTAATTACATTTATTACCTTTTAAATATCC-ATATTTTTACCTTATCTTATATAAATAA
* * *
4233512 ATAAAAATCAAAGCCTTTGATAAAAAAGGAGATAGTCCAATGTGGATAGCTTACATTTTTTACAT
255 ATAAAAGTCAAAG-CTTTGATAAAAAAGGAAATAGTTCAATGTGGATAGCTTACATTTTTTACAT
*
4233577 GTAGATGAGTTTAAAAAATTATCATGTGTTCTCTAATAAATGTATTTTATTTATTTAAAACATTT
319 GTAGATGAGTTTAAAAAATTACCATGTGTTCTCTAATAAATGTATTTTATTTATTT-AAACA---
* *
4233642 TTATCATTTTTATAGTAACATTTTTATTACTTAAAAAATAATTAGTTGGACCAAATTAATTACAT
380 -TATCA-TTTTATA-T-A-A---TTATTACTTAAAAAATAATTAGTTAGATCAAATTAATTACAT
* *
4233707 TTATTACCTTTTAAATATCCAATATTTTTACCTTAAATGAATAAGTTACAATTAATTTTGTCAAT
437 TTATTACCTTTTAAATATCCAATATTTTTACCCTATATGAATAAGTTACAATTAATTTTGTCAAT
* * *
4233772 AAGACAAATAAAAATAGAAACCAAATAAATTAAGAGCTAATTACTCATGAATACATTTCCATATC
502 AATACAAATAAAAATAGAAACTAAATAAA--AA-A-CTAATTACTCATGAATATATTTCCATATC
*
4233837 TTCTAATTACTAATGAAAAATTAAATAAA
563 TTCTAATTACTCATGAAAAATTAAATAAA
* *
4233866 ATCTTATATAAATATATAAAAGTCAAAGTCTTT-A-ATAAAAGAAAATAGTCCAATGTGGATAAC
1 ATCTTATATAAATATATAAAA-TCAAAGTCTTTGATAAAAAAGGAAATAGTCCAATGTGGATAAC
* *
4233929 TTACATTTTTTACATGTAGATGGA-TTAAAAAATTATCATATGTTCTCTAATAAATACATTTTAT
65 TTACATTTTTTACATGTAGAT-GATTTAAAAAATTACCATATGTTCTCTAATAAATGCATTTTAT
4233993 TTATTTAAAACATTTTAATTATTTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAG
129 TTATTTAAAACA-TTT--TTATTTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAG
* * * *
4234058 ACTAAGTTAATTACATTTATTACCTTTTAAATATCCAAATTTTT-TCTTATTTTATATAAA-AAT
191 ACTAAATTAATTACATTTATTACCTTTTAAATATCCATATTTTTACCTTATCTTATATAAATAA-
* *
4234121 ATAAAAGTCAAAACCTTTGATAAAAAAAGGAAATAG-TCTAATGTGGATGGCTTACATTTTTTTA
255 ATAAAAGTC-AAAGCTTTGAT-AAAAAAGGAAATAGTTC-AATGTGGATAGCTTACA-TTTTTTA
* *
4234185 CATGTAGATGAGTTTAAAAAATTACCATATGTTCTCTAATAAATATATTTTATTTATTT-AA-A-
316 CATGTAGATGAGTTTAAAAAATTACCATGTGTTCTCTAATAAATGTATTTTATTTATTTAAACAT
4234247 A-CA-TTT-T-T-A-T-TT-CTTAAAAAATAATTAGTTAGATCAAATTAATTACATTTATTACCT
381 ATCATTTTATATAATTATTACTTAAAAAATAATTAGTTAGATCAAATTAATTACATTTATTACCT
* *
4234304 TTTAAAAATCTAATATTTTTACCCTATATGAATAAGTTACAATTAATTTTGTCAATAATACAAAT
446 TTTAAATATCCAATATTTTTACCCTATATGAATAAGTTACAATTAATTTTGTCAATAATACAAAT
*
4234369 AAAAATAGAAACTAAATAAAAAACTAAATACTCATGAATATATTTCCATATCTTCTAATTACTCA
511 AAAAATAGAAACTAAATAAAAAACTAATTACTCATGAATATATTTCCATATCTTCTAATTACTCA
4234434 TGAAAAATTAAATAAA
576 TGAAAAATTAAATAAA
* * * * * *
4234450 ATGTTGTATAAATTTATAACAATCGAAGTCTTTGATAAAAAAGGAAATAGTCCAATGTAGATAAT
1 ATCTTATATAAATATATAA-AATCAAAGTCTTTGATAAAAAAGGAAATAGTCCAATGTGGATAAC
* * * *
4234515 TTACACTTTTTACATGTAGATAGATTTAAAAAATCACCATATGTTCTGTAATAAATGCATTGTAT
65 TTACATTTTTTACATGTAGAT-GATTTAAAAAATTACCATATGTTCTCTAATAAATGCATTTTAT
* * *
4234580 TTATTTAAAACA-TTTTGTTTTTTATAGTAATATTTGTATTACTTAAAAAATAATTAGTTAGACA
129 TTATTTAAAACATTTTTATTTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAGACT
* **
4234644 AAATTAATTACATTTGTTACCCATTAAATATCCTATATTTTTACCTTATCTTATATAAATAAATA
194 AAATTAATTACATTTATTACCTTTTAAATATCC-ATATTTTTACCTTATCTTATATAAATAAATA
* * * *
4234709 AAAGTCAAATGCTTTGATAAAAAAGGAAATAGTTCAACGTGAATATCTTACATTTTTTACATATA
258 AAAGTCAAA-GCTTTGATAAAAAAGGAAATAGTTCAATGTGGATAGCTTACATTTTTTACATGTA
* *
4234774 GATGAGTTTAAAAAATCACCAGGTGTTCTCTAATAAATGTATTTTATTTATTTAAAACATTTTTA
322 GATGAGTTTAAAAAATTACCATGTGTTCTCTAATAAATGTATTTTATTTATTT-AAACA----TA
4234839 TCATTTTTATAGTAACATTTTTATTACTTAAAAAATAATTAGTTAGATCAAATTAATTACATTTA
382 TCA-TTTTATA-T-A-A---TTATTACTTAAAAAATAATTAGTTAGATCAAATTAATTACATTTA
* * *
4234904 TTACCTTTTAAATATCCAATATTTTTA-CCT-TAT--AT-AGCTATAATTAATTTTGTTAATAAT
440 TTACCTTTTAAATATCCAATATTTTTACCCTATATGAATAAGTTACAATTAATTTTGTCAATAAT
* * *
4234964 ACAAATAAAAATGGAAACTAAATAAAAAGCTAATTAGTCATGAATATATTTCCATATCTTC-AAT
505 ACAAATAAAAATAGAAACTAAATAAAAAACTAATTACTCATGAATATATTTCCATATCTTCTAAT
* * *
4235028 TATTCGTGAAAAAATAAATAAA
570 TACTCATGAAAAATTAAATAAA
4235050 AT
1 AT
4235052 TTAATGTAGT
Statistics
Matches: 1059, Mismatches: 84, Indels: 99
0.85 0.07 0.08
Matches are distributed among these distances:
583 137 0.13
584 118 0.11
585 40 0.04
586 52 0.05
587 47 0.04
588 122 0.12
589 2 0.00
590 1 0.00
591 1 0.00
592 2 0.00
594 4 0.00
595 1 0.00
597 2 0.00
599 1 0.00
600 28 0.03
601 79 0.07
602 4 0.00
603 1 0.00
604 4 0.00
605 5 0.00
606 64 0.06
608 1 0.00
609 32 0.03
610 85 0.08
611 188 0.18
612 7 0.01
613 31 0.03
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (591 bp):
ATCTTATATAAATATATAAAATCAAAGTCTTTGATAAAAAAGGAAATAGTCCAATGTGGATAACT
TACATTTTTTACATGTAGATGATTTAAAAAATTACCATATGTTCTCTAATAAATGCATTTTATTT
ATTTAAAACATTTTTATTTTTTATAGTAACATTTGTATTACTTAAAAAATAATTAGTTAGACTAA
ATTAATTACATTTATTACCTTTTAAATATCCATATTTTTACCTTATCTTATATAAATAAATAAAA
GTCAAAGCTTTGATAAAAAAGGAAATAGTTCAATGTGGATAGCTTACATTTTTTACATGTAGATG
AGTTTAAAAAATTACCATGTGTTCTCTAATAAATGTATTTTATTTATTTAAACATATCATTTTAT
ATAATTATTACTTAAAAAATAATTAGTTAGATCAAATTAATTACATTTATTACCTTTTAAATATC
CAATATTTTTACCCTATATGAATAAGTTACAATTAATTTTGTCAATAATACAAATAAAAATAGAA
ACTAAATAAAAAACTAATTACTCATGAATATATTTCCATATCTTCTAATTACTCATGAAAAATTA
AATAAA
Found at i:4236045 original size:9 final size:9
Alignment explanation
Indices: 4236031--4236055 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4236021 CTTACACACA
4236031 ATTTTCTAT
1 ATTTTCTAT
4236040 ATTTTCTAT
1 ATTTTCTAT
4236049 ATTTTCT
1 ATTTTCT
4236056 TTTTTAGATA
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:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTCTAT
Found at i:4236232 original size:2 final size:2
Alignment explanation
Indices: 4236225--4236250 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4236215 AGAATATAAG
4236225 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4236251 TAATACAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4237554 original size:10 final size:10
Alignment explanation
Indices: 4237539--4237563 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4237529 CGAAAAAAAA
4237539 ATTATTTATT
1 ATTATTTATT
4237549 ATTATTTATT
1 ATTATTTATT
4237559 ATTAT
1 ATTAT
4237564 CAATTTTTGT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTATTTATT
Found at i:4238057 original size:8 final size:8
Alignment explanation
Indices: 4238022--4238056 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
4238012 ATTTCAAAAA
*
4238022 TTTTATAT
1 TTTTATGT
4238030 TTTTATGT
1 TTTTATGT
4238038 TTTTATGT
1 TTTTATGT
4238046 TTTTAT-T
1 TTTTATGT
4238053 TTTT
1 TTTT
4238057 TTTTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (8 bp):
TTTTATGT
Found at i:4239077 original size:21 final size:21
Alignment explanation
Indices: 4239044--4239098 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
4239034 AATAAATAAT
* *
4239044 AATAAATATATATTAATAGATA
1 AATAAA-AAATATTAACAGATA
4239066 AATAAAAAATATTAACAGATA
1 AATAAAAAATATTAACAGATA
*
4239087 AATGATAAAATA
1 AAT-AAAAAATA
4239099 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (21 bp):
AATAAAAAATATTAACAGATA
Found at i:4239421 original size:6 final size:6
Alignment explanation
Indices: 4239368--4239406 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
4239358 AATTTCTCTT
* * *
4239368 ACAGCA ACAGCA GCAGCA GCAGCA ACAACA ACAGCA ACA
1 ACAGCA ACAGCA ACAGCA ACAGCA ACAGCA ACAGCA ACA
4239407 TCATCAACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.33, G:0.18, T:0.00
Consensus pattern (6 bp):
ACAGCA
Found at i:4239695 original size:9 final size:9
Alignment explanation
Indices: 4239671--4239718 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
4239661 CTTCGCAACC
*
4239671 ACAACAACA
1 ACAACAGCA
4239680 ACAACAGCA
1 ACAACAGCA
4239689 ACAACAGCA
1 ACAACAGCA
* *
4239698 GCAGCAGCA
1 ACAACAGCA
*
4239707 ACAGCAGCA
1 ACAACAGCA
4239716 ACA
1 ACA
4239719 GCAAAAGCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.52, C:0.33, G:0.15, T:0.00
Consensus pattern (9 bp):
ACAACAGCA
Found at i:4239719 original size:9 final size:9
Alignment explanation
Indices: 4239678--4239721 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
4239668 ACCACAACAA
*
4239678 CAACAACAG
1 CAACAGCAG
*
4239687 CAACAACAG
1 CAACAGCAG
*
4239696 CAGCAGCAG
1 CAACAGCAG
4239705 CAACAGCAG
1 CAACAGCAG
4239714 CAACAGCA
1 CAACAGCA
4239722 AAAGCAGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.48, C:0.34, G:0.18, T:0.00
Consensus pattern (9 bp):
CAACAGCAG
Found at i:4239720 original size:15 final size:15
Alignment explanation
Indices: 4239690--4239728 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
4239680 ACAACAGCAA
*
4239690 CAACAGCAGCAGCAG
1 CAACAGCAGCAACAG
4239705 CAACAGCAGCAACAG
1 CAACAGCAGCAACAG
*
4239720 CAAAAGCAG
1 CAACAGCAG
4239729 ATCCGACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.46, C:0.31, G:0.23, T:0.00
Consensus pattern (15 bp):
CAACAGCAGCAACAG
Found at i:4241570 original size:131 final size:132
Alignment explanation
Indices: 4241389--4241641 Score: 463
Period size: 134 Copynumber: 1.9 Consensus size: 132
4241379 TGTGGAAATT
4241389 CACACACACACACACATGCATGCAATTTAAAATACTTTTGTTTCT-CCCCCCACTCCCGCCCAAT
1 CACACACACACACACATGCATGCAATTTAAAATACTTTTGTTTCTCCCCCCCACTCCCGCCCAAT
4241453 CCTTTTCCCTCCTTTTTCTGTCTCGGCTATAAACCCCACCCCCCCTTTTTCTTCTGAAATTCACA
66 CCTTTTCCCTCCTTTTTCTGTCTCGGCTATAAACCCCACCCCCCCTTTTTCTTCTGAAATTCACA
4241518 CA
131 CA
*
4241520 CACACACACACACACATGCATGCAATTTAAAATACTTTTGTTTCTCCCCCCCCCCCTCCCGCCCA
1 CACACACACACACACATGCATGCAATTTAAAATACTTTTGTTTCT--CCCCCCCACTCCCGCCCA
*
4241585 ATCCTTTTCCCTCCTTTTTCTGTCTTGGCTATAAACCCCACCCCCCCTTTTTCTTCT
64 ATCCTTTTCCCTCCTTTTTCTGTCTCGGCTATAAACCCCACCCCCCCTTTTTCTTCT
4241642 ATCTGATTCT
Statistics
Matches: 117, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
131 45 0.38
134 72 0.62
ACGTcount: A:0.21, C:0.41, G:0.06, T:0.32
Consensus pattern (132 bp):
CACACACACACACACATGCATGCAATTTAAAATACTTTTGTTTCTCCCCCCCACTCCCGCCCAAT
CCTTTTCCCTCCTTTTTCTGTCTCGGCTATAAACCCCACCCCCCCTTTTTCTTCTGAAATTCACA
CA
Found at i:4241955 original size:37 final size:37
Alignment explanation
Indices: 4241905--4241980 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
4241895 ATGAATATTT
**
4241905 TAGCATATGATCAATGAAATGTAGTATATGTGTGTTA
1 TAGCATATGATCAATGAAATGTAGTATATGCATGTTA
4241942 TAGCATATGATCAATGAAATGTAGTATATGCATGTTA
1 TAGCATATGATCAATGAAATGTAGTATATGCATGTTA
4241979 TA
1 TA
4241981 TAGCTGCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (37 bp):
TAGCATATGATCAATGAAATGTAGTATATGCATGTTA
Found at i:4242252 original size:2 final size:2
Alignment explanation
Indices: 4242245--4242269 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4242235 GTAATTCAAG
4242245 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
4242270 ACTACTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4247212 original size:2 final size:2
Alignment explanation
Indices: 4247205--4247233 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4247195 TCCCTCCCTT
4247205 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4247234 TTGGAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4251526 original size:29 final size:30
Alignment explanation
Indices: 4251493--4251598 Score: 112
Period size: 30 Copynumber: 3.6 Consensus size: 30
4251483 TATTTAGGTT
* *
4251493 ATTTTTAATTTTTTA-TTATAATTAAAT-A
1 ATTTTTAATTTTTAATTTATAATAAAATAA
*
4251521 ATTTTTAATTTTTAATTTATACTAAAATAAA
1 ATTTTTAATTTTTAATTTATAATAAAAT-AA
* *
4251552 ATTTTTAA-TTTTAATTTAT-ATGTAACTAA
1 ATTTTTAATTTTTAATTTATAAT-AAAATAA
*
4251581 ATTCTTAATTTTTAATTT
1 ATTTTTAATTTTTAATTT
4251599 GTTCCCAAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
28 14 0.21
29 20 0.30
30 23 0.35
31 9 0.14
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
ATTTTTAATTTTTAATTTATAATAAAATAA
Found at i:4253809 original size:16 final size:17
Alignment explanation
Indices: 4253788--4253825 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4253778 TGTTTATCCA
4253788 AAAAATATT-TTTTCTT
1 AAAAATATTATTTTCTT
* *
4253804 AAAAATTTTATTTTGTT
1 AAAAATATTATTTTCTT
4253821 AAAAA
1 AAAAA
4253826 ATAATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
AAAAATATTATTTTCTT
Found at i:4253825 original size:18 final size:17
Alignment explanation
Indices: 4253787--4253828 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
4253777 TTGTTTATCC
4253787 AAAAAATATTTTTTCTT
1 AAAAAATATTTTTTCTT
* *
4253804 -AAAAATTTTATTTTGTT
1 AAAAAATATT-TTTTCTT
4253821 AAAAAATA
1 AAAAAATA
4253829 ATATCTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 8 0.40
17 6 0.30
18 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
AAAAAATATTTTTTCTT
Found at i:4256925 original size:2 final size:2
Alignment explanation
Indices: 4256918--4256943 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4256908 TCTTTTCTCC
4256918 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4256944 CAAACAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4259400 original size:14 final size:14
Alignment explanation
Indices: 4259381--4259410 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4259371 AATGGAAAAT
4259381 AATAGAGAAGAAGA
1 AATAGAGAAGAAGA
4259395 AATAGAGAAGAAGA
1 AATAGAGAAGAAGA
4259409 AA
1 AA
4259411 GGAAACGTTT
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:0.27, T:0.07
Consensus pattern (14 bp):
AATAGAGAAGAAGA
Found at i:4283100 original size:3 final size:3
Alignment explanation
Indices: 4283092--4283129 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4283082 ACTTAATTTG
4283092 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4283130 GTAATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4284210 original size:31 final size:29
Alignment explanation
Indices: 4284139--4284210 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
4284129 ATTAATAAAA
* *
4284139 TTATAAGTTATATATTATATTAAAGATTT
1 TTATAATTTAAATATTATATTAAAGATTT
*
4284168 TTAAAATTTAAATATTATATTAAATG-TTT
1 TTATAATTTAAATATTATATTAAA-GATTT
4284197 TACTATAATTTAAA
1 T--TATAATTTAAA
4284211 AATAATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 25 0.69
30 1 0.03
31 10 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (29 bp):
TTATAATTTAAATATTATATTAAAGATTT
Found at i:4285522 original size:7 final size:7
Alignment explanation
Indices: 4285512--4285547 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
4285502 AAAACATATC
4285512 ATATAAA
1 ATATAAA
4285519 ATATAAA
1 ATATAAA
4285526 ATATAAA
1 ATATAAA
*
4285533 AAATAAA
1 ATATAAA
*
4285540 AAATAAA
1 ATATAAA
4285547 A
1 A
4285548 ACTATATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
ATATAAA
Found at i:4285535 original size:16 final size:15
Alignment explanation
Indices: 4285516--4285553 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4285506 CATATCATAT
4285516 AAAATATAAAATATAA
1 AAAATATAAAA-ATAA
4285532 AAAATA-AAAAATAA
1 AAAATATAAAAATAA
*
4285546 AAACTATA
1 AAAATATA
4285554 TACAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 5 0.25
16 6 0.30
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATATAAAAATAA
Found at i:4297620 original size:32 final size:32
Alignment explanation
Indices: 4297557--4297622 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
4297547 TGTAAATCTC
*
4297557 AACCTTTTAAATATTTCATAGGTCTCTATTGA
1 AACCTTTTAAATATTTCATAGGTCTCAATTGA
4297589 AACCTTTTAAATATTTCATAGG-CTCCAATTGA
1 AACCTTTTAAATATTTCATAGGTCT-CAATTGA
4297621 AA
1 AA
4297623 ATTTTTTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (32 bp):
AACCTTTTAAATATTTCATAGGTCTCAATTGA
Found at i:4299835 original size:3 final size:3
Alignment explanation
Indices: 4299827--4299853 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4299817 TAATTGGAGC
4299827 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4299854 TTGAGTGAGG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4302578 original size:3 final size:3
Alignment explanation
Indices: 4302570--4302603 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4302560 TAAAGAAAAG
4302570 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4302604 AAAATAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4309201 original size:25 final size:25
Alignment explanation
Indices: 4309148--4309205 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
4309138 TTAAGATAAC
* *
4309148 TATTAAAATATTAAATTTTATTTAT
1 TATTAAAATATTAAATATTATTTAA
4309173 TATTAAAATATATCAAA-ATTA-TTAA
1 TATTAAAATAT-T-AAATATTATTTAA
4309198 TATTAAAA
1 TATTAAAA
4309206 AATAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 22 0.76
26 4 0.14
27 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAATATTATTTAA
Found at i:4309294 original size:15 final size:15
Alignment explanation
Indices: 4309276--4309432 Score: 99
Period size: 15 Copynumber: 11.0 Consensus size: 15
4309266 TATTATTCTT
4309276 TATATTATTTATTAA
1 TATATTATTTATTAA
* *
4309291 TATATTATATTAGTAG
1 TATATTAT-TTATTAA
*
4309307 TATATTATTTAATAA
1 TATATTATTTATTAA
4309322 TATATTA-TTA-TAA
1 TATATTATTTATTAA
*
4309335 TATTTATTAGTTAAATTAA
1 TA--TATTA-TT-TATTAA
*
4309354 TA-ATT-TTTATTAT
1 TATATTATTTATTAA
4309367 TATATTATTTATT-A
1 TATATTATTTATTAA
*
4309381 TA-A-TA-TTA--CA
1 TATATTATTTATTAA
4309391 -ATATTATTTATTAA
1 TATATTATTTATTAA
*
4309405 TATATTA--TAAT-A
1 TATATTATTTATTAA
4309417 TAATATTATTTATTAA
1 T-ATATTATTTATTAA
4309433 CATAATATTA
Statistics
Matches: 111, Mismatches: 11, Indels: 39
0.69 0.07 0.24
Matches are distributed among these distances:
9 1 0.01
10 2 0.02
11 5 0.05
12 7 0.06
13 21 0.19
14 11 0.10
15 40 0.36
16 17 0.15
17 1 0.01
18 1 0.01
19 5 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:4309311 original size:31 final size:29
Alignment explanation
Indices: 4309276--4309432 Score: 134
Period size: 31 Copynumber: 5.5 Consensus size: 29
4309266 TATTATTCTT
4309276 TATATTATTTATTAATATATTATATTAGTA
1 TATATTATTTATTAATATATTATATTA-TA
* *
4309306 GTATATTATTTAATAATATATTATTATAATA
1 -TATATTATTTATTAATATATTA-TATTATA
* * *
4309337 TTTATTAGTTAAATTAATA-ATTTTTATTAT-
1 TATATTA-TT-TATTAATATA-TTATATTATA
*
4309367 TATATTATTTA-T--TATA--ATATTACA
1 TATATTATTTATTAATATATTATATTATA
*
4309391 -ATATTATTTATTAATATATTATAATATA
1 TATATTATTTATTAATATATTATATTATA
4309419 -ATATTATTTATTAA
1 TATATTATTTATTAA
4309433 CATAATATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
23 15 0.15
24 1 0.01
25 2 0.02
26 5 0.05
27 1 0.01
28 21 0.21
29 2 0.02
30 12 0.12
31 31 0.30
32 12 0.12
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATTATTTATTAATATATTATATTATA
Found at i:4309362 original size:22 final size:21
Alignment explanation
Indices: 4309331--4309373 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4309321 ATATATTATT
4309331 ATAATATTTATTAGTTAAATTA
1 ATAATATTTATTA-TTAAATTA
* *
4309353 ATAATTTTTATTATTATATTA
1 ATAATATTTATTATTAAATTA
4309374 TTTATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATAATATTTATTATTAAATTA
Found at i:4309394 original size:23 final size:23
Alignment explanation
Indices: 4309368--4309426 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
4309358 TTTTATTATT
4309368 ATATTATTTATT-ATAATATTACA
1 ATATTATTTATTAAT-ATATTACA
*
4309391 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTACA
*
4309414 ATATAATATTATT
1 ATATTAT-TTATT
4309427 TATTAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 25 0.78
24 7 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTATTTATTAATATATTACA
Found at i:4313738 original size:29 final size:29
Alignment explanation
Indices: 4313682--4313739 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4313672 ATTGAGGCGA
* *** *
4313682 AATAAAATATTAAAAGTTTGGTTTATTAT
1 AATAAAATATTAAAAATTTAAATAATTAT
4313711 AATAAAATATTAAAAATTTAAATAATTAT
1 AATAAAATATTAAAAATTTAAATAATTAT
4313740 TGAATTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (29 bp):
AATAAAATATTAAAAATTTAAATAATTAT
Found at i:4324110 original size:16 final size:17
Alignment explanation
Indices: 4324075--4324109 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4324065 CAAAATTCTG
4324075 TTAAAATTATTTTATTT
1 TTAAAATTATTTTATTT
*
4324092 TTAAAATTTTTTTATTT
1 TTAAAATTATTTTATTT
4324109 T
1 T
4324110 ACATATTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTAAAATTATTTTATTT
Found at i:4329688 original size:14 final size:13
Alignment explanation
Indices: 4329663--4329698 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
4329653 TTAAATTATT
4329663 TATTTA-ATTTTA
1 TATTTATATTTTA
4329675 TATTTATATGTTTA
1 TATTTATAT-TTTA
4329689 TATTTATATT
1 TATTTATATT
4329699 AAAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 3 0.14
14 13 0.59
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:4329715 original size:19 final size:20
Alignment explanation
Indices: 4329691--4329735 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
4329681 TATGTTTATA
4329691 TTTATA-TTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
4329710 TTTATATTTTAAAAATAATAT
1 TTTATA-TTTAAAAATAATAT
4329731 TTTAT
1 TTTAT
4329736 TAATTTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
21 18 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:4329723 original size:21 final size:23
Alignment explanation
Indices: 4329697--4329744 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 23
4329687 TATATTTATA
4329697 TTAAAAATAATATTTTA-T-ATT
1 TTAAAAATAATATTTTATTAATT
4329718 TTAAAAATAATATTTTATTAATT
1 TTAAAAATAATATTTTATTAATT
4329741 TTAA
1 TTAA
4329745 GTCCATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.68
22 1 0.04
23 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAAAAATAATATTTTATTAATT
Found at i:4331658 original size:18 final size:18
Alignment explanation
Indices: 4331626--4331660 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4331616 TCATTATTCT
* *
4331626 TTGTATATGTGAATAGTA
1 TTGTATATATAAATAGTA
4331644 TTGTATATATAAATAGT
1 TTGTATATATAAATAGT
4331661 GATAGACTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (18 bp):
TTGTATATATAAATAGTA
Found at i:4333769 original size:86 final size:85
Alignment explanation
Indices: 4333613--4333776 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 85
4333603 AACATGCACT
*
4333613 ATTTCAACAAGCACTCACTCTCCGAGATTATACAAGTACTTTCCACTATCCTAAGATAGACACTA
1 ATTTCAACAAGCACTCACTCTCCGAGATTATACAAGTACTTTCCACTATCCTAAGATAAACACTA
4333678 TAAACCTCAAAATACATTACC
66 TAAACC-CAAAATACATTACC
* * * * * * *
4333699 ATTTCAACAAGTATTCACTCAT-CGAGATTATATAAGTGC-TTCCATTATCTTAAGATAAACATT
1 ATTTCAACAAGCACTCACTC-TCCGAGATTATACAAGTACTTTCCACTATCCTAAGATAAACACT
4333762 ATAAAACCCAAAATA
65 AT-AAACCCAAAATA
4333777 TACCATCACT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 29 0.43
86 38 0.56
87 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.29
Consensus pattern (85 bp):
ATTTCAACAAGCACTCACTCTCCGAGATTATACAAGTACTTTCCACTATCCTAAGATAAACACTA
TAAACCCAAAATACATTACC
Found at i:4333966 original size:19 final size:19
Alignment explanation
Indices: 4333920--4333967 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4333910 TTTTTTGTGT
* * *
4333920 TTACTGTAACAGTCTATTG
1 TTACTGTAGCAATCTATGG
* *
4333939 TCACAGTAGCAATCTATGG
1 TTACTGTAGCAATCTATGG
4333958 TTACTGTAGC
1 TTACTGTAGC
4333968 CGCAGCAGTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (19 bp):
TTACTGTAGCAATCTATGG
Found at i:4336082 original size:23 final size:23
Alignment explanation
Indices: 4336056--4336112 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
4336046 ATATGATAAT
*
4336056 AAAATATAAAAATGATATAAATA
1 AAAATATAAAAATAATATAAATA
* *
4336079 AAAATAT-AAAATAATATAATTT
1 AAAATATAAAAATAATATAAATA
*
4336101 AAAATTTAAAAA
1 AAAATATAAAAA
4336113 AAATTAACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATATAAAAATAATATAAATA
Found at i:4336157 original size:28 final size:31
Alignment explanation
Indices: 4336124--4336184 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
4336114 AATTAACAAA
* *
4336124 ATTAATA-AAA-TATATTTTATA-TTTTTAT
1 ATTAATATAAATTATAATATATACTTTTTAT
4336152 ATTAATATAAATTATAATATATACTTTTTAT
1 ATTAATATAAATTATAATATATACTTTTTAT
4336183 AT
1 AT
4336185 AAAATATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 3 0.11
30 9 0.32
31 9 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTAATATAAATTATAATATATACTTTTTAT
Found at i:4339938 original size:3 final size:3
Alignment explanation
Indices: 4339884--4339919 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4339874 TTATTATTGA
*
4339884 GAT GAT GAT GAT GAT GAT GAT GAT GTT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
4339920 TTTGTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (3 bp):
GAT
Found at i:4342178 original size:30 final size:32
Alignment explanation
Indices: 4342142--4342208 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
4342132 TTTTAAGAAT
* * * *
4342142 AAAATTTT-AA-ATGTATCAAATTAATATTAA
1 AAAATTTTGAATATGCATAAAATCAATATGAA
4342172 AAAATTTTGAATATGCATAAAATCAATATGAA
1 AAAATTTTGAATATGCATAAAATCAATATGAA
4342204 AAAAT
1 AAAAT
4342209 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 8 0.26
31 2 0.06
32 21 0.68
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (32 bp):
AAAATTTTGAATATGCATAAAATCAATATGAA
Found at i:4346791 original size:16 final size:16
Alignment explanation
Indices: 4346750--4346798 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
4346740 TTTTGCATGC
*
4346750 TAATATAAATTTTGATA
1 TAATATATATTTT-ATA
4346767 TAATA-ATATTTTATA
1 TAATATATATTTTATA
* *
4346782 TTATATATATTTAATA
1 TAATATATATTTTATA
4346798 T
1 T
4346799 GAAATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.25
16 16 0.57
17 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATATTTTATA
Found at i:4359209 original size:24 final size:23
Alignment explanation
Indices: 4359182--4359230 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
4359172 CAATGATATG
* *
4359182 ATATAAATATGACATGAATGTAAA
1 ATATAAAGATAACAT-AATGTAAA
*
4359206 ATATAAAGATAACATAATTTAAA
1 ATATAAAGATAACATAATGTAAA
4359229 AT
1 AT
4359231 TTTAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (23 bp):
ATATAAAGATAACATAATGTAAA
Found at i:4359251 original size:24 final size:23
Alignment explanation
Indices: 4359222--4359280 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
4359212 AGATAACATA
* *
4359222 ATTTAAAATTTTAATAATTATTAT
1 ATTTAAAATTTTAAAAATAATT-T
4359246 ATTT-AAATTTTAAAAATAATTT
1 ATTTAAAATTTTAAAAATAATTT
* *
4359268 TTTTATAATTTTA
1 ATTTAAAATTTTA
4359281 TATTAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 4 0.13
23 22 0.73
24 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTAAAATTTTAAAAATAATTT
Found at i:4359314 original size:31 final size:32
Alignment explanation
Indices: 4359271--4359347 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
4359261 ATAATTTTTT
* * *
4359271 TATAA-TTTTATATTAATATA-AATTATAATA
1 TATAATTTTTATATTAAAATATAATAAAAATA
4359301 TATAATTTTTATA-TAAAATATAATAAAAATA
1 TATAATTTTTATATTAAAATATAATAAAAATA
*
4359332 TATAAATTTTAATATT
1 TAT-AATTTTTATATT
4359348 TTACATTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 11 0.28
31 18 0.46
32 9 0.23
33 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAATTTTTATATTAAAATATAATAAAAATA
Found at i:4366459 original size:16 final size:15
Alignment explanation
Indices: 4366436--4366474 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
4366426 TAAACCGAAG
4366436 TAAAGAATACATACA
1 TAAAGAATACATACA
*
4366451 TAGAAGAATATATACA
1 TA-AAGAATACATACA
4366467 TAAAGAAT
1 TAAAGAAT
4366475 TTTGGTGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.23
Consensus pattern (15 bp):
TAAAGAATACATACA
Found at i:4372218 original size:9 final size:9
Alignment explanation
Indices: 4372204--4372228 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4372194 TTTCCAAAAC
4372204 TATATTTTT
1 TATATTTTT
4372213 TATATTTTT
1 TATATTTTT
4372222 TATATTT
1 TATATTT
4372229 CATAAAAATA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATATTTTT
Found at i:4372560 original size:21 final size:22
Alignment explanation
Indices: 4372529--4372569 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
4372519 AAATTATATT
4372529 TTTTGAATTTTTTTAAATCAGG
1 TTTTGAATTTTTTTAAATCAGG
4372551 TTTT-AATTTTTTTAAATCA
1 TTTTGAATTTTTTTAAATCA
4372570 AATTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTTGAATTTTTTTAAATCAGG
Found at i:4372575 original size:20 final size:21
Alignment explanation
Indices: 4372534--4372575 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4372524 ATATTTTTTG
**
4372534 AATTTTTTTAAATCAGGTTTT
1 AATTTTTTTAAATCAGAATTT
4372555 AATTTTTTTAAATCA-AATTT
1 AATTTTTTTAAATCAGAATTT
4372575 A
1 A
4372576 TTTCTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
AATTTTTTTAAATCAGAATTT
Found at i:4372643 original size:25 final size:24
Alignment explanation
Indices: 4372611--4372677 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
4372601 TTTTTCAATA
4372611 TTTATTTTTTAAAAATAATATTTC
1 TTTATTTTTTAAAAATAATATTTC
* *
4372635 TTTATTTTTAAAAAAATCATATTTC
1 TTTATTTTT-TAAAAATAATATTTC
**
4372660 -AAATTTTTTAAAAATAAT
1 TTTATTTTTTAAAAATAAT
4372678 TTTATATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 8 0.22
24 15 0.42
25 13 0.36
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTATTTTTTAAAAATAATATTTC
Found at i:4372778 original size:23 final size:23
Alignment explanation
Indices: 4372752--4372803 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4372742 AGTATTTTGA
4372752 TTTAA-AATATCATTTTTTAAAAT
1 TTTAATAA-ATCATTTTTTAAAAT
**
4372775 TTTAATAAATTTTTTTTTAAAA-
1 TTTAATAAATCATTTTTTAAAAT
4372797 TTTAATA
1 TTTAATA
4372804 TTTCAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 17 0.65
24 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAATAAATCATTTTTTAAAAT
Found at i:4382400 original size:10 final size:11
Alignment explanation
Indices: 4382381--4382405 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4382371 ATGTTGAATA
4382381 TTTTCTTTTTT
1 TTTTCTTTTTT
4382392 TTTTCTTTTTT
1 TTTTCTTTTTT
4382403 TTT
1 TTT
4382406 AATACATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:4400560 original size:19 final size:19
Alignment explanation
Indices: 4400536--4400573 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4400526 ATAGAATTTA
* *
4400536 ATAAAAATATTAATAATAT
1 ATAAAAAAATTAAAAATAT
4400555 ATAAAAAAATTAAAAATAT
1 ATAAAAAAATTAAAAATAT
4400574 CATTTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAAAAATTAAAAATAT
Found at i:4401505 original size:23 final size:22
Alignment explanation
Indices: 4401477--4401527 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
4401467 TAAATTCAAA
4401477 TAAATTTAAATTATTTCAAGTTT
1 TAAATTTAAATTATTTCAA-TTT
* *
4401500 TAAATTTGAATTATTTTAATTT
1 TAAATTTAAATTATTTCAATTT
4401522 TAAATT
1 TAAATT
4401528 GAATAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
TAAATTTAAATTATTTCAATTT
Found at i:4401538 original size:21 final size:22
Alignment explanation
Indices: 4401497--4401539 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4401487 TTATTTCAAG
* *
4401497 TTTTAAATTTGAATTATTTTAA
1 TTTTAAATTTGAATAACTTTAA
4401519 TTTTAAA-TTGAATAACTTTAA
1 TTTTAAATTTGAATAACTTTAA
4401540 ATTGTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTTAAATTTGAATAACTTTAA
Found at i:4401542 original size:22 final size:22
Alignment explanation
Indices: 4401477--4401542 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
4401467 TAAATTCAAA
* * *
4401477 TAAATTTAAATTATTTCAAGTTT
1 TAAATTTGAATAATTT-AAATTT
* *
4401500 TAAATTTGAATTATTTTAATTT
1 TAAATTTGAATAATTTAAATTT
4401522 TAAA-TTGAATAACTTTAAATT
1 TAAATTTGAATAA-TTTAAATT
4401543 GTTATTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 7 0.19
22 15 0.41
23 15 0.41
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (22 bp):
TAAATTTGAATAATTTAAATTT
Found at i:4412743 original size:23 final size:22
Alignment explanation
Indices: 4412717--4412759 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4412707 TATTTTTTTA
4412717 ATTTATTTAAATATGTGTATTAT
1 ATTTATTTAAAT-TGTGTATTAT
* *
4412740 ATTTGTTTAAATTGTTTATT
1 ATTTATTTAAATTGTGTATT
4412760 TTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (22 bp):
ATTTATTTAAATTGTGTATTAT
Found at i:4412841 original size:47 final size:47
Alignment explanation
Indices: 4412788--4412879 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
4412778 AATTATAATT
4412788 ATAATCAAGTATTATATACATATATAAAAAATTATTGAATAATCATC
1 ATAATCAAGTATTATATACATATATAAAAAATTATTGAATAATCATC
4412835 ATAATCAAGTATTATATACATATATAAAAAATTATTGAATAATCA
1 ATAATCAAGTATTATATACATATATAAAAAATTATTGAATAATCA
4412880 ACCAACAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (47 bp):
ATAATCAAGTATTATATACATATATAAAAAATTATTGAATAATCATC
Found at i:4414489 original size:27 final size:26
Alignment explanation
Indices: 4414443--4414494 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
4414433 AATTATTAAA
*
4414443 ATCATAATAAAAAATAAAAAGATAAT
1 ATCATAATAAAAAATAAAAAAATAAT
* *
4414469 ATCATATATAAAACATTAAAAAATAA
1 ATCATA-ATAAAAAATAAAAAAATAA
4414495 AAACAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (26 bp):
ATCATAATAAAAAATAAAAAAATAAT
Found at i:4414577 original size:16 final size:15
Alignment explanation
Indices: 4414539--4414579 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
4414529 TTAATTTAAA
*
4414539 AATATAAAAAATTAT
1 AATATAAAAAATTAC
4414554 AATATAAAATAATTAC
1 AATATAAAA-AATTAC
*
4414570 AATTTAAAAA
1 AATATAAAAA
4414580 GAAATAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATAAAAAATTAC
Found at i:4420188 original size:29 final size:29
Alignment explanation
Indices: 4420148--4420206 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4420138 AGCGCCTTTG
4420148 AAATTCAGGGTTTTCCCTATATTAAAAGA
1 AAATTCAGGGTTTTCCCTATATTAAAAGA
4420177 AAATTCAGGGTTTTCCCTATATTAAAAGA
1 AAATTCAGGGTTTTCCCTATATTAAAAGA
4420206 A
1 A
4420207 GCAAAATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (29 bp):
AAATTCAGGGTTTTCCCTATATTAAAAGA
Found at i:4427025 original size:19 final size:20
Alignment explanation
Indices: 4427003--4427077 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 20
4426993 ATTTTAAAAA
4427003 TATATTA-AAATACAAAGAT
1 TATATTATAAATACAAAGAT
* * *
4427022 TATATTATAAATAAAATTTAAAAA
1 TATATTATAAAT-ACA---AAGAT
*
4427046 TACATTA-AAATACAAAGAT
1 TATATTATAAATACAAAGAT
4427065 TATATTATAAATA
1 TATATTATAAATA
4427078 AATTTTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
19 16 0.38
20 9 0.21
21 2 0.05
22 2 0.05
23 4 0.10
24 9 0.21
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (20 bp):
TATATTATAAATACAAAGAT
Found at i:4427038 original size:25 final size:25
Alignment explanation
Indices: 4427008--4427079 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
4426998 AAAAATATAT
4427008 TAAAATACAAAGATTATATTATAAA
1 TAAAATACAAAGATTATATTATAAA
** *
4427033 TAAAATTTAAA-A--ATA-CAT---
1 TAAAATACAAAGATTATATTATAAA
4427051 TAAAATACAAAGATTATATTATAAA
1 TAAAATACAAAGATTATATTATAAA
4427076 TAAA
1 TAAA
4427080 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
18 9 0.26
19 1 0.03
21 5 0.15
22 5 0.15
24 1 0.03
25 13 0.38
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (25 bp):
TAAAATACAAAGATTATATTATAAA
Found at i:4427043 original size:43 final size:43
Alignment explanation
Indices: 4426988--4427088 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
4426978 TAGAAAAAAT
*
4426988 AATAAATTTTAAAAATATATTAAAATACAAAGATTATATTATA
1 AATAAATTTTAAAAATACATTAAAATACAAAGATTATATTATA
*
4427031 AATAAAATTTAAAAATACATTAAAATACAAAGATTATATTATA
1 AATAAATTTTAAAAATACATTAAAATACAAAGATTATATTATA
4427074 AATAAATTTTAAAAA
1 AATAAATTTTAAAAA
4427089 ACTAAAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (43 bp):
AATAAATTTTAAAAATACATTAAAATACAAAGATTATATTATA
Found at i:4427897 original size:25 final size:25
Alignment explanation
Indices: 4427816--4427900 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
4427806 AAAAATAATA
* *
4427816 ATTTATAAAATATAAT-AATATTTTT
1 ATTTATTAAAT-TAATAAATATATTT
* **
4427841 GTTTATTTTA-TAATAAAATATGATTT
1 ATTTATTAAATTAAT-AAATAT-ATTT
*
4427867 AATTATTAAATTAATAAATATATTT
1 ATTTATTAAATTAATAAATATATTT
4427892 ATTTATTAA
1 ATTTATTAA
4427901 GTAAACCAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
23 4 0.09
25 23 0.50
26 15 0.33
27 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTATTAAATTAATAAATATATTT
Found at i:4428939 original size:21 final size:22
Alignment explanation
Indices: 4428886--4428941 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
4428876 CTTGAGGTAC
*
4428886 AATATAATTTTTTAGGTAAAAA
1 AATATAATTTTATAGGTAAAAA
*
4428908 AATGATAATTTTATA-GTAAATA
1 AAT-ATAATTTTATAGGTAAAAA
*
4428930 AATATCATTTTA
1 AATATAATTTTA
4428942 AAATTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.27
22 12 0.40
23 10 0.33
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (22 bp):
AATATAATTTTATAGGTAAAAA
Found at i:4429009 original size:16 final size:16
Alignment explanation
Indices: 4428990--4429026 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4428980 GTCTTCGGTA
4428990 AAAAAACAATGAAA-AG
1 AAAAAA-AATGAAATAG
4429006 AAAAAAAATGAAATAG
1 AAAAAAAATGAAATAG
4429022 AAAAA
1 AAAAA
4429027 TTAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAAAAATGAAATAG
Found at i:4429398 original size:17 final size:16
Alignment explanation
Indices: 4429376--4429411 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4429366 TTTTATTAAT
4429376 TTATTATAATAAATATA
1 TTATTATAATAAAT-TA
*
4429393 TTATTATATTAAATTA
1 TTATTATAATAAATTA
4429409 TTA
1 TTA
4429412 AATAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATTATAATAAATTA
Found at i:4429887 original size:21 final size:21
Alignment explanation
Indices: 4429863--4429903 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4429853 TATTGATTTT
* *
4429863 AATTTTATCATTACAATAATC
1 AATTTTATAACTACAATAATC
4429884 AATTTTATAACTACAATAAT
1 AATTTTATAACTACAATAAT
4429904 TAATCTCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTTATAACTACAATAATC
Found at i:4433657 original size:31 final size:31
Alignment explanation
Indices: 4433620--4433691 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
4433610 TATATTTTAC
*
4433620 ATTTTTATATCAATATGAATTATAATATATA
1 ATTTTTATATCAATATAAATTATAATATATA
4433651 ATTTTTATATCAATATAAATTATAATATATA
1 ATTTTTATATCAATATAAATTATAATATATA
4433682 ATTTTTATAT
1 ATTTTTATAT
4433692 AAATTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTTTTATATCAATATAAATTATAATATATA
Found at i:4442252 original size:19 final size:17
Alignment explanation
Indices: 4442220--4442254 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
4442210 ACTGGGTAAA
4442220 TATAAAAAAAAAATAAC
1 TATAAAAAAAAAATAAC
4442237 TATAAGAAAGAAAAATAA
1 TATAA-AAA-AAAAATAA
4442255 GCATACTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (17 bp):
TATAAAAAAAAAATAAC
Found at i:4443687 original size:26 final size:26
Alignment explanation
Indices: 4443635--4443689 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4443625 GAATATTATA
* * **
4443635 ATATGGATATTAATATATTTTTTATT
1 ATATGAATATTAATATATGTTAAATT
*
4443661 ATATGAATATTGATATATGTTAAATT
1 ATATGAATATTAATATATGTTAAATT
4443687 ATA
1 ATA
4443690 AAATAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (26 bp):
ATATGAATATTAATATATGTTAAATT
Found at i:4450654 original size:42 final size:42
Alignment explanation
Indices: 4450608--4450692 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
4450598 TCATCATATC
* *
4450608 TTTTAACTTTAGTAAAAGCTTTTATTAACCCTCACTTAAAGT
1 TTTTAACTTTAATAAAAGCTTGTATTAACCCTCACTTAAAGT
** * * *
4450650 TTTTATTTTTAATGAAAGCTTGTATTAACCCTTATTTAAAGT
1 TTTTAACTTTAATAAAAGCTTGTATTAACCCTCACTTAAAGT
4450692 T
1 T
4450693 ACTTTTATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (42 bp):
TTTTAACTTTAATAAAAGCTTGTATTAACCCTCACTTAAAGT
Found at i:4457502 original size:41 final size:41
Alignment explanation
Indices: 4457415--4457528 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 41
4457405 TTTCGCTAGA
* * * * *
4457415 ATCATCTTGATCAAATTAAAATT-GATCGATCATAATTAAT
1 ATCATCTTCATCATATTAAAATTCAATGGATCATAATCAAT
* *
4457455 ATCATCTTCATCATATTAAAATTCAATGGGTTATAATCAAT
1 ATCATCTTCATCATATTAAAATTCAATGGATCATAATCAAT
* *
4457496 ATCATCTTTATCATATTGAAATTCAATGAGATC
1 ATCATCTTCATCATATTAAAATTCAATG-GATC
4457529 TTTAGACTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 21 0.34
41 38 0.62
42 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (41 bp):
ATCATCTTCATCATATTAAAATTCAATGGATCATAATCAAT
Done.