Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold301
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1229110
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 128216 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:810472 original size:166 final size:165
Alignment explanation
Indices: 810141--810721 Score: 576
Period size: 166 Copynumber: 3.5 Consensus size: 165
810131 AGAAAATTTC
* * *
810141 AAAAACCTTCTTCTCACG-AACCATTAGGCCAGGAAAGCTGAAACTTTTGTGGAAGCAT-CTTCA
1 AAAAATCTTCTTCTCA-GAAACCATTTGGCCAGGAAAGCTGAAACTTATGTGGAAGCATCCTT-A
* * *
810204 -GGTAGTTTAGATTCAAATTTGTGTGAAAATCATGACCC-TCGGGGGTAGGATGGGGCCACATTG
64 GGGTAGTGTAGATTCAAA-GT-TGTGAAAATCATGACCCTTC-GGGGTAGGATGGGGCCACAATG
*
810267 GGGTGTTGACTTTTTACATAGGAATATATAGAGTAAATCTTT
126 GGG-GTTGACTTTTTACA-AAGAATATATAGAGTAAATCTTT
* * ** *
810309 AAAAATCTTCTTCTCAGAAAGCAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTT-GG
1 AAAAATCTTCTTCTCAGAAACCATTTGGCCAGGAAAGCTGAAACTTATGTGGAAGCATCCTTAGG
* * *
810373 GTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCTTTGGGGTAGGGTGGGGCCACAAAGGGGAG
66 GTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCTTCGGGGTAGGATGGGGCCACAATGGGG-G
* *
810438 TTGACTTTTTTCAAATGAATA-ATTAGAATAAATCTTT
130 TTGACTTTTTACAAA-GAATATA-TAGAGTAAATCTTT
* * * * * *
810475 GAAATTCTTCTTCTCA-AGAACCATTTGGCAAGAAAAGTTGAAACTTATGTGGAAGAATCCTTAG
1 AAAAATCTTCTTCTCAGA-AACCATTTGGCCAGGAAAGCTGAAACTTATGTGGAAGCATCCTTAG
* * * * * *
810539 CCGAAGAATCCTTAAATTCAAGGTTGTGAAAATCATGA-CC-TCGGGAATAGGATGGGGCCACAA
65 -GGTAG--T--GTAGATTCAAAGTTGTGAAAATCATGACCCTTCGGG-GTAGGATGGGGCCACAA
** *
810602 TTGGGGGTCAAATTTTTACATAAGAATATATAGAGTAAATCTTT
124 -TGGGGGTTGACTTTTTACA-AAGAATATATAGAGTAAATCTTT
** * *
810646 AGCAATCTTC-TC-AAG-AACCATTTGGCCAGGAAAGCTGAAACTTATATGGAAGCATCCTT-GG
1 AAAAATCTTCTTCTCAGAAACCATTTGGCCAGGAAAGCTGAAACTTATGTGGAAGCATCCTTAGG
810707 GTAGTGTAGATTCAA
66 GTAGTGTAGATTCAA
810722 GGATATGAAA
Statistics
Matches: 340, Mismatches: 55, Indels: 42
0.78 0.13 0.10
Matches are distributed among these distances:
162 8 0.02
164 1 0.00
165 3 0.01
166 122 0.36
167 5 0.01
168 108 0.32
169 4 0.01
170 7 0.02
171 51 0.15
172 31 0.09
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (165 bp):
AAAAATCTTCTTCTCAGAAACCATTTGGCCAGGAAAGCTGAAACTTATGTGGAAGCATCCTTAGG
GTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCTTCGGGGTAGGATGGGGCCACAATGGGGGT
TGACTTTTTACAAAGAATATATAGAGTAAATCTTT
Found at i:830110 original size:32 final size:33
Alignment explanation
Indices: 830036--830120 Score: 118
Period size: 36 Copynumber: 2.5 Consensus size: 33
830026 ACCCTACTAT
830036 GGGGGAAAAGCTACTATATAGTAGCTTTTCCCCCCG
1 GGGGGAAAAGCTACTATATAGTAGCTTTT---CCCG
* *
830072 GGGGGAAAGGCTACTATATAGTAGGTTTT-CCG
1 GGGGGAAAAGCTACTATATAGTAGCTTTTCCCG
830104 GGGGGAAAAGCTACTAT
1 GGGGGAAAAGCTACTAT
830121 GGGGGAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
32 19 0.41
36 27 0.59
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (33 bp):
GGGGGAAAAGCTACTATATAGTAGCTTTTCCCG
Found at i:830137 original size:17 final size:17
Alignment explanation
Indices: 830104--830137 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
830094 AGGTTTTCCG
*
830104 GGGGGAAAAGCTACTAT
1 GGGGGAAAAACTACTAT
*
830121 GGGGGAAAAACTGCTAT
1 GGGGGAAAAACTACTAT
830138 ACAACACCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.35, T:0.18
Consensus pattern (17 bp):
GGGGGAAAAACTACTAT
Found at i:830380 original size:16 final size:16
Alignment explanation
Indices: 830359--830406 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
830349 AACTTAAGTG
830359 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
*
830375 GGACAGACGGACGGAC
1 GGACAGACAGACGGAC
830391 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
830407 TGACGGACGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.40, T:0.00
Consensus pattern (16 bp):
GGACAGACAGACGGAC
Found at i:830415 original size:4 final size:4
Alignment explanation
Indices: 830368--830415 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
830358 GGGACAGACA
* * * *
830368 GACG GACG GACA GACG GACG GACG GACA GACA GACG GACT GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
830416 CAGAGGAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.31, C:0.25, G:0.42, T:0.02
Consensus pattern (4 bp):
GACG
Found at i:830415 original size:12 final size:12
Alignment explanation
Indices: 830359--830414 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
830349 AACTTAAGTG
*
830359 GGACAGACAGAC
1 GGACGGACAGAC
830371 GGACGGACAGAC
1 GGACGGACAGAC
*
830383 GGACGGACGGAC
1 GGACGGACAGAC
* * *
830395 AGACAGACGGAC
1 GGACGGACAGAC
*
830407 TGACGGAC
1 GGACGGAC
830415 GCAGAGGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.39, T:0.02
Consensus pattern (12 bp):
GGACGGACAGAC
Found at i:832483 original size:2 final size:2
Alignment explanation
Indices: 832478--832505 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
832468 ATTTTCGAAA
832478 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
832506 TCATACAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:835567 original size:26 final size:26
Alignment explanation
Indices: 835547--835843 Score: 462
Period size: 26 Copynumber: 11.5 Consensus size: 26
835537 TCTCATTGGT
835547 GCTGTAACTACCAGAGACTCATA-GG
1 GCTGTAACTACCAGAGACTCATACGG
835572 TGCTGTAACTACCAGAGACTCATACGG
1 -GCTGTAACTACCAGAGACTCATACGG
835599 GCTGTAACTACCAGAGACTCATACGG
1 GCTGTAACTACCAGAGACTCATACGG
*
835625 GCTGTAACTACCGGAGACTCATACGG
1 GCTGTAACTACCAGAGACTCATACGG
835651 GCTGTAACTACCAGAGACTCATACGG
1 GCTGTAACTACCAGAGACTCATACGG
835677 GCTGTAACTACCAGAGACTCATACGG
1 GCTGTAACTACCAGAGACTCATACGG
*
835703 GCTGTAACTACCAGAGACACATACGG
1 GCTGTAACTACCAGAGACTCATACGG
*
835729 GCTGTAACTACCAGAGTCTCATACGG
1 GCTGTAACTACCAGAGACTCATACGG
835755 GCTGTAACTACCAGAGACTCATA-GG
1 GCTGTAACTACCAGAGACTCATACGG
* *
835780 TGATGTTACTACC--AGACTCATA-GG
1 -GCTGTAACTACCAGAGACTCATACGG
835804 TGCTGTAACTACCAGAGACTCATA-GG
1 -GCTGTAACTACCAGAGACTCATACGG
*
835830 TGTTGTAACTACCA
1 -GCTGTAACTACCA
835844 CGCTGTAACT
Statistics
Matches: 256, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
24 22 0.09
25 2 0.01
26 230 0.90
27 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (26 bp):
GCTGTAACTACCAGAGACTCATACGG
Found at i:835603 original size:52 final size:52
Alignment explanation
Indices: 835547--836097 Score: 726
Period size: 52 Copynumber: 10.9 Consensus size: 52
835537 TCTCATTGGT
835547 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
1 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
*
835599 GCTGTAACTACCAGAGACTCATACGG-GCTGTAACTACCGGAGACTCATACGG
1 GCTGTAACTACCAGAGACTCATA-GGTGCTGTAACTACCAGAGACTCATACGG
835651 GCTGTAACTACCAGAGACTCATACGG-GCTGTAACTACCAGAGACTCATACGG
1 GCTGTAACTACCAGAGACTCATA-GGTGCTGTAACTACCAGAGACTCATACGG
* *
835703 GCTGTAACTACCAGAGACACATACGG-GCTGTAACTACCAGAGTCTCATACGG
1 GCTGTAACTACCAGAGACTCATA-GGTGCTGTAACTACCAGAGACTCATACGG
* *
835755 GCTGTAACTACCAGAGACTCATAGGTGATGTTACTACC--AGACTCATA-GG
1 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
*
835804 TGCTGTAACTACCAGAGACTCATAGGTGTTGTAACT-------AC-C--AC--
1 -GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
* * * ***
835845 GCTGTAACTACCACAGACTCATAGGTGCTGTAGCTACCACAGACTCATAAAT
1 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
** * *
835897 GCTGTAACTACCAGAGACTCATACATGCTGTAACTATCAGAGACTCATACAG
1 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
*
835949 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATATGG
1 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
* *
836001 GCTGTAACTACCAGAGACTCATATGG-GCTGTAACTACCAAAGACACATACGG
1 GCTGTAACTACCAGAGACTCATA-GGTGCTGTAACTACCAGAGACTCATACGG
* * *
836053 ACTGTAACTACCACAGACTCATAGGTGCTGTAACTACCAAAGACT
1 GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACT
836098 TACAAAGTAA
Statistics
Matches: 448, Mismatches: 33, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
40 32 0.07
42 1 0.00
44 1 0.00
45 2 0.00
47 2 0.00
48 1 0.00
49 2 0.00
50 42 0.09
51 4 0.01
52 357 0.80
53 4 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (52 bp):
GCTGTAACTACCAGAGACTCATAGGTGCTGTAACTACCAGAGACTCATACGG
Found at i:835655 original size:78 final size:78
Alignment explanation
Indices: 835547--836097 Score: 683
Period size: 78 Copynumber: 7.2 Consensus size: 78
835537 TCTCATTGGT
835547 GCTGTAACTACCAGAGACTCATA-GGTGCTGTAACTACCAGAGACTCATACGGGCTGTAACTACC
1 GCTGTAACTACCAGAGACTCATACGG-GCTGTAACTACCAGAGACTCATACGGGCTGTAACTACC
835611 AGAGACTCATACGG
65 AGAGACTCATACGG
*
835625 GCTGTAACTACCGGAGACTCATACGGGCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCA
1 GCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCA
835690 GAGACTCATACGG
66 GAGACTCATACGG
* *
835703 GCTGTAACTACCAGAGACACATACGGGCTGTAACTACCAGAGTCTCATACGGGCTGTAACTACCA
1 GCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCA
835768 GAGACTCATA-GG
66 GAGACTCATACGG
* * *
835780 TGATGTTACTACC--AGACTCATA-GGTGCTGTAACTACCAGAGACTCATA-GGTGTTGTAACT-
1 -GCTGTAACTACCAGAGACTCATACGG-GCTGTAACTACCAGAGACTCATACGG-GCTGTAACTA
835840 ------AC-C--AC--
63 CCAGAGACTCATACGG
* * * * * ***
835845 GCTGTAACTACCACAGACTCATAGGTGCTGTAGCTACCACAGACTCATAAATGCTGTAACTACCA
1 GCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCA
**
835910 GAGACTCATACAT
66 GAGACTCATACGG
* *
835923 GCTGTAACTATCAGAGACTCATACAGGCTGTAACTACCAGAGACTCATA-GGTGCTGTAACTACC
1 GCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCAGAGACTCATACGG-GCTGTAACTACC
*
835987 AGAGACTCATATGG
65 AGAGACTCATACGG
* * * *
836001 GCTGTAACTACCAGAGACTCATATGGGCTGTAACTACCAAAGACACATACGGACTGTAACTACCA
1 GCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCA
*
836066 CAGACTCATA-GG
66 GAGACTCATACGG
*
836078 TGCTGTAACTACCAAAGACT
1 -GCTGTAACTACCAGAGACT
836098 TACAAAGTAA
Statistics
Matches: 412, Mismatches: 37, Indels: 48
0.83 0.07 0.10
Matches are distributed among these distances:
64 10 0.02
66 39 0.09
67 1 0.00
68 1 0.00
69 2 0.00
73 2 0.00
74 1 0.00
75 4 0.01
76 40 0.10
77 4 0.01
78 304 0.74
79 4 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (78 bp):
GCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCAGAGACTCATACGGGCTGTAACTACCA
GAGACTCATACGG
Found at i:835863 original size:40 final size:40
Alignment explanation
Indices: 835805--835884 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
835795 ACTCATAGGT
* *
835805 GCTGTAACTACCAGAGACTCATAGGTGTTGTAACTACCAC
1 GCTGTAACTACCACAGACTCATAGGTGCTGTAACTACCAC
*
835845 GCTGTAACTACCACAGACTCATAGGTGCTGTAGCTACCAC
1 GCTGTAACTACCACAGACTCATAGGTGCTGTAACTACCAC
835885 AGACTCATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCTGTAACTACCACAGACTCATAGGTGCTGTAACTACCAC
Found at i:835881 original size:26 final size:26
Alignment explanation
Indices: 835845--836097 Score: 316
Period size: 26 Copynumber: 9.7 Consensus size: 26
835835 TAACTACCAC
*
835845 GCTGTAACTACCACAGACTCATAGGT
1 GCTGTAACTACCAGAGACTCATAGGT
* * **
835871 GCTGTAGCTACCACAGACTCATAAAT
1 GCTGTAACTACCAGAGACTCATAGGT
**
835897 GCTGTAACTACCAGAGACTCATACAT
1 GCTGTAACTACCAGAGACTCATAGGT
* *
835923 GCTGTAACTATCAGAGACTCATACAG-
1 GCTGTAACTACCAGAGACTCATA-GGT
835949 GCTGTAACTACCAGAGACTCATAGGT
1 GCTGTAACTACCAGAGACTCATAGGT
835975 GCTGTAACTACCAGAGACTCATATGG-
1 GCTGTAACTACCAGAGACTCATA-GGT
836001 GCTGTAACTACCAGAGACTCATATGG-
1 GCTGTAACTACCAGAGACTCATA-GGT
* *
836027 GCTGTAACTACCAAAGACACATACGG-
1 GCTGTAACTACCAGAGACTCATA-GGT
* *
836053 ACTGTAACTACCACAGACTCATAGGT
1 GCTGTAACTACCAGAGACTCATAGGT
*
836079 GCTGTAACTACCAAAGACT
1 GCTGTAACTACCAGAGACT
836098 TACAAAGTAA
Statistics
Matches: 204, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
25 3 0.01
26 199 0.98
27 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (26 bp):
GCTGTAACTACCAGAGACTCATAGGT
Found at i:837189 original size:26 final size:26
Alignment explanation
Indices: 837153--837215 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
837143 TTAGANTACA
*
837153 TGCTGTAACTATCAGAGACTCACAGG
1 TGCTGTAACTATCACAGACTCACAGG
*
837179 TGCTGTAACTATCACAGACTCATAGG
1 TGCTGTAACTATCACAGACTCACAGG
837205 TGCTGTAACTA
1 TGCTGTAACTA
837216 CCAAGCTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (26 bp):
TGCTGTAACTATCACAGACTCACAGG
Found at i:837225 original size:14 final size:14
Alignment explanation
Indices: 837206--837232 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
837196 ACTCATAGGT
837206 GCTGTAACTACCAA
1 GCTGTAACTACCAA
837220 GCTGTAACTACCA
1 GCTGTAACTACCA
837233 CAGACTCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (14 bp):
GCTGTAACTACCAA
Found at i:837235 original size:40 final size:40
Alignment explanation
Indices: 837180--837258 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
837170 ACTCACAGGT
*
837180 GCTGTAACTATCACAGACTCATAGGTGCTGTAACTACCAA
1 GCTGTAACTACCACAGACTCATAGGTGCTGTAACTACCAA
837220 GCTGTAACTACCACAGACTCATAGGTGCTGTAACTACCA
1 GCTGTAACTACCACAGACTCATAGGTGCTGTAACTACCA
837259 CAGACTTACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (40 bp):
GCTGTAACTACCACAGACTCATAGGTGCTGTAACTACCAA
Found at i:839130 original size:166 final size:167
Alignment explanation
Indices: 838941--839313 Score: 597
Period size: 167 Copynumber: 2.2 Consensus size: 167
838931 TTTTTAGTAA
* * * **
838941 AAGATTTTCAAAGATTAACTCTATATATTTCTATGTAAAACTTTGACCTCCCCATTGTGG-CCCC
1 AAGATTTTTAAAGATTAACTCTATATACTCCTATGTAAAACTTCAACCTCCCCATTGTGGCCCCC
* * * *
839005 ACCTTA-TCCTGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACA
66 ACCTTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTAACTGAGGATGCTTCAACA
*
839069 CAAGTTGCAGCTTTTCTGGCCAAATGATTTTTGAGAAG
131 CAAGTT-CAGCTTTTCTAGCCAAATGATTTTTGAGAAG
839107 AAGATTTTTAAAGATTAACTCTATATACTCCTATGTAAAACTTCAACCTCCCCATTGTGGCCCCC
1 AAGATTTTTAAAGATTAACTCTATATACTCCTATGTAAAACTTCAACCTCCCCATTGTGGCCCCC
*
839172 ACCTTACCCCCGGGGACTATGATTTGAACAAACTTGAATCTACACTAACTGAGGATGCTTCAACA
66 ACCTTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTAACTGAGGATGCTTCAACA
* *
839237 GAAGTTCAGCTTTTCTAGCCAAATGGTTTTTGAGAAG
131 CAAGTTCAGCTTTTCTAGCCAAATGATTTTTGAGAAG
*
839274 AAGATTTTTAAAGATTAACTCTGTATACTCCTATGTAAAA
1 AAGATTTTTAAAGATTAACTCTATATACTCCTATGTAAAA
839314 TGTTAACCCA
Statistics
Matches: 191, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
166 55 0.29
167 78 0.41
168 58 0.30
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (167 bp):
AAGATTTTTAAAGATTAACTCTATATACTCCTATGTAAAACTTCAACCTCCCCATTGTGGCCCCC
ACCTTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTAACTGAGGATGCTTCAACA
CAAGTTCAGCTTTTCTAGCCAAATGATTTTTGAGAAG
Found at i:846165 original size:15 final size:15
Alignment explanation
Indices: 846145--846173 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
846135 CACACACACA
846145 CTCTCTCTCTCTCCC
1 CTCTCTCTCTCTCCC
846160 CTCTCTCTCTCTCC
1 CTCTCTCTCTCTCC
846174 TTTTCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (15 bp):
CTCTCTCTCTCTCCC
Found at i:847388 original size:138 final size:138
Alignment explanation
Indices: 847140--847390 Score: 468
Period size: 138 Copynumber: 1.8 Consensus size: 138
847130 ATTTGCATAA
847140 AGAAATATAACCTTCATGAAACAATTTCTCAGTGTTGCCAGACAATGTGTTACCCAAGGGAGATT
1 AGAAATATAACCTTCATGAAACAATTTCTCAGTGTTGCCAGACAATGTGTTACCCAAGGGAGATT
847205 ACTTCAGTTAATTTATACTGATGAAAATACAAAATGACCTGATATGAAAGAGCCAGTAATGTGAA
66 ACTTCAGTTAATTTATACTGATGAAAATACAAAATGACCTGATATGAAAGAGCCAGTAATGTGAA
847270 CAATTTAT
131 CAATTTAT
*
847278 AGAAATATAACCTTCATGAAACAATTTCTCAGTGTTGCCAAGACAATTTGTTACCCAAGGGAGAT
1 AGAAATATAACCTTCATGAAACAATTTCTCAGTGTTGCC-AGACAATGTGTTACCCAAGGGAGAT
*
847343 TACTTCAGTTAATTTATGCTGATGAAAATA-AAAATGACCTGATATGAA
65 TACTTCAGTTAATTTATACTGATGAAAATACAAAATGACCTGATATGAA
847391 TGATTGCATG
Statistics
Matches: 110, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
138 57 0.52
139 53 0.48
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (138 bp):
AGAAATATAACCTTCATGAAACAATTTCTCAGTGTTGCCAGACAATGTGTTACCCAAGGGAGATT
ACTTCAGTTAATTTATACTGATGAAAATACAAAATGACCTGATATGAAAGAGCCAGTAATGTGAA
CAATTTAT
Found at i:865780 original size:168 final size:168
Alignment explanation
Indices: 865486--865938 Score: 662
Period size: 168 Copynumber: 2.7 Consensus size: 168
865476 GCCATGAATT
* * * * * *
865486 TAAGATTTAAAACATTTTTACTATATGGCCATATTGGCTCCACCCTAGAGCCTGAGCCTCTAACA
1 TAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAGCCTGAACCCCTGACC
* * *
865551 GAGGGGTCATGAATTTCACAATTTTGGTAGAGGAG-TT-AGTGGACATTATAACCTGGCATTTAG
66 CAGGGGTCATGAATTTCACAATTTTGGTAGAGG-GCTTCA-TGGACATCATAACATGGCATTTAG
*
865614 TTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTC
129 TTTTTAACAAATATATATGGGAGTAGAAAAGAAGATTTTC
*
865654 TAAGATTTAATACATTTTTACTATATGGTCATATTGGCCCCACCCTAGAGCCTGAACCCCTGACC
1 TAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAGCCTGAACCCCTGA-C
* ** *
865719 CCA-GGGTCATGAATTACACAATTTAAGTAGAGGGCTTCATGGGCATCATAATCAT-GCATTTAG
65 CCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTCATGGACATCATAA-CATGGCATTTAG
865782 TTTTTAACAAATATATATGGGAGTAGAAAAGAAGATTTTC
129 TTTTTAACAAATATATATGGGAGTAGAAAAGAAGATTTTC
* *
865822 TAAGATTTATTACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAGCCAGAACCCCTGACC
1 TAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAGCCTGAACCCCTGACC
* * *
865887 CAGGGGCCATGAATTTCACAATTTTGGTAGAGGGCCTCATGGACACCATAAC
66 CAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTCATGGACATCATAAC
865939 TATGCAACCA
Statistics
Matches: 255, Mismatches: 25, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
167 6 0.02
168 244 0.96
169 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (168 bp):
TAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAGCCTGAACCCCTGACC
CAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTCATGGACATCATAACATGGCATTTAGTT
TTTAACAAATATATATGGGAGTAGAAAAGAAGATTTTC
Found at i:868390 original size:10 final size:10
Alignment explanation
Indices: 868375--868399 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
868365 CTATAAGCGG
868375 AATCTCTCTA
1 AATCTCTCTA
868385 AATCTCTCTA
1 AATCTCTCTA
868395 AATCT
1 AATCT
868400 GTTCAACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AATCTCTCTA
Found at i:872938 original size:50 final size:49
Alignment explanation
Indices: 872863--872960 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 49
872853 CAGGATGTAA
872863 GGCTTATTAGTATCTGGATATGCTAGTAAAGGCACTACCGTTAAACTTNC
1 GGCTTATTAGTATCTGGATATGCTAGTAAAGGCACTACCGTTAAACTT-C
*
872913 GGCTTGTTAGTATCTGGATATGCTAGTAAAGGCACTACCGTTAAACTT
1 GGCTTATTAGTATCTGGATATGCTAGTAAAGGCACTACCGTTAAACTT
872961 TCTTTAATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (49 bp):
GGCTTATTAGTATCTGGATATGCTAGTAAAGGCACTACCGTTAAACTTC
Found at i:876328 original size:10 final size:10
Alignment explanation
Indices: 876313--876337 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
876303 CTATAAGCGG
876313 AATCTCTCTA
1 AATCTCTCTA
876323 AATCTCTCTA
1 AATCTCTCTA
876333 AATCT
1 AATCT
876338 GTTCAACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AATCTCTCTA
Found at i:881887 original size:161 final size:161
Alignment explanation
Indices: 881622--882260 Score: 902
Period size: 161 Copynumber: 3.9 Consensus size: 161
881612 CGTAAACTAG
* * ** *
881622 CTGCAAATAACAGGAATTTTTCTAAGTCCAAGGGGTATAACTCTGTCGAAAATTGCTCTATCATA
1 CTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCATA
* * *
881687 CCCAAAATCACACTTGACCTAGATATTATTATGATAAACCTGTATACCTAA-TTCTATTCCAATA
66 CCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCTAATTTC-ATTCCAATA
881751 TGTTCATCCTCTGCAAAGAAAATGAGCGGAAA
130 TGTTCATCCTCTGCAAAGAAAATGAGCGGAAA
**
881783 CTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTA
1 CTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCATA
* *
881848 CCCAATATCAAACTTGACCTAAATATTATCATGATAAACCTGTATACTTAATTTCATTCCAATAT
66 CCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCTAATTTCATTCCAATAT
*
881913 GTTCATCCTCTGCAAAGAAAATGAGCAGAAA
131 GTTCATCCTCTGCAAAGAAAATGAGCGGAAA
* * * *
881944 CTGCAAATAACTGGAATTTTTCTATGTCCAAGTGCCAATATATAACTTTGTCGAAAATTGCTTGA
1 CTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCC-----ATAACTCTGTCGAAAATTGCTCGA
* * *
882009 TCATACCCAATATCGAATTTGACCTAGATATTATCATGATAAACCTGTATACCTAATTTCATTCA
61 TCATACCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCTAATTTCATTCC
* * *
882074 AATATATTAATCCTCTGCAAAGAAAATGAGTGGAAA
126 AATATGTTCATCCTCTGCAAAGAAAATGAGCGGAAA
* * * *
882110 CTGCAAATAACTGGAATTTTTCTACGTCCAAGTGCCATAACTTTGTCGAAAATTGCTTGATCGTA
1 CTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCATA
* * * * * *
882175 CCCAATATCGAAGTTGACCTAGATATTATCTTGATAAACCTGTATACCAAATTTCCTTTCAATAT
66 CCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCTAATTTCATTCCAATAT
* *
882240 GATCATCCTCTGCGAAGAAAA
131 GTTCATCCTCTGCAAAGAAAA
882261 AACGGAAACT
Statistics
Matches: 432, Mismatches: 40, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
161 282 0.65
162 3 0.01
166 147 0.34
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (161 bp):
CTGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCATA
CCCAATATCAAACTTGACCTAGATATTATCATGATAAACCTGTATACCTAATTTCATTCCAATAT
GTTCATCCTCTGCAAAGAAAATGAGCGGAAA
Found at i:882251 original size:327 final size:327
Alignment explanation
Indices: 881657--882260 Score: 962
Period size: 327 Copynumber: 1.8 Consensus size: 327
881647 GTCCAAGGGG
*
881657 TATAACTCTGTCGAAAATTGCTCTATCATACCCAAAATCACACTTGACCTAGATATTATTATGAT
1 TATAACTCTGTCGAAAATTGCTCTATCATACCCAAAATCACACTTGACCTAGATATTATCATGAT
* * *
881722 AAACCTGTATACCTAATTCTATTCCAATATGTTCATCCTCTGCAAAGAAAATGAGCGGAAACTGC
66 AAACCTGTATACCTAATTCTATTCAAATATATTAATCCTCTGCAAAGAAAATGAGCGGAAACTGC
*
881787 AAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATTGTACCCA
131 AAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCA
** *
881852 ATATCAAACTTGACCTAAATATTATCATGATAAACCTGTATACTTAATTTCATTCCAATATGTTC
196 ATATCAAACTTGACCTAAATATTATCATGATAAACCTGTATACCAAATTTCATTCCAATATGATC
881917 ATCCTCTGCAAAGAAAATGAGCAGAAACTGCAAATAACTGGAATTTTTCTATGTCCAAGTGCCAA
261 ATCCTCTGCAAAGAAAATGAGCAGAAACTGCAAATAACTGGAATTTTTCTATGTCCAAGTGCCAA
881982 TA
326 TA
* * *
881984 TATAACTTTGTCGAAAATTGCT-TGATCATACCCAATATCGA-ATTTGACCTAGATATTATCATG
1 TATAACTCTGTCGAAAATTGCTCT-ATCATACCCAAAATC-ACACTTGACCTAGATATTATCATG
*
882047 ATAAACCTGTATACCTAATT-TCATTCAAATATATTAATCCTCTGCAAAGAAAATGAGTGGAAAC
64 ATAAACCTGTATACCTAATTCT-ATTCAAATATATTAATCCTCTGCAAAGAAAATGAGCGGAAAC
* * *
882111 TGCAAATAACTGGAATTTTTCTACGTCCAAGTGCCATAACTTTGTCGAAAATTGCTTGATCGTAC
128 TGCAAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTAC
* * * * * *
882176 CCAATATCGAAGTTGACCTAGATATTATCTTGATAAACCTGTATACCAAATTTCCTTTCAATATG
193 CCAATATCAAACTTGACCTAAATATTATCATGATAAACCTGTATACCAAATTTCATTCCAATATG
*
882241 ATCATCCTCTGCGAAGAAAA
258 ATCATCCTCTGCAAAGAAAA
882261 AACGGAAACT
Statistics
Matches: 252, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
326 2 0.01
327 249 0.99
328 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (327 bp):
TATAACTCTGTCGAAAATTGCTCTATCATACCCAAAATCACACTTGACCTAGATATTATCATGAT
AAACCTGTATACCTAATTCTATTCAAATATATTAATCCTCTGCAAAGAAAATGAGCGGAAACTGC
AAATAACTGGAATTTTTCTACGTCCAAGGGCCATAACTCTGTCGAAAATTGCTCGATCGTACCCA
ATATCAAACTTGACCTAAATATTATCATGATAAACCTGTATACCAAATTTCATTCCAATATGATC
ATCCTCTGCAAAGAAAATGAGCAGAAACTGCAAATAACTGGAATTTTTCTATGTCCAAGTGCCAA
TA
Found at i:882427 original size:12 final size:12
Alignment explanation
Indices: 882396--882429 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
882386 TAAAAAGTTT
*
882396 ACAGACGAACGG
1 ACAGACGGACGG
*
882408 ACAGACGGATGG
1 ACAGACGGACGG
882420 ACAGACGGAC
1 ACAGACGGAC
882430 AAAATGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.35, T:0.03
Consensus pattern (12 bp):
ACAGACGGACGG
Found at i:884003 original size:180 final size:180
Alignment explanation
Indices: 883694--884061 Score: 673
Period size: 180 Copynumber: 2.0 Consensus size: 180
883684 GTGAAATGGA
883694 GTACCCTTATATGCAACATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAA
1 GTACCC-TATATGCAACATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAA
*
883759 ATTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAA
65 ATTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTAAAATTGATCTGCAAAA
* *
883824 GAGCAACTTCCTATCTTGAAATCTGTAGGAGGAGTTATCCGTACAATGAAG
130 GAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAAG
*
883875 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
1 GTACCCTATATGCAACATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
883940 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTAAAATTGATCTGCAAAAG
66 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTAAAATTGATCTGCAAAAG
* *
884005 AACAACTTCCTATTTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
131 AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAAG
884055 GTACCCT
1 GTACCCT
884062 TTTGGCAGCC
Statistics
Matches: 181, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
180 175 0.97
181 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (180 bp):
GTACCCTATATGCAACATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTAAAATTGATCTGCAAAAG
AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAAG
Found at i:885611 original size:166 final size:166
Alignment explanation
Indices: 885159--885688 Score: 868
Period size: 166 Copynumber: 3.2 Consensus size: 166
885149 AAAGAATCAT
**
885159 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTACATTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
* * *
885224 TCAACCCCCCATTGTGGCCCCTA-CCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTAT
66 TTAACCCCCCATTGTGGCCCC-ACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTAC
885288 ATTATCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
130 ATTATCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
*
885325 CTGGCTGATTAGTTTCTGAGAAAAAGATTTTTTTAAAGATTTACTCTATATATTCCTATGTTAAA
1 CTGGCTGATTAGTTTCTGAGAAGAAGA--TTTTTAAAGATTTACTCTATATATTCCTATGTTAAA
885390 CTTTAACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTA
64 CTTTAACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTA
*
885455 CATTATATGAGGATGCTTCCACACAAGTTTCAGCTTTC
129 CATTATCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
*
885493 CTGGCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
885558 TTAACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
66 TTAACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
* * * *
885623 CTACCTGAGGATGCTTTCACATAAGTTTCAGCTTTC
131 TTATCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
885659 CTGG-T-CTTATGGTTCATGAGAAGAAGATTT
1 CTGGCTGATTA-GTTTC-TGAGAAGAAGATTT
885689 CTGAAAATTT
Statistics
Matches: 343, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
164 3 0.01
165 5 0.01
166 178 0.52
167 1 0.00
168 156 0.45
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (166 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
TTAACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
TTATCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:889207 original size:166 final size:166
Alignment explanation
Indices: 888824--889693 Score: 1523
Period size: 166 Copynumber: 5.2 Consensus size: 166
888814 GAATCATCTT
*
888824 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATCCTATGTAAAACTTTA
1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAAC-TT-
** * * * **
888889 ACCCCCCCCCCTTTGTGGCCTCACCCTACCTCCAAGGGTCATGATTTTCACAACTTTGAATCTAC
64 --CGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTAC
*
888954 ACTACCTGAGGATACTTCC-CACAAGTTTCAGCTTTCCTG
127 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
888993 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
889058 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
66 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
889123 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
131 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
889159 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
889224 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
66 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
889289 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
131 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
*
889325 GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
889390 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
66 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
889455 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
131 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
889491 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
* *
889556 CCCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGAATTTCACAACTTTGAATCTACACTA
66 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
889621 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
131 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
* *
889657 GCT--TTCTGGTTCTTGAGAAGAAGATTTTTGAAA-ATTT
1 GCTGATT-AGTTTC-TGAGAAGAAGATTTTT-AAAGATTT
889694 CTCGAAATTT
Statistics
Matches: 682, Mismatches: 15, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
164 2 0.00
165 78 0.11
166 537 0.79
167 3 0.00
168 2 0.00
169 60 0.09
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (166 bp):
GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCG
ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
CCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG
Found at i:889872 original size:12 final size:12
Alignment explanation
Indices: 889855--889887 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
889845 TGAAAAGTTT
889855 ACGGACAGACGG
1 ACGGACAGACGG
889867 ACGGACAGACGG
1 ACGGACAGACGG
889879 AC-GACAGAC
1 ACGGACAGAC
889888 AAAATGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.36, C:0.27, G:0.36, T:0.00
Consensus pattern (12 bp):
ACGGACAGACGG
Found at i:891440 original size:20 final size:22
Alignment explanation
Indices: 891383--891440 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
891373 ATGCACATGA
891383 ACCATCAGACTTTGGCATGTCAC
1 ACCATCAGACTTTGGCA-GTCAC
891406 ACCCATCAGGA-TTTGGC-G-CAC
1 A-CCATCA-GACTTTGGCAGTCAC
891427 ACCATCAGACTTTG
1 ACCATCAGACTTTG
891441 TTGAGACCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.06
20 10 0.31
21 4 0.12
22 1 0.03
23 1 0.03
24 12 0.38
25 2 0.06
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (22 bp):
ACCATCAGACTTTGGCAGTCAC
Found at i:892809 original size:12 final size:12
Alignment explanation
Indices: 892792--892817 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
892782 AACCCGTATT
892792 AACGGGTTATGC
1 AACGGGTTATGC
892804 AACGGGTTATGC
1 AACGGGTTATGC
892816 AA
1 AA
892818 TTTTTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (12 bp):
AACGGGTTATGC
Found at i:895215 original size:16 final size:16
Alignment explanation
Indices: 895194--895228 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
895184 TCACCAGGAC
* *
895194 GAGGCATTATCTTTAT
1 GAGGCATCACCTTTAT
895210 GAGGCATCACCTTTAT
1 GAGGCATCACCTTTAT
895226 GAG
1 GAG
895229 ACCACCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (16 bp):
GAGGCATCACCTTTAT
Found at i:913588 original size:3 final size:3
Alignment explanation
Indices: 913582--913606 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
913572 AAAAAAATGG
913582 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
913607 GTTCTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:918455 original size:2 final size:2
Alignment explanation
Indices: 918448--918487 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
918438 GATAATTAAA
918448 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
918488 TTATCTCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:921449 original size:16 final size:16
Alignment explanation
Indices: 921411--921460 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
921401 GCAGTTTGAC
* *
921411 TTCGAGAGATCGAGGG
1 TTCGAGAGATCAAGAG
921427 TTTCGAGAGATCAAGAG
1 -TTCGAGAGATCAAGAG
*
921444 TTCGAGAAATCAAGAG
1 TTCGAGAGATCAAGAG
921460 T
1 T
921461 AAATTGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (16 bp):
TTCGAGAGATCAAGAG
Found at i:921527 original size:17 final size:17
Alignment explanation
Indices: 921505--921551 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
921495 CGCTAGACTC
921505 ACTTCGAGCGATCAAGA
1 ACTTCGAGCGATCAAGA
*
921522 ACTTCGAGCAATCAAGA
1 ACTTCGAGCGATCAAGA
921539 ACTTCGAGCGATC
1 ACTTCGAGCGATC
921552 GAAGTTCGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (17 bp):
ACTTCGAGCGATCAAGA
Found at i:930578 original size:19 final size:19
Alignment explanation
Indices: 930547--930759 Score: 105
Period size: 19 Copynumber: 11.3 Consensus size: 19
930537 TACCAATTTT
* *
930547 CTACACCCTTAACACCTAA
1 CTACACCCCTAACAACTAA
* *
930566 CTGCACCCCTAACAACTTA
1 CTACACCCCTAACAACTAA
* *
930585 CAACACCCC-AAGCAACTTA
1 CTACACCCCTAA-CAACTAA
*
930604 CTACTA-CCCTAACATCTAA
1 CTAC-ACCCCTAACAACTAA
*
930623 CTTCACCCCTAACAACTAA
1 CTACACCCCTAACAACTAA
* * **
930642 CTACATCCCTAGCAACTTG
1 CTACACCCCTAACAACTAA
* * * **
930661 TTACAACCCTAGCAACTTG
1 CTACACCCCTAACAACTAA
* *
930680 CTGCAACCCTCACACAA--AA
1 CTACACCCCT-A-ACAACTAA
* * *
930699 CTATACCCCTAACACCTTA
1 CTACACCCCTAACAACTAA
930718 CTACA-CCCTAACAACCT-A
1 CTACACCCCTAACAA-CTAA
* ** *
930736 TTACAATCCTAACACCTAA
1 CTACACCCCTAACAACTAA
930755 CTACA
1 CTACA
930760 TGTACCCTCC
Statistics
Matches: 149, Mismatches: 34, Indels: 22
0.73 0.17 0.11
Matches are distributed among these distances:
17 3 0.02
18 19 0.13
19 120 0.81
20 4 0.03
21 3 0.02
ACGTcount: A:0.36, C:0.39, G:0.03, T:0.21
Consensus pattern (19 bp):
CTACACCCCTAACAACTAA
Found at i:930670 original size:57 final size:56
Alignment explanation
Indices: 930527--930671 Score: 157
Period size: 57 Copynumber: 2.5 Consensus size: 56
930517 CTCGCACCTT
* * *
930527 ACTACATCCCTACCAA-TTTTCTACACCCTTAACACCTAACTGCACCCCTAACAACTT
1 ACTACATCCCTAGCAACTTAT-TACACCC-TAACACCTAACTGCACCCCTAACAACTA
* * * * * *
930584 ACAACACCCCAAGCAACTTACTACTACCCTAACATCTAACTTCACCCCTAACAACTA
1 ACTACATCCCTAGCAACTTATTAC-ACCCTAACACCTAACTGCACCCCTAACAACTA
*
930641 ACTACATCCCTAGCAACTTGTTACAACCCTA
1 ACTACATCCCTAGCAACTTATTAC-ACCCTA
930672 GCAACTTGCT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
57 65 0.92
58 6 0.08
ACGTcount: A:0.34, C:0.39, G:0.03, T:0.23
Consensus pattern (56 bp):
ACTACATCCCTAGCAACTTATTACACCCTAACACCTAACTGCACCCCTAACAACTA
Found at i:932090 original size:2 final size:2
Alignment explanation
Indices: 932083--932136 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
932073 TTAGCTTGAA
932083 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
932125 AG AG AG AG AG AG
1 AG AG AG AG AG AG
932137 GCTAACATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:935651 original size:19 final size:19
Alignment explanation
Indices: 935606--935667 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
935596 TTTACTTGCG
*
935606 GTACTGAGAAACTTAGAAAA
1 GTACTGATAAACTTAG-AAA
* *
935626 ATACTGATAAACTTAGACA
1 GTACTGATAAACTTAGAAA
*
935645 GTACTGATAAAATTAGAGAA
1 GTACTGATAAACTTAGA-AA
935665 GTA
1 GTA
935668 GTGACTCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.24
Consensus pattern (19 bp):
GTACTGATAAACTTAGAAA
Found at i:935713 original size:81 final size:80
Alignment explanation
Indices: 935561--935713 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 80
935551 ACAATGTACT
* * *
935561 GACAGTACTGATAAACTTATAAAAGTACTACCGTTTTTACTTGCGGTACTGAGAAACTTAGAAAA
1 GACAGTACTGATAAAATTAGAAAAGTACTACCGTTTTTACTTGCGGTACTGAAAAACTTAGAAAA
*
935626 ATACTGATAAACTTA
66 ACACTGATAAACTTA
* * *
935641 GACAGTACTGATAAAATTAGAGAAGTAGTGACTC-TTTTTAC-TGACGTTACTGAAAAACTTAGA
1 GACAGTACTGATAAAATTAGAAAAGTACT-AC-CGTTTTTACTTG-CGGTACTGAAAAACTTAGA
* *
935704 GAAGCACTGA
63 AAAACACTGA
935714 CAAGTACTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 27 0.44
81 33 0.54
82 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (80 bp):
GACAGTACTGATAAAATTAGAAAAGTACTACCGTTTTTACTTGCGGTACTGAAAAACTTAGAAAA
ACACTGATAAACTTA
Found at i:935724 original size:10 final size:10
Alignment explanation
Indices: 935709--935734 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
935699 TTAGAGAAGC
935709 ACTGACAAGT
1 ACTGACAAGT
935719 ACTGACAAGT
1 ACTGACAAGT
935729 ACTGAC
1 ACTGAC
935735 CCCTTTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (10 bp):
ACTGACAAGT
Found at i:937257 original size:2 final size:2
Alignment explanation
Indices: 937252--937294 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
937242 GATAAAGCAT
937252 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
937294 G
1 G
937295 GGGTGTTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:938150 original size:2 final size:2
Alignment explanation
Indices: 938143--938181 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
938133 ATCAATGCAA
938143 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
938182 TTCTGTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:940091 original size:11 final size:11
Alignment explanation
Indices: 940049--940101 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
940039 ATATTTCTGA
940049 TCTGGGTTTAC
1 TCTGGGTTTAC
**
940060 TCTGTGTGTCCAC
1 TCTG-G-GTTTAC
940073 TCTGGGTTTAC
1 TCTGGGTTTAC
*
940084 TCTTGGTTTAC
1 TCTGGGTTTAC
940095 TCTGGGT
1 TCTGGGT
940102 CCACTCTAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 24 0.71
12 2 0.06
13 8 0.24
ACGTcount: A:0.08, C:0.21, G:0.26, T:0.45
Consensus pattern (11 bp):
TCTGGGTTTAC
Found at i:950650 original size:214 final size:213
Alignment explanation
Indices: 950281--950704 Score: 839
Period size: 214 Copynumber: 2.0 Consensus size: 213
950271 NNNNNNNAAC
950281 CCCCCCCCCCCCCCACCAAAAAAATAAAAATTAACCAATTCTTATGCAGTATCGTATGAAAATCA
1 CCCCCCCCCCCCCCACCAAAAAAATAAAAATTAACCAATTCTTATGCAGTATCGTATGAAAATCA
950346 AATCAAATATATATATTTAATTTTATATTAAATTATATCATATTATATCATTAAAGGTTGCAAAT
66 AATCAAATATATATATTTAATTTTATATTAAATTATATCATATTATATCATTAAAGGTTGCAAAT
950411 CCATCCACTAATGCAATTAAAAATGTGTGCAAATGTGTATCATTAGTGGTCAAGGTAGTCCTTAT
131 CCATCCACTAATGCAATTAAAAATGTGTGCAAATGTGTATCATTAGTGGTCAAGGTAGTCCTTAT
950476 TTCTCATTTTTTTTCNAAA
196 TTCTCATTTTTTTTC-AAA
950495 CCCCCCCCCCCCCCACCAAAAAAATAAAAATTAACCAATTCTTATGCAGTATCGTATGAAAATCA
1 CCCCCCCCCCCCCCACCAAAAAAATAAAAATTAACCAATTCTTATGCAGTATCGTATGAAAATCA
950560 AATCAAATATATATATTTAATTTTATATTAAATTATATCATATTATATCATTAAAGGTTGCAAAT
66 AATCAAATATATATATTTAATTTTATATTAAATTATATCATATTATATCATTAAAGGTTGCAAAT
950625 CCATCCACTAATGCAATTAAAAATGTGTGCAAATGTGTATCATTAGTGGTCAAGGTAGTCCTTAT
131 CCATCCACTAATGCAATTAAAAATGTGTGCAAATGTGTATCATTAGTGGTCAAGGTAGTCCTTAT
950690 TTCTCATTTTTTTTC
196 TTCTCATTTTTTTTC
950705 TATATCATTA
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 210 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (213 bp):
CCCCCCCCCCCCCCACCAAAAAAATAAAAATTAACCAATTCTTATGCAGTATCGTATGAAAATCA
AATCAAATATATATATTTAATTTTATATTAAATTATATCATATTATATCATTAAAGGTTGCAAAT
CCATCCACTAATGCAATTAAAAATGTGTGCAAATGTGTATCATTAGTGGTCAAGGTAGTCCTTAT
TTCTCATTTTTTTTCAAA
Found at i:956319 original size:192 final size:191
Alignment explanation
Indices: 955991--956374 Score: 759
Period size: 192 Copynumber: 2.0 Consensus size: 191
955981 CTATTATTAG
955991 ATCAAGTTTATGAAAAATATCAATATTTTCATGCATGAATAACCTAAGATAGTTTGCTGTTGTTA
1 ATCAAGTTTATGAAAAATATCAATATTTTCATGCATGAATAACCTAAGATAGTTTGCTGTTGTTA
956056 CATTATTAATACACATTTAAGTCTGATTGTGGAAAGTACATGTAATAATATAAATCATTAATGAC
66 CATTATTAATACACATTTAAGTCTGATTGTGGAAAGTACATGTAATAATATAAATCATTAATGAC
956121 AAAAAAATCTTGTATTCCCTTTATTAATCATTTTATGAAACTATAATACCCCCCCCCCCCC
131 AAAAAAATCTTGTATTCCCTTTATTAATCATTTTATGAAACTATAATACCCCCCCCCCCCC
956182 ANTCAAGTTTATGAAAAATATCAATATTTTCATGCATGAATAACCTAAGATAGTTTGCTGTTGTT
1 A-TCAAGTTTATGAAAAATATCAATATTTTCATGCATGAATAACCTAAGATAGTTTGCTGTTGTT
956247 ACATTATTAATACACATTTAAGTCTGATTGTGGAAAGTACATGTAATAATATAAATCATTAATGA
65 ACATTATTAATACACATTTAAGTCTGATTGTGGAAAGTACATGTAATAATATAAATCATTAATGA
956312 CAAAAAAATCTTGTATTCCCTTTATTAATCATTTTATGAAACTATAATACCCCCCCCCCCCC
130 CAAAAAAATCTTGTATTCCCTTTATTAATCATTTTATGAAACTATAATACCCCCCCCCCCCC
956374 A
1 A
956375 NTTTAAATTA
Statistics
Matches: 192, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
191 1 0.01
192 191 0.99
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (191 bp):
ATCAAGTTTATGAAAAATATCAATATTTTCATGCATGAATAACCTAAGATAGTTTGCTGTTGTTA
CATTATTAATACACATTTAAGTCTGATTGTGGAAAGTACATGTAATAATATAAATCATTAATGAC
AAAAAAATCTTGTATTCCCTTTATTAATCATTTTATGAAACTATAATACCCCCCCCCCCCC
Found at i:983639 original size:2 final size:2
Alignment explanation
Indices: 983632--983669 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
983622 TAAGTTGTAC
983632 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
983670 GATAGTCGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:985278 original size:83 final size:83
Alignment explanation
Indices: 985126--985285 Score: 205
Period size: 83 Copynumber: 1.9 Consensus size: 83
985116 GCTTCCCCTG
* ** * * * *
985126 TATCCTGTTTATATTTTCGATATTGTCGACATCGCAATGTTCACCAACATCGAGTGGAAATCGTG
1 TATCCTGTTTACATCGTCGACATTGTCCACATCGCAATGTTCACCAACATCGAGTCGAAATCGTA
985191 TCTACATCGTACCTCTTA
66 TCTACATCGTACCTCTTA
* * *
985209 TATCCTGTTTACATCGTCGACATTGTCCACATCGCATTGTTGACTAACATCGAGTCGACAAT-GT
1 TATCCTGTTTACATCGTCGACATTGTCCACATCGCAATGTTCACCAACATCGAGTCGA-AATCGT
*
985273 ATCTACATTGTAC
65 ATCTACATCGTAC
985286 GCCTTCGTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 62 0.95
84 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (83 bp):
TATCCTGTTTACATCGTCGACATTGTCCACATCGCAATGTTCACCAACATCGAGTCGAAATCGTA
TCTACATCGTACCTCTTA
Found at i:986322 original size:91 final size:91
Alignment explanation
Indices: 986167--986348 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
986157 TACAAAATCA
986167 TAATAGTTAACGCAAAAGAAAAACATTTCAAATATATCTATACCGAAATAAAATAATCAACGATA
1 TAATAGTTAACGCAAAAGAAAAACATTTCAAATATATCTATACCGAAATAAAATAATCAACGATA
986232 AACAATAGAGGAAATTCGAACTTGGT
66 AACAATAGAGGAAATTCGAACTTGGT
* *
986258 TAATAGTTAACGCAAAAGAAAAACATTTCAAATCTATCTATACCGAAATAAATTAATCAACGATA
1 TAATAGTTAACGCAAAAGAAAAACATTTCAAATATATCTATACCGAAATAAAATAATCAACGATA
986323 AACAATAGAGGAAATTCGAACTTGGT
66 AACAATAGAGGAAATTCGAACTTGGT
986349 ACATCATTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (91 bp):
TAATAGTTAACGCAAAAGAAAAACATTTCAAATATATCTATACCGAAATAAAATAATCAACGATA
AACAATAGAGGAAATTCGAACTTGGT
Found at i:991330 original size:21 final size:21
Alignment explanation
Indices: 991300--991345 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
991290 ACTTCTTCAG
*
991300 TTCAGCAATGGTCTGTGTGAT
1 TTCAGAAATGGTCTGTGTGAT
*
991321 TTCAGAAATGGTGTGTGTGAT
1 TTCAGAAATGGTCTGTGTGAT
991342 TTCA
1 TTCA
991346 TTTTCCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (21 bp):
TTCAGAAATGGTCTGTGTGAT
Found at i:993427 original size:21 final size:21
Alignment explanation
Indices: 993373--993442 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
993363 ATGCATGCAT
* *
993373 TTCCGAGTTATTTATAAACACT
1 TTCCG-GTTATTTATAAACGCC
*
993395 TTCCAAGTTATTTATAAACGCC
1 TTCC-GGTTATTTATAAACGCC
* *
993417 TTCCGGTTATTTATATACGTC
1 TTCCGGTTATTTATAAACGCC
993438 TTCCG
1 TTCCG
993443 AACAGTAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.46
22 22 0.54
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.41
Consensus pattern (21 bp):
TTCCGGTTATTTATAAACGCC
Found at i:993905 original size:12 final size:12
Alignment explanation
Indices: 993877--993916 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
993867 ATATTTTTGC
*
993877 TTTGTTTTTGTT
1 TTTGTTTTTTTT
*
993889 GTTGTTTTTTTT
1 TTTGTTTTTTTT
993901 TTTGTTCTTTTTT
1 TTTGTT-TTTTTT
993914 TTT
1 TTT
993917 ATTATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (12 bp):
TTTGTTTTTTTT
Found at i:993905 original size:15 final size:15
Alignment explanation
Indices: 993876--993916 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
993866 TATATTTTTG
*
993876 CTTTGTTTTTGTTGTT
1 CTTT-TTTTTTTTGTT
*
993892 GTTTTTTTTTTTGTT
1 CTTTTTTTTTTTGTT
993907 CTTTTTTTTT
1 CTTTTTTTTT
993917 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTTTTGTT
Found at i:999508 original size:16 final size:16
Alignment explanation
Indices: 999484--999515 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
999474 CCTCTGCGTT
999484 CGTCAGTCCGTCTGTC
1 CGTCAGTCCGTCTGTC
*
999500 CGTCCGTCCGTCTGTC
1 CGTCAGTCCGTCTGTC
999516 TGACCCACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.41, G:0.25, T:0.31
Consensus pattern (16 bp):
CGTCAGTCCGTCTGTC
Found at i:1002720 original size:2 final size:2
Alignment explanation
Indices: 1002713--1002756 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1002703 GTCTATAGTA
1002713 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1002755 TC
1 TC
1002757 GTATGTGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1015366 original size:13 final size:14
Alignment explanation
Indices: 1015348--1015383 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
1015338 GGGGTTTTGT
1015348 TTTGTTTTTGTT-G
1 TTTGTTTTTGTTGG
1015361 TTTGTTTTTGTTGG
1 TTTGTTTTTGTTGG
1015375 TTT-TTTTTG
1 TTTGTTTTTG
1015384 GTAGTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (14 bp):
TTTGTTTTTGTTGG
Found at i:1016438 original size:2 final size:2
Alignment explanation
Indices: 1016431--1016479 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1016421 GCAAGGTGTG
1016431 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1016473 GA GA GA G
1 GA GA GA G
1016480 TTGTTCTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1029529 original size:20 final size:20
Alignment explanation
Indices: 1029505--1029624 Score: 168
Period size: 20 Copynumber: 6.0 Consensus size: 20
1029495 CTCAAGTAAC
*
1029505 GGGCCACGACAGACCCATCT
1 GGGCCACGATAGACCCATCT
* *
1029525 AGGCCACGATAGACCCATCC
1 GGGCCACGATAGACCCATCT
*
1029545 GGGCAACGATAGACCCATCT
1 GGGCCACGATAGACCCATCT
* *
1029565 GGGCCACGATTGACCCATCC
1 GGGCCACGATAGACCCATCT
*
1029585 GGGCCACGATAGACCCATAT
1 GGGCCACGATAGACCCATCT
*
1029605 GGGCCACAATAGACCCATCT
1 GGGCCACGATAGACCCATCT
1029625 TTCTACATAA
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.28, C:0.36, G:0.23, T:0.13
Consensus pattern (20 bp):
GGGCCACGATAGACCCATCT
Found at i:1029559 original size:40 final size:40
Alignment explanation
Indices: 1029504--1029623 Score: 186
Period size: 40 Copynumber: 3.0 Consensus size: 40
1029494 CCTCAAGTAA
* *
1029504 CGGGCCACGACAGACCCATCTAGGCCACGATAGACCCATC
1 CGGGCCACGATAGACCCATCTGGGCCACGATAGACCCATC
* *
1029544 CGGGCAACGATAGACCCATCTGGGCCACGATTGACCCATC
1 CGGGCCACGATAGACCCATCTGGGCCACGATAGACCCATC
* *
1029584 CGGGCCACGATAGACCCATATGGGCCACAATAGACCCATC
1 CGGGCCACGATAGACCCATCTGGGCCACGATAGACCCATC
1029624 TTTCTACATA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.28, C:0.37, G:0.23, T:0.12
Consensus pattern (40 bp):
CGGGCCACGATAGACCCATCTGGGCCACGATAGACCCATC
Found at i:1032031 original size:2 final size:2
Alignment explanation
Indices: 1032024--1032070 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1032014 GACTGTTGGA
*
1032024 CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1032066 CT CT C
1 CT CT C
1032071 CAGGATGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:1034558 original size:21 final size:21
Alignment explanation
Indices: 1034534--1034574 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1034524 CTCTTCTCTC
* *
1034534 TCTCTCTGGTTTGTCTGTGTG
1 TCTCTCTGATTTGTCAGTGTG
1034555 TCTCTCTGATTTGTCAGTGT
1 TCTCTCTGATTTGTCAGTGT
1034575 ATCCTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.20, G:0.24, T:0.51
Consensus pattern (21 bp):
TCTCTCTGATTTGTCAGTGTG
Found at i:1034777 original size:2 final size:2
Alignment explanation
Indices: 1034772--1034850 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
1034762 TTTTTTTCAT
1034772 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1034814 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1034851 AAGTCAGTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1047975 original size:16 final size:16
Alignment explanation
Indices: 1047954--1047985 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1047944 TGCGAACTAG
1047954 AGAAGTACTAAAACAC
1 AGAAGTACTAAAACAC
*
1047970 AGAAGTACTGAAACAC
1 AGAAGTACTAAAACAC
1047986 GGTCAGCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (16 bp):
AGAAGTACTAAAACAC
Found at i:1048003 original size:41 final size:41
Alignment explanation
Indices: 1047958--1048094 Score: 229
Period size: 41 Copynumber: 3.3 Consensus size: 41
1047948 AACTAGAGAA
*
1047958 GTACTAAAACACAGAAGTACTGAAACACGGTCAGCTCAGAG
1 GTACTGAAACACAGAAGTACTGAAACACGGTCAGCTCAGAG
*
1047999 GTACTGAAACACAGAAGTGCTGAAACACGGTCAGCTCAGAG
1 GTACTGAAACACAGAAGTACTGAAACACGGTCAGCTCAGAG
1048040 GTACTGAAACACAGAAGTACTGAAACACGGTCAGCTCAGAAG
1 GTACTGAAACACAGAAGTACTGAAACACGGTCAGCTCAG-AG
1048082 AAGTACTGAAACA
1 --GTACTGAAACA
1048095 TGGTCAGTCT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
41 77 0.86
42 2 0.02
44 11 0.12
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (41 bp):
GTACTGAAACACAGAAGTACTGAAACACGGTCAGCTCAGAG
Found at i:1048059 original size:16 final size:16
Alignment explanation
Indices: 1048035--1048067 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1048025 ACGGTCAGCT
*
1048035 CAGAGGTACTGAAACA
1 CAGAAGTACTGAAACA
1048051 CAGAAGTACTGAAACA
1 CAGAAGTACTGAAACA
1048067 C
1 C
1048068 GGTCAGCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (16 bp):
CAGAAGTACTGAAACA
Found at i:1049357 original size:22 final size:22
Alignment explanation
Indices: 1049327--1049374 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1049317 AAGTATAAAC
* *
1049327 ACCATGTATAGTTACTGCCTCT
1 ACCACGTATAGTTACTGCCCCT
1049349 ACCACGTATAGTTACTGCCCCT
1 ACCACGTATAGTTACTGCCCCT
1049371 ACCA
1 ACCA
1049375 GGTACCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.29
Consensus pattern (22 bp):
ACCACGTATAGTTACTGCCCCT
Found at i:1049491 original size:64 final size:64
Alignment explanation
Indices: 1049375--1049647 Score: 510
Period size: 64 Copynumber: 4.3 Consensus size: 64
1049365 GCCCCTACCA
* *
1049375 GGTACCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAGTAACCCCCCCTACCCTGTATT
1 GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAATAACCCCCCCTACCCTGTATT
*
1049439 GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAATAACTCCCCCTACCCTGTATT
1 GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAATAACCCCCCCTACCCTGTATT
1049503 GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAATAACCCCCCCTACCCTGTATT
1 GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAATAACCCCCCCTACCCTGTATT
*
1049567 GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAGTAACCCCCCCTACCCTGTATT
1 GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAATAACCCCCCCTACCCTGTATT
1049631 GGTATCTTGTTTACTGG
1 GGTATCTTGTTTACTGG
1049648 TATGAACCAG
Statistics
Matches: 204, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 204 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (64 bp):
GGTATCTTGTTTACTGGGAGTTCCATTAATGCCATATACATAATAACCCCCCCTACCCTGTATT
Found at i:1051207 original size:157 final size:156
Alignment explanation
Indices: 1050864--1051250 Score: 440
Period size: 157 Copynumber: 2.4 Consensus size: 156
1050854 GTTAATTAAA
* * * * *
1050864 AGTCAGTAGACAACAAAAGTAGCT-GTGATAGAGAGTCTATAG-CAGTAAAGTGGGGACACTAAT
1 AGTCAGTAGTCAACAAAAGCAG-TGGTGATAGAGAGTCTA-AGAGAGTAAAGTGGGGAGAATAA-
** * * * * *
1050927 TGGTGGTGTTAATTAAAAGCTGTCTCAGTCAGCAGGCAGCAAAAGTAGTGGTGATAAAAAGTCCA
63 CAGTGGCG----TTAAAAGCTGTCTAAGTCAGCAGGCAACAAAAGCAGAGGTGATAAAAAGTCCA
*
1050992 TAGGAGTAAAGGGGGAGACTAATAGTGGCGTCT
124 TAGGAGTAAAGGGGGAGACTAATAGTAGCGTCT
*
1051025 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTACAG-GAGTAAAGTGTGGAGAATAACA
1 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTA-AGAGAGTAAAGTGGGGAGAATAACA
* * * * *
1051089 GTGGCGTTAAAAGCTGTCTAAGTCAGTAGGCAATAAAAGCAGAGGTGATAGAGAGTCTAT-GAGA
65 GTGGCGTTAAAAGCTGTCTAAGTCAGCAGGCAACAAAAGCAGAGGTGATAAAAAGTCCATAG-GA
**
1051153 GTAAAGTGGGGAGACTAATAGTAGTTTCT
129 GTAAAG-GGGGAGACTAATAGTAGCGTCT
* * *
1051182 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTATGAGAGTAAAGTGGGGAGACTAATAG
1 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTAAGAGAGTAAAGTGGGGAGAATAACAG
1051247 TGGC
66 TGGC
1051251 TTCTAGTCAG
Statistics
Matches: 196, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
155 1 0.01
156 54 0.28
157 82 0.42
160 6 0.03
161 53 0.27
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (156 bp):
AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTAAGAGAGTAAAGTGGGGAGAATAACAG
TGGCGTTAAAAGCTGTCTAAGTCAGCAGGCAACAAAAGCAGAGGTGATAAAAAGTCCATAGGAGT
AAAGGGGGAGACTAATAGTAGCGTCT
Found at i:1051228 original size:73 final size:73
Alignment explanation
Indices: 1051109--1051294 Score: 318
Period size: 73 Copynumber: 2.5 Consensus size: 73
1051099 AAGCTGTCTA
* * *
1051109 AGTCAGTAGGCAATAAAAGCAGAGGTGATAGAGAGTCTATGAGAGTAAAGTGGGGAGACTAATAG
1 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTATGAGAGTAAAGTGGGGAGACTAATAG
*
1051174 TAGTTTCT
66 TAGCTTCT
1051182 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTATGAGAGTAAAGTGGGGAGACTAATAG
1 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTATGAGAGTAAAGTGGGGAGACTAATAG
*
1051247 TGGCTTCT
66 TAGCTTCT
*
1051255 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGCCTAT
1 AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTAT
1051295 CATGAGAGTA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 107 1.00
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.23
Consensus pattern (73 bp):
AGTCAGTAGTCAACAAAAGCAGTGGTGATAGAGAGTCTATGAGAGTAAAGTGGGGAGACTAATAG
TAGCTTCT
Found at i:1053450 original size:437 final size:436
Alignment explanation
Indices: 1052160--1053435 Score: 1839
Period size: 437 Copynumber: 2.9 Consensus size: 436
1052150 TGTAAGAGTT
* * * * * * **
1052160 TTGTCCAACAATTGTTTAGAAATTCGTCACCGTTCTTAG-GATATCTCAGAAAGAATATTTTAGG
1 TTGTTCAACAAGTGTTTAGAAATTCGTTACCGTT-TTGGAGATATATGAGAAAGAAGGTTTTAGG
* * * * ** * * * *
1052224 GGCCGG-ACCTTATCTCCTTATT-GGGGCCGCTGAA-AAAAAATTGTAAGGTTGCATGTTATTAG
65 GGCCGGTCCCTTATCTCCTT-TTAGGGGCCGTTCAACGAAATTTTG-ACGGTTGCATTTTGTTAA
* * * * * * *
1052286 GGACATTATTTTGAGCATCTTTTCTTTTATACTGCATTACAAAATATTTTTTCTTTTTGAGATAA
128 GAACATCATTTTGAACAACTTTTC-TTTATACTGCATTACAAAATATTTTTCCTTTCTGAGATAT
*
1052351 GGGTGATCAAATTTTTTGACTTTTGGCCCCTAAAAACCCTTAATTATGTAACACATGATAAAATC
192 GGGTGATCAAATTTTTTGACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAATC
* *
1052416 ATAACATTGCTTGAATACAGAATTATAAGATAAACACATTTGCTTCTATAATATTTCACAAAATA
257 ATTACATTGCTTGAATACAGAACTATAAGATAAACACATTTGCTTCTATAATATTTCACAAAATA
*
1052481 TCTCTCAGTAAAGGGCTACAGATTAAAGATTTTACAGTCCTTTGGTCCCCTAATTTAAGGGGCCA
322 TCTCTCAGTAAAGGGCTACAGATTAAAGATTTTAGAGTCCTTTGGTCCCCTAATTTAAGGGGCCA
* * * *
1052546 TCCCCTTTTTCTTGCTTTCAAATAAAAGGTCATTTAATTTTACACAAATT
387 GCCCCTTTTTCTTGATTTCAAATAAAAGGTCATTTAATTCTACACAAATC
1052596 TTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGGTTTTAGGG
1 TTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGGTTTTAGGG
* * *
1052661 GCCGGTCCCTTATCTTCTTTTAGGGGCCGTTCAACGAAATTTTGACGGTTGCAATTTGTTGAGAA
66 GCCGGTCCCTTATCTCCTTTTAGGGGCCGTTCAACGAAATTTTGACGGTTGCATTTTGTTAAGAA
1052726 CATCATTTTGAACAACTTTTCTTTCATACTGCATTACAAAATATTTTTCCTTTCTGAGATATGGG
131 CATCATTTTGAACAACTTTTCTTT-ATACTGCATTACAAAATATTTTTCCTTTCTGAGATATGGG
*
1052791 TGATCAAATTTTTTAACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAATCATT
195 TGATCAAATTTTTTGACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAATCATT
*
1052856 ACATTGCTTGAATACAGAACTATAAGATAAACACATTTGCTTCTATAATATTTCATAAAATATCT
260 ACATTGCTTGAATACAGAACTATAAGATAAACACATTTGCTTCTATAATATTTCACAAAATATCT
*
1052921 CTCAGTAAAGGGCTACAGATTAAAGATTTTAGAGTCCTTTGGTCCCCTAATTTGAGGGGCCAGCC
325 CTCAGTAAAGGGCTACAGATTAAAGATTTTAGAGTCCTTTGGTCCCCTAATTTAAGGGGCCAGCC
1052986 CCTTTTTCTTGATTTCAAATAAAAGGTCATTTAATTCTACACAAATC
390 CCTTTTTCTTGATTTCAAATAAAAGGTCATTTAATTCTACACAAATC
1053033 TTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGGTTTTAGGG
1 TTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGGTTTTAGGG
* *
1053098 GCCGGTCCCTTTTCTCCTTTTAGGGGCCGTTTAACGAAATTTTGACGGTTGCATTTTGTTAAGAA
66 GCCGGTCCCTTATCTCCTTTTAGGGGCCGTTCAACGAAATTTTGACGGTTGCATTTTGTTAAGAA
* * *
1053163 CATCATTTTGAACAACTTTTCTTCTGTACTGCATTACAAAATATTTTTCCTTTGTGAGATATTGG
131 CATCATTTTGAACAACTTTTCTT-TATACTGCATTACAAAATATTTTTCCTTTCTGAGATATGGG
* *
1053228 TGATCGAAA-TTTTGGACTTTCGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAATCAT
195 TGATC-AAATTTTTTGACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAATCAT
* * * * * *
1053292 TATATTGCTTGAATACATAACTGTGAGATAAACATATTTGCTTCTATAATCTATT-ACAAAATAT
259 TACATTGCTTGAATACAGAACTATAAGATAAACACATTTGCTTCTATAATAT-TTCACAAAATAT
* * * * ** * * * *
1053356 CCCTCGGTGAAGAGCTATGGGTAAAAGACTTTAGAG-CCTTCTAGGT-CCCTAATTTTAGGGGCC
323 CTCTCAGTAAAGGGCTACAGATTAAAGATTTTAGAGTCCTT-T-GGTCCCCTAATTTAAGGGGCC
*
1053419 AGCCCCTTTTTCCTGAT
386 AGCCCCTTTTTCTTGAT
1053436 ATCAGCCGAA
Statistics
Matches: 762, Mismatches: 68, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
435 3 0.00
436 67 0.09
437 677 0.89
438 15 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (436 bp):
TTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGGTTTTAGGG
GCCGGTCCCTTATCTCCTTTTAGGGGCCGTTCAACGAAATTTTGACGGTTGCATTTTGTTAAGAA
CATCATTTTGAACAACTTTTCTTTATACTGCATTACAAAATATTTTTCCTTTCTGAGATATGGGT
GATCAAATTTTTTGACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAATCATTA
CATTGCTTGAATACAGAACTATAAGATAAACACATTTGCTTCTATAATATTTCACAAAATATCTC
TCAGTAAAGGGCTACAGATTAAAGATTTTAGAGTCCTTTGGTCCCCTAATTTAAGGGGCCAGCCC
CTTTTTCTTGATTTCAAATAAAAGGTCATTTAATTCTACACAAATC
Found at i:1054898 original size:437 final size:431
Alignment explanation
Indices: 1054188--1055601 Score: 1646
Period size: 437 Copynumber: 3.2 Consensus size: 431
1054178 TCTAGCTTTA
** * * * * *
1054188 ATAACCTTTCACAAAATGGCTCTCATTAAAGGGCTATAGATAAAAGA-TTGTAGAGCTCTTT-GA
1 ATAA-CTTTCACAAAATATCCCTCAGTAAAGAGCTATAGATAAAAGACTT-TAGAGCCCTTTAGG
* * * * *
1054251 TCCTCTAATTTAAGGGGCAAGTCCTTTTTTCGTGGAT-TCAAATGAAAGGACATTTAATTCTGAA
64 TCC-CTAATTTAAGGGGCCAGCCCCTTTTTC-TTGATATCAAATGAAAGGTCATTTAATTCT-AA
* * *
1054315 CACATTTTG-TCAACAAGTGTTTAGAAATTCGTTTCCGTTTTGGAGATATATGAGAAAGAAGGTT
126 CACATTTTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTCTAGAGATATATGAGAAAGAAGGTT
* *
1054379 TTAGGGGCCGATCCCTTATCTCCTTTTAGGGGCAGTTTAACGAAATTTTGAAGGTTGCATTTTGT
191 TTAGGGGCCGGTCCCTTATCTCCTTTTAGGGGC-GTTTAACGCAATTTTG-AGGTTGCATTTTGT
* * * *
1054444 TGAGAACATCTTTTTGAACGACTTTTCTTCTGTATTGCATTACAAAATATATTTCCTTTCTGAGA
254 TAAGAACATCATTTTGAAC-ACTTTTCTTCTGTACTGCATTACAAAATATTTTTCCTTTCTGAGA
*
1054509 TACGGGTGATCAAACTTATT-GACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAA
318 TAAGGGTGATCAAA-TT-TTGGACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAA
* *
1054573 AATCATTACATTGCTTGAATACATAACTATAAGATAAACACATTTGCTTCT
381 AATCATTACATTGCTTGAATACATAACTGTAAGATAAACAAATTTGCTTCT
* * * * *
1054624 ATAACATTTCATAAAATATCTCTCAGTAAAGGGCTACAGATTAAAGACTTTAGAGCCCTTT-GGT
1 ATAAC-TTTCACAAAATATCCCTCAGTAAAGAGCTATAGATAAAAGACTTTAGAGCCCTTTAGGT
*
1054688 CCCCTAATTTAAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCATTTAATTCTACACA
65 -CCCTAATTTAAGGGGCCAGCCCCTTTTTCTTGATATCAAATGAAAGGTCATTTAATTCTA-ACA
* * *
1054753 AACTTCGTTCAACAAGTGTTTAGAAATGT-GTTACCGTTCTAGAGATATATGAGAAAGAAGGTTT
128 CATTTTGTTCAACAAGTGTTTAGAAAT-TCGTTACCGTTCTAGAGATATATGAGAAAGAAGGTTT
* **
1054817 TAGGGGCCGGTCCCTTATCTCCTTTTAGAGGGCGTTTAACGCAATTTTGACGGTAGTGTTTTGTT
192 TAGGGGCCGGTCCCTTATCTCCTTTTAG-GGGCGTTTAACGCAATTTTGA-GGTTGCATTTTGTT
1054882 AAGAACATCATTTTGAACAACTTTTCTTCTGTACTGCATTACAAAATATTTTTCCTTTCTGAGAT
255 AAGAACATCATTTTGAAC-ACTTTTCTTCTGTACTGCATTACAAAATATTTTTCCTTTCTGAGAT
* * * *
1054947 ATGGGTGATCGAAATTTTGGACTTTTGGACCCTTAAAACCCTTAATTACGTAACACATCATAAAA
319 AAGGGTGATC-AAATTTTGGACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAA
*
1055012 TCATTACATTGCTTGAATACATAACTGTGAGATAAACAAATTTGCTTCT
383 TCATTACATTGCTTGAATACATAACTGTAAGATAAACAAATTTGCTTCT
* * * *
1055061 ATAATCTATT-ACAAAATATCCCTCGGTAAAGAGTTATGGGTAAAAGACTTTAGAGCCCTTTAGG
1 ATAA-CT-TTCACAAAATATCCCTCAGTAAAGAGCTATAGATAAAAGACTTTAGAGCCCTTTAGG
* * * * * *
1055125 TCCCTAATATT-AGGGGCCAGCCCCTTTTTCTTGGTATCACATGAAAGCTCATTTGATTATAAAG
64 TCCCTAAT-TTAAGGGGCCAGCCCCTTTTTCTTGATATCAAATGAAAGGTCATTTAATTCT-AAC
* * * * * * *
1055189 ACATTTTGTTCAAGAAGTGTTCAGAAATTCGTTACCATTCTTGAGATATTTGAGACAGAATGTTT
127 ACATTTTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTCTAGAGATATATGAGAAAGAAGGTTT
* * * * * * *
1055254 TAGGGGTCGGTCCCTTATCTCCTTATTTGGGCCGCTGAAC-CAAATTTTTTAGGTTGCATGTTGT
192 TAGGGGCCGGTCCCTTATCTCCTT-TTAGGGGCGTTTAACGC-AA-TTTTGAGGTTGCATTTTGT
* * * * * *
1055318 TAAGTACATCATTTTGAGCATCTTTTCTTTTATACTGCATTTCAAAATATTTTTCCTTTTTGAGA
254 TAAGAACATCATTTTGAACA-CTTTTCTTCTGTACTGCATTACAAAATATTTTTCCTTTCTGAGA
* * * * *
1055383 TAAAGGTGATCAAAGTTTTGGACTTTTGACCTCTAAAAA-CCTCTAATTACGTAACATATGAGAA
318 TAAGGGTGATCAAA-TTTTGGACTTTTGGCCCCTAAAAACCCT-TAATTACGTAACACATGATAA
* * * ** * *
1055447 AATCGTTATACTGCTTGGCTTCATAACTGTAAGATAAACATATTTGCTTCT
381 AATCATTACATTGCTTGAATACATAACTGTAAGATAAACAAATTTGCTTCT
* * * * * *
1055498 ATAATTTATTACAAAATATCCCTCGGTAAAGAGTTATGGGTAAAAGACTTTAGAG-CCTTCTAGG
1 ATAACTT-TCACAAAATATCCCTCAGTAAAGAGCTATAGATAAAAGACTTTAGAGCCCTT-TAGG
* *
1055562 TCCCTAATTTGAGTGGCCAGCCCCTTTTTTCTTGATATCA
64 TCCCTAATTTAAGGGGCCAGCCCC-TTTTTCTTGATATCA
1055602 GCAGAAAGGT
Statistics
Matches: 851, Mismatches: 99, Indels: 54
0.85 0.10 0.05
Matches are distributed among these distances:
435 7 0.01
436 124 0.15
437 681 0.80
438 39 0.05
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (431 bp):
ATAACTTTCACAAAATATCCCTCAGTAAAGAGCTATAGATAAAAGACTTTAGAGCCCTTTAGGTC
CCTAATTTAAGGGGCCAGCCCCTTTTTCTTGATATCAAATGAAAGGTCATTTAATTCTAACACAT
TTTGTTCAACAAGTGTTTAGAAATTCGTTACCGTTCTAGAGATATATGAGAAAGAAGGTTTTAGG
GGCCGGTCCCTTATCTCCTTTTAGGGGCGTTTAACGCAATTTTGAGGTTGCATTTTGTTAAGAAC
ATCATTTTGAACACTTTTCTTCTGTACTGCATTACAAAATATTTTTCCTTTCTGAGATAAGGGTG
ATCAAATTTTGGACTTTTGGCCCCTAAAAACCCTTAATTACGTAACACATGATAAAATCATTACA
TTGCTTGAATACATAACTGTAAGATAAACAAATTTGCTTCT
Found at i:1056145 original size:66 final size:66
Alignment explanation
Indices: 1056037--1056174 Score: 233
Period size: 66 Copynumber: 2.1 Consensus size: 66
1056027 AAAATAATAA
*
1056037 TAATAAGAATAGGGAAAAAGAAACCGAAGAATAACAAGAAGGTCTTCCGTTGGAAACGGAAGACC
1 TAATAAGAATAGGGAAAAAGAAACCAAAGAATAACAAGAAGGTCTTCCGTTGGAAACGGAAGACC
1056102 T
66 T
* *
1056103 TAATAAGAATAGGGAAAAAG-AAGCAAAGCAATAACAATAAGGTCTTCCGTTGGAAACGGAAGAC
1 TAATAAGAATAGGGAAAAAGAAACCAAAG-AATAACAAGAAGGTCTTCCGTTGGAAACGGAAGAC
1056167 CT
65 CT
1056169 TAATAA
1 TAATAA
1056175 TAGGGAAGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 6 0.09
66 62 0.91
ACGTcount: A:0.48, C:0.13, G:0.22, T:0.17
Consensus pattern (66 bp):
TAATAAGAATAGGGAAAAAGAAACCAAAGAATAACAAGAAGGTCTTCCGTTGGAAACGGAAGACC
T
Found at i:1063493 original size:21 final size:21
Alignment explanation
Indices: 1063447--1063505 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
1063437 TTTCTATCAA
* *
1063447 TGTCCGAACTAACCGACTGAC
1 TGTCCGAATTTACCGACTGAC
*
1063468 CGTCCGAATTTACCGACTTG-C
1 TGTCCGAATTTACCGAC-TGAC
1063489 TGTCCGAATTTACCGAC
1 TGTCCGAATTTACCGAC
1063506 CTCTGTTACG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (21 bp):
TGTCCGAATTTACCGACTGAC
Found at i:1064698 original size:22 final size:22
Alignment explanation
Indices: 1064670--1064786 Score: 188
Period size: 22 Copynumber: 5.5 Consensus size: 22
1064660 AACATAAACA
1064670 ACATACACAACCCCAGTACACT
1 ACATACACAACCCCAGTACACT
*
1064692 ACGTACACAACCCCAGT--AC-
1 ACATACACAACCCCAGTACACT
1064711 AC-TACACAACCCCAGTACACT
1 ACATACACAACCCCAGTACACT
1064732 ACATACACAACCCCAGTACACT
1 ACATACACAACCCCAGTACACT
*
1064754 ACGTACACAACCCCAGTACACT
1 ACATACACAACCCCAGTACACT
1064776 ACATACACAAC
1 ACATACACAAC
1064787 ATACACAACC
Statistics
Matches: 88, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
18 14 0.16
19 2 0.02
20 4 0.05
21 2 0.02
22 66 0.75
ACGTcount: A:0.40, C:0.41, G:0.06, T:0.13
Consensus pattern (22 bp):
ACATACACAACCCCAGTACACT
Found at i:1064712 original size:13 final size:13
Alignment explanation
Indices: 1064713--1064774 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 13
1064703 CCCAGTACAC
1064713 TACACAACCCCAG
1 TACACAACCCCAG
*
1064726 TACACTA---CA-
1 TACACAACCCCAG
1064735 TACACAACCCCAG
1 TACACAACCCCAG
*
1064748 TACACTA---C-G
1 TACACAACCCCAG
1064757 TACACAACCCCAG
1 TACACAACCCCAG
1064770 TACAC
1 TACAC
1064775 TACATACACA
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
9 13 0.35
10 3 0.08
12 3 0.08
13 18 0.49
ACGTcount: A:0.39, C:0.42, G:0.06, T:0.13
Consensus pattern (13 bp):
TACACAACCCCAG
Found at i:1064728 original size:40 final size:43
Alignment explanation
Indices: 1064673--1064786 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 43
1064663 ATAAACAACA
*
1064673 TACACAACCCCAGTACACTACGTACACAACCCCAGT-AC-AC-
1 TACACAACCCCAGTACACTACATACACAACCCCAGTAACTACG
1064713 TACACAACCCCAGTACACTACATACACAACCCCAGTACACTACG
1 TACACAACCCCAGTACACTACATACACAACCCCAGTA-ACTACG
1064757 TACACAACCCCAGTACACTACATACACAAC
1 TACACAACCCCAGTACACTACATACACAAC
1064787 ATACACAACC
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
40 35 0.51
42 2 0.03
43 2 0.03
44 30 0.43
ACGTcount: A:0.39, C:0.41, G:0.06, T:0.13
Consensus pattern (43 bp):
TACACAACCCCAGTACACTACATACACAACCCCAGTAACTACG
Found at i:1064729 original size:31 final size:32
Alignment explanation
Indices: 1064694--1064807 Score: 87
Period size: 31 Copynumber: 3.7 Consensus size: 32
1064684 AGTACACTAC
*
1064694 GTACACAACCCCAGTACACTACACA-ACCCCA
1 GTACACAACCCCAGTACACTACACACACACCA
* * * * *
1064725 GTACACTA---CA-TACACAACCCCAGTACACTA
1 GTACACAACCCCAGTACACTA-CACA-CACACCA
* *
1064755 CGTACACAACCCCAGTACACTACATACACAACA
1 -GTACACAACCCCAGTACACTACACACACACCA
1064788 -TACACAACCCCAGTACACTA
1 GTACACAACCCCAGTACACTA
1064808 TGTCACTGGT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
27 6 0.10
28 5 0.08
30 4 0.06
31 34 0.54
33 4 0.06
34 4 0.06
35 6 0.10
ACGTcount: A:0.40, C:0.40, G:0.06, T:0.13
Consensus pattern (32 bp):
GTACACAACCCCAGTACACTACACACACACCA
Found at i:1064792 original size:40 final size:41
Alignment explanation
Indices: 1064660--1064792 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 41
1064650 TAAACAAGCA
* * *
1064660 AACATAAACAACA-TACACAACCCCAGTACACTACGTACAC
1 AACATACACTACACTACACAACCCCAGTACACTACATACAC
** *
1064700 AAC-CCCAGTACACTACACAACCCCAGTACACTACATACAC
1 AACATACACTACACTACACAACCCCAGTACACTACATACAC
*
1064740 AACCCCAGTACACTAC-GTACACAACCCCAGTACACTACATACAC
1 AA---CA-TACACTACACTACACAACCCCAGTACACTACATACAC
1064784 AACATACAC
1 AACATACAC
1064793 AACCCCAGTA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
39 4 0.05
40 36 0.47
41 2 0.03
43 1 0.01
44 29 0.38
45 5 0.06
ACGTcount: A:0.43, C:0.39, G:0.05, T:0.13
Consensus pattern (41 bp):
AACATACACTACACTACACAACCCCAGTACACTACATACAC
Found at i:1064792 original size:62 final size:61
Alignment explanation
Indices: 1064660--1064795 Score: 209
Period size: 62 Copynumber: 2.2 Consensus size: 61
1064650 TAAACAAGCA
*
1064660 AACATAAACAACATACACAACCCCAGTACACTACGTACACAACCCCAGTACACTACACAAC
1 AACATACACAACATACACAACCCCAGTACACTACGTACACAACCCCAGTACACTACACAAC
** * *
1064721 CCCAGTACACTACATACACAACCCCAGTACACTACGTACACAACCCCAGTACACTACATACAC
1 AACA-TACACAACATACACAACCCCAGTACACTACGTACACAACCCCAGTACACTACACA-AC
1064784 AACATACACAAC
1 AACATACACAAC
1064796 CCCAGTACAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
61 2 0.03
62 59 0.91
63 4 0.06
ACGTcount: A:0.43, C:0.39, G:0.05, T:0.12
Consensus pattern (61 bp):
AACATACACAACATACACAACCCCAGTACACTACGTACACAACCCCAGTACACTACACAAC
Found at i:1064804 original size:44 final size:44
Alignment explanation
Indices: 1064673--1064805 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 44
1064663 ATAAACAACA
* **
1064673 TACACAACCCCAGTACACTACGTACACAACC-C-CAGTA-CAC-
1 TACACAACCCCAGTACACTACATACACAACCACACAACACCACG
* ** *
1064713 TACACAACCCCAGTACACTACATACACAACCCCAGTACACTACG
1 TACACAACCCCAGTACACTACATACACAACCACACAACACCACG
* *
1064757 TACACAACCCCAGTACACTACATACACAACATACACAACCCCA-G
1 TACACAACCCCAGTACACTACATACACAAC-CACACAACACCACG
1064801 TACAC
1 TACAC
1064806 TATGTCACTG
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
40 30 0.39
41 1 0.01
42 1 0.01
43 2 0.03
44 36 0.47
45 6 0.08
ACGTcount: A:0.40, C:0.41, G:0.06, T:0.13
Consensus pattern (44 bp):
TACACAACCCCAGTACACTACATACACAACCACACAACACCACG
Found at i:1069812 original size:2 final size:2
Alignment explanation
Indices: 1069805--1069834 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1069795 AAGCGTCCTC
1069805 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1069835 GCGTAACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1078425 original size:2 final size:2
Alignment explanation
Indices: 1078418--1078457 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1078408 GTCATATTAT
1078418 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1078458 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1078462 original size:2 final size:2
Alignment explanation
Indices: 1078457--1078482 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1078447 ACACACACAC
1078457 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1078483 GTTTGAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1084324 original size:2 final size:2
Alignment explanation
Indices: 1084319--1084358 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1084309 AAAATCGTAA
1084319 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1084359 TAAATACTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1086306 original size:33 final size:31
Alignment explanation
Indices: 1086228--1086294 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
1086218 ACAATGGTAA
1086228 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1086259 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1086290 C-TTCT
1 CATTCT
1086295 TATGCATAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.15, C:0.33, G:0.09, T:0.43
Consensus pattern (31 bp):
CATTCTCAGCAGTTATCTCTCTTTGCCCATT
Found at i:1086668 original size:48 final size:48
Alignment explanation
Indices: 1086542--1086867 Score: 512
Period size: 48 Copynumber: 6.8 Consensus size: 48
1086532 AAATAACCTA
* * *
1086542 AATCTTTAATTAAGTTTAATATATTACATAACATGATTACCATTACTT
1 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
* *
1086590 AGATCTTTAATTAAGTTTAATATATAACATAACATGATTACCGTTACTC
1 A-ATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
1086639 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
1 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
* *
1086687 AATCTTTAATTTAGTTTAATATATTACATTACATGATTACCATTACTC
1 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
* *
1086735 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACTGTTACTT
1 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
* *
1086783 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTTCTT
1 AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
* *
1086831 AATCTTTAATTTAG-TTGA-ATATTACATTACATGATTA
1 AATCTTTAATTTAGTTTAATATATTACATAACATGATTA
1086868 GCATCACTTC
Statistics
Matches: 262, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
46 18 0.07
47 3 0.01
48 196 0.75
49 45 0.17
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.45
Consensus pattern (48 bp):
AATCTTTAATTTAGTTTAATATATTACATAACATGATTACCGTTACTC
Found at i:1092549 original size:2 final size:2
Alignment explanation
Indices: 1092542--1092620 Score: 122
Period size: 2 Copynumber: 39.5 Consensus size: 2
1092532 GTACATAGTA
* * * *
1092542 CT CT CT CT CT CT CT CT CT CT CT CT CG CT CG CT CG CG CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1092584 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1092621 CTTATTGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.00, C:0.51, G:0.05, T:0.44
Consensus pattern (2 bp):
CT
Found at i:1093512 original size:16 final size:15
Alignment explanation
Indices: 1093493--1093546 Score: 83
Period size: 15 Copynumber: 3.5 Consensus size: 15
1093483 ATCTATTTAT
1093493 TTATTTTTATTATCTA
1 TTATTTTTATTAT-TA
1093509 TTATTTTTTATTATTA
1 TTA-TTTTTATTATTA
1093525 TTATTTTTATTATTA
1 TTATTTTTATTATTA
1093540 TT-TTTTT
1 TTATTTTT
1093547 TTTTGGTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.14
15 14 0.38
16 8 0.22
17 10 0.27
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTTATTATTA
Found at i:1093513 original size:3 final size:3
Alignment explanation
Indices: 1093493--1093541 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
1093483 ATCTATTTAT
* *
1093493 TTA TTT TTA TTA TCTA TTA TT- TT- TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1093537 TTA TT
1 TTA TT
1093542 TTTTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:1093545 original size:13 final size:13
Alignment explanation
Indices: 1093488--1093545 Score: 64
Period size: 13 Copynumber: 4.2 Consensus size: 13
1093478 TATTAATCTA
1093488 TTTATTTATT-TTT
1 TTTA-TTATTATTT
*
1093501 ATTATCTATTATTT
1 TTTAT-TATTATTT
1093515 TTTATTATTATTATT
1 TTTATTATTA-T-TT
1093530 TTTATTATTATTT
1 TTTATTATTATTT
1093543 TTT
1 TTT
1093546 TTTTTGGTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 1 0.03
13 17 0.44
14 9 0.23
15 12 0.31
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTATTATTT
Found at i:1097863 original size:2 final size:2
Alignment explanation
Indices: 1097856--1097904 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1097846 CTAGAGTGCG
1097856 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1097898 CT CT CT C
1 CT CT CT C
1097905 CAAAACGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1101042 original size:2 final size:2
Alignment explanation
Indices: 1101035--1101073 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1101025 CAAAATGAAC
1101035 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1101074 ATCGAATGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1109301 original size:16 final size:15
Alignment explanation
Indices: 1109265--1109301 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
1109255 CCGGTGGATG
1109265 CTGGAGAAGTCGTAT
1 CTGGAGAAGTCGTAT
1109280 CATGGAGAAGTCGTACT
1 C-TGGAGAAGTCGTA-T
1109297 CTGGA
1 CTGGA
1109302 AAAATCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 17 0.85
17 2 0.10
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (15 bp):
CTGGAGAAGTCGTAT
Found at i:1110200 original size:16 final size:16
Alignment explanation
Indices: 1110163--1110194 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1110153 CTAAAAGAAC
1110163 CCGTACCCTATTACAT
1 CCGTACCCTATTACAT
1110179 CCGTACCCTATTACAT
1 CCGTACCCTATTACAT
1110195 GGGTACGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (16 bp):
CCGTACCCTATTACAT
Found at i:1114448 original size:168 final size:167
Alignment explanation
Indices: 1113976--1114457 Score: 614
Period size: 168 Copynumber: 2.9 Consensus size: 167
1113966 CACATGTGTG
* * * * *
1113976 GGAGTAGAGAAGAA-ATTTTTTTAAGATTTAAAACATTTTTACTATGTGGCCATATTGGCCCCAC
1 GGAGTAGAGAAGAAGA-TTTTCTAAAATTTAATATATTTTTACTATATGGCCATATTGGCCCCAC
* * ** * *
1114040 CGTAGAGCCTGAACCCCTAACAAAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTC-ATGA
65 CCTAGAGCCTGAACCCCTGACAAAGGGGTCATGAATTTCACAATTTAAGTAGA-GGCCTCAAGGA
* * * * *
1114104 ACATCATCACCAGGCATTTTGTTTTTAACAAATATATATT
129 A-ATCATAATCATGCATTTAGTTTTAAACAAATATATATT
* *
1114144 GGAGTAGAAAAGAAGATTTTC-AAAGATTT-ATTTCATTTTTACTATATGGCCATATTGGCCCCA
1 GGAGTAGAGAAGAAGATTTTCTAAA-ATTTAATAT-ATTTTTACTATATGGCCATATTGGCCCCA
* * *
1114207 CCCTAGAGCCTGAACCCCTGACACAGGGGTCATGAATTTCACAATTTAAGTAAAAGGCCTCATGG
64 CCCTAGAGCCTGAACCCCTGACAAAGGGGTCATGAATTTCACAATTTAAGT-AGAGGCCTCAAGG
* *
1114272 ACATCATAATCATGCATTTAGTTTTAAACAAATTTATA-T
128 AAATCATAATCATGCATTTAGTTTTAAACAAATATATATT
*
1114311 GGTAGTAGAGAAGAAGATTTTCTAAAATTTAATATATTTTTACTACATGGCCATATTGGCCCCAC
1 GG-AGTAGAGAAGAAGATTTTCTAAAATTTAATATATTTTTACTATATGGCCATATTGGCCCCAC
* *
1114376 CCTAGAGCCTGAACCCCTGATATAGGGGTCATGAATTTCACAATTTAAGTAGGAGGCCTCAAGGA
65 CCTAGAGCCTGAACCCCTGACAAAGGGGTCATGAATTTCACAATTTAAGTA-GAGGCCTCAAGGA
*
1114441 AATCATAATCGTGCATT
129 AATCATAATCATGCATT
1114458 ACACCAAAAA
Statistics
Matches: 273, Mismatches: 32, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
167 7 0.03
168 255 0.93
169 11 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (167 bp):
GGAGTAGAGAAGAAGATTTTCTAAAATTTAATATATTTTTACTATATGGCCATATTGGCCCCACC
CTAGAGCCTGAACCCCTGACAAAGGGGTCATGAATTTCACAATTTAAGTAGAGGCCTCAAGGAAA
TCATAATCATGCATTTAGTTTTAAACAAATATATATT
Found at i:1115367 original size:4 final size:4
Alignment explanation
Indices: 1115360--1115390 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1115350 AGAGAGAGAG
1115360 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
1115391 GAATTCAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:1123886 original size:2 final size:2
Alignment explanation
Indices: 1123879--1123909 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1123869 ACACTGGAAC
1123879 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1123910 ATCAACTCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1124582 original size:41 final size:42
Alignment explanation
Indices: 1124525--1124607 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
1124515 CTTTTTTGTT
* *
1124525 TACATTTTTAGAATGTAATTTT-ATTTTTTTACTTAATAATA
1 TACATTGTTAAAATGTAATTTTCATTTTTTTACTTAATAATA
* *
1124566 TACATTGTTAAAATGTAATTTTCCTTTTTTTTCTTAATAATA
1 TACATTGTTAAAATGTAATTTTCATTTTTTTACTTAATAATA
1124608 AAAATTTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (42 bp):
TACATTGTTAAAATGTAATTTTCATTTTTTTACTTAATAATA
Found at i:1125669 original size:2 final size:2
Alignment explanation
Indices: 1125662--1125709 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1125652 TGTTCAAGGT
1125662 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1125704 TC TC TC
1 TC TC TC
1125710 AAAAAGTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1126028 original size:2 final size:2
Alignment explanation
Indices: 1126021--1126089 Score: 129
Period size: 2 Copynumber: 34.5 Consensus size: 2
1126011 TTGTTCGTTC
*
1126021 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1126063 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1126090 CCTCATCAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1132474 original size:2 final size:2
Alignment explanation
Indices: 1132467--1132493 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1132457 TAATCGTTGA
1132467 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1132494 CTCATGGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1133710 original size:21 final size:21
Alignment explanation
Indices: 1133659--1133712 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1133649 TGCATTGTAT
*
1133659 TAATTT-CCATTTTTATTCAA
1 TAATTTACCATTTGTATTCAA
* *
1133679 TAA-ATATCCATTTGTATTTAA
1 TAATTTA-CCATTTGTATTCAA
1133700 TAATTTACCATTT
1 TAATTTACCATTT
1133713 TCATTGTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 21 0.78
22 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATTTACCATTTGTATTCAA
Found at i:1133867 original size:21 final size:21
Alignment explanation
Indices: 1133764--1133884 Score: 101
Period size: 21 Copynumber: 6.0 Consensus size: 21
1133754 TGCGTTGTAC
*
1133764 ATTTTTTATTTGTATTCG-AT-
1 ATTTTTCATTTGTATT-GTATA
* *
1133784 CTTTTCCATTTG-ATTTGTATA
1 ATTTTTCATTTGTA-TTGTATA
1133805 A-TTTTCATTTG-ATTGTATA
1 ATTTTTCATTTGTATTGTATA
* * *
1133824 A-ATTTCATTTGTACTGTACA
1 ATTTTTCATTTGTATTGTATA
*
1133844 ATTTTTCATTTGTATTGCATA
1 ATTTTTCATTTGTATTGTATA
* *
1133865 ATTCTTGATTTGTATTGTAT
1 ATTTTTCATTTGTATTGTAT
1133885 CTAAAGGATT
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
19 19 0.23
20 30 0.37
21 32 0.40
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (21 bp):
ATTTTTCATTTGTATTGTATA
Found at i:1134077 original size:21 final size:21
Alignment explanation
Indices: 1134051--1134236 Score: 120
Period size: 21 Copynumber: 9.0 Consensus size: 21
1134041 CAATTTAAAG
*
1134051 GAAATATTTTACTATACAAAT
1 GAAATATTTTACAATACAAAT
1134072 GAAATATTTTACAATACAAAT
1 GAAATATTTTACAATACAAAT
* **
1134093 GAAA-A-TATACAATGTAAAT
1 GAAATATTTTACAATACAAAT
* ** *
1134112 GGGAA-ATCGTAGAATACAAAT
1 -GAAATATTTTACAATACAAAT
* *
1134133 GAAA-ATTATACAATACTAAT
1 GAAATATTTTACAATACAAAT
* * * **
1134153 GAAAAATTATAGAATTGAAAT
1 GAAATATTTTACAATACAAAT
1134174 G-AA-A-TTTACAGAGTACAAAT
1 GAAATATTTTACA-A-TACAAAT
*
1134194 AGAAA-ATTATACAATACAAAT
1 -GAAATATTTTACAATACAAAT
1134215 GAAA-ATCTTTACAATACAAAT
1 GAAATAT-TTTACAATACAAAT
1134236 G
1 G
1134237 GAAAAGATCG
Statistics
Matches: 131, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
18 4 0.03
19 13 0.10
20 37 0.28
21 68 0.52
22 4 0.03
23 5 0.04
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (21 bp):
GAAATATTTTACAATACAAAT
Found at i:1134166 original size:41 final size:41
Alignment explanation
Indices: 1134021--1134241 Score: 171
Period size: 41 Copynumber: 5.4 Consensus size: 41
1134011 ACTAAGATAA
* * ** * *
1134021 AATACAAATGAAAAGTTATGCAATTTAAAGGAAATATTTTAC
1 AATACAAATGAAAAATTATACAATACAAATGAAA-ATTATAC
* * *
1134063 TATACAAATGAAATATTTTACAATACAAATGAAAA-TATAC
1 AATACAAATGAAAAATTATACAATACAAATGAAAATTATAC
** ** ** *
1134103 AATGTAAATGGGAAATCGTAGAATACAAATGAAAATTATAC
1 AATACAAATGAAAAATTATACAATACAAATGAAAATTATAC
* * **
1134144 AATACTAATGAAAAATTATAGAATTGAAATG-AAATT-TAC
1 AATACAAATGAAAAATTATACAATACAAATGAAAATTATAC
*
1134183 AGAGTACAAAT-AGAAAATTATACAATACAAATGAAAATCTTTAC
1 A-A-TACAAATGA-AAAATTATACAATACAAATGAAAAT-TATAC
*
1134227 AATACAAATGGAAAA
1 AATACAAATGAAAAA
1134242 GATCGAATAT
Statistics
Matches: 139, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
39 4 0.03
40 37 0.27
41 51 0.37
42 41 0.29
43 2 0.01
44 4 0.03
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (41 bp):
AATACAAATGAAAAATTATACAATACAAATGAAAATTATAC
Found at i:1140390 original size:17 final size:16
Alignment explanation
Indices: 1140349--1140391 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1140339 TCAATGCGAA
*
1140349 ATAATTTTTATTTTCT
1 ATAATTTTTATTTTAT
1140365 -TCAAATTTTTATTTTAT
1 AT--AATTTTTATTTTAT
1140382 ATAATTTTTA
1 ATAATTTTTA
1140392 ATGGTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 13 0.57
18 1 0.04
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTTATTTTAT
Found at i:1148098 original size:20 final size:20
Alignment explanation
Indices: 1148050--1148115 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
1148040 CTTGTATTTC
* *
1148050 TATTTATTTATTTATTCATT
1 TATTTATTCATTCATTCATT
* ** *
1148070 CATACATTCATTCCTTCATT
1 TATTTATTCATTCATTCATT
* *
1148090 TATTTATTCCTTCATTTATT
1 TATTTATTCATTCATTCATT
1148110 TATTTA
1 TATTTA
1148116 CTTTCATATA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTATTCATTCATTCATT
Found at i:1148105 original size:16 final size:16
Alignment explanation
Indices: 1148055--1148113 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
1148045 ATTTCTATTT
*
1148055 ATTTATTTATTCATTC
1 ATTTATTTATTCCTTC
** *
1148071 ATACATTCATTCCTTC
1 ATTTATTTATTCCTTC
1148087 ATTTATTTATTCCTTC
1 ATTTATTTATTCCTTC
1148103 ATTTATTTATT
1 ATTTATTTATT
1148114 TACTTTCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATTTATTCCTTC
Found at i:1151708 original size:18 final size:18
Alignment explanation
Indices: 1151695--1152015 Score: 383
Period size: 18 Copynumber: 17.8 Consensus size: 18
1151685 TTGCTTTTAG
1151695 GGTTGTCGCCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151713 TGTTGTCGCCGCTTGCGT
1 GGTTGTCGCCGCTTGTGT
1151731 GGTTGTCGCCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151749 TGTTGTTGCCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
*
1151767 AGTTGTCGCCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
1151785 GGTTGTCGCCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
1151803 GGTTGTCGCCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
**
1151821 GGTTGTAACCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
*
1151839 GGTTGTCGCCGATTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151857 GGTTGTTGCAGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151875 AGTTGTCGCTGGC-TGTGT
1 GGTTGTCGC-CGCTTGTGT
*
1151893 GGTTGTCGCTGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* * **
1151911 AGTTGTTGTTGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151929 AGTTGTCGCTGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151947 TGTTGTCGCTGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151965 AGTTGTTGCCGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1151983 AGTTGTCGCTGCTTGTGT
1 GGTTGTCGCCGCTTGTGT
* *
1152001 TGTTGTCGCTGCTTG
1 GGTTGTCGCCGCTTG
1152016 CGTAGTTTTT
Statistics
Matches: 267, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
17 2 0.01
18 263 0.99
19 2 0.01
ACGTcount: A:0.03, C:0.18, G:0.36, T:0.43
Consensus pattern (18 bp):
GGTTGTCGCCGCTTGTGT
Found at i:1151760 original size:54 final size:54
Alignment explanation
Indices: 1151696--1152022 Score: 431
Period size: 54 Copynumber: 6.1 Consensus size: 54
1151686 TGCTTTTAGG
* * * *
1151696 GTTGTCGCCGCTTGTGTTGTTGTCGCCGCTTGCGTGGTTGTCGCCGCTTGTGTT
1 GTTGTTGCCGCTTGTGTAGTTGTCGCCGCTTGTGTGGTTGTCGCCGCTTGTGTA
*
1151750 GTTGTTGCCGCTTGTGTAGTTGTCGCCGCTTGTGTGGTTGTCGCCGCTTGTGTG
1 GTTGTTGCCGCTTGTGTAGTTGTCGCCGCTTGTGTGGTTGTCGCCGCTTGTGTA
* * ** * *
1151804 GTTGTCGCCGCTTGTGTGGTTGTAACCGCTTGTGTGGTTGTCGCCGATTGTGTG
1 GTTGTTGCCGCTTGTGTAGTTGTCGCCGCTTGTGTGGTTGTCGCCGCTTGTGTA
* * *
1151858 GTTGTTGCAGCTTGTGTAGTTGTCGCTGGC-TGTGTGGTTGTCGCTGCTTGTGTA
1 GTTGTTGCCGCTTGTGTAGTTGTCGC-CGCTTGTGTGGTTGTCGCCGCTTGTGTA
** * * *
1151912 GTTGTTGTTGCTTGTGTAGTTGTCGCTGCTTGTGTTGTTGTCGCTGCTTGTGTA
1 GTTGTTGCCGCTTGTGTAGTTGTCGCCGCTTGTGTGGTTGTCGCCGCTTGTGTA
* * * *
1151966 GTTGTTGCCGCTTGTGTAGTTGTCGCTGCTTGTGTTGTTGTCGCTGCTTGCGTA
1 GTTGTTGCCGCTTGTGTAGTTGTCGCCGCTTGTGTGGTTGTCGCCGCTTGTGTA
1152020 GTT
1 GTT
1152023 TTTCCTGTGT
Statistics
Matches: 246, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
53 2 0.01
54 242 0.98
55 2 0.01
ACGTcount: A:0.03, C:0.18, G:0.35, T:0.43
Consensus pattern (54 bp):
GTTGTTGCCGCTTGTGTAGTTGTCGCCGCTTGTGTGGTTGTCGCCGCTTGTGTA
Found at i:1152235 original size:18 final size:18
Alignment explanation
Indices: 1152209--1152252 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1152199 GGTTACTGCN
1152209 GTGTAGTTGTTGCCGCTT
1 GTGTAGTTGTTGCCGCTT
* *
1152227 GTGTTGTTGTTGCTGCTT
1 GTGTAGTTGTTGCCGCTT
*
1152245 GCGTAGTT
1 GTGTAGTT
1152253 TTTCCTGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.14, G:0.34, T:0.48
Consensus pattern (18 bp):
GTGTAGTTGTTGCCGCTT
Found at i:1152382 original size:230 final size:229
Alignment explanation
Indices: 1151979--1152437 Score: 846
Period size: 230 Copynumber: 2.0 Consensus size: 229
1151969 GTTGCCGCTT
*
1151979 GTGTAGTTGTCGCTGCTTGTGTTGTTGTCGCTGCTTGCGTAGTTTTTCCTGTGTGCCCAGATGTT
1 GTGTAGTTGTCGCCGCTTGTGTTGTTGTCGCTGCTTGCGTAGTTTTTCCTGTGTGCCCAGATGTT
*
1152044 ACTGGATGTTTCGTAGAAATAGCGCTTGCTGATGAATGAAATTTGATGGGAGATTTGGTTGTTGT
66 ACTGGATGTTTCGTAGAAAAAGCGCTTGCTGATGAATGAAATTTGATGGGAGATTTGGTTGTTGT
1152109 AACTTTCTTAGTTGTTAATGTTGTCTTTTTATCTGTTGTCTGTGTTTTCGCTGTTGTAGCCGCTT
131 AACTTTCTTAGTTGTTAATGTTGTCTTTTTATCTGTTGTCTGTGTTTTCGCTGTTGTAGCCGCTT
* *
1152174 TTGTACTTGTCGGTGCTTGTGTGGTGGTTACTGC
196 GTGTACTTGTCGGTGCTTGTGTGGTGGTAACTGC
* * *
1152208 NGTGTAGTTGTTGCCGCTTGTGTTGTTGTTGCTGCTTGCGTAGTTTTTCCTGTGTGCCCAGGTGT
1 -GTGTAGTTGTCGCCGCTTGTGTTGTTGTCGCTGCTTGCGTAGTTTTTCCTGTGTGCCCAGATGT
1152273 TACTGGATGTTTCGTAGAAAAAGCGCTTGCTGATGAATGAAATTTGATGGGAGATTTGGTTGTTG
65 TACTGGATGTTTCGTAGAAAAAGCGCTTGCTGATGAATGAAATTTGATGGGAGATTTGGTTGTTG
1152338 TAACTTTCTTAGTTGTTAATGTTGTCTTTTTATCTGTTGTCTGTGTTTTCGCTGTTGTAGCCGCT
130 TAACTTTCTTAGTTGTTAATGTTGTCTTTTTATCTGTTGTCTGTGTTTTCGCTGTTGTAGCCGCT
1152403 TGTGTACTTGTCGGTGCTTGTGTGGTGGTAACTGC
195 TGTGTACTTGTCGGTGCTTGTGTGGTGGTAACTGC
1152438 TGGAGAAGAT
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
230 222 1.00
ACGTcount: A:0.13, C:0.14, G:0.29, T:0.44
Consensus pattern (229 bp):
GTGTAGTTGTCGCCGCTTGTGTTGTTGTCGCTGCTTGCGTAGTTTTTCCTGTGTGCCCAGATGTT
ACTGGATGTTTCGTAGAAAAAGCGCTTGCTGATGAATGAAATTTGATGGGAGATTTGGTTGTTGT
AACTTTCTTAGTTGTTAATGTTGTCTTTTTATCTGTTGTCTGTGTTTTCGCTGTTGTAGCCGCTT
GTGTACTTGTCGGTGCTTGTGTGGTGGTAACTGC
Found at i:1153198 original size:24 final size:24
Alignment explanation
Indices: 1153152--1153201 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
1153142 GTTACCATTG
* *
1153152 CCGTTGTTACCATTTCCATTGTTA
1 CCGTTGTTACCATTACCACTGTTA
*
1153176 CCGTTGTTACCATTACCGCTGTTA
1 CCGTTGTTACCATTACCACTGTTA
1153200 CC
1 CC
1153202 ATTGCCATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.40
Consensus pattern (24 bp):
CCGTTGTTACCATTACCACTGTTA
Found at i:1153199 original size:39 final size:39
Alignment explanation
Indices: 1153137--1153303 Score: 163
Period size: 39 Copynumber: 4.1 Consensus size: 39
1153127 CCCGCTATTG
* * *
1153137 CCGTTGTTACCATTGCCGTTGTTACCATTTCCATTGTTA
1 CCGTTGTTACCATTACCGCTGTTACCATTGCCATTGTTA
*
1153176 CCGTTGTTACCATTACCGCTGTTACCATTGCCATTGTTG
1 CCGTTGTTACCATTACCGCTGTTACCATTGCCATTGTTA
* * *
1153215 CCGTTGTTACCATTTCCATTGTTGCCGTTGTTACCATTGCCGTTGTTG
1 CCGTTGTTACCA-TT--A------CCGCTGTTACCATTGCCATTGTTA
* * *
1153263 CCGTTGTTACCATTGCCGTTGTTACCATTGCCGTTGTTA
1 CCGTTGTTACCATTACCGCTGTTACCATTGCCATTGTTA
1153302 CC
1 CC
1153304 ATTGCCGTTG
Statistics
Matches: 111, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
39 72 0.65
40 2 0.02
42 1 0.01
47 2 0.02
48 34 0.31
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (39 bp):
CCGTTGTTACCATTACCGCTGTTACCATTGCCATTGTTA
Found at i:1153222 original size:24 final size:24
Alignment explanation
Indices: 1153195--1153285 Score: 155
Period size: 24 Copynumber: 3.8 Consensus size: 24
1153185 CCATTACCGC
1153195 TGTTACCATTGCCATTGTTGCCGT
1 TGTTACCATTGCCATTGTTGCCGT
*
1153219 TGTTACCATTTCCATTGTTGCCGT
1 TGTTACCATTGCCATTGTTGCCGT
*
1153243 TGTTACCATTGCCGTTGTTGCCGT
1 TGTTACCATTGCCATTGTTGCCGT
*
1153267 TGTTACCATTGCCGTTGTT
1 TGTTACCATTGCCATTGTT
1153286 ACCATTGCCG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (24 bp):
TGTTACCATTGCCATTGTTGCCGT
Found at i:1153247 original size:48 final size:48
Alignment explanation
Indices: 1153195--1153384 Score: 233
Period size: 48 Copynumber: 4.0 Consensus size: 48
1153185 CCATTACCGC
1153195 TGTTACCATTGCCATTGTTGCCGTTGTTACCATTTCCATTGTTGCCGT
1 TGTTACCATTGCCATTGTTGCCGTTGTTACCATTTCCATTGTTGCCGT
* * * * *
1153243 TGTTACCATTGCCGTTGTTGCCGTTGTTACCATTGCCGTTGTTACCAT
1 TGTTACCATTGCCATTGTTGCCGTTGTTACCATTTCCATTGTTGCCGT
* ** ***
1153291 TG---CCGTTGTTACCATTGCCGTTGTTACCATTTCCATTGTTGCCGT
1 TGTTACCATTGCCATTGTTGCCGTTGTTACCATTTCCATTGTTGCCGT
* * *
1153336 TGTTACTATTGCCGTTGTTGCCGTTGTTTCCATTTCCATTGTTGCCGT
1 TGTTACCATTGCCATTGTTGCCGTTGTTACCATTTCCATTGTTGCCGT
1153384 T
1 T
1153385 TCCGTTATTT
Statistics
Matches: 114, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
45 34 0.30
48 80 0.70
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (48 bp):
TGTTACCATTGCCATTGTTGCCGTTGTTACCATTTCCATTGTTGCCGT
Found at i:1153330 original size:15 final size:15
Alignment explanation
Indices: 1153133--1153321 Score: 147
Period size: 15 Copynumber: 13.2 Consensus size: 15
1153123 AATTCCCGCT
1153133 ATTGCCGTTGTTACC
1 ATTGCCGTTGTTACC
1153148 ATTGCCGTTGTTACC
1 ATTGCCGTTGTTACC
* *
1153163 ATTTCCATTGTT---
1 ATTGCCGTTGTTACC
1153175 A---CCGTTGTTACC
1 ATTGCCGTTGTTACC
* *
1153187 ATTACCGCTGTTACC
1 ATTGCCGTTGTTACC
* *
1153202 ATTGCCATTGTTGCC
1 ATTGCCGTTGTTACC
* *
1153217 GTTGTTACC-AT-TT-CC
1 ATTG---CCGTTGTTACC
1153232 ATTGTTGCCGTTGTTACC
1 A---TTGCCGTTGTTACC
1153250 ATTGCCGTTG-----
1 ATTGCCGTTGTTACC
1153260 -TTGCCGTTGTTACC
1 ATTGCCGTTGTTACC
1153274 ATTGCCGTTGTTACC
1 ATTGCCGTTGTTACC
1153289 ATTGCCGTTGTTACC
1 ATTGCCGTTGTTACC
1153304 ATTGCCGTTGTTACC
1 ATTGCCGTTGTTACC
1153319 ATT
1 ATT
1153322 TCCATTGTTG
Statistics
Matches: 141, Mismatches: 12, Indels: 42
0.72 0.06 0.22
Matches are distributed among these distances:
9 16 0.11
12 2 0.01
15 109 0.77
16 3 0.02
17 3 0.02
18 8 0.06
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.42
Consensus pattern (15 bp):
ATTGCCGTTGTTACC
Found at i:1153334 original size:24 final size:24
Alignment explanation
Indices: 1153305--1153384 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
1153295 GTTGTTACCA
1153305 TTGCCGTTGTTACCATTTCCATTG
1 TTGCCGTTGTTACCATTTCCATTG
* * *
1153329 TTGCCGTTGTTACTATTGCCGTTG
1 TTGCCGTTGTTACCATTTCCATTG
*
1153353 TTGCCGTTGTTTCCATTTCCATTG
1 TTGCCGTTGTTACCATTTCCATTG
1153377 TTGCCGTT
1 TTGCCGTT
1153385 TCCGTTATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.09, C:0.24, G:0.20, T:0.47
Consensus pattern (24 bp):
TTGCCGTTGTTACCATTTCCATTG
Found at i:1153378 original size:39 final size:39
Alignment explanation
Indices: 1153137--1153378 Score: 124
Period size: 39 Copynumber: 6.2 Consensus size: 39
1153127 CCCGCTATTG
* *
1153137 CCGTTGTTACCATTGCCGTTGTTACC---ATTTCCATTGTT
1 CCGTTGTTACCATTGCCGTTGTTGCCGTTGTTTCCA-T-TT
* * * *
1153175 ACCGTTGTTACCATTACCGCTGTTACCATTG---CCATTGTT
1 -CCGTTGTTACCATTGCCGTTGTTGCCGTTGTTTCCA-T-TT
* * * *
1153214 GCCGTTGTTACCATTTCCATTGTTGCCGTTGTTACCATTG
1 -CCGTTGTTACCATTGCCGTTGTTGCCGTTGTTTCCATTT
* * ****** * *
1153254 CCGTTGTTGCCGTTGTTACCATTGCCGTTGTTACCATTG
1 CCGTTGTTACCATTGCCGTTGTTGCCGTTGTTTCCATTT
* *
1153293 CCGTTGTTACCATTGCCGTTGTTACC---ATTTCCATTGTT
1 CCGTTGTTACCATTGCCGTTGTTGCCGTTGTTTCCA-T-TT
*
1153331 GCCGTTGTTACTATTGCCGTTGTTGCCGTTGTTTCCATTT
1 -CCGTTGTTACCATTGCCGTTGTTGCCGTTGTTTCCATTT
*
1153371 CCATTGTT
1 CCGTTGTT
1153379 GCCGTTTCCG
Statistics
Matches: 157, Mismatches: 34, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
36 5 0.03
37 1 0.01
38 1 0.01
39 136 0.87
40 3 0.02
41 2 0.01
42 9 0.06
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.43
Consensus pattern (39 bp):
CCGTTGTTACCATTGCCGTTGTTGCCGTTGTTTCCATTT
Done.