Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 25 of 203
Found at i:8351357 original size:24 final size:24
Alignment explanation
Indices: 8351327--8351379 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
8351317 TCACTATTCT
* *
8351327 AAATATTAAAA-AATTATAATTATA
1 AAATATTAAAAGAATAAT-ATCATA
8351351 AAATATTAAAAGAATAATATCATA
1 AAATATTAAAAGAATAATATCATA
8351375 AAATA
1 AAATA
8351380 AAACAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATATTAAAAGAATAATATCATA
Found at i:8356324 original size:3 final size:3
Alignment explanation
Indices: 8356316--8356343 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8356306 GATTGCCGAT
8356316 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
8356344 TTGTGGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8360368 original size:31 final size:27
Alignment explanation
Indices: 8360333--8360405 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 27
8360323 ATAAAAAAAA
8360333 TTCATGTATATATTTAAACCACAATCAAAG
1 TTCATGTATA-ATTT-AACC-CAATCAAAG
* *
8360363 TTTCATAAGTATAATTTCACCTAATCAAAG
1 -TTCAT--GTATAATTTAACCCAATCAAAG
8360393 TTCATGTATAATT
1 TTCATGTATAATT
8360406 CTGAGATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 8 0.21
29 5 0.13
30 8 0.21
31 8 0.21
32 4 0.11
33 5 0.13
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (27 bp):
TTCATGTATAATTTAACCCAATCAAAG
Found at i:8364332 original size:6 final size:7
Alignment explanation
Indices: 8364299--8364330 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8364289 TAAAAATATT
*
8364299 TTTTTTA
1 TTTTTAA
8364306 TTTTTAA
1 TTTTTAA
8364313 TTTTTAA
1 TTTTTAA
8364320 TTTTTAA
1 TTTTTAA
8364327 TTTT
1 TTTT
8364331 AAAATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTAA
Found at i:8364336 original size:40 final size:39
Alignment explanation
Indices: 8364291--8364384 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 39
8364281 GAATTTAATA
* *
8364291 AAAATATTTTTTTTATTTTTAATTTTTAATTTTTAATTTT
1 AAAATATTTTTTATACTTTT-ATTTTTAATTTTTAATTTT
* * *
8364331 AAAATATTTTTAAAATACTTTTATTTTTATTTTTTATTTTT
1 AAAATATTTTT--TATACTTTTATTTTTAATTTTTAATTTT
8364372 AAAATTATTTTTT
1 AAAA-TATTTTTT
8364385 GGTGTTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
40 11 0.24
41 21 0.47
42 13 0.29
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (39 bp):
AAAATATTTTTTATACTTTTATTTTTAATTTTTAATTTT
Found at i:8367797 original size:46 final size:46
Alignment explanation
Indices: 8367721--8367856 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
8367711 CAAAGTGTGG
* *
8367721 AACGTAGGTATGATATTTTAGTGAATAAAACCATACTGAGTTATGA
1 AACGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTATGA
*
8367767 AACGTAGGTATGATATTTCAGT-AACGAAAACCATACTGAGTTGTGA
1 AACGTAGGTATGATATTTCAGTGAA-GAAAACCATACTGAGTTATGA
* * *
8367813 AAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGTTAT
1 AACGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTAT
8367857 AACATTGTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 2 0.02
46 77 0.95
47 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (46 bp):
AACGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTATGA
Found at i:8376539 original size:23 final size:21
Alignment explanation
Indices: 8376452--8376539 Score: 67
Period size: 23 Copynumber: 4.1 Consensus size: 21
8376442 AAAAAGTTAC
* *
8376452 TAAAAT-AATAATTT-TTGTA
1 TAAAATAAAAAATTTATTTTA
8376471 TAAAATAAAAAAATTTATTTTA
1 TAAAAT-AAAAAATTTATTTTA
*
8376493 CCTTAAAA-ATAAAATTTA-TTTA
1 ---TAAAATAAAAAATTTATTTTA
8376515 TAAAATAAAAAATTATATTTATA
1 TAAAATAAAAAATT-TATTT-TA
8376538 TA
1 TA
8376540 TTTATATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
19 11 0.20
20 7 0.13
21 9 0.16
22 10 0.18
23 13 0.24
25 5 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (21 bp):
TAAAATAAAAAATTTATTTTA
Found at i:8387610 original size:11 final size:11
Alignment explanation
Indices: 8387594--8387675 Score: 59
Period size: 11 Copynumber: 7.9 Consensus size: 11
8387584 ATTTTTTTAA
8387594 TTTTAAAATAC
1 TTTTAAAATAC
8387605 TTTTAAAATAC
1 TTTTAAAATAC
** *
8387616 TTTTTTATTA-
1 TTTTAAAATAC
* *
8387626 TTTT---TTAA
1 TTTTAAAATAC
*
8387634 TTTTAAAATAT
1 TTTTAAAATAC
8387645 TTTTAAAATAC
1 TTTTAAAATAC
8387656 TTTTTAAAAT--
1 -TTTTAAAATAC
8387666 TTTTAAAATA
1 TTTTAAAATA
8387676 AATTTTTGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
7 3 0.05
8 4 0.07
9 9 0.15
10 4 0.07
11 30 0.51
12 9 0.15
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:8387635 original size:40 final size:38
Alignment explanation
Indices: 8387578--8387660 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 38
8387568 AATATTTTTA
8387578 TTTTTTATTTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTATTTTTTTAATTTTAAAATACTTTTAAAATAC
*
8387616 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTA-T-TTTTTTAATTTTAAAATACTTTTAAAATAC
8387656 TTTTT
1 TTTTT
8387661 AAAATTTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 7 0.17
39 1 0.02
40 34 0.81
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTTTTATTTTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:8387659 original size:29 final size:29
Alignment explanation
Indices: 8387605--8387662 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
8387595 TTTAAAATAC
* * *
8387605 TTTTAAAATACTTTTTTATTATTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTTAA
8387634 TTTTAAAATA-TTTTTAAAATACTTTTTAA
1 TTTTAAAATACTTTTT-AAATACTTTTTAA
8387663 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAATACTTTTTAA
Found at i:8387661 original size:12 final size:11
Alignment explanation
Indices: 8387634--8387675 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
8387624 TATTTTTTAA
8387634 TTTTAAAATAT
1 TTTTAAAATAT
8387645 TTTTAAAATACT
1 TTTTAAAATA-T
8387657 TTTT-AAA-AT
1 TTTTAAAATAT
8387666 TTTTAAAATA
1 TTTTAAAATA
8387676 AATTTTTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.18
10 4 0.14
11 14 0.50
12 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:8387669 original size:21 final size:22
Alignment explanation
Indices: 8387594--8387675 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 22
8387584 ATTTTTTTAA
*
8387594 TTTTAAAATACTTTTAAAATAC
1 TTTTAAAATATTTTTAAAATAC
** * *
8387616 TTTTTTATTATTTTT----TAA
1 TTTTAAAATATTTTTAAAATAC
8387634 TTTTAAAATATTTTTAAAATAC
1 TTTTAAAATATTTTTAAAATAC
*
8387656 TTTTTAAA-ATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATA
8387676 AATTTTTGGT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
18 14 0.30
21 12 0.26
22 20 0.43
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAAATATTTTTAAAATAC
Found at i:8387681 original size:21 final size:23
Alignment explanation
Indices: 8387632--8387681 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
8387622 ATTATTTTTT
8387632 AATTTTAAAATATTTTTAAAAT-
1 AATTTTAAAATATTTTTAAAATA
* *
8387654 ACTTTTTAAA-ATTTTTAAAATA
1 AATTTTAAAATATTTTTAAAATA
8387676 AATTTT
1 AATTTT
8387682 TGGTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTAAAATATTTTTAAAATA
Found at i:8387689 original size:22 final size:21
Alignment explanation
Indices: 8387631--8387696 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
8387621 TATTATTTTT
*
8387631 TAATTTTAAAATATTTTTAAAA
1 TAATTTT-TAATATTTTTAAAA
* *
8387653 TACTTTTTAAAATTTTTAAAA
1 TAATTTTTAATATTTTTAAAA
**
8387674 TAAATTTTTGGTATTTATTAAAA
1 T-AATTTTTAATATTT-TTAAAA
8387697 AATGGGCCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 13 0.37
22 16 0.46
23 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (21 bp):
TAATTTTTAATATTTTTAAAA
Found at i:8388250 original size:11 final size:10
Alignment explanation
Indices: 8388234--8388283 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 10
8388224 ACGGGTCTTT
8388234 TACAAAAATAA
1 TACAAAAA-AA
8388245 TACAAAAAAA
1 TACAAAAAAA
8388255 TA-AAAAAAA
1 TACAAAAAAA
*
8388264 TACTAAAATAA
1 TAC-AAAAAAA
*
8388275 TATAAAAAA
1 TACAAAAAA
8388284 TTTATTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 9 0.26
10 9 0.26
11 16 0.47
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (10 bp):
TACAAAAAAA
Found at i:8388271 original size:20 final size:19
Alignment explanation
Indices: 8388237--8388284 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
8388227 GGTCTTTTAC
*
8388237 AAAAATAATACAAAAAAAT
1 AAAAAAAATACAAAAAAAT
*
8388256 AAAAAAAATACTAAAATAAT
1 AAAAAAAATAC-AAAAAAAT
*
8388276 ATAAAAAAT
1 AAAAAAAAT
8388285 TTATTTACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAAAATACAAAAAAAT
Found at i:8389065 original size:154 final size:150
Alignment explanation
Indices: 8388394--8389190 Score: 946
Period size: 154 Copynumber: 5.3 Consensus size: 150
8388384 TCGTATTTTG
* *
8388394 GGCC-TTTATTCGTATTTTTTTCCCGGATTTTATTACTTTT-AAAAAATATACTATTTTCTATTT
1 GGCCATTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTTTAAAAAAATATACTATTTTATATTT
*
8388457 TTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATA
65 TATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATA
8388522 AATTAAAAAAA-CCTTATTTC
130 AATTAAAAAAACCCTTATTTC
* * *
8388542 GGACATTTGTTCGTA-TTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCATATT
1 GGCCATTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAA-AAAAATATACTATTTT-ATATT
* * * *
8388606 TTATTATTTTACATTATTTTAGAACATTATGCTTGAAAGGTATTAATTTACTGTGTTTTTTAAAT
64 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
*
8388671 AAATT-AAAAAATCCTTATTTC
129 AAATTAAAAAAACCCTTATTTC
* * * *
8388692 GGCCCTTTGTTCGTATTTTTTTCCCCAGAGTTTATTGC-TTTAAAAAAATATACTA---T-T-TT
1 GGCCATTTGTTCGTA-TTTTTT-CCCGGATTTTATTACTTTTAAAAAAATATACTATTTTATATT
* * * *
8388751 CTA--ATTTT--ATTATTTTAGTACATTATATTTGAAATTTATTCATTTAGTGTGTTTTTTAAAT
64 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
*
8388812 AAATTAAAAAAAACTCTTATTTC
129 AAATT-AAAAAAACCCTTATTTC
* * * *
8388835 --CACACTTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGTA
1 GGC-CA-TTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAA-AAAAATATACTATTTT-ATA
* ** *
8388898 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTGTTAATTTTCTGTGTTTTTAAA
62 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAA
8388963 ATAAATTTAAAAAAAACCCTTATTTC
127 ATAAA-TT-AAAAAAACCCTTATTTC
* *
8388989 GGCCATTTGTTCGTATTTTTTCCCCCAGAGTTTATTA-TTTTAAAAAAATATACTATTTTATAAT
1 GGCCATTTGTTCGTATTTTTT--CCCGGATTTTATTACTTTTAAAAAAATATACTATTTTAT-AT
* * *
8389053 TTTATAATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTGTTTTAAA
63 TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAA
*
8389118 TAAATTTTAAAAAAACTCTTATTTC
128 TAAA--TTAAAAAAACCCTTATTTC
* * * ** *
8389143 GGTCATTTGTTTGTATTTTTTTCCAAATTTTATTACTTTCAATAAAAA
1 GGCCATTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAA-AAAAA
8389191 AAACACACTA
Statistics
Matches: 553, Mismatches: 63, Indels: 60
0.82 0.09 0.09
Matches are distributed among these distances:
141 63 0.11
142 11 0.02
143 40 0.07
145 4 0.01
146 2 0.00
147 23 0.04
148 6 0.01
149 34 0.06
150 91 0.16
151 16 0.03
152 20 0.04
153 67 0.12
154 154 0.28
155 10 0.02
156 12 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (150 bp):
GGCCATTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAAAAAAATATACTATTTTATATTTT
ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
ATTAAAAAAACCCTTATTTC
Found at i:8389069 original size:294 final size:292
Alignment explanation
Indices: 8388468--8389190 Score: 1011
Period size: 294 Copynumber: 2.4 Consensus size: 292
8388458 TTTATTTTAC
* * *
8388468 ATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTAAAAAAA
1 ATTAATTTA-TACATTATATTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTAAAAAAA
*
8388533 C-CTTATTTCGGACATTTGTTCGTA-TTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTA
65 CTCTTATTTCGGACATTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAATATATTA
8388596 TTTTCATATTTTATTATTTTACATTATTTTAGAACATTATGCTTGAAAGGTATTAATTTACTGTG
130 TTTTCATATTTTATTATTTTACATTATTTTAGAACATTATGCTTGAAAGGTATTAATTTACTGTG
* * * *
8388661 TTTTTTAAATAAATTAAAAAATCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGAGTTTA
195 TTTTTAAAATAAATTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCCAGAGTTTA
* *
8388726 TTGCTTTAAAAAAATATACTATTTTCTAATTTT
260 TTACTTTAAAAAAATATACTATTTTATAATTTT
* *
8388759 ATTATTTTAGTACATTATATTTGAAATTTATTCATTTAGTGTGTTTTTTAAATAAATTAAAAAAA
1 ATTAATTTA-TACATTATATTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATT-AAAAAA
*
8388824 ACTCTTATTTC-CACACTTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAATATAT
64 ACTCTTATTTCGGACA-TTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAATATAT
* * * * * *
8388888 TATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTGTTAATTTTCTG
128 TATTTTCATATTTTATTATTTTACATTATTTTAGAACATTATGCTTGAAAGGTATTAATTTACTG
8388953 TGTTTTTAAAATAAATTTAAAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCCAGA
193 TGTTTTTAAAATAAA-TT--AAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCCAGA
*
8389018 GTTTATTATTTTAAAAAAATATACTATTTTATAATTTTAT
255 GTTTATTACTTTAAAAAAATATACTATTTTATAA-TTT-T
* *
8389058 AATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTGTTTTAAATAAAT
1 -A--TT--A--A-TTTA-TACATTATATTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAA-
* * **
8389123 TTTAAAAAAACTCTTATTTCGGTCATTTGTTTGTATTTTTTTCCAAATTTTATTACTTTCAATAA
56 -TTAAAAAAACTCTTATTTCGGACATTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCAATAA
8389188 AAA
120 AAA
8389191 AAACACACTA
Statistics
Matches: 385, Mismatches: 27, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
291 55 0.14
292 11 0.03
293 18 0.05
294 109 0.28
295 2 0.01
297 73 0.19
298 3 0.01
299 1 0.00
300 1 0.00
302 2 0.01
304 1 0.00
307 48 0.12
308 57 0.15
309 4 0.01
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.50
Consensus pattern (292 bp):
ATTAATTTATACATTATATTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTAAAAAAAC
TCTTATTTCGGACATTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAATATATTAT
TTTCATATTTTATTATTTTACATTATTTTAGAACATTATGCTTGAAAGGTATTAATTTACTGTGT
TTTTAAAATAAATTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCCAGAGTTTAT
TACTTTAAAAAAATATACTATTTTATAATTTT
Found at i:8397777 original size:2 final size:2
Alignment explanation
Indices: 8397772--8397810 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8397762 AGAAATTGAA
** *
8397772 AT AT AT AT AT AT AT AT GC AT AT AA AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8397811 ACAAATGAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8398910 original size:10 final size:10
Alignment explanation
Indices: 8398862--8398911 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
8398852 TAATTACCCC
*
8398862 CTCTCTCTTT
1 CTCTTTCTTT
*
8398872 CTCTTTCTCT
1 CTCTTTCTTT
** *
8398882 CTCTCCCTCT
1 CTCTTTCTTT
8398892 CTCTTTCTTT
1 CTCTTTCTTT
8398902 CTCTTTCTTT
1 CTCTTTCTTT
8398912 GGCTTTTGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (10 bp):
CTCTTTCTTT
Found at i:8400409 original size:25 final size:25
Alignment explanation
Indices: 8400380--8400428 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
8400370 GAGTCCCAAA
8400380 AAAAAACAAAGGGGGGGGGGGGGGGC
1 AAAAAA-AAAGGGGGGGGGGGGGGGC
*
8400406 AAAAAAAAAGGGGGGGTGGGGGG
1 AAAAAAAAAGGGGGGGGGGGGGG
8400429 AGGGGGAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.37, C:0.04, G:0.57, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAGGGGGGGGGGGGGGGC
Found at i:8401469 original size:23 final size:23
Alignment explanation
Indices: 8401421--8401469 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
8401411 TTTATATTTT
* *
8401421 TTAATAAATATGATAAAATATTA
1 TTAATAAATATGATAAAAAATAA
*
8401444 TTAATATAATAT-TTAAAAAATAA
1 TTAATA-AATATGATAAAAAATAA
8401467 TTA
1 TTA
8401470 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAATAAATATGATAAAAAATAA
Found at i:8401812 original size:15 final size:16
Alignment explanation
Indices: 8401792--8401831 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
8401782 ATATTTTAGT
8401792 AATAACATTAATT-AA
1 AATAACATTAATTAAA
8401807 AATAACA-T-ATTAAA
1 AATAACATTAATTAAA
*
8401821 AATTACATTAA
1 AATAACATTAA
8401832 ATACAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 3 0.14
14 9 0.43
15 8 0.38
16 1 0.05
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAACATTAATTAAA
Found at i:8415110 original size:12 final size:12
Alignment explanation
Indices: 8415095--8415138 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
8415085 ACTAATGTAG
8415095 TTAATAATATTA
1 TTAATAATATTA
8415107 TTAATAATATTA
1 TTAATAATATTA
* * *
8415119 ATAATTAGATTA
1 TTAATAATATTA
8415131 -TAATAATA
1 TTAATAATA
8415139 AAAATAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 6 0.22
12 21 0.78
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
TTAATAATATTA
Found at i:8425859 original size:30 final size:30
Alignment explanation
Indices: 8425795--8425862 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
8425785 ATCTTGAACT
* * * **
8425795 ATCTAATATATGAATGATCTCAAGAAACTT
1 ATCTAATAGATGAATGATCCCAACAAACGC
*
8425825 ATCTAATAGATGAATGATCCCAACAAGCGC
1 ATCTAATAGATGAATGATCCCAACAAACGC
8425855 ATCTAATA
1 ATCTAATA
8425863 CATGGTGGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.28
Consensus pattern (30 bp):
ATCTAATAGATGAATGATCCCAACAAACGC
Found at i:8428278 original size:27 final size:26
Alignment explanation
Indices: 8428248--8428298 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
8428238 ATGAAATTCT
*
8428248 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
8428275 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
8428299 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:8432213 original size:21 final size:21
Alignment explanation
Indices: 8432183--8432253 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
8432173 CTATAACTTA
*
8432183 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCGAGGG
*
8432204 AAGAAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
* **
8432225 CAGCAGAGGCAACAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
8432246 AAGCAGAG
1 AAGCAGAG
8432254 TAGAGCAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.18, G:0.46, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:8432666 original size:43 final size:43
Alignment explanation
Indices: 8432601--8432698 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
8432591 CATCAAACAA
*
8432601 TAGCGGCGTTTGTGAGCTAAGCGCCGCTAAAGAACATGTTCTT
1 TAGCGGCGTTTGTGAGCTAAGCGCCGCTAAAGAACATGCTCTT
* * *
8432644 TTGCGGCGTTTGTTAG-TGAAGCGTCGCTAAAGAACATGCTCTT
1 TAGCGGCGTTTGTGAGCT-AAGCGCCGCTAAAGAACATGCTCTT
8432687 TAGCGGCGTTTG
1 TAGCGGCGTTTG
8432699 GTGGTAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 48 0.98
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGCTAAGCGCCGCTAAAGAACATGCTCTT
Found at i:8449897 original size:30 final size:29
Alignment explanation
Indices: 8449841--8449897 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
8449831 TCATAAAAGA
* *
8449841 TTATATAAAAACATTATATTAAATATGTT
1 TTATATAAAAACATAATATAAAATATGTT
8449870 TTATGATAAAAA-ATAATATAAATATATG
1 TTAT-ATAAAAACATAATATAAA-ATATG
8449898 GAAGGGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (29 bp):
TTATATAAAAACATAATATAAAATATGTT
Found at i:8454669 original size:16 final size:16
Alignment explanation
Indices: 8454636--8454669 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8454626 GGAGATTGTT
* *
8454636 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
8454652 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
8454668 AA
1 AA
8454670 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:8456017 original size:31 final size:32
Alignment explanation
Indices: 8455964--8456023 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
8455954 ATAAAATTTA
8455964 TTTTGAATAGAATTTAAATATTT-TCATAATT
1 TTTTGAATAGAATTTAAATATTTATCATAATT
8455995 TTTTGAATA-AA-TTAAAGGTATTTATCATA
1 TTTTGAATAGAATTTAAA--TATTTATCATA
8456024 TTAATGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.19
30 2 0.08
31 14 0.54
32 5 0.19
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (32 bp):
TTTTGAATAGAATTTAAATATTTATCATAATT
Found at i:8458397 original size:9 final size:9
Alignment explanation
Indices: 8458377--8458424 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
8458367 GGTGTCTAGA
*
8458377 CATCATCAT
1 CATCACCAT
*
8458386 CATCACCGT
1 CATCACCAT
* *
8458395 CATCAACGT
1 CATCACCAT
*
8458404 CGTCACCAT
1 CATCACCAT
8458413 CATCACCAT
1 CATCACCAT
8458422 CAT
1 CAT
8458425 AGGAGGGGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.25
Consensus pattern (9 bp):
CATCACCAT
Found at i:8463704 original size:34 final size:34
Alignment explanation
Indices: 8463649--8463720 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
8463639 TAAAAAAATG
*
8463649 TAAATATATATACTATAAAAATGA-ATGTATATTT
1 TAAATATATATACTATAAAAAT-ATATGTATATTC
8463683 TAAAT-TATAATA-TATAGAAAATATATGTATATTC
1 TAAATATAT-ATACTATA-AAAATATATGTATATTC
8463717 TAAA
1 TAAA
8463721 ATGTACATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (34 bp):
TAAATATATATACTATAAAAATATATGTATATTC
Found at i:8463888 original size:3 final size:3
Alignment explanation
Indices: 8463880--8463908 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8463870 AATATAAATG
8463880 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8463909 TAAACAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8464790 original size:17 final size:17
Alignment explanation
Indices: 8464768--8464801 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8464758 GCGCAAGGCA
*
8464768 TGGCGCTCGTGGAGGAG
1 TGGCGCACGTGGAGGAG
8464785 TGGCGCACGTGGAGGAG
1 TGGCGCACGTGGAGGAG
8464802 GCTGGCTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.53, T:0.15
Consensus pattern (17 bp):
TGGCGCACGTGGAGGAG
Found at i:8465383 original size:44 final size:44
Alignment explanation
Indices: 8465334--8465709 Score: 450
Period size: 44 Copynumber: 8.5 Consensus size: 44
8465324 CAGAGAGATG
* *
8465334 AGATCTGCTGTT-TTTGATCTACTTCACGCCAATACATGAAGGCA
1 AGATCTGCT-TTCTTCGATCTACTTCACGCCAATACATGAAGACA
**
8465378 AGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
* * * *** *
8465422 AGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACA
1 AGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGACA
* *
8465467 AGATATG-TTATCCTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTT-TCTTCGATCTACTTCACGCCAATACATGAAGACA
* * ***
8465511 AGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACATGAAGACA
* *
8465556 AGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGATA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
* * ***
8465600 AGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACATGAAGACA
*
8465645 AGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
*
8465689 AGATCTGTTTTCTTCGATCTA
1 AGATCTGCTTTCTTCGATCTA
8465710 TTCCACTGCC
Statistics
Matches: 278, Mismatches: 48, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.01
44 166 0.60
45 110 0.40
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
Found at i:8465492 original size:89 final size:89
Alignment explanation
Indices: 8465371--8465709 Score: 563
Period size: 89 Copynumber: 3.8 Consensus size: 89
8465361 GCCAATACAT
* ** *
8465371 GAAGGCAAGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
8465436 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCACCACCAGTATGG
* *
8465460 GAAAACAAGATATG-TTATCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTT-TCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
8465524 TCGATCTACTTCACCACCAGTATGG
65 TCGATCTACTTCACCACCAGTATGG
*
8465549 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
8465614 CGATCTACTTCACCACCAGTATGG
66 CGATCTACTTCACCACCAGTATGG
* * *
8465638 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
8465703 CGATCTA
66 CGATCTA
8465710 TTCCACTGCC
Statistics
Matches: 235, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
88 2 0.01
89 231 0.98
90 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (89 bp):
GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCACCACCAGTATGG
Found at i:8466380 original size:133 final size:133
Alignment explanation
Indices: 8465731--8466368 Score: 772
Period size: 133 Copynumber: 4.8 Consensus size: 133
8465721 ACTAGGGAGA
* **
8465731 TAGAATTATTGGCTTCAATATACTCCACTGTAACTTCAGGGAGGTAAAA-TCTGCCATCTTTGAT
1 TAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTC-GCCATCTTTGAT
* * * * *** ** * * *
8465795 CTGCTCCACT-ACTACT-TAGGGATATAAGATCTATAATCTTCAATCTATTCTACTGTTACCCAG
65 CTGCTCCGCTGTCTA-TGCAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCA-
8465858 GGAAA-
128 GGAAAG
* * * *
8465863 TAGAATTATTGGCTTCAATATACTCTACTGTAACCACAAGGAGGTAAAATTCACCATCTTTGATC
1 TAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATC
* * * * * *
8465928 TGCTCCACTACTGCT-TG--GGGAGACAAGATTTGCAATCTTCAATCTATTCCACTGCTGCCTAG
66 TGCTCCGCT-GT-CTATGCAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAG
*
8465990 GGAAG
129 GAAAG
* *
8465995 TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATTCGCCATCTTTGATC
1 TAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATC
* * * *
8466060 TGCTCCGCTGTTTATGCAGGAAGGCAATATCTGCAATATTTAATCTATTCCACTGCTGCCCAGGA
66 TGCTCCGCTGTCTATGCAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGA
8466125 AAG
131 AAG
* *
8466128 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAA-TCTGCCATCTTCGA
1 TAGAATTACTGGCTTCAATATACTCCACTGTAACCACAG-GGAGGTAAAATTC-GCCATCTTTGA
* * * * *
8466191 TCTGCTTCGCTGTCCATGCAGGAAGGCAATATCTGCAATATTTAATCTATTCCACTGCTGCCCAG
64 TCTGCTCCGCTGTCTATGCAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAG
8466256 GAAAG
129 GAAAG
*
8466261 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATC
1 TAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATC
* *
8466326 TGCTCCGCTGTTTATGCAGGAAGGCAAGATCTGCTATCTTCAA
66 TGCTCCGCTGTCTATGCAGGAAGGCAAGATCTGCAATCTTCAA
8466369 CCTGCTGCAC
Statistics
Matches: 445, Mismatches: 48, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
130 1 0.00
131 7 0.02
132 171 0.38
133 261 0.59
134 3 0.01
135 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (133 bp):
TAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATC
TGCTCCGCTGTCTATGCAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGA
AAG
Found at i:8467698 original size:7 final size:7
Alignment explanation
Indices: 8467682--8467722 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
8467672 AGCCTCTCCA
*
8467682 TTTTCTT
1 TTTTCAT
8467689 TTTTCAT
1 TTTTCAT
8467696 TTTTCA-
1 TTTTCAT
8467702 TTTTCAT
1 TTTTCAT
8467709 CTTTTCAT
1 -TTTTCAT
8467717 TTTTCA
1 TTTTCA
8467723 CATCACTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:8467715 original size:21 final size:20
Alignment explanation
Indices: 8467680--8467722 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
8467670 TTAGCCTCTC
*
8467680 CATTTTCTTTTTTCATTTTT
1 CATTTTCTCTTTTCATTTTT
8467700 CATTTTCATCTTTTCATTTTT
1 CATTTTC-TCTTTTCATTTTT
8467721 CA
1 CA
8467723 CATCACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (20 bp):
CATTTTCTCTTTTCATTTTT
Found at i:8467734 original size:21 final size:22
Alignment explanation
Indices: 8467686--8467734 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
8467676 TCTCCATTTT
**
8467686 CTTTTTTCATTTTTCATTTTCA
1 CTTTTTTCATTTTTCATCATCA
*
8467708 -TCTTTTCATTTTTCA-CATCA
1 CTTTTTTCATTTTTCATCATCA
8467728 CTTTTTT
1 CTTTTTT
8467735 TTTCTGGACT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.65
Consensus pattern (22 bp):
CTTTTTTCATTTTTCATCATCA
Found at i:8472557 original size:34 final size:34
Alignment explanation
Indices: 8472502--8472573 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
8472492 TAAAAAAATG
*
8472502 TAAATATATATACTATAAAAATGA-ATGTATATTT
1 TAAATATATATACTATAAAAAT-ATATGTATATTC
8472536 TAAAT-TATAATA-TATAGAAAATATATGTATATTC
1 TAAATATAT-ATACTATA-AAAATATATGTATATTC
8472570 TAAA
1 TAAA
8472574 ATGTACATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (34 bp):
TAAATATATATACTATAAAAATATATGTATATTC
Found at i:8473640 original size:17 final size:17
Alignment explanation
Indices: 8473618--8473651 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8473608 GCGCAAGGCA
*
8473618 TGGCGCTCGTGGAGGAG
1 TGGCGCACGTGGAGGAG
8473635 TGGCGCACGTGGAGGAG
1 TGGCGCACGTGGAGGAG
8473652 GCTGGCTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.53, T:0.15
Consensus pattern (17 bp):
TGGCGCACGTGGAGGAG
Found at i:8478339 original size:44 final size:44
Alignment explanation
Indices: 8478211--8479115 Score: 627
Period size: 44 Copynumber: 19.9 Consensus size: 44
8478201 CACCGTGACG
* * **
8478211 AATCTTATCTCTCTGAAGTTGAAGTGGAAAAGATTAAAG-TCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-ACA
* * * * * *
8478255 AAT-TTCATCTCCCTAAAGTTACAGTGGAGTATATTGAAGATATA
1 AATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
8478299 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
* ** ** *
8478344 AATCTTATTTCCCTGAAGTTGCAGAAGAATAGATAAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT------TA-AAGATACA
* * * * * * *
8478395 AATCTTATATCCCTGAACTGGCAGTGGAGTAGTTTGAATATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * *
8478439 AATTTTATCTCCCAGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
* * ** *
8478484 AATCTTATCTCCCTAAAGTTGTAGTGGAAAAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
* * * * *
8478529 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
** * *
8478573 AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
* * * * * * *
8478618 AATTTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * * *
8478662 AATTTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * **
8478706 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A-T-ACA
* * * **
8478757 AATCCTATGC-CCCTGAA-ATGATAGTGGAAAAGATTAAAG-TCACA
1 AATCTTAT-CTCCCTGAAGTTG-CAGTGGAGCAGATTAAAGAT-ACA
* *
8478801 AAT-TTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * *
8478845 AATCTTAT-TCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC-A
* * * * * *
8478889 GTTGCAAGTCTTACCTCTCTGAAGTTGCAGTGAAGCAAATTGAAGCTACA
1 -----AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * *
8478939 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A--TACA
* * *
8478990 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
8479034 AATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* *
8479078 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
8479116 ACTACAAGTT
Statistics
Matches: 682, Mismatches: 137, Indels: 84
0.76 0.15 0.09
Matches are distributed among these distances:
43 35 0.05
44 354 0.52
45 147 0.22
49 3 0.00
50 9 0.01
51 129 0.19
52 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
Found at i:8479079 original size:139 final size:137
Alignment explanation
Indices: 8478443--8479199 Score: 611
Period size: 139 Copynumber: 5.5 Consensus size: 137
8478433 TATACAAATT
* * * * *
8478443 TTATCTCCCAGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCTCTGAAGTTGTAG
** * * * *
8478508 TGGAAAAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCT---
65 TGGAGCAGATTGAAGCTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
8478570 A-TA-AATC
129 AGTACAATC
* * * * *
8478577 TTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATAGAAAATTTTATCTCTCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCTCTGAAGTTGTAG
* * * * * * * *
8478642 TAGAGCAGATTAAAGCTATAAATTTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAG----AT
65 TGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
*
8478703 GCA-AATC
130 GTACAATC
* * * * * *
8478710 TTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATGC-CCCTGAA
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG---C---T-ACAAATCTTAT-CTCTCTGAA
* ** *
8478774 -ATGATAGTGGAAAAGATTAAAG-TCACAAAT-TTCATCTCCCTGAAGTTGCAGTGGAGCAGATT
58 GTTG-TAGTGGAGCAGATTGAAGCT-ACAAATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATT
*
8478836 GAAGCTAC----A-AATC
120 AAAGCTACAAGTACAATC
* * *
8478849 TTAT-TCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTGCAAGTCTTACCTCTCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAC-A-----AA-TCTTATCTCTCTGAAG
* * * * * *
8478913 TTGCAGTGAAGCAAATTGAAGCTACAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAG
59 TTGTAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
8478978 CTACAAGTTACAAGTC
124 CTACAAG-TACAA-TC
* **
8478994 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTACAGT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGTAGT
* * *
8479059 GGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAG
66 GGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
8479124 TTACGAATC
131 -TAC-AATC
* * * * * * *
8479133 TTATCTCCCTAAAGTAGCAGTGGAGCAGATTGAAGCGACAAACCCTATAC-CTCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTAT-CTCTCTGAAGTTGTAG
8479197 TGG
65 TGG
8479200 GTTAGAATAA
Statistics
Matches: 515, Mismatches: 70, Indels: 71
0.79 0.11 0.11
Matches are distributed among these distances:
131 2 0.00
132 2 0.00
133 71 0.14
134 72 0.14
135 1 0.00
137 3 0.01
138 93 0.18
139 223 0.43
140 7 0.01
143 1 0.00
144 2 0.00
145 7 0.01
146 31 0.06
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (137 bp):
TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGTAGT
GGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
TACAATC
Found at i:8479121 original size:44 final size:44
Alignment explanation
Indices: 8478986--8479174 Score: 225
Period size: 44 Copynumber: 4.1 Consensus size: 44
8478976 AGCTACAAGT
*
8478986 TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* *
8479030 TACAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * *
8479074 TACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAAC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* *
8479118 TACAAGTTACGAATCTTATCTCCCTAAAGTAGCAGTGGAGCAGATTGAAGC
1 TAC-----A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
*
8479169 GACAAA
1 TACAAA
8479175 CCCTATACCT
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
44 84 0.69
46 1 0.01
49 1 0.01
51 36 0.30
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:8479168 original size:95 final size:89
Alignment explanation
Indices: 8478211--8479167 Score: 655
Period size: 95 Copynumber: 10.4 Consensus size: 89
8478201 CACCGTGACG
* * * * *
8478211 AATCTTATCTCTCTGAAGTTGAAGTGGAAAAGATTAAAG-TCACAAAT-TTCATCTCCCTAAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAT-ACAAATCTT-ATCTCCCTGAAGT
* * * * * *
8478274 TACAGTGGAGTATATTGAAGATA-TA
64 TGCAGTGGAGCAGATTAAAGCTACAA
* * * * * * *
8478299 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
** ** *
8478364 GCAGAAGAATAGATAAAAGCTACAAGTTACA
65 GCAGTGGAGCAGATTAAAGCTAC-----A-A
* * * ** * * * *
8478395 AATCTTATATCCCTGAACTGGCAGTGGAGTAGTTTGAATATACAAATTTTATCTCCCAGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* *
8478460 CAGTGGAGCAGATTGAAGATAGC-A
66 CAGTGGAGCAGATTAAAGCTA-CAA
* * * * *
8478484 AATCTTATCTCCCTAAAGTTGTAGTGGAAAAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* *
8478549 GCAGTAGAGCAGATTAAAGCTA-TA
65 GCAGTGGAGCAGATTAAAGCTACAA
* * * * *
8478573 AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATAGAAAATTTTATCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * *
8478638 GTAGTAGAGCAGATTAAAGCTA-TA
65 GCAGTGGAGCAGATTAAAGCTACAA
* * * * * *
8478662 AATTTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATGCAAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* **
8478727 TAGTGGAATAGATTAAAGCTACAAGTCACA
66 CAGTGGAGCAGATTAAAGCT---A--CA-A
* * * * *
8478757 AATCCTATGC-CCCTGAA-ATGATAGTGGAAAAGATTAAAG-TCACAAAT-TTCATCTCCCTGAA
1 AATCTTAT-CTCCCTGAAGTTG-CAGTGGAACAGATTGAAGAT-ACAAATCTT-ATCTCCCTGAA
*
8478818 GTTGCAGTGGAGCAGATTGAAGCTAC-A
62 GTTGCAGTGGAGCAGATTAAAGCTACAA
* * * * *
8478845 AATCTTAT-TCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTGCAAGTCTTACCTCTCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAC-A-----AA-TCTTATCTCCCT
* * *
8478909 GAAGTTGCAGTGAAGCAAATTGAAGCTAC-A
59 GAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * *
8478939 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAGTCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT---G----AAGATACAAATCTTATCTCCCT
*
8479004 GAAGTTGCAGTGGAGCAGATTGAAGCTAC-A
59 GAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * * *
8479034 AATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* *
8479099 CAGTGGAACAGATTAAAACTACAAGTTA
66 CAGTGGAGCAGATTAAAGCTAC-A---A
* * *
8479127 CGAATCTTATCTCCCTAAAGTAGCAGTGGAGCAGATTGAAG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
8479168 CGACAAACCC
Statistics
Matches: 696, Mismatches: 123, Indels: 93
0.76 0.13 0.10
Matches are distributed among these distances:
87 24 0.03
88 126 0.18
89 186 0.27
90 40 0.06
91 1 0.00
92 2 0.00
93 3 0.00
94 48 0.07
95 223 0.32
96 36 0.05
101 1 0.00
102 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAGCTACAA
Found at i:8483838 original size:4 final size:4
Alignment explanation
Indices: 8483801--8483827 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8483791 ATTTAATTCT
8483801 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
8483828 GCCTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:8483886 original size:13 final size:13
Alignment explanation
Indices: 8483868--8483892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8483858 CATTCAAATT
8483868 TTTTATTTTTTTA
1 TTTTATTTTTTTA
8483881 TTTTATTTTTTT
1 TTTTATTTTTTT
8483893 CTTTCGGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:8490773 original size:13 final size:13
Alignment explanation
Indices: 8490755--8490780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8490745 ATGGTGATCC
8490755 AATCACACCTAAG
1 AATCACACCTAAG
8490768 AATCACACCTAAG
1 AATCACACCTAAG
8490781 TAAAAAAAAG
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:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (13 bp):
AATCACACCTAAG
Found at i:8493505 original size:21 final size:21
Alignment explanation
Indices: 8493479--8493519 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8493469 ATCTGCTCAA
* *
8493479 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8493500 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8493520 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:8501567 original size:21 final size:21
Alignment explanation
Indices: 8501462--8501587 Score: 114
Period size: 21 Copynumber: 6.1 Consensus size: 21
8501452 TTTTACTTTT
* *
8501462 TGTTTAGCTCTTTCGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
*
8501483 CGTTCAGCT-TTCACGAGCTTC
1 TGTTCAGCTCTT-ACGAGCTTC
* * * *
8501504 TGTTAAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTC
* **
8501525 TGTTTAGCTCTTACGAATTTC
1 TGTTCAGCTCTTACGAGCTTC
*
8501546 TGTTCAGCTCTTACAAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
*
8501567 TGTTCAACT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
8501586 TG
1 TG
8501588 ATTGGCGTAT
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
19 9 0.11
20 4 0.05
21 70 0.82
22 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:8501865 original size:10 final size:8
Alignment explanation
Indices: 8501850--8501876 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8501840 TGATGGCACA
8501850 TGATATAT
1 TGATATAT
8501858 TGATATAT
1 TGATATAT
8501866 TGATATAT
1 TGATATAT
8501874 TGA
1 TGA
8501877 AATGGATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (8 bp):
TGATATAT
Found at i:8503792 original size:22 final size:22
Alignment explanation
Indices: 8503746--8503792 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8503736 TCTCCAATTA
*
8503746 TTAGCACATTAGTACTCTCCGT
1 TTAGCACATTAGTACTCTCCAT
* * *
8503768 TTAGCACATTCGTGCTCTCTAT
1 TTAGCACATTAGTACTCTCCAT
8503790 TTA
1 TTA
8503793 ATAATGCATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (22 bp):
TTAGCACATTAGTACTCTCCAT
Found at i:8509995 original size:44 final size:44
Alignment explanation
Indices: 8509936--8510027 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
8509926 AGAATTATGC
8509936 ACTAAAGTTAGTAAATTATAACTCTCTTTTGGAGAGTTATCACT
1 ACTAAAGTTAGTAAATTATAACTCTCTTTTGGAGAGTTATCACT
*
8509980 ACTAAAGTTAGTAAATTATAACTCTCTTTTGGAGAGTTGTCACT
1 ACTAAAGTTAGTAAATTATAACTCTCTTTTGGAGAGTTATCACT
8510024 ACTA
1 ACTA
8510028 CTTTAGTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (44 bp):
ACTAAAGTTAGTAAATTATAACTCTCTTTTGGAGAGTTATCACT
Found at i:8514270 original size:28 final size:28
Alignment explanation
Indices: 8514238--8514293 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
8514228 TCTCTTGACT
*
8514238 GTTCTTATGAACAAAGTTGACTGCAAAA
1 GTTCTTATGAACAAAGTTAACTGCAAAA
8514266 GTTCTTATGAACAAAGTTAACTGCAAAA
1 GTTCTTATGAACAAAGTTAACTGCAAAA
8514294 AGTTATCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (28 bp):
GTTCTTATGAACAAAGTTAACTGCAAAA
Found at i:8516460 original size:21 final size:20
Alignment explanation
Indices: 8516436--8516482 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
8516426 AAATTAAATT
8516436 TTAAAATTTGAAATATAAAAA
1 TTAAAATTTGAAA-ATAAAAA
*
8516457 TTAAAAATTTTAAAATAAAAA
1 TT-AAAATTTGAAAATAAAAA
8516478 -TAAAA
1 TTAAAA
8516483 AAAGGAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 9 0.38
22 10 0.42
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAATTTGAAAATAAAAA
Found at i:8516483 original size:21 final size:22
Alignment explanation
Indices: 8516438--8516484 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
8516428 ATTAAATTTT
*
8516438 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAATATAAAAATAA
*
8516460 AAAATTTTAAA-ATAAAAATAA
1 AAAATTTGAAATATAAAAATAA
8516481 AAAA
1 AAAA
8516485 AGGAGGGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAATTTGAAATATAAAAATAA
Found at i:8519700 original size:41 final size:41
Alignment explanation
Indices: 8519655--8519734 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
8519645 TATTTGTTTC
*
8519655 CTATTACCTCAACTGATATTT-TGATGAGTCATATTTATTGT
1 CTATTACCTCAACCGAT-TTTGTGATGAGTCATATTTATTGT
* **
8519696 CTATTATCTCAACCGATTTTGTGATGAGTTGTATTTATT
1 CTATTACCTCAACCGATTTTGTGATGAGTCATATTTATT
8519735 ACATCTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.09
41 31 0.91
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (41 bp):
CTATTACCTCAACCGATTTTGTGATGAGTCATATTTATTGT
Found at i:8529610 original size:16 final size:16
Alignment explanation
Indices: 8529589--8529631 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
8529579 GTGAAATTTA
8529589 AATATTTTATTAAAAT
1 AATATTTTATTAAAAT
*
8529605 AATATTTTAATTAATAT
1 AATATTTT-ATTAAAAT
*
8529622 CAT-TTTTATT
1 AATATTTTATT
8529632 TAATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 9 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:8530250 original size:13 final size:13
Alignment explanation
Indices: 8530232--8530287 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
8530222 CCCATCCACC
8530232 AAAAGAGAGAAAG
1 AAAAGAGAGAAAG
8530245 AAAAGAGAGAAAGG
1 AAAAGAGAGAAA-G
* * *
8530259 AGAAGAAAAAAAG
1 AAAAGAGAGAAAG
8530272 AAGAAGA-AGAAAG
1 AA-AAGAGAGAAAG
8530285 AAA
1 AAA
8530288 GAAAAAGGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 21 0.58
14 14 0.39
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AAAAGAGAGAAAG
Found at i:8530536 original size:60 final size:60
Alignment explanation
Indices: 8530457--8530575 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
8530447 TTGCTTTTTA
* * *
8530457 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
8530517 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
8530576 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:8531167 original size:21 final size:22
Alignment explanation
Indices: 8531129--8531169 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8531119 TTGACAAATG
* *
8531129 TTTTTATTAAAATTATTTAAAA
1 TTTTAATTAAAATAATTTAAAA
8531151 TTTTAATTAAAA-AATTTAA
1 TTTTAATTAAAATAATTTAA
8531170 CACCCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAATTAAAATAATTTAAAA
Found at i:8532258 original size:5 final size:5
Alignment explanation
Indices: 8532248--8532290 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
8532238 AATTATGTTT
8532248 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTAT
8532291 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 26 0.74
6 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:8541253 original size:24 final size:23
Alignment explanation
Indices: 8541226--8541280 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 23
8541216 TAATGGCAAA
*
8541226 AAATATATATAACTT-TTTTTATAT
1 AAATATA-ATAAATTATTTTT-TAT
8541250 AAATA-AATAAATTATTTTTTAT
1 AAATATAATAAATTATTTTTTAT
8541272 AACATATAA
1 AA-ATATAA
8541281 CATCGTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 7 0.26
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATATAATAAATTATTTTTTAT
Found at i:8543339 original size:40 final size:41
Alignment explanation
Indices: 8543283--8543519 Score: 189
Period size: 41 Copynumber: 5.8 Consensus size: 41
8543273 TCTTTTAAAC
* *
8543283 CTTTAGCGGCGCTTTTATCTAAGCG-CGCTAATACTTGGGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGGGT
*
8543323 CTTTAGCGGCGTTTTTATCTGAA-CGCCGCTAATGCTCT-GGC
1 CTTTAGCGGCGTTTTTATCT-AAGCGCCGCTAATGCT-TGGGT
* * * *
8543364 CTTTGGCGGCGTTTTTATATAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGGGT
* * * * *
8543405 CTTTAGCGGCGTTTTTAACTGAGCGCCACTAATTCTCT-TGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-TGGGT
* * * * * ****
8543446 CTTCAACGGCGTTTGTAGCTAAGCGCCACTAATG-TATTTAC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-TGGGT
*
8543487 CTTTAGCGGCGTTTTTGT-TGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTATCT-AAGCGCCGCTAAT
8543520 AGTAACAAAA
Statistics
Matches: 157, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
40 26 0.17
41 130 0.83
42 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGGGT
Found at i:8543420 original size:82 final size:81
Alignment explanation
Indices: 8543282--8543442 Score: 223
Period size: 82 Copynumber: 2.0 Consensus size: 81
8543272 ATCTTTTAAA
* * * *
8543282 CCTTTAGCGGCGCTTTTATCTAAGCGCGCTAATACTTGGGTCTTTAGCGGCGTTTTTATCTGAAC
1 CCTTTAGCGGCGCTTTTATATAAGCGCGCTAATACTCGGATCTTTAGCGGCGTTTTTAACTGAAC
*
8543347 GCCGCTAATGCTCTGG
66 GCCACTAATGCTCTGG
* * * *
8543363 CCTTTGGCGGCGTTTTTATATAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAACTGAG
1 CCTTTAGCGGCGCTTTTATATAAGCG-CGCTAATACTCGGATCTTTAGCGGCGTTTTTAACTGAA
*
8543428 CGCCACTAATTCTCT
65 CGCCACTAATGCTCT
8543443 TGTCTTCAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
81 23 0.33
82 46 0.67
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.35
Consensus pattern (81 bp):
CCTTTAGCGGCGCTTTTATATAAGCGCGCTAATACTCGGATCTTTAGCGGCGTTTTTAACTGAAC
GCCACTAATGCTCTGG
Found at i:8543456 original size:82 final size:82
Alignment explanation
Indices: 8543289--8543479 Score: 222
Period size: 82 Copynumber: 2.3 Consensus size: 82
8543279 AAACCTTTAG
* * * * * *
8543289 CGGCGCTTTTATCTAAGCG-CGCTAATACTTGGGTCTTTAGCGGCGTTTTTATCTGAACGCCGCT
1 CGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAACTGAACGCCACT
***
8543353 AATGCTCTGGCCTTTGG
66 AATGCTCTGGCCTTCAA
* *
8543370 CGGCGTTTTTATATAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAACTGAGCGCCACT
1 CGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAACTGAACGCCACT
* * *
8543435 AATTCTCTTGTCTTCAA
66 AATGCTCTGGCCTTCAA
* * *
8543452 CGGCGTTTGTAGCTAAGCGCCACTAATG
1 CGGCGTTTTTATCTAAGCGCCGCTAATG
8543480 TATTTACCTT
Statistics
Matches: 91, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 17 0.19
82 74 0.81
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (82 bp):
CGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAACTGAACGCCACT
AATGCTCTGGCCTTCAA
Found at i:8551233 original size:66 final size:65
Alignment explanation
Indices: 8551126--8551290 Score: 215
Period size: 66 Copynumber: 2.5 Consensus size: 65
8551116 GAGCAAATTA
* * * *
8551126 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
8551190 G
65 G
* *
8551191 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
8551256 G
65 G
* * *
8551257 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
8551291 TAGAGGCGGC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 81 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:8551367 original size:21 final size:21
Alignment explanation
Indices: 8551278--8551379 Score: 105
Period size: 21 Copynumber: 4.9 Consensus size: 21
8551268 AGCAGATGCG
* * *
8551278 GCAGCAAGAGAAGTAGAGGCG
1 GCAGCGAGGGAAGTAGAGGCT
* * *
8551299 GCAGCGAGAGAAGTACAGGTT
1 GCAGCGAGGGAAGTAGAGGCT
* *
8551320 GCAGCAAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
**
8551341 ATAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
*
8551362 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGTAGAG
8551380 CAGCGTCAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.34, C:0.15, G:0.43, T:0.08
Consensus pattern (21 bp):
GCAGCGAGGGAAGTAGAGGCT
Found at i:8551776 original size:43 final size:43
Alignment explanation
Indices: 8551729--8551893 Score: 206
Period size: 43 Copynumber: 3.8 Consensus size: 43
8551719 AGGTGTTGGC
* * * *
8551729 CTTTAGTGGCGTTTTTGGTAAAAGCGCCGCTAAATATAAGGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
* * * *
8551772 CTTTAGCGGCATTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
** *
8551815 CTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTAGAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
*
8551858 CTTTTGCGGCGTTTGTAGG-AAAAGCGCCGCTAAAGA
1 CTTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGA
8551894 CCCTAATCTT
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 100 0.98
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
Found at i:8551840 original size:86 final size:87
Alignment explanation
Indices: 8551704--8551916 Score: 232
Period size: 86 Copynumber: 2.5 Consensus size: 87
8551694 GCGTTTTTCA
* * ** * * * *
8551704 AAAAAACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTAAAAGCGCCGCTAAATATAAG
1 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAG
8551769 GGTCTTTAGCGGCATTTGT-GG
66 GGTCTTTAGCGGCATTTGTAGG
** * *
8551790 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTAGAGATCAG
1 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAG
* *
8551855 GGTCTTTTGCGGCGTTTGTAGG
66 GGTCTTTAGCGGCATTTGTAGG
* * * ** *
8551877 -AAAAGCGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTGT
1 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGT
8551917 CGCAAAAATG
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
86 104 0.98
87 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (87 bp):
AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAG
GGTCTTTAGCGGCATTTGTAGG
Found at i:8551904 original size:43 final size:43
Alignment explanation
Indices: 8551857--8552000 Score: 189
Period size: 43 Copynumber: 3.3 Consensus size: 43
8551847 GAGATCAGGG
* * * * *
8551857 TCTTTTGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGACCCTAA
1 TCTTTAGCGGCGCTTGTAGCAAAAACGCCGCTAAAGACCCTGA
* * *
8551900 TCTTTAGCGGCGCTTGTCGCAAAAATGCCACTAAAGACCCTGA
1 TCTTTAGCGGCGCTTGTAGCAAAAACGCCGCTAAAGACCCTGA
* * *
8551943 TCTTTAGCAGCGCTTCTAGCAAAAACGCTGCTAAAGACCCTGA
1 TCTTTAGCGGCGCTTGTAGCAAAAACGCCGCTAAAGACCCTGA
8551986 TCTTTAGCGGCGCTT
1 TCTTTAGCGGCGCTT
8552001 CCACTAAAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTGTAGCAAAAACGCCGCTAAAGACCCTGA
Found at i:8552001 original size:43 final size:43
Alignment explanation
Indices: 8551857--8552020 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
8551847 GAGATCAGGG
* * * * * *
8551857 TCTTTTGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGACCCTAA
1 TCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGACCCTGA
* * * *
8551900 TCTTTAGCGGCGCTTGTCGCAAAAATGCCACTAAAGACCCTGA
1 TCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGACCCTGA
* *
8551943 TCTTTAGCAGCGCTTCTAGCAAAAACGCTGCTAAAGACCCTGA
1 TCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGACCCTGA
* * *
8551986 TCTTTAGCGGCGCTTCCA-CTAAAGCGCCGCTAAAG
1 TCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAG
8552021 GTCTTAGGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
42 14 0.14
43 88 0.86
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGACCCTGA
Found at i:8554484 original size:22 final size:24
Alignment explanation
Indices: 8554446--8554490 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
8554436 AATGCAATAT
8554446 TGTTGAAAAATCAAATAA-AAAAG
1 TGTTGAAAAATCAAATAACAAAAG
8554469 TGTTG-AAAA-CACAATAACAAAA
1 TGTTGAAAAATCA-AATAACAAAA
8554491 AAACATAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 9 0.45
23 9 0.45
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (24 bp):
TGTTGAAAAATCAAATAACAAAAG
Found at i:8556107 original size:20 final size:21
Alignment explanation
Indices: 8556078--8556129 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8556068 TAAATTTAAC
* *
8556078 TTTTTTAAAATTTTA-TAAAA
1 TTTTTAAAAATTATATTAAAA
*
8556098 TTTTTAAAAAATATATTAAAA
1 TTTTTAAAAATTATATTAAAA
*
8556119 TTTATAAAAAT
1 TTTTTAAAAAT
8556130 ATTAAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTAAAAATTATATTAAAA
Found at i:8556108 original size:21 final size:21
Alignment explanation
Indices: 8556084--8556142 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
8556074 TAACTTTTTT
* *
8556084 AAAATTTTATAAAATTTTTAA
1 AAAATTATATAAAATTTATAA
8556105 AAAA-TATATTAAAATTTATAA
1 AAAATTATA-TAAAATTTATAA
*
8556126 AAATATTAAATAAAATT
1 AAA-ATTATATAAAATT
8556143 CAACAAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 8 0.25
23 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATTATATAAAATTTATAA
Found at i:8556131 original size:18 final size:19
Alignment explanation
Indices: 8556100--8556135 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8556090 TTATAAAATT
8556100 TTTAAAAAATATATTAAAA
1 TTTAAAAAATATATTAAAA
*
8556119 TTTATAAAA-ATATTAAA
1 TTTAAAAAATATATTAAA
8556136 TAAAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATATTAAAA
Found at i:8556851 original size:21 final size:21
Alignment explanation
Indices: 8556806--8556856 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
8556796 GTTTTGAACT
* * *
8556806 TTTTGAATAATATTTTTATACA
1 TTTT-AATAATATTTCTACAAA
8556828 TTTTAATAATATTTCTACAAA
1 TTTTAATAATATTTCTACAAA
8556849 TTTATAAT
1 TTT-TAAT
8556857 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTAATAATATTTCTACAAA
Found at i:8562173 original size:21 final size:22
Alignment explanation
Indices: 8562137--8562178 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8562127 AATTATGTCT
* *
8562137 CTATGAAAAGACATGAGACTTA
1 CTATAAAAAGACATGAAACTTA
8562159 CTATAAAAAGA-ATGAAACTT
1 CTATAAAAAGACATGAAACTT
8562179 TATTTGTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (22 bp):
CTATAAAAAGACATGAAACTTA
Found at i:8566868 original size:35 final size:34
Alignment explanation
Indices: 8566814--8566892 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 34
8566804 ATATATGTAA
* *
8566814 ATATATATATGTATATGTATATAAATTGTAAAAT
1 ATATAAATATGTATATGTATATAAATTATAAAAT
*
8566848 ATATAAATGATGTATGTGTATATAAATTATAAAAT
1 ATATAAAT-ATGTATATGTATATAAATTATAAAAT
* *
8566883 AAAAAAATAT
1 ATATAAATAT
8566893 ATAAAAAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 9 0.23
35 30 0.77
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (34 bp):
ATATAAATATGTATATGTATATAAATTATAAAAT
Found at i:8567087 original size:24 final size:23
Alignment explanation
Indices: 8567058--8567124 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
8567048 AATATGTATG
8567058 GGTATGTATGTAAATATATATAAA
1 GGTATGTAT-TAAATATATATAAA
* * *
8567082 GTTATGAAATAAAATATATATAAA
1 GGTATG-TATTAAATATATATAAA
* *
8567106 GGTAGGTA-TATATATATAT
1 GGTATGTATTAAATATATAT
8567125 TTATAAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 9 0.26
23 1 0.03
24 22 0.65
25 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (23 bp):
GGTATGTATTAAATATATATAAA
Found at i:8567242 original size:3 final size:3
Alignment explanation
Indices: 8567234--8567259 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8567224 AAATATTTGG
8567234 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
8567260 CAATATTAGT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8575210 original size:3 final size:3
Alignment explanation
Indices: 8575204--8575232 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8575194 CCTGACTGTC
8575204 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
8575233 ACAAGCTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:8578384 original size:62 final size:63
Alignment explanation
Indices: 8578300--8578418 Score: 204
Period size: 62 Copynumber: 1.9 Consensus size: 63
8578290 GAGAGAGTAC
*
8578300 AAATTAATTTATTAGGGAACATTCAATGAGTATATTTTGTTAAACC-TTTGAGAGTTTTGATT
1 AAATTAATTTACTAGGGAACATTCAATGAGTATATTTTGTTAAACCTTTTGAGAGTTTTGATT
* *
8578362 AAATTAATTTACTAGGTAACATTCAATGAGTGTATTTTGTTAAACCTTTTGAGAGTT
1 AAATTAATTTACTAGGGAACATTCAATGAGTATATTTTGTTAAACCTTTTGAGAGTT
8578419 GTAGAGATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
62 43 0.81
63 10 0.19
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (63 bp):
AAATTAATTTACTAGGGAACATTCAATGAGTATATTTTGTTAAACCTTTTGAGAGTTTTGATT
Found at i:8586735 original size:16 final size:16
Alignment explanation
Indices: 8586716--8586749 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8586706 TGAATATTTA
8586716 ATCATCTACATATTAT
1 ATCATCTACATATTAT
* *
8586732 ATCATTTACTTATTAT
1 ATCATCTACATATTAT
8586748 AT
1 AT
8586750 TTATATTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (16 bp):
ATCATCTACATATTAT
Found at i:8591457 original size:18 final size:20
Alignment explanation
Indices: 8591426--8591466 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
8591416 TAAATTAATT
*
8591426 AAAGTATAAGAAAATTCTAA
1 AAAGTATAAGAAAATTCCAA
8591446 AAAGT-TAA-AAAATTCCAA
1 AAAGTATAAGAAAATTCCAA
8591464 AAA
1 AAA
8591467 CTTTAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 3 0.15
20 5 0.25
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAGTATAAGAAAATTCCAA
Found at i:8591474 original size:18 final size:18
Alignment explanation
Indices: 8591436--8591474 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8591426 AAAGTATAAG
* *
8591436 AAAATTCTAAAAAGTTAA
1 AAAATTCCAAAAACTTAA
8591454 AAAATTCCAAAAACTTTAA
1 AAAATTCCAAAAAC-TTAA
8591473 AA
1 AA
8591475 GATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATTCCAAAAACTTAA
Found at i:8602064 original size:13 final size:13
Alignment explanation
Indices: 8602046--8602070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8602036 ATAATTTACA
8602046 AAAATTAAATAAT
1 AAAATTAAATAAT
8602059 AAAATTAAATAA
1 AAAATTAAATAA
8602071 ATTAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAATAAT
Found at i:8605762 original size:18 final size:20
Alignment explanation
Indices: 8605725--8605764 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8605715 AGTAGTTAAC
*
8605725 ATAAATATATTTTTTATTTA
1 ATAAATATATTTTATATTTA
8605745 ATAAATAT-TTTTAT-TTTA
1 ATAAATATATTTTATATTTA
8605763 AT
1 AT
8605765 TATTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAAATATATTTTATATTTA
Found at i:8607288 original size:84 final size:84
Alignment explanation
Indices: 8607190--8607361 Score: 308
Period size: 84 Copynumber: 2.0 Consensus size: 84
8607180 AAATAAGAAA
*
8607190 ATTTGATTATATAGAAAGTCTTAAAAGGATCACTACTTGACTTGATTTTATTTACGTTTTGACTT
1 ATTTGATTACATAGAAAGTCTTAAAAGGATCACTACTTGACTTGATTTTATTTACGTTTTGACTT
8607255 TAATAAAGTGTTTCAAGAT
66 TAATAAAGTGTTTCAAGAT
* *
8607274 ATTTGATTACATAGAAAGTCTTAAAAGGATCATTACTTGACTTGATTTTCTTTACGTTTTGACTT
1 ATTTGATTACATAGAAAGTCTTAAAAGGATCACTACTTGACTTGATTTTATTTACGTTTTGACTT
*
8607339 TAATAAAGTGTTTCAAGGT
66 TAATAAAGTGTTTCAAGAT
8607358 ATTT
1 ATTT
8607362 AATCAAAAGA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (84 bp):
ATTTGATTACATAGAAAGTCTTAAAAGGATCACTACTTGACTTGATTTTATTTACGTTTTGACTT
TAATAAAGTGTTTCAAGAT
Found at i:8611241 original size:15 final size:17
Alignment explanation
Indices: 8611210--8611242 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
8611200 TAAAAATTTC
8611210 AGCACATAATAATAATA
1 AGCACATAATAATAATA
8611227 AGCACA-AAT-ATAATA
1 AGCACATAATAATAATA
8611242 A
1 A
8611243 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
AGCACATAATAATAATA
Found at i:8611831 original size:21 final size:23
Alignment explanation
Indices: 8611805--8611850 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
8611795 AGAAAAAAAT
*
8611805 AAAAATCATTAA-AA-TTATAAA
1 AAAAATCATAAAGAATTTATAAA
*
8611826 AAAAATCGTAAAGAATTTATAAA
1 AAAAATCATAAAGAATTTATAAA
8611849 AA
1 AA
8611851 TTGTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAATCATAAAGAATTTATAAA
Found at i:8611837 original size:20 final size:20
Alignment explanation
Indices: 8611814--8611864 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
8611804 TAAAAATCAT
8611814 TAAAATTATAAAAAAAATCG
1 TAAAATTATAAAAAAAATCG
* *
8611834 TAAAGAATT-T-ATAAAAATTG
1 T-AA-AATTATAAAAAAAATCG
8611854 TAAAATTATAA
1 TAAAATTATAA
8611865 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 11 0.44
21 3 0.12
22 4 0.16
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (20 bp):
TAAAATTATAAAAAAAATCG
Found at i:8616030 original size:15 final size:15
Alignment explanation
Indices: 8616007--8616046 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
8615997 AAGATTTAAT
8616007 TAAAATTAAAAAATA
1 TAAAATTAAAAAATA
*
8616022 TATAATT--AAAATA
1 TAAAATTAAAAAATA
8616035 TAAAATTAAAAA
1 TAAAATTAAAAA
8616047 GAATGGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAATTAAAAAATA
Found at i:8620719 original size:23 final size:22
Alignment explanation
Indices: 8620668--8620719 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
8620658 CCTCGTCTTT
*
8620668 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
8620690 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
8620713 TTCTTTT
1 TTCTTTT
8620720 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:8626970 original size:18 final size:18
Alignment explanation
Indices: 8626943--8627035 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
8626933 TACGACCGTT
8626943 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8626961 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8626979 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8626997 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8627015 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
8627033 TAC
1 TAC
8627036 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:8633902 original size:32 final size:32
Alignment explanation
Indices: 8633861--8633927 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
8633851 GTCGGTACCT
8633861 AAAGCACTCAAGCAAATGCTTCACCTGAACGG
1 AAAGCACTCAAGCAAATGCTTCACCTGAACGG
8633893 AAAGCACTCAAGCAAATGCTTCACCTGAACGG
1 AAAGCACTCAAGCAAATGCTTCACCTGAACGG
8633925 AAA
1 AAA
8633928 AAGGTTGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.40, C:0.27, G:0.18, T:0.15
Consensus pattern (32 bp):
AAAGCACTCAAGCAAATGCTTCACCTGAACGG
Found at i:8635200 original size:11 final size:11
Alignment explanation
Indices: 8635184--8635214 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8635174 ATACCCATAC
8635184 CCCATACCTTG
1 CCCATACCTTG
*
8635195 CCCATACCTTT
1 CCCATACCTTG
8635206 CCCATACCT
1 CCCATACCT
8635215 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8635788 original size:18 final size:18
Alignment explanation
Indices: 8635761--8635853 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
8635751 TACGACCGTT
8635761 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8635779 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8635797 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8635815 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8635833 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
8635851 TAC
1 TAC
8635854 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:8639923 original size:11 final size:11
Alignment explanation
Indices: 8639907--8639937 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8639897 ATACCCATAC
8639907 CCCATACCTTG
1 CCCATACCTTG
*
8639918 CCCATACCTTT
1 CCCATACCTTG
8639929 CCCATACCT
1 CCCATACCT
8639938 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8650291 original size:17 final size:17
Alignment explanation
Indices: 8650269--8650305 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8650259 AAAGATTTGA
8650269 TTTTTCTTTTCT-TTTCC
1 TTTTTCTTTT-TATTTCC
8650286 TTTTTCTTTTTATTTCC
1 TTTTTCTTTTTATTTCC
8650303 TTT
1 TTT
8650306 GAAGTGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTTTATTTCC
Found at i:8653235 original size:41 final size:41
Alignment explanation
Indices: 8653185--8653264 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
8653175 CCTCATTGGA
* * *
8653185 TAATTCGAAGT-GATAATTTGACACCCAGTGTCTCATCGAAT
1 TAATCCGAAGTAG-TAAATTGACACCCAATGTCTCATCGAAT
*
8653226 TAATCCGAAGTAGTAAATTGACACCTAATGTCTCATCGA
1 TAATCCGAAGTAGTAAATTGACACCCAATGTCTCATCGA
8653265 CTCGAAGTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (41 bp):
TAATCCGAAGTAGTAAATTGACACCCAATGTCTCATCGAAT
Found at i:8654122 original size:6 final size:6
Alignment explanation
Indices: 8654113--8654195 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
8654103 CTTTCTTTCC
* * *
8654113 CTTTTT CTTTTT C-TTTC CTCTTT C-TTTT CTGTTT CGTTTTT GCTTTGTCT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT -CTTT-T-T
* * * *
8654163 CTTTTT CTATTT CTTTAT CTTTAT CTTTAT CTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTT
8654196 ATTTATTCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.13
6 39 0.63
7 8 0.13
8 6 0.10
9 1 0.02
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:8654138 original size:17 final size:18
Alignment explanation
Indices: 8654104--8654140 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8654094 TTCTCCTTTC
*
8654104 TTTCTTTCCCTTTTTCTT
1 TTTCTTTCCCTCTTTCTT
8654122 TTTCTTT-CCTCTTTCTT
1 TTTCTTTCCCTCTTTCTT
8654139 TT
1 TT
8654141 CTGTTTCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTCTTTCCCTCTTTCTT
Found at i:8654236 original size:5 final size:5
Alignment explanation
Indices: 8654226--8654263 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
8654216 TTTGTTTTAT
8654226 TATAA TATAA TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
8654264 CTTAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:8654295 original size:10 final size:10
Alignment explanation
Indices: 8654223--8654296 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
8654213 TTATTTGTTT
8654223 TATTATAATA
1 TATTATAATA
*
8654233 TAATATAATA
1 TATTATAATA
*
8654243 TAATATAATA
1 TATTATAATA
*
8654253 TAATAT-ATA
1 TATTATAATA
*
8654262 TACT-TAAT-
1 TATTATAATA
8654270 TATTAAAGTAAATA
1 TATT--A-T-AATA
8654284 TATTATAATA
1 TATTATAATA
8654294 TAT
1 TAT
8654297 ATTTTCCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
8 4 0.07
9 8 0.15
10 32 0.59
11 1 0.02
12 2 0.04
13 3 0.06
14 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (10 bp):
TATTATAATA
Found at i:8654859 original size:12 final size:12
Alignment explanation
Indices: 8654844--8654926 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 12
8654834 CTTTCTTTCC
8654844 CTTTTTCTTTTT
1 CTTTTTCTTTTT
*
8654856 C-TTTCCTTTTT
1 CTTTTTCTTTTT
*
8654867 C-TTTTCTGTTT
1 CTTTTTCTTTTT
8654878 CGTTTTTGCTTTGTCT
1 C-TTTTT-CTTT-T-T
*
8654894 CTTTTTCTATTT
1 CTTTTTCTTTTT
* *
8654906 ATTTTTCTTTAT
1 CTTTTTCTTTTT
8654918 CTTTTTCTT
1 CTTTTTCTT
8654927 ATTTATTCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
11 19 0.33
12 19 0.33
13 5 0.09
14 6 0.11
15 6 0.11
16 2 0.04
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:8654871 original size:5 final size:6
Alignment explanation
Indices: 8654844--8654926 Score: 71
Period size: 6 Copynumber: 13.5 Consensus size: 6
8654834 CTTTCTTTCC
* *
8654844 CTTTTT CTTTTT C-TTTC CTTTTT C-TTTT CTGTTT CGTTTTT GCTTTGTCT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT -CTTT-T-T
* * *
8654894 CTTTTT CTATTT ATTTTT CTTTAT CTTTTT CTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTT
8654927 ATTTATTCAT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
5 9 0.15
6 37 0.61
7 8 0.13
8 6 0.10
9 1 0.02
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:8657273 original size:21 final size:21
Alignment explanation
Indices: 8657249--8657299 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
8657239 TCTAATTAAA
8657249 AAAGAAGCTGAATGGAAAAAG
1 AAAGAAGCTGAATGGAAAAAG
8657270 AAAGAAGCTGAATGGAAAAAG
1 AAAGAAGCTGAATGGAAAAAG
*
8657291 AGAGAAGCT
1 AAAGAAGCT
8657300 TTGTTGCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.55, C:0.06, G:0.29, T:0.10
Consensus pattern (21 bp):
AAAGAAGCTGAATGGAAAAAG
Found at i:8671983 original size:50 final size:47
Alignment explanation
Indices: 8671927--8672022 Score: 147
Period size: 50 Copynumber: 2.0 Consensus size: 47
8671917 AGTAAAAGAG
8671927 TTATTAATTAAAAAGATGAATTAAAAATAAAAAACTTGAAAACAATATAT
1 TTATTAATTAAAAAGATGAATTAAAAAT-AAAAA-TTG-AAACAATATAT
* *
8671977 TTATTAATTAAAAATATTAATTAAAAATAAAAATTGAAACAATATA
1 TTATTAATTAAAAAGATGAATTAAAAATAAAAATTGAAACAATATA
8672023 AAATTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 10 0.23
48 3 0.07
49 5 0.11
50 26 0.59
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.32
Consensus pattern (47 bp):
TTATTAATTAAAAAGATGAATTAAAAATAAAAATTGAAACAATATAT
Found at i:8671996 original size:13 final size:13
Alignment explanation
Indices: 8671978--8672005 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8671968 ACAATATATT
8671978 TATTAATTAAAAA
1 TATTAATTAAAAA
8671991 TATTAATTAAAAA
1 TATTAATTAAAAA
8672004 TA
1 TA
8672006 AAAATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:8672011 original size:13 final size:13
Alignment explanation
Indices: 8671982--8672032 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
8671972 TATATTTATT
**
8671982 AATTAAAAATATT
1 AATTAAAAATAAA
8671995 AATTAAAAATAAA
1 AATTAAAAATAAA
8672008 AATTGAAACAATATAA
1 AATT-AAA-AATA-AA
8672024 AATTAAAAA
1 AATTAAAAA
8672033 ATACAAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 15 0.45
14 5 0.15
15 7 0.21
16 6 0.18
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (13 bp):
AATTAAAAATAAA
Found at i:8676490 original size:18 final size:19
Alignment explanation
Indices: 8676467--8676531 Score: 75
Period size: 18 Copynumber: 3.5 Consensus size: 19
8676457 TTAATGAAAA
8676467 TATAAAAAAT-TAAAAATT
1 TATAAAAAATGTAAAAATT
8676485 TAT-AAAAATCGTAAAAA--
1 TATAAAAAAT-GTAAAAATT
*
8676502 TATAAAAAATTGTAAAATTT
1 TATAAAAAA-TGTAAAAATT
8676522 TATAAAAAAT
1 TATAAAAAAT
8676532 CATAAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
17 9 0.22
18 14 0.35
19 8 0.20
20 9 0.22
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
TATAAAAAATGTAAAAATT
Found at i:8676706 original size:10 final size:10
Alignment explanation
Indices: 8676693--8676811 Score: 63
Period size: 9 Copynumber: 12.5 Consensus size: 10
8676683 ACTTATAAAA
8676693 TTTTATATA-
1 TTTTATATAT
8676702 TTTT-TATAT
1 TTTTATATAT
*
8676711 TTCTATATA-
1 TTTTATATAT
8676720 TTTTATA-AT
1 TTTTATATAT
**
8676729 TTTT-TCGAT
1 TTTTATATAT
* *
8676738 TTTTATAAAA
1 TTTTATATAT
*
8676748 TTTTACATAT
1 TTTTATATAT
8676758 TTTT-TATAT
1 TTTTATATAT
* *
8676767 TTTTTTACGAT
1 TTTTATA-TAT
* *
8676778 TTTTGTATTT
1 TTTTATATAT
*
8676788 TTTTCTA-AT
1 TTTTATATAT
* *
8676797 TTTAATAAAT
1 TTTTATATAT
8676807 TTTTA
1 TTTTA
8676812 ACATTTGAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
8 6 0.07
9 37 0.45
10 32 0.39
11 8 0.10
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATATAT
Found at i:8676732 original size:27 final size:28
Alignment explanation
Indices: 8676686--8676768 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 28
8676676 CTTACGAACT
8676686 TATAAAATTTTAT-ATATTTTTATATTTC
1 TATAAAATTTTATAAT-TTTTTATATTTC
* ** *
8676714 TAT-ATATTTTATAATTTTTTCGATTTT
1 TATAAAATTTTATAATTTTTTATATTTC
*
8676741 TATAAAATTTTACATATTTTTTATATTT
1 TATAAAATTTTATA-ATTTTTTATATTT
8676769 TTTTACGATT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 20 0.45
28 13 0.30
29 11 0.25
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (28 bp):
TATAAAATTTTATAATTTTTTATATTTC
Found at i:8676799 original size:19 final size:19
Alignment explanation
Indices: 8676720--8676791 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
8676710 TTTCTATATA
* *
8676720 TTTTATAATTTTTT-CGAT
1 TTTTATATTTTTTTACAAT
***
8676738 TTTTATAAAATTTTACATATT
1 TTTTATATTTTTTTACA-A-T
*
8676759 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACAAT
*
8676778 TTTTGTATTTTTTT
1 TTTTATATTTTTTT
8676792 CTAATTTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 12 0.28
19 15 0.35
20 2 0.05
21 14 0.33
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Found at i:8676888 original size:21 final size:20
Alignment explanation
Indices: 8676856--8676897 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
8676846 TATAGCTTTT
*
8676856 ATTTATTTTAATTTTTTATA
1 ATTTATTTTAATTTTTAATA
*
8676876 ATTTTTTTCTAATTTTTAATA
1 ATTTATTT-TAATTTTTAATA
8676897 A
1 A
8676898 AATTAGGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTATTTTAATTTTTAATA
Found at i:8684922 original size:11 final size:11
Alignment explanation
Indices: 8684906--8684950 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
8684896 ATTAATCCTT
8684906 TCTCAATTTCC
1 TCTCAATTTCC
8684917 TCTCAATTTCC
1 TCTCAATTTCC
* *
8684928 TCTCAAATTGC
1 TCTCAATTTCC
8684939 TCTCAATTTCC
1 TCTCAATTTCC
8684950 T
1 T
8684951 TCCAAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.20, C:0.33, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:8684941 original size:22 final size:22
Alignment explanation
Indices: 8684906--8684966 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
8684896 ATTAATCCTT
*
8684906 TCTCAATTTCCTCTCAATTTCC
1 TCTCAAATTCCTCTCAATTTCC
*
8684928 TCTCAAATTGCTCTCAATTTCC
1 TCTCAAATTCCTCTCAATTTCC
*
8684950 T-TCCAAATTTCTCTCAA
1 TCT-CAAATTCCTCTCAA
8684967 ATCCATAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCAAATTCCTCTCAATTTCC
Done.