Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008580.1 Hibiscus syriacus cultivar Beakdansim tig00111514_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 149825
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:11070 original size:21 final size:21
Alignment explanation
Indices: 11002--11082 Score: 92
Period size: 23 Copynumber: 3.8 Consensus size: 21
10992 TATTTGGCAG
* *
11002 AGGGAATCGATACCCCC-ATA
1 AGGGAATCGATTCCCCCTTTA
11022 AGGGAATCGATTCCCCCTTTGA
1 AGGGAATCGATTCCCCCTTT-A
* *
11044 ATGGGAACCGATTCCCTCTTTA
1 A-GGGAATCGATTCCCCCTTTA
*
11066 AGGGAATCGATGCCCCC
1 AGGGAATCGATTCCCCC
11083 CCCACGGGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 16 0.31
21 14 0.27
22 4 0.08
23 17 0.33
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (21 bp):
AGGGAATCGATTCCCCCTTTA
Found at i:17140 original size:58 final size:53
Alignment explanation
Indices: 17041--17165 Score: 135
Period size: 57 Copynumber: 2.3 Consensus size: 53
17031 TTGAATTTAC
* *
17041 AAGGACCAAAATAACAAAAATAGAAACTTAAGGGACTAAATAGCAAATACATACATTA
1 AAGGATCAAAATAACAAAAATAGAAACTTAAGGAACTAAATAG-AAA-A-A-AC-TTA
* * * *
17099 AAGGATTAAAATAAC-AAAATAGAAACTTGAGTAATTAAAATAGAAAAAACTTA
1 AAGGATCAAAATAACAAAAATAGAAACTTAAGGAACT-AAATAGAAAAAACTTA
17152 AAGGATCAAAATAA
1 AAGGATCAAAATAA
17166 ATAAATATGA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
53 16 0.27
54 2 0.03
55 1 0.02
56 1 0.02
57 20 0.34
58 19 0.32
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (53 bp):
AAGGATCAAAATAACAAAAATAGAAACTTAAGGAACTAAATAGAAAAAACTTA
Found at i:18918 original size:3 final size:3
Alignment explanation
Indices: 18910--18948 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
18900 TAATTACTAT
*
18910 TAA TAA TAA TCAA TAA TAA T-A TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18949 GTATAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:19232 original size:17 final size:17
Alignment explanation
Indices: 19210--19250 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
19200 TAACCCTATT
19210 AAAATCATAAGC-TCCAC
1 AAAATCATAA-CATCCAC
*
19227 ATAATCATAACATCCAC
1 AAAATCATAACATCCAC
19244 AAAATCA
1 AAAATCA
19251 AACTAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATCATAACATCCAC
Found at i:19402 original size:81 final size:81
Alignment explanation
Indices: 19267--19417 Score: 248
Period size: 81 Copynumber: 1.9 Consensus size: 81
19257 TGCTCCCTAA
* *
19267 TTTTAATACTGGAATCTGCTGAATTTTGCTATTTGGGGTTAAGATTTTGTGTTATGATTTAATTT
1 TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGAGGTTAAGATTTTGTGTTATGATTTAATTT
*
19332 TATAACTATCGTTTAG
66 CATAACTATCGTTTAG
* * *
19348 TTTTAATACTGGAATCTGCTGAATTTTTCTAATTGAGGTTAGGATTTTGTGTTATGATTTAGTTT
1 TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGAGGTTAAGATTTTGTGTTATGATTTAATTT
19413 CATAA
66 CATAA
19418 GACTCTGGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (81 bp):
TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGAGGTTAAGATTTTGTGTTATGATTTAATTT
CATAACTATCGTTTAG
Found at i:20303 original size:16 final size:16
Alignment explanation
Indices: 20254--20306 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
20244 TGGGTTTGAT
20254 TTTGTGGAGCTTATGA
1 TTTGTGGAGCTTATGA
* *
20270 TTTTCAATGG-GGTTATGA
1 -TTT--GTGGAGCTTATGA
20288 TTTGTGGAGCTTATGA
1 TTTGTGGAGCTTATGA
20304 TTT
1 TTT
20307 TTTTGGAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 3 0.10
16 10 0.34
17 6 0.21
18 7 0.24
19 3 0.10
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.47
Consensus pattern (16 bp):
TTTGTGGAGCTTATGA
Found at i:21214 original size:19 final size:21
Alignment explanation
Indices: 21175--21224 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
21165 TTATTGGAAA
*
21175 TATTATTATTTCTATCGGTTT
1 TATTATTATTTCTATCAGTTT
*
21196 TGTTATT-TTT-TATCAGTTT
1 TATTATTATTTCTATCAGTTT
21215 TATTATTATT
1 TATTATTATT
21225 GGACACTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 14 0.56
20 5 0.20
21 6 0.24
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (21 bp):
TATTATTATTTCTATCAGTTT
Found at i:21280 original size:20 final size:21
Alignment explanation
Indices: 21241--21282 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21231 TTTATCAAAA
* *
21241 ATATTAAAAAATATTGATTTT
1 ATATAAAAAAATAATGATTTT
21262 ATATAAAAAAATAAT-ATTTT
1 ATATAAAAAAATAATGATTTT
21282 A
1 A
21283 AGTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATAAAAAAATAATGATTTT
Found at i:40729 original size:20 final size:20
Alignment explanation
Indices: 40706--40758 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
40696 CTGAGGGGTA
40706 GTATCGATACCATAAGGAAT
1 GTATCGATACCATAAGGAAT
*
40726 GTATCGATACCATAAGGCAT
1 GTATCGATACCATAAGGAAT
40746 GTATCGATACCAT
1 GTATCGATACCAT
40759 TTTTGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
GTATCGATACCATAAGGAAT
Found at i:41305 original size:23 final size:22
Alignment explanation
Indices: 41264--41308 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
41254 AAACATAAGC
41264 TATATGATATGAGAAAGATGAT
1 TATATGATATGAGAAAGATGAT
* *
41286 TATATGTATATGTGATAGATGAT
1 TATATG-ATATGAGAAAGATGAT
41309 ATGTGGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (22 bp):
TATATGATATGAGAAAGATGAT
Found at i:41312 original size:14 final size:14
Alignment explanation
Indices: 41292--41329 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
41282 TGATTATATG
41292 TATATGTGAT-AGA
1 TATATGTGATGAGA
*
41305 TGATATGTGGTGAGA
1 T-ATATGTGATGAGA
41320 TATATGTGAT
1 TATATGTGAT
41330 TATAAGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 16 0.76
15 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (14 bp):
TATATGTGATGAGA
Found at i:41496 original size:21 final size:21
Alignment explanation
Indices: 41467--41506 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
41457 AGTCAAGGGT
*
41467 TATATGAGGTCCTTCGGGATA
1 TATACGAGGTCCTTCGGGATA
41488 TATACGAGGTCCTTCGGGA
1 TATACGAGGTCCTTCGGGA
41507 CAAATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
TATACGAGGTCCTTCGGGATA
Found at i:45365 original size:13 final size:13
Alignment explanation
Indices: 45347--45374 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45337 CCTAGACCAC
45347 ACTCGAGAGTGAA
1 ACTCGAGAGTGAA
45360 ACTCGAGAGTGAA
1 ACTCGAGAGTGAA
45373 AC
1 AC
45375 ACTCATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (13 bp):
ACTCGAGAGTGAA
Found at i:49165 original size:20 final size:20
Alignment explanation
Indices: 49142--49192 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
49132 CTTAAGGCAA
**
49142 AATATCGATACTAAAAGGTC
1 AATATCGATACTAAAAGACC
* *
49162 AATATTGATACTGAAAGACC
1 AATATCGATACTAAAAGACC
*
49182 ACTATCGATAC
1 AATATCGATAC
49193 CATCATACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
AATATCGATACTAAAAGACC
Found at i:54202 original size:19 final size:19
Alignment explanation
Indices: 54178--54214 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
54168 AAGGGCAATG
54178 TGAGTATGATTAATGTACC
1 TGAGTATGATTAATGTACC
54197 TGAGTATGATTAATGTAC
1 TGAGTATGATTAATGTAC
54215 GACATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (19 bp):
TGAGTATGATTAATGTACC
Found at i:68687 original size:48 final size:48
Alignment explanation
Indices: 68602--68818 Score: 253
Period size: 48 Copynumber: 4.6 Consensus size: 48
68592 CTCATCGGAT
* *
68602 AAAGGAAAAGGAACAGAACCTTCC-A--AAA-CTGTTAAAAATCCAGAA
1 AAAGGCAAAGGAACAGAACC-TCCAACCAAATCTGTTAAAAATCCAGAC
* *
68647 AAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAATCCAGAC
1 AAAGGCAAAGGAACAGAACCTCCAACCAAATCTGTTAAAAATCCAGAC
* * * *
68695 AAAGGAAAAGGAGCAGAAACTCCAACCAAATCTGTCAAAAATCCAGAC
1 AAAGGCAAAGGAACAGAACCTCCAACCAAATCTGTTAAAAATCCAGAC
** * *
68743 AAAGGCAAAGGGGCAGAACCTCCTACCAAATCTGTTAAAAATCCATAC
1 AAAGGCAAAGGAACAGAACCTCCAACCAAATCTGTTAAAAATCCAGAC
* * * *
68791 AAAGGAAAAGGAGCAGAATCTCCTACCA
1 AAAGGCAAAGGAACAGAACCTCCAACCA
68819 CGTAAAAAGG
Statistics
Matches: 150, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
44 3 0.02
45 19 0.13
47 3 0.02
48 125 0.83
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (48 bp):
AAAGGCAAAGGAACAGAACCTCCAACCAAATCTGTTAAAAATCCAGAC
Found at i:68763 original size:96 final size:96
Alignment explanation
Indices: 68624--68818 Score: 291
Period size: 96 Copynumber: 2.0 Consensus size: 96
68614 ACAGAACCTT
*
68624 CCAAAACTGTTAAAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAAT
1 CCAAAACTGTCAAAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAAT
68689 CCAGACAAAGGAAAAGGAGCAGAAACTCCAA
66 CCAGACAAAGGAAAAGGAGCAGAAACTCCAA
* * * ** * *
68720 CCAAATCTGTCAAAAATCCAGACAAAGGCAAAGGGGCAGAACCTCCTACCAAATCTGTTAAAAAT
1 CCAAAACTGTCAAAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAAT
* * *
68785 CCATACAAAGGAAAAGGAGCAGAATCTCCTA
66 CCAGACAAAGGAAAAGGAGCAGAAACTCCAA
68816 CCA
1 CCA
68819 CGTAAAAAGG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.13
Consensus pattern (96 bp):
CCAAAACTGTCAAAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAAT
CCAGACAAAGGAAAAGGAGCAGAAACTCCAA
Found at i:73602 original size:94 final size:95
Alignment explanation
Indices: 73495--73684 Score: 319
Period size: 94 Copynumber: 2.0 Consensus size: 95
73485 ATTTTCTTTA
* * *
73495 ACCGTTAACCGAACCGGAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGATTTTTTTTC
1 ACCGTTAACCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
*
73560 TTTAACATTAATCGAACTGAAA-TTATTTG
66 TTTAACATTAATCGAACCGAAATTTATTTG
* *
73589 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCACATTAACCGAATTTTTTTC
1 ACCGTTAACCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
73654 TTTAACATTAATCGAACCGAAATTTATTTG
66 TTTAACATTAATCGAACCGAAATTTATTTG
73684 A
1 A
73685 AAATTATTAA
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 81 0.91
95 8 0.09
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (95 bp):
ACCGTTAACCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
TTTAACATTAATCGAACCGAAATTTATTTG
Found at i:73667 original size:68 final size:68
Alignment explanation
Indices: 73593--73749 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 68
73583 TATTTGACCG
* *
73593 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCACATTAACCGAATTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
73658 ACA
66 ACA
*
73661 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
73726 ACA
66 ACA
73729 TTAATCGAACCGAAA-TTATTT
1 TTAATCGAACCGAAATTTATTT
73750 TACCGTTAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 6 0.07
68 80 0.93
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (68 bp):
TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
ACA
Found at i:73672 original size:162 final size:163
Alignment explanation
Indices: 73481--73790 Score: 532
Period size: 162 Copynumber: 1.9 Consensus size: 163
73471 TGTTTAAATA
* *
73481 AATTATTTTCTTTAACCGTTAACCGAACCGGAATTTATTTGAAAATTATTAACCGAACCAAATTA
1 AATTATTTTCTTTAACCATTAACCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
* * *
73546 ACCGATTTTTTTTCTTTAACATTAATCGAACTGAAATTATTTGACCGTTAATCGAACCGAAATTT
66 ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTT
73611 ATTTAAAAATTATTAACCGAACCACATTAACCG
131 ATTTAAAAATTATTAACCGAACCACATTAACCG
* *
73644 AATTTTTTTCTTTAA-CATTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
1 AATTATTTTCTTTAACCATTAACCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
*
73708 ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTTACCGTTAATCGAACCGAAATTT
66 ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTT
*
73773 ATTTGAAAATTATTAACC
131 ATTTAAAAATTATTAACC
73791 AAATTTTTTT
Statistics
Matches: 138, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
162 124 0.90
163 14 0.10
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (163 bp):
AATTATTTTCTTTAACCATTAACCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTT
ATTTAAAAATTATTAACCGAACCACATTAACCG
Found at i:73715 original size:94 final size:94
Alignment explanation
Indices: 73522--73708 Score: 245
Period size: 94 Copynumber: 2.0 Consensus size: 94
73512 AATTTATTTG
* *
73522 AAAATTATTAACCGAACCAAATTAACCGATTTTTTTTCTTTAACATTAATCGAACTGAAATTATT
1 AAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATT
*** *** *
73587 TGACCGTTAATCGAACCGAAATTTATTTA
66 TGAAAATTAATCGAACCGAAACCAAATTA
*
73616 AAAATTATTAACCGAACCACATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTTAT
1 AAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAA-TTAT
*
73681 TTGAAAATT-AT-TAACCG-AACCAAATTA
65 TTGAAAATTAATCGAACCGAAACCAAATTA
73708 A
1 A
73709 CCAAATTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
92 7 0.09
93 5 0.06
94 59 0.73
95 10 0.12
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (94 bp):
AAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATT
TGAAAATTAATCGAACCGAAACCAAATTA
Found at i:73826 original size:81 final size:80
Alignment explanation
Indices: 73704--73876 Score: 292
Period size: 81 Copynumber: 2.1 Consensus size: 80
73694 ACCGAACCAA
* * *
73704 ATTAACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTTACCGTTAATCGAACCGAA
1 ATTAACCAAATTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
73769 ATTTATTTGAAAATT
66 ATTTATTTGAAAATT
73784 ATTAACCAAATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
1 ATTAACCAAATTTTTTTCTTTAA-CATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
*
73849 TATTTATTTGAAAATT
65 AATTTATTTGAAAATT
*
73865 ATTAACTAAATT
1 ATTAACCAAATT
73877 AACCGAATAA
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 23 0.26
81 64 0.74
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (80 bp):
ATTAACCAAATTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
ATTTATTTGAAAATT
Found at i:74024 original size:249 final size:242
Alignment explanation
Indices: 73542--74039 Score: 658
Period size: 249 Copynumber: 2.0 Consensus size: 242
73532 ACCGAACCAA
* * * * *
73542 ATTAACCGATTTTTTTTCTTTAACATTAATCGAACTGAAATTATTTGACCGTTAATCGAACCGAA
1 ATTAACCAAATTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
* * *
73607 ATTTATTTAAAAATTATTAACCGAACCACATTAACCGAATTTTTTTCTTTAACATTAATCGAACC
66 ATTTATTTAAAAATTATTAACCGAACCACATAAAACAAATTTTTTTCTTTAACATTAATCGAACC
* * * *
73672 GAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTAACATTAATCGA
131 GAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAACATTAACCAA
* * * *
73737 ACCGAAATTATTTTACCGTTAATCGAACCGAAATTTATTTGAAAATT
196 ACCAAAATTATTTGACCATTAATCGAACCAAAATTTATTTGAAAATT
73784 ATTAACCAAATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
1 ATTAACCAAATTTTTTTCTTTAA-CATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
* * ** * *
73849 TATTTATTTGAAAATTATTAACTAAATTAACCGA-ATAAAATAAATTATTTTTCTTTAACCGTTA
65 AATTTATTTAAAAATTATTAAC----CGAACC-ACATAAAACAAATT-TTTTTCTTTAA-CATTA
* * *
73913 ATCGAACCGAAATTTATTTGAAAATTATTAATCAAATCAAATCAACC-GATTTTTTTCTTTAACC
123 ATCGAACCGAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAA-C
* *
73977 ATTAACCAAACTAAAATTATTTGACCATTAATCGAATCAAAATTTATTTGAAAATT
187 ATTAACCAAACCAAAATTATTTGACCATTAATCGAACCAAAATTTATTTGAAAATT
74033 ATTAACC
1 ATTAACC
74040 GAATAAATTA
Statistics
Matches: 220, Mismatches: 27, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
242 21 0.10
243 58 0.26
247 12 0.05
248 26 0.12
249 103 0.47
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (242 bp):
ATTAACCAAATTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
ATTTATTTAAAAATTATTAACCGAACCACATAAAACAAATTTTTTTCTTTAACATTAATCGAACC
GAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAACATTAACCAA
ACCAAAATTATTTGACCATTAATCGAACCAAAATTTATTTGAAAATT
Found at i:74182 original size:160 final size:161
Alignment explanation
Indices: 73784--74253 Score: 522
Period size: 160 Copynumber: 2.9 Consensus size: 161
73774 TTTGAAAATT
* ** *
73784 ATTAACCAAATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
1 ATTAACCGAATTTTTTTCTTTAACCATTAACCGAACCGAAATTATTTGACCGTTAATCGAACCAA
* * *
73849 TATTTATTTGAAAATTATTAACTAAATTAACCGAATAAAATAAATTA-TTTTTCTTTAACCGTTA
66 AATTTATTTG-AAA--A-T---T--ATTAACCGAATAAATTAAATTATTTTTTCTTTAACCATTA
* * *
73913 ATCGAACCGAAATTTATTTGAAAATTATTAATCAAATCAA
122 ATCGAACCGAAATTTATTTGAAAATTAATAACCAAACCAA
* * ** * *
73953 ATCAACCG-ATTTTTTTCTTTAACCATTAACCAAACTAAAATTATTTGACCATTAATCGAATCAA
1 ATTAACCGAATTTTTTTCTTTAACCATTAACCGAACCGAAATTATTTGACCGTTAATCGAACCAA
* *
74017 AATTTATTTGAAAATTATTAACCGAATAAATTAAATTATTTTTTCCTTAACCATTAATCGAACCA
66 AATTTATTTGAAAATTATTAACCGAATAAATTAAATTATTTTTTCTTTAACCATTAATCGAACCG
*
74082 AAATTTATTTGAAAATTAATAACCGAACCAA
131 AAATTTATTTGAAAATTAATAACCAAACCAA
* * * *
74113 ATTAACCGAATTTTTTTCTTTAA-CATGAACCGAGCCGAAATTATTTGTCCGTTAA-CTGAACCT
1 ATTAACCGAATTTTTTTCTTTAACCATTAACCGAACCGAAATTATTTGACCGTTAATC-GAACCA
* * * *
74176 AAATTTATTTGAAAATTATTAATCTAACCAAATT-AATCGAATTTGTTTCTTTAA-CATTAATCG
65 AAATTTATTTGAAAATTATTAACCGAA-TAAATTAAAT--TATTT-TTTCTTTAACCATTAATCG
74239 AACCGAAA-TTATTTG
126 AACCGAAATTTATTTG
74254 TCCGTTAATC
Statistics
Matches: 259, Mismatches: 35, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
159 22 0.08
160 114 0.44
161 27 0.10
162 20 0.08
163 8 0.03
164 1 0.00
165 1 0.00
167 3 0.01
168 57 0.22
169 6 0.02
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (161 bp):
ATTAACCGAATTTTTTTCTTTAACCATTAACCGAACCGAAATTATTTGACCGTTAATCGAACCAA
AATTTATTTGAAAATTATTAACCGAATAAATTAAATTATTTTTTCTTTAACCATTAATCGAACCG
AAATTTATTTGAAAATTAATAACCAAACCAA
Found at i:74184 original size:94 final size:94
Alignment explanation
Indices: 74070--74429 Score: 501
Period size: 94 Copynumber: 3.8 Consensus size: 94
74060 TCCTTAACCA
* * *
74070 TTAATCGAACCAAAATTTATTTGAAAATTAATAACCGAACCAAATTAACCGAATTTTTTTCTTTA
1 TTAATAGAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTA
* * *
74135 ACATGAACCGAGCCGAAATTATTTGTCCG
66 ACATTAATCGAACCGAAATTATTTGTCCG
* * * *
74164 TTAACT-GAACCTAAATTTATTTGAAAATTATTAATCTAACCAAATTAATCGAATTTGTTTCTTT
1 TTAA-TAGAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTT
74228 AACATTAATCGAACCGAAATTATTTGTCCG
65 AACATTAATCGAACCGAAATTATTTGTCCG
* * * * *
74258 TTAATCGAA-CTGAAATTTATTTGAAACTTATTAACTGAACCACATTAACCGAATTGTTTTCTTT
1 TTAATAGAACCT-AAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTT
* *
74322 AACATTAATTGAACCGAAATTATTTGACCG
65 AACATTAATCGAACCGAAATTATTTGTCCG
* *
74352 TTAATAGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACC-TATTTTTTTCTTTA
1 TTAATAGAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTA
*
74416 ACATTAATTGAACC
66 ACATTAATCGAACC
74430 TGTAACACCC
Statistics
Matches: 236, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
93 29 0.12
94 205 0.87
95 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (94 bp):
TTAATAGAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTA
ACATTAATCGAACCGAAATTATTTGTCCG
Found at i:74636 original size:12 final size:12
Alignment explanation
Indices: 74619--74652 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
74609 ATTATACGGT
* *
74619 ATGAACAGTATC
1 ATGAACAATACC
74631 ATGAACAATACC
1 ATGAACAATACC
74643 ATGAACAATA
1 ATGAACAATA
74653 TTAAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:75586 original size:31 final size:31
Alignment explanation
Indices: 75551--75613 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
75541 TGACCTATGT
*
75551 AACTGTCTATATGTTCCGAAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
75582 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
75613 A
1 A
75614 CCCTCGACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:76254 original size:24 final size:24
Alignment explanation
Indices: 76227--76280 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
76217 CATTTTAGGA
*
76227 GTCACTTCTTACCATAGTAACTCG
1 GTCACTTCTTACCACAGTAACTCG
76251 GTCACTTCTTACCACAGTAACTCG
1 GTCACTTCTTACCACAGTAACTCG
76275 GTCACT
1 GTCACT
76281 GGCTCATTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (24 bp):
GTCACTTCTTACCACAGTAACTCG
Found at i:77710 original size:3 final size:3
Alignment explanation
Indices: 77697--77736 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
77687 TTTTTTATCG
77697 TTA TT- TTA TTA TTA TTA TTA TT- TT- TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
77737 GTTTATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:77724 original size:19 final size:19
Alignment explanation
Indices: 77700--77736 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
77690 TTTATCGTTA
77700 TTTTATTATTATTATTATT
1 TTTTATTATTATTATTATT
77719 TTTTATTATTATTATTAT
1 TTTTATTATTATTATTAT
77737 GTTTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTATTATTATTATT
Found at i:77748 original size:19 final size:17
Alignment explanation
Indices: 77697--77734 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
77687 TTTTTTATCG
77697 TTATTTTATTATTATTA
1 TTATTTTATTATTATTA
77714 TTATTTT-TTATTATTA
1 TTATTTTATTATTATTA
77730 TTATT
1 TTATT
77735 ATGTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTATTATTATTA
Found at i:77880 original size:25 final size:25
Alignment explanation
Indices: 77851--77899 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
77841 CCCAACCCAT
77851 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
77876 CAGATTAGGGTTTCAAACCCTAAA
1 CAGATTAGGGTTTCAAACCCTAAA
77900 TGTTCCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:81562 original size:31 final size:32
Alignment explanation
Indices: 81527--81588 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
81517 ATTTTGCATG
81527 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
81558 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
81589 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:84676 original size:22 final size:22
Alignment explanation
Indices: 84649--84757 Score: 87
Period size: 22 Copynumber: 4.7 Consensus size: 22
84639 AAGATCCAAT
84649 CAAAAACAAAGAAAAATCAAAG
1 CAAAAACAAAGAAAAATCAAAG
* *
84671 AGAAAAGAGCAAAGAAAAAAACAAAGAG
1 -CAAAA-A-CAAAG-AAAAATC-AA-AG
* * *
84699 CAGAGA-GAA-AAAAATCAAAG
1 CAAAAACAAAGAAAAATCAAAG
84719 CAAAAACAAAGAAAAATCAAAG
1 CAAAAACAAAGAAAAATCAAAG
*
84741 CAAAAGTCAAAGAAAAA
1 CAAAA-ACAAAGAAAAA
84758 AGCAAAGAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
20 6 0.09
21 4 0.06
22 22 0.33
23 14 0.21
24 3 0.04
25 5 0.07
26 7 0.10
27 4 0.06
28 2 0.03
ACGTcount: A:0.71, C:0.11, G:0.15, T:0.04
Consensus pattern (22 bp):
CAAAAACAAAGAAAAATCAAAG
Found at i:84686 original size:12 final size:11
Alignment explanation
Indices: 84650--84766 Score: 62
Period size: 12 Copynumber: 10.2 Consensus size: 11
84640 AGATCCAATC
84650 AAAAA-CAAAG
1 AAAAAGCAAAG
*
84660 AAAAATCAAAGAG
1 AAAAAGC-AA-AG
84673 AAAAGAGCAAAG
1 AAAA-AGCAAAG
*
84685 AAAAAAACAAAG
1 -AAAAAGCAAAG
* *
84697 AGCAGAG-AGAA-
1 A-AAAAGCA-AAG
*
84708 AAAAATCAAAG
1 AAAAAGCAAAG
84719 CAAAAA-CAAAG
1 -AAAAAGCAAAG
*
84730 AAAAATCAAAG
1 AAAAAGCAAAG
*
84741 CAAAAGTCAAAG
1 AAAAAG-CAAAG
84753 AAAAAAGCAAAG
1 -AAAAAGCAAAG
84765 AA
1 AA
84767 CAAAAAAGAG
Statistics
Matches: 83, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
10 14 0.17
11 21 0.25
12 29 0.35
13 17 0.20
14 2 0.02
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.03
Consensus pattern (11 bp):
AAAAAGCAAAG
Found at i:84698 original size:19 final size:22
Alignment explanation
Indices: 84674--84718 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
84664 ATCAAAGAGA
84674 AAAGAGCA-A-AGAAAAAAA-C
1 AAAGAGCAGAGAGAAAAAAATC
84693 AAAGAGCAGAGAGAAAAAAATC
1 AAAGAGCAGAGAGAAAAAAATC
84715 AAAG
1 AAAG
84719 CAAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 9 0.39
22 5 0.22
ACGTcount: A:0.69, C:0.09, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAGAGCAGAGAGAAAAAAATC
Found at i:86364 original size:36 final size:35
Alignment explanation
Indices: 86301--86408 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 35
86291 ATCTTATTAA
* * * *
86301 AAAAACAAAGTGTCGTCTCACTAGAGACAGTTTTCTT
1 AAAAACAAA-TTTTGTCTCGCTTGAGACA-TTTTCTT
86338 AAAAACAAATTTTGTCTCGCTTGAGACAACTTTCTCTT
1 AAAAACAAATTTTGTCTCGCTTGAGAC-A-TTT-TCTT
* *
86376 TAAAACAAATTATGTCTCGCTTGAGACATTTTC
1 AAAAACAAATTTTGTCTCGCTTGAGACATTTTC
86409 CACAAACTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
35 2 0.03
36 17 0.27
37 14 0.23
38 29 0.47
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (35 bp):
AAAAACAAATTTTGTCTCGCTTGAGACATTTTCTT
Found at i:86496 original size:90 final size:93
Alignment explanation
Indices: 86331--86497 Score: 252
Period size: 90 Copynumber: 1.8 Consensus size: 93
86321 CTAGAGACAG
* * *
86331 TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTCTCTTTAAAACAAATTATGTCTCGC
1 TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTATCTTCAAAACAAATTATGTCTCAC
86396 TTGAGACATTTTCCACAAACTTTGAGAT
66 TTGAGACATTTTCCACAAACTTTGAGAT
*
86424 TTTTC-TAAAAACAAATTTTGTCTCGCTTGAGGCAA-TTTAT-TTCAAAACAAATT-TCGTCTCA
1 TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTATCTTCAAAACAAATTAT-GTCTCA
*
86485 TTTGAGACATTTT
65 CTTGAGACATTTT
86498 TTTCCTTTGA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
89 1 0.01
90 29 0.43
91 4 0.06
92 29 0.43
93 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (93 bp):
TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTATCTTCAAAACAAATTATGTCTCAC
TTGAGACATTTTCCACAAACTTTGAGAT
Found at i:86664 original size:36 final size:35
Alignment explanation
Indices: 86609--86702 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 35
86599 ATCGTTTTCT
* * *
86609 CAAACTTTGTCTCGCTTGAGACAATTTCTCTAAAAA
1 CAAATTTTGTCTCGCTTGAGAC-ATGTATCTAAAAA
** * *
86645 CAAATTTTGTCTCATTTGAGAC-TGTATCTTAAAG
1 CAAATTTTGTCTCGCTTGAGACATGTATCTAAAAA
86679 CAAATTTTGTCTCGCTTGAGACAT
1 CAAATTTTGTCTCGCTTGAGACAT
86703 CATTTTCTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 28 0.58
35 1 0.02
36 19 0.40
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (35 bp):
CAAATTTTGTCTCGCTTGAGACATGTATCTAAAAA
Found at i:86950 original size:24 final size:23
Alignment explanation
Indices: 86905--86950 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
86895 CAATATTTGA
* * *
86905 ATCTTTTAAAACGATTTTTTTTT
1 ATCTCTTAAAACAATTTCTTTTT
86928 ATCTCTTAAAGACAATTTCTTTT
1 ATCTCTTAAA-ACAATTTCTTTT
86951 GAGAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (23 bp):
ATCTCTTAAAACAATTTCTTTTT
Found at i:87471 original size:35 final size:36
Alignment explanation
Indices: 87405--87479 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
87395 TATTTCTTTG
* *
87405 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
87441 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
87476 GAAA
1 GAAA
87480 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:87802 original size:28 final size:28
Alignment explanation
Indices: 87752--87805 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
87742 CCAAAATCCA
* *
87752 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
87780 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
87806 CATTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:87969 original size:43 final size:43
Alignment explanation
Indices: 87869--88843 Score: 536
Period size: 40 Copynumber: 22.7 Consensus size: 43
87859 CTTTAGATGG
* * * * **
87869 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* *
87909 CCAGATCTCCTCATCACGTAGGAGCTGTGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * * * **
87952 CTAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
87998 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
*
88038 CCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * * * **
88081 CTAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
88127 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
*
88167 CCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * * **
88210 CCAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
88256 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
*
88296 CCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * * **
88339 CCAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
88385 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
*
88425 CCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * * **
88468 CCAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
88514 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* *
88554 CCAGATCTCCTCATCACGAAGGAGCCGTGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * * * **
88597 CCAG-CCGTCCTCGTCACGTAGGAACCATGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
88643 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* *
88683 CCAGATCTCCTCATCACGTAGGAGCCATGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
* * * * * **
88726 CCAG-CCGTCCTCGTCACGTAGGAACCATGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATAA
* * * * **
88772 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
*
88812 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTCA
88844 CCTTTAGACG
Statistics
Matches: 703, Mismatches: 176, Indels: 112
0.71 0.18 0.11
Matches are distributed among these distances:
40 257 0.37
42 7 0.01
43 198 0.28
44 14 0.02
45 21 0.03
46 199 0.28
47 7 0.01
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (43 bp):
CCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
Found at i:88874 original size:129 final size:129
Alignment explanation
Indices: 87817--88843 Score: 1973
Period size: 129 Copynumber: 8.0 Consensus size: 129
87807 ATTATCCTAG
* *
87817 AGATAACTAGCCATCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
87882 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCTGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
87946 AGATAACTAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
88011 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
88075 AGATAACTAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
88140 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
88204 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
88269 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
88333 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
88398 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
88462 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
88527 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGAAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
88591 AGATAACCAGCCGTCCTCGTCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
88656 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCATGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
88720 AGATAACCAGCCGTCCTCGTCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
88785 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
88844 CCTTTAGACG
Statistics
Matches: 890, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 890 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:89055 original size:3 final size:3
Alignment explanation
Indices: 89042--89075 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
89032 TTTTTTATCG
89042 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T
89076 GTTTATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:89081 original size:16 final size:15
Alignment explanation
Indices: 89042--89087 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
89032 TTTTTTATCG
89042 TTATTTTA-TTATTA
1 TTATTTTATTTATTA
89056 TTATTATTATTTATTA
1 TTATT-TTATTTATTA
*
89072 TTATGTTTATTAATTA
1 TTAT-TTTATTTATTA
89088 CATATTACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 5 0.18
15 3 0.11
16 19 0.68
17 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTATTTTATTTATTA
Found at i:89218 original size:25 final size:25
Alignment explanation
Indices: 89189--89237 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
89179 CCTAACCCAT
89189 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
89214 CAGATTAGGGTTTCAAACCCTAAA
1 CAGATTAGGGTTTCAAACCCTAAA
89238 TGTTCCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:93069 original size:26 final size:27
Alignment explanation
Indices: 93020--93075 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
93010 TTTTTTTTCT
*
93020 TTTTACCATTAATTGAACTAAAA-TTA
1 TTTTACCATTAATTGAACCAAAATTTA
* *
93046 TTTTACCGTTAATTGAACCCAAATTTA
1 TTTTACCATTAATTGAACCAAAATTTA
93073 TTT
1 TTT
93076 GAAAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTTACCATTAATTGAACCAAAATTTA
Found at i:93344 original size:66 final size:66
Alignment explanation
Indices: 93218--93344 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
93208 AAATTATTTG
*** ** * *
93218 ACCGTTAATCGAATTGAAATTTATTTGAAAATTATTAACCGAATGAATTAAATTATTTTTTCCTT
1 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACAAATTAAATCAATTTTTCCTT
93283 A
66 A
93284 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACCAAATTAAA-CAATTTTT
1 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAA-CAAATTAAATCAATTTTT
93345 TTCTTTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
66 46 0.87
67 7 0.13
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (66 bp):
ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACAAATTAAATCAATTTTTCCTT
A
Found at i:93374 original size:66 final size:66
Alignment explanation
Indices: 93233--93377 Score: 177
Period size: 66 Copynumber: 2.2 Consensus size: 66
93223 TAATCGAATT
** ** ** *
93233 GAAATTTATTTGAAAATTATTAACCGAATGAATTAAATTATTTTTTCCTTAACCGTTAATCGAAC
1 GAAATTTATTTGAAAATTATTAACCGAACAAATTAAACAATTTTTTCCTTAACAATTAATAGAAC
93298 C
66 C
* *
93299 AAAATTTATTTGAAAATTATTAACCGAACCAAATTAAACAATTTTTTTCTTTAA-AATTAATAGA
1 GAAATTTATTTGAAAATTATTAACCGAA-CAAATTAAACAA-TTTTTTCCTTAACAATTAATAGA
93363 ACC
64 ACC
93366 GAAA-TTATTTGA
1 GAAATTTATTTGA
93378 CCGTTAATCG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
66 35 0.52
67 21 0.31
68 11 0.16
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (66 bp):
GAAATTTATTTGAAAATTATTAACCGAACAAATTAAACAATTTTTTCCTTAACAATTAATAGAAC
C
Found at i:93383 original size:93 final size:94
Alignment explanation
Indices: 93284--93495 Score: 327
Period size: 94 Copynumber: 2.3 Consensus size: 94
93274 TTTTTCCTTA
* *
93284 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACCAAATTAAAC-AATTTTTTTC
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACAGAACCAAATTAAACGAATTTTTTTC
93348 TTTAAAATTAATAGAACCGAAATTATTTG
66 TTTAAAATTAATAGAACCGAAATTATTTG
* * * * *
93377 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTATCATAACTAAATTAACCGATTTTTTTTC
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACAGAACCAAATTAAACGAATTTTTTTC
* * *
93442 TTTAACATTAATCGAATCGAAATTATTTG
66 TTTAAAATTAATAGAACCGAAATTATTTG
93471 ACCGTTAATCGAACCGAAATTTATT
1 ACCGTTAATCGAACCGAAATTTATT
93496 AGCCGATTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 48 0.44
94 60 0.56
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (94 bp):
ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACAGAACCAAATTAAACGAATTTTTTTC
TTTAAAATTAATAGAACCGAAATTATTTG
Found at i:93385 original size:159 final size:159
Alignment explanation
Indices: 93011--93413 Score: 511
Period size: 159 Copynumber: 2.5 Consensus size: 159
93001 ATTTACCCAT
* * * ** * * *
93011 TTTTTTTCTTTTTACCATTAATTGAACTAAAATTATTTTACCGTTAATTGAACCCAAATTTATTT
1 TTTTTTTC-TTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTT
* * * *
93076 GAAAATTATTAACTGAATTAACCGAATAAAATACATTATTTTTCTTTAACCGTTAATTGAACCGA
65 G-AAA--A-T---T--ATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCGAACCAA
* * *
93141 AATTTATTTGAAAATTATTAACCGTACCAAATCAACCGA
121 AATTTATTTGAAAATTATTAACCGAACCAAATCAAACAA
* **
93180 TTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAATTGAAATTTATTTG
1 TTTTTTTCTTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
* *
93245 AAAATTATTAACCGAATGAATTAAATTATTTTTTCCTTAACCGTTAATCGAACCAAAATTTATTT
66 AAAATTATTAACCGAATAAAATAAATTA-TTTTTCCTTAACCGTTAATCGAACCAAAATTTATTT
*
93310 GAAAATTATTAACCGAACCAAATTAAACAA
130 GAAAATTATTAACCGAACCAAATCAAACAA
93340 TTTTTTTCTTTAA-AATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
1 TTTTTTTCTTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
93404 AAAATTATTA
66 AAAATTATTA
93414 TCATAACTAA
Statistics
Matches: 211, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
159 77 0.36
160 72 0.34
161 1 0.00
164 1 0.00
165 1 0.00
167 3 0.01
168 48 0.23
169 8 0.04
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (159 bp):
TTTTTTTCTTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
AAAATTATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCGAACCAAAATTTATTTG
AAAATTATTAACCGAACCAAATCAAACAA
Found at i:93470 original size:160 final size:161
Alignment explanation
Indices: 93011--93471 Score: 536
Period size: 160 Copynumber: 2.8 Consensus size: 161
93001 ATTTACCCAT
* * * ** * * *
93011 TTTTTTTCTTTTTACCATTAATTGAACTAAAATTATTTTACCGTTAATTGAACCCAAATTTATTT
1 TTTTTTTC-TTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTT
* * * * *
93076 GAAAATTATTAACTGAATTAACCGAATAAAATACATTATTTTTCTTTAACCGTTAATTGAACCGA
65 GAAAATTATT-A-T-CA-TAACTGAAT--TA-ACATTTTTTTTCTTTAACCGTTAATCGAACCGA
* * *
93141 AATTTATTTGAAAATTATTAACCGTACCAAATCAACCGA
123 AATTTATTTGAAAATTATTAACCGAACCAAATCAAACAA
* **
93180 TTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAATTGAAATTTATTTG
1 TTTTTTTCTTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
* ** * *
93245 AAAATTATTAACCGAA-TGAATTAA-ATTATTTTTTCCTTAACCGTTAATCGAACCAAAATTTAT
66 AAAATTATTATCATAACTGAATTAACATT-TTTTTTCTTTAACCGTTAATCGAACCGAAATTTAT
*
93308 TTGAAAATTATTAACCGAACCAAATTAAACAA
130 TTGAAAATTATTAACCGAACCAAATCAAACAA
93340 TTTTTTTCTTTAA-AATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
1 TTTTTTTCTTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
* * *
93404 AAAATTATTATCATAACTAAATTAACCGATTTTTTTTCTTTAA-CATTAATCGAATCGAAA-TTA
66 AAAATTATTATCATAACTGAATTAA-C-ATTTTTTTTCTTTAACCGTTAATCGAACCGAAATTTA
93467 TTTGA
129 TTTGA
93472 CCGTTAATCG
Statistics
Matches: 253, Mismatches: 34, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
159 64 0.25
160 88 0.35
161 15 0.06
162 11 0.04
163 7 0.03
164 2 0.01
167 1 0.00
168 57 0.23
169 8 0.03
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (161 bp):
TTTTTTTCTTTAACAATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
AAAATTATTATCATAACTGAATTAACATTTTTTTTCTTTAACCGTTAATCGAACCGAAATTTATT
TGAAAATTATTAACCGAACCAAATCAAACAA
Found at i:93505 original size:27 final size:27
Alignment explanation
Indices: 93448--93505 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
93438 TTTCTTTAAC
* *
93448 ATTAATCGAATCGAAATTATTTGACCG
1 ATTAATCGAACCGAAATTATTAGACCG
93475 -TTAATCGAACCGAAATTTATTAG-CCG
1 ATTAATCGAACCGAAA-TTATTAGACCG
93501 ATTAA
1 ATTAA
93506 CGGTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTAATCGAACCGAAATTATTAGACCG
Found at i:93578 original size:30 final size:29
Alignment explanation
Indices: 93511--93585 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
93501 ATTAACGGTT
93511 AATTTGGTTCGGTTAATAATTTTCAAATA
1 AATTTGGTTCGGTTAATAATTTTCAAATA
93540 AATTTGGTTCGGTTAATAATTTTCAAATA
1 AATTTGGTTCGGTTAATAATTTTCAAATA
*
93569 AATTTTGGTTCGATTAA
1 AA-TTTGGTTCGGTTAA
93586 CGATTAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 31 0.70
30 13 0.30
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (29 bp):
AATTTGGTTCGGTTAATAATTTTCAAATA
Found at i:102231 original size:13 final size:13
Alignment explanation
Indices: 102213--102238 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102203 CTCACCTCGA
102213 CATTTTAGCTGAG
1 CATTTTAGCTGAG
102226 CATTTTAGCTGAG
1 CATTTTAGCTGAG
102239 TTGTTGCCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
CATTTTAGCTGAG
Found at i:106431 original size:26 final size:26
Alignment explanation
Indices: 106402--106468 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
106392 TCTATTTTAA
*
106402 TTAAAATATTTA-TATATTT-ATATAT
1 TTAAATTATTTATTATATTTAATA-AT
*
106427 TTTAATTATTTATTATATTTAATAAT
1 TTAAATTATTTATTATATTTAATAAT
*
106453 TTAAATTATTAATTAT
1 TTAAATTATTTATTAT
106469 TATTATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 10 0.28
26 23 0.64
27 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTAAATTATTTATTATATTTAATAAT
Found at i:106487 original size:13 final size:13
Alignment explanation
Indices: 106408--106491 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
106398 TTAATTAAAA
106408 TATTTA-TATATT
1 TATTTATTATATT
* * *
106420 TATATATTTTAAT
1 TATTTATTATATT
106433 TATTTATTATATT
1 TATTTATTATATT
* * *
106446 TAATAATT-TAAAT
1 TATTTATTAT-ATT
*
106459 TA-TTAAT-TA-T
1 TATTTATTATATT
106469 TA-TTATTATATT
1 TATTTATTATATT
106481 TATTTATTATA
1 TATTTATTATA
106492 AATAAATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
10 7 0.13
11 3 0.05
12 13 0.24
13 32 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTATTATATT
Found at i:106605 original size:16 final size:15
Alignment explanation
Indices: 106562--106641 Score: 64
Period size: 13 Copynumber: 5.5 Consensus size: 15
106552 TCTATTTTAA
106562 TTATTATATTATATAT
1 TTATTATATTAT-TAT
*
106578 TT-TATATTTTAATTAT
1 TTAT-TATATT-ATTAT
*
106594 TTATTATATTAATA-
1 TTATTATATTATTAT
*
106608 TTATTA-CTTATTA-
1 TTATTATATTATTAT
106621 TTATTATA-T-TTAT
1 TTATTATATTATTAT
106634 TTATTATA
1 TTATTATA
106642 ATATAATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
12 3 0.06
13 20 0.38
14 6 0.11
15 4 0.08
16 17 0.32
17 3 0.06
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATATTATTAT
Found at i:106612 original size:3 final size:3
Alignment explanation
Indices: 106561--106640 Score: 55
Period size: 3 Copynumber: 26.7 Consensus size: 3
106551 ATCTATTTTA
106561 ATT ATT A-T ATT ATAT ATT -TT A-T ATT -TT AATT ATTT ATT A-T ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT -ATT A-TT ATT ATT ATT
*
106604 AAT ATT ATT ACTT ATT ATT ATT A-T ATTT ATTT ATT AT
1 ATT ATT ATT A-TT ATT ATT ATT ATT A-TT A-TT ATT AT
106641 AATATAATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 22
0.73 0.02 0.25
Matches are distributed among these distances:
2 12 0.19
3 35 0.55
4 17 0.27
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:106636 original size:150 final size:150
Alignment explanation
Indices: 106367--106813 Score: 574
Period size: 150 Copynumber: 2.8 Consensus size: 150
106357 TTCATAATAT
**
106367 ATTATAATTATTTTTTTATAAAATATCTATTTTAATTAAAATATTTATATATTTATATATTTTAA
1 ATTATAATTA--TTTTTATAAAATATCTATTTTAATTATTATATTTATATATTT-TATATTTTAA
*
106432 TTATTTATTATATTTAATAATTTAAATTATTAATTATTATTATTATATTTATTTATTATAA-ATA
63 TTATTTATTATA--T--TAA--T--ATTATTACTTATTATTATTATATTTATTTATTATAATAT-
* * *
106496 AATTTTTCATTATTTCAAATTTTAAAAAATAA
119 AATTTTTCATTATTTCAAAATTGAAAAAACAA
*
106528 ATTATAATTATTTTTTATAATATATCTATTTTAATTATTATA-TTATATATTTTATATTTTAATT
1 ATTATAATTA-TTTTTATAAAATATCTATTTTAATTATTATATTTATATATTTTATATTTTAATT
106592 ATTTATTATATTAATATTATTACTTATTATTATTATATTTATTTATTATAATATAATTTTTCATT
65 ATTTATTATATTAATATTATTACTTATTATTATTATATTTATTTATTATAATATAATTTTTCATT
*
106657 ATTTCAAAATTGAAAAAACAT
130 ATTTCAAAATTGAAAAAACAA
*
106678 ATTATAATTATTTTTATAAAATTTCTATTTTAATTATTATATTTATATATTATTATATTTTAATT
1 ATTATAATTATTTTTATAAAATATCTATTTTAATTATTATATTTATATATT-TTATATTTTAATT
*
106743 ATTTATTACATTAAATAATTAATATTATTACTTGTTATTATTATTATTATATTTATTATAATATA
65 A--T-TT--ATT--AT-ATTAATATTATTACTTATTATTATTA-TATT-TATTTATTATAATATA
106808 ATTTTT
120 ATTTTT
106814 GGATCATAAA
Statistics
Matches: 262, Mismatches: 11, Indels: 26
0.88 0.04 0.09
Matches are distributed among these distances:
149 29 0.11
150 82 0.31
151 16 0.06
152 1 0.00
153 1 0.00
154 5 0.02
156 4 0.02
158 24 0.09
159 35 0.13
160 33 0.13
161 32 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (150 bp):
ATTATAATTATTTTTATAAAATATCTATTTTAATTATTATATTTATATATTTTATATTTTAATTA
TTTATTATATTAATATTATTACTTATTATTATTATATTTATTTATTATAATATAATTTTTCATTA
TTTCAAAATTGAAAAAACAA
Found at i:106731 original size:16 final size:14
Alignment explanation
Indices: 106703--106749 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 14
106693 ATAAAATTTC
106703 TATTTTAATTATTA
1 TATTTTAATTATTA
106717 TATTTATATATTATTA
1 TATTT-TA-ATTATTA
106733 TATTTTAATTATT-
1 TATTTTAATTATTA
106746 TATT
1 TATT
106750 ACATTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.13
14 11 0.35
15 4 0.13
16 12 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTAATTATTA
Found at i:107043 original size:24 final size:24
Alignment explanation
Indices: 107011--107059 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
107001 CAGACATATC
107011 TCATTTTTTAGAGGGTTTGAAGAT
1 TCATTTTTTAGAGGGTTTGAAGAT
107035 TCATTTTTTAGAGGGTTTGAAGAT
1 TCATTTTTTAGAGGGTTTGAAGAT
107059 T
1 T
107060 TAAAATGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.47
Consensus pattern (24 bp):
TCATTTTTTAGAGGGTTTGAAGAT
Found at i:108860 original size:2 final size:2
Alignment explanation
Indices: 108849--108883 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
108839 CAAATCAAAG
*
108849 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108884 AATAAAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:109870 original size:17 final size:17
Alignment explanation
Indices: 109835--109900 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
109825 GTTTCAGATT
**
109835 CAAATTCCAATTCAAGA
1 CAAATTCCAATTCCTGA
109852 CAAATTCCAATTCCTGA
1 CAAATTCCAATTCCTGA
* * *
109869 CAGATTTCAATTCCTTCA
1 CAAATTCCAATTCC-TGA
109887 CAAATTCCAATTCC
1 CAAATTCCAATTCC
109901 CTCAGAAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 27 0.66
18 14 0.34
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.30
Consensus pattern (17 bp):
CAAATTCCAATTCCTGA
Found at i:110537 original size:203 final size:203
Alignment explanation
Indices: 110188--110595 Score: 798
Period size: 203 Copynumber: 2.0 Consensus size: 203
110178 ATTTATCCTT
110188 AAACTATTTTAGATTTACTAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGATTAAAA
1 AAACTATTTTAGATTTACTAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGATTAAAA
110253 TAAAATTTTACCATTTCATTAAACCTTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTA
66 TAAAATTTTACCATTTCATTAAACCTTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTA
*
110318 TGAATTTAAATTTTTTAAGGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATA
131 TGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATA
110383 ATAAGGAC
196 ATAAGGAC
*
110391 AAACTATTTTAGATTTACTAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGGTTAAAA
1 AAACTATTTTAGATTTACTAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGATTAAAA
110456 TAAAATTTTACCATTTCATTAAACCTTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTA
66 TAAAATTTTACCATTTCATTAAACCTTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTA
110521 TGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATA
131 TGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATA
110586 ATAAGGAC
196 ATAAGGAC
110594 AA
1 AA
110596 TTTGGTTAAA
Statistics
Matches: 203, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
203 203 1.00
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (203 bp):
AAACTATTTTAGATTTACTAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGATTAAAA
TAAAATTTTACCATTTCATTAAACCTTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTA
TGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATA
ATAAGGAC
Found at i:110745 original size:20 final size:20
Alignment explanation
Indices: 110709--110746 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
110699 ATCATATTCC
**
110709 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
110729 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
110747 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:111726 original size:656 final size:652
Alignment explanation
Indices: 110391--112032 Score: 2563
Period size: 656 Copynumber: 2.5 Consensus size: 652
110381 TAATAAGGAC
*
110391 AAACTATTTTAGATTTACTAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGGTTAAAA
1 AAACTATTTTAGATTTAC-AAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGGGTTAAAA
*
110456 TAAAATTTTACCATTTCATTAAACCTTTTTTATATTTTAATTTTGTAAAAAAT-TATATAAATTT
65 TAAAATTTTACCATTTCATTAAACC-TTTTTATATTTTAATTTTGTAAAAAATATATATAATTTT
* * *
110520 ATGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTG-TAATATTATACAAATATA
129 AAGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTTAA-A--AAATAAATATA
* * * *
110584 TAATAAGGACAATTTGGTTAAATATACATTTTAATAATCTTTTAATCATTTAACCAAACACGGTA
191 TAATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTATTCATTTAACCAAACACAGTA
* * * *
110649 ATCTTACATTCCTGCTAAACCAACAAAACACAAAATACAGCATTCTAGTAATCATATTCCCTGGT
256 ATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATTCTAGTAATCATATTCTCTGAT
* *
110714 AATCTTTTATTCCCACTGGTAATCTTACATTCCGTGAACCAAACGCACCCTAAGGGATGTTTGGA
321 AATCTTTTATTCCCACTAGTAATCTTACATTCCGTGAACCAAAAGCACCCTAAGGGATGTTTGGA
* *
110779 TCAAGGAATGTGACATTCTCGTAGGAATAGAATCCACATTCTCATGCTTGGTTGGTCGGGAATCT
386 TCAAGGAATGTGACATTCCCATAGGAATAGAATCCACATTCTCATGCTTGGTTGGTCGGGAATCT
110844 CATTCCCAGTAATGTTTTATTACCAATAGTAGATTTTTTGGGGTATATTACCGAGAATGTCATTA
451 CATTCCCAGTAATGTTTTATTACCAATAGTAGATTTTTTGGGGTATATTACCGAGAATGTCATTA
* *
110909 CCTCTATTTCCTTAGGTATTGTTGGATTACCGATGTTTTGGACTAAAATGCCCTTAATTGTTTTT
516 CCTCTATTTCCTTAGGTATTGTTGGATTACCGACGTTTTGGACTAAAATGCCCTTAAATGTTTTT
* *
110974 CTTTAAAAAATATCATTATTCTGTAATTAAATAATAAAAATTCTACGAAGTTTAAATTACAAATT
581 CTTTAAAAAATATCATTATTCTGTAATTAAATAATAAAAATTCTACAAAGGTTAAATTACAAATT
111039 TATCCTT
646 TATCCTT
111046 AAACTATTTTAGATTTACAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGGGTTAAAAT
1 AAACTATTTTAGATTTACAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGGGTTAAAAT
* *
111111 AAAATTTTACCATTTTATTAAACCTTTTTATATTTTCAATTTTGTAAAATATATATATATATTTT
66 AAAATTTTACCATTTCATTAAACCTTTTTATATTTT-AATTTTGTAAAAAATATATATA-ATTTT
*
111176 AAGAATTTAAATTTTTTAAAGATAATATATCAATATTTTCCAACTTGTTAAAAAATAAATATATA
129 AAGAATTTAAATTTTTTAAAGAAAATATAT-AATATTTTCCAACTTGTTAAAAAATAAATATATA
* * *
111241 ATAAGGATAATTTGGTCAAATATACGTTCTAATAATCTTTTATTCCTTTAACCAAACACAGTAAT
193 ATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTATTCATTTAACCAAACACAGTAAT
111306 CTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATTCTCAGTAATCATATTCTCTGATA
258 CTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATTCT-AGTAATCATATTCTCTGATA
* * *
111371 ATCTTTTATTCCCATTAGTAATCTTATATTCCGTGAACCAAAAGCACCCTAAGGGGTGTTTGGAT
322 ATCTTTTATTCCCACTAGTAATCTTACATTCCGTGAACCAAAAGCACCCTAAGGGATGTTTGGAT
*
111436 CAAGGAATGTGAGATTCCCATAGGAATAGAATCCACATTCTCATGCTTGGTTGGTCGGGAATCTC
387 CAAGGAATGTGACATTCCCATAGGAATAGAATCCACATTCTCATGCTTGGTTGGTCGGGAATCTC
* * * ** *
111501 ATTTCGAGTAATGTTTTATTACTAATAGTAGATTTTTTGGGGTATATTATTGGGAATGTCATTAC
452 ATTCCCAGTAATGTTTTATTACCAATAGTAGATTTTTTGGGGTATATTACCGAGAATGTCATTAC
111566 CTCTATTTCCTTAGGTATTGTTGGATTACCGACGTTTTGGACTAAAATGCCCTTAAAT-TTTTTC
517 CTCTATTTCCTTAGGTATTGTTGGATTACCGACGTTTTGGACTAAAATGCCCTTAAATGTTTTTC
* * * *
111630 TTTCAAAAATATCATTCTTCTGTAATTGAATAATAAAAATTGTACAAAGGTTAAATTACAAATTT
582 TTTAAAAAATATCATTATTCTGTAATTAAATAATAAAAATTCTACAAAGGTTAAATTACAAATTT
111695 ATCCTT
647 ATCCTT
*
111701 AAACTATTTTAGATTTACAAAAAAAATCTATAATTAAAATTTTATATGAAATTCAGGGGTTAAAA
1 AAACTATTTTAGATTTAC-AAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGGGTTAAAA
*
111766 TAAAATTTTATCC-TTTCATTAAACTTTTTTATATTTTAAATTTTGTAAAAAATATATATAAATT
65 TAAAATTTTA-CCATTTCATTAAACCTTTTTATATTTT-AATTTTGTAAAAAATATATAT-AATT
* *
111830 TTAATAATTTAAATTTTTTAAAGAAAATATATAAATATTTTTCAACTTGTTAAAAAAATAAATAT
127 TTAAGAATTTAAATTTTTTAAAGAAAATATAT-AATATTTTCCAACTTGTT-AAAAAATAAATAT
* * * * ** * *
111895 ATAATAAGAACAATTTGATCAAATATATATTCTAATAATTTTTTATTTTTTTAACCAAATACTGT
190 ATAATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTATTCATTTAACCAAACACAGT
* * * * * * * *
111960 AATCTTATATTCATGTTAAACCAACCAAACACAAAATACAATATTCTTAATAATCTTATTATCTA
255 AATCTTACATTCCTGCTAAACCAACCAAACACAAAATACAACATTC-TAGTAATCATATTCTCTG
112025 ATAATCTT
319 ATAATCTT
112033 ACAATCTAAC
Statistics
Matches: 908, Mismatches: 68, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
653 12 0.01
654 83 0.09
655 224 0.25
656 434 0.48
657 151 0.17
658 4 0.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (652 bp):
AAACTATTTTAGATTTACAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGGGGTTAAAAT
AAAATTTTACCATTTCATTAAACCTTTTTATATTTTAATTTTGTAAAAAATATATATAATTTTAA
GAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTTAAAAAATAAATATATAATA
AGGACAATTTGGTCAAATATACATTCTAATAATCTTTTATTCATTTAACCAAACACAGTAATCTT
ACATTCCTGCTAAACCAACCAAACACAAAATACAACATTCTAGTAATCATATTCTCTGATAATCT
TTTATTCCCACTAGTAATCTTACATTCCGTGAACCAAAAGCACCCTAAGGGATGTTTGGATCAAG
GAATGTGACATTCCCATAGGAATAGAATCCACATTCTCATGCTTGGTTGGTCGGGAATCTCATTC
CCAGTAATGTTTTATTACCAATAGTAGATTTTTTGGGGTATATTACCGAGAATGTCATTACCTCT
ATTTCCTTAGGTATTGTTGGATTACCGACGTTTTGGACTAAAATGCCCTTAAATGTTTTTCTTTA
AAAAATATCATTATTCTGTAATTAAATAATAAAAATTCTACAAAGGTTAAATTACAAATTTATCC
TT
Found at i:111870 original size:39 final size:37
Alignment explanation
Indices: 111791--111865 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
111781 TCATTAAACT
* *
111791 TTTTTATATTTTAAATTTTGTAAAAAATATATATAAA
1 TTTTAATAATTTAAATTTTGTAAAAAATATATATAAA
*
111828 TTTTAATAATTTAAATTTTTTAAAGAAA-ATATATAAA
1 TTTTAATAATTTAAATTTTGTAAA-AAATATATATAAA
111865 T
1 T
111866 ATTTTTCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 31 0.91
38 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (37 bp):
TTTTAATAATTTAAATTTTGTAAAAAATATATATAAA
Found at i:112039 original size:16 final size:16
Alignment explanation
Indices: 112007--112041 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
111997 ACAATATTCT
**
112007 TAATAATCTTATTATC
1 TAATAATCTTACAATC
112023 TAATAATCTTACAATC
1 TAATAATCTTACAATC
112039 TAA
1 TAA
112042 CTATTAATCT
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:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATCTTACAATC
Found at i:112069 original size:18 final size:20
Alignment explanation
Indices: 112046--112095 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
112036 ATCTAACTAT
112046 TAATCTTATATTCCCA-T-A
1 TAATCTTATATTCCCACTGA
*
112064 TAATCTTATATTCTCACTGA
1 TAATCTTATATTCCCACTGA
*
112084 TAATTTTATATT
1 TAATCTTATATT
112096 TAATAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 15 0.54
19 1 0.04
20 12 0.43
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATCTTATATTCCCACTGA
Found at i:112103 original size:15 final size:15
Alignment explanation
Indices: 112083--112111 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
112073 ATTCTCACTG
112083 ATAATTTTATATTTA
1 ATAATTTTATATTTA
112098 ATAATTTTATATTT
1 ATAATTTTATATTT
112112 TGTAAACTAA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATAATTTTATATTTA
Found at i:113583 original size:15 final size:16
Alignment explanation
Indices: 113557--113589 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
113547 GAAAGGGCGA
113557 GGTTGCTGTTGGTGTT
1 GGTTGCTGTTGGTGTT
113573 GGTTG-TGTTGGTGTT
1 GGTTGCTGTTGGTGTT
113588 GG
1 GG
113590 GGATGAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (16 bp):
GGTTGCTGTTGGTGTT
Found at i:115617 original size:10 final size:10
Alignment explanation
Indices: 115576--115617 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
115566 TTTTATCACA
115576 TCAAATTCTC
1 TCAAATTCTC
*
115586 TTAAATTCTC
1 TCAAATTCTC
115596 T-AAATTTCTC
1 TCAAA-TTCTC
*
115606 TCAAATACTC
1 TCAAATTCTC
115616 TC
1 TC
115618 TTTTTAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:117908 original size:47 final size:50
Alignment explanation
Indices: 117790--117910 Score: 135
Period size: 51 Copynumber: 2.5 Consensus size: 50
117780 TTATACAAAA
* *
117790 CGCGGTACCTGCCCCGTGCTATATAAAATTATGTCAGGAGTAAATATATGT
1 CGCGGTACCTGACCCGCGCTATATAAAATTATGTCAGGAG-AAATATATGT
* *
117841 CGCGGTACCT-ACCCCACGCTATATAAAATTATG-CAGTA-AAGATATA-G-
1 CGCGGTACCTGA-CCCGCGCTATATAAAATTATGTCAGGAGAA-ATATATGT
*
117888 CGCGGTACCTGATCCGCGCTATA
1 CGCGGTACCTGACCCGCGCTATA
117911 CCCCTACGTG
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
47 19 0.31
48 4 0.07
49 5 0.08
50 4 0.07
51 29 0.48
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (50 bp):
CGCGGTACCTGACCCGCGCTATATAAAATTATGTCAGGAGAAATATATGT
Found at i:118049 original size:51 final size:50
Alignment explanation
Indices: 117922--118040 Score: 175
Period size: 51 Copynumber: 2.4 Consensus size: 50
117912 CCCTACGTGG
* **
117922 CGTATAGCGTGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAC
* * *
117972 CGTATAGCTCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGTCAAATCAT
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATA-CCCACGTGGCGCCAAATCAC
118023 CGTATAGCGCGGTGCAGG
1 CGTATAGCGCGGTGCAGG
118041 AGATGCGCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 28 0.46
51 33 0.54
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (50 bp):
CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAC
Found at i:121318 original size:47 final size:47
Alignment explanation
Indices: 121241--121463 Score: 307
Period size: 47 Copynumber: 4.9 Consensus size: 47
121231 GATAAACTTG
* * *
121241 TTTTTATTTATTTTGTTTATTAATG--TAT-TTATTTAATTATG-AT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
*
121284 TTTTTATTTATTTTGTTTCTTAATG--TTT-TTATTTAAATATGAAA
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
* *
121328 TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAATTATGAAA
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
* **
121375 TTTTTATTTATTTTATTTCTTAATGTTTTTATTATTTAATTATGTACT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATG-AAA
121423 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATT
121464 GTTTGAATTG
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
43 38 0.23
44 25 0.15
46 3 0.02
47 56 0.34
48 41 0.25
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (47 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
Found at i:121381 original size:87 final size:92
Alignment explanation
Indices: 121241--121463 Score: 278
Period size: 95 Copynumber: 2.4 Consensus size: 92
121231 GATAAACTTG
* * ** *
121241 TTTTTATTTATTTTGTTTATTAATG-TAT-TTATTTAATTATGATTTTTTATTTATTTTGTTTCT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTATTATTTAATTATGATAATTTATTTATTTTATTTCT
121304 TAATG-TTT-TTATTTAAATATG-AAA
66 TAATGTTTTATTATTTAAATATGTAAA
*
121328 TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAATTATGA-AATTTTTATTTATTTTATT
1 TTTTTATTTATTTTGTTTCTTAATGT-TTTATTATTTAATTATGATAA--TTTATTTATTTTATT
* **
121392 TCTTAATGTTTTTATTATTTAATTATGTACT
63 TCTTAATG-TTTTATTATTTAAATATGTAAA
121423 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATT
1 TTTTTATTTATTTTGTTTCTTAATG-TTTTATTATTTAATT
121464 GTTTGAATTG
Statistics
Matches: 116, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
87 23 0.20
89 2 0.02
90 14 0.12
91 22 0.19
93 3 0.03
94 12 0.10
95 39 0.34
96 1 0.01
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (92 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTATTATTTAATTATGATAATTTATTTATTTTATTTCT
TAATGTTTTATTATTTAAATATGTAAA
Found at i:121387 original size:23 final size:23
Alignment explanation
Indices: 121311--121435 Score: 76
Period size: 24 Copynumber: 5.3 Consensus size: 23
121301 TCTTAATGTT
*
121311 TTTATTTAAATATGAAATTTTTA
1 TTTATTTAATTATGAAATTTTTA
** **
121334 TTTATTTTGTT-TCTCAATGTCTTTA
1 TTTATTTAATTAT-GAAAT-T-TTTA
121359 -TTATTTAATTATGAAATTTTTA
1 TTTATTTAATTATGAAATTTTTA
* * * *
121381 TTTATTTTATTTCTTAATGTTTTTA
1 TTTA-TTTAATTATGAA-ATTTTTA
**
121406 -TTATTTAATTATGTACTTTTTTA
1 TTTATTTAATTATG-AAATTTTTA
121429 TTTATTT
1 TTTATTT
121436 TGTTTCTTAA
Statistics
Matches: 75, Mismatches: 18, Indels: 17
0.68 0.16 0.15
Matches are distributed among these distances:
22 5 0.07
23 28 0.37
24 31 0.41
25 11 0.15
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (23 bp):
TTTATTTAATTATGAAATTTTTA
Found at i:121406 original size:16 final size:15
Alignment explanation
Indices: 121385--121467 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 15
121375 TTTTTATTTA
121385 TTTTATTTCTTAATGT
1 TTTTATTT-TTAATGT
121401 TTTTATTATTTAAT-T
1 TTTTATT-TTTAATGT
* * * *
121416 ATGTACTTTTTTATTT
1 TTTTA-TTTTTAATGT
*
121432 ATTTTGTTTCTTAATGT
1 -TTTTATTT-TTAATGT
121449 TTTTATTATTTAATTGT
1 TTTTATT-TTTAA-TGT
121466 TT
1 TT
121468 GAATTGTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
15 9 0.18
16 28 0.55
17 14 0.27
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTTATTTTTAATGT
Found at i:123583 original size:5 final size:5
Alignment explanation
Indices: 123564--123607 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
123554 GTCCGTCCGT
* * *
123564 CTCGT CTCGG CTCGG CTCGG CACGG CACGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
123608 TGGTCGTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.05, C:0.41, G:0.36, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:132803 original size:21 final size:22
Alignment explanation
Indices: 132768--132808 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
132758 TTTGATATTG
132768 ATAAATATTAATTTA-AATTAA
1 ATAAATATTAATTTATAATTAA
**
132789 ATAAATATTTTTTTATAATT
1 ATAAATATTAATTTATAATT
132809 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAATATTAATTTATAATTAA
Found at i:133841 original size:19 final size:17
Alignment explanation
Indices: 133806--133844 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
133796 ATTTGATTTC
133806 TCTGTGTTTCTCTTCTT
1 TCTGTGTTTCTCTTCTT
*
133823 TCTGTGTATTTTCTGTCTT
1 TCTGTGT-TTCTCT-TCTT
133842 TCT
1 TCT
133845 TTGTCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.03, C:0.21, G:0.13, T:0.64
Consensus pattern (17 bp):
TCTGTGTTTCTCTTCTT
Found at i:134090 original size:15 final size:16
Alignment explanation
Indices: 134039--134078 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
134029 GGACGTGGCA
134039 GCGG-TGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
134054 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
134070 GCGGCTGGA
1 GCGGCTGGA
134079 TTAGAGGCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.17, C:0.17, G:0.57, T:0.07
Consensus pattern (16 bp):
GCGGCTGGAGGCAGAG
Found at i:134099 original size:17 final size:15
Alignment explanation
Indices: 134050--134090 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
134040 CGGTGGAGGC
**
134050 AGAGGCGGCTGGAGGC
1 AGAGGCGGCTGGA-TT
134066 AGAGGCGGCTGGATT
1 AGAGGCGGCTGGATT
134081 AGAGGCGGCT
1 AGAGGCGGCT
134091 AGGGATTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.20, C:0.17, G:0.51, T:0.12
Consensus pattern (15 bp):
AGAGGCGGCTGGATT
Found at i:134215 original size:3 final size:3
Alignment explanation
Indices: 134207--134296 Score: 117
Period size: 3 Copynumber: 30.0 Consensus size: 3
134197 TATATTTATT
* * *
134207 TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
134255 TAA TTA TAA TAA TAA TTA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
134297 ATAAATTAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:134235 original size:21 final size:21
Alignment explanation
Indices: 134209--134296 Score: 131
Period size: 21 Copynumber: 4.2 Consensus size: 21
134199 TATTTATTTA
*
134209 ATAATAATAATAATAATATTT
1 ATAATAATAATAATAATAATT
134230 ATAATAATAATAATAATAATT
1 ATAATAATAATAATAATAATT
*
134251 ATAATAATTATAATAATAATT
1 ATAATAATAATAATAATAATT
* * *
134272 ATAATTATAATTATAATAATA
1 ATAATAATAATAATAATAATT
134293 ATAA
1 ATAA
134297 ATAAATTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATAATAATAATAATAATT
Found at i:134596 original size:42 final size:40
Alignment explanation
Indices: 134549--134657 Score: 164
Period size: 42 Copynumber: 2.7 Consensus size: 40
134539 GAATAAGCTC
134549 TTGATGAGTTCTTCTCATTATGAACTTCTTCATCCTTCGCTT
1 TTGATGAGTTCTTCTCATTATGAACTTCTTCATCCTT--CTT
*
134591 TTGATGAGTTCTTTTCATTATGAACTTCTTCATCCTTCTT
1 TTGATGAGTTCTTCTCATTATGAACTTCTTCATCCTTCTT
** *
134631 TCAATGAGTTATTCTCATTATGAACTT
1 TTGATGAGTTCTTCTCATTATGAACTT
134658 TCTCTAGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 26 0.42
42 36 0.58
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (40 bp):
TTGATGAGTTCTTCTCATTATGAACTTCTTCATCCTTCTT
Found at i:134956 original size:113 final size:113
Alignment explanation
Indices: 134695--135149 Score: 702
Period size: 113 Copynumber: 4.0 Consensus size: 113
134685 TCTCCTTCTG
* *
134695 TGATAGAATT-ATGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAG
1 TGAT-GAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
134759 ATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAATGCTGATCCATCAAT
65 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAA
*
134807 TGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
134872 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAA
* * *
134920 TGATGGATTTGA-GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 TGAT-GAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
134984 ACGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAT
65 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAA
* * * * *
135033 TGATGAATTCATGTAAAAGGTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTCCTTCAGA
1 TGATGAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* *
135098 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TCAATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCT-GATCCATCAAA
135146 TGAT
1 TGAT
135150 AGATTTGAAT
Statistics
Matches: 315, Mismatches: 23, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
111 5 0.02
112 83 0.26
113 222 0.70
114 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
TGATGAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAA
Found at i:136563 original size:83 final size:83
Alignment explanation
Indices: 135839--136548 Score: 1262
Period size: 83 Copynumber: 8.6 Consensus size: 83
135829 GTAGTTCTTA
* * * *
135839 CCAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTTTA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTA
*
135903 AATTCAATGATTGGTTCAG
65 AATTCAATGATTGGTTCTG
* * *
135922 CCAAACCAGATTAGATAACTCAAAGAACACTTTCAGAATATGCTATGAACACATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
135987 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
136005 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
136070 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
136088 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
136153 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
136171 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATTG-GCAAATTCATCTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTA
136235 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
136254 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
136319 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
136337 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTTATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
*
136402 ATTCAATGATTAGTTCTG
66 ATTCAATGATTGGTTCTG
136420 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
136485 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
136503 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
136549 TGGCAAATTC
Statistics
Matches: 601, Mismatches: 23, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.01
83 595 0.99
84 2 0.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAA
ATTCAATGATTGGTTCTG
Found at i:137715 original size:12 final size:12
Alignment explanation
Indices: 137698--137772 Score: 84
Period size: 12 Copynumber: 6.2 Consensus size: 12
137688 CCTTGACCCC
137698 CTTTTTCTTTTT
1 CTTTTTCTTTTT
137710 CTTTTTCTCTTTT
1 CTTTTTCT-TTTT
137723 -TTTTTCTTTTCT
1 CTTTTTCTTTT-T
*
137735 TTTTTTCTTTCTT
1 CTTTTTCTTT-TT
137748 -TTTTTCTTTTT
1 CTTTTTCTTTTT
*
137759 CTCTTT-TTTTT
1 CTTTTTCTTTTT
137770 CTT
1 CTT
137773 CAAGCATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
11 12 0.21
12 29 0.52
13 14 0.25
14 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:137722 original size:8 final size:8
Alignment explanation
Indices: 137705--137766 Score: 54
Period size: 8 Copynumber: 7.5 Consensus size: 8
137695 CCCCTTTTTC
137705 TTTT-TCT
1 TTTTCTCT
137712 TTTTCTCT
1 TTTTCTCT
* *
137720 TTTTTTTT
1 TTTTCTCT
*
137728 CTTTTCTTT
1 -TTTTCTCT
137737 TTTTCTTTCT
1 TTTTC--TCT
*
137747 TTTTTTCT
1 TTTTCTCT
137755 TTTTCTCT
1 TTTTCTCT
137763 TTTT
1 TTTT
137767 TTTCTTCAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
7 4 0.09
8 28 0.62
9 7 0.16
10 6 0.13
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTCTCT
Found at i:137732 original size:17 final size:16
Alignment explanation
Indices: 137698--137769 Score: 76
Period size: 16 Copynumber: 4.3 Consensus size: 16
137688 CCTTGACCCC
137698 CTTTTTCTTTTTCTTTTT
1 CTTTTT-TTTTTC-TTTT
137716 CTCTTTTTTTTTCTTTT
1 CT-TTTTTTTTTCTTTT
137733 CTTTTTTTCTTTCTTTT
1 CTTTTTTT-TTTCTTTT
*
137750 -TTTCTTTTTCTCTTTT
1 CTTT-TTTTTTTCTTTT
137766 -TTTT
1 CTTTT
137770 CTTCAAGCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
15 1 0.02
16 19 0.38
17 18 0.36
18 8 0.16
19 4 0.08
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTTTTTTTTTCTTTT
Done.