Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 106 of 352
Found at i:33774732 original size:32 final size:32
Alignment explanation
Indices: 33774696--33774760 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
33774686 TTGATCTGCG
*
33774696 AATCTATATGGACTAGTTGGACTGAGCTAAAA
1 AATCTATATGGACTAGTTGAACTGAGCTAAAA
33774728 AATCTATATGGACTAGTTGAACTGAGCTAAAA
1 AATCTATATGGACTAGTTGAACTGAGCTAAAA
33774760 A
1 A
33774761 TTTAGTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (32 bp):
AATCTATATGGACTAGTTGAACTGAGCTAAAA
Found at i:33774864 original size:23 final size:23
Alignment explanation
Indices: 33774833--33774883 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
33774823 AGTTCAAAGC
33774833 AAAAA-AAAAATATTATAAAATA-
1 AAAAATAAAAATA-TATAAAATAT
*
33774855 AAAAATAAAAATATATAAATTAT
1 AAAAATAAAAATATATAAAATAT
33774878 AAAAAT
1 AAAAAT
33774884 CAGTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAATAAAAATATATAAAATAT
Found at i:33778837 original size:39 final size:40
Alignment explanation
Indices: 33778792--33779000 Score: 116
Period size: 41 Copynumber: 5.2 Consensus size: 40
33778782 CGGGGTTTAG
* * *
33778792 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
33778831 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
33778871 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* * ** * * * *
33778911 CTGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
33778952 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
33778993 CCGGATAT
1 CCGGATAT
33779001 CATTCGAGTA
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
39 18 0.12
40 60 0.41
41 67 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:33778942 original size:41 final size:41
Alignment explanation
Indices: 33778815--33779000 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
33778805 CTCGCACAAG
* * * * * *
33778815 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
33778855 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
33778895 GCCTTC-GGATCTTAGTCTGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
33778936 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
33778977 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
33779001 CATTCGAGTA
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 58 0.44
41 67 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:33782390 original size:8 final size:8
Alignment explanation
Indices: 33782379--33782418 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
33782369 TTTAAGAAAT
33782379 TAATATAA
1 TAATATAA
33782387 TAATATAA
1 TAATATAA
33782395 TAATATAA
1 TAATATAA
33782403 T--T-TAA
1 TAATATAA
33782408 TAATATAA
1 TAATATAA
33782416 TAA
1 TAA
33782419 AACATAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.14
6 1 0.03
7 1 0.03
8 23 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:33782402 original size:13 final size:13
Alignment explanation
Indices: 33782386--33782417 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33782376 AATTAATATA
33782386 ATAATATAATAAT
1 ATAATATAATAAT
*
33782399 ATAATTTAATAAT
1 ATAATATAATAAT
33782412 ATAATA
1 ATAATA
33782418 AAACATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:33783361 original size:44 final size:44
Alignment explanation
Indices: 33783303--33783387 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
33783293 CAGGGATACA
33783303 TCGACCTTGAGTCGATGAGGCACTAAT-AGTGTCATACTGTTACT
1 TCGACCTTGAGTCGATGAGGCACT-ATGAGTGTCATACTGTTACT
* * * *
33783347 TCGACTTTGTGTCGATGAGGCACTTTGTGTGTCATACTGTT
1 TCGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGTT
33783388 TCTGTTACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (44 bp):
TCGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGTTACT
Found at i:33786480 original size:33 final size:33
Alignment explanation
Indices: 33786438--33786508 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
33786428 AGTCCATTAG
* * *
33786438 TGATTCAAGATAGAATTTTTCTTGTTGATTTAT
1 TGATTCAAGATAAAAATTTTCCTGTTGATTTAT
33786471 TGATTCAAGATAAAAATTTTCCTGTTGATTTAT
1 TGATTCAAGATAAAAATTTTCCTGTTGATTTAT
33786504 TGATT
1 TGATT
33786509 ATGCCGTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (33 bp):
TGATTCAAGATAAAAATTTTCCTGTTGATTTAT
Found at i:33789991 original size:8 final size:8
Alignment explanation
Indices: 33789980--33790031 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
33789970 TTTAAGAAAT
33789980 TAATATAA
1 TAATATAA
33789988 TAATAT-A
1 TAATATAA
*
33789995 TTA-AT-A
1 TAATATAA
33790001 TAATATAA
1 TAATATAA
33790009 TAATATAA
1 TAATATAA
33790017 TAATATAA
1 TAATATAA
33790025 TAATATA
1 TAATATA
33790032 CTAAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 5 0.12
7 5 0.12
8 30 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:33790006 original size:21 final size:21
Alignment explanation
Indices: 33789980--33790026 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
33789970 TTTAAGAAAT
*
33789980 TAATATAATAATATATTAATA
1 TAATATAATAATATAATAATA
33790001 TAATATAATAATATAATAATA
1 TAATATAATAATATAATAATA
33790022 TAATA
1 TAATA
33790027 ATATACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATATAATAATATAATAATA
Found at i:33790026 original size:13 final size:13
Alignment explanation
Indices: 33789987--33790018 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33789977 AATTAATATA
*
33789987 ATAATATATTAAT
1 ATAATATAATAAT
33790000 ATAATATAATAAT
1 ATAATATAATAAT
33790013 ATAATA
1 ATAATA
33790019 ATATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:33793383 original size:26 final size:26
Alignment explanation
Indices: 33793354--33793461 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
33793344 TGATACAAAT
*
33793354 TGATAATGGGTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33793380 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33793406 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33793432 TGATAATGGTTTCGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33793458 TGAT
1 TGAT
33793462 GAGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33800479 original size:23 final size:24
Alignment explanation
Indices: 33800435--33800489 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
33800425 AGAACGTATC
* * *
33800435 TAGATCGATTTTTTGTTGTATTC-A
1 TAGAT-GATATTTTGATATATTCGA
33800459 TAGATGATATTTTGATATATTCGA
1 TAGATGATATTTTGATATATTCGA
*
33800483 AAGATGA
1 TAGATGA
33800490 AATTGAGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.45
Consensus pattern (24 bp):
TAGATGATATTTTGATATATTCGA
Found at i:33803889 original size:28 final size:28
Alignment explanation
Indices: 33803857--33803915 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
33803847 TTTGAGTGTT
33803857 TATTGTATGAAAATTAATGAAACATTGA
1 TATTGTATGAAAATTAATGAAACATTGA
33803885 TATTGTATGAAAATTAATGAAACATTGA
1 TATTGTATGAAAATTAATGAAACATTGA
33803913 TAT
1 TAT
33803916 ATTTGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (28 bp):
TATTGTATGAAAATTAATGAAACATTGA
Found at i:33810577 original size:23 final size:24
Alignment explanation
Indices: 33810530--33810640 Score: 95
Period size: 23 Copynumber: 4.7 Consensus size: 24
33810520 ATCAGGTAGT
*
33810530 TCACAAAGAACCATATCGGGAAGC
1 TCACAAAGAGCCATATCGGGAAGC
*
33810554 TCACAAAGAGCC-TATTGGGAAGC
1 TCACAAAGAGCCATATCGGGAAGC
* * * *
33810577 TC-CGAATAGCCATATATTGGGAAGT
1 TCACAAAGAGCC--ATATCGGGAAGC
**
33810602 TCA-AGCGAG-CACTATCGGGAAGC
1 TCACAAAGAGCCA-TATCGGGAAGC
33810625 TCACAAAGAGCCATAT
1 TCACAAAGAGCCATAT
33810641 ATCGGGATGC
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
22 8 0.12
23 24 0.36
24 19 0.28
25 16 0.24
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (24 bp):
TCACAAAGAGCCATATCGGGAAGC
Found at i:33810599 original size:48 final size:49
Alignment explanation
Indices: 33810530--33810647 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 49
33810520 ATCAGGTAGT
* *
33810530 TCACAAAGAACC--ATATCGGGAAGCTCACAAAGAGC-CTATTGGGAAGC
1 TCACAAAGAGCCATATATCGGGAAGCTCA-AAAGAGCACTATCGGGAAGC
* * * * **
33810577 TC-CGAATAGCCATATATTGGGAAGTTCAAGCGAGCACTATCGGGAAGC
1 TCACAAAGAGCCATATATCGGGAAGCTCAAAAGAGCACTATCGGGAAGC
33810625 TCACAAAGAGCCATATATCGGGA
1 TCACAAAGAGCCATATATCGGGA
33810648 TGCTTTTAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
46 6 0.11
47 7 0.12
48 26 0.46
49 17 0.30
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (49 bp):
TCACAAAGAGCCATATATCGGGAAGCTCAAAAGAGCACTATCGGGAAGC
Found at i:33812708 original size:26 final size:26
Alignment explanation
Indices: 33812679--33812760 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
33812669 TGGTACAAAT
*
33812679 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
33812705 TGATAATTGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
33812731 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
33812757 TGAT
1 TGAT
33812761 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:33814269 original size:26 final size:26
Alignment explanation
Indices: 33814203--33814278 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
33814193 AAAAGCAGCT
* * *
33814203 AAATTACCATAATACCCCTATGTATGGA
1 AAATTACCATTATACCCCTA-G-GTGCA
*
33814231 AAATTACTATTATACCCCTAGGTGCA
1 AAATTACCATTATACCCCTAGGTGCA
*
33814257 AAATTACCGTTATACCCCTAGG
1 AAATTACCATTATACCCCTAGG
33814279 GTTAATTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (26 bp):
AAATTACCATTATACCCCTAGGTGCA
Found at i:33814463 original size:54 final size:53
Alignment explanation
Indices: 33814381--33814521 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
33814371 AGGAAGCGTC
33814381 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
33814435 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
33814489 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
33814522 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:33814532 original size:27 final size:27
Alignment explanation
Indices: 33814381--33814539 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
33814371 AGGAAGCGTC
*
33814381 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
33814408 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
33814435 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
33814462 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
33814489 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
33814516 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
33814540 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:33815807 original size:3 final size:3
Alignment explanation
Indices: 33815793--33815841 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
33815783 TTTTATACTA
*
33815793 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33815836 AA- AAT A
1 AAT AAT A
33815842 TTTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:33815815 original size:11 final size:11
Alignment explanation
Indices: 33815799--33815837 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
33815789 ACTAAATAAT
33815799 TAATAATAAAA
1 TAATAATAAAA
*
33815810 TAATAATGAAA
1 TAATAATAAAA
33815821 TAATAATAAAA
1 TAATAATAAAA
33815832 TAATAA
1 TAATAA
33815838 AATATTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:33815824 original size:19 final size:19
Alignment explanation
Indices: 33815800--33815841 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33815790 CTAAATAATT
*
33815800 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
33815819 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
33815838 AATA
1 AATA
33815842 TTTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:33817115 original size:6 final size:6
Alignment explanation
Indices: 33817104--33817200 Score: 53
Period size: 6 Copynumber: 16.5 Consensus size: 6
33817094 CAAAACAAAT
* * * *
33817104 AAAAGA AAAAG- AATAGA AAAAGAA ACAAAGTTA AAATGA AACAG- AGAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG-A A-AAAG--A AAAAGA AAAAGA AAAAGA
* * *
33817154 AAAAG- -AAAGG AAAAGA AAAAG- -AAAGG AAAAGA AAAAGA GAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
33817198 AAA
1 AAA
33817201 GGAGAAAAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
4 8 0.12
5 7 0.10
6 43 0.62
7 2 0.03
8 7 0.10
9 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:33817166 original size:22 final size:22
Alignment explanation
Indices: 33817106--33817209 Score: 58
Period size: 22 Copynumber: 4.7 Consensus size: 22
33817096 AAACAAATAA
*
33817106 AAGAAAAA-GAATAGAAAA-AG
1 AAGAAAAAGGAAAAGAAAAGAG
* *
33817126 AA-ACAAAGTTAAAATGAAACAGAG
1 AAGAAAAAG-GAAAA-GAAA-AGAG
*
33817150 AAGAAAAA-GAAAGGAAAAGA-
1 AAGAAAAAGGAAAAGAAAAGAG
33817170 AA-AAGAAAGGAAAAGAAAAAGAG
1 AAGAA-AAAGGAAAAG-AAAAGAG
*
33817193 AAAGAAAAGGAGAAAAG
1 -AAGAAAAAG-GAAAAG
33817210 TTAGGGATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
19 6 0.10
20 7 0.11
21 11 0.17
22 14 0.22
23 4 0.06
24 9 0.14
25 12 0.19
ACGTcount: A:0.71, C:0.02, G:0.23, T:0.04
Consensus pattern (22 bp):
AAGAAAAAGGAAAAGAAAAGAG
Found at i:33817171 original size:5 final size:5
Alignment explanation
Indices: 33817154--33817201 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
33817144 ACAGAGAAGA
* *
33817154 AAAAG AAAGG AAAAG AAAAAG AAAGG AAAAG AAAAAG AGAAAG AAAAG
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG -AAAAG A-AAAG AAAAG
33817202 GAGAAAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 21 0.58
6 15 0.42
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:33817171 original size:16 final size:16
Alignment explanation
Indices: 33817150--33817201 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
33817140 TGAAACAGAG
33817150 AAGAAAAAGAAAGGAA
1 AAGAAAAAGAAAGGAA
33817166 AAGAAAAAGAAAGGAA
1 AAGAAAAAGAAAGGAA
*
33817182 AAGAAAAAGAGAAAGAA
1 AAGAAAAAGA-AAGGAA
33817199 AAG
1 AAG
33817202 GAGAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 26 0.76
17 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAGGAA
Found at i:33817200 original size:11 final size:11
Alignment explanation
Indices: 33817141--33817207 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
33817131 AAGTTAAAAT
33817141 GAAACAGAG-AA
1 GAAA-AGAGAAA
33817152 GAAAA-AGAAA
1 GAAAAGAGAAA
*
33817162 GGAAAAGAAAAA
1 -GAAAAGAGAAA
*
33817174 GAAAGGA-AAA
1 GAAAAGAGAAA
33817184 GAAAAAGAGAAA
1 G-AAAAGAGAAA
33817196 GAAAAGGAGAAA
1 GAAAA-GAGAAA
33817208 AGTTAGGGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
9 2 0.04
10 7 0.15
11 24 0.51
12 14 0.30
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (11 bp):
GAAAAGAGAAA
Found at i:33817205 original size:12 final size:12
Alignment explanation
Indices: 33817157--33817207 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
33817147 GAGAAGAAAA
33817157 AGAAAGGAAAA-G
1 AGAAA-GAAAAGG
*
33817169 AAAAAG-AAAGG
1 AGAAAGAAAAGG
*
33817180 A-AAAGAAAAAG
1 AGAAAGAAAAGG
33817191 AGAAAGAAAAGG
1 AGAAAGAAAAGG
33817203 AGAAA
1 AGAAA
33817208 AGTTAGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 7 0.21
11 8 0.24
12 18 0.55
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAGG
Found at i:33817750 original size:29 final size:29
Alignment explanation
Indices: 33817718--33817774 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
33817708 AAAGATAGAG
33817718 TCGACGAGGAATAACTTGAAAGTTTCTAC
1 TCGACGAGGAATAACTTGAAAGTTTCTAC
33817747 TCGACGAGGAATAACTTGAAAGTTTCTA
1 TCGACGAGGAATAACTTGAAAGTTTCTA
33817775 GTTTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (29 bp):
TCGACGAGGAATAACTTGAAAGTTTCTAC
Found at i:33818132 original size:41 final size:39
Alignment explanation
Indices: 33818068--33818206 Score: 113
Period size: 39 Copynumber: 3.6 Consensus size: 39
33818058 CAACCTAGAG
* *
33818068 TCGATGAGACACTCGGTGTCAATTTATTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGCCAA-TTATTACTTCGGATT-AT
* * *
33818109 TCGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAG
1 TCGATGAGACACTGGGTGCCAATTATTACTTCGGATTAT
* * * * *
33818146 CCGATGAGACAAT-GGTGTCAACTTATTACTTTGAATTAT
1 TCGATGAGACACTGGGTGCCAA-TTATTACTTCGGATTAT
* * *
33818185 TCGATAAGGCCCTGGGTGCCAA
1 TCGATGAGACACTGGGTGCCAA
33818207 ACTAGTGTGT
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
36 7 0.09
37 11 0.15
38 12 0.16
39 19 0.25
40 7 0.09
41 19 0.25
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGCCAATTATTACTTCGGATTAT
Found at i:33825461 original size:26 final size:26
Alignment explanation
Indices: 33825432--33825539 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
33825422 TGATACAAAT
33825432 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33825458 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33825484 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33825510 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33825536 TGAT
1 TGAT
33825540 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33828222 original size:13 final size:13
Alignment explanation
Indices: 33828200--33828232 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33828190 AATGGTTTGT
33828200 TTAT-TAAACTAA
1 TTATCTAAACTAA
33828212 TTATCTAAACTAA
1 TTATCTAAACTAA
*
33828225 TTAACTAA
1 TTATCTAA
33828233 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:33831145 original size:3 final size:3
Alignment explanation
Indices: 33831137--33831180 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
33831127 TGTCTTTCAA
* *
33831137 AAT AAT AAT AAT AAT AAT AA- AAT AAT AAAT AAA AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA
33831181 AGATAGGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:33838299 original size:27 final size:27
Alignment explanation
Indices: 33838280--33838436 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
33838270 ATTACCAAAG
* *
33838280 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
33838307 TACCCTCGATTTACAGAAATACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
33838334 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
33838361 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
33838388 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
33838415 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
33838437 TAAAATACCC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:33838339 original size:54 final size:54
Alignment explanation
Indices: 33838280--33838438 Score: 239
Period size: 54 Copynumber: 2.9 Consensus size: 54
33838270 ATTACCAAAG
33838280 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAAATACTATTT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAAATACTATTT
* * * * * * *
33838334 TACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAAATACTATTT
33838388 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACA-AAATTACTA
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAAA-TACTA
33838439 AAATACCCTT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.02
54 88 0.98
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAAATACTATTT
Found at i:33838373 original size:81 final size:81
Alignment explanation
Indices: 33838256--33838447 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
33838246 ACTAAAATGT
* *
33838256 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTA-TCGTTTTACCCTCGATTTA
1 CCTCAATTTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACT-GTTTTACCCTCGATTTA
33838320 CAGAAATA-CTATTTTAC
65 CAGAAATATC-ATTTTAC
* ***
33838337 CCTCAATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 CCTCAATTTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTAC
* *
33838402 AGAATTATCGTTTTAC
66 AGAAATATCATTTTAC
* * * *
33838418 CCTCGATTTACAAAATTACTAAAATACCCT
1 CCTCAATTTATAAAATTACCAAAGTACCCT
33838448 TGGTTTGTGA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 92 0.98
82 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (81 bp):
CCTCAATTTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTAC
AGAAATATCATTTTAC
Found at i:33838445 original size:27 final size:27
Alignment explanation
Indices: 33838235--33838638 Score: 99
Period size: 27 Copynumber: 14.9 Consensus size: 27
33838225 AATACTTTAG
* ** *
33838235 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGA
** * *
33838262 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* **
33838289 TTTACAGAATTATCGT--TTTACCCTCGA
1 TTTACAAAATTA-C-TAAAATACCCTCGA
*** *
33838316 TTTACAGAAA-TACTATTTTACCCTCAA
1 TTTACA-AAATTACTAAAATACCCTCGA
* * * *** *
33838343 TTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGA
* ****
33838370 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* **
33838397 TTTACAGAATTATCGT--TTTACCCTCGA
1 TTTACAAAATTA-C-TAAAATACCCTCGA
* *
33838424 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAAATACCCTCGA
*** ** *
33838451 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGA
** * *
33838478 TTTGTAAAATTACCAAAATACCACT-GG
1 TTTACAAAATTACTAAAATACC-CTCGA
*** ** * **
33838505 TTTGTGAAATTACCGAAGTACCCTTAA
1 TTTACAAAATTACTAAAATACCCTCGA
** *
33838532 TTTGTAAAATTACCAAAATACACCT-GA
1 TTTACAAAATTACTAAAATAC-CCTCGA
**
33838559 TTTACAAAATTAC-AGAAATACCCTTAA
1 TTTACAAAATTACTA-AAATACCCTCGA
* * *
33838586 CTTT-CTAAAAATTA-TAGAAATACCATTGG
1 -TTTAC--AAAATTACTA-AAATACCCTCGA
*
33838615 TTTACAAAATTACTGAAATACCCT
1 TTTACAAAATTACTAAAATACCCT
33838639 TGGTTTGTAG
Statistics
Matches: 299, Mismatches: 57, Indels: 42
0.75 0.14 0.11
Matches are distributed among these distances:
25 2 0.01
26 10 0.03
27 251 0.84
28 16 0.05
29 20 0.07
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:33838446 original size:54 final size:54
Alignment explanation
Indices: 33838267--33838447 Score: 220
Period size: 54 Copynumber: 3.4 Consensus size: 54
33838257 CTCAATTTGT
* *
33838267 AAAATTACCAAAGTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
** * * * * *
33838321 AGAAA-TACTATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTAC
1 A-AAATTACTAAATTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* ***
33838375 AGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
*
33838429 AAAATTACTAAAATACCCT
1 AAAATTACTAAATTACCCT
33838448 TGGTTTGTGA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.02
54 99 0.95
55 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (54 bp):
AAAATTACTAAATTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
Found at i:33838462 original size:54 final size:54
Alignment explanation
Indices: 33838415--33838552 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
33838405 ATTATCGTTT
* *
33838415 TACCCTCGATTTACAAAATTACTAAAATACC-CTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAA
** *
33838469 TACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAG
1 TACCCTCAATTTACAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
* **
33838523 TACCCTTAATTTGTAAAATTACCAAAATAC
1 TACCCTCAATTTACAAAATTACCAAAATAC
33838553 ACCTGATTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 76 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
Found at i:33838569 original size:54 final size:54
Alignment explanation
Indices: 33838429--33838659 Score: 225
Period size: 54 Copynumber: 4.2 Consensus size: 54
33838419 CTCGATTTAC
* *** *
33838429 AAAATTACTAAAATACC-CTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCAC-TGGTTTACAAAATTACCGAAATACCCTTAATTTGT
*** *
33838483 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAGTACCCTTAATTTGT
1 AAAATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTTAATTTGT
* * *
33838537 AAAATTACCAAAATA-CACCTGATTTACAAAATTACAGAAATACCCTTAACTTTCT
1 AAAATTACCAAAATACCA-CTGGTTTACAAAATTACCGAAATACCCTTAA-TTTGT
* * * **
33838592 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACCA-AAATACCACTGGTTTACAAAATTACCGAAATACCCTTAATTTGT
* *
33838647 AGATTTACCAAAA
1 AAAATTACCAAAA
33838660 CACCCTTGTA
Statistics
Matches: 150, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
53 2 0.01
54 97 0.65
55 11 0.07
56 38 0.25
57 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTTAATTTGT
Found at i:33838637 original size:110 final size:108
Alignment explanation
Indices: 33838457--33838659 Score: 246
Period size: 110 Copynumber: 1.9 Consensus size: 108
33838447 TTGGTTTGTG
* * ***
33838457 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAA
1 AAATTACAGAAATACCCTCAATTTCTAAAATTACCAAAATACCACTGGTTTACAAAATTACCGAA
*
33838522 GTACCCTTAATTTGTAAAATTACCAAAATACACCTGATTTACA
66 ATACCCTTAATTTGTAAAATTACCAAAATACACCTGATTTACA
* * * *
33838565 AAATTACAGAAATACCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACT
1 AAATTACAGAAATACCCTCAA-TTTCT-AAAATTACCA-AAATACCACTGGTTTACAAAATTACC
** * *
33838629 GAAATACCCTTGGTTTGTAGATTTACCAAAA
63 GAAATACCCTTAATTTGTAAAATTACCAAAA
33838660 CACCCTTGTA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
108 19 0.24
109 5 0.06
110 54 0.69
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (108 bp):
AAATTACAGAAATACCCTCAATTTCTAAAATTACCAAAATACCACTGGTTTACAAAATTACCGAA
ATACCCTTAATTTGTAAAATTACCAAAATACACCTGATTTACA
Found at i:33838641 original size:27 final size:27
Alignment explanation
Indices: 33838415--33838645 Score: 144
Period size: 27 Copynumber: 8.5 Consensus size: 27
33838405 ATTATCGTTT
* * **
33838415 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
* **
33838442 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
** * *
33838469 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
* ** *
33838496 TACCAC-TGGTTTGTGAAATTACCGAAG
1 TACC-CTTGATTTGCAAAATTACCGAAA
* * *
33838523 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
* *
33838550 TACACC-TGATTTACAAAATTACAGAAA
1 TAC-CCTTGATTTGCAAAATTACCGAAA
* **
33838577 TACCCTTAACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTGC--AAAATTACCGAAA
* * * *
33838606 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTGCAAAATTACCGAAA
*
33838633 TACCCTTGGTTTG
1 TACCCTTGATTTG
33838646 TAGATTTACC
Statistics
Matches: 159, Mismatches: 37, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.02
27 128 0.81
28 9 0.06
29 19 0.12
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTGCAAAATTACCGAAA
Found at i:33839648 original size:24 final size:25
Alignment explanation
Indices: 33839572--33839641 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
33839562 AGGAAGTGCT
* * *
33839572 AAAAA-GGCTATGCCCTAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTATC
* *
33839596 GAAAAGGGTTTTGCCCCAGTTTATC
1 AAAAAGGGCTTTGCCCCAGTTTATC
33839621 AAAAAGGGCTTTGCCCCAGTT
1 AAAAAGGGCTTTGCCCCAGTT
33839642 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 4 0.11
25 34 0.89
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATC
Found at i:33839654 original size:24 final size:24
Alignment explanation
Indices: 33839597--33839668 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
33839587 TAGTTTACCG
*
33839597 AAAAG-GGTTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
33839621 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
33839645 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
33839669 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:33839910 original size:31 final size:31
Alignment explanation
Indices: 33839862--33839943 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
33839852 GCTTACAGTG
33839862 AAGGCTTCGG-CCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAA
33839892 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAA
* *
33839923 ATGGCTTCGGCCCGGT-ATATG
1 AAGGCTTCGGCCCAGTGATATG
33839944 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 15 0.31
31 34 0.69
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAA
Found at i:33840042 original size:33 final size:33
Alignment explanation
Indices: 33839949--33840042 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 33
33839939 ATATGTCGAG
*
33839949 ACTGAATTAGGGCTTAGGCCCATATTGCTACTGTT
1 ACTGAA-TAGGGCTTAGGCCCAGATTG-TACTGTT
* * *
33839984 --T--A-AGGGCTAAGGCCCAGACTATACTGTT
1 ACTGAATAGGGCTTAGGCCCAGATTGTACTGTT
*
33840012 ACTGAATAGGGCTTTGGCCCAGATTGTACTG
1 ACTGAATAGGGCTTAGGCCCAGATTGTACTG
33840043 GCACTGTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
28 7 0.15
29 15 0.33
30 1 0.02
31 1 0.02
32 1 0.02
33 21 0.46
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (33 bp):
ACTGAATAGGGCTTAGGCCCAGATTGTACTGTT
Found at i:33844561 original size:46 final size:46
Alignment explanation
Indices: 33844508--33844600 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
33844498 ATTCTTTTAA
33844508 GATGTTTTCTTTCACAACTATGAACTAAACCCCCTAAATACCTAAG
1 GATGTTTTCTTTCACAACTATGAACTAAACCCCCTAAATACCTAAG
33844554 GATGTTTTCTTTCACAACTATGAACTAAACCCCCTAAATACCTAAG
1 GATGTTTTCTTTCACAACTATGAACTAAACCCCCTAAATACCTAAG
33844600 G
1 G
33844601 GGAATGAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (46 bp):
GATGTTTTCTTTCACAACTATGAACTAAACCCCCTAAATACCTAAG
Found at i:33846228 original size:25 final size:24
Alignment explanation
Indices: 33846162--33846240 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
33846152 CTATCCAGAG
*
33846162 CTTCCCAATATGGTTCTTTGTAAA
1 CTTCCCAATATGGTTCTTTGTGAA
*
33846186 CTTCCTAATATGGTTCTTTGTGAA
1 CTTCCCAATATGGTTCTTTGTGAA
* * *
33846210 CTTCCCGATTATGGCTCTTT-TGAG
1 CTTCCC-AATATGGTTCTTTGTGAA
33846234 CTTCCCA
1 CTTCCCA
33846241 TTATATAGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 1 0.02
24 36 0.75
25 11 0.23
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (24 bp):
CTTCCCAATATGGTTCTTTGTGAA
Found at i:33853097 original size:13 final size:13
Alignment explanation
Indices: 33853073--33853164 Score: 96
Period size: 13 Copynumber: 7.1 Consensus size: 13
33853063 AGTTTGGCAA
33853073 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* *
33853086 TGCTTTTAAAAAG
1 TACTTTTGAAAAG
* *
33853099 TGC-TGTGAAAAAG
1 TACTTTTG-AAAAG
*
33853112 TACTTTTGAGAAG
1 TACTTTTGAAAAG
*
33853125 TACTTTTGAGAAG
1 TACTTTTGAAAAG
*
33853138 TACTTTTGAGAAG
1 TACTTTTGAAAAG
*
33853151 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
33853164 T
1 T
33853165 TTAGTTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
12 2 0.03
13 63 0.93
14 3 0.04
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:33855699 original size:6 final size:6
Alignment explanation
Indices: 33855688--33855721 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
33855678 TTATTTTATT
*
33855688 TAAATA TAAATA TAAATA TAAATA TTAATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
33855722 ATTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:33857330 original size:23 final size:24
Alignment explanation
Indices: 33857304--33857349 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
33857294 AAACAATAGC
* *
33857304 GAAATAAAATTAAAAAC-CACAAT
1 GAAACAAAAGTAAAAACACACAAT
*
33857327 GAAACAATAGTAAAAACACACAA
1 GAAACAAAAGTAAAAACACACAA
33857350 AAAAAAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.65, C:0.15, G:0.07, T:0.13
Consensus pattern (24 bp):
GAAACAAAAGTAAAAACACACAAT
Found at i:33859076 original size:24 final size:25
Alignment explanation
Indices: 33859036--33859083 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
33859026 TTGATTTAAT
33859036 CTTTTAAAAATTATAAAAATATATG
1 CTTTTAAAAATTATAAAAATATATG
* *
33859061 CTTTT-AAAATTGTAAAATTATAT
1 CTTTTAAAAATTATAAAAATATAT
33859084 AATTTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
CTTTTAAAAATTATAAAAATATATG
Found at i:33859089 original size:24 final size:24
Alignment explanation
Indices: 33859037--33859113 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
33859027 TGATTTAATC
* **
33859037 TTTTAAAAATTATAAAAATATATGC
1 TTTT-AAAATTGTAAAAATATATAA
*
33859062 TTTTAAAATTGTAAAATTATATAA
1 TTTTAAAATTGTAAAAATATATAA
** *
33859086 TTTTTACTATCGTAAAAATATATAA
1 -TTTTAAAATTGTAAAAATATATAA
33859111 TTT
1 TTT
33859114 AATTCTAATC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
24 19 0.44
25 24 0.56
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTTAAAATTGTAAAAATATATAA
Found at i:33862994 original size:22 final size:21
Alignment explanation
Indices: 33862955--33862995 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33862945 TAGTTATGCA
*
33862955 AATGGTATTGAAGTGGGTTCG
1 AATGGTATTGAAGAGGGTTCG
*
33862976 AATGGTATTTGAGGAGGGTT
1 AATGGTA-TTGAAGAGGGTT
33862996 GTGTTTGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.02, G:0.39, T:0.34
Consensus pattern (21 bp):
AATGGTATTGAAGAGGGTTCG
Found at i:33867274 original size:19 final size:19
Alignment explanation
Indices: 33867234--33867276 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33867224 TTTTTGTAAG
* *
33867234 TTTTATAATTTTTCATTAA
1 TTTTATAACTTTTAATTAA
33867253 TTTTATATACTTTTAATT-A
1 TTTTATA-ACTTTTAATTAA
33867272 TTTTA
1 TTTTA
33867277 ATAAATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATAACTTTTAATTAA
Found at i:33874502 original size:12 final size:12
Alignment explanation
Indices: 33874467--33874502 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
33874457 ACTAGTCCTT
33874467 TAATTATCATGA
1 TAATTATCATGA
33874479 TAATT-TCATGA
1 TAATTATCATGA
*
33874490 TAATTATCTTGA
1 TAATTATCATGA
33874502 T
1 T
33874503 TGAGAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (12 bp):
TAATTATCATGA
Found at i:33876520 original size:14 final size:14
Alignment explanation
Indices: 33876488--33876529 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
33876478 TTTGATATAC
33876488 CATTTATCATTTC-A
1 CATTT-TCATTTCAA
33876502 CATTTTCATTTCAA
1 CATTTTCATTTCAA
* *
33876516 GATTTTTATTTCAA
1 CATTTTCATTTCAA
33876530 ATGTCCCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (14 bp):
CATTTTCATTTCAA
Found at i:33876625 original size:13 final size:13
Alignment explanation
Indices: 33876554--33876687 Score: 76
Period size: 13 Copynumber: 10.0 Consensus size: 13
33876544 TATCTATATC
*
33876554 CATATAAACATTT
1 CATATAATCATTT
* *
33876567 CGTATAAACATTT
1 CATATAATCATTT
33876580 CATATAA-CTATTT
1 CATATAATC-ATTT
* *
33876593 CTATATAGCTGA-TT
1 C-ATATA-ATCATTT
33876607 CATATAATCATTT
1 CATATAATCATTT
*
33876620 CGTAT-ATCTATTT
1 CATATAATC-ATTT
*
33876633 CCATATAATCAATT
1 -CATATAATCATTT
*
33876647 CATATAACCATTT
1 CATATAATCATTT
* * *
33876660 TATGTATTCATTTTT
1 CATATAATCA--TTT
*
33876675 CATATAACCATTT
1 CATATAATCATTT
33876688 GGTATATTTA
Statistics
Matches: 92, Mismatches: 19, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
12 6 0.07
13 58 0.63
14 15 0.16
15 13 0.14
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (13 bp):
CATATAATCATTT
Found at i:33876637 original size:27 final size:26
Alignment explanation
Indices: 33876543--33876652 Score: 84
Period size: 27 Copynumber: 4.1 Consensus size: 26
33876533 TCCCTTTTAC
* *
33876543 ATATCTATATCCATATAAACATTTCGT
1 ATATCTAT-TTCATATAATCATTTCGT
*
33876570 ATAAAC-ATTTCATATAA-CTATTTC-T
1 AT-ATCTATTTCATATAATC-ATTTCGT
33876595 ATATAGCTGA-TTCATATAATCATTTCGT
1 ATAT--CT-ATTTCATATAATCATTTCGT
* *
33876623 ATATCTATTTCCATATAATCAATTCAT
1 ATATCTATTT-CATATAATCATTTCGT
33876650 ATA
1 ATA
33876653 ACCATTTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
24 1 0.01
25 5 0.07
26 18 0.26
27 35 0.51
28 9 0.13
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (26 bp):
ATATCTATTTCATATAATCATTTCGT
Found at i:33876648 original size:40 final size:40
Alignment explanation
Indices: 33876543--33876659 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
33876533 TCCCTTTTAC
* * *
33876543 ATATCTATATCCATATAAACATTTCGTATAAACATTTCAT
1 ATATCTATTTCCATATAAACAATTCATATAAACATTTCAT
* * * * * *
33876583 ATAACTATTTCTATAT-AGCTGATTCATATAATCATTTCGT
1 ATATCTATTTCCATATAAAC-AATTCATATAAACATTTCAT
* *
33876623 ATATCTATTTCCATATAATCAATTCATATAACCATTT
1 ATATCTATTTCCATATAAACAATTCATATAAACATTT
33876660 TATGTATTCA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.03
40 57 0.93
41 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (40 bp):
ATATCTATTTCCATATAAACAATTCATATAAACATTTCAT
Found at i:33876659 original size:27 final size:27
Alignment explanation
Indices: 33876607--33876659 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
33876597 ATAGCTGATT
* * * *
33876607 CATATAATCATTTCGTATATCTATTTC
1 CATATAATCAATTCATATAACCATTTC
33876634 CATATAATCAATTCATATAACCATTT
1 CATATAATCAATTCATATAACCATTT
33876660 TATGTATTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (27 bp):
CATATAATCAATTCATATAACCATTTC
Found at i:33876695 original size:28 final size:28
Alignment explanation
Indices: 33876645--33876701 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
33876635 ATATAATCAA
* *
33876645 TTCATATAACCATTTTATGTATTCATTT
1 TTCATATAACCATTTGATATATTCATTT
* *
33876673 TTCATATAACCATTTGGTATATTTATTT
1 TTCATATAACCATTTGATATATTCATTT
33876701 T
1 T
33876702 CTACTCGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.54
Consensus pattern (28 bp):
TTCATATAACCATTTGATATATTCATTT
Found at i:33888411 original size:598 final size:598
Alignment explanation
Indices: 33887262--33888456 Score: 2088
Period size: 598 Copynumber: 2.0 Consensus size: 598
33887252 GGTAACGGCG
* * *
33887262 CCAAAAACTTGGTACGTGATATTTGCGGCAGGTTTTAAAGATTTATAATTAATCATTCTTGAAAC
1 CCAAAAACGTGGTACGTGATATTCGCGACAGGTTTTAAAGATTTATAATTAATCATTCTTGAAAC
* * * *
33887327 TAACTATTATCACGATGAAGGCAAGTGTACCTATTGAACAGTAGTATAGCTTTAGCAAGACCGGA
66 TAACTATTATCACAATAAAGGCAAGTGTACCTATCGAACAGTAGTATAACTTTAGCAAGACCGGA
33887392 TTATCAAACCCAAAGGAACCAAGAGTACTAGTAATTACTTTCTTTTTATTATCTAACCTAAAAAT
131 TTATCAAACCCAAAGGAACCAAGAGTACTAGTAATTACTTTCTTTTTATTATCTAACCTAAAAAT
* *
33887457 TAGGAGATTTGTTTATCTAGACTAATTAACTAAACTAAGGGTGCACAGACAGAAAATTGGGAAAA
196 TAGGAGATTTGTTTATATAGACTAATTAACTAAACTAAGGGTGCACAAACAGAAAATTGGGAAAA
33887522 AGCTTTTGGGAAAACTCGATTGATTAAGACAATACCCAAGGAAAAATCCACCTAGACTTCACTTG
261 AGCTTTTGGGAAAACTCGATTGATTAAGACAATACCCAAGGAAAAATCCACCTAGACTTCACTTG
33887587 TTATTTGACTCTGAATCAGACGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATAT
326 TTATTTGACTCTGAATCAGACGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATAT
*
33887652 TATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGGTTGATTAATTGAAATCTCTTTCTAATT
391 TATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGATTGATTAATTGAAATCTCTTTCTAATT
* * *
33887717 AATGCCCTAGTGTTGCATTAACTCGATCTATGGATCCCATTATTAGGTTTCACCCTAATCCGGCA
456 AACGCACTAGTGTTACATTAACTCGATCTATGGATCCCATTATTAGGTTTCACCCTAATCCGGCA
* * *
33887782 AAATCTTATCACCCTATCTCTAAGTGTGCAATCGACTCCACTTAATTACGACAAATTTACTCTTA
521 AAATCTTATCACCCTATCTCTAAGCGTGCAATCGACTCCACTTAATTACAAAAAATTTACTCTTA
*
33887847 GACAGGGTCTATC
586 GACAGAGTCTATC
* *
33887860 CCAAAAACGTGGTACGTGATATTCGCGACAGGTTTTAAAGATTTATGATTAATCGTTCTTGAAAC
1 CCAAAAACGTGGTACGTGATATTCGCGACAGGTTTTAAAGATTTATAATTAATCATTCTTGAAAC
33887925 TAACTATTATCACAATAAAGGCAAGTGTACCTATCGAACAGTAGTATAACTTTAGCAAGACCGGA
66 TAACTATTATCACAATAAAGGCAAGTGTACCTATCGAACAGTAGTATAACTTTAGCAAGACCGGA
* *
33887990 TTGTCGAACCCAAAGGAACCAAGAGTACTAGTAATTACTTTCTTTTTATTATCTAACCTAAAAAT
131 TTATCAAACCCAAAGGAACCAAGAGTACTAGTAATTACTTTCTTTTTATTATCTAACCTAAAAAT
*
33888055 TAAGG-GATTTGTTTATATAGACTAATTAACTAAACTAAGGGTGCACAAATAGAAAATTGGGAAA
196 T-AGGAGATTTGTTTATATAGACTAATTAACTAAACTAAGGGTGCACAAACAGAAAATTGGGAAA
33888119 AAGCTTTTGGGAAAACTCGATTGATTAAGACAATACCCAAGGAAAAATCCACCTAGACTTCACTT
260 AAGCTTTTGGGAAAACTCGATTGATTAAGACAATACCCAAGGAAAAATCCACCTAGACTTCACTT
* * *
33888184 GTTATTTGACTCTGAATTAGACGATTTATTCATTTGACTTGATCTGTAGAAATCTCTAAGTTATA
325 GTTATTTGACTCTGAATCAGACGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATA
*
33888249 TTATTATCTCTCTCGAGATTAATAACGTCTAACCCTAGATTGATTAATTGAAATCTCTTTCTAAT
390 TTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGATTGATTAATTGAAATCTCTTTCTAAT
33888314 TAACGCACTAGTGTTACATTAACTCGATCTATGGATCCTC-TTATTAGGTTTCACCCTAATCCGG
455 TAACGCACTAGTGTTACATTAACTCGATCTATGGATCC-CATTATTAGGTTTCACCCTAATCCGG
* * * *
33888378 TAAAATCTTATCACCCTATGTCTAGGCGTGCAATCGACTCCGCTTAATTACAAAAAATTTACTCT
519 CAAAATCTTATCACCCTATCTCTAAGCGTGCAATCGACTCCACTTAATTACAAAAAATTTACTCT
33888443 TAGACAGAGTCTAT
584 TAGACAGAGTCTAT
33888457 TCCTCCTTTG
Statistics
Matches: 565, Mismatches: 30, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
598 561 0.99
599 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (598 bp):
CCAAAAACGTGGTACGTGATATTCGCGACAGGTTTTAAAGATTTATAATTAATCATTCTTGAAAC
TAACTATTATCACAATAAAGGCAAGTGTACCTATCGAACAGTAGTATAACTTTAGCAAGACCGGA
TTATCAAACCCAAAGGAACCAAGAGTACTAGTAATTACTTTCTTTTTATTATCTAACCTAAAAAT
TAGGAGATTTGTTTATATAGACTAATTAACTAAACTAAGGGTGCACAAACAGAAAATTGGGAAAA
AGCTTTTGGGAAAACTCGATTGATTAAGACAATACCCAAGGAAAAATCCACCTAGACTTCACTTG
TTATTTGACTCTGAATCAGACGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATAT
TATTATCTCTCTCGAGACTAATAACGTCTAACCCTAGATTGATTAATTGAAATCTCTTTCTAATT
AACGCACTAGTGTTACATTAACTCGATCTATGGATCCCATTATTAGGTTTCACCCTAATCCGGCA
AAATCTTATCACCCTATCTCTAAGCGTGCAATCGACTCCACTTAATTACAAAAAATTTACTCTTA
GACAGAGTCTATC
Found at i:33889954 original size:21 final size:20
Alignment explanation
Indices: 33889925--33889963 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33889915 TATAGGCAGC
33889925 AAAAACATGCCAGTTCATAT
1 AAAAACATGCCAGTTCATAT
*
33889945 AAAAATCATGCCATTTCAT
1 AAAAA-CATGCCAGTTCAT
33889964 CTTCAACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAAACATGCCAGTTCATAT
Found at i:33891159 original size:42 final size:42
Alignment explanation
Indices: 33891085--33891187 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
33891075 TAGCCCAGCT
* *
33891085 ATGGTCTTACACGAATCTCATATTGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATATCATATCGATGCCAATGTCCTAGAC
* * *
33891127 ATGGTTTTACACGAATATCGTATCGATTCCAATGTCCTAGAC
1 ATGGTCTTACACGAATATCATATCGATGCCAATGTCCTAGAC
*
33891169 ATGGTCTTACATGAA-ATCA
1 ATGGTCTTACACGAATATCA
33891188 CAGCTCGGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 3 0.06
42 50 0.94
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGGTCTTACACGAATATCATATCGATGCCAATGTCCTAGAC
Found at i:33893924 original size:15 final size:15
Alignment explanation
Indices: 33893904--33893933 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33893894 TTTGGAAAAA
33893904 GCACCAGCATGACTC
1 GCACCAGCATGACTC
33893919 GCACCAGCATGACTC
1 GCACCAGCATGACTC
33893934 AACCTAGGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.20, T:0.13
Consensus pattern (15 bp):
GCACCAGCATGACTC
Found at i:33899809 original size:46 final size:43
Alignment explanation
Indices: 33899757--33899927 Score: 139
Period size: 46 Copynumber: 3.7 Consensus size: 43
33899747 GTTGTGGGCT
33899757 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GA-AGTA
* * *
33899803 AGTGTAAGACCACGTCTGGGAAATGGCATCGG--CATTGAGACAAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AG--AAGT--A
* ** *
33899851 AGTGTAAGATATGTCTGGGACATGCATCGGCCTCAGGACGTAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-G-AAGTA
*
33899897 AGTGTAAGACATGTCTGGAACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
33899928 TATGAAATGT
Statistics
Matches: 101, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
45 5 0.05
46 49 0.49
47 24 0.24
48 20 0.20
49 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGAAGTA
Found at i:33928174 original size:44 final size:44
Alignment explanation
Indices: 33928111--33928199 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
33928101 ACTCTCCTAT
33928111 GCTCACCTAAGTATAAAGCATGAAATTAATGCATTAGGAGCATC
1 GCTCACCTAAGTATAAAGCATGAAATTAATGCATTAGGAGCATC
33928155 GCTCACCTAAGTATAAAGCATGAAATTAATGCATTAGGAGCATC
1 GCTCACCTAAGTATAAAGCATGAAATTAATGCATTAGGAGCATC
33928199 G
1 G
33928200 AATTCACCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (44 bp):
GCTCACCTAAGTATAAAGCATGAAATTAATGCATTAGGAGCATC
Found at i:33928359 original size:50 final size:50
Alignment explanation
Indices: 33928280--33928409 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
33928270 CGGTTTATCA
* * * *
33928280 GTAAGACCATGTCTGAGATATGGCGTCGGCACGGATATG-TGAGAGCTAGT
1 GTAAGACCATGTCTGGGATATGGCATCGGCACGCA-ATGATGAGAGCCAGT
* * * * * *
33928330 GTAAGACCATGTCTGGGACATGACATCGGC-CTCAGTGATGATAGCCCGT
1 GTAAGACCATGTCTGGGATATGGCATCGGCACGCAATGATGAGAGCCAGT
33928379 GTAAGACCATGTCTGGGATATGGCATCGGCA
1 GTAAGACCATGTCTGGGATATGGCATCGGCA
33928410 ACTTTCCCTT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 2 0.03
49 38 0.58
50 26 0.39
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGATATGGCATCGGCACGCAATGATGAGAGCCAGT
Found at i:33933392 original size:471 final size:471
Alignment explanation
Indices: 33932504--33933444 Score: 1819
Period size: 471 Copynumber: 2.0 Consensus size: 471
33932494 GTCGGGACTT
*
33932504 AATCAGGAATTCTAAGAATTTTTTACAGGATTTCAAAAATTTTCTAACTTACGAGGCTGACACGC
1 AATCAAGAATTCTAAGAATTTTTTACAGGATTTCAAAAATTTTCTAACTTACGAGGCTGACACGC
*
33932569 TCGTGTGACCCTAGGACACGCTCGTGCTATAGAGCATGTTCGACTTCGTGTAACTTCTCTGACTT
66 TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCGTGTAACTTCTCTGACTT
*
33932634 GTGCACATGGCCATGCCACACGCCCGTGTGCTAGGTCGTGTGGTCAATTAATTCATTTCGAAATT
131 GTGCACATGGCCATGCCACACGCCCGTGTACTAGGTCGTGTGGTCAATTAATTCATTTCGAAATT
33932699 AGGTGCAGGTTTCACACGGCCAAGACACATGCCTATGTTCTAGGCCATGTAGCATACACGCTCGT
196 AGGTGCAGGTTTCACACGGCCAAGACACATGCCTATGTTCTAGGCCATGTAGCATACACGCTCGT
33932764 GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
261 GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
*
33932829 GGCCTAACCACACGCCCATGTACCTGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
326 GGCCTAACCACACGCCCATGTACCAGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
33932894 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
391 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
33932959 CTGCACTAAAACTCAA
456 CTGCACTAAAACTCAA
33932975 AATCAAGAATTCTAAGAATTTTTTACAGGATTTCAAAAATTTTCTAACTTACGAGGCTGACACGC
1 AATCAAGAATTCTAAGAATTTTTTACAGGATTTCAAAAATTTTCTAACTTACGAGGCTGACACGC
*
33933040 TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGTATGTTCGACTTCGTGTAACTTCTCTGACTT
66 TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCGTGTAACTTCTCTGACTT
33933105 GTGCACATGGCCATGCCACACGCCCGTGTACTAGGTCGTGTGGTCAATTAATTCATTTCGAAATT
131 GTGCACATGGCCATGCCACACGCCCGTGTACTAGGTCGTGTGGTCAATTAATTCATTTCGAAATT
33933170 AGGTGCAGGTTTCACACGGCCAAGACACATGCCTATGTTCTAGGCCATGTAGCATACACGCTCGT
196 AGGTGCAGGTTTCACACGGCCAAGACACATGCCTATGTTCTAGGCCATGTAGCATACACGCTCGT
*
33933235 GTCTCTACTTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
261 GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
*
33933300 GGCCTAACCACACGTCCATGTACCAGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
326 GGCCTAACCACACGCCCATGTACCAGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
33933365 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
391 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
33933430 CTGCACTAAAACTCA
456 CTGCACTAAAACTCA
33933445 CATCCATTAA
Statistics
Matches: 463, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
471 463 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (471 bp):
AATCAAGAATTCTAAGAATTTTTTACAGGATTTCAAAAATTTTCTAACTTACGAGGCTGACACGC
TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCGTGTAACTTCTCTGACTT
GTGCACATGGCCATGCCACACGCCCGTGTACTAGGTCGTGTGGTCAATTAATTCATTTCGAAATT
AGGTGCAGGTTTCACACGGCCAAGACACATGCCTATGTTCTAGGCCATGTAGCATACACGCTCGT
GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
GGCCTAACCACACGCCCATGTACCAGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
CTGCACTAAAACTCAA
Found at i:33935257 original size:13 final size:13
Alignment explanation
Indices: 33935239--33935266 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33935229 CTGGCAAAGG
33935239 GACACGCCCGTGT
1 GACACGCCCGTGT
33935252 GACACGCCCGTGT
1 GACACGCCCGTGT
33935265 GA
1 GA
33935267 GAAAGTCCAG
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:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:33946616 original size:32 final size:32
Alignment explanation
Indices: 33946575--33946637 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
33946565 TATGGTGCCT
33946575 ATGAAAATGGAGAATTAGGAAAAAGGATGAGC
1 ATGAAAATGGAGAATTAGGAAAAAGGATGAGC
*
33946607 ATGAAAATGGAGAATTAGGAAAGAGGATGAG
1 ATGAAAATGGAGAATTAGGAAAAAGGATGAG
33946638 TAAGACGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.49, C:0.02, G:0.33, T:0.16
Consensus pattern (32 bp):
ATGAAAATGGAGAATTAGGAAAAAGGATGAGC
Found at i:33946628 original size:16 final size:16
Alignment explanation
Indices: 33946577--33946628 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
33946567 TGGTGCCTAT
33946577 GAAAATGGAGAATTAG
1 GAAAATGGAGAATTAG
* ** *
33946593 GAAAAAGGATG-AGCAT
1 GAAAATGGA-GAATTAG
33946609 GAAAATGGAGAATTAG
1 GAAAATGGAGAATTAG
33946625 GAAA
1 GAAA
33946629 GAGGATGAGT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.15
Consensus pattern (16 bp):
GAAAATGGAGAATTAG
Found at i:33949976 original size:26 final size:26
Alignment explanation
Indices: 33949947--33949999 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
33949937 TCAAACATGC
33949947 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
33949973 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
33949999 A
1 A
33950000 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:33951518 original size:26 final size:26
Alignment explanation
Indices: 33951486--33951593 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
33951476 TGAAATGCCC
*
33951486 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33951512 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
33951538 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
33951564 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33951590 ATCA
1 ATCA
33951594 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33963552 original size:46 final size:47
Alignment explanation
Indices: 33963450--33963719 Score: 198
Period size: 46 Copynumber: 5.7 Consensus size: 47
33963440 ACATTATGAG
* * * * ***
33963450 AGCCAATGTAAGACCATGTCTGGTACATGGCATCGGCATTAAGACAAA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-ACTGAGATGTA
** *
33963498 AGATAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACT-GAGATGTA
* * *
33963544 AGCCAGTGTAAGA-TATGTCTAGGACATGG-AT-TGACTATGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGAC--TGAGATGTA
** * * * *
33963589 -GTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACAGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GACTGAGATGT-A
*
33963637 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTA-ATGGATA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTGAGAT-G-TA
* *
33963685 AGCTAGTGCAAGACCATGTCTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
33963720 ACATTCTACC
Statistics
Matches: 174, Mismatches: 33, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 51 0.29
47 49 0.28
48 17 0.10
49 1 0.01
50 30 0.17
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTGAGATGTA
Found at i:33963710 original size:47 final size:48
Alignment explanation
Indices: 33963456--33963721 Score: 205
Period size: 47 Copynumber: 5.6 Consensus size: 48
33963446 TGAGAGCCAA
* * * * *
33963456 TGTAAGACCATGTCTGGTACATGGCATCGGCATTAA-GACAAAAGATAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TTAATGAGATAAGCTAG
* * * *
33963504 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCT--CGAGATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTAATGAGA--TAAGCTAG
* * * ** *
33963550 TGTAAGA-TATGTCTAGGACATGG-ATTGAC-T-ATGAGATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTAATGAGATAAGCTAG
* ** *
33963594 TGTAAGACCATGTTTGGGACATGGCATCGACACAGAT-ATG-TGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTA-ATGA-GAT-A-AGCTAG
33963644 TGTAAGACCATGTCTGGGACATGGCATCGACTTAATG-GATAAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTAATGAGATAAGCTAG
*
33963691 TGCAAGACCATGTCTGGGACATGGCATCGAC
1 TGTAAGACCATGTCTGGGACATGGCATCGAC
33963722 ATTCTACCCT
Statistics
Matches: 174, Mismatches: 29, Indels: 31
0.74 0.12 0.13
Matches are distributed among these distances:
44 14 0.08
45 15 0.09
46 45 0.26
47 49 0.28
48 11 0.06
49 6 0.03
50 34 0.20
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTAATGAGATAAGCTAG
Found at i:33965698 original size:40 final size:39
Alignment explanation
Indices: 33965643--33965784 Score: 178
Period size: 40 Copynumber: 3.6 Consensus size: 39
33965633 TATTTGGATG
33965643 ATAACCGGTCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGG-CTAAGTCCCGAAGGCATTTGTGCGAGTTACT
33965683 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCG-GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
33965723 ATAGCCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
33965763 ATATCCGGTTAAATCCCGAAGG
1 ATAACCGGCTAAGTCCCGAAGG
33965785 TACTTGGCTT
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
39 15 0.16
40 74 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:33972003 original size:15 final size:16
Alignment explanation
Indices: 33971985--33972017 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33971975 AATATATTTT
33971985 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
33972000 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
33972017 T
1 T
33972018 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:33972103 original size:22 final size:22
Alignment explanation
Indices: 33972064--33972122 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
33972054 GTTTTAAGAA
*
33972064 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
33972085 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
33972107 AT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
33972123 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:33972139 original size:26 final size:24
Alignment explanation
Indices: 33972093--33972152 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 24
33972083 ATTTGTTTTA
33972093 ATATTTATTTTTATATTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
33972117 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
33972143 TTTTTTATTT
1 ATATTTATTT
33972153 AATGAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.25
26 18 0.56
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:33976824 original size:21 final size:21
Alignment explanation
Indices: 33976798--33976839 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33976788 GATCAACCGC
33976798 TACCAAACAAATACTATAATA
1 TACCAAACAAATACTATAATA
*
33976819 TACCAAACAACTACTATAATA
1 TACCAAACAAATACTATAATA
33976840 GTGCATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (21 bp):
TACCAAACAAATACTATAATA
Found at i:33986442 original size:38 final size:37
Alignment explanation
Indices: 33986401--33986475 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 37
33986391 TAAAAAGCAT
*
33986401 TTATATTAAAAAGCACTACCATAAATATAATGAATATTTTA
1 TTATATTAAAAA-CAC-A-CATAAATATAATAAATA-TTTA
33986442 TTATATTAAAAACACACATAAATATAATAAATAT
1 TTATATTAAAAACACACATAAATATAATAAATAT
33986476 AATAAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
37 1 0.03
38 16 0.48
39 1 0.03
40 3 0.09
41 12 0.36
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (37 bp):
TTATATTAAAAACACACATAAATATAATAAATATTTA
Found at i:33986473 original size:9 final size:9
Alignment explanation
Indices: 33986459--33986484 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33986449 AAAAACACAC
33986459 ATAAATATA
1 ATAAATATA
33986468 ATAAATATA
1 ATAAATATA
33986477 ATAAATAT
1 ATAAATAT
33986485 TTTATTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAAATATA
Found at i:33989338 original size:50 final size:47
Alignment explanation
Indices: 33989133--33989406 Score: 161
Period size: 46 Copynumber: 5.8 Consensus size: 47
33989123 CAAGTCATTG
* * ** *
33989133 TGAGCCAATGTAAGACCATGTCTGGGCCATTGCATCGGCATTGAGACGA
1 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGC-GCGAGA-TA
* * * * * *
33989182 -GAGCTAGTGTACGA-CATGTCTGGGACAT-GCATCGGCCTCAAGACGA
1 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGG-CGCGAGA-TA
* * * *
33989228 -AAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAG--A
1 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGC-GCGAGATA
* * * *
33989271 TGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGGCGCG-GATA
1 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGCGAGATA
* * * * * **
33989317 TGCAAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGACTTGAGATA
1 T----GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGCGAGATA
*
33989368 TGAGCCAATGTAAGGCCATGTCTGGGACATGGCATCGGC
1 TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGC
33989407 ATTTTACCCC
Statistics
Matches: 180, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 11 0.06
45 16 0.09
46 58 0.32
47 46 0.26
48 11 0.06
50 32 0.18
51 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGCGAGATA
Found at i:33996853 original size:48 final size:46
Alignment explanation
Indices: 33996748--33996923 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
33996738 TAGGGTCATT
* * *
33996748 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCA-C-ATTAT
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCATCGA-GAC
* *
33996794 GAGAGCCAGTGTAAGACCATGTCTGGGAGATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
* *
33996842 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
*
33996888 GTA-AGCCAGTGGAAGACATGTCTGGGACATGCATCG
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCG
33996924 TCTACGAGAT
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
46 62 0.54
47 30 0.26
48 21 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:33999806 original size:29 final size:29
Alignment explanation
Indices: 33999771--33999844 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
33999761 GTTGTGAGAT
* *
33999771 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
33999800 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
33999829 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33999845 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:34007885 original size:29 final size:29
Alignment explanation
Indices: 34007850--34007923 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
34007840 GTTGTGAGAT
* *
34007850 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
34007879 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
34007908 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34007924 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:34009667 original size:21 final size:20
Alignment explanation
Indices: 34009643--34009681 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34009633 GTTGAAATGT
*
34009643 CACACGGGCGTGTTGCCCTCC
1 CACACGAGCGTG-TGCCCTCC
*
34009664 CACATGAGCGTGTGCCCT
1 CACACGAGCGTGTGCCCT
34009682 GTTTCAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (20 bp):
CACACGAGCGTGTGCCCTCC
Found at i:34011590 original size:25 final size:25
Alignment explanation
Indices: 34011546--34011593 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34011536 GAGCTGTGGC
*
34011546 AACAGTAAGCTCCAATGAGCTGAGA
1 AACAGTAAGCTCCAACGAGCTGAGA
**
34011571 AACAGTAAGCTCTTACGAGCTGA
1 AACAGTAAGCTCCAACGAGCTGA
34011594 AACATCGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (25 bp):
AACAGTAAGCTCCAACGAGCTGAGA
Found at i:34017856 original size:39 final size:39
Alignment explanation
Indices: 34017809--34017940 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 39
34017799 AGACTAAGAT
34017809 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAATTC-GGGCTAAGTC
* *
34017848 CCGAAGGCATTGGTGCGAGTTACTAAATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACT-AATTCGGGCTAAGTC
** *
34017888 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-ATTCGGGCTAAGTC
34017928 CCGAAGGCATTTG
1 CCGAAGGCATTTG
34017941 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
39 31 0.37
40 52 0.63
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTC
Found at i:34017947 original size:40 final size:39
Alignment explanation
Indices: 34017757--34017940 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
34017747 CGAATGATGT
* * * * *
34017757 CCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
34017797 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
34017837 CTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34017875 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34017916 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34017941 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 33 0.28
40 76 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34017962 original size:79 final size:79
Alignment explanation
Indices: 34017809--34017963 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
34017799 AGACTAAGAT
* * **
34017809 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34017874 ATTCGGGTTAAGTC
66 ATTCCGGTTAAGTC
* *
34017888 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
34017951 TATA-TCCGGTTAA
63 TAAATTCCGGTTAA
34017964 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 42 0.65
80 21 0.32
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAGTC
Found at i:34019855 original size:16 final size:17
Alignment explanation
Indices: 34019824--34019856 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34019814 TCCTTCAAGA
*
34019824 GTTTTGGTTTTCTTTAT
1 GTTTTGGTTATCTTTAT
34019841 GTTTT-GTTATCTTTAT
1 GTTTTGGTTATCTTTAT
34019857 TCTTTTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.70
Consensus pattern (17 bp):
GTTTTGGTTATCTTTAT
Found at i:34026369 original size:26 final size:25
Alignment explanation
Indices: 34026340--34026423 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
34026330 TGGTACAAAG
34026340 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
34026366 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
34026392 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
34026418 TGATAA
1 TGATAA
34026424 AAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:34026723 original size:12 final size:12
Alignment explanation
Indices: 34026706--34026732 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34026696 TGTTGTGAGC
34026706 ATTTAGTCATGA
1 ATTTAGTCATGA
34026718 ATTTAGTCATGA
1 ATTTAGTCATGA
34026730 ATT
1 ATT
34026733 AAAATGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (12 bp):
ATTTAGTCATGA
Found at i:34028064 original size:27 final size:27
Alignment explanation
Indices: 34028023--34028135 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
34028013 GAGGAAGCGT
*
34028023 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
34028050 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
34028077 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
34028105 TCTGGTGACTCTGTCAC-ACTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
34028131 TCTGG
1 TCTGG
34028136 CAGCTATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:34028128 original size:54 final size:54
Alignment explanation
Indices: 34028021--34028144 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
34028011 TGGAGGAAGC
*
34028021 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
34028075 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACA-CTATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
**
34028129 GTTCTGGCAGCTATGC
1 GTTCTGGTGGCTATGC
34028145 TGCAAATTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 43 0.72
55 17 0.28
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:34029337 original size:340 final size:340
Alignment explanation
Indices: 34028717--34029393 Score: 1266
Period size: 340 Copynumber: 2.0 Consensus size: 340
34028707 CGCAATGAAA
34028717 GTATTTTCCAAAATTAATCACTTTTCCTAAAAATGACTTAATCAAATCGGTTTCCTAGAAATATC
1 GTATTTTCCAAAATTAATCACTTTTCCTAAAAATGACTTAATCAAATCGGTTTCCTAGAAATATC
*
34028782 CATGACGTTAAGGTGTGGCAATGGCGTATGCATGTCTAGGATTGGATCCGAAGGGAGCTTGGTAC
66 CATGACGTTAAGGTGTGGCAATGGCGTATGCATGTCCAGGATTGGATCCGAAGGGAGCTTGGTAC
*
34028847 TTAAGCAGTCCGATGGACTCACCACCTCTTTTCCGGTTTCCTACCTGGTGCACAGCTTCCATTCA
131 TTAAGCAGTCCGATGGACTCACCACCTCTTTTCCGGTTTCCTACCTGGTGCACAACTTCCATTCA
34028912 CTTTAACACTTAATGAATTAATCTTTTGAACATCAAGTACGATTTTCTGGACTTAGAATGAAATT
196 CTTTAACACTTAATGAATTAATCTTTTGAACATCAAGTACGATTTTCTGGACTTAGAATGAAATT
*
34028977 TTTTTTAACGTTTTTGATGTGGCATACCGGATCCGGCCATAACTTCTGGGCTGGGTTTGGGGTGC
261 TTTTTTAACGTTTTTGATGTGGCATACCGGATCCGGCCATAACTTCTGGGCCGGGTTTGGGGTGC
34029042 TACATTTAGTGGAAG
326 TACATTTAGTGGAAG
34029057 GTATTTTCCAAAATTAATCACTTTTCCTAAAAATGACTTAATCAAATCGGTTTCCTAGAAATATC
1 GTATTTTCCAAAATTAATCACTTTTCCTAAAAATGACTTAATCAAATCGGTTTCCTAGAAATATC
34029122 CATGACGTTAAGGTGTGGCAATGGCAGTATGCATGTCCAGGATTGGATCCGAAGGGAGCTTGGTA
66 CATGACGTTAAGGTGTGGCAATGGC-GTATGCATGTCCAGGATTGGATCCGAAGGGAGCTTGGTA
*
34029187 CTTAAGCAGTCCGATGGACTCACCACCTCTTTTCCGGTTTCTTACCTGGTGCACAACTTCCATTC
130 CTTAAGCAGTCCGATGGACTCACCACCTCTTTTCCGGTTTCCTACCTGGTGCACAACTTCCATTC
* *
34029252 ACTTTAACCCTTAATGAATTAATCTTTTGAACATCAAGTACGATTTTCTGGACTTAGAATGGAA-
195 ACTTTAACACTTAATGAATTAATCTTTTGAACATCAAGTACGATTTTCTGGACTTAGAATGAAAT
*
34029316 TTTTTTTAACGTTTTTGATGTGGCATGCCGGATCCGGCCATAACTTCTGGGCCGGGTTTGGGGTG
260 TTTTTTTAACGTTTTTGATGTGGCATACCGGATCCGGCCATAACTTCTGGGCCGGGTTTGGGGTG
*
34029381 CTATATTTAGTGG
325 CTACATTTAGTGG
34029394 TATCAGAGCC
Statistics
Matches: 328, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
340 165 0.50
341 163 0.50
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (340 bp):
GTATTTTCCAAAATTAATCACTTTTCCTAAAAATGACTTAATCAAATCGGTTTCCTAGAAATATC
CATGACGTTAAGGTGTGGCAATGGCGTATGCATGTCCAGGATTGGATCCGAAGGGAGCTTGGTAC
TTAAGCAGTCCGATGGACTCACCACCTCTTTTCCGGTTTCCTACCTGGTGCACAACTTCCATTCA
CTTTAACACTTAATGAATTAATCTTTTGAACATCAAGTACGATTTTCTGGACTTAGAATGAAATT
TTTTTTAACGTTTTTGATGTGGCATACCGGATCCGGCCATAACTTCTGGGCCGGGTTTGGGGTGC
TACATTTAGTGGAAG
Found at i:34032478 original size:26 final size:26
Alignment explanation
Indices: 34032449--34032558 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
34032439 TGGTACAAAT
34032449 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
34032475 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
34032501 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
34032527 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
34032553 TGATAA
1 TGATAA
34032559 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:34034216 original size:27 final size:28
Alignment explanation
Indices: 34034173--34034261 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
34034163 GAGGAAGCGT
34034173 TCTGGTGGCT-ATGCCACAAATATCTGA
1 TCTGGTGGCTCATGCCACAAATATCTGA
* *
34034200 TCTGGTGGCTCAT-CCACATATATCTGT
1 TCTGGTGGCTCATGCCACAAATATCTGA
* *
34034227 TCTGGTGGCTC-TGCCACGATTATCTGTA
1 TCTGGTGGCTCATGCCACAAATATCTG-A
34034255 TCTGGTG
1 TCTGGTG
34034262 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 1 0.02
27 43 0.81
28 9 0.17
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCATGCCACAAATATCTGA
Found at i:34034277 original size:27 final size:27
Alignment explanation
Indices: 34034171--34034285 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 27
34034161 TGGAGGAAGC
* * * *
34034171 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGACTCTGCCACGACTATCT
* * *
34034198 GATCTGGTGGCTCAT-CCAC-ATATATCT
1 GTTCTGGTGACTC-TGCCACGA-CTATCT
* *
34034225 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGACTCTGCCACGACTATCT
*
34034252 GTATCTGGTGACTCTGTCAC-ACTATCT
1 GT-TCTGGTGACTCTGCCACGACTATCT
34034279 GTTCTGG
1 GTTCTGG
34034286 CATCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
GTTCTGGTGACTCTGCCACGACTATCT
Found at i:34042201 original size:42 final size:42
Alignment explanation
Indices: 34042133--34042291 Score: 185
Period size: 42 Copynumber: 3.8 Consensus size: 42
34042123 AGTTACTATG
* * * *
34042133 ATTATGTGTAAGACCATATCTAGGATATGGCATCTATACGAC
1 ATTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAC
* * * *
34042175 ATTTCGTGTAAAACCATATCTGGGATATTGCATCAATATGAG
1 ATTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAC
* * *
34042217 ATTACGTGTAAGACCATAGCTGGGTTATGGCGTCAATATG-C
1 ATTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAC
* *
34042258 GAGTACATGTAAGACCATATCTGGGATATGGCAT
1 -ATTACGTGTAAGACCATATCTGGGATATGGCAT
34042292 TGGTATTGCG
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
ATTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAC
Found at i:34053570 original size:25 final size:25
Alignment explanation
Indices: 34053523--34053570 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34053513 GAGCTGTGGC
* *
34053523 AATAGTTAGCTCCAATGAACTGAGA
1 AATAGTAAGCTCCAACGAACTGAGA
* *
34053548 AATAGTAAGCTCTAACGAGCTGA
1 AATAGTAAGCTCCAACGAACTGA
34053571 AATATCGGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (25 bp):
AATAGTAAGCTCCAACGAACTGAGA
Found at i:34053947 original size:21 final size:21
Alignment explanation
Indices: 34053902--34053949 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
34053892 TTCTTGATCT
*
34053902 ATTTAATATCAAATTTAACTC
1 ATTTAATATCAAATCTAACTC
34053923 ATTTAAGTATC-AATCT-ACTC
1 ATTTAA-TATCAAATCTAACTC
34053943 AATTTAA
1 -ATTTAA
34053950 CCCAAATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTAATATCAAATCTAACTC
Found at i:34058544 original size:7 final size:7
Alignment explanation
Indices: 34058532--34058558 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
34058522 AATCTGAGTA
34058532 TAACATT
1 TAACATT
34058539 TAACATT
1 TAACATT
34058546 TAACATT
1 TAACATT
34058553 TAACAT
1 TAACAT
34058559 GTTTTGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:34059315 original size:32 final size:32
Alignment explanation
Indices: 34059279--34059406 Score: 211
Period size: 32 Copynumber: 4.0 Consensus size: 32
34059269 TATAACTATA
34059279 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
34059311 CTACTTTTTTATCTGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
** *
34059343 AAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
34059375 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
34059407 ATTTTTTATG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 86 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:34061412 original size:21 final size:21
Alignment explanation
Indices: 34061386--34061438 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
34061376 CATTGTTTCT
*
34061386 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
34061407 AATCTCACCACTACAGTAACT
1 AATCTCACCGCTACAGTAACC
34061428 AATCTCACCGC
1 AATCTCACCGC
34061439 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:34063972 original size:77 final size:76
Alignment explanation
Indices: 34063833--34063983 Score: 196
Period size: 77 Copynumber: 2.0 Consensus size: 76
34063823 AATTTAAGAG
*** *
34063833 AAAGATATGACCATTGGAACATAATAAATTTATCTAAAGCTCGTTACAATTGGTTACGCCTGAAG
1 AAAGATATGACCATCAAAACATAATAAATTTATCTAAAACTCGTTACAATTGGTTAC-CCTGAAG
34063898 TTGCAATATTTT
65 TTGCAATATTTT
* ***
34063910 AAAGATATGACCATCAAAACATGATAAATTTATCTAAAACTCGTTAGGGTTGGATGTA-CCTGAA
1 AAAGATATGACCATCAAAACATAATAAATTTATCTAAAACTCGTTACAATTGG-T-TACCCTGAA
34063974 GTTGCAATAT
64 GTTGCAATAT
34063984 CTCAATTATG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 61 0.95
78 1 0.02
79 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (76 bp):
AAAGATATGACCATCAAAACATAATAAATTTATCTAAAACTCGTTACAATTGGTTACCCTGAAGT
TGCAATATTTT
Found at i:34066474 original size:32 final size:34
Alignment explanation
Indices: 34066438--34066501 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
34066428 AATAGTGATA
*
34066438 CTGGGCCAGAG-CCCTT-TTCAGATTACAATAAC
1 CTGGGCCAGAGCCCCTTATTCAGATAACAATAAC
**
34066470 CTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 CTGGGCCAGAGCCCCTTATTCAGATAACAATA
34066502 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (34 bp):
CTGGGCCAGAGCCCCTTATTCAGATAACAATAAC
Found at i:34068104 original size:26 final size:26
Alignment explanation
Indices: 34068073--34068180 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34068063 TGAAATGCCC
*
34068073 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
34068099 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34068125 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34068151 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34068177 ATCA
1 ATCA
34068181 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34073281 original size:32 final size:34
Alignment explanation
Indices: 34073245--34073307 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
34073235 ACAGTGATAC
*
34073245 TGGGCCAGAG-CCCTT-TTCAGATTACAATAAAT
1 TGGGCCAGAGCCCCTTATTCAGATAACAATAAAT
**
34073277 TGGGCCTTAGCCCCTTATTCAGATAACAATA
1 TGGGCCAGAGCCCCTTATTCAGATAACAATA
34073308 TGGCCCATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 8 0.31
33 5 0.19
34 13 0.50
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (34 bp):
TGGGCCAGAGCCCCTTATTCAGATAACAATAAAT
Found at i:34075187 original size:26 final size:26
Alignment explanation
Indices: 34075156--34075263 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
34075146 TGAAATGCCC
*
34075156 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34075182 ACCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34075208 ATCATGGAATC-TTTACCTAATCCATT
1 ATCATGGAA-CATTTACCTAACCCATT
34075234 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34075260 ATCA
1 ATCA
34075264 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 1 0.01
26 73 0.97
27 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34077038 original size:18 final size:18
Alignment explanation
Indices: 34077015--34077068 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
34077005 TATCTTTCGG
34077015 TCTTTACTTTCTTTTTAT
1 TCTTTACTTTCTTTTTAT
* * *
34077033 TCTTTATTTTATTCTTAT
1 TCTTTACTTTCTTTTTAT
34077051 T-TTTAC--TC-TTTTAT
1 TCTTTACTTTCTTTTTAT
34077065 TCTT
1 TCTT
34077069 ATATTTCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 6 0.21
15 3 0.10
17 4 0.14
18 16 0.55
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (18 bp):
TCTTTACTTTCTTTTTAT
Found at i:34078435 original size:24 final size:24
Alignment explanation
Indices: 34078403--34078452 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
34078393 TTCATGTATT
34078403 GAGTACAACTATATGTGTTATCCA
1 GAGTACAACTATATGTGTTATCCA
34078427 GAGTACAACTATATGTGTTATCCA
1 GAGTACAACTATATGTGTTATCCA
34078451 GA
1 GA
34078453 CTTTTATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (24 bp):
GAGTACAACTATATGTGTTATCCA
Found at i:34081726 original size:20 final size:19
Alignment explanation
Indices: 34081697--34081734 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34081687 TTTTTAAAAA
34081697 ATAAAAATTTTAGAATTTTT
1 ATAAAAATTTT-GAATTTTT
*
34081717 ATAAATATTTTGAATTTT
1 ATAAAAATTTTGAATTTT
34081735 AAAAACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATAAAAATTTTGAATTTTT
Found at i:34081733 original size:19 final size:19
Alignment explanation
Indices: 34081697--34081753 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
34081687 TTTTTAAAAA
*
34081697 ATAAAAATTTTAGAATTTTT
1 ATAAATATTTT-GAATTTTT
34081717 ATAAATATTTTGAA-TTTT
1 ATAAATATTTTGAATTTTT
*
34081735 AAAAACTATTTTG-ATTTTT
1 ATAAA-TATTTTGAATTTTT
34081754 TTTTGTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 9 0.27
19 14 0.42
20 10 0.30
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:34081735 original size:18 final size:18
Alignment explanation
Indices: 34081697--34081752 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
34081687 TTTTTAAAAA
*
34081697 ATAAAAATTTTAGAATTTTT
1 ATAAATATTTT-GAA-TTTT
34081717 ATAAATATTTTGAATTTT
1 ATAAATATTTTGAATTTT
*
34081735 AAAAACTATTTTG-ATTTT
1 ATAAA-TATTTTGAATTTT
34081753 TTTTTGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 13 0.39
19 10 0.30
20 10 0.30
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
ATAAATATTTTGAATTTT
Found at i:34082197 original size:51 final size:52
Alignment explanation
Indices: 34082132--34082250 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 52
34082122 TATTTCCATG
* * *
34082132 TCATTT-TTCATTTTCATTTTGGAGAAAACCAAAATCATTTCCAGATGATT-
1 TCATTTCTCCATTTTCATTTTAGAGAAAACCAAAATCATTTCCAAATGATTC
* * *
34082182 TCATTTCTCCATTTTCGTTTTAGAGAAAACCATAATCATTTCCAAATGTTTC
1 TCATTTCTCCATTTTCATTTTAGAGAAAACCAAAATCATTTCCAAATGATTC
* *
34082234 TCGTTTCTCTATTTTCA
1 TCATTTCTCCATTTTCA
34082251 CCATTTCTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 6 0.10
51 38 0.66
52 14 0.24
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (52 bp):
TCATTTCTCCATTTTCATTTTAGAGAAAACCAAAATCATTTCCAAATGATTC
Done.