Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 185 of 187
Found at i:55417741 original size:43 final size:43
Alignment explanation
Indices: 55417683--55417766 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
55417673 GGTGCAGCCA
*
55417683 GGGTAAGAACAGGCTCGAAATTTTA-TCATGCTATCACTTAGTG
1 GGGTAAGAACAGGCTCAAAATTTTACT-ATGCTATCACTTAGTG
* *
55417726 GGGTAGGAACCGGCTCAAAATTTTACTATGCTATCACTTAG
1 GGGTAAGAACAGGCTCAAAATTTTACTATGCTATCACTTAG
55417767 GGCCCATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
GGGTAAGAACAGGCTCAAAATTTTACTATGCTATCACTTAGTG
Found at i:55419426 original size:37 final size:36
Alignment explanation
Indices: 55419326--55419438 Score: 98
Period size: 37 Copynumber: 3.3 Consensus size: 36
55419316 TATCTATGAG
* *
55419326 ATAAACATTAAATTAAATTTAATA-TAAA-GA--AA
1 ATAAATATTAAATTAAATTTAATATTAAACTATTAA
* * *
55419358 AT-CATATTAATATTAAATTAACAAATT--ACTATTAA
1 ATAAATATTAA-ATTAAATTTA-ATATTAAACTATTAA
55419393 GATAAATATTAAATTAAATTTAATATTAAACTATTAA
1 -ATAAATATTAAATTAAATTTAATATTAAACTATTAA
55419430 A-AAATATTA
1 ATAAATATTA
55419439 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
31 6 0.10
32 12 0.19
33 3 0.05
34 1 0.02
35 14 0.22
36 12 0.19
37 15 0.24
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (36 bp):
ATAAATATTAAATTAAATTTAATATTAAACTATTAA
Found at i:55422062 original size:20 final size:21
Alignment explanation
Indices: 55422005--55422062 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
55421995 TTGATTTTCC
55422005 AGGCAGTATTGATACCACTTAA
1 AGGCAGTATTGATACCAC-TAA
* * *
55422027 AGGAAATATTGATACCA-TAG
1 AGGCAGTATTGATACCACTAA
*
55422047 AGGCAGTATCGATACC
1 AGGCAGTATTGATACC
55422063 TATGTAACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 15 0.50
22 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (21 bp):
AGGCAGTATTGATACCACTAA
Found at i:55425635 original size:16 final size:16
Alignment explanation
Indices: 55425614--55425647 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
55425604 CTATGCATGC
*
55425614 AAAATATAAAAGACAA
1 AAAATAAAAAAGACAA
55425630 AAAATAAAAAAGACAA
1 AAAATAAAAAAGACAA
55425646 AA
1 AA
55425648 TAGTGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAATAAAAAAGACAA
Found at i:55429793 original size:44 final size:44
Alignment explanation
Indices: 55429745--55429858 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
55429735 ACCCCTCTGG
*
55429745 CCAACTTGCCGAAGGTGTACAACAG-TCTGACACCACTCC-TCCAA
1 CCAACTTGCCGATGGTGTACAACAGTTC-GACACCAC-CCATCCAA
* ** *
55429789 CCAACTT-CCGATGGTGTTCAATGGTTCGGCACCACCCATCCAA
1 CCAACTTGCCGATGGTGTACAACAGTTCGACACCACCCATCCAA
* **
55429832 CCAACTTGTCGATGGTGCCCAACAGTT
1 CCAACTTGCCGATGGTGTACAACAGTT
55429859 TAGAATTTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 2 0.04
43 32 0.56
44 23 0.40
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.22
Consensus pattern (44 bp):
CCAACTTGCCGATGGTGTACAACAGTTCGACACCACCCATCCAA
Found at i:55431565 original size:18 final size:19
Alignment explanation
Indices: 55431533--55431569 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
55431523 TTCAACACAA
55431533 TTTTGTACTTATTTCCATT
1 TTTTGTACTTATTTCCATT
*
55431552 TTTTTTACTT-TTTCCATT
1 TTTTGTACTTATTTCCATT
55431570 ATAAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTGTACTTATTTCCATT
Found at i:55437490 original size:33 final size:33
Alignment explanation
Indices: 55437453--55437516 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
55437443 AATACATTGG
*
55437453 AAATCAGCATGCAGATGGTTTAAATACTATTCC
1 AAATCAGCATGCAGATGGTGTAAATACTATTCC
55437486 AAATCAGCATGCAGATGGTGTAAATACTATT
1 AAATCAGCATGCAGATGGTGTAAATACTATT
55437517 TCAACTGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (33 bp):
AAATCAGCATGCAGATGGTGTAAATACTATTCC
Found at i:55443490 original size:42 final size:42
Alignment explanation
Indices: 55443444--55443523 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
55443434 ACCTTCGAAC
*
55443444 TAGGGACACACGGCCATGTCCCAGCCCATGTAACTCTCTGAG
1 TAGGGACACACGCCCATGTCCCAGCCCATGTAACTCTCTGAG
* ** * *
55443486 TAGGGTCACACGCCCATGTGTCAGGCCGTGTAACTCTC
1 TAGGGACACACGCCCATGTCCCAGCCCATGTAACTCTC
55443524 AAAATTGCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.21
Consensus pattern (42 bp):
TAGGGACACACGCCCATGTCCCAGCCCATGTAACTCTCTGAG
Found at i:55450736 original size:20 final size:21
Alignment explanation
Indices: 55450703--55450741 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
55450693 AAATATGAAT
*
55450703 GTTTAGGGTTTAGGGTTTAAG
1 GTTTAGGGTCTAGGGTTTAAG
*
55450724 GTTT-GGGTCTAGGTTTTA
1 GTTTAGGGTCTAGGGTTTA
55450742 TGATCTAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.15, C:0.03, G:0.36, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTCTAGGGTTTAAG
Found at i:55450869 original size:21 final size:22
Alignment explanation
Indices: 55450825--55450871 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
55450815 ATTATTATGG
* *
55450825 TTAAGGGTTTAGTGTTTAGTGT
1 TTAAGGGTCTAGTGTTTAGGGT
*
55450847 TTAAGGGTCTATTG-TTAGGGT
1 TTAAGGGTCTAGTGTTTAGGGT
55450868 TTAA
1 TTAA
55450872 AATTTAGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (22 bp):
TTAAGGGTCTAGTGTTTAGGGT
Found at i:55450927 original size:34 final size:34
Alignment explanation
Indices: 55450875--55450995 Score: 111
Period size: 34 Copynumber: 3.4 Consensus size: 34
55450865 GGTTTAAAAT
*
55450875 TTAGGGTTCAAGGG-TTAAAGGTTAAGGTTTAAGG
1 TTAGGGTT-AAGGGTTTAAAGTTTAAGGTTTAAGG
*
55450909 TTAGGGTTAAGGGTTTAAAGTTTAA-GTTAAAGG
1 TTAGGGTTAAGGGTTTAAAGTTTAAGGTTTAAGG
** * *
55450942 TTAAGGGTTTTGGGTTGGGAATCGAGTTTAGGGTTTAAGG
1 TT-AGGGTTAAGGGTT--TAA---AGTTTAAGGTTTAAGG
55450982 TTAGGGTTAAGGGT
1 TTAGGGTTAAGGGT
55450996 CAAGGTGAGG
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
33 14 0.20
34 29 0.41
36 2 0.03
39 16 0.23
40 9 0.13
ACGTcount: A:0.26, C:0.02, G:0.36, T:0.36
Consensus pattern (34 bp):
TTAGGGTTAAGGGTTTAAAGTTTAAGGTTTAAGG
Found at i:55451090 original size:21 final size:22
Alignment explanation
Indices: 55451039--55451092 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
55451029 TAAAGTTAAT
*
55451039 GGCTTAGGGCTTTAAGGTCTAA
1 GGCTTAGGGTTTTAAGGTCTAA
* * *
55451061 GGTTTAGGGTTTTAAGTTTTAA
1 GGCTTAGGGTTTTAAGGTCTAA
55451083 -GCTTAGGGTT
1 GGCTTAGGGTT
55451093 CAAGGTTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.20, C:0.07, G:0.31, T:0.41
Consensus pattern (22 bp):
GGCTTAGGGTTTTAAGGTCTAA
Found at i:55451236 original size:28 final size:28
Alignment explanation
Indices: 55451170--55451251 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
55451160 CAATTTTTAT
* * *
55451170 GGTTTTGA-GTTTTAGGTTTCAAGTTTAG
1 GGTTTT-ATGTTTTAGGTTTTATGGTTAG
55451198 GG-TTTAGTGTTTTAGGTTTTATGGTTAG
1 GGTTTTA-TGTTTTAGGTTTTATGGTTAG
* *
55451226 GGTTTTATGTTTAAGG-CTTATGGTTA
1 GGTTTTATGTTTTAGGTTTTATGGTTA
55451252 TGGCTTAGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.02
27 12 0.26
28 29 0.63
29 4 0.09
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.51
Consensus pattern (28 bp):
GGTTTTATGTTTTAGGTTTTATGGTTAG
Found at i:55465767 original size:33 final size:36
Alignment explanation
Indices: 55465664--55465775 Score: 121
Period size: 33 Copynumber: 3.2 Consensus size: 36
55465654 AACTATAAAG
*
55465664 GCCGAATGC--ACATAT-T-CACTATTACCCACCTAT
1 GCCGAATGCATACATATATACACTA-TATCCACCTAT
* *
55465697 GCCGAATGCATACATATATACACTTATATCTATCTAT
1 GCCGAATGCATACATATATACAC-TATATCCACCTAT
*
55465734 GCCGAATGCATACA-A-ATATA-TATATCCACCTAT
1 GCCGAATGCATACATATATACACTATATCCACCTAT
55465767 GCCGAATGC
1 GCCGAATGC
55465776 CTAAATATGC
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
33 29 0.43
35 10 0.15
36 2 0.03
37 25 0.37
38 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (36 bp):
GCCGAATGCATACATATATACACTATATCCACCTAT
Found at i:55466190 original size:41 final size:41
Alignment explanation
Indices: 55465974--55466183 Score: 357
Period size: 41 Copynumber: 5.1 Consensus size: 41
55465964 AATTCATCAT
*
55465974 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
55466015 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
55466056 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
55466097 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
55466138 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
55466179 ATTCA
1 ATTCA
55466184 ATTCACCAAT
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 158 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:55466453 original size:15 final size:17
Alignment explanation
Indices: 55466415--55466455 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
55466405 ACACATATAT
55466415 ATATATATATTACACAC
1 ATATATATATTACACAC
*
55466432 ATATATATATT-CGCAC
1 ATATATATATTACACAC
55466448 AT-TATATA
1 ATATATATA
55466456 AACACAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (17 bp):
ATATATATATTACACAC
Found at i:55467326 original size:44 final size:44
Alignment explanation
Indices: 55467256--55467419 Score: 190
Period size: 44 Copynumber: 3.7 Consensus size: 44
55467246 ACCAGAATGG
55467256 GAAGACAAGATCTGCTATTTC-T-GATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTG-T-TTTCTTCGATCTACTTCATGCCAATACAT
* * *
55467300 GAAGACAAGATCCGTTTTCTTCGATCTATTTCACGCCAATACAT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTCATGCCAATACAT
* * * * *
55467344 GAAGACAAGATCTG-CTACATTTGAGCTACTTCATGCCGATACAT
1 GAAGACAAGATCTGTTTTC-TTCGATCTACTTCATGCCAATACAT
* *
55467388 GAAGACAAGATTTGCTTTCTTCGATCTACTTC
1 GAAGACAAGATCTGTTTTCTTCGATCTACTTC
55467420 GCCACTAGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
44 90 0.90
45 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGTTTTCTTCGATCTACTTCATGCCAATACAT
Found at i:55474881 original size:15 final size:15
Alignment explanation
Indices: 55474861--55474894 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
55474851 TGAACAGTTG
55474861 AAAGCACTGTTAACT
1 AAAGCACTGTTAACT
55474876 AAAGCACTGTTAACT
1 AAAGCACTGTTAACT
55474891 AAAG
1 AAAG
55474895 AACCAGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (15 bp):
AAAGCACTGTTAACT
Found at i:55476362 original size:23 final size:23
Alignment explanation
Indices: 55476336--55476409 Score: 105
Period size: 23 Copynumber: 3.2 Consensus size: 23
55476326 ATAAGTGCCG
55476336 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
55476359 CACTGATATGTAGCCGTAGCTA-
1 CACTGATATGTAGCCGAAGCTAC
* *
55476381 CAGCTAAAATGTAGCCGAAGCTAC
1 CA-CTGATATGTAGCCGAAGCTAC
55476405 CACTG
1 CACTG
55476410 TTCAATAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
22 2 0.05
23 40 0.91
24 2 0.05
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:55481627 original size:14 final size:15
Alignment explanation
Indices: 55481608--55481639 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
55481598 ACATGCTACA
55481608 AAAACAGAAAAT-AG
1 AAAACAGAAAATGAG
55481622 AAAACAGAAAATGAG
1 AAAACAGAAAATGAG
55481637 AAA
1 AAA
55481640 CAAAAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAACAGAAAATGAG
Found at i:55481656 original size:19 final size:18
Alignment explanation
Indices: 55481577--55481678 Score: 67
Period size: 18 Copynumber: 6.1 Consensus size: 18
55481567 AAATTAAGAA
*
55481577 AAAAAATACTAGAGAAAC
1 AAAAAATGCTAGAGAAAC
* * *
55481595 AAAACATGCTACAAAAAC
1 AAAAAATGCTAGAGAAAC
*
55481613 AGAAAA---TAGA-AAAC
1 AAAAAATGCTAGAGAAAC
*
55481627 AGAAAA---T-GAGAAAC
1 AAAAAATGCTAGAGAAAC
*
55481641 AAAAAACTGCTAGAGAAAT
1 AAAAAA-TGCTAGAGAAAC
*
55481660 AAAACATGCTAGAGAAAC
1 AAAAAATGCTAGAGAAAC
55481678 A
1 A
55481679 GAAATTTTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
13 2 0.03
14 20 0.30
15 3 0.04
18 31 0.46
19 11 0.16
ACGTcount: A:0.63, C:0.13, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAAATGCTAGAGAAAC
Found at i:55483198 original size:124 final size:124
Alignment explanation
Indices: 55482969--55483552 Score: 634
Period size: 124 Copynumber: 4.7 Consensus size: 124
55482959 TTCAGGAGAG
* * * * ** *** *
55482969 CAAAATGACACCGTTTTGTTTAAA-CAACAATGAAGCTTTGTGGCGTTTTTAAAATAGCACCTCT
1 CAAAACGACACCATTTTGTTTAAATTAA-AATGAAGTTTTACGGCGTTTTTCCTATAGCGCCTCT
* * * * *
55483033 AATTCTCACCTTTTACAGCGTTTTTAGCATAACGCCTCTAATGCCACTAATTTCGCCAGA
65 AATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* * * *
55483093 CAAAACGACACCGTTTTGTTTAATTTAAAATGGAGTTCTACGGCGTTTTTCCTATAGCGCCTCTA
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTACGGCGTTTTTCCTATAGCGCCTCTA
* * * * *
55483158 ATTCTCACCTTTTGCGGTGTTTTTAGCATAGTGCCGCTAATGCCGGTACTTTTGCCAGA
66 ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* * * * * *
55483217 TAATACGACACCATTTTGTTTAAATTACAATGAAGTTTTGCGGCATTTTTCCCATAGCGCCTCTA
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTACGGCGTTTTTCCTATAGCGCCTCTA
* * * *
55483282 ATTCTCACCATTTGTGGCGTTTTTATCATAGCGCCGCTAATGCCGCTAATTTCGCAAGA
66 ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* **
55483341 CAATACGACACCATTTTGTTTAAATTAAAATGAAGTTTTGTGGCGTTTTTCCTATAGCGCCTCTA
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTACGGCGTTTTTCCTATAGCGCCTCTA
* * * * * *
55483406 AATCTCA-CTTTTAGAGGCGTTTTTAGCAAAGCGCCGCTAATGCCTCTAATTTCGACAAA
66 ATTCTCACCTTTT-GCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
* * * * * ** * *
55483465 CAAAACGACATCGTTTTGTGTAAAATAGAACAAAGTTTTACGGCGTTTTTAACT-TAGCACCTCT
1 CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTACGGCGTTTTT-CCTATAGCGCCTCT
* *
55483529 AATGCTCACCTTTAGCGGCGTTTT
65 AATTCTCACCTTTTGCGGCGTTTT
55483553 AACTTAGCGT
Statistics
Matches: 385, Mismatches: 71, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
123 4 0.01
124 373 0.97
125 8 0.02
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (124 bp):
CAAAACGACACCATTTTGTTTAAATTAAAATGAAGTTTTACGGCGTTTTTCCTATAGCGCCTCTA
ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTCGCCAGA
Found at i:55484331 original size:14 final size:14
Alignment explanation
Indices: 55484312--55484359 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
55484302 CTTAAAACCC
*
55484312 TAAACCATGAACTT
1 TAAACCATAAACTT
55484326 TAAACCATAAACTT
1 TAAACCATAAACTT
* *
55484340 TAAAGCATAAACCT
1 TAAACCATAAACTT
55484354 TAAACC
1 TAAACC
55484360 CAAAACCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (14 bp):
TAAACCATAAACTT
Found at i:55484784 original size:40 final size:39
Alignment explanation
Indices: 55484727--55484830 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 39
55484717 TTAACTCTTT
* * * *
55484727 GCGGCGTTTTTTAGAAAGTGCCGCTAAATGTCGATCTATA
1 GCGGCG-TTTTTAGAAAGCGCCGCTAAATCTCAATATATA
*
55484767 GCGGCGTTTTTAGGAAAGCGCCGCTAATTCTCAATATATA
1 GCGGCGTTTTTA-GAAAGCGCCGCTAAATCTCAATATATA
* * *
55484807 GCGGTGTTTTGAATAAAGCGCCGC
1 GCGGCGTTTT-TAGAAAGCGCCGC
55484831 CAATGGTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 6 0.11
40 47 0.87
41 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (39 bp):
GCGGCGTTTTTAGAAAGCGCCGCTAAATCTCAATATATA
Found at i:55485832 original size:19 final size:19
Alignment explanation
Indices: 55485808--55485847 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
55485798 GTTGACGAAT
55485808 AGTCAATAGTTTTTATCTG
1 AGTCAATAGTTTTTATCTG
55485827 AGTCAATAGTTTTTATCTG
1 AGTCAATAGTTTTTATCTG
55485846 AG
1 AG
55485848 CGATACGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (19 bp):
AGTCAATAGTTTTTATCTG
Found at i:55486140 original size:24 final size:24
Alignment explanation
Indices: 55486105--55486150 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
55486095 ATTGATATTG
55486105 AGCTCGTAAGAGCTTACTATTCTT
1 AGCTCGTAAGAGCTTACTATTCTT
*
55486129 AGCTCGTTAGAGCTTACTATTC
1 AGCTCGTAAGAGCTTACTATTC
55486151 CCTCAGCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTATTCTT
Found at i:55487665 original size:70 final size:70
Alignment explanation
Indices: 55487552--55487682 Score: 235
Period size: 70 Copynumber: 1.9 Consensus size: 70
55487542 GAATATAGTG
*
55487552 ATTGGTAGTAATTCCGCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTATAAGTG
1 ATTGGTAGTAATTCCGCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATAAGTG
55487617 TGGTA
66 TGGTA
* *
55487622 ATTGGTAGTAATTCTGCATATGTTGTGGACTATCGTAGCTCTGTGTGAGCATCGAAGTATA
1 ATTGGTAGTAATTCCGCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATA
55487683 TGATTTAGTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (70 bp):
ATTGGTAGTAATTCCGCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAAGTATAAGTG
TGGTA
Found at i:55491780 original size:22 final size:23
Alignment explanation
Indices: 55491755--55491798 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
55491745 CTAAGTAGGT
55491755 ATATATA-TAAATTATAAAAAAA
1 ATATATACTAAATTATAAAAAAA
* *
55491777 ATATGTACGTATATTATAAAAA
1 ATATATAC-TAAATTATAAAAA
55491799 TGTATGCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
24 12 0.67
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATATACTAAATTATAAAAAAA
Found at i:55493342 original size:45 final size:45
Alignment explanation
Indices: 55493245--55493693 Score: 152
Period size: 45 Copynumber: 10.1 Consensus size: 45
55493235 TCAGGGGAAC
* * * *
55493245 ATTTGCTA-ACTTCAGTCTGTTCCACTGCAACTTTAGGGGGATAAG
1 ATTTGCTATA-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
** * *
55493290 ACCTGCTATATTCAATCTGCTCCACTGTAACTTCAGGGAGATAGG
1 ATTTGCTATATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * ** * ** *
55493335 ATTTGCTATCTTCAGTCAT-TTCCGTTACAGTTTCAGGGGGATAAG
1 ATTTGCTATATTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAG
* * * * ** * * *
55493380 ACTTACTGTCTTCAATCCACTCCACTACAACTACAGGGAGATAGG
1 ATTTGCTATATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * ** * * * * ** *
55493425 ATTTGCTATCTTCAGTCTTTTGCGCTACAATTTCAGAAAGAAAAG
1 ATTTGCTATATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * **
55493470 ACTTG--ATA--CGATCTGCTCTACTACAACTTCAAAGAGATAAG
1 ATTTGCTATATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
55493511 A--T-CCATCACTTTAATCCGCTCCATTGCAACTTCAGGGAGATAGG
1 ATTTGCTAT-A-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
55493555 ATTATTGGC--T-TT-AATCTGCTCCACTGTAACTTCAGGGAGATAAG
1 A-T-TT-GCTATATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
** * * * * * *
55493599 ATTCACCATCTTTAGTCTTC-CTCACTGCAACTTCAGGGGGATAAG
1 ATTTGCTATATTCAATCTGCTC-CACTGCAACTTCAGGGAGATAAG
* * * ** * *
55493644 AATTGCCATTTTCAATCCACTCCACTGCAACTTTAGGGAGATAGG
1 ATTTGCTATATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
55493689 ATTTG
1 ATTTG
55493694 TAGTTTCACC
Statistics
Matches: 290, Mismatches: 93, Indels: 42
0.68 0.22 0.10
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 25 0.09
42 1 0.00
43 4 0.01
44 57 0.20
45 194 0.67
46 3 0.01
48 2 0.01
50 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
ATTTGCTATATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:55493403 original size:90 final size:90
Alignment explanation
Indices: 55493245--55493460 Score: 256
Period size: 90 Copynumber: 2.4 Consensus size: 90
55493235 TCAGGGGAAC
* * * * *
55493245 ATTTGCTAACTTCAGTC-TGTTCCACTGCAACTTT-AGGGGGATAAGACCTGCTATATTCAATCT
1 ATTTGCTATCTTCAGTCAT-TTCCGCTACAA-TTTCAGGGGGATAAGACCTACTATATTCAATCC
* ** *
55493308 GCTCCACTGTAACTTCAGGGAGATAGG
64 ACTCCACTACAACTACAGGGAGATAGG
* * * * *
55493335 ATTTGCTATCTTCAGTCATTTCCGTTACAGTTTCAGGGGGATAAGACTTACTGTCTTCAATCCAC
1 ATTTGCTATCTTCAGTCATTTCCGCTACAATTTCAGGGGGATAAGACCTACTATATTCAATCCAC
55493400 TCCACTACAACTACAGGGAGATAGG
66 TCCACTACAACTACAGGGAGATAGG
* *
55493425 ATTTGCTATCTTCAGTCTTTTGCGCTACAATTTCAG
1 ATTTGCTATCTTCAGTCATTTCCGCTACAATTTCAG
55493461 AAAGAAAAGA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
89 3 0.03
90 102 0.96
91 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (90 bp):
ATTTGCTATCTTCAGTCATTTCCGCTACAATTTCAGGGGGATAAGACCTACTATATTCAATCCAC
TCCACTACAACTACAGGGAGATAGG
Found at i:55498301 original size:19 final size:18
Alignment explanation
Indices: 55498276--55498317 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
55498266 ATTAACATCG
55498276 TGTTTTATTTCTACTATT
1 TGTTTTATTTCTACTATT
55498294 TCGTTTTATTTCTACTATT
1 T-GTTTTATTTCTACTATT
55498313 TGTTT
1 TGTTT
55498318 AGATTCGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (18 bp):
TGTTTTATTTCTACTATT
Found at i:55498512 original size:72 final size:71
Alignment explanation
Indices: 55498394--55498536 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 71
55498384 TCTTTTCAAA
* * *
55498394 CTCAAGTTTTCAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTAGGCATGATCTC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGCCCTAACTTACTAGGCATGATC-C
55498459 TTTTTTT
65 TTTTTTT
*
55498466 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGCCCTAACTTACTCGGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGCCCTAACTTACTAGGCATGATCCT
55498531 TTTTTT
66 TTTTTT
55498537 AAATCCGGGA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 8 0.12
72 59 0.88
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGCCCTAACTTACTAGGCATGATCCT
TTTTTT
Found at i:55499009 original size:20 final size:20
Alignment explanation
Indices: 55498984--55499024 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
55498974 TCCAAGTCGA
55498984 TCCCGTTTTACAAAAAATGG
1 TCCCGTTTTACAAAAAATGG
55499004 TCCCGTTTTACAAAAAATGG
1 TCCCGTTTTACAAAAAATGG
55499024 T
1 T
55499025 GTCAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (20 bp):
TCCCGTTTTACAAAAAATGG
Found at i:55502984 original size:31 final size:31
Alignment explanation
Indices: 55502946--55503046 Score: 184
Period size: 31 Copynumber: 3.3 Consensus size: 31
55502936 GGGGGCCAAA
55502946 GCCGACTTTCTTAAGAATCATCCATGAGTAT
1 GCCGACTTTCTTAAGAATCATCCATGAGTAT
*
55502977 GCCGACTTTCTTAAGAATCATCCATTAGTAT
1 GCCGACTTTCTTAAGAATCATCCATGAGTAT
*
55503008 GCCGACTTTTTTAAGAATCATCCATGAGTAT
1 GCCGACTTTCTTAAGAATCATCCATGAGTAT
55503039 GCCGACTT
1 GCCGACTT
55503047 GGTTGTGTAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (31 bp):
GCCGACTTTCTTAAGAATCATCCATGAGTAT
Found at i:55510166 original size:42 final size:42
Alignment explanation
Indices: 55510098--55511032 Score: 819
Period size: 42 Copynumber: 22.0 Consensus size: 42
55510088 ATCCCAGGCA
* **
55510098 CCAAGGTGCCGATGGTGCCCGA-GCTCCCGCAC-ATCCAAGCA
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * **
55510139 CCAAGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCTAGCCA
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GG
* *
55510182 CCGAG-TGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * *
55510223 CCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * *
55510265 CCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** *
55510307 CCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * **
55510350 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCAC-ATCCAAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * *
55510393 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55510435 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** *
55510477 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * **
55510520 CCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* ** * * *
55510563 CCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55510605 CCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * *
55510648 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55510691 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* *
55510734 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** * * **
55510776 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGG
* * *
55510819 CCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55510861 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * ** * *
55510904 CCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * * * **
55510946 CTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
*
55510989 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
55511031 CC
1 CC
55511033 TATGCTACCG
Statistics
Matches: 725, Mismatches: 143, Indels: 51
0.79 0.16 0.06
Matches are distributed among these distances:
41 25 0.03
42 357 0.49
43 339 0.47
44 4 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (42 bp):
CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:55510406 original size:85 final size:85
Alignment explanation
Indices: 55510104--55511034 Score: 1013
Period size: 85 Copynumber: 11.0 Consensus size: 85
55510094 GGCACCAAGG
* *
55510104 TGCCGATGGTGCCCGA-GCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
* ** *
55510168 GCAC-ATCCTAGCCACCGAG--
66 GCACGA-CCAAG-GGCCTAGTT
* ** * * *
55510187 TGCCGATGCTGCCCGAGGCTCCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCC
* *
55510251 CGCACGACCAAGGGCCGAG-G
65 CGCACGACCAAGGGCCTAGTT
* * ** *** *
55510271 TGCCGATGGTGGCCGAGGCCCCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTC
1 TGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGGCTC
*
55510335 CCGCACGACCAAGGGCTTAGTT
64 CCGCACGACCAAGGGCCTAGTT
* * * *
55510357 TGCCGATGGTGCCCGAGCCTCTCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
* *
55510422 GCACGACCAAGGGCCAAG-G
66 GCACGACCAAGGGCCTAGTT
* * ** * ** *
55510441 TGTCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTC
1 TGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCTC
55510505 CCGCACGACCAAGGGCCTAGTT
64 CCGCACGACCAAGGGCCTAGTT
* * * * * * *
55510527 TGCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGCACCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
55510592 GCACGACCAAGGGCCTA-TT
66 GCACGACCAAGGGCCTAGTT
* ** ** * *
55510611 TTCTCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCT
1 TGC-CGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* *
55510675 CTCGCACGACCAAGGGCCTAGGT
63 CCCGCACGACCAAGGGCCTAGTT
* *
55510698 TGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
*
55510763 GCACGACCAAGGGCCTAGGT
66 GCACGACCAAGGGCCTAGTT
** * * *
55510783 TGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCTCC
*
55510847 CGCACGACCAAGGGCCTAGGT
65 CGCACGACCAAGGGCCTAGTT
* * * *
55510868 TGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGCTCCT
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
* * * *
55510933 TCATGGCCAAGGGCTTAGTT
66 GCACGACCAAGGGCCTAGTT
* * * *
55510953 TGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
55511018 GCACGACCAAGGGCCTA
66 GCACGACCAAGGGCCTA
55511035 TGCTACCGGA
Statistics
Matches: 711, Mismatches: 119, Indels: 34
0.82 0.14 0.04
Matches are distributed among these distances:
83 20 0.03
84 122 0.17
85 435 0.61
86 131 0.18
87 3 0.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (85 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCC
GCACGACCAAGGGCCTAGTT
Found at i:55511072 original size:24 final size:24
Alignment explanation
Indices: 55511040--55511106 Score: 125
Period size: 24 Copynumber: 2.8 Consensus size: 24
55511030 GCCTATGCTA
*
55511040 CCGGAACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55511064 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55511088 CCGGGACGGATCGCCGGAG
1 CCGGGACGGATCGCCGGAG
55511107 GGGGGCACCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.18, C:0.36, G:0.42, T:0.04
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55511080 original size:13 final size:13
Alignment explanation
Indices: 55511040--55511104 Score: 57
Period size: 13 Copynumber: 5.3 Consensus size: 13
55511030 GCCTATGCTA
*
55511040 CCGGAACGGATCG
1 CCGGGACGGATCG
* *
55511053 CC-GGA-GCACCG
1 CCGGGACGGATCG
55511064 CCGGGACGGATCG
1 CCGGGACGGATCG
* *
55511077 CC-GGA-GCACCG
1 CCGGGACGGATCG
55511088 CCGGGACGGATCG
1 CCGGGACGGATCG
55511101 CCGG
1 CCGG
55511105 AGGGGGGCAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
11 12 0.31
12 11 0.28
13 16 0.41
ACGTcount: A:0.17, C:0.37, G:0.42, T:0.05
Consensus pattern (13 bp):
CCGGGACGGATCG
Found at i:55511478 original size:42 final size:42
Alignment explanation
Indices: 55511430--55511633 Score: 182
Period size: 42 Copynumber: 4.8 Consensus size: 42
55511420 GCCGACAGTG
* *
55511430 TCCGAGGCTCCCGTACAT-CATAGCACCGAGGTGCCGATGGTC
1 TCCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGATGGTC
* * * ** *
55511472 TCCGAGGCTTCC-CACAACCAAGGGCA-TAATTTGCCGATGGTG
1 TCCGAGGCTCCCGCACATCCAA--GCACCAAGGTGCCGATGGTC
* *
55511514 TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGC
1 TCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGT-C
* * *
55511557 T-CGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGATGGTG
1 TCCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGATGGTC
* * *
55511599 TCTGAGGCTCCCACACATCCGAGCCACCAAGGTGC
1 TCCGAGGCTCCCGCACATCCAAG-CACCAAGGTGC
55511634 TGGAGGCTCT
Statistics
Matches: 127, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
41 7 0.06
42 73 0.57
43 40 0.31
44 7 0.06
ACGTcount: A:0.22, C:0.34, G:0.26, T:0.19
Consensus pattern (42 bp):
TCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTC
Found at i:55511548 original size:84 final size:85
Alignment explanation
Indices: 55511415--55511633 Score: 243
Period size: 84 Copynumber: 2.6 Consensus size: 85
55511405 AAAAGGGCCT
** * *
55511415 AGGTTGCCGACAGTGTCCGAGGCTCCCGTACAT-CATAGCACCGAGGTGCCGATGGT-CTCCGAG
1 AGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCAT-GCACCAAGGTGCCGATGGTGCT-CGAG
*
55511478 GCTTCC-CACAACCAAGGGCAT-A
64 GCTCCCGCACAACCAA--GCATCA
* *
55511500 A-TTTGCCGATGGTGTCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGC
1 AGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGC
*
55511564 TCCCGCACATCCAAGCATCA
66 TCCCGCACAACCAAGCATCA
* * *
55511584 AGGTTACCGATGGTGTCTGAGGCTCCCACACATCCGA-GCCACCAAGGTGC
1 AGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCC-ATG-CACCAAGGTGC
55511634 TGGAGGCTCT
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
83 4 0.04
84 55 0.48
85 43 0.38
86 12 0.11
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (85 bp):
AGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGATGGTGCTCGAGGC
TCCCGCACAACCAAGCATCA
Found at i:55519571 original size:43 final size:42
Alignment explanation
Indices: 55519501--55520445 Score: 796
Period size: 43 Copynumber: 22.2 Consensus size: 42
55519491 TCTTCTTTAG
*
55519501 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCT
* *
55519545 CCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* * *
55519587 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCT
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCT
* *
55519630 CCCGCACATCCGAGCCACCAAGGTGCCGATGGTGGCCGAGGCT
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCT
** * * *
55519673 CCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCC
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** *** *
55519715 CCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGGCT
** ** * *
55519758 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCT
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* ** * *
55519801 CTCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
* *
55519844 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** * ** *
55519886 CCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
** * * *
55519929 CCCGCACGA-CCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* * * * * *
55519972 CCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGCA
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** * *
55520014 CCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
* *
55520057 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** * *
55520099 CCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
*
55520142 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** * ** *
55520184 CCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
* *
55520227 CCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGGCT
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCT
** *
55520269 CCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
* * *
55520312 CCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** *** ** ** * * *
55520354 CCTTCATGGCCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCT
1 CCCGCACATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* *
55520397 CCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
55520439 CCCGCAC
1 CCCGCAC
55520446 GACCAAGGGC
Statistics
Matches: 740, Mismatches: 136, Indels: 52
0.80 0.15 0.06
Matches are distributed among these distances:
42 295 0.40
43 435 0.59
44 10 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (42 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:55519697 original size:85 final size:84
Alignment explanation
Indices: 55519521--55520458 Score: 1051
Period size: 85 Copynumber: 11.0 Consensus size: 84
55519511 CCAGGCACCA
* *
55519521 AGGTGCCGATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGC
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
* ** *
55519586 TCCCGCAC-ATCCTAGCCACCG
65 TCCCGCACGA-CCAAG-GGCCT
* * *
55519607 AGGTGCCGATGCTGCCCGAGGCTCCCGCACATCCGAGCCACCAAGGTGCCGATGGTGGCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGC
*
55519672 TCCCGCACGACCAAGGGCCG
65 TCCCGCACGACCAAGGGCCT
* * ** *** *
55519692 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGG
*
55519756 CTCCCGCACGACCAAGGGCTT
64 CTCCCGCACGACCAAGGGCCT
* * * ** *
55519777 AGTTTGCCGATGGTGCCCGAGCCTCTCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAG
* ** *
55519841 GTTCCCGCAC-ATCCAAGCACCA
63 GCTCCCGCACGA-CCAAGGGCCT
* * ** * ** *
55519863 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGG
55519927 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * * * * * *
55519948 AGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
*
55520013 ACCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
* * *
55520033 AGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
55520098 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
* *
55520118 AGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
55520183 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * * *
55520203 AGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGG
55520267 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * *
55520288 AGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
** * * *
55520353 TCCTTCATGGCCAAGGGCTT
65 TCCCGCACGACCAAGGGCCT
* * * * *
55520373 AGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
55520438 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
55520458 A
1 A
55520459 TGCTACCGGA
Statistics
Matches: 735, Mismatches: 103, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
84 4 0.01
85 579 0.79
86 151 0.21
87 1 0.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (84 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
CCCGCACGACCAAGGGCCT
Found at i:55519744 original size:128 final size:125
Alignment explanation
Indices: 55519515--55520458 Score: 885
Period size: 128 Copynumber: 7.4 Consensus size: 125
55519505 CACATCCCAG
** * *
55519515 GCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGTTGCCGATGGTGT
1 GCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGT
* * * *
55519579 CCGAGGCTCCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCGA
64 CCGAGGCTCCCGCACA-CCAAG-CACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* * *
55519643 GCCACCAAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGC
1 G-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGTC
* ** ** *
55519708 CGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAA
65 CGAGGCTCCCGCAC-ACCAAGCACCTA-GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** ** * * * *
55519771 GGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGC
1 GCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TGCCGATGGTGT
* * * *
55519836 CCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAA
64 CCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * ** * *
55519899 GGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGT
1 GCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-GTGCCGATGGTGT
* * * * *
55519964 CCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAA
64 CCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * ** * *
55520027 GGGCCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCACCAAGGTGTCGATGGTG-
1 GCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGT
** *
55520090 CTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCA
64 C-CGAGGCTCCCGCAC-ACCAAGCACCTAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCA
55520154 A
125 A
* **
55520155 GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTC
1 GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TGCCGATGGTGTC
* * *
55520220 CGAGGCTCCCGCACATCATAGCACCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAA
65 CGAGGCTCCCGCACACCA-AGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * ** * * *
55520282 GGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCGAGGTGCCGATGGCGC
1 GCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGT
** ** ** * * * * * *
55520346 CCGAGGCTCCTTCATGGCCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTA
64 CCGAGGCTCCCGCA-CACCAAGCACCTAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
55520410 GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55520459 TGCTACCGGA
Statistics
Matches: 668, Mismatches: 122, Indels: 53
0.79 0.14 0.06
Matches are distributed among these distances:
126 1 0.00
127 176 0.26
128 440 0.66
129 51 0.08
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (125 bp):
GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGTCC
GAGGCTCCCGCACACCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
Found at i:55520491 original size:11 final size:11
Alignment explanation
Indices: 55520475--55520539 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
55520465 CGGAACGGTT
55520475 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55520486 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55520499 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55520510 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55520523 CGCCGGAGCAC
1 CGCCGGAGCAC
55520534 CGCCGG
1 CGCCGG
55520540 GAACCTAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 18 0.43
12 12 0.29
13 12 0.29
ACGTcount: A:0.15, C:0.40, G:0.42, T:0.03
Consensus pattern (11 bp):
CGCCGGAGCAC
Found at i:55520496 original size:24 final size:24
Alignment explanation
Indices: 55520464--55520541 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
55520454 GCCTATGCTA
* *
55520464 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55520488 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55520512 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55520536 CCGGGA
1 CCGGGA
55520542 ACCTAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55520504 original size:13 final size:13
Alignment explanation
Indices: 55520486--55520528 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
55520476 GCCGGAGCAC
55520486 CGCCGGGACGGAT
1 CGCCGGGACGGAT
* *
55520499 CGCC-GGA-GCAC
1 CGCCGGGACGGAT
55520510 CGCCGGGACGGAT
1 CGCCGGGACGGAT
55520523 CGCCGG
1 CGCCGG
55520529 AGCACCGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.14, C:0.37, G:0.44, T:0.05
Consensus pattern (13 bp):
CGCCGGGACGGAT
Found at i:55520800 original size:42 final size:42
Alignment explanation
Indices: 55520751--55521086 Score: 319
Period size: 42 Copynumber: 7.9 Consensus size: 42
55520741 ACTTTAGCTT
* * *
55520751 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
55520793 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
** *
55520835 TGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGA
** * *
55520878 CAGTG-TCCGAGGCTCCCGTACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* * * **
55520920 TGGT-CTCCGAGGCTTCC-CACAACCAAGGGCA-TAATTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAA--GCACCAAGGTGCCGA
* *
55520962 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
55521004 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
55521047 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGTGC
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTGC
55521087 TGGAGGCTCT
Statistics
Matches: 240, Mismatches: 38, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
41 7 0.03
42 156 0.65
43 70 0.29
44 7 0.03
ACGTcount: A:0.21, C:0.34, G:0.27, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:55529083 original size:43 final size:42
Alignment explanation
Indices: 55528957--55529113 Score: 199
Period size: 42 Copynumber: 3.7 Consensus size: 42
55528947 TCTTCTTTAG
*
55528957 CCCGCACATCCCAGGCACCAAGGTGCCGATGGTGCCCGAGGCT
1 CCCGCACAT-CCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* *
55529000 CCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* * *
55529042 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCT
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCT
** *
55529085 CCCGCACGA-CCAAGGGCCGAGGTGCCGAT
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGAT
55529114 TAAAAGCCCA
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
42 56 0.55
43 44 0.44
44 1 0.01
ACGTcount: A:0.19, C:0.39, G:0.29, T:0.13
Consensus pattern (42 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:55529111 original size:85 final size:85
Alignment explanation
Indices: 55528957--55529113 Score: 226
Period size: 85 Copynumber: 1.8 Consensus size: 85
55528947 TCTTCTTTAG
* * *
55528957 CCCGCACATCCCAGGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGT
1 CCCGCACATCCCAGCCACCAAGGTGCCGATGCTGCCCGAGGCTCCCGCACATCCAAGCACCAAGG
55529022 TGCCGATGGTGTCCGAGGCT
66 TGCCGATGGTGTCCGAGGCT
* * ** *
55529042 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGA-CCAAGGGCCGAG
1 CCCGCACATCCCAGCCACCAAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAG
55529106 GTGCCGAT
65 GTGCCGAT
55529114 TAAAAGCCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 62 0.98
86 1 0.02
ACGTcount: A:0.19, C:0.39, G:0.29, T:0.13
Consensus pattern (85 bp):
CCCGCACATCCCAGCCACCAAGGTGCCGATGCTGCCCGAGGCTCCCGCACATCCAAGCACCAAGG
TGCCGATGGTGTCCGAGGCT
Found at i:55529254 original size:43 final size:43
Alignment explanation
Indices: 55529184--55529906 Score: 752
Period size: 43 Copynumber: 17.0 Consensus size: 43
55529174 TAATCTTAGT
* *
55529184 TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* ** *
55529227 TTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCACCAAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
* *
55529270 -TGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
** * *
55529312 TTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGT
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* *
55529355 TTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGT
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* * **
55529398 TTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
* * * * *
55529441 -GGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGGCCTA-T
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* * *
55529482 TTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGT
1 TTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* *
55529526 TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* * ** *
55529569 TTGCCGATGGTGCCCGAGGTTCTCGCAC-ATCCAAGCACCAAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
*
55529612 -TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
** * * ** *
55529654 TTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCGAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGCCTAGG
55529697 -TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* *** *
55529739 TTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCATCGAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
* ** * * * *
55529782 -TGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAGT
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* * * * ** *
55529824 TTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCACCAAGG
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
55529867 -TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55529907 TGCTACCGGA
Statistics
Matches: 556, Mismatches: 105, Indels: 39
0.79 0.15 0.06
Matches are distributed among these distances:
42 198 0.36
43 354 0.64
44 4 0.01
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.17
Consensus pattern (43 bp):
TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
Found at i:55529336 original size:85 final size:85
Alignment explanation
Indices: 55529185--55529906 Score: 903
Period size: 85 Copynumber: 8.5 Consensus size: 85
55529175 AATCTTAGTT
* * *
55529185 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
55529250 CGCACATCCAAGCACCAAGG
66 CGCACATCCAAGCACCAAGG
* * ** *
55529270 TGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
** * *
55529335 CGCACGA-CCAAGGGCCTAGTT
66 CGCAC-ATCCAAGCACCAAG-G
* * *
55529356 TGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
* *
55529421 CGCACATCCCAGCACCTAGG
66 CGCACATCCAAGCACCAAGG
* * * * * *
55529441 GGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGGCCTA-TTTTCTCGATGGTGCCCGAGGCTC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC-CGATGGTGCCCGAGGCTC
** ** *
55529505 CCGCACGA-CCAAGGGCTTAGTT
65 CCGCAC-ATCCAAGCACCAAG-G
* * * *
55529527 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCT
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
55529592 CGCACATCCAAGCACCAAGG
66 CGCACATCCAAGCACCAAGG
* ** *
55529612 TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
*
55529677 CGCACAT-CATAGCACCGAGG
66 CGCACATCCA-AGCACCAAGG
55529697 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
* * *
55529762 CGCACATCGAAGCATCGAGG
66 CGCACATCCAAGCACCAAGG
* ** * * * * * *
55529782 TGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
* *
55529847 TGCACATCCTAGCACCAAGG
66 CGCACATCCAAGCACCAAGG
55529867 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55529907 TGCTACCGGA
Statistics
Matches: 544, Mismatches: 83, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
84 6 0.01
85 395 0.73
86 140 0.26
87 3 0.01
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (85 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
CGCACATCCAAGCACCAAGG
Found at i:55529845 original size:128 final size:127
Alignment explanation
Indices: 55529184--55529900 Score: 687
Period size: 128 Copynumber: 5.6 Consensus size: 127
55529174 TAATCTTAGT
* * *
55529184 TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTC
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
* * *
55529249 CCGCAC-ATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGG
66 CCGCACGA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-G
** * * *
55529312 TTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTC
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
** * * * **
55529377 CCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAG
66 CCGCACGACCAAGCACCTAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAG
** * * * * *
55529440 GGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGGCCTA-TTTTCTCGATGGTGCCCGAGGCT
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC-CGATGGTGCCCGAGGCT
** * * * *
55529504 CCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGG
65 CCCGCACGACCAAGCACCTAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-G
* * ** * *
55529569 TTGCCGATGGTGCCCGAGGTTCTCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCTCGAGGCT
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCT
** ** * * ** *
55529632 CCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCGAG
65 CCCGCACGACCAAGCACCTAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGCCTAG
*
55529696 GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
1 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
* * * * ** * * *
55529761 CCGCAC-ATCGAAGCATCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAG
66 CCGCACGA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* * * * ** *
55529823 TTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCACCAAGG-TGCCGATGGTGCCCGAGGC
1 -TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
55529886 TCCCGCACGACCAAG
64 TCCCGCACGACCAAG
55529901 GGCCTATGCT
Statistics
Matches: 480, Mismatches: 92, Indels: 35
0.79 0.15 0.06
Matches are distributed among these distances:
127 101 0.21
128 313 0.65
129 66 0.14
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.17
Consensus pattern (127 bp):
TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
CCGCACGACCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
Found at i:55529944 original size:24 final size:24
Alignment explanation
Indices: 55529912--55529965 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
55529902 GCCTATGCTA
* *
55529912 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55529936 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55529960 CCGGGA
1 CCGGGA
55529966 ACCTAACCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.06
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55530350 original size:84 final size:84
Alignment explanation
Indices: 55530184--55530367 Score: 219
Period size: 84 Copynumber: 2.2 Consensus size: 84
55530174 TTGGTGCTCA
* **
55530184 AGGCTCCCGCTCATCCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 AGGCTCCCGCACAT-CATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGCACC
* * *
55530249 TAGGTTGCGGACAGTGTCCG
65 AAGGTTACCGACAGTGTCCG
* *
55530269 AGGCTCCCGCACATCATAGCACCGAGGTGCCGATGGT-CTCGAGGCTCCCGCAC-ATCCAAGCAT
1 AGGCTCCCGCACATCAT-GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGCAC
** *
55530332 CAAGGTTACCGATGGTGTCTG
64 CAAGGTTACCGACAGTGTCCG
*
55530353 AGGCTCCCACACATC
1 AGGCTCCCGCACATC
55530368 CGAGCCACCA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 53 0.62
85 31 0.36
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.17
Consensus pattern (84 bp):
AGGCTCCCGCACATCATGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGCACCA
AGGTTACCGACAGTGTCCG
Found at i:55537897 original size:22 final size:22
Alignment explanation
Indices: 55537872--55537913 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
55537862 CACCGTGTGG
55537872 AACATGAGAGCTTAGTACGTGA
1 AACATGAGAGCTTAGTACGTGA
55537894 AACATGAGAGCTTAGTACGT
1 AACATGAGAGCTTAGTACGT
55537914 TATATTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (22 bp):
AACATGAGAGCTTAGTACGTGA
Found at i:55538331 original size:43 final size:42
Alignment explanation
Indices: 55538278--55539173 Score: 773
Period size: 43 Copynumber: 21.0 Consensus size: 42
55538268 ATCCCAGGCA
* **
55538278 CCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCA
1 CCAAGTTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * **
55538321 CCAAGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCTAGCCA
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GG
* * *
55538364 CCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55538406 CCGAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * *
55538448 CCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** *
55538490 CCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * *
55538533 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55538576 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * *
55538619 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** *
55538661 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * **
55538704 CCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* ** * * *
55538747 CCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55538789 CCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * **
55538832 CTTAGTTTGCCGATGGTGCCCGAGGTTCTCGCAC-ATCCAAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* *
55538875 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** * * **
55538917 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGG
* * *
55538960 CCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55539002 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * ** * *
55539045 CCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * * * **
55539087 CTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
*
55539130 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
55539172 CC
1 CC
55539174 TATGCTACCG
Statistics
Matches: 685, Mismatches: 144, Indels: 49
0.78 0.16 0.06
Matches are distributed among these distances:
42 301 0.44
43 379 0.55
44 5 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (42 bp):
CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:55538416 original size:85 final size:84
Alignment explanation
Indices: 55538261--55539175 Score: 944
Period size: 85 Copynumber: 10.7 Consensus size: 84
55538251 TCTTCTTTAG
* ** *
55538261 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAA
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* *
55538325 GTTGCCGATGGTGTCCGAGGCT
63 GGTGCCGATGGTGCCCGAGGCT
* * * *
55538347 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGG
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
*
55538412 TGCCGATGGTGGCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
** * * * *
55538432 CCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATT
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-G
* *
55538496 TTACCGATGGTGCCCGAGGCT
64 GTGCCGATGGTGCCCGAGGCT
** ** * * *
55538517 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAG
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
*
55538581 GTTGCCGATGGTGCCCGAGGTT
64 G-TGCCGATGGTGCCCGAGGCT
* *
55538603 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-
** *
55538668 TGCCGACAGTGTCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
** * * * * **
55538688 CCCGCACGA-CCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTA
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* * * *
55538751 GGGGCCGATGGCGGCCGAGGCA
63 GGTGCCGATGGTGCCCGAGGCT
** * ** * *
55538773 CCCGCACGA-CCAAGGGCCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAG
1 CCCGCAC-ATCCAAGCACCAAGGTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
55538837 TTTGCCGATGGTGCCCGAGGTT
64 -GTGCCGATGGTGCCCGAGGCT
* *
55538859 CTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-
** *
55538924 TGCCGACAGTGTCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
* *
55538944 CCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
55539008 TTGCCGATGGTGCCCGAGGCT
65 -TGCCGATGGTGCCCGAGGCT
* * * ** * * * *
55539029 CCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-G
* *
55539094 TGCCGATGGTGTCCGGGGCT
65 TGCCGATGGTGCCCGAGGCT
* *
55539114 CCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55539176 TGCTACCGGA
Statistics
Matches: 696, Mismatches: 115, Indels: 37
0.82 0.14 0.04
Matches are distributed among these distances:
84 47 0.07
85 487 0.70
86 162 0.23
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (84 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
GCCGATGGTGCCCGAGGCT
Found at i:55538632 original size:128 final size:127
Alignment explanation
Indices: 55538284--55539175 Score: 981
Period size: 128 Copynumber: 7.0 Consensus size: 127
55538274 GGCACCAAGG
** * *
55538284 TGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGTTGCCGATGGTGTCCGAGGCT
1 TGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCT
* * * * *
55538347 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGG
64 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGT
* * * *
55538412 TGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCGAGG-TGCCGATGGTGGCCGAGGCCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
** *** * *
55538476 CGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
66 CGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-T
* * *
55538540 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
* *
55538605 CGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
66 CGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GT
** * * *
55538668 TGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
* * * * * * *
55538733 CGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGGCCTATT
66 CGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGT
* * * *
55538795 TTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGGTTC
1 TGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
* *
55538860 TCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
65 CCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GT
** * * ** * *
55538924 TGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCGAGG-TGCTGATGGTGCCCGAGGCTC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
** * * ** *
55538987 CCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCGAG
65 CCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAG
*
55539050 G
127 T
* ** * * * * * *
55539051 TGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
* *
55539116 TGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
66 CGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55539176 TGCTACCGGA
Statistics
Matches: 631, Mismatches: 115, Indels: 37
0.81 0.15 0.05
Matches are distributed among these distances:
126 2 0.00
127 194 0.31
128 400 0.63
129 35 0.06
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (127 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
CGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGT
Found at i:55539208 original size:11 final size:11
Alignment explanation
Indices: 55539192--55539256 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
55539182 CGGAACGGTT
55539192 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55539203 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55539216 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55539227 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55539240 CGCCGGAGCAC
1 CGCCGGAGCAC
55539251 CGCCGG
1 CGCCGG
55539257 GAACCTAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 18 0.43
12 12 0.29
13 12 0.29
ACGTcount: A:0.15, C:0.40, G:0.42, T:0.03
Consensus pattern (11 bp):
CGCCGGAGCAC
Found at i:55539213 original size:24 final size:24
Alignment explanation
Indices: 55539181--55539258 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
55539171 GCCTATGCTA
* *
55539181 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55539205 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55539229 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55539253 CCGGGA
1 CCGGGA
55539259 ACCTAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55539221 original size:13 final size:13
Alignment explanation
Indices: 55539203--55539245 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
55539193 GCCGGAGCAC
55539203 CGCCGGGACGGAT
1 CGCCGGGACGGAT
* *
55539216 CGCC-GGA-GCAC
1 CGCCGGGACGGAT
55539227 CGCCGGGACGGAT
1 CGCCGGGACGGAT
55539240 CGCCGG
1 CGCCGG
55539246 AGCACCGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.14, C:0.37, G:0.44, T:0.05
Consensus pattern (13 bp):
CGCCGGGACGGAT
Found at i:55539516 original size:42 final size:42
Alignment explanation
Indices: 55539467--55539567 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 42
55539457 ACTTTAGCTT
* * *
55539467 TGGTGCTCAAGGCTCCCGCT-CATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCG-TACATCCAAGCACCAAGGTACCGA
55539509 TGGTGCTCGAGGCTCCCGTACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGTACATCCAAGCACCAAGGTACCGA
55539551 TGGTGCTCGAGGCTCCC
1 TGGTGCTCGAGGCTCCC
55539568 CACGACCAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.19, C:0.35, G:0.28, T:0.19
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGTACATCCAAGCACCAAGGTACCGA
Found at i:55543146 original size:28 final size:27
Alignment explanation
Indices: 55543085--55543173 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
55543075 ACTCAGATAT
* *
55543085 CACTTGGTTCAAAACTTGGCTCGAATAC
1 CACTTGGTTC-GAACCTGGCTCGAATAC
*
55543113 CACTTGGTTTGAACCTGGCTCGAATATC
1 CACTTGGTTCGAACCTGGCTCGAATA-C
* *
55543141 TC-CTTGGTTCGAACCTTGCTCGGATAC
1 -CACTTGGTTCGAACCTGGCTCGAATAC
55543168 CACTTG
1 CACTTG
55543174 TCACGGGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 19 0.37
28 31 0.60
29 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (27 bp):
CACTTGGTTCGAACCTGGCTCGAATAC
Found at i:55545449 original size:22 final size:22
Alignment explanation
Indices: 55545421--55545467 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
55545411 TGATGCGGTT
* * *
55545421 ATGTTTAACGTACTAAGCTCTC
1 ATGTTTAACGAACTAAACCCTC
55545443 ATGTTTAACGAACTAAACCCTC
1 ATGTTTAACGAACTAAACCCTC
55545465 ATG
1 ATG
55545468 GCCGCCGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (22 bp):
ATGTTTAACGAACTAAACCCTC
Found at i:55548172 original size:15 final size:15
Alignment explanation
Indices: 55548152--55548183 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55548142 AGTACGTTAA
55548152 ACATGAGAGCTTAGT
1 ACATGAGAGCTTAGT
55548167 ACATGAGAGCTTAGT
1 ACATGAGAGCTTAGT
55548182 AC
1 AC
55548184 GTTAGCCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (15 bp):
ACATGAGAGCTTAGT
Found at i:55550529 original size:22 final size:22
Alignment explanation
Indices: 55550501--55550550 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
55550491 GTCCCTAAAC
55550501 GCTTAGTACGTGAAACATGAGA
1 GCTTAGTACGTGAAACATGAGA
* **
55550523 GCTTAGTACGTTAGCCATGAGA
1 GCTTAGTACGTGAAACATGAGA
55550545 GCTTAG
1 GCTTAG
55550551 CCACCCCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (22 bp):
GCTTAGTACGTGAAACATGAGA
Found at i:55550933 original size:43 final size:42
Alignment explanation
Indices: 55550863--55551762 Score: 760
Period size: 43 Copynumber: 21.2 Consensus size: 42
55550853 TCTTCTTTAG
*
55550863 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCT
* *
55550907 CCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* * *
55550949 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCT
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCT
** * * *
55550992 CCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCC
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** *** *
55551034 CCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGGCT
* ** ** * *
55551077 CTCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCT
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* ** * *
55551120 CTCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
* *
55551163 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* *
55551205 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** * * *
55551247 CCCGCACGA-CCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* * * *
55551290 CCCGCACATCCCAGCA-CTAGGGGCCGATGGTGTCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
* * *
55551331 CCCGCACATCCCAGCACCTAGGGGCCGATGGTGCCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** ** *
55551373 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
** ** * *
55551416 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGGTT
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
*
55551459 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** * ** *
55551501 CCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
* *
55551544 CCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGGCT
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCT
** *
55551586 CCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCT
* * *
55551629 CCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
** *** ** ** * * *
55551671 CCTTCATGGCCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCT
1 CCCGCACATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCT
* *
55551714 CCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGCT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
55551756 CCCGCAC
1 CCCGCAC
55551763 GACCAAGGGC
Statistics
Matches: 718, Mismatches: 116, Indels: 46
0.82 0.13 0.05
Matches are distributed among these distances:
41 35 0.05
42 310 0.43
43 363 0.51
44 10 0.01
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (42 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:55551018 original size:85 final size:84
Alignment explanation
Indices: 55550863--55551775 Score: 960
Period size: 85 Copynumber: 10.7 Consensus size: 84
55550853 TCTTCTTTAG
* ** *
55550863 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAA
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* *
55550927 GTTGCCGATGGTGTCCGAGGCT
63 GGTGCCGATGGTGCCCGAGGCT
* * * *
55550949 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGG
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
* *
55551014 TGCCGATGGTGGCCGAGGCC
65 TGCCGATGGTGCCCGAGGCT
** *** * * *
55551034 CCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCTTAG
1 CCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
55551098 TTTGCCGATGGTGCCCGAGCCT
64 -GTGCCGATGGTGCCCGAGGCT
* ** * * ** *
55551120 CTCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCACCAA
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* *
55551183 GGTGTCGATGGTGCTCGAGGCT
63 GGTGCCGATGGTGCCCGAGGCT
* * *
55551205 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-G
*
55551270 TGCCGATGGTGTCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
* * * * * **
55551290 CCCGCACATCCCAGCA-CTAGGGGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGG
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
*
55551353 GGCCGATGGTGCCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
** ** * *
55551373 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAG
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
* *
55551437 TTTGCCGATGGTGCCCGAGGTT
64 -GTGCCGATGGTGCCCGAGGCT
*
55551459 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-
** *
55551524 TGCCGACAGTGTCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
* *
55551544 CCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
55551608 TTGCCGATGGTGCCCGAGGCT
65 -TGCCGATGGTGCCCGAGGCT
* * * ** * * * *
55551629 CCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-G
* *
55551694 TGCCGATGGTGTCCGGGGCT
65 TGCCGATGGTGCCCGAGGCT
* *
55551714 CCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55551776 TGCTACCGGA
Statistics
Matches: 685, Mismatches: 121, Indels: 43
0.81 0.14 0.05
Matches are distributed among these distances:
83 30 0.04
84 78 0.11
85 451 0.66
86 126 0.18
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (84 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
GCCGATGGTGCCCGAGGCT
Found at i:55551836 original size:23 final size:24
Alignment explanation
Indices: 55551781--55551857 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
55551771 GCCTATGCTA
* *
55551781 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55551805 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55551829 -CGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55551852 CCGGGA
1 CCGGGA
55551858 ACCTAACCGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
23 23 0.46
24 27 0.54
ACGTcount: A:0.17, C:0.36, G:0.42, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55551962 original size:24 final size:25
Alignment explanation
Indices: 55551920--55551968 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
55551910 CCGTCACCTC
55551920 CCCCCTAAAGAGCTAAAAAAACTTG
1 CCCCCTAAAGAGCTAAAAAAACTTG
55551945 CCCCCTAAAGAGCT-AAAAAACTTG
1 CCCCCTAAAGAGCTAAAAAAACTTG
55551969 GTCAATGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.43, C:0.29, G:0.12, T:0.16
Consensus pattern (25 bp):
CCCCCTAAAGAGCTAAAAAAACTTG
Found at i:55552110 original size:42 final size:42
Alignment explanation
Indices: 55552061--55552393 Score: 301
Period size: 42 Copynumber: 7.9 Consensus size: 42
55552051 ACTTTAGCTT
* * *
55552061 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
55552103 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
55552145 TGGTGCTCGAGGCTCCCGCACGA-CCAAG-GCCTAGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGA
** * *
55552187 CAGTG-TCCGA-GCTCCCGTACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* * * **
55552228 TGGT-CTCCGAGGCTTCC-CACAACCAAGGGCA-TAATTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAA--GCACCAAGGTGCCGA
* *
55552270 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
55552312 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
55552355 TGGTG-TCTGA-GCTCCCACACATCCGAGCCACCAAGGTGC
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTGC
55552394 TGGAGGCTCT
Statistics
Matches: 237, Mismatches: 36, Indels: 36
0.77 0.12 0.12
Matches are distributed among these distances:
40 3 0.01
41 37 0.16
42 166 0.70
43 31 0.13
ACGTcount: A:0.21, C:0.34, G:0.27, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:55552229 original size:83 final size:86
Alignment explanation
Indices: 55552114--55552339 Score: 295
Period size: 83 Copynumber: 2.7 Consensus size: 86
55552104 GGTGCTCGAG
* * *
55552114 GCTCCCGCACATCCA-AGCACCAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAA-GGCCT
1 GCTCCCGCACATCCATAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAACCAAGGGCAT
*
55552177 AGGTTGCCGACAGTGTCCGA-
66 AAGTTGCCGACAGTGTCCGAT
* * *
55552197 GCTCCCGTACAT-CATAGCACCGAGGTGCCGATGGT-CTCCGAGGCTTCC-CACAACCAAGGGCA
1 GCTCCCGCACATCCATAGCACCAAGGTGCCGATGGTGCT-CGAGGCTCCCGCACAACCAAGGGCA
* **
55552259 TAATTTGCCGATGGTGTCCGAT
65 TAAGTTGCCGACAGTGTCCGAT
*
55552281 GCTCCCGCACATCCAT-GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAG
1 GCTCCCGCACATCCATAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAACCAAG
55552340 CATCAAGGTT
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
82 12 0.10
83 58 0.48
84 38 0.31
85 14 0.11
ACGTcount: A:0.21, C:0.35, G:0.27, T:0.17
Consensus pattern (86 bp):
GCTCCCGCACATCCATAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAACCAAGGGCAT
AAGTTGCCGACAGTGTCCGAT
Found at i:55553951 original size:22 final size:22
Alignment explanation
Indices: 55553923--55554071 Score: 217
Period size: 22 Copynumber: 6.8 Consensus size: 22
55553913 GGTTCGTATT
*
55553923 CGTACTAAGCTCTCATGTTTCA
1 CGTACTAAGCTCTCATGTTTAA
55553945 CGTACTAAGCTCTCATGTTTAA
1 CGTACTAAGCTCTCATGTTTAA
55553967 CGTACTAAGCTCTCATGTTTAA
1 CGTACTAAGCTCTCATGTTTAA
* * * **
55553989 CGAACTAAACCCTCATGGCTAA
1 CGTACTAAGCTCTCATGTTTAA
**
55554011 CGTACTAAGCTCTCATGGCTAA
1 CGTACTAAGCTCTCATGTTTAA
*
55554033 CGTACTAAGCTCTCATGTTTCA
1 CGTACTAAGCTCTCATGTTTAA
55554055 CGTACTAAGCTCTCATG
1 CGTACTAAGCTCTCATG
55554072 CCGAAGCCGG
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 115 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (22 bp):
CGTACTAAGCTCTCATGTTTAA
Found at i:55556507 original size:22 final size:22
Alignment explanation
Indices: 55556482--55556544 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
55556472 GTCGCTGAGG
55556482 ACGTTAGCCATGAGAGCTTAGT
1 ACGTTAGCCATGAGAGCTTAGT
* *
55556504 ACGTTAGCCATGAGGGTTTAGT
1 ACGTTAGCCATGAGAGCTTAGT
* **
55556526 TCGTTAAACATGAGAGCTT
1 ACGTTAGCCATGAGAGCTT
55556545 CGCCGTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (22 bp):
ACGTTAGCCATGAGAGCTTAGT
Found at i:55561151 original size:43 final size:42
Alignment explanation
Indices: 55560256--55561141 Score: 1081
Period size: 43 Copynumber: 20.8 Consensus size: 42
55560246 TTTCCTTTAG
* * * *
55560256 CCCGTACATCCTAGGCACCAAGGTGCCGATGGTGCTCGAGGTT
1 CCCGCACATCCGA-GCACCAAGGTGCCGATGCTGCTCGAGGCT
* * *
55560299 CCCGCACATCCAAGCATCAAGGTTGCCGATGGTG-TCCGAGGCT
1 CCCGCACATCCGAGCACCAAGG-TGCCGATGCTGCT-CGAGGCT
* *
55560342 CCCGCACATCCGAGCCCCCAAGGTGCCGATGCTGGTCGAGGCT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
*
55560385 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGGTCGAGGCT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* *
55560428 CCCGCACATCCCAACACCAAGGTGCCGATGCTGCTCGAGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * * *
55560470 CCCTCACATCCGAGCCACCAATGTACCGATGGTGCACGAGGCT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * * * *
55560513 CCCCCACATCCAAGCACCAAGGTACCGATGCTGATAGAGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
*
55560555 CCCGCACATCCGAGGCACCAAGGTGCCGGTGCTGCTCGAGGCT
1 CCCGCACATCCGA-GCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
55560598 CCCGCACATCCCAGCACCAAGGTACCGGTTCTGCTCGAGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
55560640 CCCGTACATCCAAGCACCAAGGTGCCGATGGTGCTCCAGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* *
55560682 CCCGCACATCCGAGCCACCAGGGTGCCGATGGTGCTCGAGGCT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * * * *
55560725 GCCACACATCCAAGCACCAAGGTGCCGACGGTGCTCGAGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
*
55560767 CCCGCACATCCGAGCCACCAAGGTGCCGATGCGGCTCGAGGCT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
55560810 CCCGCACATCCCAGCAGCAAGGTGCCGATGCTCCTCGGGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
*
55560852 CCCGCAGATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * *
55560895 CCCACACATCCAAGCACCAAGATGCCGATGCTGCTCGAGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * * *
55560937 CCCGCACATCCGAGCCACCAAGGTGTCGGTTCTGCTCAAGACT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * *
55560980 CCCGTACATCCAAGCACCAAGGTGCCGATGCTGCTCGAGTCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
55561022 CCCGCATATCCGAGCCACCAAGGTGACGATGGTGGTCGAGGCT
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * *
55561065 CCCGTACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCT
1 CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
*
55561107 CCCGCACATCCGGGCCACCAAGGTGCCGATGCTGC
1 CCCGCACATCCGAG-CACCAAGGTGCCGATGCTGC
55561142 CATGTGCTCC
Statistics
Matches: 729, Mismatches: 102, Indels: 24
0.85 0.12 0.03
Matches are distributed among these distances:
42 338 0.46
43 384 0.53
44 7 0.01
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (42 bp):
CCCGCACATCCGAGCACCAAGGTGCCGATGCTGCTCGAGGCT
Found at i:55561163 original size:85 final size:85
Alignment explanation
Indices: 55560256--55561141 Score: 1150
Period size: 85 Copynumber: 10.4 Consensus size: 85
55560246 TTTCCTTTAG
* * * * * *
55560256 CCCGTACATCCTAGGCACCAAGGTGCCGATGGTGCTCGAGGTTCCCGCACATCCAAGCATCAAGG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
*
55560321 TTGCCGATGGTG-TCCGAGGCT
66 -TGCCGATGCTGCT-CGAGGCT
* * *
55560342 CCCGCACATCCGAGCCCCCAAGGTGCCGATGCTGGTCGAGGCTCCCGCACATCCGAGCCACCAAG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAG-CACCAAG
*
55560407 GTGCCGATGCTGGTCGAGGCT
65 GTGCCGATGCTGCTCGAGGCT
* * * * *
55560428 CCCGCACATCCCA-ACACCAAGGTGCCGATGCTGCTCGAGGCTCCCTCACATCCGAGCCACCAAT
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAG-CACCAAG
* * *
55560492 GTACCGATGGTGCACGAGGCT
65 GTGCCGATGCTGCTCGAGGCT
* * * * * *
55560513 CCCCCACATCCAAG-CACCAAGGTACCGATGCTGATAGAGGCTCCCGCACATCCGAGGCACCAAG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCC-AAGCACCAAG
*
55560577 GTGCCGGTGCTGCTCGAGGCT
65 GTGCCGATGCTGCTCGAGGCT
* * * * *
55560598 CCCGCACATCCCAG-CACCAAGGTACCGGTTCTGCTCGAGGCTCCCGTACATCCAAGCACCAAGG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
* *
55560662 TGCCGATGGTGCTCCAGGCT
66 TGCCGATGCTGCTCGAGGCT
* * * *
55560682 CCCGCACATCCGAGCCACCAGGGTGCCGATGGTGCTCGAGGCTGCCACACATCCAAGCACCAAGG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
* *
55560747 TGCCGACGGTGCTCGAGGCT
66 TGCCGATGCTGCTCGAGGCT
* * *
55560767 CCCGCACATCCGAGCCACCAAGGTGCCGATGCGGCTCGAGGCTCCCGCACATCCCAGCAGCAAGG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
* *
55560832 TGCCGATGCTCCTCGGGGCT
66 TGCCGATGCTGCTCGAGGCT
* * *
55560852 CCCGCAGATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCACACATCCAAGCACCAAGA
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
55560917 TGCCGATGCTGCTCGAGGCT
66 TGCCGATGCTGCTCGAGGCT
* * * * * *
55560937 CCCGCACATCCGAGCCACCAAGGTGTCGGTTCTGCTCAAGACTCCCGTACATCCAAGCACCAAGG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
*
55561002 TGCCGATGCTGCTCGAGTCT
66 TGCCGATGCTGCTCGAGGCT
* * * * *
55561022 CCCGCATATCCGAGCCACCAAGGTGACGATGGTGGTCGAGGCTCCCGTACATCCAAGCACCAAGG
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
*
55561087 TGCCGATGGTGCTCGAGGCT
66 TGCCGATGCTGCTCGAGGCT
*
55561107 CCCGCACATCCGGGCCACCAAGGTGCCGATGCTGC
1 CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGC
55561142 CATGTGCTCC
Statistics
Matches: 696, Mismatches: 99, Indels: 11
0.86 0.12 0.01
Matches are distributed among these distances:
84 40 0.06
85 569 0.82
86 79 0.11
87 8 0.01
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (85 bp):
CCCGCACATCCGAGCCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG
TGCCGATGCTGCTCGAGGCT
Found at i:55564703 original size:42 final size:42
Alignment explanation
Indices: 55564650--55564816 Score: 199
Period size: 42 Copynumber: 3.9 Consensus size: 42
55564640 ACTTCAGCTT
* * * * *
55564650 TGGTGCTCGAGGCTTCTGCACATCCTAGCACCAACGTGTCGA
1 TGGTGGTCGAGGCTCCTGCACATCCGAGCACCAAGGTGCCGA
* *
55564692 TAGTGGTCGAGGCTCCCGCACATCCGAGCACCAAGGTTGCCGA
1 TGGTGGTCGAGGCTCCTGCACATCCGAGCACCAAGG-TGCCGA
*
55564735 TGGTGGCCGAGGCTCCTGCACATCCGAGCACCAAGGTGCCGA
1 TGGTGGTCGAGGCTCCTGCACATCCGAGCACCAAGGTGCCGA
* * * * *
55564777 TGGTGCTCGAGGCTCCCGCATATCTGAGCCACTAAGGTGC
1 TGGTGGTCGAGGCTCCTGCACATCCGAG-CACCAAGGTGC
55564817 TTAAGGCTCT
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 59 0.55
43 48 0.45
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (42 bp):
TGGTGGTCGAGGCTCCTGCACATCCGAGCACCAAGGTGCCGA
Found at i:55564765 original size:85 final size:86
Alignment explanation
Indices: 55564657--55564814 Score: 228
Period size: 85 Copynumber: 1.8 Consensus size: 86
55564647 CTTTGGTGCT
* * * *
55564657 CGAGGCTTCTGCACATCCTAGCACCAACGTGTCGATAGTGGTCGAGGCTCCCGCACATCCGAG-C
1 CGAGGCTCCTGCACATCCGAGCACCAACGTGCCGATAGTGCTCGAGGCTCCCGCACATCCGAGCC
55564721 ACCAAGGTTGCCGATGGTGGC
66 ACCAAGGTTGCCGATGGTGGC
* * * *
55564742 CGAGGCTCCTGCACATCCGAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCATATCTGAGCC
1 CGAGGCTCCTGCACATCCGAGCACCAACGTGCCGATAGTGCTCGAGGCTCCCGCACATCCGAGCC
*
55564807 ACTAAGGT
66 ACCAAGGT
55564815 GCTTAAGGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
85 55 0.87
86 8 0.13
ACGTcount: A:0.20, C:0.32, G:0.29, T:0.18
Consensus pattern (86 bp):
CGAGGCTCCTGCACATCCGAGCACCAACGTGCCGATAGTGCTCGAGGCTCCCGCACATCCGAGCC
ACCAAGGTTGCCGATGGTGGC
Found at i:55565418 original size:43 final size:43
Alignment explanation
Indices: 55565293--55565453 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 43
55565283 GGATGGTGCT
** * *
55565293 CGAGGCTCCCGTACATCTGAGGCACCAAGGTGCGGATAG-TGCT-
1 CGAGGCTCCCGCGCATCTGAGCCACCAAGGTGCCGAT-GCTG-TG
* * * * *
55565336 CGAGGCTCCGGCACATCCGA-CCTCCTAGGTGCCGATGCTGCT-
1 CGAGGCTCCCGCGCATCTGAGCCACCAAGGTGCCGATGCTG-TG
* * *
55565378 CGGGGCT-CCGACGCAT-TCGAGCCGCCAAGGTGCCGGTGCTGTG
1 CGAGGCTCCCG-CGCATCT-GAGCCACCAAGGTGCCGATGCTGTG
55565421 CGAGGCTCCCGCGCATCTGAGCCACCAAGGTGC
1 CGAGGCTCCCGCGCATCTGAGCCACCAAGGTGC
55565454 TGGCTGTGGG
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.03
42 29 0.31
43 59 0.62
44 4 0.04
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (43 bp):
CGAGGCTCCCGCGCATCTGAGCCACCAAGGTGCCGATGCTGTG
Found at i:55571012 original size:22 final size:22
Alignment explanation
Indices: 55570984--55571038 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
55570974 AGGCCTGCTT
55570984 TGAGAGCTTAGTACGTGAAACA
1 TGAGAGCTTAGTACGTGAAACA
* **
55571006 TGAGAGCTTAGTACGTTAGCCA
1 TGAGAGCTTAGTACGTGAAACA
55571028 TGAGAGCTTAG
1 TGAGAGCTTAG
55571039 CCAGGAGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (22 bp):
TGAGAGCTTAGTACGTGAAACA
Found at i:55572927 original size:43 final size:42
Alignment explanation
Indices: 55572885--55573821 Score: 927
Period size: 43 Copynumber: 22.0 Consensus size: 42
55572875 CCCAGCACCA
** *
55572885 AGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCA
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCT
* * * ** *
55572928 AGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCTAGCCACCG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GGCCT
* *
55572971 AGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGGCCG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* * *
55573013 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* *
55573055 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
** * *
55573097 ATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTT
1 A-GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* * ** *
55573140 AGTTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCACCA
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCT
* *
55573183 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* *
55573225 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
** *
55573267 AGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGGCCT
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* * * **
55573310 AGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCT
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCT
* * * *
55573353 AGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGGCCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
** * *
55573395 ATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTT
1 AGGTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* * *
55573438 AGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCT
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* ** *
55573481 AGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGAACCA
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCT
*
55573524 AGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
** * * ** *
55573566 AGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGCCT
*
55573609 AGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* ** *
55573651 AGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCT
* ** * * *
55573694 AGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* * * * * ** *
55573736 AGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCACCA
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCT
55573779 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
55573821 A
1 A
55573822 TGCTACCGGA
Statistics
Matches: 741, Mismatches: 129, Indels: 49
0.81 0.14 0.05
Matches are distributed among these distances:
42 350 0.47
43 387 0.52
44 4 0.01
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.15
Consensus pattern (42 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
Found at i:55573020 original size:85 final size:84
Alignment explanation
Indices: 55572885--55573821 Score: 1013
Period size: 85 Copynumber: 11.0 Consensus size: 84
55572875 CCCAGCACCA
* * *
55572885 AGGTGCCGATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGC
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
* ** *
55572950 TCCCGCAC-ATCCTAGCCACCG
65 TCCCGCACGA-CCAAG-GGCCT
* ** * *
55572971 AGGTGCCGATGCTGCCCGAGGCTCCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
* *
55573035 CCCCGCACGACCAAGGGCCG
65 TCCCGCACGACCAAGGGCCT
* * ** ** *
55573055 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTA-GGTGCCGATGGTGCCCGAGG
*
55573119 CTCCCGCACGACCAAGGGCTT
64 CTCCCGCACGACCAAGGGCCT
* * * * *
55573140 AGTTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
55573205 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
* * ** ** *
55573225 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTAGG-TGCCGATGGTGCCCGAGG
55573289 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * * * * *
55573310 AGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
*
55573375 ACCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * ** * *
55573395 ATTTTCTCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAG
1 AGGTGC-CGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTAG-GTGCCGATGGTGCCCGAG
* *
55573459 CCTCTCGCACGACCAAGGGCCT
63 GCTCCCGCACGACCAAGGGCCT
* * * *
55573481 AGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGAACCAAGGTGCCGATGGTGCTCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
55573546 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * * *
55573566 AGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCA-AGCACCTAGGTGCCGATGGTGCCCGAGG
55573630 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * *
55573651 AGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
** * * *
55573716 TCCTTCATGGCCAAGGGCTT
65 TCCCGCACGACCAAGGGCCT
* * * * * *
55573736 AGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
55573801 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
55573821 A
1 A
55573822 TGCTACCGGA
Statistics
Matches: 717, Mismatches: 117, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
84 81 0.11
85 489 0.68
86 145 0.20
87 2 0.00
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.15
Consensus pattern (84 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCT
CCCGCACGACCAAGGGCCT
Found at i:55573854 original size:11 final size:11
Alignment explanation
Indices: 55573838--55573902 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
55573828 CGGAACGGTT
55573838 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55573849 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55573862 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55573873 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55573886 CGCCGGAGCAC
1 CGCCGGAGCAC
55573897 CGCCGG
1 CGCCGG
55573903 GAACCTAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 18 0.43
12 12 0.29
13 12 0.29
ACGTcount: A:0.15, C:0.40, G:0.42, T:0.03
Consensus pattern (11 bp):
CGCCGGAGCAC
Found at i:55573859 original size:24 final size:24
Alignment explanation
Indices: 55573827--55573904 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
55573817 GCCTATGCTA
* *
55573827 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55573851 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55573875 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55573899 CCGGGA
1 CCGGGA
55573905 ACCTAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55573867 original size:13 final size:13
Alignment explanation
Indices: 55573849--55573891 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
55573839 GCCGGAGCAC
55573849 CGCCGGGACGGAT
1 CGCCGGGACGGAT
* *
55573862 CGCC-GGA-GCAC
1 CGCCGGGACGGAT
55573873 CGCCGGGACGGAT
1 CGCCGGGACGGAT
55573886 CGCCGG
1 CGCCGG
55573892 AGCACCGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.14, C:0.37, G:0.44, T:0.05
Consensus pattern (13 bp):
CGCCGGGACGGAT
Found at i:55574202 original size:22 final size:22
Alignment explanation
Indices: 55574177--55574242 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
55574167 CTCCCGCACA
55574177 TTAACGTACTAAGCTCTCATGT
1 TTAACGTACTAAGCTCTCATGT
* * * *
55574199 TTAACGAACTAAACCCTCATGG
1 TTAACGTACTAAGCTCTCATGT
*
55574221 CTAACGTACTAAGCTCTCATGT
1 TTAACGTACTAAGCTCTCATGT
55574243 CCGAGGCTCC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (22 bp):
TTAACGTACTAAGCTCTCATGT
Found at i:55574367 original size:42 final size:42
Alignment explanation
Indices: 55574240--55574445 Score: 170
Period size: 42 Copynumber: 4.9 Consensus size: 42
55574230 TAAGCTCTCA
* *
55574240 TGTCCGAGGCTCCCGTACAT-CATAGCACCGAGGTGCCGATGG
1 TGTCCGAGGCTCCCGCACATCCAT-GCACCAAGGTGCCGATGG
* * * * * ** *
55574282 TCTCCGAGGCTTCC-CACAACCAAGGGCA-TAATTTGCCCATGG
1 TGTCCGAGGCTCCCGCACATCC-A-TGCACCAAGGTGCCGATGG
*
55574324 TGTCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGATGG
1 TGTCCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGATGG
* * *
55574366 TG-CTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGATGG
1 TGTC-CGAGGCTCCCGCACATCCATGCACCAAGG-TGCCGATGG
* *
55574409 TGTCTGAGGCTCCCACACATCCGA-GCCACCAAGGTGC
1 TGTCCGAGGCTCCCGCACATCC-ATG-CACCAAGGTGC
55574446 TGGAGGCTCT
Statistics
Matches: 127, Mismatches: 27, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
41 7 0.06
42 72 0.57
43 39 0.31
44 9 0.07
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (42 bp):
TGTCCGAGGCTCCCGCACATCCATGCACCAAGGTGCCGATGG
Found at i:55576108 original size:22 final size:22
Alignment explanation
Indices: 55576046--55576117 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
55576036 ATTGTTCAAA
* **
55576046 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
55576068 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
55576090 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
55576112 CATGAG
1 CATGAG
55576118 TCCCCACCTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:55578790 original size:22 final size:22
Alignment explanation
Indices: 55578736--55578778 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
55578726 TCGCTTGTTC
55578736 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
55578758 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
55578779 TAGCCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:55579029 original size:22 final size:22
Alignment explanation
Indices: 55579004--55579046 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
55578994 TGGGTTGTTC
55579004 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
55579026 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
55579047 TACCAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:55580546 original size:22 final size:22
Alignment explanation
Indices: 55580467--55580538 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
55580457 ATTGTTCAAA
* **
55580467 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
55580489 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
55580511 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
55580533 CATGAG
1 CATGAG
55580539 GGTTTAGTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:55582427 original size:42 final size:41
Alignment explanation
Indices: 55582350--55583244 Score: 755
Period size: 43 Copynumber: 21.0 Consensus size: 41
55582340 ATCCCAGGCA
**
55582350 CCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCACATCCAAGCA
1 CCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACA-CCAAGGG
* * * **
55582393 CCAAGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCTAGCCA
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAG-GG
* *
55582436 CCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
* *
55582478 CCGAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
* * *
55582520 CCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
*** *
55582562 CCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
** * **
55582605 CTTAGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGGG
* * **
55582648 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACATCCAAGCA
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGGG
* *
55582690 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
* * * **
55582732 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGGG
* * * * *
55582775 CCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
* ** *
55582817 CCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGC-CGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
** * * *
55582860 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
* * **
55582903 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGGG
*
55582946 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
* ** * * **
55582988 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACACCA-AGGG
* ** *
55583031 CCGAGGTGCTTATGGTGCCCGAGGCTCCCTCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
* * **
55583073 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGGG
* * ** **
55583116 CCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCA-CACCAAGGG
** * * * * * **
55583158 CTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCA
1 CCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGGG
55583201 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGGG
55583243 CC
1 CC
55583245 TATGCTACCG
Statistics
Matches: 700, Mismatches: 129, Indels: 47
0.80 0.15 0.05
Matches are distributed among these distances:
42 346 0.49
43 350 0.50
44 4 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (41 bp):
CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACACCAAGGG
Found at i:55582488 original size:85 final size:84
Alignment explanation
Indices: 55582333--55583246 Score: 994
Period size: 85 Copynumber: 10.7 Consensus size: 84
55582323 TCTTCTTTAG
* ** *
55582333 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAA
1 CCCGCACAT-CCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* *
55582397 GTTGCCGATGGTGTCCGAGGCT
63 GGTGCCGATGGTGCCCGAGGCT
* * * *
55582419 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGG
1 CCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
*
55582484 TGCCGATGGTGGCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
** * * * *
55582504 CCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATT
1 CCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-G
* *
55582568 TTACCGATGGTGCCCGAGGCT
64 GTGCCGATGGTGCCCGAGGCT
** ** * ** *
55582589 CCCGCACGA-CCAAGGGCTTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCACCAA
1 CCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTA
* *
55582652 GGTGTCGATGGTGCTCGAGGCT
63 GGTGCCGATGGTGCCCGAGGCT
* *
55582674 CCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-
*
55582739 TGCCGATGGTGTCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
* * * * * * **
55582759 CCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGGCCTATTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
*
55582824 TCTCGATGGTGCCCGAGGCT
66 GC-CGATGGTGCCCGAGGCT
** ** * * *
55582844 CCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAG
1 CCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG
*
55582908 GTTGCCGATGGTGCCCGAGGTT
64 G-TGCCGATGGTGCCCGAGGCT
*
55582930 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-
** *
55582995 TGCCGACAGTGTCCGAGGCT
65 TGCCGATGGTGCCCGAGGCT
* ** *
55583015 CCCGCACAT-CATAGCACCGAGGTGCTTATGGTGCCCGAGGCTCCCTCACGACCAAGGGCCTAGG
1 CCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG
55583079 TTGCCGATGGTGCCCGAGGCT
65 -TGCCGATGGTGCCCGAGGCT
* * * ** * * * *
55583100 CCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAGTT
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-G
* *
55583165 TGCCGATGGTGTCCGGGGCT
65 TGCCGATGGTGCCCGAGGCT
* *
55583185 CCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55583247 TGCTACCGGA
Statistics
Matches: 697, Mismatches: 114, Indels: 35
0.82 0.13 0.04
Matches are distributed among these distances:
84 81 0.12
85 490 0.70
86 124 0.18
87 2 0.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (84 bp):
CCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
GCCGATGGTGCCCGAGGCT
Found at i:55583279 original size:11 final size:11
Alignment explanation
Indices: 55583263--55583327 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
55583253 CGGAACGGTT
55583263 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55583274 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55583287 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55583298 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55583311 CGCCGGAGCAC
1 CGCCGGAGCAC
55583322 CGCCGG
1 CGCCGG
55583328 GAACCTAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 18 0.43
12 12 0.29
13 12 0.29
ACGTcount: A:0.15, C:0.40, G:0.42, T:0.03
Consensus pattern (11 bp):
CGCCGGAGCAC
Found at i:55583284 original size:24 final size:24
Alignment explanation
Indices: 55583252--55583329 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
55583242 GCCTATGCTA
* *
55583252 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55583276 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55583300 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55583324 CCGGGA
1 CCGGGA
55583330 ACCTAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55583292 original size:13 final size:13
Alignment explanation
Indices: 55583274--55583316 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
55583264 GCCGGAGCAC
55583274 CGCCGGGACGGAT
1 CGCCGGGACGGAT
* *
55583287 CGCC-GGA-GCAC
1 CGCCGGGACGGAT
55583298 CGCCGGGACGGAT
1 CGCCGGGACGGAT
55583311 CGCCGG
1 CGCCGG
55583317 AGCACCGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.14, C:0.37, G:0.44, T:0.05
Consensus pattern (13 bp):
CGCCGGGACGGAT
Found at i:55583588 original size:42 final size:42
Alignment explanation
Indices: 55583539--55583874 Score: 319
Period size: 42 Copynumber: 7.9 Consensus size: 42
55583529 ACTTTAGCTT
* * *
55583539 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
55583581 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
** *
55583623 TGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGA
** * *
55583666 CAGTG-TCCGAGGCTCCCGTACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* * ** *
55583708 TGGT-CTCCGAGGCTTCC-CACAACCAAG-GGCATAGTTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCA-AG-GTGCCGA
* *
55583750 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
55583792 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
55583835 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGTGC
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTGC
55583875 TGGAGGCTCT
Statistics
Matches: 240, Mismatches: 38, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.00
41 7 0.03
42 153 0.64
43 70 0.29
44 9 0.04
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:55585039 original size:22 final size:22
Alignment explanation
Indices: 55584960--55585031 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
55584950 ATTGTTCAAA
* **
55584960 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
55584982 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
55585004 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
55585026 CATGAG
1 CATGAG
55585032 GGTTTAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:55591824 original size:43 final size:42
Alignment explanation
Indices: 55591771--55592710 Score: 782
Period size: 43 Copynumber: 22.0 Consensus size: 42
55591761 ATCCCAGGCA
* **
55591771 CCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCA
1 CCAAGTTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * **
55591814 CCAAGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCTAGCCA
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GG
* * * * **
55591857 CCGAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCGAGCCA
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GG
* *
55591900 CCAAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * *
55591942 CCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** *
55591984 CCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * *
55592027 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55592070 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * *
55592113 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** *
55592155 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * **
55592198 CCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* ** * * * *
55592241 CCTAGGGGCCGATGGCGGCCGACGCACCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55592283 CCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * *
55592326 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55592369 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* *
55592412 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** * * **
55592454 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGG
* * *
55592497 CCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55592539 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * ** * *
55592582 CCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * * * **
55592624 CTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
*
55592667 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
55592709 CC
1 CC
55592711 TATGCTACCG
Statistics
Matches: 719, Mismatches: 153, Indels: 51
0.78 0.17 0.06
Matches are distributed among these distances:
42 262 0.36
43 451 0.63
44 6 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (42 bp):
CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:55591950 original size:85 final size:84
Alignment explanation
Indices: 55591774--55592712 Score: 956
Period size: 85 Copynumber: 11.0 Consensus size: 84
55591764 CCAGGCACCA
* *
55591774 AGGTGCCGATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGC
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
* ** *
55591839 TCCCGCAC-ATCCTAGCCACCG
65 TCCCGCACGA-CCAAG-GGCCT
* * *
55591860 AGGTGCCGATGCTGCCCGAGGCTCCCGCACATCCGAGCCACCAAGGTGCCGATGGTGGCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAG-CACCAAGGTGCCGATGGTGCCCGAGGC
*
55591925 TCCCGCACGACCAAGGGCCG
65 TCCCGCACGACCAAGGGCCT
* * ** *** *
55591945 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCCGAGG
*
55592009 CTCCCGCACGACCAAGGGCTT
64 CTCCCGCACGACCAAGGGCCT
* * * ** *
55592030 AGTTTGCCGATGGTGCCCGAGCCTCTCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAG
* ** *
55592094 GTTCCCGCAC-ATCCAAGCACCA
63 GCTCCCGCACGA-CCAAGGGCCT
* * ** * ** *
55592116 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCCGAGG
55592180 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * * * * * * *
55592201 AGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGACGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
*
55592266 ACCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * ** ** *
55592286 ATTTTCTCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAG
1 AGGTGC-CGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAG-GTGCCGATGGTGCCCGAG
* *
55592350 CCTCTCGCACGACCAAGGGCCT
63 GCTCCCGCACGACCAAGGGCCT
* *
55592372 AGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
55592437 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * * *
55592457 AGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGATGGTGCCCGAGG
55592521 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * *
55592542 AGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
** * * *
55592607 TCCTTCATGGCCAAGGGCTT
65 TCCCGCACGACCAAGGGCCT
* * * * *
55592627 AGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGC
55592692 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
55592712 A
1 A
55592713 TGCTACCGGA
Statistics
Matches: 716, Mismatches: 119, Indels: 37
0.82 0.14 0.04
Matches are distributed among these distances:
84 7 0.01
85 490 0.68
86 216 0.30
87 3 0.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (84 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
CCCGCACGACCAAGGGCCT
Found at i:55591997 original size:128 final size:125
Alignment explanation
Indices: 55591768--55592712 Score: 874
Period size: 128 Copynumber: 7.4 Consensus size: 125
55591758 CACATCCCAG
** * * *
55591768 GCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGTTGCCGATGGTGT
1 GCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGC
* * * *
55591832 CCGAGGCTCCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCGA
64 CCGAGGCTCCCGCACA-CCAAG-CACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* * *
55591896 GCCACCAAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGC
1 G-CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGCC
* ** ** *
55591961 CGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAA
65 CGAGGCTCCCGCAC-ACCAAGCACCTA-GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** ** * * *
55592024 GGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGC
1 GCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TGCCGATGGTGC
* * * *
55592089 CCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAA
64 CCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * ** * * *
55592152 GGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGT
1 GCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-GTGCCGATGGTGC
* * * * * *
55592217 CCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGACGCACCCGCACGACCAA
64 CCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * ** * * *
55592280 GGGCCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGC
1 GCACCAAGGTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-GTGCCGATGGTGC
* * ** *
55592345 CCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAA
64 CCGAGGCTCCCGCAC-ACCAAGCACCTAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
* ** *
55592409 GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTC
1 GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TGCCGATGGTGCC
* * *
55592474 CGAGGCTCCCGCACATCATAGCACCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAA
65 CGAGGCTCCCGCACACCA-AGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
** * * ** * *
55592536 GGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCGAGGTGCCGATGGCGC
1 GCACCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGC
** ** ** * * * * * *
55592600 CCGAGGCTCCTTCATGGCCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTA
64 CCGAGGCTCCCGCA-CACCAAGCACCTAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAA
55592664 GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55592713 TGCTACCGGA
Statistics
Matches: 666, Mismatches: 128, Indels: 47
0.79 0.15 0.06
Matches are distributed among these distances:
127 107 0.16
128 477 0.72
129 82 0.12
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (125 bp):
GCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGCCC
GAGGCTCCCGCACACCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA
Found at i:55592323 original size:299 final size:299
Alignment explanation
Indices: 55591777--55592699 Score: 1129
Period size: 299 Copynumber: 3.1 Consensus size: 299
55591767 GGCACCAAGG
* *
55591777 TGCCGATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTG-TCCGAGGCTC
1 TGCCGAT-GGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCT-CGAGGCTC
* ** * * * *
55591841 CCGCAC-ATCCTAGCCACCGAGG-TGCCGA-TGCTGCCCGAGGCTCCCGCACATCCGAGCCACCA
64 CCGCACGA-CCAAG-GGCCTAGGTTGCCGACAG-TGTCCGAGGCTCCCGCACATCCAAGCCACCA
** * * * *
55591903 AGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCC
126 AGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGCACCGAGGGGCCGATGGCGGCCGACGCA
55591968 CCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGT
191 CCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGT
55592033 TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGT
256 TTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGT
*
55592077 TGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
** * *
55592142 GCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGA-CCAAG-GGCCTAGTT
66 GCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCCAAGCCACCAAG-G
* * *
55592205 TGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGGGGCCGATGGCGGCCGACGCACC
129 TGCCGATGGTGGCCGAGGCTCCCGCACGA-CCAAGCACCGAGGGGCCGATGGCGGCCGACGCACC
55592269 CGCACGACCAAGGGCCTATTTT-CTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
193 CGCACGACCAAGGGCCTATTTTAC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
55592333 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGT
257 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGT
55592376 TGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
1 TGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
*
55592441 GCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAG-CACCGAGGT
66 GCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCCA-AGCCACCAAGGT
* * ** * * * * * *
55592504 GCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
130 GCCGATGGTGGCCGAGGCTCCCGCACGACCAAGCACCGAGG-GGCCGATGGCGGCCGACGCACCC
* ** * ** * * ** * *
55592569 GCAC-ATCGAAGCACCGA-GGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGGCTTAGTTT
194 GCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
* * * * ** *
55592632 GCCGATGGTGTCCGGGGCTC-CTGCAC-ATCCTAGCACCAAGG-
258 GCCGATGGTGCCCGAGCCTCTC-GCACGA-CCAAGGGCCTAGGT
*
55592673 TGCCGATGGTGCCCGAGGCTCCCGCAC
1 TGCCGATGGTGCCCGAGGTTCCCGCAC
55592700 GACCAAGGGC
Statistics
Matches: 550, Mismatches: 57, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
297 28 0.05
298 117 0.21
299 394 0.72
300 11 0.02
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (299 bp):
TGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCC
GCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCCAAGCCACCAAGGTG
CCGATGGTGGCCGAGGCTCCCGCACGACCAAGCACCGAGGGGCCGATGGCGGCCGACGCACCCGC
ACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCC
GATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGT
Found at i:55592745 original size:11 final size:11
Alignment explanation
Indices: 55592729--55592793 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
55592719 CGGAACGGTT
55592729 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55592740 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55592753 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55592764 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55592777 CGCCGGAGCAC
1 CGCCGGAGCAC
55592788 CGCCGG
1 CGCCGG
55592794 GAACCTAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 18 0.43
12 12 0.29
13 12 0.29
ACGTcount: A:0.15, C:0.40, G:0.42, T:0.03
Consensus pattern (11 bp):
CGCCGGAGCAC
Found at i:55592750 original size:24 final size:24
Alignment explanation
Indices: 55592718--55592795 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
55592708 GCCTATGCTA
* *
55592718 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55592742 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55592766 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55592790 CCGGGA
1 CCGGGA
55592796 ACCTAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55592758 original size:13 final size:13
Alignment explanation
Indices: 55592740--55592782 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
55592730 GCCGGAGCAC
55592740 CGCCGGGACGGAT
1 CGCCGGGACGGAT
* *
55592753 CGCC-GGA-GCAC
1 CGCCGGGACGGAT
55592764 CGCCGGGACGGAT
1 CGCCGGGACGGAT
55592777 CGCCGG
1 CGCCGG
55592783 AGCACCGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.14, C:0.37, G:0.44, T:0.05
Consensus pattern (13 bp):
CGCCGGGACGGAT
Found at i:55593054 original size:42 final size:42
Alignment explanation
Indices: 55593005--55593340 Score: 319
Period size: 42 Copynumber: 7.9 Consensus size: 42
55592995 ACTTTAGCTT
* * *
55593005 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
55593047 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
** *
55593089 TGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGA
** * *
55593132 CAGTG-TCCGAGGCTCCCGTACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* * * **
55593174 TGGT-CTCCGAGGCTTCC-CACAACCAAGGGCA-TAATTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAA--GCACCAAGGTGCCGA
* *
55593216 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
55593258 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
55593301 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGTGC
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTGC
55593341 TGGAGGCTCT
Statistics
Matches: 240, Mismatches: 38, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
41 7 0.03
42 156 0.65
43 70 0.29
44 7 0.03
ACGTcount: A:0.21, C:0.34, G:0.27, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:55594590 original size:22 final size:22
Alignment explanation
Indices: 55594532--55594590 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
55594522 GAATGGTATC
55594532 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
55594554 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
55594577 TACATATCAAATCT
1 TACAAATCAAATCT
55594591 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:55611635 original size:43 final size:42
Alignment explanation
Indices: 55611582--55612520 Score: 832
Period size: 43 Copynumber: 22.0 Consensus size: 42
55611572 ATCCCAGGCA
* **
55611582 CCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCA
1 CCAAGTTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * **
55611625 CCAAGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCTAGCCA
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GG
* * *
55611668 CCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55611710 CCGAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * *
55611752 CCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** *
55611794 CCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * *
55611837 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55611880 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * *
55611923 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** *
55611965 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * **
55612008 CCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* ** * * *
55612051 CCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55612093 CCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * *
55612136 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55612179 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* *
55612222 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** * * **
55612264 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGG
* * *
55612307 CCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55612349 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCA
1 CC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * ** * *
55612392 CCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * * * **
55612434 CTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCA
1 CCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
*
55612477 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
55612519 CC
1 CC
55612521 TATGCTACCG
Statistics
Matches: 723, Mismatches: 148, Indels: 51
0.78 0.16 0.06
Matches are distributed among these distances:
42 304 0.42
43 413 0.57
44 6 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (42 bp):
CCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:55611720 original size:85 final size:83
Alignment explanation
Indices: 55611585--55612522 Score: 944
Period size: 85 Copynumber: 11.0 Consensus size: 83
55611575 CCAGGCACCA
* * *
55611585 AGGTGCCGATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGC
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
* ** *
55611650 TCCCGCAC-ATCCTAGCCACCG
64 TCCCGCACGA-CCAAG-GGCCT
* ** * *
55611671 AGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCTAGGTGCCGATGGTGCCCGAGGCT
*
55611736 CCCGCACGACCAAGGGCCG
65 CCCGCACGACCAAGGGCCT
* * ** ** *
55611755 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCTA-GGTGCCGATGGTGCCCGAGGC
*
55611820 TCCCGCACGACCAAGGGCTT
64 TCCCGCACGACCAAGGGCCT
* * * **
55611840 AGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCTAGG-TGCCGATGGTGCCCGAGG
* ** *
55611905 TTCCCGCAC-ATCCAAGCACCA
63 CTCCCGCACGA-CCAAGGGCCT
* * ** ** *
55611926 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCTAGG-TGCCGATGGTGCCCGAGGC
55611991 TCCCGCACGACCAAGGGCCT
64 TCCCGCACGACCAAGGGCCT
* * * * * *
55612011 AGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
*
55612076 ACCCGCACGACCAAGGGCCT
64 TCCCGCACGACCAAGGGCCT
** * ** * * *
55612096 ATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGC
1 AGGTGC-CGATGGTGCCCGAGGCTCCCGCAC-ACCAAGCACCTAG-GTGCCGATGGTGCCCGAGG
*
55612161 CTCTCGCACGACCAAGGGCCT
63 CTCCCGCACGACCAAGGGCCT
* * *
55612182 AGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
55612247 TCCCGCACGACCAAGGGCCT
64 TCCCGCACGACCAAGGGCCT
** * * * *
55612267 AGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGGTGCTGATGGTGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACACCA-AGCACCTAGGTGCCGATGGTGCCCGAGGC
55612332 TCCCGCACGACCAAGGGCCT
64 TCCCGCACGACCAAGGGCCT
* * *
55612352 AGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
** * * *
55612417 TCCTTCATGGCCAAGGGCTT
64 TCCCGCACGACCAAGGGCCT
* * * * * *
55612437 AGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACA-CCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
55612502 TCCCGCACGACCAAGGGCCT
64 TCCCGCACGACCAAGGGCCT
55612522 A
1 A
55612523 TGCTACCGGA
Statistics
Matches: 719, Mismatches: 116, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
84 47 0.07
85 487 0.68
86 183 0.25
87 2 0.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (83 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACACCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTC
CCGCACGACCAAGGGCCT
Found at i:55611936 original size:128 final size:127
Alignment explanation
Indices: 55611588--55612522 Score: 972
Period size: 128 Copynumber: 7.3 Consensus size: 127
55611578 GGCACCAAGG
** *
55611588 TGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGTTGCCGATGGTGTCCGAGGCT
1 TGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCT
* * * * *
55611651 CCCGCACATCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGG
64 CCCGCACATCCAAG-CACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGT
* * * *
55611716 TGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCGAGG-TGCCGATGGTGGCCGAGGCCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTCC
** ** * *
55611780 CGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
66 CGCAC-ATCCAAGCACCTA-GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-T
* * * *
55611844 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTCC
* * *
55611909 CGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
66 CGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GT
** * *
55611972 TGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTCC
* * * * * *
55612037 CGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGGCCTATT
66 CGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGT
* * * * *
55612099 TTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTC
1 TGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTC
* ** * ** *
55612164 TCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCACCAAG
65 CCGCAC-ATCCAAGCACCTAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAG
*
55612227 G
127 T
* **
55612228 TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTCC
* *
55612293 CGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
66 CGCACATCCA-AGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GT
* ** * * *
55612356 TGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCGAGG-TGCCGATGGCGCCCGAGGCTC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTC
** *** ** * * * * * * ** * *
55612419 CTTCATGGCCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCACCAAGG
65 CCGCACATCCAAGCACCTAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGT
55612483 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
55612523 TGCTACCGGA
Statistics
Matches: 665, Mismatches: 121, Indels: 43
0.80 0.15 0.05
Matches are distributed among these distances:
126 3 0.00
127 193 0.29
128 403 0.61
129 66 0.10
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (127 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCCGAGGCTCC
CGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGT
Found at i:55612555 original size:11 final size:11
Alignment explanation
Indices: 55612539--55612603 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
55612529 CGGAACGGTT
55612539 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55612550 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55612563 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55612574 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55612587 CGCCGGAGCAC
1 CGCCGGAGCAC
55612598 CGCCGG
1 CGCCGG
55612604 GAACCTAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 18 0.43
12 12 0.29
13 12 0.29
ACGTcount: A:0.15, C:0.40, G:0.42, T:0.03
Consensus pattern (11 bp):
CGCCGGAGCAC
Found at i:55612560 original size:24 final size:24
Alignment explanation
Indices: 55612528--55612605 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
55612518 GCCTATGCTA
* *
55612528 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55612552 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55612576 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55612600 CCGGGA
1 CCGGGA
55612606 ACCTAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55612568 original size:13 final size:13
Alignment explanation
Indices: 55612550--55612592 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
55612540 GCCGGAGCAC
55612550 CGCCGGGACGGAT
1 CGCCGGGACGGAT
* *
55612563 CGCC-GGA-GCAC
1 CGCCGGGACGGAT
55612574 CGCCGGGACGGAT
1 CGCCGGGACGGAT
55612587 CGCCGG
1 CGCCGG
55612593 AGCACCGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.14, C:0.37, G:0.44, T:0.05
Consensus pattern (13 bp):
CGCCGGGACGGAT
Found at i:55612864 original size:42 final size:42
Alignment explanation
Indices: 55612815--55613150 Score: 319
Period size: 42 Copynumber: 7.9 Consensus size: 42
55612805 ACTTTAGCTT
* * *
55612815 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
55612857 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
** *
55612899 TGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGA
** * *
55612942 CAGTG-TCCGAGGCTCCCGTACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* * * **
55612984 TGGT-CTCCGAGGCTTCC-CACAACCAAGGGCA-TAATTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAA--GCACCAAGGTGCCGA
* *
55613026 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
55613068 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
55613111 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGTGC
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTGC
55613151 TGGAGGCTCT
Statistics
Matches: 240, Mismatches: 38, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
41 7 0.03
42 156 0.65
43 70 0.29
44 7 0.03
ACGTcount: A:0.21, C:0.34, G:0.27, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:55621140 original size:42 final size:42
Alignment explanation
Indices: 55621067--55622003 Score: 848
Period size: 42 Copynumber: 22.0 Consensus size: 42
55621057 ATCCCAGGCA
**
55621067 CCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCA
1 CCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * **
55621110 CCAAGTTGCCGATGCTGCCCGAGGCTCCCGCAC-ATCCGAGCCA
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAG-GG
* *
55621153 CCAAGGTGCCGATGGTGGCCGAGTCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* *
55621195 CCGAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
55621237 CCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
*** *
55621279 CCTATTTTACCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CC-AAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * **
55621322 CTTAGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * **
55621364 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCAC-ATCCAAGCA
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* *
55621406 CCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** *
55621448 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * * **
55621491 CCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCA
1 CCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * * *
55621534 CCTAGGGGCCGATGGCGGCCGAGGCACCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** *
55621576 CCTATTTTCTCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGC-CGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * *
55621619 CTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGG
1 CCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55621662 CCTAGGTTGCCGATGGTGCCCGAGGTTCCCGCAC-ATCCAAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
*
55621705 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** * * **
55621747 CCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGG
* *
55621790 CCGAGGTGCTGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * **
55621832 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCA
1 CCAAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * ** * *
55621875 CCGAGGTGCCGATGGCGCCCGAGGCTCCTTCATGGCCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * * * * **
55621917 CTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCAC-ATCCTAGCA
1 CCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
55621960 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
1 CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
55622002 CC
1 CC
55622004 TATGCTACCG
Statistics
Matches: 740, Mismatches: 131, Indels: 47
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.00
42 381 0.51
43 354 0.48
44 4 0.01
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (42 bp):
CCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:55621217 original size:85 final size:84
Alignment explanation
Indices: 55621070--55622005 Score: 986
Period size: 85 Copynumber: 11.0 Consensus size: 84
55621060 CCAGGCACCA
* * *
55621070 AGGTGCCGATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGCTGCCCGAGGC
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
* ** *
55621135 TCCCGCAC-ATCCGAGCCACCA
65 TCCCGCACGA-CCAAG-GGCCT
* * ** * *
55621156 AGGTGCCGATGGTGGCCGAGTCTCCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
*
55621220 TCCCGCACGACCAAGGGCCG
65 TCCCGCACGACCAAGGGCCT
* * ** ** *
55621240 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGA-CCAAGGGCCTATTTTACCGATGGTGCCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTA-GGTGCCGATGGTGCCCGAGG
*
55621304 CTCCCGCACGACCAAGGGCTT
64 CTCCCGCACGACCAAGGGCCT
* * * * *
55621325 AGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCT
** *
55621390 CCCGCAC-ATCCAAGCACCA
66 CCCGCACGA-CCAAGGGCCT
* * ** ** *
55621409 AGGTGTCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTAGG-TGCCGATGGTGCCCGAGG
55621473 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * * * * *
55621494 AGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGGGCCGATGGCGGCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
*
55621559 ACCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * ** * *
55621579 ATTTTCTCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCTTAGTTTGCCGATGGTGCCCGAG
1 AGGTGC-CGATGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCTAG-GTGCCGATGGTGCCCGAG
* *
55621643 CCTCTCGCACGACCAAGGGCCT
63 GCTCCCGCACGACCAAGGGCCT
* * *
55621665 AGGTTGCCGATGGTGCCCGAGGTTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
55621730 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * * *
55621750 AGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCTGATGGTGCCCGAGG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCA-AGCACCTAGGTGCCGATGGTGCCCGAGG
55621814 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * *
55621835 AGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGC
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
** * * *
55621900 TCCTTCATGGCCAAGGGCTT
65 TCCCGCACGACCAAGGGCCT
* * * * * *
55621920 AGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACCAAGGTGCCGATGGTGCCCGAGGC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGC
55621985 TCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
55622005 A
1 A
55622006 TGCTACCGGA
Statistics
Matches: 710, Mismatches: 122, Indels: 37
0.82 0.14 0.04
Matches are distributed among these distances:
83 1 0.00
84 114 0.16
85 479 0.67
86 114 0.16
87 2 0.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (84 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGCCCGAGGCT
CCCGCACGACCAAGGGCCT
Found at i:55622038 original size:11 final size:11
Alignment explanation
Indices: 55622022--55622086 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
55622012 CGGAACGGTT
55622022 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55622033 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55622046 CGCCGGAGCAC
1 CGCCGGAGCAC
* *
55622057 CGCCGGGACGGAT
1 CGCC-GGA-GCAC
55622070 CGCCGGAGCAC
1 CGCCGGAGCAC
55622081 CGCCGG
1 CGCCGG
55622087 GAACCTAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 18 0.43
12 12 0.29
13 12 0.29
ACGTcount: A:0.15, C:0.40, G:0.42, T:0.03
Consensus pattern (11 bp):
CGCCGGAGCAC
Found at i:55622043 original size:24 final size:24
Alignment explanation
Indices: 55622011--55622088 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
55622001 GCCTATGCTA
* *
55622011 CCGGAACGGTTCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55622035 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55622059 CCGGGACGGATCGCCGGAGCACCG
1 CCGGGACGGATCGCCGGAGCACCG
55622083 CCGGGA
1 CCGGGA
55622089 ACCTAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.41, T:0.05
Consensus pattern (24 bp):
CCGGGACGGATCGCCGGAGCACCG
Found at i:55622051 original size:13 final size:13
Alignment explanation
Indices: 55622033--55622075 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
55622023 GCCGGAGCAC
55622033 CGCCGGGACGGAT
1 CGCCGGGACGGAT
* *
55622046 CGCC-GGA-GCAC
1 CGCCGGGACGGAT
55622057 CGCCGGGACGGAT
1 CGCCGGGACGGAT
55622070 CGCCGG
1 CGCCGG
55622076 AGCACCGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.14, C:0.37, G:0.44, T:0.05
Consensus pattern (13 bp):
CGCCGGGACGGAT
Found at i:55622345 original size:42 final size:42
Alignment explanation
Indices: 55622296--55622631 Score: 310
Period size: 42 Copynumber: 7.9 Consensus size: 42
55622286 ACTTTAGCTT
* * *
55622296 TGGTGCTCAAGGCTCCCGCTCATCCATGCACCAAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
55622338 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
** *
55622380 TGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGA
** * * *
55622423 CAGTG-TCCGAGGCTCCCGTACAT-GATAGCACCGAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* * * **
55622465 TGGT-CTCCGAGGCTTCC-CACAACCAAGGGCA-TAATTTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAA--GCACCAAGGTGCCGA
* *
55622507 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
55622549 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
55622592 TGGTG-TCTGAGGCTCCCACACATCCGAGCCACCAAGGTGC
1 TGGTGCTC-GAGGCTCCCGCACATCCAAG-CACCAAGGTGC
55622632 TGGAGGCTCT
Statistics
Matches: 238, Mismatches: 40, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
41 7 0.03
42 154 0.65
43 70 0.29
44 7 0.03
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.18
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Done.