Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 182 of 185
Found at i:55444516 original size:72 final size:70
Alignment explanation
Indices: 55444401--55444543 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 70
55444391 TCTCGGGTTT
*
55444401 GAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCTGAGATCGTTTAAAA
1 GAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAGATCGTTTAAAA
55444466 CTTGA
66 CTTGA
* * *
55444471 GAAAAAAGGGGATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTGATTTCTGAGATCGTTTAA
1 GAAAAAA--GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAGATCGTTTAA
*
55444536 TACTTGA
64 AACTTGA
55444543 G
1 G
55444544 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 7 0.11
72 59 0.89
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (70 bp):
GAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAGATCGTTTAAAA
CTTGA
Found at i:55445170 original size:3 final size:3
Alignment explanation
Indices: 55445162--55445223 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
55445152 TAAATGAGTA
* *
55445162 AAT AAT AAT AAT AAT AAT AAT ACAG AACT AAT AGT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT AAT
55445207 AAT -AT AAT AAT GAAT AA
1 AAT AAT AAT AAT -AAT AA
55445224 ATGAATAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
2 5 0.10
3 37 0.76
4 7 0.14
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:55449591 original size:19 final size:20
Alignment explanation
Indices: 55449561--55449607 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
55449551 ACAAATATTT
55449561 AATTTT-TATATT-TAAATA
1 AATTTTATATATTCTAAATA
* *
55449579 TATTTTATATATTCTAATTA
1 AATTTTATATATTCTAAATA
55449599 AATTTTATA
1 AATTTTATA
55449608 AATAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 13 0.54
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTTATATATTCTAAATA
Found at i:55452299 original size:7 final size:7
Alignment explanation
Indices: 55452289--55452354 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
55452279 AAAGTTAAAA
55452289 TATATAT
1 TATATAT
55452296 TATAATAT
1 TAT-ATAT
55452304 TATAATAT
1 TAT-ATAT
*
55452312 TATATCT
1 TATATAT
55452319 TA-ATTAT
1 TATA-TAT
55452326 TAAGTATAT
1 T-A-TATAT
55452335 ATATTATAT
1 -TA-TATAT
55452344 TATATAT
1 TATATAT
55452351 TATA
1 TATA
55452355 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:55452305 original size:8 final size:8
Alignment explanation
Indices: 55452292--55452357 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
55452282 GTTAAAATAT
55452292 ATATTATA
1 ATATTATA
55452300 ATATTATA
1 ATATTATA
55452308 ATATTAT-
1 ATATTATA
*
55452315 ATCTTA-A
1 ATATTATA
*
55452322 TTATTA-A
1 ATATTATA
*
55452329 GTATATATATT
1 --ATAT-TATA
55452340 ATATTAT-
1 ATATTATA
55452347 ATATTATA
1 ATATTATA
55452355 ATA
1 ATA
55452358 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:55452324 original size:27 final size:26
Alignment explanation
Indices: 55452289--55452357 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
55452279 AAAGTTAAAA
55452289 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
55452317 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
55452344 TATATATTATAATA
1 TATATATTATAATA
55452358 AGTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:55452367 original size:30 final size:32
Alignment explanation
Indices: 55452299--55452367 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
55452289 TATATATTAT
* *
55452299 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
55452332 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
55452362 AATATA
1 AATATA
55452368 CTGAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:55452389 original size:10 final size:10
Alignment explanation
Indices: 55452374--55452417 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
55452364 TATACTGAAT
55452374 AAAAGAAACA
1 AAAAGAAACA
*
55452384 AAAAGAAATA
1 AAAAGAAACA
*
55452394 GAAAGAAACA
1 AAAAGAAACA
*
55452404 GAATAGAAACA
1 -AAAAGAAACA
55452415 AAA
1 AAA
55452418 CAGGAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.75, C:0.07, G:0.14, T:0.05
Consensus pattern (10 bp):
AAAAGAAACA
Found at i:55452406 original size:16 final size:15
Alignment explanation
Indices: 55452377--55452417 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
55452367 ACTGAATAAA
55452377 AGAAACAAAAAGAAAT
1 AGAAACAAAAAG-AAT
* *
55452393 AGAAAGAAACAGAAT
1 AGAAACAAAAAGAAT
55452408 AGAAACAAAA
1 AGAAACAAAA
55452418 CAGGAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (15 bp):
AGAAACAAAAAGAAT
Found at i:55452418 original size:16 final size:17
Alignment explanation
Indices: 55452377--55452420 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
55452367 ACTGAATAAA
55452377 AGAAACAAAA-AGAAAT
1 AGAAACAAAACAGAAAT
*
55452393 AGAAA-GAAACAG-AAT
1 AGAAACAAAACAGAAAT
55452408 AGAAACAAAACAG
1 AGAAACAAAACAG
55452421 GAGAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (17 bp):
AGAAACAAAACAGAAAT
Found at i:55452442 original size:25 final size:24
Alignment explanation
Indices: 55452397--55452457 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
55452387 AGAAATAGAA
*
55452397 AGAAACAGAATAG-AAACAAAACAGG
1 AGAAAAAGAA-AGAAAACAAAA-AGG
*
55452422 AGAAAAAGAAAGAAAAGAAAAAGG
1 AGAAAAAGAAAGAAAACAAAAAGG
55452446 -G--AAAGAAAGAAA
1 AGAAAAAGAAAGAAA
55452458 GGAGAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 11 0.33
23 1 0.03
24 5 0.15
25 16 0.48
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.02
Consensus pattern (24 bp):
AGAAAAAGAAAGAAAACAAAAAGG
Found at i:55458857 original size:24 final size:24
Alignment explanation
Indices: 55458828--55458874 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
55458818 AACAAGAAAT
55458828 AAACAAACAAAAAGAAAAGAAAAG
1 AAACAAACAAAAAGAAAAGAAAAG
*
55458852 AAACAAACAAATAGAAAAGAAAA
1 AAACAAACAAAAAGAAAAGAAAA
55458875 TCCCTCTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.79, C:0.09, G:0.11, T:0.02
Consensus pattern (24 bp):
AAACAAACAAAAAGAAAAGAAAAG
Found at i:55462966 original size:41 final size:41
Alignment explanation
Indices: 55462919--55463000 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
55462909 ATAAGAAACC
55462919 GAAAATGTTCAGCCATTCTCCAATCATGCTACGATGGCATA
1 GAAAATGTTCAGCCATTCTCCAATCATGCTACGATGGCATA
55462960 GAAAATGTTCAGCCATTCTCCAATCATGCTACGATGGCATA
1 GAAAATGTTCAGCCATTCTCCAATCATGCTACGATGGCATA
55463001 CATCTGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (41 bp):
GAAAATGTTCAGCCATTCTCCAATCATGCTACGATGGCATA
Found at i:55465157 original size:29 final size:30
Alignment explanation
Indices: 55465125--55465195 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
55465115 AAATTAAATT
*
55465125 TTCATGTATAAAATTGCATA-AAATCAAAG
1 TTCATGTATAAAATTGCATATAAACCAAAG
* *
55465154 TTCATGTATACAATTGCATATTAAACCATAG
1 TTCATGTATAAAATTGCATA-TAAACCAAAG
55465185 TTCATGTATAA
1 TTCATGTATAA
55465196 TTTTGGGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 19 0.53
31 17 0.47
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (30 bp):
TTCATGTATAAAATTGCATATAAACCAAAG
Found at i:55465562 original size:31 final size:32
Alignment explanation
Indices: 55465517--55465576 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
55465507 ATTTAATAGA
*
55465517 GAGTGATCAAAAATAAAAATAATCTAAAATAT
1 GAGTGATCAAAAATAAAAATAACCTAAAATAT
* * *
55465549 GAGTGA-CTAAAATAGAAATTACCTAAAA
1 GAGTGATCAAAAATAAAAATAACCTAAAA
55465577 CGTTATAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.23
Consensus pattern (32 bp):
GAGTGATCAAAAATAAAAATAACCTAAAATAT
Found at i:55468468 original size:8 final size:8
Alignment explanation
Indices: 55468455--55468480 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
55468445 ACACAAATAT
55468455 AAATTATA
1 AAATTATA
55468463 AAATTATA
1 AAATTATA
55468471 AAATTATA
1 AAATTATA
55468479 AA
1 AA
55468481 CTAAGTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATTATA
Found at i:55475283 original size:56 final size:57
Alignment explanation
Indices: 55475188--55475307 Score: 190
Period size: 56 Copynumber: 2.1 Consensus size: 57
55475178 AATACTACAA
*
55475188 TTGT-TAATTAGTCAAATAGGCGATTAGATAAAAACTGAGCTAAAACTATTATAATT
1 TTGTATAATTAATCAAATAGGCGATTAGATAAAAACTGAGCTAAAACTATTATAATT
* * *
55475244 TT-TATAATTAATCAAATAGGGGATTAGATAAAAATTGAGCTAAAGCTATTATAATT
1 TTGTATAATTAATCAAATAGGCGATTAGATAAAAACTGAGCTAAAACTATTATAATT
55475300 TTGTATAA
1 TTGTATAA
55475308 ATTTGTATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
55 1 0.02
56 52 0.90
57 5 0.09
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (57 bp):
TTGTATAATTAATCAAATAGGCGATTAGATAAAAACTGAGCTAAAACTATTATAATT
Found at i:55481605 original size:44 final size:44
Alignment explanation
Indices: 55481542--55481744 Score: 277
Period size: 44 Copynumber: 4.6 Consensus size: 44
55481532 AATCGTTACA
55481542 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
* *
55481586 CGGTGGAATTAGCATTTAGCAACCACCTCATGTTCAAAGGATCC
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
* *
55481630 CGATGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCT
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
* * *** *
55481674 CGGTGGAGTCAACACTTAGCAACC-CCTTTCACAATC-AAGGAT-A
1 CGGTGGAATCAGCACTTAGCAACCACC--TCATGTTCAAAGGATCC
55481717 CGGTGGAATCAGCACTTAGCAACCACCT
1 CGGTGGAATCAGCACTTAGCAACCACCT
55481745 TTATAATCAA
Statistics
Matches: 141, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 24 0.17
44 111 0.79
45 5 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
Found at i:55481806 original size:41 final size:41
Alignment explanation
Indices: 55481686--55481827 Score: 169
Period size: 41 Copynumber: 3.4 Consensus size: 41
55481676 GTGGAGTCAA
* * * *
55481686 CACTTAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAG
1 CACTTAGCAACCCCTTT-ATAATCAATGATTCGG-GGAATCTG
*
55481729 CACTTAGCAACCACCTTTATAATCAAT-AATCTGGGGAATCTG
1 CACTTAGCAACC-CCTTTATAATCAATGATTC-GGGGAATCTG
* * *
55481771 CACTTAGCAACCCCTTTTTGATCAATGATTCGGGGAATCTA
1 CACTTAGCAACCCCTTTATAATCAATGATTCGGGGAATCTG
55481812 CACTTAGCAACCCCTT
1 CACTTAGCAACCCCTT
55481828 ACATTCAAAG
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
41 37 0.43
42 24 0.28
43 21 0.24
44 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (41 bp):
CACTTAGCAACCCCTTTATAATCAATGATTCGGGGAATCTG
Found at i:55487024 original size:17 final size:16
Alignment explanation
Indices: 55486998--55487039 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
55486988 ATAATGAAAT
*
55486998 ATTG-TTATAAAGGATG
1 ATTGTTTATAAA-GAGG
55487014 ATTGTTTATAAAGAGG
1 ATTGTTTATAAAGAGG
*
55487030 ATTGTCTATA
1 ATTGTTTATA
55487040 TATATATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (16 bp):
ATTGTTTATAAAGAGG
Found at i:55495508 original size:15 final size:15
Alignment explanation
Indices: 55495485--55495518 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
55495475 ATTTCCATAA
*
55495485 CTCCGTATCGTATGG
1 CTCCATATCGTATGG
55495500 CTCCATATCGTATGG
1 CTCCATATCGTATGG
55495515 CTCC
1 CTCC
55495519 TACAGAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.32, G:0.21, T:0.32
Consensus pattern (15 bp):
CTCCATATCGTATGG
Found at i:55499146 original size:29 final size:30
Alignment explanation
Indices: 55499093--55499152 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55499083 TCCGAGACTT
*
55499093 GGGGCAAAAATGTAATTATGTAAAAATTTA
1 GGGGCAAAAATGTAATTATGTAAAAAGTTA
* *
55499123 GGGGCAAAATTGTAATTTTG-AAAAAGTTA
1 GGGGCAAAAATGTAATTATGTAAAAAGTTA
55499152 G
1 G
55499153 AGTCGAGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAAGTTA
Found at i:55499380 original size:13 final size:13
Alignment explanation
Indices: 55499362--55499393 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
55499352 TTTCCAGCAA
55499362 TTATGAATTTATT
1 TTATGAATTTATT
55499375 TTATGAATTTATT
1 TTATGAATTTATT
*
55499388 TGATGA
1 TTATGA
55499394 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:55499568 original size:51 final size:51
Alignment explanation
Indices: 55499492--55499726 Score: 470
Period size: 51 Copynumber: 4.6 Consensus size: 51
55499482 GGGTAAAGAG
55499492 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
55499543 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
55499594 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
55499645 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
55499696 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATCCCATGTAAGACCATGTCTGGGACATGGC
55499727 TTTGGCATGT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 184 1.00
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (51 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
Found at i:55505047 original size:22 final size:22
Alignment explanation
Indices: 55505020--55505074 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
55505010 CATAGCATAT
55505020 TTTTTAAAGGTTAAAGGTCACA
1 TTTTTAAAGGTTAAAGGTCACA
*
55505042 TTTTTAAAGGTTGAAGGTCACA
1 TTTTTAAAGGTTAAAGGTCACA
55505064 TTTTTAAAGGT
1 TTTTTAAAGGT
55505075 CGATGGGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (22 bp):
TTTTTAAAGGTTAAAGGTCACA
Found at i:55522159 original size:33 final size:35
Alignment explanation
Indices: 55522063--55522160 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
55522053 GTTAATATTT
*
55522063 TAATATATGAAATATAAATTTTAAATATTT--TTAAG
1 TAATATATG-AAT-TATATTTTAAATATTTAATTAAG
* *
55522098 TAATAAATATTAATTAT-TTATAAA-ATTTAATT-AG
1 TAAT--ATATGAATTATATTTTAAATATTTAATTAAG
55522132 -AATATATGAATTATATTTTAAATATTTAA
1 TAATATATGAATTATATTTTAAATATTTAA
55522161 ATATAACCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.19
32 6 0.12
33 13 0.25
34 8 0.15
35 8 0.15
36 3 0.06
37 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (35 bp):
TAATATATGAATTATATTTTAAATATTTAATTAAG
Found at i:55529520 original size:23 final size:23
Alignment explanation
Indices: 55529468--55529521 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
55529458 CCATTTGTTA
*
55529468 ATAAC-TT-AAAATTACTCTTAT
1 ATAACTTTAAAAAATACTCTTAT
* *
55529489 TTACCTTTAAAAAATACTCTTAT
1 ATAACTTTAAAAAATACTCTTAT
*
55529512 ATAATTTTAA
1 ATAACTTTAA
55529522 GTTATTTAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 3 0.12
22 2 0.08
23 20 0.80
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAACTTTAAAAAATACTCTTAT
Found at i:55530817 original size:32 final size:32
Alignment explanation
Indices: 55530781--55530848 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
55530771 AAAAAATAAG
55530781 GTTTATAGTTGTTTTTAGAACAAAACTGATGA
1 GTTTATAGTTGTTTTTAGAACAAAACTGATGA
55530813 GTTTATAGTTGTTTTTAGAACAAAACTGATGA
1 GTTTATAGTTGTTTTTAGAACAAAACTGATGA
55530845 -TTTA
1 GTTTA
55530849 AAGGATCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.43
Consensus pattern (32 bp):
GTTTATAGTTGTTTTTAGAACAAAACTGATGA
Found at i:55533395 original size:9 final size:9
Alignment explanation
Indices: 55533381--55533406 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
55533371 TTTATTTTTA
55533381 AAAATATTT
1 AAAATATTT
55533390 AAAATATTT
1 AAAATATTT
55533399 AAAATATT
1 AAAATATT
55533407 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:55545686 original size:53 final size:53
Alignment explanation
Indices: 55545620--55545726 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
55545610 CACACCCTTC
55545620 CTCTTTCCATCCCACATCCTCCGCCGCCTCCAGCGTAGCTTTCGTGTACAACG
1 CTCTTTCCATCCCACATCCTCCGCCGCCTCCAGCGTAGCTTTCGTGTACAACG
*
55545673 CTCTTTCCCTCCCACATCCTCCGCCGCCTCCAGCGTAGCTTTCGTGTACAACG
1 CTCTTTCCATCCCACATCCTCCGCCGCCTCCAGCGTAGCTTTCGTGTACAACG
55545726 C
1 C
55545727 CGACAAACCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.14, C:0.45, G:0.15, T:0.26
Consensus pattern (53 bp):
CTCTTTCCATCCCACATCCTCCGCCGCCTCCAGCGTAGCTTTCGTGTACAACG
Found at i:55561556 original size:4 final size:4
Alignment explanation
Indices: 55561547--55561576 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
55561537 GCAACAACAC
55561547 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
55561577 GAACTAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:55565869 original size:35 final size:35
Alignment explanation
Indices: 55565799--55565869 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
55565789 TCTAGGATCA
**
55565799 CATATATTTGAAGATCACATTCCATATTTGTCAAG
1 CATATATTTGAAGATCACATTCCATATTTACCAAG
* * *
55565834 CATATCTTTGAATATCACTTTCCATATTTACCAAG
1 CATATATTTGAAGATCACATTCCATATTTACCAAG
55565869 C
1 C
55565870 TCCGAAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.38
Consensus pattern (35 bp):
CATATATTTGAAGATCACATTCCATATTTACCAAG
Found at i:55568857 original size:12 final size:12
Alignment explanation
Indices: 55568840--55568876 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
55568830 ACCAAACCTA
55568840 AGAAGGTATCTC
1 AGAAGGTATCTC
55568852 AGAAGGTATCTC
1 AGAAGGTATCTC
55568864 AGAAGGTAT-TC
1 AGAAGGTATCTC
55568875 AG
1 AG
55568877 TTTTCCTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (12 bp):
AGAAGGTATCTC
Found at i:55571116 original size:31 final size:31
Alignment explanation
Indices: 55571078--55571184 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 31
55571068 AACCTTGAAT
55571078 CTAAGTTCAGGGACTAAATTGAGAAAAGTTA
1 CTAAGTTCAGGGACTAAATTGAGAAAAGTTA
*
55571109 CTAAGTTCCA-GGACT-AATATGATAAAA---A
1 CTAAGTT-CAGGGACTAAAT-TGAGAAAAGTTA
* * **
55571137 --AAGTTTAGGGACCAGGTTGAGAAAAGTTA
1 CTAAGTTCAGGGACTAAATTGAGAAAAGTTA
* *
55571166 CCAAATTCAGGGACTAAAT
1 CTAAGTTCAGGGACTAAAT
55571185 GTTACTTTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 18
0.66 0.13 0.21
Matches are distributed among these distances:
25 1 0.02
26 16 0.29
27 1 0.02
28 1 0.02
29 1 0.02
30 3 0.05
31 31 0.55
32 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.24
Consensus pattern (31 bp):
CTAAGTTCAGGGACTAAATTGAGAAAAGTTA
Found at i:55576948 original size:21 final size:21
Alignment explanation
Indices: 55576922--55576962 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55576912 ATCTGCTCAA
* *
55576922 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
55576943 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
55576963 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:55584176 original size:22 final size:20
Alignment explanation
Indices: 55584132--55584185 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
55584122 GATTTGATTT
* *
55584132 TAATTTTTATTA-CTTGCTTA
1 TAATTTTT-TTATCATGCTAA
55584152 TAAATTATTTTTATCATGCTAA
1 T-AATT-TTTTTATCATGCTAA
55584174 TAATTTTTTTAT
1 TAATTTTTTTAT
55584186 AATAACTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 11 0.38
22 10 0.34
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (20 bp):
TAATTTTTTTATCATGCTAA
Found at i:55590439 original size:29 final size:31
Alignment explanation
Indices: 55590396--55590466 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 31
55590386 AAATTTATAT
* *
55590396 ATGAATTTTGTTTTAATGTGTACTT-T-GAC
1 ATGAATTTTGATTTAATGTGTAATTATAGAC
* * *
55590425 ATGAATTTTGATTTAGTGTTTAATTATATAC
1 ATGAATTTTGATTTAATGTGTAATTATAGAC
55590456 ATGAATTTTGA
1 ATGAATTTTGA
55590467 ATTGTATTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 21 0.60
30 1 0.03
31 13 0.37
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (31 bp):
ATGAATTTTGATTTAATGTGTAATTATAGAC
Found at i:55595798 original size:24 final size:24
Alignment explanation
Indices: 55595766--55595813 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
55595756 AATGATTTCC
55595766 ATGCTAGTCAGAATTCTCATGGAT
1 ATGCTAGTCAGAATTCTCATGGAT
55595790 ATGCTAGTCAGAATTCTCATGGAT
1 ATGCTAGTCAGAATTCTCATGGAT
55595814 TTAAATGCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (24 bp):
ATGCTAGTCAGAATTCTCATGGAT
Found at i:55601186 original size:30 final size:33
Alignment explanation
Indices: 55601152--55601212 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
55601142 AGATAGAATT
*
55601152 TGTAACAGA-ATG-ACTAGTTTGCTC-TTTTGA
1 TGTAACAGACATGAACTAATTTGCTCATTTTGA
*
55601182 TGTAACATACATGAACTAATTTGCTCATTTT
1 TGTAACAGACATGAACTAATTTGCTCATTTT
55601213 TTTTAGTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 3 0.12
32 11 0.42
33 4 0.15
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (33 bp):
TGTAACAGACATGAACTAATTTGCTCATTTTGA
Found at i:55605274 original size:14 final size:15
Alignment explanation
Indices: 55605255--55605287 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
55605245 TCAAAAGCAA
55605255 AAAAAGAAAG-AAAG
1 AAAAAGAAAGAAAAG
55605269 AAAAAGAAAGAAAAG
1 AAAAAGAAAGAAAAG
55605284 AAAA
1 AAAA
55605288 TGGAGAGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAG
Found at i:55606928 original size:73 final size:72
Alignment explanation
Indices: 55606808--55607286 Score: 523
Period size: 73 Copynumber: 6.4 Consensus size: 72
55606798 TTTTGGTACT
*
55606808 CTGAGGTATCTTT-AATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CTGAGGTAT-TTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
55606872 AGGTCACACG
65 AGG--ACACG
* ** **
55606882 CTGAGGTATTTTCAGTTTATG-TTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
1 CTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
55606946 GGTCACG
66 GGACACG
* *
55606953 CTGAGGTATTCTT-AATTTCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCC
1 CTGAGGTATT-TTCAATTTATG-T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
55607017 TCAGGACACG
63 TCAGGACACG
* *
55607027 CTGAGGTAATTTCAATTTCTAGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CTGAGGTATTTTCAATTTAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
55607092 GGGGCACG
65 AGGACACG
* * *
55607100 CCGAGGTATTTTCAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGATTGCGAGAGGTGA
1 CTGAGGTATTTTCAATTTAT-GTTTTC--AAAAATCAACTC--A-T-----ATTGCGAGAGGTGA
* *
55607165 GTTGAGCCTCGGGGCACG
55 GTTGAGCCTCAGGACACG
* * *
55607183 CCGAGGTACTTTCAATTTATGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCC
1 CTGAGGTATTTTCAATTTATG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
55607248 ACAGGACACA
63 TCAGGACACG
*
55607258 CTGAGGTATTTTCAAATTATGCTTTTCAA
1 CTGAGGTATTTTCAATTTATG-TTTTCAA
55607287 TTTCTGTTCT
Statistics
Matches: 354, Mismatches: 33, Indels: 37
0.83 0.08 0.09
Matches are distributed among these distances:
71 20 0.06
72 2 0.01
73 119 0.34
74 76 0.21
75 65 0.18
77 1 0.00
78 1 0.00
80 1 0.00
81 1 0.00
83 68 0.19
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (72 bp):
CTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGACACG
Found at i:55607073 original size:147 final size:145
Alignment explanation
Indices: 55606829--55607286 Score: 524
Period size: 147 Copynumber: 3.0 Consensus size: 145
55606819 TTAATTCATG
*
55606829 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTT
* ** ** *
55606894 CAGTTTATG-TTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAG
64 CAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
**
55606958 GTATTCTT-AATTTCTGT
129 GTATT-TTCAATTTCTAC
*
55606975 TGTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
* * * *
55607040 AATTTCTAGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAG
65 AATTTAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
55607105 GTATTTTCAATTTCTAC
129 GTATTTTCAATTTCTAC
* * *
55607122 TTTTCAAAAAAATCAACTCATATTGCGAGATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGA
1 TTTTC--AAAAATCAACTC--A-T-----ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * *
55607187 GGTACTTTCAATTTATGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCACAG
56 GGTAATTTCAATTTATG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * *
55607252 GACACACTGAGGTATTTTCAAATTATGC
118 GACACGCTGAGGTATTTTCAATTTCTAC
55607280 TTTTCAA
1 TTTTCAA
55607287 TTTCTGTTCT
Statistics
Matches: 267, Mismatches: 28, Indels: 24
0.84 0.09 0.08
Matches are distributed among these distances:
145 22 0.08
146 8 0.03
147 105 0.39
148 12 0.04
150 1 0.00
151 1 0.00
155 1 0.00
156 53 0.20
158 64 0.24
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (145 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCAATTTCTAC
Found at i:55607208 original size:83 final size:83
Alignment explanation
Indices: 55607068--55607234 Score: 298
Period size: 83 Copynumber: 2.0 Consensus size: 83
55607058 ATCAACTCAT
* *
55607068 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAATTTCTACTTTTCAAAAAA
1 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATACTTTTCAAAAAA
55607133 ATCAACTCATATTGCGAG
66 ATCAACTCATATTGCGAG
*
55607151 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATGCTTTTCAAAAAA
1 ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATACTTTTCAAAAAA
*
55607216 ATCAATTCATATTGCGAG
66 ATCAACTCATATTGCGAG
55607234 A
1 A
55607235 GGTGAGTTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (83 bp):
ATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTCAATTTATACTTTTCAAAAAA
ATCAACTCATATTGCGAG
Found at i:55607625 original size:54 final size:56
Alignment explanation
Indices: 55607533--55607644 Score: 165
Period size: 54 Copynumber: 2.0 Consensus size: 56
55607523 TCAATTTCTG
** *
55607533 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
*
55607590 TTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
55607644 T
1 T
55607645 CAGGGCATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 34 0.67
56 13 0.25
57 4 0.08
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (56 bp):
TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCC
Found at i:55607674 original size:142 final size:142
Alignment explanation
Indices: 55607316--55607788 Score: 660
Period size: 142 Copynumber: 3.3 Consensus size: 142
55607306 TATTTCTCAA
** * * * **
55607316 AAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCAGGTCACATGCCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGG--ACATGCTGAGGTATTTTCAATT
* * *
55607381 TCTGTTTCGCAAATTT-TGTATTTTTCAAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGCC
64 TCTGTTT-TC-AATTTATG--TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
55607445 TTTTAATTTCTATTTTTC
125 TTTTAATTTCTATTTTTC
* *
55607463 AAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTCAAT
1 ---AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAAT
*
55607528 TTCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTT
63 TTCTGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT
*
55607593 TAATTTCTGTTTTTC
128 TAATTTCTATTTTTC
*
55607608 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
* *
55607673 TGTTTTCAATTTATGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA
66 TGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
*
55607738 TTTCTATTTTTAAA
131 TTTCTATTTTT--C
* *
55607752 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCT
55607789 TTTGATTTCT
Statistics
Matches: 296, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
142 134 0.45
144 35 0.12
145 58 0.20
146 5 0.02
147 3 0.01
148 24 0.08
150 37 0.12
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (142 bp):
AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
TGTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
TTTCTATTTTTC
Found at i:55607695 original size:14 final size:13
Alignment explanation
Indices: 55607662--55607691 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55607652 TGCTGAGGTA
*
55607662 TTTTCAATTTCTG
1 TTTTCAATTTATG
55607675 TTTTCAATTTATG
1 TTTTCAATTTATG
55607688 TTTT
1 TTTT
55607692 TCAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:55607838 original size:58 final size:57
Alignment explanation
Indices: 55607675--55607844 Score: 245
Period size: 56 Copynumber: 3.0 Consensus size: 57
55607665 TCAATTTCTG
* * *
55607675 TTTTCAATTTATGTTTTTC-AAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCC
1 TTTT-AATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
55607732 TTTTAATTTCTATTTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
55607788 TTTTGATTTCTGTTTTTCAAAAAAAAAGCAACTCATATGGCGAGAGGTGAGTTGAGC
1 TTTTAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
55607845 TTTGGCTCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
56 62 0.61
57 4 0.04
58 36 0.35
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (57 bp):
TTTTAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:55608054 original size:44 final size:44
Alignment explanation
Indices: 55607991--55608100 Score: 202
Period size: 44 Copynumber: 2.5 Consensus size: 44
55607981 CAGATTTGGA
*
55607991 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCGCGAGTCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
55608035 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
*
55608079 CTCCCTGAAGTTGCAGTAGAGC
1 CTCCCTGAAGTTGCAGTGGAGC
55608101 TGATCGAGGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCATGTTAAAGTCACGAGTCTTGT
Found at i:55611000 original size:30 final size:29
Alignment explanation
Indices: 55610935--55611002 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
55610925 TCATAAAATT
55610935 AAAATTTAGTCATTATACTTTTAATTCTA
1 AAAATTTAGTCATTATACTTTTAATTCTA
* * *
55610964 AAAATTTAGTCTTTCTACTTTTTTAATT-TC
1 AAAATTTAGTCATTATAC--TTTTAATTCTA
55610994 AAAATTTAG
1 AAAATTTAG
55611003 GACTAATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 16 0.47
30 10 0.29
31 8 0.24
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (29 bp):
AAAATTTAGTCATTATACTTTTAATTCTA
Found at i:55611903 original size:17 final size:17
Alignment explanation
Indices: 55611881--55611917 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
55611871 AGACTTTTTA
55611881 ATATCATTCTATCTAAG
1 ATATCATTCTATCTAAG
55611898 ATATCATTCTATCTAAG
1 ATATCATTCTATCTAAG
55611915 ATA
1 ATA
55611918 AACTCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (17 bp):
ATATCATTCTATCTAAG
Found at i:55619886 original size:19 final size:19
Alignment explanation
Indices: 55619851--55619887 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
55619841 AAATATCTAC
**
55619851 TTTTTATATTTTGTAACTT
1 TTTTTATATTTAATAACTT
55619870 TTTTTATATTTAATAACT
1 TTTTTATATTTAATAACT
55619888 AAAACGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTATATTTAATAACTT
Found at i:55629176 original size:21 final size:21
Alignment explanation
Indices: 55629135--55629177 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
55629125 AGTTATACAG
**
55629135 TCTTTCGAGATAAATGTTGGA
1 TCTTTCGAGATAAATACTGGA
55629156 TCTTTCGAGATAAATACTGGA
1 TCTTTCGAGATAAATACTGGA
55629177 T
1 T
55629178 ACATAAGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (21 bp):
TCTTTCGAGATAAATACTGGA
Found at i:55629713 original size:10 final size:10
Alignment explanation
Indices: 55629698--55629722 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
55629688 TGTTGTCGTC
55629698 TCAGCGTCTT
1 TCAGCGTCTT
55629708 TCAGCGTCTT
1 TCAGCGTCTT
55629718 TCAGC
1 TCAGC
55629723 AAGCAAGCAG
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:0.12, C:0.32, G:0.20, T:0.36
Consensus pattern (10 bp):
TCAGCGTCTT
Found at i:55638992 original size:32 final size:32
Alignment explanation
Indices: 55638956--55639020 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
55638946 GGCTTAATAG
55638956 AAAGGTTTCTATTGACATAATAAGCTAATTTC
1 AAAGGTTTCTATTGACATAATAAGCTAATTTC
55638988 AAAGGTTTCTATTGACATAATAAGCTAATTTC
1 AAAGGTTTCTATTGACATAATAAGCTAATTTC
55639020 A
1 A
55639021 TACTTCCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (32 bp):
AAAGGTTTCTATTGACATAATAAGCTAATTTC
Found at i:55643313 original size:25 final size:24
Alignment explanation
Indices: 55643281--55643333 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
55643271 ATTACTCTTG
*
55643281 AAAACCAAA-ATGCATTAAAATTTTT
1 AAAACCAAATATCCATT-AAA-TTTT
55643306 AAAACCAAATATCCATTAAATTTT
1 AAAACCAAATATCCATTAAATTTT
55643330 AAAA
1 AAAA
55643334 TCCAGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 12 0.46
26 6 0.23
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAACCAAATATCCATTAAATTTT
Found at i:55645799 original size:23 final size:24
Alignment explanation
Indices: 55645755--55645799 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
55645745 ANTTGTTTCC
* *
55645755 TAATATATCATATTATTTTGCTGA
1 TAATATATCATATTAATATGCTGA
*
55645779 TAATGTAT-ATATTAATATGCT
1 TAATATATCATATTAATATGCT
55645800 ATGAGTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.49
Consensus pattern (24 bp):
TAATATATCATATTAATATGCTGA
Found at i:55648695 original size:39 final size:40
Alignment explanation
Indices: 55648619--55648700 Score: 93
Period size: 39 Copynumber: 2.1 Consensus size: 40
55648609 TATTTATTAA
55648619 TTTAAAATTTATTTAGTTCGATTATTATATAATTATTT-T
1 TTTAAAATTTATTTAGTTCGATTATTATATAATTATTTAT
55648658 TTTAAAATTT-TTTA-TTCGTAATATAATTAT-TAA-TATTTAT
1 TTTAAAATTTATTTAGTTCG--AT-T-ATTATATAATTATTTAT
55648698 TTT
1 TTT
55648701 TGATTATTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
37 4 0.11
38 4 0.11
39 17 0.45
40 8 0.21
41 5 0.13
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (40 bp):
TTTAAAATTTATTTAGTTCGATTATTATATAATTATTTAT
Found at i:55660391 original size:25 final size:26
Alignment explanation
Indices: 55660363--55660413 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
55660353 AATATTTTAT
55660363 ATTTATATTTTC-ATTTTAAAAAATA
1 ATTTATATTTTCAATTTTAAAAAATA
*
55660388 ATTTTTATTTTCGAATTTTAAAAAAT
1 ATTTATATTTTC-AATTTTAAAAAAT
55660414 TTTAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
27 12 0.52
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTTATATTTTCAATTTTAAAAAATA
Found at i:55662041 original size:30 final size:29
Alignment explanation
Indices: 55661985--55662042 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
55661975 ACTGGTGAGC
* * * *
55661985 AAAAAAAATTCAAATAGTTTGGTGACCAA
1 AAAAAAAAATCAAATAATTAGATGACCAA
55662014 AAAAAACAAATCAAATAATTAGATGACCA
1 AAAAAA-AAATCAAATAATTAGATGACCA
55662043 TTTATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.21
Consensus pattern (29 bp):
AAAAAAAAATCAAATAATTAGATGACCAA
Found at i:55663427 original size:18 final size:20
Alignment explanation
Indices: 55663401--55663451 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 20
55663391 AATTTTATCA
*
55663401 TTTATTTTTTGAT-TAAT-T
1 TTTAATTTTTGATATAATGT
55663419 TTTAA-TTTT-ATATAATGT
1 TTTAATTTTTGATATAATGT
55663437 TTT-ATTTTTGA-ATAA
1 TTTAATTTTTGATATAA
55663452 CAAAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
16 2 0.07
17 9 0.32
18 16 0.57
19 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTAATTTTTGATATAATGT
Found at i:55665332 original size:23 final size:23
Alignment explanation
Indices: 55665306--55665350 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
55665296 AATATATTTT
*
55665306 ATTTATTTATGAAAATAAATTAG
1 ATTTATTTATAAAAATAAATTAG
55665329 ATTTATTTATAAAAATAAATTA
1 ATTTATTTATAAAAATAAATTA
55665351 AATCTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTTATTTATAAAAATAAATTAG
Found at i:55670752 original size:28 final size:29
Alignment explanation
Indices: 55670688--55670758 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 29
55670678 ATTTTGGGTT
* *
55670688 ATATTTTAATCACTTATGTTTAAAATATT
1 ATATTTTAGTCACTTATGTTTAAAATATA
** * *
55670717 ACGTTTTAGTCACTTATG-TTAACATGTA
1 ATATTTTAGTCACTTATGTTTAAAATATA
55670745 ATATTTTAGTCACT
1 ATATTTTAGTCACT
55670759 GAACCGTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.56
29 15 0.44
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.48
Consensus pattern (29 bp):
ATATTTTAGTCACTTATGTTTAAAATATA
Found at i:55675083 original size:79 final size:80
Alignment explanation
Indices: 55674942--55675104 Score: 256
Period size: 79 Copynumber: 2.0 Consensus size: 80
55674932 AGAGATTACT
* * * *
55674942 AACTACGATTGAAAGGACTAAAAGATACCCTTCATTCCTCAACCACCCTCCCGCTTCTTTCCTTT
1 AACTACGACTGAAAGGAATAAAAGATACCCTTCATTCCTCAACCACCCTCCCGCCTCATTCCTTT
55675007 CAAACTGCAAAACGA
66 CAAACTGCAAAACGA
* *
55675022 AACT-CGACTGAAAGGAATAAAAGATATCCTTCATTCCTCAACCACCCTCCTGCCTCATTCCTTT
1 AACTACGACTGAAAGGAATAAAAGATACCCTTCATTCCTCAACCACCCTCCCGCCTCATTCCTTT
*
55675086 CAAACTGCAAAACGG
66 CAAACTGCAAAACGA
55675101 AACT
1 AACT
55675105 TGCCTAAAGT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
79 72 0.95
80 4 0.05
ACGTcount: A:0.33, C:0.32, G:0.10, T:0.25
Consensus pattern (80 bp):
AACTACGACTGAAAGGAATAAAAGATACCCTTCATTCCTCAACCACCCTCCCGCCTCATTCCTTT
CAAACTGCAAAACGA
Found at i:55678096 original size:34 final size:33
Alignment explanation
Indices: 55678058--55678170 Score: 111
Period size: 34 Copynumber: 3.3 Consensus size: 33
55678048 TTTGGTAGGT
*
55678058 TTAGGGTTTAGGGTTTT-TTTAAATTTTAATTAAA
1 TTAGGGTTTAGGGTTTTAATTAAA--TTAATTAAA
* *
55678092 TTAGGTTTTTGGGGTTTTAATTAAATTAATTAAA
1 TTAGG-GTTTAGGGTTTTAATTAAATTAATTAAA
* **
55678126 TTGGGGTTTAGGGTTTTAAAGAAAATTAATTAAA
1 TTAGGGTTTAGGGTTTT-AATTAAATTAATTAAA
**
55678160 TTTTGGTTTAG
1 TTAGGGTTTAG
55678171 TTTTTTAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
33 10 0.15
34 41 0.62
35 10 0.15
36 5 0.08
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (33 bp):
TTAGGGTTTAGGGTTTTAATTAAATTAATTAAA
Found at i:55678100 original size:25 final size:25
Alignment explanation
Indices: 55678072--55678119 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
55678062 GGTTTAGGGT
*
55678072 TTTTTTAAATTTTAATTAAATTAGG
1 TTTTTGAAATTTTAATTAAATTAGG
***
55678097 TTTTTGGGGTTTTAATTAAATTA
1 TTTTTGAAATTTTAATTAAATTA
55678120 ATTAAATTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (25 bp):
TTTTTGAAATTTTAATTAAATTAGG
Found at i:55680294 original size:25 final size:25
Alignment explanation
Indices: 55680266--55680318 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
55680256 TCCAACTACT
*
55680266 ACGGGCAATATCAGTCTACCATTGA
1 ACGGGCAATATCAGTCTAACATTGA
55680291 ACGGGCAATATCAGTCTAACATTGA
1 ACGGGCAATATCAGTCTAACATTGA
55680316 ACG
1 ACG
55680319 ACGACAAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (25 bp):
ACGGGCAATATCAGTCTAACATTGA
Found at i:55681323 original size:9 final size:9
Alignment explanation
Indices: 55681300--55681329 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
55681290 AATTATATTT
55681300 TATTAAAAA
1 TATTAAAAA
55681309 TA-TAAAAA
1 TATTAAAAA
55681317 TATTAAAAA
1 TATTAAAAA
55681326 TATT
1 TATT
55681330 TTCTTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:55681407 original size:24 final size:24
Alignment explanation
Indices: 55681351--55681407 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
55681341 AAGAACTTTT
55681351 ATTTTATTAAAAATATAAAAACAA
1 ATTTTATTAAAAATATAAAAACAA
*
55681375 ATTACTATT-AAAATATTAAAAACAA
1 ATT-TTATTAAAAATA-TAAAAACAA
*
55681400 CTTTTATT
1 ATTTTATT
55681408 TTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAACAA
Found at i:55681476 original size:26 final size:27
Alignment explanation
Indices: 55681447--55681497 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
55681437 TGTACAAATA
55681447 TATTAAAA-ATATAAAAAATAAATTAC
1 TATTAAAATATATAAAAAATAAATTAC
*
55681473 TATTAAAATATTTAAAAAATAAATT
1 TATTAAAATATATAAAAAATAAATT
55681498 TTATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
TATTAAAATATATAAAAAATAAATTAC
Found at i:55681479 original size:93 final size:94
Alignment explanation
Indices: 55681355--55681550 Score: 315
Period size: 95 Copynumber: 2.1 Consensus size: 94
55681345 ACTTTTATTT
*
55681355 TATTAAAAATATAAAAACAAATTACTATTAAAATA-TT-AAAAACAACTTTTATTTTATTAAATG
1 TATTAAAAATATAAAAACAAATTACTATTAAAATATTTAAAAAACAAATTTTATTTTATTAAATG
*
55681418 AAACAATATAAAAATAATTTGTACAAATA
66 AAACAATATAAAAATAATTCGTACAAATA
* *
55681447 TATTAAAAATATAAAAAATAAATTACTATTAAAATATTTAAAAAATAAATTTTATTTTATTAAAT
1 TATTAAAAATAT-AAAAACAAATTACTATTAAAATATTTAAAAAACAAATTTTATTTTATTAAAT
* *
55681512 GGAACAATATAAAAATAGTTCGTACAAATA
65 GAAACAATATAAAAATAATTCGTACAAATA
55681542 TATTAAAAA
1 TATTAAAAA
55681551 AATCAATGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
92 12 0.13
93 22 0.23
94 2 0.02
95 59 0.62
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (94 bp):
TATTAAAAATATAAAAACAAATTACTATTAAAATATTTAAAAAACAAATTTTATTTTATTAAATG
AAACAATATAAAAATAATTCGTACAAATA
Found at i:55695107 original size:29 final size:30
Alignment explanation
Indices: 55695075--55695132 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
55695065 TATTTTCATA
55695075 TTCTAGTTTCACCCAAATTCA-TTTCCAAG
1 TTCTAGTTTCACCCAAATTCATTTTCCAAG
* *
55695104 TTCTAGTTTCATCCAACTTCATTTTCCAA
1 TTCTAGTTTCACCCAAATTCATTTTCCAA
55695133 AACTTCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (30 bp):
TTCTAGTTTCACCCAAATTCATTTTCCAAG
Found at i:55696726 original size:15 final size:15
Alignment explanation
Indices: 55696706--55696741 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
55696696 AATAATTTAG
55696706 TGAACAACTTTGACA
1 TGAACAACTTTGACA
55696721 TGAACAACTTTGACA
1 TGAACAACTTTGACA
55696736 TGAACA
1 TGAACA
55696742 TACAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (15 bp):
TGAACAACTTTGACA
Found at i:55705896 original size:27 final size:27
Alignment explanation
Indices: 55705865--55705919 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
55705855 AGGCACAAAG
55705865 AATGTCTCATGGAGGTCTACAAATTAA
1 AATGTCTCATGGAGGTCTACAAATTAA
*
55705892 AATGTCTCATGGAGGTCTACATATTAA
1 AATGTCTCATGGAGGTCTACAAATTAA
55705919 A
1 A
55705920 TAAGACTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (27 bp):
AATGTCTCATGGAGGTCTACAAATTAA
Found at i:55709475 original size:12 final size:12
Alignment explanation
Indices: 55709458--55709482 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55709448 TTTTGTTTTC
55709458 TCAATATCTTAT
1 TCAATATCTTAT
55709470 TCAATATCTTAT
1 TCAATATCTTAT
55709482 T
1 T
55709483 TTCCTAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCAATATCTTAT
Found at i:55724378 original size:323 final size:323
Alignment explanation
Indices: 55723790--55724436 Score: 1215
Period size: 323 Copynumber: 2.0 Consensus size: 323
55723780 GGGAAAAATA
* *
55723790 ATTAAGGGATTAAATTTATATGTTTAAAATCCTTAAAGAGTCTTTTTTCAATAGAAATAAGCAGG
1 ATTAAGGGATTAAATTTATATATTTAAAATCCTTAAAGAGTCTATTTTCAATAGAAATAAGCAGG
55723855 AACATCATCCGAATCTCGTACGATGAGATAATTAATTCTTAGTGAAGAAGGGTCGGAACTGTCAG
66 AACATCATCCGAATCTCGTACGATGAGATAATTAATTCTTAGTGAAGAAGGGTCGGAACTGTCAG
55723920 ATAGCAGAATAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTTTGAAA
131 ATAGCAGAATAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTTTGAAA
55723985 ATTTTATGGTAATAAGATAAGTAAGTATAGTTTCAGGGAAAATTAGCGGATCTTAATTTCGAGTT
196 ATTTTATGGTAATAAGATAAGTAAGTATAGTTTCAGGGAAAATTAGCGGATCTTAATTTCGAGTT
*
55724050 CTGTAGCTTAAGATATAAATAATTTAGTGACTATGATGCAAATGGACAGTTTTGAATATACAT
261 CTGTAGCTTAAGATATAAATAATTTAGTGACTATGACGCAAATGGACAGTTTTGAATATACAT
* * *
55724113 ATTAAGGGATTAAATTTATATATTTAAAGTCCTTAGCA-AGTCTATTTTCAATAGAAATAAGCGG
1 ATTAAGGGATTAAATTTATATATTTAAAATCCTTA-AAGAGTCTATTTTCAATAGAAATAAGCAG
55724177 GAACATCATCCGAATCTCGTACGATGAGATAATTAATTCTTAGTGAAGAAGGGTCGGAACTGTCA
65 GAACATCATCCGAATCTCGTACGATGAGATAATTAATTCTTAGTGAAGAAGGGTCGGAACTGTCA
55724242 GATAGCAGAATAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTTTGAA
130 GATAGCAGAATAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTTTGAA
*
55724307 AATTTTATGGTAATAAGATAAGTAAGTATAGTTTCAGGGAAAATTATCGGATCTTAATTTCGAGT
195 AATTTTATGGTAATAAGATAAGTAAGTATAGTTTCAGGGAAAATTAGCGGATCTTAATTTCGAGT
55724372 TCTGTAGCTTAAGATATAAATAATTTAGTGACTATGACGCAAATGGACAGTTTTGAATATACAT
260 TCTGTAGCTTAAGATATAAATAATTTAGTGACTATGACGCAAATGGACAGTTTTGAATATACAT
55724436 A
1 A
55724437 AGTAAATAGT
Statistics
Matches: 316, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
323 315 1.00
324 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (323 bp):
ATTAAGGGATTAAATTTATATATTTAAAATCCTTAAAGAGTCTATTTTCAATAGAAATAAGCAGG
AACATCATCCGAATCTCGTACGATGAGATAATTAATTCTTAGTGAAGAAGGGTCGGAACTGTCAG
ATAGCAGAATAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTTTGAAA
ATTTTATGGTAATAAGATAAGTAAGTATAGTTTCAGGGAAAATTAGCGGATCTTAATTTCGAGTT
CTGTAGCTTAAGATATAAATAATTTAGTGACTATGACGCAAATGGACAGTTTTGAATATACAT
Found at i:55725065 original size:76 final size:76
Alignment explanation
Indices: 55724973--55725119 Score: 276
Period size: 76 Copynumber: 1.9 Consensus size: 76
55724963 TAAAGATCCG
55724973 GATGACTTGAATACGAGACTTGAACGTAGAAAAGAAAAGACATCGGATTAATGAAATATCTGATA
1 GATGACTTGAATACGAGACTTGAACGTAGAAAAGAAAAGACATCGGATTAATGAAATATCTGATA
55725038 AATGAAATCTT
66 AATGAAATCTT
* *
55725049 GATGACTTGAATACGAGACTTGAACGTGGAAAAGAAAAGATATCGGATTAATGAAATATCTGATA
1 GATGACTTGAATACGAGACTTGAACGTAGAAAAGAAAAGACATCGGATTAATGAAATATCTGATA
55725114 AATGAA
66 AATGAA
55725120 TCGGTAACTC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (76 bp):
GATGACTTGAATACGAGACTTGAACGTAGAAAAGAAAAGACATCGGATTAATGAAATATCTGATA
AATGAAATCTT
Found at i:55738606 original size:13 final size:13
Alignment explanation
Indices: 55738588--55738613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55738578 AACTGTTGGA
55738588 ACAACCTTATTTC
1 ACAACCTTATTTC
55738601 ACAACCTTATTTC
1 ACAACCTTATTTC
55738614 CAGGAGACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
ACAACCTTATTTC
Found at i:55755692 original size:14 final size:15
Alignment explanation
Indices: 55755673--55755701 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55755663 TCTTTACAGT
55755673 TAAATAAAAA-TAAA
1 TAAATAAAAACTAAA
55755687 TAAATAAAAACTAAA
1 TAAATAAAAACTAAA
55755702 CCAACCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATAAAAACTAAA
Found at i:55768017 original size:98 final size:99
Alignment explanation
Indices: 55767847--55768028 Score: 323
Period size: 98 Copynumber: 1.8 Consensus size: 99
55767837 AGAAATTCCT
*
55767847 TTCGTAGTGCACAGGGGTCAGAGTAGTCATACCCTGAAACAGGGGAGACTTTAACTAATAAACTG
1 TTCGTAGTGCACAGGGGTCAGAGTAGTCATACCCTGAAACAGGGGAGACTTGAACTAATAAACTG
55767912 TACTAAATGGC-CTGACCAAAAATTCTAGAAAATG
66 TACTAAATGGCTC-GACCAAAAATTCTAGAAAATG
*
55767946 TTCGTAGTGCACAGGGTTCAGAGTAGTCAT-CCCTGAAACAGGGGAGACTTGAACTAATAAACTG
1 TTCGTAGTGCACAGGGGTCAGAGTAGTCATACCCTGAAACAGGGGAGACTTGAACTAATAAACTG
55768010 TACTAAATGGCTCGACCAA
66 TACTAAATGGCTCGACCAA
55768029 TGTAATAGCC
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
98 50 0.62
99 30 0.38
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (99 bp):
TTCGTAGTGCACAGGGGTCAGAGTAGTCATACCCTGAAACAGGGGAGACTTGAACTAATAAACTG
TACTAAATGGCTCGACCAAAAATTCTAGAAAATG
Found at i:55769687 original size:68 final size:67
Alignment explanation
Indices: 55769612--55769761 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
55769602 CATCATGTGT
* * * *
55769612 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
55769674 ATGTAG
62 ATGTAG
** * *
55769680 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
55769745 AG
66 AG
55769747 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55769762 GATCAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55769717 original size:64 final size:64
Alignment explanation
Indices: 55769636--55769819 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
55769626 AGACATTATG
*
55769636 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGAT-A
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATCA
* * * * * *
55769699 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
55769764 TCA
62 TCA
* * * *
55769767 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55769820 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 30 0.31
68 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATCA
Found at i:55770039 original size:107 final size:107
Alignment explanation
Indices: 55769897--55770110 Score: 392
Period size: 107 Copynumber: 2.0 Consensus size: 107
55769887 AACGGGAGAC
55769897 TCTCTATGTATTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATG
1 TCTCTATGTATTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATG
*
55769962 TGTACATTAAGTGACCGGGATGTGGTAAGGTTATAAACAAGT
66 TGTACATTAAGTGACCAGGATGTGGTAAGGTTATAAACAAGT
* *
55770004 TCTCTATGTATTGCTTTGTGAGTTTTGTGATGAATATGTGCAGGAACTTGGTTATGTGAATGATG
1 TCTCTATGTATTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATG
*
55770069 TGTTCATTAAGTGACCAGGATGTGGTAAGGTTATAAACAAGT
66 TGTACATTAAGTGACCAGGATGTGGTAAGGTTATAAACAAGT
55770111 AAGTTATACA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.37
Consensus pattern (107 bp):
TCTCTATGTATTGCTTTGTGAGTTTTGTGATGAATAAGTACAGGAACTTGGTTATGTGAATGATG
TGTACATTAAGTGACCAGGATGTGGTAAGGTTATAAACAAGT
Found at i:55776649 original size:24 final size:24
Alignment explanation
Indices: 55776617--55776689 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
55776607 TGAAATACCA
*
55776617 ACCTTTTCATT-ACTATCATTTTTG
1 ACCTTTTCATTGA-TATCATTTTCG
* *
55776641 ACCTTTTCATTGATTTCCTTTTCG
1 ACCTTTTCATTGATATCATTTTCG
*
55776665 ACCTTTTCATTGATATCCTTTTCG
1 ACCTTTTCATTGATATCATTTTCG
55776689 A
1 A
55776690 ATAACGTCCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.07, T:0.52
Consensus pattern (24 bp):
ACCTTTTCATTGATATCATTTTCG
Found at i:55776740 original size:40 final size:40
Alignment explanation
Indices: 55776656--55776794 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
55776646 TTCATTGATT
* * *
55776656 TCCTTTTCGACCTTTTCA-TTGATATCCTTTTCGA-ATAAC
1 TCCTTTTCAAACTTTTCATTTGATATCCTTTTAGATAT-AC
*
55776695 GTCCTTTTCAACCTTTTCATTTGATATCCTTTTTAGATATA-
1 -TCCTTTTCAAACTTTTCATTTGATATCC-TTTTAGATATAC
* * * * *
55776736 TCCTTTTCAAAATTTTCATGTGTTATCCCTTTCAGGTA-ACC
1 TCCTTTTCAAACTTTTCATTTGATAT-CCTTTTAGATATA-C
55776777 TCCTTTTCAAACTTTTCA
1 TCCTTTTCAAACTTTTCA
55776795 AGTATTTAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
39 1 0.01
40 46 0.55
41 28 0.33
42 7 0.08
43 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.47
Consensus pattern (40 bp):
TCCTTTTCAAACTTTTCATTTGATATCCTTTTAGATATAC
Found at i:55781224 original size:26 final size:25
Alignment explanation
Indices: 55781195--55781278 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
55781185 TGGTACAAAT
55781195 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
55781221 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
55781247 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
55781273 TGATAA
1 TGATAA
55781279 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:55782938 original size:27 final size:27
Alignment explanation
Indices: 55782900--55782992 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 27
55782890 AAGCGTTCTA
*
55782900 GTGGCTATGCCATAAATATCTGATCTG
1 GTGGCTCTGCCATAAATATCTGATCTG
* *
55782927 GTGGCTCTGCCACATATATATCTGTTCTG
1 GTGGCTCTG-C-CATAAATATCTGATCTG
** *
55782956 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCATAAATATCTG-ATCTG
*
55782984 GTGACTCTG
1 GTGGCTCTG
55782993 TCACATTATC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
27 16 0.30
28 14 0.26
29 24 0.44
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCATAAATATCTGATCTG
Found at i:55783000 original size:27 final size:27
Alignment explanation
Indices: 55782894--55783010 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
55782884 TGGAGGAAGC
* * * *
55782894 GTTCTAGTGGCTATGCCATAAATATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
*
55782921 GATCTGGTGGCTCTGCCACATATATATCT
1 GTTCTGGTGGCTCTGCCACA-AT-TATCT
*
55782950 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
* *
55782977 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAATTATCT
55783004 GTTCTGG
1 GTTCTGG
55783011 CAACCATGTT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.06
27 32 0.41
28 18 0.23
29 23 0.29
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAATTATCT
Found at i:55787019 original size:26 final size:25
Alignment explanation
Indices: 55786990--55787073 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
55786980 TGGAACAAAT
55786990 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
55787016 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
55787042 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
55787068 TGATAA
1 TGATAA
55787074 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:55788742 original size:29 final size:28
Alignment explanation
Indices: 55788702--55788797 Score: 108
Period size: 29 Copynumber: 3.5 Consensus size: 28
55788692 TATGCAATAA
* * *
55788702 ATATCTGATCTGGTGGCTCTGCCCCATAT
1 ATATCTGTTCTGGTGGCTCTGCCAC-GAT
55788731 ATATCTGTTCTGGTGGCTCTGCCACGAT
1 ATATCTGTTCTGGTGGCTCTGCCACGAT
* *
55788759 -TATCTGTATCTGGTGACTCTGTCAC-AT
1 ATATCTGT-TCTGGTGGCTCTGCCACGAT
55788786 -TATCTGTTCTGG
1 ATATCTGTTCTGG
55788798 CAACCATGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.08
27 16 0.26
28 17 0.28
29 23 0.38
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (28 bp):
ATATCTGTTCTGGTGGCTCTGCCACGAT
Found at i:55795560 original size:11 final size:11
Alignment explanation
Indices: 55795544--55795570 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55795534 GACCCCAAAA
55795544 TTGAAAATCTC
1 TTGAAAATCTC
55795555 TTGAAAATCTC
1 TTGAAAATCTC
55795566 TTGAA
1 TTGAA
55795571 TGTTGTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (11 bp):
TTGAAAATCTC
Found at i:55798468 original size:38 final size:38
Alignment explanation
Indices: 55798425--55798500 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55798415 CCAACATGCA
55798425 CTAAAAACATTTATATCATTATTCACCTATAGGCATAC
1 CTAAAAACATTTATATCATTATTCACCTATAGGCATAC
55798463 CTAAAAACATTTATATCATTATTCACCTATAGGCATAC
1 CTAAAAACATTTATATCATTATTCACCTATAGGCATAC
55798501 AAGTCATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (38 bp):
CTAAAAACATTTATATCATTATTCACCTATAGGCATAC
Found at i:55801247 original size:27 final size:26
Alignment explanation
Indices: 55801176--55801290 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
55801166 TGGAGGAAGC
*
55801176 GTTCTGGTCGC-CATGCCACAAATATCT
1 GTTCTGGTGGCTC-TGCCAC-AATATCT
*
55801203 GTTTCTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTCTGCCAC-AATATCT
*
55801231 GTTCTGGTGGTTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
55801257 GTATGTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
55801284 GTTCTGG
1 GTTCTGG
55801291 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 13 0.17
27 39 0.51
28 24 0.32
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:55809073 original size:12 final size:13
Alignment explanation
Indices: 55809045--55809073 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55809035 CTTTTTAACT
55809045 AACTAACTACTTC
1 AACTAACTACTTC
55809058 AACTAACTAC-TC
1 AACTAACTACTTC
55809070 AACT
1 AACT
55809074 GCTACTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (13 bp):
AACTAACTACTTC
Found at i:55809446 original size:26 final size:26
Alignment explanation
Indices: 55809417--55809498 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
55809407 TGATAAAAAT
*
55809417 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55809443 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55809469 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55809495 TGAT
1 TGAT
55809499 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:55811134 original size:27 final size:26
Alignment explanation
Indices: 55811094--55811198 Score: 156
Period size: 27 Copynumber: 3.9 Consensus size: 26
55811084 AGGAAGCGTC
*
55811094 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
55811121 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
55811148 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
*
55811175 CTGGTGGCTCTGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
55811199 GCAGCCTCGC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
26 7 0.10
27 64 0.89
28 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:55818437 original size:58 final size:58
Alignment explanation
Indices: 55818369--55818485 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
55818359 TTTAAGTAGA
55818369 GTTGTTTGTAAAATAATGTCAGAATGGGCCTA-TCGGTCTGGTGGTTAAGTGGAGTGTT
1 GTTGTTTGTAAAATAATGTCAGAATGGGCCTAGT-GGTCTGGTGGTTAAGTGGAGTGTT
55818427 GTTGTTTGTAAAATAATGTCAGAATGGGCCTAGTGGTCTGGTGGTTAAGTGGAGTGTT
1 GTTGTTTGTAAAATAATGTCAGAATGGGCCTAGTGGTCTGGTGGTTAAGTGGAGTGTT
55818485 G
1 G
55818486 GTGTGAGGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.34, T:0.36
Consensus pattern (58 bp):
GTTGTTTGTAAAATAATGTCAGAATGGGCCTAGTGGTCTGGTGGTTAAGTGGAGTGTT
Found at i:55821925 original size:28 final size:28
Alignment explanation
Indices: 55821885--55821941 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
55821875 CAAATGTAAC
55821885 ATAAAACCGGAAGCTGTTCATATTTAAT
1 ATAAAACCGGAAGCTGTTCATATTTAAT
* *
55821913 ATAAAACTGGAAGCTGTTCGTATTTAAT
1 ATAAAACCGGAAGCTGTTCATATTTAAT
55821941 A
1 A
55821942 GCACAGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (28 bp):
ATAAAACCGGAAGCTGTTCATATTTAAT
Found at i:55826907 original size:38 final size:38
Alignment explanation
Indices: 55826856--55826965 Score: 177
Period size: 38 Copynumber: 2.9 Consensus size: 38
55826846 AGAAGCATAA
55826856 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
1 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
* * *
55826894 TGTTATTTGGGCTCTATGCCTAGCAGGCTTTGTGCCAT
1 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
*
55826932 TGTTATTCGGGCTCTGTGCCTAACAGGC-TTGTGC
1 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTGC
55826966 TGGTGTATTG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
37 6 0.09
38 60 0.91
ACGTcount: A:0.12, C:0.23, G:0.29, T:0.36
Consensus pattern (38 bp):
TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAG
Found at i:55827954 original size:20 final size:20
Alignment explanation
Indices: 55827922--55827960 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
55827912 CCTACAATTC
*
55827922 AAATTTCCTAAATTTTTCTT
1 AAATTTCCTAAATGTTTCTT
55827942 AAATGTTCC-AAATGTTTCT
1 AAAT-TTCCTAAATGTTTCT
55827961 GATTTCGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (20 bp):
AAATTTCCTAAATGTTTCTT
Found at i:55828494 original size:55 final size:55
Alignment explanation
Indices: 55828430--55828536 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
55828420 TTATAGATTA
* * *
55828430 CAAATTAATTATTTATGAGCCCTATTCAAATTAAAAGTGATGATTTATCATCTTG
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTG
* *
55828485 CAAATTAATTATTCATAAGCATTATTTAAATTAAAAGTGATGATTTATCATC
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
55828537 CAATGAATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTG
Found at i:55829373 original size:15 final size:15
Alignment explanation
Indices: 55829353--55829385 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
55829343 GATCATGGAT
55829353 CAAGTCCATGAATTA
1 CAAGTCCATGAATTA
55829368 CAAGTCCATGAATTA
1 CAAGTCCATGAATTA
55829383 CAA
1 CAA
55829386 TTCCTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.24
Consensus pattern (15 bp):
CAAGTCCATGAATTA
Found at i:55832490 original size:25 final size:25
Alignment explanation
Indices: 55832437--55832507 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
55832427 AATGCTTATA
* *
55832437 TGAGCACATA-AACGAGAAGCTCTTT
1 TGAGC-CATATAACGAGAAGCTCATG
55832462 TGAGCCATATAACGAGAAGCTCATG
1 TGAGCCATATAACGAGAAGCTCATG
* * *
55832487 TGAGTCATGTAACGGGAAGCT
1 TGAGCCATATAACGAGAAGCT
55832508 TCGAAGAGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.10
25 36 0.90
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (25 bp):
TGAGCCATATAACGAGAAGCTCATG
Found at i:55832615 original size:25 final size:26
Alignment explanation
Indices: 55832587--55832644 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
55832577 AGCTCTGGAA
55832587 AGCCATTAA-CAGGAACCTCACAAAG
1 AGCCATTAATCAGGAACCTCACAAAG
* * *
55832612 AGCCTTTAATTAGGAAGCTCACAAAG
1 AGCCATTAATCAGGAACCTCACAAAG
55832638 AGCCATT
1 AGCCATT
55832645 TATCGGGACG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (26 bp):
AGCCATTAATCAGGAACCTCACAAAG
Found at i:55832782 original size:25 final size:25
Alignment explanation
Indices: 55832726--55832812 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
55832716 GAAGAGCTAT
** * *
55832726 TAACGGGAAGCTCACAAGAACCATA
1 TAACGGGAAGCTCATGAGAGCCAAA
55832751 TAACGGGAAGCTCATGAGAGCCAAA
1 TAACGGGAAGCTCATGAGAGCCAAA
* * *
55832776 TATCGGGATGCTCATGAGAG-CTAA
1 TAACGGGAAGCTCATGAGAGCCAAA
*
55832800 TAACGGGATGCTC
1 TAACGGGAAGCTC
55832813 TTTCGGGCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
24 15 0.28
25 39 0.72
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (25 bp):
TAACGGGAAGCTCATGAGAGCCAAA
Found at i:55832806 original size:24 final size:24
Alignment explanation
Indices: 55832705--55832812 Score: 92
Period size: 25 Copynumber: 4.4 Consensus size: 24
55832695 ACAACCAAAT
*
55832705 CGGGATGCTC-CGAAGAGCTATTAA
1 CGGGATGCTCACG-AGAGCTAATAA
* * * *
55832729 CGGGAAGCTCACAAGAACCATATAA
1 CGGGATGCTCACGAGAGCTA-ATAA
* * * *
55832754 CGGGAAGCTCATGAGAGCCAAATAT
1 CGGGATGCTCACGAGAG-CTAATAA
*
55832779 CGGGATGCTCATGAGAGCTAATAA
1 CGGGATGCTCACGAGAGCTAATAA
55832803 CGGGATGCTC
1 CGGGATGCTC
55832813 TTTCGGGCTG
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
24 29 0.43
25 37 0.54
26 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (24 bp):
CGGGATGCTCACGAGAGCTAATAA
Found at i:55835038 original size:19 final size:19
Alignment explanation
Indices: 55835014--55835102 Score: 125
Period size: 17 Copynumber: 4.9 Consensus size: 19
55835004 ATAATCTTCA
55835014 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
55835033 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
55835052 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
55835069 ATGGTA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
55835086 ATGAT-TGTAATCTTAGA
1 ATGATATGCAATCTTAGA
55835103 AGATATGATT
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
17 31 0.48
18 9 0.14
19 25 0.38
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:55835108 original size:21 final size:22
Alignment explanation
Indices: 55835082--55835138 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
55835072 GTACAATCTT
55835082 AGATATGA-TTGTAATCTTAGA
1 AGATATGATTTGTAATCTTAGA
55835103 AGATATGATTTTGTAATCTTAG-
1 AGATATGA-TTTGTAATCTTAGA
* *
55835125 AGATTTAATTTGTA
1 AGATATGATTTGTA
55835139 GATACCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 14 0.44
22 6 0.19
23 12 0.38
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.44
Consensus pattern (22 bp):
AGATATGATTTGTAATCTTAGA
Found at i:55835120 original size:23 final size:21
Alignment explanation
Indices: 55835082--55835125 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
55835072 GTACAATCTT
55835082 AGATATGATTGTAATCTTAGA
1 AGATATGATTGTAATCTTAGA
55835103 AGATATGATTTTGTAATCTTAGA
1 AGATATGA--TTGTAATCTTAGA
55835126 GATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (21 bp):
AGATATGATTGTAATCTTAGA
Found at i:55835135 original size:22 final size:23
Alignment explanation
Indices: 55835090--55835135 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
55835080 TTAGATATGA
*
55835090 TTGTAATCTTAGAAGATATGATT
1 TTGTAATCTTAGAAGATATAATT
*
55835113 TTGTAATCTTAG-AGATTTAATT
1 TTGTAATCTTAGAAGATATAATT
55835135 T
1 T
55835136 GTAGATACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (23 bp):
TTGTAATCTTAGAAGATATAATT
Found at i:55836796 original size:23 final size:23
Alignment explanation
Indices: 55836770--55836813 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
55836760 CGCAGTACTA
55836770 AAAGGAATTCATAGGATTTTTGG
1 AAAGGAATTCATAGGATTTTTGG
**
55836793 AAAGGAATTTGTAGGATTTTT
1 AAAGGAATTCATAGGATTTTT
55836814 TACTATCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (23 bp):
AAAGGAATTCATAGGATTTTTGG
Found at i:55836868 original size:104 final size:104
Alignment explanation
Indices: 55836685--55836878 Score: 298
Period size: 104 Copynumber: 1.9 Consensus size: 104
55836675 GTATCGATCA
* * * * * *
55836685 TTGGAAAGGAATTTGTAGGATTTTTGGCTGTCTTAAGAAAACAAAACATTTGGGATTATTCTATA
1 TTGGAAAGGAATTTGTAGGATTTTTGACTATCTTAAGAAAACAAAAAATATAGGATTACTCTATA
*
55836750 GTAATTATCGCGCAGTACTAAAAGGAATTCATAGGATTT
66 GTAATTATCACGCAGTACTAAAAGGAATTCATAGGATTT
* *
55836789 TTGGAAAGGAATTTGTAGGATTTTTTACTATCTTAAGAAAATAAAAAATATAGGATTACTCTATA
1 TTGGAAAGGAATTTGTAGGATTTTTGACTATCTTAAGAAAACAAAAAATATAGGATTACTCTATA
*
55836854 GTAATTATCACGCAGTACTAGAAGG
66 GTAATTATCACGCAGTACTAAAAGG
55836879 TTACTTGGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (104 bp):
TTGGAAAGGAATTTGTAGGATTTTTGACTATCTTAAGAAAACAAAAAATATAGGATTACTCTATA
GTAATTATCACGCAGTACTAAAAGGAATTCATAGGATTT
Found at i:55837864 original size:51 final size:51
Alignment explanation
Indices: 55837788--55837884 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
55837778 ATTGCAAATT
* * * *
55837788 AATTATTCATAAGCACTATTTAAATTAAAAGTGATGATTTATCATCTTGCA
1 AATTAATCATAAACACTATTCAAATTAAAAGTAATGATTTATCATCTTGCA
*
55837839 AATTAATCATAAACACTATTCAAATTAAAATTAATGATTTATCATC
1 AATTAATCATAAACACTATTCAAATTAAAAGTAATGATTTATCATC
55837885 CCATGGATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.38
Consensus pattern (51 bp):
AATTAATCATAAACACTATTCAAATTAAAAGTAATGATTTATCATCTTGCA
Found at i:55840238 original size:17 final size:18
Alignment explanation
Indices: 55840198--55840238 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
55840188 ACTCTTCCGA
55840198 AATCTTAGATATGATATGC
1 AATCTTAGATATGATA-GC
55840217 AATCTTAGATATGATA-C
1 AATCTTAGATATGATAGC
55840234 AATCT
1 AATCT
55840239 NGCTTTCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
19 16 0.73
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATAGC
Found at i:55846954 original size:21 final size:20
Alignment explanation
Indices: 55846930--55846981 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
55846920 TTATGCCACA
55846930 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
55846951 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
55846971 TCAGTATTTTA
1 TCAGTATTTTA
55846982 ATTTGGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:55847024 original size:20 final size:20
Alignment explanation
Indices: 55846999--55847048 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
55846989 TTTAATTTTT
55846999 TTCAGGATAAAATCCTGAAA
1 TTCAGGATAAAATCCTGAAA
55847019 TTCAGGATAAAATCCTGAAA
1 TTCAGGATAAAATCCTGAAA
55847039 TTCAGGATAA
1 TTCAGGATAA
55847049 GAATACTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCAGGATAAAATCCTGAAA
Found at i:55849067 original size:32 final size:32
Alignment explanation
Indices: 55848996--55849060 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
55848986 AGACCTAGAC
*
55848996 AAATATTTTTTTAAAATTTGTTATCTGTTAAA
1 AAATATTTTTCTAAAATTTGTTATCTGTTAAA
* *
55849028 AAATATTTTTCTAAGATTTTTTATCTGTTAAA
1 AAATATTTTTCTAAAATTTGTTATCTGTTAAA
55849060 A
1 A
55849061 GTTATTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (32 bp):
AAATATTTTTCTAAAATTTGTTATCTGTTAAA
Found at i:55853813 original size:23 final size:24
Alignment explanation
Indices: 55853787--55853938 Score: 100
Period size: 23 Copynumber: 6.7 Consensus size: 24
55853777 TTTTAAAAAA
* *
55853787 TTTAAA-ATGTATATTTGAAATAT
1 TTTAAATATATATTTTTGAAATAT
*
55853810 TTTATAATATATATTTTTTAAA-AT
1 TTTA-AATATATATTTTTGAAATAT
55853834 TTTAAATATATATTTTTGAAATTAT
1 TTTAAATATATATTTTTGAAA-TAT
* *
55853859 TTT---TATA-AATTTTAAATATTATT
1 TTTAAATATATATTTTTGAA-A-TA-T
55853882 TTTAAAT-TAT-TTTTT-AAA-AT
1 TTTAAATATATATTTTTGAAATAT
55853902 TTTAAATAGTAT-TTTTT-AAATA-
1 TTTAAATA-TATATTTTTGAAATAT
55853924 -TTAAATATAT-TTTTT
1 TTTAAATATATATTTTT
55853939 AATAATATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 29
0.75 0.05 0.20
Matches are distributed among these distances:
20 16 0.15
21 15 0.14
22 19 0.17
23 26 0.24
24 10 0.09
25 22 0.20
26 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTAAATATATATTTTTGAAATAT
Found at i:55853842 original size:33 final size:32
Alignment explanation
Indices: 55853806--55853922 Score: 137
Period size: 34 Copynumber: 3.4 Consensus size: 32
55853796 TATATTTGAA
55853806 ATATTTTATAATATATATTTTTTAAAATTTTAAATAT
1 ATATTTT-TAA-AT-TATTTTTTAAAATTTT-AA-AT
55853843 ATATTTTTGAAATTA-TTTTTATAAATTTTAAAT
1 ATATTTTT-AAATTATTTTTTA-AAATTTTAAAT
55853876 ATTATTTTTAAATTATTTTTTAAAATTTTAAAT
1 A-TATTTTTAAATTATTTTTTAAAATTTTAAAT
55853909 AGTATTTTTTAAAT
1 A-TA-TTTTTAAAT
55853923 ATTAAATATA
Statistics
Matches: 74, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
33 23 0.31
34 30 0.41
35 9 0.12
36 3 0.04
37 9 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
ATATTTTTAAATTATTTTTTAAAATTTTAAAT
Found at i:55853855 original size:22 final size:21
Alignment explanation
Indices: 55853818--55853940 Score: 101
Period size: 21 Copynumber: 5.6 Consensus size: 21
55853808 ATTTTATAAT
55853818 ATATATTTTTTAAAATTTTAA
1 ATATATTTTTTAAAATTTTAA
*
55853839 ATATATATTTTTGAAATTATTTT-T
1 ATATAT-TTTTT-AAA--ATTTTAA
* *
55853863 ATA-AATTTTAAATATTATTTTTAA
1 ATATATTTTTTAA-A--A-TTTTAA
55853887 AT-TATTTTTTAAAATTTTAA
1 ATATATTTTTTAAAATTTTAA
*
55853907 ATAGTATTTTTT-AAATATTAA
1 ATA-TATTTTTTAAAATTTTAA
55853928 ATATATTTTTTAA
1 ATATATTTTTTAA
55853941 TAATATAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 22
0.74 0.06 0.19
Matches are distributed among these distances:
20 16 0.19
21 21 0.25
22 21 0.25
23 9 0.11
24 12 0.14
25 5 0.06
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATATTTTTTAAAATTTTAA
Found at i:55853875 original size:20 final size:19
Alignment explanation
Indices: 55853847--55853940 Score: 74
Period size: 20 Copynumber: 4.9 Consensus size: 19
55853837 AAATATATAT
55853847 TTTTGAAATTATTTTTATAAA
1 TTTT-AAATTATTTTT-TAAA
*
55853868 TTTTAAA-TA-TTATT---
1 TTTTAAATTATTTTTTAAA
55853882 -TTTAAATTATTTTTTAAAA
1 TTTTAAATTATTTTTT-AAA
55853901 TTTTAAATAGTATTTTTTAAA
1 TTTTAAAT--TATTTTTTAAA
*
55853922 TATTAAATATATTTTTTAA
1 TTTTAAAT-TATTTTTTAA
55853941 TAATATAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
13 6 0.10
14 2 0.03
15 4 0.07
17 1 0.02
18 3 0.05
19 2 0.03
20 20 0.33
21 14 0.23
22 8 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAAATTATTTTTTAAA
Done.