Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004213.1 Hibiscus syriacus cultivar Beakdansim tig00009227_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: 113822
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Found at i:529 original size:199 final size:198
Alignment explanation
Indices: 1--557 Score: 604
Period size: 199 Copynumber: 2.8 Consensus size: 198
* * *
1 CCGCTTACATTGTAAATTTGCCTATTACTTTAAAGTAATAGGTTTTG-AAATGGTAAGTATTGAT
1 CCGCTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGG-TTCGAAAATAG-AAGTA-TGAT
* * * *
65 ACTTGTTATACGTGTATCGATACTTTCTGCATGCATATTGATTAAGAAGTATATTGGACCAAAAG
63 ACTTGTTATACGTGTATCGATACTTTTTGCATGCATATTG-TTTAGATGTATATTGGACTAAAAG
* * * * *
130 TATCGATACATATACAAAAAGTATCAAAACTTTATTTTTTACGCCTATTATCATTAAGTCGATAT
127 TATCGATACATATACAAAAAGTATCGAAACTTTATTGTTTACGCCTAATATCATTAACTCGATAG
*
195 ATTTTTA
192 ACTTTTA
* * ** ** *
202 CCGGTTACATTTTAAATTTACCTATTACTTTAAAGTAATCAATTTCGAAGTTACAAGTATCGATA
1 CCGCTTACATTGTAAATTTACCTATTACTTTAAAGTAAT-AGGTTCGAAAATAGAAGTAT-GATA
* * * * * *
267 CTTGTTATACATGTATCGATACTCTTTGTATGCATGTTGTTT-GATAGCATACTGGACTAAAAGT
64 CTTGTTATACGTGTATCGATACTTTTTGCATGCATATTGTTTAGAT-GTATATTGGACTAAAAGT
* * * *
331 ATCGATACATATACAAAGAGTATCGATACTTTA-TGTTTAGGCCTAATATCATTAAACT-GGTAG
128 ATCGATACATATACAAAAAGTATCGAAACTTTATTGTTTACGCCTAATATCATT-AACTCGATAG
394 ACTTTTA
192 ACTTTTA
*
401 CC-CTTAACATTGTAAATTTACCTATAACTTT-AAGTAATAGGTTCGAAAATAGAAGTACTGATA
1 CCGCTT-ACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTCGAAAATAGAAGTA-TGATA
* * * * *
464 CTTGTTATATGTGTATCGATACTTTTTTGCGTGCAAATTGTTTCAGATGTACATTGGAATAAAAG
64 CTTGTTATACGTGTATCGATAC-TTTTTGCATGCATATTGTTT-AGATGTATATTGGACTAAAAG
* * * *
529 TAGCGATACTTGTATAAAAAGTATCGAAA
127 TATCGATACATATACAAAAAGTATCGAAA
558 TTGGATATTT
Statistics
Matches: 291, Mismatches: 55, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
197 38 0.13
198 25 0.09
199 89 0.31
200 54 0.19
201 82 0.28
202 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (198 bp):
CCGCTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTCGAAAATAGAAGTATGATACT
TGTTATACGTGTATCGATACTTTTTGCATGCATATTGTTTAGATGTATATTGGACTAAAAGTATC
GATACATATACAAAAAGTATCGAAACTTTATTGTTTACGCCTAATATCATTAACTCGATAGACTT
TTA
Found at i:3342 original size:17 final size:18
Alignment explanation
Indices: 3310--3350 Score: 75
Period size: 17 Copynumber: 2.3 Consensus size: 18
3300 ACGTTGCTCA
3310 TCACATACATAATTTTAT
1 TCACATACATAATTTTAT
3328 TCACATACA-AATTTTAT
1 TCACATACATAATTTTAT
3345 TCACAT
1 TCACAT
3351 GCAACATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACATACATAATTTTAT
Found at i:6339 original size:54 final size:54
Alignment explanation
Indices: 6205--6838 Score: 640
Period size: 54 Copynumber: 11.7 Consensus size: 54
6195 ATTTCAAATC
* * * * * * * *
6205 ATTAT-AAGTTCTGTGAGATGCACACGTAGTG-CTAATACAGTCATTCATATACTC
1 ATTATGAA-TTCTGTGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACTT
* * * * * *
6259 ATTTTGAAATTTTGTGGGTTGCACACTAAGTGTCGATACAGACGTTCATAAACAT
1 ATTATG-AATTCTGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
* * *
6314 ATTATGAATTATGTGGGTTGCACACTTAGTG-CGGATACAGTCGTTCACAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACTT
* * * * * *
6368 ATTATGAATTCTATGGATTGCACACTTAGTGCCGATACGATTGTTCATAATCTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
* * *
6422 ATTATTAATTAC-CTGGGTTGCACACTTAGTG-CTGATACGGTCATTCATAAACTT
1 ATTATGAATT-CTGTGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACTT
* * * * * *
6476 ATAATGAATTTTGTGGATTGCACACTAAGTGCCGATACGGTTGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
*
6530 ATTATGAATT-TCGTGGGTTGCACAATTAGTGTCGATACGGTCGTTCATAAACTT
1 ATTATGAATTCT-GTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
* * * * * *
6584 ATTATAAATTATGTGGATTACACACTTAGTGTCGATACAGTTGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
*
6638 ATTATGAATTCCT-TAGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
1 ATTATGAATT-CTGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
* * * * **
6692 ATTATGAATT-TCGTGGATTGCACGCTTAGTGCCAATACGGTTATTCATAAACTT
1 ATTATGAATTCT-GTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
* *
6746 ATTAT-ATATTCTGTGGGTTGCACACATAGTGTCGATACGGTCAG-TCATAAATTT
1 ATTATGA-ATTCTGTGGGTTGCACACTTAGTGTCGATACGGTC-GTTCATAAACTT
* * *
6800 ATTATGAATTCCGTGGGTTGCATACTTAGTGTCAATACG
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACG
6839 TAAAAAATGC
Statistics
Matches: 483, Mismatches: 79, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 430 0.89
55 45 0.09
56 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (54 bp):
ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTT
Found at i:13422 original size:54 final size:54
Alignment explanation
Indices: 13294--13963 Score: 768
Period size: 54 Copynumber: 12.4 Consensus size: 54
13284 TTCTGTGAGA
* * * * * * *
13294 TGCACACATAGTGCCAATACAGTCATTCATAAGCTCATTTATAAATTCCATGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTA-TTATGAATTCCATGGGT
** * ***
13349 TGCACACTTAGTGTTGATACGGTCATTCATAAACTTATTATGAATTTTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
* *
13403 TGTATACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATT--ATGTGAGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATG-G-GT
* * *
13457 TGCACACTTAGTGCCGATACGGTCATTCATAAACTTATTATGAATTCTATGGAT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
* * * * * *
13511 TGCACACTTAGTGTCGATACAGTTGCTCATAAACTTATTATGAATTTCGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
* * * * * **
13565 TACACAATTAGTGTCGATACAGTCGTTCGTAAACTTATTATGAATTCCATGAAT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
* * **
13619 TGCACACTTAGTGCCAATACGGTTGTTCATAAACTTATTATGAATTCTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
* ** * * * *
13673 TGCACACTTAATGTTGATATGGTCATTCATAAACTTATTATGAATTCTATGGAT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
* * * *
13727 TGCACACTTAGTGCCGATACGGTTGTTCATAAACTTATTATGAATTTCGTGGGA
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
* * *
13781 TGCACACTTGGTGCCGATACAGTCGTTCATAAACTTATTATGAATTCCATGGAT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
** * * * *
13835 TGCACACTTAGTATCGATATGGTTGTTCATAAACTTATTATGAATTACGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
** *
13889 TGCACACTTAGTGCTAATACGGTCGTTCATTAACTTATTATGAATTCCATGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
*
13943 TGCACACTTAGTGTCGATACG
1 TGCACACTTAGTGCCGATACG
13964 TAAAAAATGC
Statistics
Matches: 513, Mismatches: 98, Indels: 9
0.83 0.16 0.01
Matches are distributed among these distances:
52 2 0.00
53 1 0.00
54 476 0.93
55 31 0.06
56 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (54 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGT
Found at i:18074 original size:31 final size:31
Alignment explanation
Indices: 18038--18096 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
18028 AACTTAAAAG
*
18038 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
18069 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
18097 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:18148 original size:22 final size:22
Alignment explanation
Indices: 18121--18747 Score: 875
Period size: 22 Copynumber: 28.5 Consensus size: 22
18111 TAATAAATTT
*
18121 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
18143 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
18165 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
18187 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* * **
18209 ATTTCAAATAAAT-TTTCCATA
1 TTTTAAAATAAATCAATCCATA
* ***
18230 TTTTAAAATAATTTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
18252 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
18274 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
18296 TTTTAAAATAAATCTATCCATA
1 TTTTAAAATAAATCAATCCATA
*
18318 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
***
18340 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
18362 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
18384 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
** *
18406 TTTTAAAATAAAAT-TTTACATA
1 TTTTAAAAT-AAATCAATCCATA
18428 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
18450 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
18472 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
18494 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
18516 TTTTAAAATAAAT-ATTTCCATA
1 TTTTAAAATAAATCA-ATCCATA
18538 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
18560 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
18582 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
18604 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
18626 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
18648 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
18670 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
18692 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
18714 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
18736 TTTTAAAATAAA
1 TTTTAAAATAAA
18748 ATTTTAAAAT
Statistics
Matches: 539, Mismatches: 61, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
21 21 0.04
22 513 0.95
23 5 0.01
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:22597 original size:40 final size:40
Alignment explanation
Indices: 22542--22622 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
22532 TGGAGTCAAC
22542 GTTGCCCTTAATCGATGTAAACTATTGAGAGGTAGTAACG
1 GTTGCCCTTAATCGATGTAAACTATTGAGAGGTAGTAACG
22582 GTTGCCCTTAATCGATGTAAACTATTGAGAGGTAGTAACG
1 GTTGCCCTTAATCGATGTAAACTATTGAGAGGTAGTAACG
22622 G
1 G
22623 GTTGATGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (40 bp):
GTTGCCCTTAATCGATGTAAACTATTGAGAGGTAGTAACG
Found at i:30821 original size:20 final size:20
Alignment explanation
Indices: 30796--30836 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30786 TGATGGATTG
30796 CATTTTCTTTGACTATCCTA
1 CATTTTCTTTGACTATCCTA
* *
30816 CATTTTCTTTTATTATCCTA
1 CATTTTCTTTGACTATCCTA
30836 C
1 C
30837 TGTCTTAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.02, T:0.54
Consensus pattern (20 bp):
CATTTTCTTTGACTATCCTA
Found at i:31683 original size:2 final size:2
Alignment explanation
Indices: 31676--31754 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
31666 TGAATCTTTC
31676 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
31718 AT AT AT AT AT 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 AT AT AT AT AT A
31755 CTCATGTGAC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31869 original size:14 final size:14
Alignment explanation
Indices: 31851--31896 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
31841 AAAATAATAA
31851 AAAATTAAAGTAA-T
1 AAAATTAAA-TAACT
*
31865 GAAATTAAATAACT
1 AAAATTAAATAACT
*
31879 AAAATTAAATAAAT
1 AAAATTAAATAACT
31893 AAAA
1 AAAA
31897 AGTAAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 3 0.11
14 25 0.89
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (14 bp):
AAAATTAAATAACT
Found at i:31937 original size:13 final size:13
Alignment explanation
Indices: 31921--31959 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
31911 ATTTAAAATA
*
31921 TAAAGTAAAAGAC
1 TAAAATAAAAGAC
*
31934 TAAAATAAAAGAT
1 TAAAATAAAAGAC
31947 TAAAATATAAAGA
1 TAAAATA-AAAGA
31960 AAAGAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (13 bp):
TAAAATAAAAGAC
Found at i:31950 original size:33 final size:33
Alignment explanation
Indices: 31913--31979 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
31903 TGGCATAAAT
31913 TTAAAATATAAAGTAAAAG-ACTAAAATAAAAGA
1 TTAAAATATAAAG-AAAAGAACTAAAATAAAAGA
31946 TTAAAATATAAAGAAAAGAACTAAAATAAAAGA
1 TTAAAATATAAAGAAAAGAACTAAAATAAAAGA
31979 T
1 T
31980 ATCATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (33 bp):
TTAAAATATAAAGAAAAGAACTAAAATAAAAGA
Found at i:31962 original size:19 final size:19
Alignment explanation
Indices: 31934--31978 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31924 AGTAAAAGAC
* *
31934 TAAAATAAAAG-ATTAAAA
1 TAAAAGAAAAGAACTAAAA
31952 TATAAAGAAAAGAACTAAAA
1 TA-AAAGAAAAGAACTAAAA
31972 TAAAAGA
1 TAAAAGA
31979 TATCATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (19 bp):
TAAAAGAAAAGAACTAAAA
Found at i:32595 original size:12 final size:13
Alignment explanation
Indices: 32555--32598 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
32545 TTCGAAAAAC
*
32555 AAAATTAAA-TGA
1 AAAATAAAACTGA
32567 AAAATAAAACTGA
1 AAAATAAAACTGA
32580 AAAAT-AAAC-GA
1 AAAATAAAACTGA
32591 AAAA-AAAA
1 AAAATAAAA
32599 TTAAGAGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 9 0.31
12 12 0.41
13 8 0.28
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAATAAAACTGA
Found at i:33865 original size:131 final size:131
Alignment explanation
Indices: 33626--33869 Score: 434
Period size: 131 Copynumber: 1.9 Consensus size: 131
33616 AAACCCTTGA
* * * *
33626 AAGGCTTGGTTTCTGAAATCTCATTTGAAAATATCCTGCACTGAAGGTCTTATGGATGACTCGAA
1 AAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAA
33691 GGCTTTAACATCTTGCACTGAAGGGCTTACAGATGACCCGAAGGATTTATAGATTAAGAAATCTC
66 GGCTTTAACATCTTGCACTGAAGGGCTTACAGATGACCCGAAGGATTTATAGATTAAGAAATCTC
33756 G
131 G
*
33757 AAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCTTGCACTGAAGGTCTTATGGATGACCCGAA
1 AAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAA
*
33822 GGCTTTAACATCTTGCACTGAAGGGCTTACAGATGACCTGAAGGATTT
66 GGCTTTAACATCTTGCACTGAAGGGCTTACAGATGACCCGAAGGATTT
33870 CAACATCTTG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 107 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (131 bp):
AAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAA
GGCTTTAACATCTTGCACTGAAGGGCTTACAGATGACCCGAAGGATTTATAGATTAAGAAATCTC
G
Found at i:33896 original size:43 final size:43
Alignment explanation
Indices: 33786--34141 Score: 439
Period size: 43 Copynumber: 8.2 Consensus size: 43
33776 CTCATTTGAA
** *
33786 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTT-
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTC
* *
33828 AACATCTTGCACTGAAGGGCTTACAGATGACCTGAAGGATTTC
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTC
* * *
33871 AACATCTTGCACTGAAGGTCATACAGATGTCCCGAAGGATTTA
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTC
* *
33914 AACATCTTGCACTGAAGGTCTTACAGATGACGCAAAGGATTTC
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTC
* *
33957 AACATCTTGCACTGAAGGTCTTACAGATGACTCGAAGGCTTT-
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTC
* * * *
33999 AACTTCTTGCACGGAAGGGCTTACAGATGACCCAAAGGATTTC
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTC
34042 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTTC
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGA-TTTC
* * ** * *
34086 TGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAATGACTTT-
1 ----AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGA-TTTC
34133 AACATCTTG
1 AACATCTTG
34142 TGCAAATGAT
Statistics
Matches: 271, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
42 73 0.27
43 158 0.58
44 4 0.01
48 36 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (43 bp):
AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGATTTC
Found at i:33905 original size:85 final size:84
Alignment explanation
Indices: 33786--34079 Score: 462
Period size: 85 Copynumber: 3.5 Consensus size: 84
33776 CTCATTTGAA
**
33786 AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTAACATCTTGCACTGAAGGGCTTA
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTAACATCTTGCACTGAAGGGCTTA
*
33851 CAGATGACCTGAAGGATTTC
66 CAGATGACC-AAAGGATTTC
* * * *
33871 AACATCTTGCACTGAAGGTCATACAGATGTCCCGAAGGATTTAAACATCTTGCACTGAAGGTCTT
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGCTTT-AACATCTTGCACTGAAGGGCTT
33936 ACAGATGACGCAAAGGATTTC
65 ACAGATGAC-CAAAGGATTTC
* * *
33957 AACATCTTGCACTGAAGGTCTTACAGATGACTCGAAGGCTTTAACTTCTTGCACGGAAGGGCTTA
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTAACATCTTGCACTGAAGGGCTTA
34022 CAGATGACCCAAAGGATTTC
66 CAGATGA-CCAAAGGATTTC
34042 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGG
1 AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGG
34080 ATTTTCTGAA
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
85 112 0.59
86 78 0.41
87 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (84 bp):
AACATCTTGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTAACATCTTGCACTGAAGGGCTTA
CAGATGACCAAAGGATTTC
Found at i:34491 original size:22 final size:22
Alignment explanation
Indices: 34466--34544 Score: 149
Period size: 22 Copynumber: 3.6 Consensus size: 22
34456 AATAAAGCTT
*
34466 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
34488 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
34510 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
34532 TCATCTTTGAAGA
1 TCATCTTTGAAGA
34545 ATAATATGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:35050 original size:54 final size:54
Alignment explanation
Indices: 34903--35066 Score: 211
Period size: 54 Copynumber: 3.0 Consensus size: 54
34893 GAATAACTGA
* * * * * *
34903 TTCGTAAAACATTTGACAACACATTCATCATCTCATGTGGTTTCTTCTCAGATA
1 TTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATG
* * * *
34957 TTCGTAAAATATTTGAAAACACATTCATTCTTTCATGTGGCTTCTGCCCAGATG
1 TTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATG
** *
35011 TTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGTACAGATG
1 TTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATG
35065 TT
1 TT
35067 TGTTAGTGAA
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (54 bp):
TTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATG
Found at i:36051 original size:75 final size:75
Alignment explanation
Indices: 35928--36103 Score: 248
Period size: 75 Copynumber: 2.3 Consensus size: 75
35918 TCCATGTGAT
* * *
35928 ATGGGCCTTTAGCATGCCCCAACATTTGCTAATACAGACGTTCAAAATGCGCCAAC-ATTCCAGA
1 ATGGGCTTTTAGCATGCCCCAACATTTGCTAATACAAACGTTCAAAATGCACC-ACTATTCCA-A
35992 -TTCTGATTGAA
64 TTTCTGATTGAA
* * *
36003 ATGGGCTTTTAGCATGCCCCAATATTTGCTGATACAAACGTTCAAAATGCATCACTATTCCAATT
1 ATGGGCTTTTAGCATGCCCCAACATTTGCTAATACAAACGTTCAAAATGCACCACTATTCCAATT
36068 TCTGATTGAA
66 TCTGATTGAA
* *
36078 ATGGGCTTTCAGCATGCCCCATCATT
1 ATGGGCTTTTAGCATGCCCCAACATT
36104 CACTTCTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
74 3 0.03
75 87 0.97
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (75 bp):
ATGGGCTTTTAGCATGCCCCAACATTTGCTAATACAAACGTTCAAAATGCACCACTATTCCAATT
TCTGATTGAA
Found at i:36205 original size:24 final size:24
Alignment explanation
Indices: 36178--36227 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
36168 AAATACCCCA
*
36178 TATGGATTTGTCTGAAATGACCTT
1 TATGGATATGTCTGAAATGACCTT
* *
36202 TATGGATATGTCTGAAGTGGCCTT
1 TATGGATATGTCTGAAATGACCTT
36226 TA
1 TA
36228 AAATGCCCCA
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:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (24 bp):
TATGGATATGTCTGAAATGACCTT
Found at i:40366 original size:21 final size:22
Alignment explanation
Indices: 40334--40379 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
40324 ATATAAAATG
40334 AAAATATAAAAATACAAATGCA
1 AAAATATAAAAATACAAATGCA
*
40356 AAAATA-AAAAATACGAATGCA
1 AAAATATAAAAATACAAATGCA
40377 AAA
1 AAA
40380 TGCAAATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.70, C:0.09, G:0.07, T:0.15
Consensus pattern (22 bp):
AAAATATAAAAATACAAATGCA
Found at i:43612 original size:2 final size:2
Alignment explanation
Indices: 43605--43631 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43595 TCTACTTCTC
43605 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
43632 GTCATGTGAC
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:43749 original size:22 final size:21
Alignment explanation
Indices: 43699--43749 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
43689 AAATTAAAGT
43699 ATTAAAAAATATAAAGTAAAA
1 ATTAAAAAATATAAAGTAAAA
43720 ATAATAAAAAAT-TAAAGTAATGAA
1 AT--TAAAAAATATAAAGTAA--AA
43744 ATTAAA
1 ATTAAA
43750 TAACTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.08
22 12 0.46
23 8 0.31
24 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (21 bp):
ATTAAAAAATATAAAGTAAAA
Found at i:43826 original size:33 final size:33
Alignment explanation
Indices: 43789--43852 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
43779 TGGCATAAAT
43789 TTAAAATATAAAGTAAA-AGACTAAAATAAAAGA
1 TTAAAATATAAAGTAAAGA-ACTAAAATAAAAGA
43822 TTAAAATATAAAGTAAAGAACTAAAATAAAA
1 TTAAAATATAAAGTAAAGAACTAAAATAAAA
43853 AGATATCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (33 bp):
TTAAAATATAAAGTAAAGAACTAAAATAAAAGA
Found at i:44465 original size:13 final size:13
Alignment explanation
Indices: 44438--44482 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
44428 TTCGAAAAAC
*
44438 AAAATTAAA-TGA
1 AAAATAAAACTGA
44450 AAAATAAAACTGA
1 AAAATAAAACTGA
44463 AAAAT-AAAC-GA
1 AAAATAAAACTGA
*
44474 AAAACAAAA
1 AAAATAAAA
44483 TTAAGAGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 6 0.21
12 15 0.52
13 8 0.28
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAATAAAACTGA
Found at i:45557 original size:15 final size:16
Alignment explanation
Indices: 45539--45571 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45529 ATCATTTCAT
45539 TCATAATCACAT-ATC
1 TCATAATCACATGATC
*
45554 TCATATTCACATGATC
1 TCATAATCACATGATC
45570 TC
1 TC
45572 TTATATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.36
Consensus pattern (16 bp):
TCATAATCACATGATC
Found at i:46517 original size:21 final size:21
Alignment explanation
Indices: 46493--46546 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
46483 TTGATGTTTA
*
46493 AAGCTTATATAAGCTTTCCTT
1 AAGCTTATATAAGCTTTACTT
46514 AAGCTTATATAAGCTTTACTT
1 AAGCTTATATAAGCTTTACTT
46535 AAGCTTATATAA
1 AAGCTTATATAA
46547 CACCCAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (21 bp):
AAGCTTATATAAGCTTTACTT
Found at i:47758 original size:189 final size:191
Alignment explanation
Indices: 47423--47769 Score: 549
Period size: 190 Copynumber: 1.8 Consensus size: 191
47413 TAATTTTTAA
* * * * * * *
47423 AATATTAGTAGGTTAATTACTCTTTTAATAAATCAATTTAAAAATGTATTTGTTATCTTTTTAAT
1 AATATTAGTAGGATAATTACTCTTTGAATAAATCAACTTAAAAAGGTATTTGTAACCTTTTTAAC
47488 TTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATAAATTTAAGT
66 TTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATAAATTTAAGT
*
47553 TTGAATAGTAAAAGGAG-TTTATCTTTTTACCATTACAAATTAAATATATTATTTAATTTT
131 TTGAATAGAAAAAGGAGTTTTATCTTTTTACCATTACAAATTAAATATATTATTTAATTTT
47613 AATATTAGTAGGATAATTACTCTTTGAA-AATATCAACTTAAAAAGGTATTTGTAACCTTTTTAA
1 AATATTAGTAGGATAATTACTCTTTGAATAA-ATCAACTTAAAAAGGTATTTGTAACCTTTTTAA
* *
47677 CTTTGAATATT-AAAGATAATTATATA-TTTTTTCATATTTCAAATTAAAATAATATATATTTAA
65 CTTTGAATATTAAAAGATAATTATATACTTTTGT-ATATTTCAAATTAAAATAATATAAATTTAA
*
47740 GTTTGAATGGAAAAAGGAGTTTTATCTTTT
129 GTTTGAATAGAAAAAGGAGTTTTATCTTTT
47770 GAATATTTAA
Statistics
Matches: 143, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
188 5 0.03
189 63 0.44
190 75 0.52
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (191 bp):
AATATTAGTAGGATAATTACTCTTTGAATAAATCAACTTAAAAAGGTATTTGTAACCTTTTTAAC
TTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATAAATTTAAGT
TTGAATAGAAAAAGGAGTTTTATCTTTTTACCATTACAAATTAAATATATTATTTAATTTT
Found at i:47785 original size:190 final size:191
Alignment explanation
Indices: 47388--47796 Score: 543
Period size: 190 Copynumber: 2.2 Consensus size: 191
47378 AATCATAGTC
* *
47388 CTTTTG-ACTATTGCAAATTAAAAGATAATT-TTTAA----AATATTAGTAGGTTAATTACTCTT
1 CTTTTGAAC-ATTACAAATTAAAAGAT-ATTATTTAATTTTAATATTAGTAGGATAATTACTCTT
* * * * * *
47447 TTAATAAATCAATTTAAAAATGTATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATA
64 TGAATAAATCAACTTAAAAAGGTATTTGTAACCTTTTTAACTTTGAATATTAAAAGATAATTATA
*
47512 TACTTTTGTATATTTCAAATTAAAATAATATAAATTTAAGTTTGAATAGTAAAAGGAGTTTAT
129 TACTTTTGTATATTTCAAATTAAAATAATATAAATTTAAGTTTGAATAGAAAAAGGAGTTTAT
* * *
47575 CTTTTTACCATTACAAATT-AAATATATTATTTAATTTTAATATTAGTAGGATAATTACTCTTTG
1 CTTTTGAACATTACAAATTAAAAGATATTATTTAATTTTAATATTAGTAGGATAATTACTCTTTG
47639 AA-AATATCAACTTAAAAAGGTATTTGTAACCTTTTTAACTTTGAATATT-AAAGATAATTATAT
66 AATAA-ATCAACTTAAAAAGGTATTTGTAACCTTTTTAACTTTGAATATTAAAAGATAATTATAT
* * *
47702 A-TTTTTTCATATTTCAAATTAAAATAATATATATTTAAGTTTGAATGGAAAAAGGAGTTTTAT
130 ACTTTTGT-ATATTTCAAATTAAAATAATATAAATTTAAGTTTGAATAGAAAAAGGAG-TTTAT
*
47765 CTTTTGAATATTTA-AAATTAAAAGATATTATT
1 CTTTTGAACA-TTACAAATTAAAAGATATTATT
47797 ATTTGTTTAA
Statistics
Matches: 192, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
185 3 0.02
186 10 0.05
187 14 0.07
188 6 0.03
189 63 0.33
190 82 0.43
191 14 0.07
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (191 bp):
CTTTTGAACATTACAAATTAAAAGATATTATTTAATTTTAATATTAGTAGGATAATTACTCTTTG
AATAAATCAACTTAAAAAGGTATTTGTAACCTTTTTAACTTTGAATATTAAAAGATAATTATATA
CTTTTGTATATTTCAAATTAAAATAATATAAATTTAAGTTTGAATAGAAAAAGGAGTTTAT
Found at i:48329 original size:13 final size:13
Alignment explanation
Indices: 48311--48351 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
48301 GTACTTTTTG
48311 ATATTTTTTAATT
1 ATATTTTTTAATT
48324 ATATTTATTT-ATT
1 ATATTT-TTTAATT
48337 AT-TTTTTTACATT
1 ATATTTTTTA-ATT
48350 AT
1 AT
48352 TCTTATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.12
12 3 0.12
13 16 0.64
14 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTTTTAATT
Found at i:49318 original size:28 final size:25
Alignment explanation
Indices: 49258--49318 Score: 59
Period size: 28 Copynumber: 2.3 Consensus size: 25
49248 TACTAAAATG
49258 AAATAAAAAATAAACTTTAAGTATA
1 AAATAAAAAATAAACTTTAAGTATA
** *
49283 ATTTTAAAAAATTAAAAGTTTAAGTACTA
1 A-AATAAAAAA-T-AAACTTTAAGTA-TA
49312 AAATAAA
1 AAATAAA
49319 CTAAAAGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.04
26 7 0.26
27 1 0.04
28 15 0.56
29 3 0.11
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (25 bp):
AAATAAAAAATAAACTTTAAGTATA
Found at i:51162 original size:15 final size:15
Alignment explanation
Indices: 51142--51223 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
51132 TTCCAGAAAA
51142 TGAATTACTGGAATT
1 TGAATTACTGGAATT
51157 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
51172 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
51187 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
51202 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
51216 TGAATTAC
1 TGAATTAC
51224 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:51176 original size:30 final size:30
Alignment explanation
Indices: 51142--51223 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
51132 TTCCAGAAAA
**
51142 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
51172 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
51202 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
51224 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:51188 original size:45 final size:44
Alignment explanation
Indices: 51137--51223 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
51127 TGGTTTTCCA
**
51137 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
51182 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
51224 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:51229 original size:20 final size:20
Alignment explanation
Indices: 51206--51275 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
51196 GGAATTTGAA
51206 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
51226 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
51246 TTTTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
51266 TTCTTGAAAA
1 TTCTGGAAAA
51276 CATCTGGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:51498 original size:30 final size:28
Alignment explanation
Indices: 51441--51509 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 28
51431 CTTTACTAAA
*
51441 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAAAAATATTAT
51470 -TCATTATTAAATATATAAAAAAATTATTAT
1 AT-ATTATTAAATATAT-AAAAAA-TATTAT
51500 ATATTATTAA
1 ATATTATTAA
51510 TAAATAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 9 0.26
29 11 0.31
30 14 0.40
31 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:51547 original size:23 final size:23
Alignment explanation
Indices: 51499--51559 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
51489 AAAATTATTA
*
51499 TATATTATTAATAA-ATAATATCT
1 TATATTATT-ATAATATAATATAT
51522 TATATTATTATAATATAAT-TGAT
1 TATATTATTATAATATAATAT-AT
*
51545 TATTTTA-TATAATAT
1 TATATTATTATAATAT
51560 TAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATTATTATAATATAATATAT
Found at i:51577 original size:22 final size:23
Alignment explanation
Indices: 51552--51595 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
51542 GATTATTTTA
51552 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
51574 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
51596 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:51600 original size:22 final size:22
Alignment explanation
Indices: 51556--51612 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
51546 ATTTTATATA
* *
51556 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
51577 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
51599 ATATTTTAAATATT
1 ATATTATAAATATT
51613 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:51860 original size:42 final size:42
Alignment explanation
Indices: 51801--51920 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
51791 ATGAATTACA
*
51801 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
51843 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
51885 TTCCGGAAAACGAATTACGTAAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
51921 TTCGGGGAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:58214 original size:12 final size:12
Alignment explanation
Indices: 58194--58282 Score: 84
Period size: 12 Copynumber: 7.9 Consensus size: 12
58184 CGGTGAAGAG
*
58194 AGGGAAAGAGAA
1 AGGGGAAGAGAA
58206 AGGGGAAGAGAA
1 AGGGGAAGAGAA
*
58218 A-TGGAA-AG--
1 AGGGGAAGAGAA
58226 AGTGGGAA-AGAA
1 AG-GGGAAGAGAA
58238 AGGGGAAGAGAA
1 AGGGGAAGAGAA
*
58250 AGAGG-A-AGAA
1 AGGGGAAGAGAA
58260 AGGGGAAGAGAA
1 AGGGGAAGAGAA
*
58272 AGAGGAAGAGA
1 AGGGGAAGAGA
58283 GGGAAAGAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
10 16 0.25
11 11 0.17
12 36 0.56
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.02
Consensus pattern (12 bp):
AGGGGAAGAGAA
Found at i:58216 original size:22 final size:22
Alignment explanation
Indices: 58188--58290 Score: 95
Period size: 22 Copynumber: 4.7 Consensus size: 22
58178 TGCCTTCGGT
*
58188 GAAGAGAGGGAAAGAGAAAGGG
1 GAAGAGAGGGAAAGAGAAAGAG
* *
58210 GAAGAGAAATGGAAAGAG--TG-G
1 GAAGAG--AGGGAAAGAGAAAGAG
* *
58231 GAAAGAAAGGGGAAGAGAAAGAG
1 G-AAGAGAGGGAAAGAGAAAGAG
* *
58254 GAAGAAAGGGGAAGAGAAAGAG
1 GAAGAGAGGGAAAGAGAAAGAG
58276 GAAGAGAGGGAAAGA
1 GAAGAGAGGGAAAGA
58291 AATCATTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.12
21 2 0.03
22 46 0.69
23 2 0.03
24 9 0.13
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (22 bp):
GAAGAGAGGGAAAGAGAAAGAG
Found at i:58243 original size:32 final size:34
Alignment explanation
Indices: 58188--58282 Score: 115
Period size: 32 Copynumber: 2.9 Consensus size: 34
58178 TGCCTTCGGT
* * *
58188 GAAGAGAGGGAAAGAGAAAGGGGAAGAGAAA-TG
1 GAAGAAAGGGGAAGAGAAAGGGGAAGAGAAAGAG
*
58221 GAA-AGAGTGGGAA-AGAAAGGGGAAGAGAAAGAG
1 GAAGAAAG-GGGAAGAGAAAGGGGAAGAGAAAGAG
*
58254 GAAGAAAGGGGAAGAGAAAGAGGAAGAGA
1 GAAGAAAGGGGAAGAGAAAGGGGAAGAGA
58283 GGGAAAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
32 21 0.39
33 16 0.30
34 17 0.31
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.02
Consensus pattern (34 bp):
GAAGAAAGGGGAAGAGAAAGGGGAAGAGAAAGAG
Found at i:58330 original size:19 final size:18
Alignment explanation
Indices: 58290--58347 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
58280 AGAGGGAAAG
*
58290 AAATCATTTTT-TTATTA
1 AAATTATTTTTATTATTA
* *
58307 TAATTAATTTTTATTTTTA
1 AAATT-ATTTTTATTATTA
*
58326 AAATTATTTTTAAATATTA
1 AAATTATTTTT-ATTATTA
58345 AAA
1 AAA
58348 AATATATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 17 0.53
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATTATTTTTATTATTA
Found at i:58510 original size:3 final size:3
Alignment explanation
Indices: 58504--58546 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
58494 ATAATAATAA
*
58504 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAGT TAC TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA-T TAT TAT TA
58547 CATGTTTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:60504 original size:22 final size:21
Alignment explanation
Indices: 60479--60519 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
60469 ATGTATGTAC
60479 ATGTTGTAAATATTATTATTAT
1 ATGTTGTAAATATT-TTATTAT
60501 ATGTTGTAAATATTTTATT
1 ATGTTGTAAATATTTTATT
60520 TTACATCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
ATGTTGTAAATATTTTATTAT
Found at i:66123 original size:3 final size:3
Alignment explanation
Indices: 66115--66166 Score: 61
Period size: 3 Copynumber: 16.3 Consensus size: 3
66105 CGGGTCTTTT
66115 TTA TTA TTA TT- TATA TATA TTTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA
66163 TTA T
1 TTA T
66167 GTTTATTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.02
3 34 0.76
4 9 0.20
5 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66135 original size:16 final size:16
Alignment explanation
Indices: 66115--66166 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
66105 CGGGTCTTTT
66115 TTATTATTATTTA-TA
1 TTATTATTATTTATTA
66130 -TA-TATT-TATTATTA
1 TTATTATTAT-TTATTA
66144 TTATTATTATTTATTA
1 TTATTATTATTTATTA
66160 TTATTAT
1 TTATTAT
66167 GTTTATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
12 1 0.03
13 7 0.22
14 4 0.12
15 2 0.06
16 17 0.53
17 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTATTTATTA
Found at i:66145 original size:10 final size:10
Alignment explanation
Indices: 66114--66164 Score: 79
Period size: 10 Copynumber: 5.2 Consensus size: 10
66104 CCGGGTCTTT
66114 TTTATTATTA
1 TTTATTATTA
66124 TTTA-TATATA
1 TTTATTAT-TA
66134 TTTATTATTA
1 TTTATTATTA
66144 -TTATTATTA
1 TTTATTATTA
66153 TTTATTATTA
1 TTTATTATTA
66163 TT
1 TT
66165 ATGTTTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 12 0.32
10 23 0.61
11 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATTATTA
Found at i:66172 original size:19 final size:18
Alignment explanation
Indices: 66114--66178 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 18
66104 CCGGGTCTTT
*
66114 TTTATTATTATTTATATATA
1 TTTATTATTA-TTAT-TTTA
66134 TTTATTATTATTATTATTA
1 TTTATTATTATTATT-TTA
66153 TTTATTATTATTATGTTTA
1 TTTATTATTATTAT-TTTA
*
66172 TTAATTA
1 TTTATTA
66179 CATATTACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
18 1 0.02
19 29 0.71
20 11 0.27
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATTATTATTATTTTA
Found at i:66178 original size:13 final size:13
Alignment explanation
Indices: 66116--66174 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
66106 GGGTCTTTTT
*
66116 TATTATTATT-TA
1 TATTATTATTATG
66128 TATATATTTATTAT-
1 TAT-TA-TTATTATG
*
66142 TATTATTATTATT
1 TATTATTATTATG
66155 TATTATTATTATG
1 TATTATTATTATG
66168 T-TTATTA
1 TATTATTA
66175 ATTACATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 16 0.38
13 17 0.40
14 8 0.19
15 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
TATTATTATTATG
Found at i:66310 original size:25 final size:25
Alignment explanation
Indices: 66281--66352 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
66271 ACCAACCCAT
66281 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
66306 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
* *
66331 CAAATTAGGGTTT-TAACCCTAA
1 CAGATTAGGGTTTCAAACCCTAA
66353 TCCCCTAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:68217 original size:22 final size:22
Alignment explanation
Indices: 68192--68235 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
68182 TCAAACGATG
*
68192 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
68214 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
68236 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:69779 original size:31 final size:32
Alignment explanation
Indices: 69744--69805 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
69734 ATTTTACATG
69744 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
69775 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
69806 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:71233 original size:26 final size:25
Alignment explanation
Indices: 71204--71281 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
71194 AAATTTTGAC
71204 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
71230 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
* *
71250 ATTCCCTCTCTTTGAGACCTTAAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
71276 ATTCTT
1 ATTCTT
71282 TCCACCTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 13
0.66 0.12 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.13
26 13 0.33
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:72779 original size:23 final size:24
Alignment explanation
Indices: 72753--72797 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
72743 TGAAAGGAGC
*
72753 AATA-TTTTCAAAACTTTTGATTA
1 AATATTTTTCAAAACTATTGATTA
72776 AATATTTTTCAAAACTATTGAT
1 AATATTTTTCAAAACTATTGAT
72798 ATTTTCAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
AATATTTTTCAAAACTATTGATTA
Found at i:73091 original size:4 final size:4
Alignment explanation
Indices: 73082--73131 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
73072 GATCGAGAAA
*
73082 ACAT ACAT ACAT ACAT ACAT ACAT ATAT AC-- ACAT ACAT ACAT A-AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
73127 ACAT A
1 ACAT A
73132 AAATTTGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 3 0.07
4 36 0.88
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:73845 original size:35 final size:35
Alignment explanation
Indices: 73796--73892 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
73786 CGTTTTCTCA
*
73796 AAAAACAAACTTTGTCTCGCTTGAGACAAT-TGCTT
1 AAAAACAAATTTTGTCTCGCTTGAGACAATAT-CTT
** *
73831 AAAAACAAATTTTGTCTCAATTGAGACTATATCTT
1 AAAAACAAATTTTGTCTCGCTTGAGACAATATCTT
* *
73866 -AAAGCAAATTTCGTCTCGCTTGAGACA
1 AAAAACAAATTTTGTCTCGCTTGAGACA
73893 TCATTTTCTC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
34 22 0.42
35 29 0.56
36 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (35 bp):
AAAAACAAATTTTGTCTCGCTTGAGACAATATCTT
Found at i:74226 original size:67 final size:65
Alignment explanation
Indices: 74111--74349 Score: 286
Period size: 67 Copynumber: 3.7 Consensus size: 65
74101 TTAAAACGAT
* * *
74111 TTTTGTCTCTCTTGAGACAGTTTCTTTTGGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA
1 TTTTGTCTCTCTTAAGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA
*
74176 TTTTGTCTCTCTTAAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAA
1 TTTTGTCTCTCTTAAGATAGTTTCTTTT-GAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAA
74241 AA
64 AA
* * * * *
74243 TTTTGTCTCTTTTAAGATAATTTCTTTTGAAAAAAATCTTTGAATCTGTTTCTCTT--AAA-ATG
1 TTTTGTCTCTCTTAAGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCT-TTGGAAACA-A
74305 AA
64 AA
* * * * **
74307 TTTTGTATCTCTTGAGACAGTTTCTCTTGAAGTAAATCTTTGA
1 TTTTGTCTCTCTTAAGATAGTTTCTTTTGAAAAAAATCTTTGA
74350 ATATGTTCAT
Statistics
Matches: 152, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
63 1 0.01
64 40 0.26
65 46 0.30
66 5 0.03
67 60 0.39
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.46
Consensus pattern (65 bp):
TTTTGTCTCTCTTAAGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA
Found at i:75214 original size:43 final size:44
Alignment explanation
Indices: 75161--75404 Score: 148
Period size: 46 Copynumber: 5.6 Consensus size: 44
75151 AGACCAGATT
*
75161 TCCTTATCACGTAGGAGACGTGTCA-ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGACGTGTCATACCATAGATAACCAGACC
* * ** *
75203 GTCCTCATCACGTAGGA-ACCGTGTTATCACCTTAAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGA-CGTGTCAT-ACCAT-AGATAACCAGACC
* * * * * *
75250 TCTTCATCACGTATGAGCCGTGTCATTCC-CAG---ACCAGATC
1 TCCTCATCACGTAGGAGACGTGTCATACCATAGATAACCAGACC
* *
75290 TCCTTATCACGTAGGAGCCGTGTCA-ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGACGTGTCATACCATAGATAACCAGACC
* * ** *
75332 GTCCTCATCACGTAGGA-ACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGA-CGTGTCAT-ACC-ATAGATAACCAGACC
* * *
75379 TCTTCATCACGTATGAGCCGTGTCAT
1 TCCTCATCACGTAGGAGACGTGTCAT
75405 TCCCCGACCA
Statistics
Matches: 153, Mismatches: 31, Indels: 31
0.71 0.14 0.14
Matches are distributed among these distances:
39 2 0.01
40 30 0.20
42 2 0.01
43 49 0.32
45 9 0.06
46 59 0.39
47 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (44 bp):
TCCTCATCACGTAGGAGACGTGTCATACCATAGATAACCAGACC
Found at i:75262 original size:46 final size:45
Alignment explanation
Indices: 75207--75404 Score: 173
Period size: 46 Copynumber: 4.5 Consensus size: 45
75197 CCAGCCGTCC
* *
75207 TCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATCACCTT-AGATGGCCAGAACTCT
* *
75253 TCATCACGTATGAGCCGTGTCATTC-CC--AGA---CCAGATCTCCT
1 TCATCACGTAGGAGCCGTGTCA-TCACCTTAGATGGCCAGAACT-CT
* ** * *
75294 T-ATCACGTAGGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC-TCT
* *
75336 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAACTCT
*
75382 TCATCACGTATGAGCCGTGTCAT
1 TCATCACGTAGGAGCCGTGTCAT
75405 TCCCCGACCA
Statistics
Matches: 121, Mismatches: 17, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
38 2 0.02
40 29 0.24
41 3 0.02
42 3 0.02
43 26 0.21
45 3 0.02
46 52 0.43
47 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (45 bp):
TCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAACTCT
Found at i:75337 original size:129 final size:129
Alignment explanation
Indices: 75107--75434 Score: 532
Period size: 129 Copynumber: 2.5 Consensus size: 129
75097 ATAGCTCCTA
* * * * * * *
75107 AAGATGGCCAG-CCATCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATTTCCTTATCAC
1 AAGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCAC
75171 GTAGGAGACGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTAGGAGACGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
75236 AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACG
1 AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACG
*
75301 TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
66 TAGGAGACGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
* * * *
75365 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATGTCCTCATCACG
1 AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACG
75430 TAGGA
66 TAGGA
75435 ACCGCGTTAA
Statistics
Matches: 186, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
129 185 0.99
130 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACG
TAGGAGACGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
Found at i:75639 original size:3 final size:3
Alignment explanation
Indices: 75631--75677 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
75621 CGGGTCTTTT
75631 TTA TTA TTA TT- TATA TATA TTTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
75677 T
1 T
75678 GTTTATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 3 0.08
3 30 0.75
4 6 0.15
5 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:75656 original size:17 final size:18
Alignment explanation
Indices: 75630--75685 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 18
75620 CCGGGTCTTT
75630 TTTATTATTATTTATATATA
1 TTTATTATTATTT-TAT-TA
75650 TTTATTATTA--TTATTA
1 TTTATTATTATTTTATTA
75666 TTTTATTATTATGTTTATTA
1 -TTTATTATTAT-TTTATTA
75686 ATTACATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 13 0.41
18 1 0.03
20 16 0.50
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTATTATTATTTTATTA
Found at i:75685 original size:20 final size:18
Alignment explanation
Indices: 75629--75677 Score: 73
Period size: 17 Copynumber: 2.7 Consensus size: 18
75619 TCCGGGTCTT
75629 TTTTATTATTATTTATATA
1 TTTTATTATTATTTAT-TA
75648 TATTTATTATTA-TTATTA
1 T-TTTATTATTATTTATTA
75666 TTTTATTATTAT
1 TTTTATTATTAT
75678 GTTTATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.36
18 3 0.11
19 5 0.18
20 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTATTATTTATTA
Found at i:75820 original size:25 final size:25
Alignment explanation
Indices: 75791--75862 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
75781 ACCAACCCAT
75791 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
75816 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
* *
75841 CAAATTAGGGTTT-TAACCCTAA
1 CAGATTAGGGTTTCAAACCCTAA
75863 TCCCCTAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:77722 original size:22 final size:22
Alignment explanation
Indices: 77697--77740 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
77687 TCAAACGATG
*
77697 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
77719 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
77741 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:79516 original size:12 final size:12
Alignment explanation
Indices: 79499--79523 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79489 ATTTAAAAGA
79499 AAAATCGAAATT
1 AAAATCGAAATT
79511 AAAATCGAAATT
1 AAAATCGAAATT
79523 A
1 A
79524 TGGCGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATCGAAATT
Found at i:80596 original size:20 final size:20
Alignment explanation
Indices: 80571--80608 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80561 ATTTGGACCA
80571 AAATAAAAAAATAAAATAAT
1 AAATAAAAAAATAAAATAAT
* *
80591 AAATAATAAAATATAATA
1 AAATAAAAAAATAAAATA
80609 CATGAAAATG
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAAAAAAATAAAATAAT
Found at i:80707 original size:39 final size:38
Alignment explanation
Indices: 80623--81037 Score: 484
Period size: 37 Copynumber: 10.8 Consensus size: 38
80613 AAAATGTTTG
*
80623 AAAATTATTTTCAAAAATTATATATTATTATATATATTTT
1 AAAA-TATTTTCAAAAACTATATATTA-TATATATATTTT
*
80663 CAAAATGTTTTCAAAAACTATATATTATATATATATATTT
1 -AAAATATTTTCAAAAACTATATATTATATATATAT-TTT
*
80703 AAAATATTTTGAAAAACTATATATTATATATAT-TTTT
1 AAAATATTTTCAAAAACTATATATTATATATATATTTT
*
80740 AAAATATTTTCAAAAACTATATATTATATATATTTATTT
1 AAAATATTTTCAAAAACTATATATTATATATATAT-TTT
* *
80779 AAAATGTTTTCAAAAACTATATATTATATATAT-TTTC
1 AAAATATTTTCAAAAACTATATATTATATATATATTTT
* *
80816 AAAACATTTCCAAAAACTATATATTATATATAT-TTTT
1 AAAATATTTTCAAAAACTATATATTATATATATATTTT
* *
80853 AAAATATTTTTAAAAAACTATATA-T-TATATATATTTC
1 AAAATA-TTTTCAAAAACTATATATTATATATATATTTT
* * *
80890 AAAACATTTTCAAAAACTATATGTTATATATAT-TTTC
1 AAAATATTTTCAAAAACTATATATTATATATATATTTT
* *
80927 AAAATATTTTCAAAACCTATATATTATATATATGTTTT
1 AAAATATTTTCAAAAACTATATATTATATATATATTTT
* * *
80965 CGAAATGTTTTTTAAAAAACTATATATTATATATATATGTTTT
1 --AAA-ATATTTTCAAAAACTATATATTATATATATA--TTTT
* *
81008 CAAAAT-TTTATAAAAAACTATATACTATAT
1 -AAAATATTT-TCAAAAACTATATATTATAT
81038 GTTATATATA
Statistics
Matches: 330, Mismatches: 30, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
36 22 0.07
37 119 0.36
38 28 0.08
39 75 0.23
40 29 0.09
41 50 0.15
42 3 0.01
43 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (38 bp):
AAAATATTTTCAAAAACTATATATTATATATATATTTT
Found at i:80750 original size:76 final size:74
Alignment explanation
Indices: 80623--81037 Score: 492
Period size: 76 Copynumber: 5.4 Consensus size: 74
80613 AAAATGTTTG
* *
80623 AAAATTATTTTCAAAAATTATATATTATTATATATATTTTCAAAATGTTTTCAAAAACTATATAT
1 AAAA-TATTTTCAAAAACTATATATTA-TATATAT-TTTT-AAAATATTTTCAAAAACTATATAT
80688 TATATATATATATTT
62 TATATATAT-T-TTT
*
80703 AAAATATTTTGAAAAACTATATATTATATATATTTTTAAAATATTTTCAAAAACTATATATTATA
1 AAAATATTTTCAAAAACTATATATTATATATATTTTTAAAATATTTTCAAAAACTATATATTATA
80768 TATATTTATTT
66 TATA-TT-TTT
* * * *
80779 AAAATGTTTTCAAAAACTATATATTATATATATTTTCAAAACATTTCCAAAAACTATATATTATA
1 AAAATATTTTCAAAAACTATATATTATATATATTTTTAAAATATTTTCAAAAACTATATATTATA
80844 TATATTTTT
66 TATATTTTT
* * * *
80853 AAAATATTTTTAAAAAACTATATATTATATATA-TTTCAAAACATTTTCAAAAACTATATGTTAT
1 AAAATA-TTTTCAAAAACTATATATTATATATATTTTTAAAATATTTTCAAAAACTATATATTAT
*
80917 ATATATTTTC
65 ATATATTTTT
* * * *
80927 AAAATATTTTCAAAACCTATATATTATATATATGTTTTCGAAATGTTTTTTAAAAAACTATATAT
1 AAAATATTTTCAAAAACTATATATTATATATAT-TTTT--AAA-ATATTTTCAAAAACTATATA-
80992 TATATATATATGTTTT
61 T-TATATATAT-TTTT
* *
81008 CAAAAT-TTTATAAAAAACTATATACTATAT
1 -AAAATATTT-TCAAAAACTATATATTATAT
81038 GTTATATATA
Statistics
Matches: 298, Mismatches: 25, Indels: 22
0.86 0.07 0.06
Matches are distributed among these distances:
73 24 0.08
74 52 0.17
75 30 0.10
76 100 0.34
77 8 0.03
78 22 0.07
79 21 0.07
80 13 0.04
81 6 0.02
82 22 0.07
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (74 bp):
AAAATATTTTCAAAAACTATATATTATATATATTTTTAAAATATTTTCAAAAACTATATATTATA
TATATTTTT
Found at i:82626 original size:43 final size:44
Alignment explanation
Indices: 82564--82648 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 44
82554 CTCACATCTT
82564 TTTTTTTCAACTTAGGGTG-CCTATTCGGGTTTTCACCCTAAGCA
1 TTTTTTTCAACTTAGGGTGCCCT-TTCGGGTTTTCACCCTAAGCA
82608 TTTTTTT-AACTTAGGGTGCCCTTTCGGGTTTTCACCCTAAG
1 TTTTTTTCAACTTAGGGTGCCCTTTCGGGTTTTCACCCTAAG
82649 TGAAATATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
43 30 0.75
44 10 0.25
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (44 bp):
TTTTTTTCAACTTAGGGTGCCCTTTCGGGTTTTCACCCTAAGCA
Found at i:86192 original size:33 final size:35
Alignment explanation
Indices: 86155--86221 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
86145 ATGAAACAAG
*
86155 GTACTGAATGAAA-AAAATT-AATTCAAAAGAAAA
1 GTACTAAATGAAAGAAAATTGAATTCAAAAGAAAA
86188 GTACTAAATGAAAGAAAATTGAATTCAAAAGAAA
1 GTACTAAATGAAAGAAAATTGAATTCAAAAGAAA
86222 TGAAATAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 12 0.39
34 6 0.19
35 13 0.42
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (35 bp):
GTACTAAATGAAAGAAAATTGAATTCAAAAGAAAA
Found at i:89085 original size:65 final size:65
Alignment explanation
Indices: 88972--89093 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 65
88962 TACACTAGGG
* * *
88972 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCATGAGTGCATCGATGTATGGTTT
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGTATGGTTT
* ** *
89037 GTGCATCGGTACACAAAATGCATTCGATGTTTCAATAA-ATTCAAGAGTGTATCGATG
1 GTGCATCGGTACACAAAATACATTCGATGTTTCAA-AAGAGCCAAGAGTGCATCGATG
89094 CATAAAATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
65 47 0.96
66 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATACATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGTATGGTTT
Found at i:89349 original size:13 final size:13
Alignment explanation
Indices: 89324--89356 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
89314 TTGAATATAC
89324 TCTAAAAATAATT
1 TCTAAAAATAATT
89337 TCTAAAAATAATT
1 TCTAAAAATAATT
*
89350 TATAAAA
1 TCTAAAA
89357 TCTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (13 bp):
TCTAAAAATAATT
Found at i:95629 original size:39 final size:37
Alignment explanation
Indices: 95549--95873 Score: 458
Period size: 37 Copynumber: 8.7 Consensus size: 37
95539 CATGAAAATG
* *
95549 TTTTAAAAATATTTTCAAAAATTATATATTATATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATA
* *
95586 TTTTCAAAATGTTTCCAAAAACTATATATTATATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATA
95623 TTTTTTCAAAATATTTTCAAAAACTATATATTATATATATA
1 --TTTTCAAAATATTTTCAAAAACTATATA-T-TATATATA
* *
95664 TTTTTAAAATGTTTTCAAAAACTATATATTATATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATA
*
95701 TTTTCAAAACATTTTCAAAAACTATATATTATATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATA
*
95738 TATTT-AAAATGTTTTCAAAAACTATATATTATATATA
1 T-TTTCAAAATATTTTCAAAAACTATATATTATATATA
* *
95775 --TTCAAAACATTTTCAAAAACTATATGTTATATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATA
95810 TTTTCAAAATATTTTCAAAAACTATATATTATATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATA
* *
95847 TGTTTTTAAAATGTTTTCAAAAACTAT
1 --TTTTCAAAATATTTTCAAAAACTAT
95874 TTTTAAACGT
Statistics
Matches: 258, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
34 2 0.01
35 29 0.11
37 139 0.54
38 4 0.02
39 75 0.29
40 1 0.00
41 8 0.03
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (37 bp):
TTTTCAAAATATTTTCAAAAACTATATATTATATATA
Found at i:95659 original size:76 final size:74
Alignment explanation
Indices: 95549--95873 Score: 476
Period size: 76 Copynumber: 4.3 Consensus size: 74
95539 CATGAAAATG
* * *
95549 TTTTAAAAATATTTTCAAAAATTATATATTATATATATTTTCAAAATGTTTCCAAAAACTATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATA
95614 TTATATATA
66 TTATATATA
*
95623 TTTTTTCAAAATATTTTCAAAAACTATATATTATATATATATTTTTAAAATGTTTTCAAAAACTA
1 --TTTTCAAAATATTTTCAAAAACTATATA-T-TATATATATTTTCAAAATGTTTTCAAAAACTA
95688 TATATTATATATA
62 TATATTATATATA
*
95701 TTTTCAAAACATTTTCAAAAACTATATATTATATATATATTT-AAAATGTTTTCAAAAACTATAT
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATAT-TTTCAAAATGTTTTCAAAAACTATAT
95765 ATTATATATA
65 ATTATATATA
* * *
95775 --TTCAAAACATTTTCAAAAACTATATGTTATATATATTTTCAAAATATTTTCAAAAACTATATA
1 TTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATA
95838 TTATATATA
66 TTATATATA
* *
95847 TGTTTTTAAAATGTTTTCAAAAACTAT
1 --TTTTCAAAATATTTTCAAAAACTAT
95874 TTTTAAACGT
Statistics
Matches: 231, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
71 3 0.01
72 66 0.29
74 41 0.18
75 4 0.02
76 73 0.32
77 1 0.00
78 43 0.19
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (74 bp):
TTTTCAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATA
TTATATATA
Found at i:96690 original size:20 final size:20
Alignment explanation
Indices: 96667--96712 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
96657 ATTCCTAAAG
96667 AAAATTAGTGAATAT-TTTTA
1 AAAATT-GTGAATATATTTTA
* *
96687 AAAATTTTGAATATATTTTT
1 AAAATTGTGAATATATTTTA
96707 AAAATT
1 AAAATT
96713 TAAAATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
AAAATTGTGAATATATTTTA
Found at i:96697 original size:19 final size:20
Alignment explanation
Indices: 96675--96713 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
96665 AGAAAATTAG
96675 TGAATAT-TTTTAAAAATTT
1 TGAATATATTTTAAAAATTT
*
96694 TGAATATATTTTTAAAATTT
1 TGAATATATTTTAAAAATTT
96714 AAAATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TGAATATATTTTAAAAATTT
Found at i:103811 original size:4 final size:4
Alignment explanation
Indices: 103802--103986 Score: 199
Period size: 4 Copynumber: 46.2 Consensus size: 4
103792 TAAAAACATA
* * * *
103802 ATAT ATAT ATAT ACAT ATAT ACAT ATAT ACAT ATAT ACAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * *
103850 GTAT GTAT ATAT ATAT ATGT ATGT ATAT ATAT ATAT ATAT ATAC ATAC
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * *
103898 ATAT ATAT ATAT ATAC ATAC ATAA ATGT ATAT ACAT ACAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
103946 ATAT ACAT ACAT ATAT ATAT ATAT ACAT ATAT ATAT ATAT A
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT A
103987 GATAATGATA
Statistics
Matches: 156, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 156 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:104121 original size:24 final size:24
Alignment explanation
Indices: 104065--104137 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
104055 ACATACATAC
* * * *
104065 ATATATATATATATATACATACAT
1 ATATATATGTATGTATATATATAT
*
104089 ATGTATATGTATGTATATATATAT
1 ATATATATGTATGTATATATATAT
*
104113 ATATATATGTATGTATGTATATAT
1 ATATATATGTATGTATATATATAT
104137 A
1 A
104138 CACACACATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
ATATATATGTATGTATATATATAT
Found at i:104137 original size:4 final size:4
Alignment explanation
Indices: 104050--104137 Score: 77
Period size: 4 Copynumber: 22.0 Consensus size: 4
104040 AATGTGTGTG
* * * * * * *
104050 TATA TACA TACA TACA TATA TATA TATA TATA CATA CATA TGTA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
104098 TATG TATA TATA TATA TATA TATG TATG TATG TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
104138 CACACACATT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 74 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (4 bp):
TATA
Found at i:104856 original size:118 final size:117
Alignment explanation
Indices: 104646--104903 Score: 374
Period size: 118 Copynumber: 2.2 Consensus size: 117
104636 AAAAAATATA
* * * *
104646 GACGATAACATAACCGATTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTAGCGAT
1 GACGATAACATAATCGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTAACGAT
* * *
104711 TATATAACGTAATAGGTAGCTCATTTTTAAAGCTGACGGGGCTTTGGAAATCT
66 TATATAACGTAATAGATAGCGCATTTTT-AAGCTGACGGGGCTTTGGAAATCC
* *
104764 GACGATAACATAATCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGGTAACGCT
1 GACGATAACATAATCGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTAACGAT
* * *
104829 TATATAACGTAATAGATAGCGCCTTTTTAAGCTGATGGGGCTTTGTAAATCC
66 TATATAACGTAATAGATAGCGCATTTTTAAGCTGACGGGGCTTTGGAAATCC
**
104881 GACGATAACA-AATAAGTTAATTA
1 GACGATAACATAATCGGTTAATTA
104904 TTTAATTTGT
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
116 11 0.09
117 31 0.25
118 84 0.67
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (117 bp):
GACGATAACATAATCGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTAACGAT
TATATAACGTAATAGATAGCGCATTTTTAAGCTGACGGGGCTTTGGAAATCC
Found at i:105388 original size:2 final size:2
Alignment explanation
Indices: 105383--105442 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
105373 TATATATATA
* *
105383 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG AG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
105425 TG -G TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG T
105443 CGATACATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.03, C:0.00, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:105733 original size:2 final size:2
Alignment explanation
Indices: 105686--105725 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
105676 TAAGTATGGA
105686 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
105726 CGATATATTT
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107918 original size:21 final size:21
Alignment explanation
Indices: 107879--107918 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
107869 AGTTTTAAGA
*
107879 ATCGATACTTTTCATACGTGT
1 ATCGATACTTTTCAGACGTGT
107900 ATCGATACTTTAT-AGACGT
1 ATCGATACTTT-TCAGACGT
107919 AATTATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
ATCGATACTTTTCAGACGTGT
Found at i:108403 original size:428 final size:425
Alignment explanation
Indices: 107573--108817 Score: 1737
Period size: 447 Copynumber: 2.9 Consensus size: 425
107563 TTTATGTATG
* * * *
107573 GTATCGATACTTTCGAGACATTTCATTTTTTTCAAAATCGGTAGTTATTTACCGTTTTTTTCATA
1 GTATCGATACTTTTGAGACGTTTCATTTTTTTCAAAATCGGTAGTTATTTACCGGTTTTGTCATA
* * *
107638 TTGAAACCGATTTTATCAAATTTTATCATGTTATATTGTTATGTATCGATACATGTGTCATAGGT
66 TTGAAACCG-TTTTATCAATTTTTAACATGTTATATTGTCATGTATCGATACATGTGTCATAGGT
* *
107703 ATCGATACTTCCTACGTGCATCTAGTTTGGGAAGCATAC-TGGACAAAAGTATTGATACATATAC
130 ATCGATACTTCCTACGTGCATTTAGTTTGGGAAGCAT-CTTGGACAAAAGTATCGATACATATAC
* *
107767 CAACAA-TATTGATACTTTATGTAAGCATATTTTGTCATTAAACCAGTATA--TTTACAACTTAC
194 CAA-AAGTATCGATACTTTATGTAAACATATTTTGTCATTAAA-CAGTATATTTTTACAACTTAC
107829 ATTGTATATTTACCTATTACTTTAAAGTAATCGGTTTCGAAGTTTTAAGAATCGATACTTTTCAT
257 ATTGTATATTTACCTATTACTTTAAAGTAATCGGTTTCGAAGTTTTAAGAATCGATACTTTTCAT
* **
107894 ACGTGTATCGATACTTTATAGACGTAATTATGGAAATCGGTTTTGTCAAAAAGATGAACCTGTTA
322 ACGTGTATCGATACTTTATAGGCACAATTATGGAAATCGGTTTTGTCAAAAAGATGAACCTGTTA
* * *
107959 TGTTATTTAAATTTAATCGATACCATTACCCTTACATAA
387 TGTTATTTAAATTTAATCAATAACATTACCCTTACAGAA
*
107998 GTATCGATACTTTTGAGACGTTTCATTTTTTTCAAAATCGGTAGCTATTTACCGGTTTTGTCATA
1 GTATCGATACTTTTGAGACGTTTCATTTTTTTCAAAATCGGTAGTTATTTACCGGTTTTGTCATA
*
108063 TTGAAACCGGTTTTTATCAATTTTTAACCTGTTATATTGTCATGTATCGATACATGTGTCATAGG
66 TTGAAACC-G-TTTTATCAATTTTTAACATGTTATATTGTCATGTATCGATACATGTGTCATAGG
*
108128 TATCGATACTTCCTACGTGCATTTAGTTTGGTAAGCATCTTGGACAAAAGTATCGATACATATAC
129 TATCGATACTTCCTACGTGCATTTAGTTTGGGAAGCATCTTGGACAAAAGTATCGATACATATAC
* * * *
108193 CAATAGTATCGACACTTTATGTAAACATATTTTGTTATTAAACATGTATATTTTTACAGCTTACA
194 CAAAAGTATCGATACTTTATGTAAACATATTTTGTCATTAAACA-GTATATTTTTACAACTTACA
*
108258 TTGTATATTTACCTATTACTTTAAAGTAATCGGTTTCGAACTTTTAAGAATCGATACTTTTCATA
258 TTGTATATTTACCTATTACTTTAAAGTAATCGGTTTCGAAGTTTTAAGAATCGATACTTTTCATA
** * * *
108323 CAAGTATCGATACTTTATAGGCACAATTATGGAAACCGATTTTGTCAAAAGGATGAACCTGTTAT
323 CGTGTATCGATACTTTATAGGCACAATTATGGAAATCGGTTTTGTCAAAAAGATGAACCTGTTAT
* *
108388 GTTATTTATATTTAATTAATAACATTACCCTTACAGAA
388 GTTATTTAAATTTAATCAATAACATTACCCTTACAGAA
* *
108426 GTATCGATACTTTTATGTATGGTATCGATACTTTCGAGATATTTCATTTTTCAAAACCGATAGTT
1 GTATCGATAC-TTT-TG-A--G-A-CG----TTTC-----A-TT--TTTTTCAAAATCGGTAGTT
* *
108491 ATTTACCGGTTTTGTCATATTGAAACCAGTTTTATCAATTTTTAACTTGTTATATTATCATGTAT
47 ATTTACCGGTTTTGTCATATTGAAACC-GTTTTATCAATTTTTAACATGTTATATTGTCATGTAT
* *
108556 CGATACATGTGTCATAGGTATCGATACTTCCTACGTGTATCTT-GTTTGGGAAGCATATTGGACA
111 CGATACATGTGTCATAGGTATCGATACTTCCTACGTGCAT-TTAGTTTGGGAAGCATCTTGGACA
* * * *
108620 AAACGTATCGATACATATACCAAAAGTATCAATACTTTATGCAAACATAATTTGTCATTAAACCG
175 AAA-GTATCGATACATATACCAAAAGTATCGATACTTTATGTAAACATATTTTGTCATTAAACAG
* * * *
108685 ATATATTTTTA-AATCTTACATTGTAAATTTAACTATTACTTTAAAGTAATCCGTTTTGAAGTTT
239 -TATATTTTTACAA-CTTACATTGTATATTTACCTATTACTTTAAAGTAATCGGTTTCGAAGTTT
* *
108749 TAAGCATCAATACTTTTCATACGTGTATCGATACTTTATAGGCACAATTATGGAAATCGGTTTTG
302 TAAGAATCGATACTTTTCATACGTGTATCGATACTTTATAGGCACAATTATGGAAATCGGTTTTG
108814 TCAA
367 TCAA
108818 TTTTTTACCT
Statistics
Matches: 730, Mismatches: 61, Indels: 36
0.88 0.07 0.04
Matches are distributed among these distances:
425 72 0.10
426 151 0.21
428 176 0.24
429 3 0.00
430 2 0.00
431 1 0.00
433 1 0.00
434 1 0.00
435 2 0.00
439 4 0.01
444 1 0.00
445 2 0.00
446 97 0.13
447 217 0.30
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (425 bp):
GTATCGATACTTTTGAGACGTTTCATTTTTTTCAAAATCGGTAGTTATTTACCGGTTTTGTCATA
TTGAAACCGTTTTATCAATTTTTAACATGTTATATTGTCATGTATCGATACATGTGTCATAGGTA
TCGATACTTCCTACGTGCATTTAGTTTGGGAAGCATCTTGGACAAAAGTATCGATACATATACCA
AAAGTATCGATACTTTATGTAAACATATTTTGTCATTAAACAGTATATTTTTACAACTTACATTG
TATATTTACCTATTACTTTAAAGTAATCGGTTTCGAAGTTTTAAGAATCGATACTTTTCATACGT
GTATCGATACTTTATAGGCACAATTATGGAAATCGGTTTTGTCAAAAAGATGAACCTGTTATGTT
ATTTAAATTTAATCAATAACATTACCCTTACAGAA
Found at i:110382 original size:23 final size:22
Alignment explanation
Indices: 110351--110395 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
110341 TGGAACCAAA
110351 ATTTAAATTTAAATTCAAACTC
1 ATTTAAATTTAAATTCAAACTC
*
110373 ATTTGAAATTTAAATTGAAACTC
1 ATTT-AAATTTAAATTCAAACTC
110396 CAATTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTTAAATTTAAATTCAAACTC
Found at i:112552 original size:2 final size:2
Alignment explanation
Indices: 112545--112582 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
112535 AATATAATCC
112545 AT AT AT AT AT AT 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 AT AT AT AT AT AT
112583 CATTCTTCAT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113681 original size:195 final size:194
Alignment explanation
Indices: 113297--113797 Score: 731
Period size: 195 Copynumber: 2.6 Consensus size: 194
113287 ATATGTGGTT
* *
113297 TTCATACTGGAAAAAAAAGCATCGATACTATTTAAAAAGTATTGATAC-TTATGTTTACATATTC
1 TTCATACTGG-AAAAAAA-TATCGATACTATTTAAAAAGTATCGATACTTTATG-TTACATATTC
*
113361 TCTCATTAAATCAGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCG
63 TCTCATTAAA-CAGTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCG
*
113426 GCTTTGATGTTTTAAGGATCGATACTTCATACATATATCGATACTTTATGCGTGCATCTCGTTTG
127 GCTTCGATGTTTTAAGGATCGATACTTCATACATATATCGATACTTTATGCGTGCATCTCGTTTG
113491 GGA
192 GGA
* * * *
113494 TTCATACTGGAAAAAAATATCGATATTATTTATAAAAAATATCGATACTTTATGTTACCTATTTT
1 TTCATACTGGAAAAAAATATCGATACTA-TT-TAAAAAGTATCGATACTTTATGTTACATATTCT
*
113559 CTCATTAACCAGTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGG-
64 CTCATTAAACAGTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGC
* * *
113623 TTCGATGTTTTAAGGATTGATATTTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGG
129 TTCGATGTTTTAAGGATCGATACTTCATACATATATCGATACTTTATGCGTGCATCTCGTTTGGG
113688 A
194 A
* * * * * **
113689 TTCATACTGGACAAAAGTATCGATACTAATTAAAAAGTACCAATACTTTATGTTATTTA-TCTCT
1 TTCATACTGGAAAAAAATATCGATACTATTTAAAAAGTATCGATACTTTATGTTACATATTCTCT
* *
113753 CATTAAACGGTATATTTTTATCGGTTACATT-TTAATTTACCTATT
66 CATTAAACAGTATATTTTTATCGGTTACATTGTAAATTTACCTATT
113798 TATAATTATA
Statistics
Matches: 276, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
191 13 0.05
192 33 0.12
193 24 0.09
194 1 0.00
195 96 0.35
196 63 0.23
197 41 0.15
198 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (194 bp):
TTCATACTGGAAAAAAATATCGATACTATTTAAAAAGTATCGATACTTTATGTTACATATTCTCT
CATTAAACAGTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGCTT
CGATGTTTTAAGGATCGATACTTCATACATATATCGATACTTTATGCGTGCATCTCGTTTGGGA
Done.