Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 100 of 136
Found at i:33559396 original size:25 final size:25
Alignment explanation
Indices: 33559368--33559438 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
33559358 TATAACTAGA
*
33559368 AGCTTACAAAGAGC-CTATAACGGGT
1 AGCTTACAAAGAGCAAT-TAACGGGT
*
33559393 AGC-TCCAAAGAGCAATTAACGGGT
1 AGCTTACAAAGAGCAATTAACGGGT
*
33559417 AGC-TCCGAAA-AGCAATTAACGG
1 AGCTTAC-AAAGAGCAATTAACGG
33559439 AAAGCACCAG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 35 0.83
25 7 0.17
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (25 bp):
AGCTTACAAAGAGCAATTAACGGGT
Found at i:33559412 original size:24 final size:24
Alignment explanation
Indices: 33559385--33559438 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 24
33559375 AAAGAGCCTA
33559385 TAACGGGTAGCTCC-AAAGAGCAAT
1 TAACGGGTAGCTCCGAAA-AGCAAT
33559409 TAACGGGTAGCTCCGAAAAGCAAT
1 TAACGGGTAGCTCCGAAAAGCAAT
33559433 TAACGG
1 TAACGG
33559439 AAAGCACCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (24 bp):
TAACGGGTAGCTCCGAAAAGCAAT
Found at i:33570466 original size:16 final size:16
Alignment explanation
Indices: 33570429--33570470 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33570419 TTAATCATAT
*
33570429 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
33570445 TT-AAATATATTATAA
1 TTAAAATATATTATAA
33570460 TTAAAATATAT
1 TTAAAATATAT
33570471 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:33570477 original size:14 final size:15
Alignment explanation
Indices: 33570438--33570479 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33570428 TTTAAACATA
*
33570438 ATTATTATTAAATAT
1 ATTATAATTAAATAT
33570453 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
33570467 A-TATAATTTAATA
1 ATTATAATTAAATA
33570480 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:33570691 original size:24 final size:25
Alignment explanation
Indices: 33570645--33570692 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
33570635 TATGAATTTG
33570645 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
33570671 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
33570693 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:33570696 original size:92 final size:92
Alignment explanation
Indices: 33570600--33570828 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
33570590 TGATTTAATA
* * *
33570600 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
33570662 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
33570692 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
33570757 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
33570782 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
33570829 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:33575810 original size:23 final size:23
Alignment explanation
Indices: 33575792--33575859 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
33575782 TTCAATTTTT
33575792 AGCAGACAATCAAAACAATTTCC
1 AGCAGACAATCAAAACAATTTCC
*
33575815 AGCAGACAATCATAACAATTTCC
1 AGCAGACAATCAAAACAATTTCC
*
33575838 AACAGACAATCAAAACAATTTC
1 AGCAGACAATCAAAACAATTTC
33575860 AGAACAAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.49, C:0.25, G:0.07, T:0.19
Consensus pattern (23 bp):
AGCAGACAATCAAAACAATTTCC
Found at i:33575888 original size:22 final size:21
Alignment explanation
Indices: 33575845--33575890 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
33575835 TCCAACAGAC
*
33575845 AATCAAAACAATTTCAGAACA
1 AATCAAAACAATATCAGAACA
33575866 AATCAAGAACAATATCA-ATACA
1 AATCAA-AACAATATCAGA-ACA
33575888 AAT
1 AAT
33575891 GCAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.59, C:0.17, G:0.04, T:0.20
Consensus pattern (21 bp):
AATCAAAACAATATCAGAACA
Found at i:33577808 original size:19 final size:20
Alignment explanation
Indices: 33577764--33577807 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
33577754 ATTTTTTAAT
* *
33577764 TATTTAAATTGAATTTTATA
1 TATTTTAATTGAATTATATA
33577784 TATTTTAATT-AATTATATA
1 TATTTTAATTGAATTATATA
33577803 T-TTTT
1 TATTTT
33577808 TGGTGTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTTTAATTGAATTATATA
Found at i:33584263 original size:44 final size:45
Alignment explanation
Indices: 33584179--33584271 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 45
33584169 AAATGAATAG
* * *
33584179 AAATAGAGAAATGGAAAACATTCAGAAATGATTATGATTTT-TCCA
1 AAATAGAGAAATGGAAAACATTCAAAAATAAATATGATTTTCT-CA
* * * *
33584224 AAATGGAGAAATGG-AATCATTCAAAAATAAATGTTATTTTCTCA
1 AAATAGAGAAATGGAAAACATTCAAAAATAAATATGATTTTCTCA
33584268 AAAT
1 AAAT
33584272 TGAAATGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
44 26 0.65
45 14 0.35
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (45 bp):
AAATAGAGAAATGGAAAACATTCAAAAATAAATATGATTTTCTCA
Found at i:33587965 original size:2 final size:2
Alignment explanation
Indices: 33587960--33587989 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33587950 ACGCACGCAC
33587960 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
33587990 TGTCTGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33592330 original size:19 final size:19
Alignment explanation
Indices: 33592302--33592338 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
33592292 GTAAAATTAT
33592302 TAAAATATTATA-AAAATC
1 TAAAATATTATAGAAAATC
33592320 TAAAATAATTATAGAAAAT
1 TAAAAT-ATTATAGAAAAT
33592339 AAATAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAATATTATAGAAAATC
Found at i:33592337 original size:13 final size:12
Alignment explanation
Indices: 33592321--33592362 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
33592311 ATAAAAATCT
33592321 AAAATAATTATA
1 AAAATAATTATA
*
33592333 GAAAATAAATAGTA
1 -AAAATAATTA-TA
33592347 AAAAT-ATTATA
1 AAAATAATTATA
33592358 AAAAT
1 AAAAT
33592363 TATAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 7 0.27
12 3 0.12
13 14 0.54
14 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (12 bp):
AAAATAATTATA
Found at i:33598713 original size:31 final size:31
Alignment explanation
Indices: 33598678--33598766 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 31
33598668 TTTTAGACTT
**
33598678 AAATAATTAAAAAATTAATTAAACCCTTTTA
1 AAATAATTAAAAAATTAATTAAACCCTCATA
*
33598709 AAATAATTAAAAAATTAATTAAGCCCTCATA
1 AAATAATTAAAAAATTAATTAAACCCTCATA
*
33598740 AAATAATTAAAATAA-CAATTAAACCCT
1 AAATAATTAAAA-AATTAATTAAACCCT
33598767 ATACATCAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
31 50 0.96
32 2 0.04
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.30
Consensus pattern (31 bp):
AAATAATTAAAAAATTAATTAAACCCTCATA
Found at i:33603961 original size:24 final size:24
Alignment explanation
Indices: 33603943--33603995 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
33603933 TAATGGATAT
33603943 GGCAACAGCAACAGCAATGGTAAG
1 GGCAACAGCAACAGCAATGGTAAG
**
33603967 GGCAAGGGCAACAGCAATGGTAAG
1 GGCAACAGCAACAGCAATGGTAAG
33603991 GGCAA
1 GGCAA
33603996 GGGCGACAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.34, T:0.08
Consensus pattern (24 bp):
GGCAACAGCAACAGCAATGGTAAG
Found at i:33603961 original size:30 final size:30
Alignment explanation
Indices: 33603920--33603983 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
33603910 AATGGGAATG
* *
33603920 GCAACAACAATGGTAATGG-ATATGGCAACA
1 GCAACAACAATGGTAAGGGCA-AGGGCAACA
*
33603950 GCAACAGCAATGGTAAGGGCAAGGGCAACA
1 GCAACAACAATGGTAAGGGCAAGGGCAACA
33603980 GCAA
1 GCAA
33603984 TGGTAAGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (30 bp):
GCAACAACAATGGTAAGGGCAAGGGCAACA
Found at i:33603996 original size:24 final size:24
Alignment explanation
Indices: 33603950--33604005 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
33603940 TATGGCAACA
33603950 GCAACAGCAATGGTAAGGGCAAGG
1 GCAACAGCAATGGTAAGGGCAAGG
33603974 GCAACAGCAATGGTAAGGGCAAGG
1 GCAACAGCAATGGTAAGGGCAAGG
*
33603998 GCGACAGC
1 GCAACAGC
33604006 GACGATGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.38, T:0.07
Consensus pattern (24 bp):
GCAACAGCAATGGTAAGGGCAAGG
Found at i:33606282 original size:150 final size:149
Alignment explanation
Indices: 33606052--33606355 Score: 423
Period size: 150 Copynumber: 2.0 Consensus size: 149
33606042 TTGTAAGGTG
* ***
33606052 TTATAAAAAAACGACAACACTAGTTAGAAAAAAATTGGGGTGCATTTAATATTTTTGATCATATG
1 TTATAAAAAAACGACAACACTAGCTAGAAAAAAATTAAAGTGCATTTAATATTTTTGATCATATG
*** * *
33606117 TATTTGTTTAATTAAATTTATTTTTACTTACAATTTAAATAAATTTATTTTTTTTAATTTCAT-A
66 TATTTACCTAATTAAATTTATTTTTACTCACAATTTAAATAAATTTA-TTTTTTAAATTTCATAA
33606181 CATATT-ACATATATTATTA
130 CATATTCACATATATTATTA
* * *
33606200 TTATAGAAAAATGACAACACTGAGCTAGAAAAATAATTAAAGTGCATTTAATATTTTTTATCATA
1 TTATAAAAAAACGACAACACT-AGCTAGAAAAA-AATTAAAGTGCATTTAATATTTTTGATCATA
*
33606265 TGTATTTACCTATTTAAATTTATTTTTACTCACAATTTAAATAAATTTATTTTTTAAATTTCATA
64 TGTATTTACCTAATTAAATTTATTTTTACTCACAATTTAAATAAATTTATTTTTTAAATTTCATA
*
33606330 GCACATATTCATATATATTATTA
129 --ACATATTCACATATATTATTA
33606353 TTA
1 TTA
33606356 ACTTCAAAAC
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
148 19 0.14
149 24 0.18
150 71 0.52
152 7 0.05
153 15 0.11
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (149 bp):
TTATAAAAAAACGACAACACTAGCTAGAAAAAAATTAAAGTGCATTTAATATTTTTGATCATATG
TATTTACCTAATTAAATTTATTTTTACTCACAATTTAAATAAATTTATTTTTTAAATTTCATAAC
ATATTCACATATATTATTA
Found at i:33619488 original size:3 final size:3
Alignment explanation
Indices: 33619480--33619508 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33619470 AAGCTGTCAA
33619480 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33619509 AACAAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33624511 original size:16 final size:15
Alignment explanation
Indices: 33624491--33624553 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
33624481 ATTAAAATTG
*
33624491 TAAAATTTAAAAAAA
1 TAAAAATTAAAAAAA
33624506 TAAAAA-T--AAAAA
1 TAAAAATTAAAAAAA
**
33624518 TAAAAATTAATTAAA
1 TAAAAATTAAAAAAA
*
33624533 TTAAAATATAAAGAAAA
1 TAAAAAT-TAAA-AAAA
33624550 TAAA
1 TAAA
33624554 TCCAAAACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
12 11 0.31
13 1 0.03
14 1 0.03
15 14 0.39
16 3 0.08
17 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
TAAAAATTAAAAAAA
Found at i:33624554 original size:21 final size:20
Alignment explanation
Indices: 33624491--33624554 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
33624481 ATTAAAATTG
* *
33624491 TAAAATTTAAAAAAATAAAAA
1 TAAAATATAAAAAAAT-AAAT
33624512 TAAAA-ATAAAAATTAATTAAAT
1 TAAAATATAAAAA--AA-TAAAT
33624534 TAAAATATAAAGAAAATAAAT
1 TAAAATATAAA-AAAATAAAT
33624555 CCAAAACTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 6 0.17
21 10 0.28
22 12 0.33
23 6 0.17
24 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAATATAAAAAAATAAAT
Found at i:33625786 original size:92 final size:92
Alignment explanation
Indices: 33625655--33625843 Score: 252
Period size: 92 Copynumber: 2.1 Consensus size: 92
33625645 TAACACCCAC
* ** * * * *
33625655 TACCATAATAAAACAAATATTGATAGTTTAGGTATCACATTATACATTTTCAAAGTACAAGTACC
1 TACCATAATAAAACAAATATTGATAGTTCAAATACCACATGAAACATTTTCAAAGTACAAGGACC
*
33625720 ACATTGGACATTTTATGAAAGTAAATG
66 ACATTGGACATTTTATGAAAATAAATG
* * * *
33625747 TACCATAATAAAACACATATTGATAGTTCAAATACCACATGAAATATTTTCAAAGTACAGGGATC
1 TACCATAATAAAACAAATATTGATAGTTCAAATACCACATGAAACATTTTCAAAGTACAAGGACC
* *
33625812 ATATTGGACATTTTATGAAAATACATG
66 ACATTGGACATTTTATGAAAATAAATG
33625839 TACCA
1 TACCA
33625844 AATGTGATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (92 bp):
TACCATAATAAAACAAATATTGATAGTTCAAATACCACATGAAACATTTTCAAAGTACAAGGACC
ACATTGGACATTTTATGAAAATAAATG
Found at i:33628838 original size:42 final size:42
Alignment explanation
Indices: 33628776--33628872 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
33628766 TATGAACGGC
*
33628776 ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAATGGGA
1 ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAACGGGA
* *
33628818 ACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACGGGC
1 ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAACGGGA
33628860 ACTAAGTGTGCGA
1 ACTAAGTGTGCGA
33628873 TACCGAGAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.26
Consensus pattern (42 bp):
ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAACGGGA
Found at i:33632231 original size:19 final size:19
Alignment explanation
Indices: 33632207--33632252 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
33632197 CTAGTACGTA
*
33632207 AAGTGCATGGTGGCACACG
1 AAGTGCATAGTGGCACACG
33632226 AAGTGCATAGTGGCACACG
1 AAGTGCATAGTGGCACACG
33632245 AAGTGCAT
1 AAGTGCAT
33632253 CCTGACGCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.17
Consensus pattern (19 bp):
AAGTGCATAGTGGCACACG
Found at i:33632597 original size:13 final size:13
Alignment explanation
Indices: 33632574--33632612 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
33632564 CGCATTATCA
33632574 CAATAGACTCACCT
1 CAAT-GACTCACCT
33632588 CAATGACTCACCT
1 CAATGACTCACCT
33632601 CAATGACTCACC
1 CAATGACTCACC
33632613 AATCAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (13 bp):
CAATGACTCACCT
Found at i:33640925 original size:2 final size:2
Alignment explanation
Indices: 33640918--33640942 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33640908 TGTCGAATAA
33640918 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 A
33640943 ATGAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33650704 original size:15 final size:15
Alignment explanation
Indices: 33650684--33650713 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33650674 TTTTTAATTC
33650684 CTTATATTTAAATAT
1 CTTATATTTAAATAT
33650699 CTTATATTTAAATAT
1 CTTATATTTAAATAT
33650714 TTTTTTATAT
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:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
CTTATATTTAAATAT
Found at i:33650908 original size:100 final size:100
Alignment explanation
Indices: 33650735--33650934 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
33650725 ATAAATCATA
*
33650735 ACTAAAGCAATTTATAATCATATAAAATTTGATATATTTATTTTCCATTAGAAGGCTTTTTTATC
1 ACTAAAGAAATTTATAATCATATAAAATTTGATATATTTATTTTCCATTAGAAGGCTTTTTTATC
33650800 CAATTGACTCAAAAGAATTAATTACTTACGAAAAT
66 CAATTGACTCAAAAGAATTAATTACTTACGAAAAT
33650835 ACTAAAGAAATTTATAATCATATAAAATTTGATATATTTATTTTCCATTAGAAGGCTTTTTTATC
1 ACTAAAGAAATTTATAATCATATAAAATTTGATATATTTATTTTCCATTAGAAGGCTTTTTTATC
33650900 CAATTGACTCAAAAGAATTAATTACTTACGAAAAT
66 CAATTGACTCAAAAGAATTAATTACTTACGAAAAT
33650935 GATCAAGTCA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (100 bp):
ACTAAAGAAATTTATAATCATATAAAATTTGATATATTTATTTTCCATTAGAAGGCTTTTTTATC
CAATTGACTCAAAAGAATTAATTACTTACGAAAAT
Found at i:33653326 original size:42 final size:41
Alignment explanation
Indices: 33653267--33653623 Score: 365
Period size: 42 Copynumber: 8.4 Consensus size: 41
33653257 GCTTTTACAG
*
33653267 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* ** *
33653308 AAAAAAAGACGCCACTAAAGATTGTGTTCTTTAGCGGCACTT
1 AAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
33653350 AACAAAAAATGCCGCTAAAAAACATGTTCTTTAGCGGCGCTT
1 AA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
33653392 AAAATAAAGACGCCACTAAAGATCATGTTCTTTAGCGGCGGTT
1 AAAA-AAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
33653435 ACAAAAAATCGCCGCTAAAGATAATGTTCTTTAGCGGCGCTT
1 A-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
33653477 AAAGAAAAACGCCGCTAGAGATAATGTTCTTTAGCGGTGCTT
1 AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
33653519 GGTAAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCGCTTT
1 --AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TT
** ** * *
33653563 CATCACGAACGCCGCGGAAAG-TAATGTTCTTTAGCGGCGCTTTT
1 -AAAAAAAACGCCGC-TAAAGATCATGTTCTTTAGCGGCGC--TT
* *
33653607 ATAAAAAACGCCACTAA
1 AAAAAAAACGCCGCTAA
33653624 TTTTGGGATT
Statistics
Matches: 263, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
41 11 0.04
42 131 0.50
43 108 0.41
44 13 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:33653423 original size:85 final size:83
Alignment explanation
Indices: 33653269--33653623 Score: 349
Period size: 85 Copynumber: 4.2 Consensus size: 83
33653259 TTTTACAGAA
* * * **
33653269 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTAAAAAAAGACGCCACTAAAGATTGTG
1 AAAAAACGCCGCTAAAAAACATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCACTAAAGATAATG
*
33653334 TTCTTTAGCGGCACTTAAC
66 TTCTTTAGCGGCGCTT-AC
* *
33653353 AAAAAATGCCGCTAAAAAACATGTTCTTTAGCGGCGCTTAAAATAAAGACGCCACTAAAGATCAT
1 AAAAAACGCCGCTAAAAAACATGTTCTTTAGCGGCGCTTAAAA-AAAGACGCCACTAAAGATAAT
*
33653418 GTTCTTTAGCGGCGGTTAC
65 GTTCTTTAGCGGCGCTTAC
* * *
33653437 AAAAAATCGCCGCTAAAGATA-ATGTTCTTTAGCGGCGCTTAAAGAAAA-ACGCCGCTAGAGATA
1 AAAAAA-CGCCGCTAAA-AAACATGTTCTTTAGCGGCGCTTAAA-AAAAGACGCCACTAAAGATA
*
33653500 ATGTTCTTTAGCGGTGCTTGGTA-
63 ATGTTCTTTAGCGGCGC-T--TAC
* * * ** ** * * *
33653523 AAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCGCTTTCATCACGAACGCCGCGGAAAG-TAA
1 AAAAAACGCCGCTAAAAAACATGTTCTTTAGCGGCGCTTAAAAAAAG-ACGCCAC-TAAAGATAA
*
33653587 TGTTCTTTAGCGGCGCTTTTAT
64 TGTTCTTTAGCGGCGC--TTAC
*
33653609 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
33653624 TTTTGGGATT
Statistics
Matches: 229, Mismatches: 29, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
84 75 0.33
85 100 0.44
86 47 0.21
87 7 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (83 bp):
AAAAAACGCCGCTAAAAAACATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCACTAAAGATAATG
TTCTTTAGCGGCGCTTAC
Found at i:33653453 original size:127 final size:126
Alignment explanation
Indices: 33653266--33653558 Score: 387
Period size: 127 Copynumber: 2.3 Consensus size: 126
33653256 AGCTTTTACA
* *
33653266 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTAAAAAAAGACGCCACTAAAGATT
1 GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGGTTAAAAAAAGACGCCACTAAAGATA
* *
33653331 GTGTTCTTTAGCGGCACTTAACA-AAAAATGCCGCTA-AAAAACATGTTCTTTAGCGGCGCTT
66 ATGTTCTTTAGCGGCACTTAA-AGAAAAACGCCGCTAGAAAAA-ATGTTCTTTAGCGGCGCTT
* * *
33653392 -AAAATAAAGACGCCACTAAAGATCATGTTCTTTAGCGGCGGTTACAAAAAA-TCGCCGCTAAAG
1 GAAAA-AAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGGTTA-AAAAAAGACGCCACTAAAG
* * * *
33653455 ATAATGTTCTTTAGCGGCGCTTAAAGAAAAACGCCGCTAGAGATAATGTTCTTTAGCGGTGCTT
63 ATAATGTTCTTTAGCGGCACTTAAAGAAAAACGCCGCTAGAAAAAATGTTCTTTAGCGGCGCTT
* *
33653519 GGTAAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCG
1 -GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
33653559 CTTTCATCAC
Statistics
Matches: 146, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
125 4 0.03
126 4 0.03
127 123 0.84
128 12 0.08
129 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (126 bp):
GAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGGTTAAAAAAAGACGCCACTAAAGATA
ATGTTCTTTAGCGGCACTTAAAGAAAAACGCCGCTAGAAAAAATGTTCTTTAGCGGCGCTT
Found at i:33654060 original size:21 final size:21
Alignment explanation
Indices: 33654007--33654060 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
33653997 GCTTCTCTCG
* *
33654007 CTGCTTCTCGCGCTGCAGCCT
1 CTGCTTCTCTCGCTACAGCCT
33654028 CTGCTTCTCTCGCTACAGCCT
1 CTGCTTCTCTCGCTACAGCCT
*
33654049 CTGCTTCCCTCG
1 CTGCTTCTCTCG
33654061 TTGTCGCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.06, C:0.44, G:0.19, T:0.31
Consensus pattern (21 bp):
CTGCTTCTCTCGCTACAGCCT
Found at i:33655984 original size:114 final size:113
Alignment explanation
Indices: 33655854--33656419 Score: 642
Period size: 114 Copynumber: 5.0 Consensus size: 113
33655844 GACACTTCAA
* * *
33655854 CAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCATT-CTTAAAACGCCACTAAAGCCTACGA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTACTTAAAACGCCACTAAATCC-CCGA
* * * *
33655918 ATTG-TCAGAAAACGGTGTAGTTCGG-TTTAGTTTTTGTTGCGGCGCTTTCT
64 A-AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTT-TTGCGGCGCTTTCT
* *
33655968 CAAAAACGCCGCTAAAGCCCTGAACATTAGCGGTGCTTACTTAAAAACGCCACTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTT-AAAACGCCACTAAATCCCCGAA
* * * *
33656033 AGCTCAAAAAACGGCGTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCT
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTTCT
* * * * *
33656082 CAAAAGCGCTGCTAAAG-CCTGAGCATTAGCGGCGCTTACCTAAAAACACCACTAACTCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTA-CTTAAAACGCCACTAAATCCCCGAA
* * *
33656146 TGCTCAGAAAACGGCGTCGTTGGGC-TTAGGTATTTTTT-CGGTGCTTTCC
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTA-GT-TTTTTTGCGGCGCTTTCT
* * * * *
33656195 CGAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGTTTACTAAAAAACGCCATTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACT-TAAAACGCCACTAAATCCCCGAA
* *
33656260 AGCTCAGAAAACGGCGTCGTTGGGCTTTGGTTTTTTTGTGGCGCTTTCT
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTTCT
* * * * * *
33656309 CGAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCACTTTCTTAAAAATGCCGCTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTT-AAAACGCCACTAAATCCCCGAA
* * * * *
33656374 AGCTCGGAAAACGGCGTCGTTGTGC-TTAGGTATTTTGCGACGCTTT
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTT
33656420 ATGGAAACGC
Statistics
Matches: 385, Mismatches: 55, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
112 2 0.01
113 113 0.29
114 243 0.63
115 27 0.07
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (113 bp):
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAACGCCACTAAATCCCCGAAA
GCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTTCT
Found at i:33656243 original size:227 final size:228
Alignment explanation
Indices: 33655856--33656410 Score: 728
Period size: 227 Copynumber: 2.4 Consensus size: 228
33655846 CACTTCAACA
* * * *
33655856 AAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCATT-CTTAAAACGCCACTAAAGCCTACGAAT
1 AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTCCTAAAAACGCCACTAAATCC-CCGAA-
* * * * *
33655920 TG-TCAGAAAACGGTGTAGTTCGGTTTA-GT-TTTTGTTGCGGCGCTTTCTCAAAAACGCCGCTA
63 TGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTGCGGCGCTTTCCCAAAAACGCCGCTA
* *
33655982 AAGCCCTGAACATTAGCGGTGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGG
128 AAGCCCTGAACATTAGCGGCGCTTACTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGG
33656047 CGTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
193 CGTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
* * *
33656083 AAAAGCGCTGCTAAAG-CCTGAGCATTAGCGGCGCTTACCTAAAAACACCACTAACTCCCCGAAT
1 AAAA-CGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT-CCTAAAAACGCCACTAAATCCCCGAAT
* *
33656147 GCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTT-TT-CGGTGCTTTCCCGAAAACGCCGCTAA
64 GCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTGCGGCGCTTTCCCAAAAACGCCGCTAA
* * * * *
33656210 AGCCCTGAGCATTAGTGGCGTTTACTAAAAAACGCCATTAAATCCCCGAAAGCTCAGAAAACGGC
129 AGCCCTGAACATTAGCGGCGCTTACTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGC
*
33656275 GTCGTTGGGCTTTGGTTTTTTTGTGGCGCTTTCTC
194 GTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
* * * * * *
33656310 GAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCACTTTCTTAAAAATGCCGCTAAATCCCCGAAA
1 -AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTCCTAAAAACGCCACTAAATCCCCGAAT
* *
33656375 GCTCGGAAAACGGCGTCGTTGTGCTTAGGTATTTTG
64 GCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTG
33656411 CGACGCTTTA
Statistics
Matches: 285, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
226 4 0.01
227 171 0.60
228 104 0.36
229 6 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (228 bp):
AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAACGCCACTAAATCCCCGAATGC
TCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTGCGGCGCTTTCCCAAAAACGCCGCTAAAG
CCCTGAACATTAGCGGCGCTTACTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGT
CGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
Found at i:33662040 original size:61 final size:63
Alignment explanation
Indices: 33661938--33662077 Score: 160
Period size: 61 Copynumber: 2.2 Consensus size: 63
33661928 ATCTAATGCT
* * **
33661938 CCAATCAATTCAGCAATATATATATTCATATACGAATCAAATTCGACAATGAAT-ATCGATATA
1 CCAATCAATTCGGCAATATATATATCCATATAAAAATCAAATTCGACAATGAATAATC-ATATA
* * * *
33662001 CCAAGCAATTCGGCAATATATA-A-CCATATAAAAATCAAATTTGGCAATGTATAATCATATA
1 CCAATCAATTCGGCAATATATATATCCATATAAAAATCAAATTCGACAATGAATAATCATATA
*
33662062 CAAATCAAATTCGGCA
1 CCAATC-AATTCGGCA
33662078 TCCTATATTC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
61 32 0.49
62 13 0.20
63 20 0.31
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (63 bp):
CCAATCAATTCGGCAATATATATATCCATATAAAAATCAAATTCGACAATGAATAATCATATA
Found at i:33662090 original size:31 final size:31
Alignment explanation
Indices: 33661940--33662095 Score: 113
Period size: 31 Copynumber: 5.0 Consensus size: 31
33661930 CTAATGCTCC
* * *
33661940 AATC-AATTCAGCAATATATATATTCATATACG
1 AATCAAATTCGGCAATCTATA-A-TCATATACA
* ** *
33661972 AATCAAATTCGACAATGAAT-ATCGATATACC
1 AATCAAATTCGGCAATCTATAATC-ATATACA
* * * *
33662003 AAGC-AATTCGGCAATATATAACCATATAAA
1 AATCAAATTCGGCAATCTATAATCATATACA
* *
33662033 AATCAAATTTGGCAATGTATAATCATATACA
1 AATCAAATTCGGCAATCTATAATCATATACA
* *
33662064 AATCAAATTCGGC-ATCCTATATTCATAAACA
1 AATCAAATTCGGCAAT-CTATAATCATATACA
33662095 A
1 A
33662096 TTTAATTTCA
Statistics
Matches: 98, Mismatches: 21, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
30 24 0.24
31 59 0.60
32 4 0.04
33 11 0.11
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (31 bp):
AATCAAATTCGGCAATCTATAATCATATACA
Found at i:33662124 original size:93 final size:92
Alignment explanation
Indices: 33662014--33662303 Score: 275
Period size: 93 Copynumber: 3.1 Consensus size: 92
33662004 AGCAATTCGG
* * * *
33662014 CAATATATAACCATATAAAAATCAAATTT-GGCAATGTAT-AATCATATACAAATCAAATTCGGC
1 CAATGTATAACCATATAAAAAT-AAATTTCAGCAATGT-TCAACCATATACAAATC-AATTCAGC
* * *
33662077 ATCCTATATTCATAAACAATTTAATTTCAA
63 AACCTATATACATAAACAATTCAATTTCAA
* * * *
33662107 CAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATACGAATCATTTCAGCAA
1 CAATGTATAACCATAT-AAAAATAAATTTCAGCAATGTTCAACCATATACAAATCAATTCAGCAA
* ** *
33662172 CTTATATACATGTACAATTCAATTTCAG
65 CCTATATACATAAACAATTCAATTTCAA
* * * * *
33662200 CAATGAATAACCATATAAAAATTATTTTCAGCAATGTTCAACCATATA-AGAACCATTTCAGCAA
1 CAATGTATAACCATATAAAAATAAATTTCAGCAATGTTCAACCATATACA-AATCAATTCAGCAA
* * * *
33662264 CTTATGTA-ATACAA-AATTCAATATCAG
65 CCTATATACATA-AACAATTCAATTTCAA
33662291 CAATGTATAACCA
1 CAATGTATAACCA
33662304 AAAACAATTC
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
91 26 0.15
92 53 0.31
93 64 0.38
94 26 0.15
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (92 bp):
CAATGTATAACCATATAAAAATAAATTTCAGCAATGTTCAACCATATACAAATCAATTCAGCAAC
CTATATACATAAACAATTCAATTTCAA
Found at i:33662229 original size:31 final size:30
Alignment explanation
Indices: 33662101--33662248 Score: 113
Period size: 31 Copynumber: 4.8 Consensus size: 30
33662091 AACAATTTAA
*
33662101 TTTCAACAATGTATAACCATATAAAAAATTAT
1 TTTCAGCAATG-ATAACCATAT-AAAAATTAT
* ** *
33662133 TTTCAGCAATGTTCAACCATATACGAATCA-
1 TTTCAGCAATGAT-AACCATATAAAAATTAT
* * * *
33662163 TTTCAGCAACTTATATA-CATGT-ACAATTCAA
1 TTTCAGCAA-TGATA-ACCATATAAAAATT-AT
33662194 TTTCAGCAATGAATAACCATATAAAAATTAT
1 TTTCAGCAATG-ATAACCATATAAAAATTAT
*
33662225 TTTCAGCAATGTTCAACCATATAA
1 TTTCAGCAATGAT-AACCATATAA
33662249 GAACCATTTC
Statistics
Matches: 91, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
29 3 0.03
30 18 0.20
31 47 0.52
32 23 0.25
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (30 bp):
TTTCAGCAATGATAACCATATAAAAATTAT
Found at i:33662258 original size:92 final size:92
Alignment explanation
Indices: 33662092--33662303 Score: 318
Period size: 92 Copynumber: 2.3 Consensus size: 92
33662082 ATATTCATAA
* * *
33662092 ACAATTTAATTTCAACAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAC
1 ACAATTCAATTTCAGCAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAA
* **
33662157 GAATCATTTCAGCAACTTATATACATGT
66 GAACCATTTCAGCAACTTATATA-ATAC
*
33662185 ACAATTCAATTTCAGCAATGAATAACCATAT-AAAAATTATTTTCAGCAATGTTCAACCATATAA
1 ACAATTCAATTTCAGCAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAA
*
33662249 GAACCATTTCAGCAACTTATGTAATAC
66 GAACCATTTCAGCAACTTATATAATAC
* *
33662276 AAAATTCAATATCAGCAATGTATAACCA
1 ACAATTCAATTTCAGCAATGTATAACCA
33662304 AAAACAATTC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 27 0.25
92 53 0.49
93 28 0.26
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (92 bp):
ACAATTCAATTTCAGCAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAA
GAACCATTTCAGCAACTTATATAATAC
Found at i:33663046 original size:26 final size:26
Alignment explanation
Indices: 33663015--33663066 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
33663005 CAAAGGGCCG
33663015 AACCCTAAAATGCTTGAAATGGTCTT
1 AACCCTAAAATGCTTGAAATGGTCTT
33663041 AACCCTAAAATGCTTGAAATGGTCTT
1 AACCCTAAAATGCTTGAAATGGTCTT
33663067 TCTTCTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
AACCCTAAAATGCTTGAAATGGTCTT
Found at i:33669911 original size:3 final size:3
Alignment explanation
Indices: 33669903--33669928 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33669893 AACCAAAAAG
33669903 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
33669929 CATTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:33670227 original size:29 final size:31
Alignment explanation
Indices: 33670162--33670237 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
33670152 TTAAAATTAT
* * * *
33670162 ACATGAACTTTGATTTAATGTGTAATTGTAT
1 ACATGAACTTTAATTTAATGTGCAATTATAC
33670193 ACATGAACTTTAATTT-A-GTGCAATTATAC
1 ACATGAACTTTAATTTAATGTGCAATTATAC
*
33670222 ACATGAAACTCTAATT
1 ACATG-AACTTTAATT
33670238 GTGGCTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.36
30 10 0.26
31 15 0.38
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
ACATGAACTTTAATTTAATGTGCAATTATAC
Found at i:33677333 original size:3 final size:3
Alignment explanation
Indices: 33677325--33677355 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33677315 TCAATCGATG
33677325 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33677356 AGCAATCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33677513 original size:16 final size:16
Alignment explanation
Indices: 33677489--33677530 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
33677479 TTTGGTTTGC
* *
33677489 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
33677505 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
33677521 TGTAATGGAA
1 TGTAATGGAA
33677531 AAGCTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:33677796 original size:18 final size:17
Alignment explanation
Indices: 33677775--33677809 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33677765 TTATTATTAA
*
33677775 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
33677793 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33677810 TCTTAANNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:33689086 original size:3 final size:3
Alignment explanation
Indices: 33689072--33689107 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
33689062 CTTATCACAT
* *
33689072 CCA CCG CCA CCA CCA CCA CCA CCA CCA CCT CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
33689108 TAACTGCCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.67, G:0.03, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:33706330 original size:31 final size:31
Alignment explanation
Indices: 33706287--33706353 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
33706277 ATAAAATAGC
*
33706287 CATTAAACTATTTGAAAGCTTTCATTTAAGT
1 CATTGAACTATTTGAAAGCTTTCATTTAAGT
* *
33706318 CATTGAACTATTTGAAAGTTTTTATTTAAGT
1 CATTGAACTATTTGAAAGCTTTCATTTAAGT
33706349 CATTG
1 CATTG
33706354 GGTTATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (31 bp):
CATTGAACTATTTGAAAGCTTTCATTTAAGT
Found at i:33715061 original size:17 final size:17
Alignment explanation
Indices: 33715034--33715079 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
33715024 CCGATATAAT
* * *
33715034 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
33715051 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
33715068 AAATATTTTTAA
1 AAATATTTTTAA
33715080 AATACATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:33715107 original size:29 final size:26
Alignment explanation
Indices: 33715074--33715128 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 26
33715064 TTTAAAATAT
*
33715074 TTTTAAAATACATTTTTTATTATTTTTAA
1 TTTTAAAACAC-TTTTTTA--ATTTTTAA
33715103 TTTTAAAACACTTTTTTAATTTTTAA
1 TTTTAAAACACTTTTTTAATTTTTAA
33715129 AATAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
28 7 0.28
29 10 0.40
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAAAACACTTTTTTAATTTTTAA
Found at i:33715138 original size:20 final size:19
Alignment explanation
Indices: 33715095--33715139 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
33715085 ATTTTTTATT
*
33715095 ATTTTTAATTTTAAAACAC
1 ATTTTTAATTTTAAAACAA
* *
33715114 TTTTTTAATTTTTAAAATAA
1 ATTTTTAA-TTTTAAAACAA
33715134 ATTTTT
1 ATTTTT
33715140 GGTATTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTAATTTTAAAACAA
Found at i:33719154 original size:17 final size:18
Alignment explanation
Indices: 33719123--33719156 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33719113 TATGTTAATT
33719123 TTATTGATTTAAATAGAG
1 TTATTGATTTAAATAGAG
*
33719141 TTATT-ATTTGAATAGA
1 TTATTGATTTAAATAGA
33719157 ATTTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATTGATTTAAATAGAG
Found at i:33721773 original size:24 final size:24
Alignment explanation
Indices: 33721735--33721816 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
33721725 CAACTCGAAA
** *
33721735 GAGCATCCCGTTATTAACTCTCGT
1 GAGCATCCCAATATTAGCTCTCGT
* *
33721759 GAGCATCCCAATATTTGGCTCTCAT
1 GAGCATCCCAATA-TTAGCTCTCGT
*
33721784 GAGCTTCCCAATATTAGCTCTTCG-
1 GAGCATCCCAATATTAGCTC-TCGT
33721808 GAGCATCCC
1 GAGCATCCC
33721817 GATTTGGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 25 0.53
25 22 0.47
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (24 bp):
GAGCATCCCAATATTAGCTCTCGT
Found at i:33721934 original size:24 final size:24
Alignment explanation
Indices: 33721865--33721934 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
33721855 CAGCACTTAT
* * *
33721865 GAGCGTCCCGTTATATGGCTCTTTG
1 GAGCTTCCCGATA-ATGGCTCTTCG
33721890 GAGCTTCCCGATTAATGGCTCTTCG
1 GAGCTTCCCGA-TAATGGCTCTTCG
33721915 GAGCTTCCCGATAATGGCTC
1 GAGCTTCCCGATAATGGCTC
33721935 ACTTGAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 9 0.22
25 30 0.73
26 2 0.05
ACGTcount: A:0.16, C:0.27, G:0.26, T:0.31
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGCTCTTCG
Found at i:33721965 original size:24 final size:23
Alignment explanation
Indices: 33721878--33721965 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 23
33721868 CGTCCCGTTA
*
33721878 TATGGCTCTTTGGAGCTTCCCGAT
1 TATGGCTCTTT-GAACTTCCCGAT
* *
33721902 TAATGGCTCTTCGGAGCTTCCCGAT
1 T-ATGGCTCTT-TGAACTTCCCGAT
* * *
33721927 AATGGCTCACTTGAACTTCCCAAT
1 TATGGCTC-TTTGAACTTCCCGAT
33721951 TATGGCTCTTATGAA
1 TATGGCTCTT-TGAA
33721966 GTTCTTGTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 29 0.56
25 22 0.42
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
TATGGCTCTTTGAACTTCCCGAT
Found at i:33722000 original size:25 final size:25
Alignment explanation
Indices: 33721972--33722026 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
33721962 TGAAGTTCTT
*
33721972 GTTATACAGCTCGA-ATGAGTTTCCC
1 GTTATACAGCTC-ACATGAGCTTCCC
* **
33721997 GTTACATGGCTCACATGAGCTTCCC
1 GTTATACAGCTCACATGAGCTTCCC
33722022 GTTAT
1 GTTAT
33722027 TTAGTTCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
GTTATACAGCTCACATGAGCTTCCC
Found at i:33723572 original size:22 final size:22
Alignment explanation
Indices: 33723547--33723601 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
33723537 TAAGGGTGTT
*
33723547 ACAAGATAATAGTAAGAAAACA
1 ACAAGAAAATAGTAAGAAAACA
* * *
33723569 ACAACAAAATTGTAGGAAAACA
1 ACAAGAAAATAGTAAGAAAACA
*
33723591 ACAAGAGAATA
1 ACAAGAAAATA
33723602 ATATATTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.62, C:0.11, G:0.15, T:0.13
Consensus pattern (22 bp):
ACAAGAAAATAGTAAGAAAACA
Found at i:33724892 original size:10 final size:10
Alignment explanation
Indices: 33724877--33724949 Score: 80
Period size: 10 Copynumber: 7.5 Consensus size: 10
33724867 TTTTTCAATT
33724877 AATTATTAAA
1 AATTATTAAA
33724887 AATTATTAAA
1 AATTATTAAA
*
33724897 AACTA-TAAGA
1 AATTATTAA-A
33724907 AATTA-TAAA
1 AATTATTAAA
*
33724916 AA-TATTATA
1 AATTATTAAA
*
33724925 AATTAATAAA
1 AATTATTAAA
*
33724935 AATTATTTAA
1 AATTATTAAA
33724945 AATTA
1 AATTA
33724950 CAATAAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.04
9 11 0.21
10 40 0.75
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (10 bp):
AATTATTAAA
Found at i:33724917 original size:19 final size:18
Alignment explanation
Indices: 33724886--33724937 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
33724876 TAATTATTAA
33724886 AAATTATTAAAAACTATAAG
1 AAATTA-TAAAAA-TATAAG
* *
33724906 AAATTATAAAAATATTAT
1 AAATTATAAAAATATAAG
33724924 AAATTAATAAAAAT
1 AAATT-ATAAAAAT
33724938 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 14 0.48
20 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTATAAAAATATAAG
Found at i:33724945 original size:19 final size:18
Alignment explanation
Indices: 33724880--33724960 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 18
33724870 TTCAATTAAT
*
33724880 TATTAAAAATTATTAAAAA
1 TATTATAAATTA-TAAAAA
* *
33724899 CTATAAGAAATTATAAAAA
1 -TATTATAAATTATAAAAA
33724918 TATTATAAATTAATAAAAA
1 TATTATAAATT-ATAAAAA
*
33724937 TTATT-TAAAATTACAATAAA
1 -TATTAT-AAATTATAA-AAA
33724957 TATT
1 TATT
33724961 TGAATTACAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
18 9 0.17
19 21 0.40
20 22 0.42
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (18 bp):
TATTATAAATTATAAAAA
Found at i:33724948 original size:38 final size:39
Alignment explanation
Indices: 33724880--33724960 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 39
33724870 TTCAATTAAT
* *
33724880 TATTAAAAATTATTAAAAACTATAAGAAATTATAA-AAA
1 TATTAAAAATTAATAAAAACTATAAGAAATTACAATAAA
* * *
33724918 TATTATAAATTAATAAAAATTATTTA-AAATTACAATAAA
1 TATTAAAAATTAATAAAAACTA-TAAGAAATTACAATAAA
33724957 TATT
1 TATT
33724961 TGAATTACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (39 bp):
TATTAAAAATTAATAAAAACTATAAGAAATTACAATAAA
Found at i:33725063 original size:90 final size:91
Alignment explanation
Indices: 33724954--33725139 Score: 365
Period size: 90 Copynumber: 2.1 Consensus size: 91
33724944 AAATTACAAT
33724954 AAATATTTGAATTACAAATTAATTATCATTATCGGGTTACATTTTATTTAAATATCTAATAATTA
1 AAATATTTGAATTACAAATTAATTATCATTATCGGGTTACATTTTATTTAAATATCTAATAATTA
33725019 TTATGATGAATTACTATAAACATACA
66 TTATGATGAATTACTATAAACATACA
33725045 AAATATTTG-ATTACAAATTAATTATCATTATCGGGTTACATTTTATTTAAATATCTAATAATTA
1 AAATATTTGAATTACAAATTAATTATCATTATCGGGTTACATTTTATTTAAATATCTAATAATTA
33725109 TTATGATGAATTACTATAAACATACA
66 TTATGATGAATTACTATAAACATACA
33725135 AAATA
1 AAATA
33725140 AATTGAAATG
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 86 0.91
91 9 0.09
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (91 bp):
AAATATTTGAATTACAAATTAATTATCATTATCGGGTTACATTTTATTTAAATATCTAATAATTA
TTATGATGAATTACTATAAACATACA
Found at i:33727389 original size:27 final size:27
Alignment explanation
Indices: 33727359--33727411 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
33727349 GGATTATTCC
33727359 GTGTTTAACATCCTATTAGACAATCTT
1 GTGTTTAACATCCTATTAGACAATCTT
* * *
33727386 GTGTTTAACATCTTGTTAGACTATCT
1 GTGTTTAACATCCTATTAGACAATCT
33727412 ATGATGCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (27 bp):
GTGTTTAACATCCTATTAGACAATCTT
Found at i:33746899 original size:28 final size:29
Alignment explanation
Indices: 33746810--33746901 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
33746800 CTCTATATTA
* * *
33746810 AAAGATTGAATATTTGAAGTTGGGTGGAT
1 AAAGATTGAAGAATTGAAGTTGGCTGGAT
* * *
33746839 TAAGATTGAAG-ATTCGAAGTAGGCTAGAT
1 AAAGATTGAAGAATT-GAAGTTGGCTGGAT
33746868 AAAGATTGAAGAATTGAA-TTGGCTGGAT
1 AAAGATTGAAGAATTGAAGTTGGCTGGAT
33746896 AAAGAT
1 AAAGAT
33746902 CAAATTATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
28 16 0.31
29 33 0.63
30 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.29
Consensus pattern (29 bp):
AAAGATTGAAGAATTGAAGTTGGCTGGAT
Found at i:33746976 original size:14 final size:15
Alignment explanation
Indices: 33746957--33746985 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33746947 TAATCTTTAG
33746957 TTTAAATA-TGATTT
1 TTTAAATATTGATTT
33746971 TTTAAATATTGATTT
1 TTTAAATATTGATTT
33746986 ATCTAGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
TTTAAATATTGATTT
Found at i:33765899 original size:3 final size:3
Alignment explanation
Indices: 33765891--33765927 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
33765881 NNNNNNNNNN
33765891 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33765928 AGTTAACAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33772994 original size:6 final size:6
Alignment explanation
Indices: 33772983--33773023 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
33772973 GAAGACAGGT
33772983 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCAT
1 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCAT
33773024 TGAGCTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.51, G:0.15, T:0.17
Consensus pattern (6 bp):
CCCATG
Found at i:33775884 original size:92 final size:92
Alignment explanation
Indices: 33775739--33775908 Score: 236
Period size: 92 Copynumber: 1.8 Consensus size: 92
33775729 ACACCTACTC
* * * * * *
33775739 ATGTTGTGATATGCCAATCTAGAATTCATCTTACTAGAAGCAATATAGTGAGTGGTTTTGTATTA
1 ATGTCGTGATATGCCAATCCAGAATTCATCTTACTAGAAGCAACACAGTGAGTGGTTTCGTATCA
33775804 CACAATGCCATGGGTTTACACTTCCTT
66 CACAATGCCATGGGTTTACACTTCCTT
* *
33775831 ATGTCGTGATCTGCCAATCCA-AACTTCATCTTACTGGAAGCAACACCA-TGAGTGGTTTCGTAT
1 ATGTCGTGATATGCCAATCCAGAA-TTCATCTTACTAGAAGCAACA-CAGTGAGTGGTTTCGTAT
33775894 CACACAATGCCATGG
64 CACACAATGCCATGG
33775909 ATCTCAACCA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 2 0.03
92 65 0.96
93 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (92 bp):
ATGTCGTGATATGCCAATCCAGAATTCATCTTACTAGAAGCAACACAGTGAGTGGTTTCGTATCA
CACAATGCCATGGGTTTACACTTCCTT
Found at i:33782974 original size:23 final size:22
Alignment explanation
Indices: 33782938--33783002 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
33782928 AGAGAATTGG
* *
33782938 AAATAAAATTTATTTTTATTAATT
1 AAAT-AAATATATTTTTATTAA-A
*
33782962 AAATAAATATATTTTAAGTTAAA
1 AAATAAATATATTTTTA-TTAAA
33782985 AAATAAATAT-TTTTTATT
1 AAATAAATATATTTTTATT
33783003 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.06
22 5 0.14
23 21 0.58
24 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATAAATATATTTTTATTAAA
Found at i:33784158 original size:29 final size:30
Alignment explanation
Indices: 33784112--33784170 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
33784102 AAATTAAATC
*
33784112 AAATCAAAATGTTATGTATAAAATTGCACA
1 AAATCAAAATGTTATGTATAAAATTACACA
*
33784142 AAATC-AAA-GTTCATGTATAACATTACACA
1 AAATCAAAATGTT-ATGTATAAAATTACACA
33784171 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (30 bp):
AAATCAAAATGTTATGTATAAAATTACACA
Found at i:33795788 original size:101 final size:101
Alignment explanation
Indices: 33795613--33795852 Score: 345
Period size: 101 Copynumber: 2.4 Consensus size: 101
33795603 TGAATCGACG
*
33795613 GATAAGATCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
* * * *
33795678 ATATGTAAGACCATAGTTGGGCTATGACATTTTGGT
66 ATATGTAAGACCATAGCTAGGCTATGACATTCTGAT
* * * * ** *
33795714 GATAAGACCATAACTGGATTATGACACTATGAACGTAAGACCATGTTTGGACCATGGTAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
*
33795779 ATATGTAAGATCATAGCTAGGCTATGACATTCTGAT
66 ATATGTAAGACCATAGCTAGGCTATGACATTCTGAT
* *
33795815 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
33795853 ATGATGAATT
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
ATATGTAAGACCATAGCTAGGCTATGACATTCTGAT
Found at i:33798317 original size:13 final size:13
Alignment explanation
Indices: 33798299--33798324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33798289 TCTTTTGTAT
33798299 AAAAAATAACAAG
1 AAAAAATAACAAG
33798312 AAAAAATAACAAG
1 AAAAAATAACAAG
33798325 TGTTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATAACAAG
Found at i:33812309 original size:17 final size:17
Alignment explanation
Indices: 33812287--33812322 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
33812277 CGATTGCATG
33812287 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
33812304 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
33812321 TT
1 TT
33812323 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:33812713 original size:32 final size:34
Alignment explanation
Indices: 33812650--33812713 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
33812640 TCTAATAATT
* *
33812650 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
33812684 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
33812714 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:33822291 original size:44 final size:45
Alignment explanation
Indices: 33822228--33822325 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
33822218 CTATTACACC
* *
33822228 TCTATTCCATTCAACCAAACACAAGA-TTACTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*** *
33822272 TCTATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*
33822317 TCCATTACA
1 TCTATTACA
33822326 CCTCTATTCC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 22 0.48
45 24 0.52
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
Found at i:33822324 original size:45 final size:44
Alignment explanation
Indices: 33822216--33822325 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
33822206 TTTTCCATTA
33822216 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
33822255 TACTATTACGCCTCTATTCTATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
33822300 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
33822326 CCTCTATTCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 16 0.29
44 16 0.29
45 24 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:33822325 original size:16 final size:16
Alignment explanation
Indices: 33822304--33823109 Score: 1594
Period size: 16 Copynumber: 50.4 Consensus size: 16
33822294 TTGATTTGCT
33822304 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822320 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822336 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822352 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822368 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822384 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822400 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822416 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822432 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822448 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822464 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822480 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822496 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822512 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822528 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822544 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822560 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822576 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822592 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822608 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822624 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822640 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822656 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822672 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822688 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822704 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822720 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822736 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822752 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822768 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822784 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822800 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822816 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822832 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822848 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822864 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822880 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822896 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822912 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822928 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822944 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822960 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822976 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33822992 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33823008 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33823024 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33823040 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33823056 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
33823072 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
33823088 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
33823104 AATACA
1 ATTACA
33823110 GCGAACCAAA
Statistics
Matches: 788, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 788 1.00
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:33834528 original size:2 final size:2
Alignment explanation
Indices: 33834523--33834551 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33834513 NTTTTTTCTT
33834523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33834552 TATTCTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33840339 original size:20 final size:19
Alignment explanation
Indices: 33840296--33840339 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
33840286 AAGGATTATT
*
33840296 TTTTAATATTTAAAATATA
1 TTTTAATATTTAAAATAAA
* *
33840315 GTTTATATATTTAAATTAAA
1 TTTTA-ATATTTAAAATAAA
33840335 TTTTA
1 TTTTA
33840340 CAAAAAATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTAATATTTAAAATAAA
Found at i:33841895 original size:24 final size:24
Alignment explanation
Indices: 33841856--33841902 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
33841846 AATTAAATTC
33841856 TATATTAATATTAAATAAATATAAT
1 TATATTAATATTAAATAAA-ATAAT
33841881 TATATT-ATATTAAATAAAATAA
1 TATATTAATATTAAATAAAATAA
33841903 AGATCCCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.18
24 12 0.55
25 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATTAATATTAAATAAAATAAT
Found at i:33842371 original size:21 final size:19
Alignment explanation
Indices: 33842337--33842380 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
33842327 TAATACAAAA
*
33842337 TTTAAAATTATTATTATATT
1 TTTAAAAATATTA-TATATT
*
33842357 TTTAAAAATATTTATGTATT
1 TTTAAAAATA-TTATATATT
33842377 TTTA
1 TTTA
33842381 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTAAAAATATTATATATT
Found at i:33851145 original size:82 final size:81
Alignment explanation
Indices: 33851045--33851200 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
33851035 AAGTCCTAAT
* * *
33851045 TTTTCTAAATTCAAAATTCACATCCTAGATAGCGTTCAGATTAATCTATTTATATTCT-ATTAAA
1 TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATT-ATCTATTTACATT-TGATCAAA
33851109 CACATGCAAGGTAATTTG
64 CACATGCAAGGTAATTTG
* * *** * *
33851127 TTTTCTAAGTTCAAAATTCATATCCTTTTTAGCATTCTGATTATCTATTTACATTTGATCAATCA
1 TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATTATCTATTTACATTTGATCAAACA
33851192 CATGCAAGG
66 CATGCAAGG
33851201 CAAATGATGC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.02
81 27 0.43
82 35 0.56
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (81 bp):
TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATTATCTATTTACATTTGATCAAACA
CATGCAAGGTAATTTG
Found at i:33854192 original size:23 final size:23
Alignment explanation
Indices: 33854162--33854209 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
33854152 GACTTTTGCT
33854162 TACCATGAAGAACCTGTACACAG
1 TACCATGAAGAACCTGTACACAG
33854185 TACCATGAAGAACCTGTACACAG
1 TACCATGAAGAACCTGTACACAG
33854208 TA
1 TA
33854210 ACATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (23 bp):
TACCATGAAGAACCTGTACACAG
Found at i:33863039 original size:28 final size:27
Alignment explanation
Indices: 33862973--33863042 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
33862963 CTTGAATCTC
* * *
33862973 AAACCCAAAATCATGAACCCTAAATCT
1 AAACCCAAAATCCTGAACCCAAAACCT
*
33863000 AGAATCTC-AAATCCTGAACCCAAAACCTT
1 A-AA-CCCAAAATCCTGAACCCAAAACC-T
33863029 AAACCCAAAATCCT
1 AAACCCAAAATCCT
33863043 AAACTTAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.09
28 27 0.79
29 4 0.12
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (27 bp):
AAACCCAAAATCCTGAACCCAAAACCT
Found at i:33863045 original size:14 final size:14
Alignment explanation
Indices: 33862973--33863046 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
33862963 CTTGAATCTC
*
33862973 AAACCCAAAATCAT
1 AAACCCAAAATCCT
* *
33862987 GAACCCTAAAT-CT
1 AAACCCAAAATCCT
*
33863000 AGAATCTC-AAATCCT
1 A-AA-CCCAAAATCCT
*
33863015 GAACCCAAAA-CCTT
1 AAACCCAAAATCC-T
33863029 AAACCCAAAATCCT
1 AAACCCAAAATCCT
33863043 AAAC
1 AAAC
33863047 TTAATCACCG
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 5 0.11
14 35 0.76
15 6 0.13
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (14 bp):
AAACCCAAAATCCT
Found at i:33863078 original size:49 final size:49
Alignment explanation
Indices: 33863025--33863130 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 49
33863015 GAACCCAAAA
* * * *
33863025 CCTTAAACCCAAAATCCTAAA-CTTAATCACCGAACTCGTAACCCCGAAC
1 CCTTAAACCCAAAA-CCAAAACCTCAAACACCAAACTCGTAACCCCGAAC
* * * *
33863074 CCTTAAACTCTAAACCAAAACCTCAAACCCCAAACTCGTAACCCTGAAC
1 CCTTAAACCCAAAACCAAAACCTCAAACACCAAACTCGTAACCCCGAAC
33863123 CC-TAAACC
1 CCTTAAACC
33863131 TAAATCTTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
48 10 0.21
49 37 0.79
ACGTcount: A:0.40, C:0.39, G:0.05, T:0.17
Consensus pattern (49 bp):
CCTTAAACCCAAAACCAAAACCTCAAACACCAAACTCGTAACCCCGAAC
Found at i:33868859 original size:9 final size:8
Alignment explanation
Indices: 33868826--33868855 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
33868816 ATATAAAAAT
*
33868826 ATTTTTAG
1 ATTTTTAA
33868834 ATTTTTAA
1 ATTTTTAA
33868842 ATTTTTAA
1 ATTTTTAA
33868850 ATTTTT
1 ATTTTT
33868856 TAAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (8 bp):
ATTTTTAA
Found at i:33868973 original size:16 final size:16
Alignment explanation
Indices: 33868952--33868985 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33868942 TAACACAAAT
*
33868952 TTAAAAGTTAAAAAAA
1 TTAAAAATTAAAAAAA
*
33868968 TTAAAAATTAAAATAA
1 TTAAAAATTAAAAAAA
33868984 TT
1 TT
33868986 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TTAAAAATTAAAAAAA
Found at i:33870992 original size:36 final size:37
Alignment explanation
Indices: 33870938--33871020 Score: 132
Period size: 36 Copynumber: 2.2 Consensus size: 37
33870928 GTTGACGGAA
33870938 GAGATATTGAGATAGAGGAGGTCGATGGAAGCGATGTT
1 GAGATATT-AGATAGAGGAGGTCGATGGAAGCGATGTT
* *
33870976 GAGATATTA-ATAGAGGAGGTGGATGGAAGGGATGTT
1 GAGATATTAGATAGAGGAGGTCGATGGAAGCGATGTT
33871012 GAGATATTA
1 GAGATATTA
33871021 TAGTTATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 34 0.79
37 1 0.02
38 8 0.19
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (37 bp):
GAGATATTAGATAGAGGAGGTCGATGGAAGCGATGTT
Found at i:33871394 original size:22 final size:22
Alignment explanation
Indices: 33871335--33871394 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
33871325 TTTTTCTGTA
33871335 AAAAT-CTAAGTTTTT-CCTAT
1 AAAATCCTAAGTTTTTCCCTAT
* * * **
33871355 AAAAACTTAGGTAATTCCCTAT
1 AAAATCCTAAGTTTTTCCCTAT
33871377 AAAATCCTAAGTTTTTCC
1 AAAATCCTAAGTTTTTCC
33871395 TTTTTATAGA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 18 0.64
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
AAAATCCTAAGTTTTTCCCTAT
Found at i:33871668 original size:21 final size:22
Alignment explanation
Indices: 33871643--33871684 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
33871633 TTTACTTTTT
*
33871643 AAAAATAATTTTATTT-TTTTCC
1 AAAAA-AACTTTATTTATTTTCC
33871665 AAAAAAACTTTATTTATTTT
1 AAAAAAACTTTATTTATTTT
33871685 AGATGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
AAAAAAACTTTATTTATTTTCC
Found at i:33872581 original size:14 final size:14
Alignment explanation
Indices: 33872561--33872601 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
33872551 ATTTGTTTAA
33872561 TAGAAAATGACTTTC
1 TAGAAAATGA-TTTC
33872576 -AGAAAATGATTTC
1 TAGAAAATGATTTC
*
33872589 TAAAAAATGATTT
1 TAGAAAATGATTT
33872602 ACTTTTCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.34
Consensus pattern (14 bp):
TAGAAAATGATTTC
Found at i:33873176 original size:148 final size:149
Alignment explanation
Indices: 33872921--33873219 Score: 582
Period size: 148 Copynumber: 2.0 Consensus size: 149
33872911 TTAAAGATGT
33872921 TAAAAATTGGACTTGATTTTTAAAATTGAAAAGGAAAGGGACTAAATTCTTGAAAATAAAAGTTG
1 TAAAAATTGGACTTGATTTTTAAAATTGAAAAGGAAAGGGACTAAATTCTTGAAAATAAAAGTTG
*
33872986 TAACATCCCTTACCCATATTTGTCACCGAATTAGGGTTACGAAGCATTACTGAACAAACACAACC
66 TAACATCCCTTACCCATATTTGTCACCCAATTAGGGTTACGAAGCATTACTGAACAAACACAACC
33873051 ATCTCAAATTCAATACATA
131 ATCTCAAATTCAATACATA
33873070 TAAAAATTGGA-TTGATTTTTAAAATTGAAAAGGAAAGGGACTAAATTCTTGAAAATAAAAGTTG
1 TAAAAATTGGACTTGATTTTTAAAATTGAAAAGGAAAGGGACTAAATTCTTGAAAATAAAAGTTG
33873134 TAACATCCCTTACCCATATTTGTCACCCAATTAGGGTTACGAAGCATTACTGAACAAACACAACC
66 TAACATCCCTTACCCATATTTGTCACCCAATTAGGGTTACGAAGCATTACTGAACAAACACAACC
33873199 ATCTCAAATTCAATACATA
131 ATCTCAAATTCAATACATA
33873218 TA
1 TA
33873220 TATTAAATAT
Statistics
Matches: 149, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
148 138 0.93
149 11 0.07
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (149 bp):
TAAAAATTGGACTTGATTTTTAAAATTGAAAAGGAAAGGGACTAAATTCTTGAAAATAAAAGTTG
TAACATCCCTTACCCATATTTGTCACCCAATTAGGGTTACGAAGCATTACTGAACAAACACAACC
ATCTCAAATTCAATACATA
Found at i:33875294 original size:41 final size:41
Alignment explanation
Indices: 33875249--33875351 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
33875239 TGATTCAGAA
*
33875249 CACCGACATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
*
33875290 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
* *
33875331 AACTGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
33875352 GCAGAGAGCC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
Found at i:33875871 original size:64 final size:64
Alignment explanation
Indices: 33875797--33875922 Score: 252
Period size: 64 Copynumber: 2.0 Consensus size: 64
33875787 TAATTTTATT
33875797 TTATTAAACTCAAACATACATGATATAACATATACAATTTTGTACAATAAAATTTCAACCTATC
1 TTATTAAACTCAAACATACATGATATAACATATACAATTTTGTACAATAAAATTTCAACCTATC
33875861 TTATTAAACTCAAACATACATGATATAACATATACAATTTTGTACAATAAAATTTCAACCTA
1 TTATTAAACTCAAACATACATGATATAACATATACAATTTTGTACAATAAAATTTCAACCTA
33875923 CCAATTCAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (64 bp):
TTATTAAACTCAAACATACATGATATAACATATACAATTTTGTACAATAAAATTTCAACCTATC
Found at i:33882605 original size:3 final size:3
Alignment explanation
Indices: 33882599--33882633 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33882589 AAAGGTGCTG
33882599 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
33882634 CCCAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:33885806 original size:8 final size:8
Alignment explanation
Indices: 33885793--33885832 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
33885783 TTCGACTTGG
33885793 TTTTATTT
1 TTTTATTT
33885801 TTTTATTT
1 TTTTATTT
33885809 TTTTA-TT
1 TTTTATTT
33885816 TTTTATTT
1 TTTTATTT
*
33885824 TCTTATTT
1 TTTTATTT
33885832 T
1 T
33885833 CTTGCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTATTT
Found at i:33885817 original size:15 final size:15
Alignment explanation
Indices: 33885793--33885832 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
33885783 TTCGACTTGG
33885793 TTTTATTTTTTTATTT
1 TTTTA-TTTTTTATTT
33885809 TTTTATTTTTTATTT
1 TTTTATTTTTTATTT
*
33885824 TCTTATTTT
1 TTTTATTTT
33885833 CTTGCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTATTTTTTATTT
Found at i:33885841 original size:23 final size:23
Alignment explanation
Indices: 33885793--33885842 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
33885783 TTCGACTTGG
* * *
33885793 TTTTATTTTTTTATTTTTTTATT
1 TTTTATTTTCTTATTTTCTTACT
*
33885816 TTTTATTTTCTTATTTTCTTGCT
1 TTTTATTTTCTTATTTTCTTACT
33885839 TTTT
1 TTTT
33885843 CTTCGATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTATTTTCTTATTTTCTTACT
Found at i:33889371 original size:30 final size:30
Alignment explanation
Indices: 33889335--33889403 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
33889325 ACCCACCATG
** * *
33889335 TATTAGATGCGCTTGTTGGGATCATTCATC
1 TATTAGATAAGCTTCTTGAGATCATTCATC
* *
33889365 TATTAGATAAGTTTCTTGAGATCATTCATG
1 TATTAGATAAGCTTCTTGAGATCATTCATC
33889395 TATTAGATA
1 TATTAGATA
33889404 GTTCAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (30 bp):
TATTAGATAAGCTTCTTGAGATCATTCATC
Found at i:33893742 original size:11 final size:12
Alignment explanation
Indices: 33893717--33893743 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33893707 TTATCGAGAT
33893717 AAAAGGGTTTAA
1 AAAAGGGTTTAA
33893729 AAAAGGGTTTAA
1 AAAAGGGTTTAA
33893741 AAA
1 AAA
33893744 CAATTTAAAA
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:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (12 bp):
AAAAGGGTTTAA
Found at i:33902681 original size:12 final size:12
Alignment explanation
Indices: 33902638--33902681 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
33902628 TTATTTGTTT
33902638 TATTATT-ATAA
1 TATTATTAATAA
* * *
33902649 TCTAATTATTAA
1 TATTATTAATAA
33902661 TATTATTAATAA
1 TATTATTAATAA
33902673 TATTATTAA
1 TATTATTAA
33902682 CTACATTAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTATTAATAA
Found at i:33915963 original size:14 final size:16
Alignment explanation
Indices: 33915938--33915977 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
33915928 AGAATTGTAT
*
33915938 TTAATGTAATTTTTAA
1 TTAATGTTATTTTTAA
33915954 -T-ATGTTA-TTTTAA
1 TTAATGTTATTTTTAA
33915967 TTAATGTTATT
1 TTAATGTTATT
33915978 ACTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
13 6 0.30
14 6 0.30
15 7 0.35
16 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
TTAATGTTATTTTTAA
Found at i:33919023 original size:20 final size:20
Alignment explanation
Indices: 33918987--33919026 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33918977 AGAAAGAGAA
* *
33918987 AGAAAGAGAGAGGGAGAGGG
1 AGAAAGAGAAAGAGAGAGGG
33919007 AGAAAGAGAAAGAGAGAGGG
1 AGAAAGAGAAAGAGAGAGGG
33919027 GGTAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (20 bp):
AGAAAGAGAAAGAGAGAGGG
Found at i:33920051 original size:2 final size:2
Alignment explanation
Indices: 33920044--33920086 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
33920034 TCTCATTTGT
* *
33920044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33920086 T
1 T
33920087 TTCAAATATC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33928433 original size:9 final size:9
Alignment explanation
Indices: 33928419--33928455 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33928409 TATAGTTTGA
33928419 TATTCGAAT
1 TATTCGAAT
33928428 TATTCGAAT
1 TATTCGAAT
*
33928437 TATTCGAGT
1 TATTCGAAT
33928446 TATTCGAAT
1 TATTCGAAT
33928455 T
1 T
33928456 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33929304 original size:18 final size:19
Alignment explanation
Indices: 33929272--33929309 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
33929262 TCTTTTACAA
33929272 AAAATAATACAAAAAAAAT
1 AAAATAATACAAAAAAAAT
* *
33929291 AAAA-AATACCAAAATAAT
1 AAAATAATACAAAAAAAAT
33929309 A
1 A
33929310 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAATAATACAAAAAAAAT
Found at i:33929319 original size:15 final size:15
Alignment explanation
Indices: 33929270--33929320 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
33929260 GGTCTTTTAC
*
33929270 AAAAAATAATACA-A
1 AAAAAATAATAAATA
*
33929284 AAAAAATAAAAAATA
1 AAAAAATAATAAATA
** *
33929299 CCAAAATAATATATA
1 AAAAAATAATAAATA
33929314 AAAAAAT
1 AAAAAAT
33929321 TATTTACCAA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAATAATAAATA
Found at i:33929994 original size:152 final size:152
Alignment explanation
Indices: 33929558--33930093 Score: 736
Period size: 153 Copynumber: 3.5 Consensus size: 152
33929548 AGTGTGTGTT
* * *
33929558 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTT
1 TTTTTATTGAAAATAATAAAA-TCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGA--TTTTT
* *
33929623 TTTAATTTATTTAAAAAAAACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
63 TTAAATTTATTTAAAAAAAACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
* * * *
33929688 AATAATAATATTATAAAATAGTATA
128 AATAATAAAATAAGAAAATAATATA
* * * *
33929713 TTTTT-TT-AAAATAATAAACTCTGGGGAAAAAATATGAACAAAGGGCCGAAATAAGGGTTTTTT
1 TTTTTATTGAAAATAATAAAATC-CGGGAAAAAATACGAACAAAGGGCCGAAATAA--GATTTTT
* * **
33929776 TTAAATTTATTTTAAAAACACAGAAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
63 TTAAATTTATTTAAAAAAAACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
33929841 AATAATAAAATAAGAAAATAATATA
128 AATAATAAAATAAGAAAATAATATA
* * *
33929866 TTTTTATTGAAAGTAATAAAATCCGGG-AAAAATACGAACAAAGGCCCAAAATAATGATTTTTTT
1 TTTTTATTGAAAATAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAA-GATTTTTTT
*
33929930 AAATTTATTTAAAAAAAACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATTTAAAA
65 AAATTTATTTAAAAAAAACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
*
33929995 TAATAAAATACGAAAATAATATA
130 TAATAAAATAAGAAAATAATATA
* ** **
33930018 TTTTTATTGAAAATAATAAAATCCGGGAAAAAAATACGAACAAATGTTCGAAATAAGGGTTTTTT
1 TTTTTATTGAAAATAATAAAATCCGGG-AAAAAATACGAACAAAGGGCCGAAATAAGATTTTTTT
33930083 AAATTTATTTA
65 AAATTTATTTA
33930094 TTGAAAAAGG
Statistics
Matches: 337, Mismatches: 37, Indels: 16
0.86 0.09 0.04
Matches are distributed among these distances:
152 118 0.35
153 171 0.51
154 30 0.09
155 18 0.05
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.32
Consensus pattern (152 bp):
TTTTTATTGAAAATAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGATTTTTTTA
AATTTATTTAAAAAAAACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
AATAAAATAAGAAAATAATATA
Found at i:33952635 original size:31 final size:31
Alignment explanation
Indices: 33952600--33952666 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
33952590 AAGTATAAAC
33952600 TTACTAATAGTTGAGTGACCTTGGGCATAAT
1 TTACTAATAGTTGAGTGACCTTGGGCATAAT
* **
33952631 TTACTAATATTTGAGTGACCTTGGGTGTAAT
1 TTACTAATAGTTGAGTGACCTTGGGCATAAT
33952662 TTACT
1 TTACT
33952667 CTATGATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (31 bp):
TTACTAATAGTTGAGTGACCTTGGGCATAAT
Found at i:33954361 original size:45 final size:45
Alignment explanation
Indices: 33954306--33954391 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
33954296 AAGCTTACAG
* * * *
33954306 AAAGCGTAGTAAGTTCATAGGCTCATAATTAAATCTTACCACAAA
1 AAAGCGTAGTAAGCTCATAGACTCATAATAAAATCTCACCACAAA
*
33954351 AAAGCTTAGTAAGCTCATAGACTCATAATAAAATCTCACCA
1 AAAGCGTAGTAAGCTCATAGACTCATAATAAAATCTCACCA
33954392 AAATTTCACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.26
Consensus pattern (45 bp):
AAAGCGTAGTAAGCTCATAGACTCATAATAAAATCTCACCACAAA
Found at i:33954690 original size:46 final size:46
Alignment explanation
Indices: 33954620--33954758 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
33954610 ACAATGCTAT
* *
33954620 AACTCAATATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
*
33954666 AACTCAGTATGGTTTTCGTT-ACTGAAATATCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTC-TTCACTGAAATACCATACCTACGTTTCAC
** *
33954712 AACTCAGTATGGTTTTCTTCACCAAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
33954758 A
1 A
33954759 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
45 2 0.02
46 80 0.95
47 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
Found at i:33958128 original size:11 final size:11
Alignment explanation
Indices: 33958114--33958150 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
33958104 AAAAATAAAA
33958114 AAAAGTATTTT
1 AAAAGTATTTT
33958125 AAAAGTATTTT
1 AAAAGTATTTT
*
33958136 AAAAATATTTT
1 AAAAGTATTTT
33958147 AAAA
1 AAAA
33958151 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:33958161 original size:22 final size:23
Alignment explanation
Indices: 33958108--33958161 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
33958098 AAATAAAAAA
33958108 ATAAAAAAAAGTATTTTAAAAGT
1 ATAAAAAAAAGTATTTTAAAAGT
*** *
33958131 ATTTTAAAAA-TATTTTAAAATT
1 ATAAAAAAAAGTATTTTAAAAGT
33958153 ATAAAAAAA
1 ATAAAAAAA
33958162 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
ATAAAAAAAAGTATTTTAAAAGT
Found at i:33959003 original size:12 final size:12
Alignment explanation
Indices: 33958988--33959029 Score: 70
Period size: 11 Copynumber: 3.7 Consensus size: 12
33958978 ATTTGAAAAT
33958988 TTTTAAAAAGTA
1 TTTTAAAAAGTA
33959000 TTTT-AAAAGTA
1 TTTTAAAAAGTA
33959011 TTTTAAAAA-TA
1 TTTTAAAAAGTA
33959022 TTTTAAAA
1 TTTTAAAA
33959030 TTAAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (12 bp):
TTTTAAAAAGTA
Found at i:33961070 original size:27 final size:27
Alignment explanation
Indices: 33961036--33961088 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
33961026 CCAATGATTC
33961036 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
*
33961063 GGGGAATCAGCACTTAGCAATCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
33961089 TATATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:33961725 original size:30 final size:29
Alignment explanation
Indices: 33961691--33961755 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33961681 AAATCCACCA
33961691 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
33961721 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
33961751 CCCAA
1 CCCAA
33961756 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:33961729 original size:31 final size:30
Alignment explanation
Indices: 33961698--33961755 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33961688 CCACCCAACT
33961698 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
33961728 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
33961756 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:33961792 original size:275 final size:277
Alignment explanation
Indices: 33961279--33961830 Score: 876
Period size: 275 Copynumber: 2.0 Consensus size: 277
33961269 ACTTACCTCG
* *
33961279 GTGCAAAATATCGTAATGTTGCAATTTACTCCACTATCTTCTCTTTTCCCCGTTTGAGGTGGTCT
1 GTGCAAAATATCCTAATGTTGCAATTTACTCCACTATCTTCTCTTTTCCCCGTTTGAGGTAGTCT
* ** * * *
33961344 TCTCATCTTTCTTGATCTATAATAGGAAATTTAACTCATTTAATGTTCACATTTATTACAATAAT
66 TCTCATCTTTCTTGATCTATAATAGCAAATTTAACTCATTTAACATTCACACTTATTAAAAAAAT
* * ** * *
33961409 CCTCCACCCAAATTTTTTTTAAAATTACAATTTTGCCCCCAAAATTTTGTATATTTACACTTTTG
131 CCACCACCCAAACTTTTTGAAAAATTACAATTTTGCCCCCAAAATTTTGCATAATTACACTTTTG
* * *
33961474 TCCCTAAGCTCGGAAATTAAATTTCATCTCTTTTTATTATGTTTTATGACATGCTGAACATTTTT
196 TCCCCAAGCTCGGAAATTAAATTTCATCACTTATTATTATGTTTTATGACATGCTGAACATTTTT
33961539 CCCTTCTATGGAAACAT
261 CCCTTCTATGGAAACAT
*
33961556 GTGCAAAATATCCTAATTTTGCAATTTACTCCACTA-CTT-TCTCTTTCCCCGTTTGAGGTAGTC
1 GTGCAAAATATCCTAATGTTGCAATTTACTCCACTATCTTCTCT-TTTCCCCGTTTGAGGTAGTC
*
33961619 TTCTCGTCTTTCTTGATCTATAATAGCAAATTTAACTCATTTAACATTCACACTTATTAAAAAAA
65 TTCTCATCTTTCTTGATCTATAATAGCAAATTTAACTCATTTAACATTCACACTTATTAAAAAAA
*
33961684 TCCACCACCC-AACTTTTTGAAAAATTACAATTTTGCCCCCAAACTTTTGCATAATTACACTTTT
130 TCCACCACCCAAACTTTTTGAAAAATTACAATTTTGCCCCCAAAATTTTGCATAATTACACTTTT
*
33961748 GTCCCCAAGCTCGGAAATTAAATTTCATCACTTATTCTTATGTTTTATGACATGCTGAACATTTT
195 GTCCCCAAGCTCGGAAATTAAATTTCATCACTTATTATTATGTTTTATGACATGCTGAACATTTT
*
33961813 TCCCTTCTATGGCAACAT
260 TCCCTTCTATGGAAACAT
33961831 CAAATTCTCA
Statistics
Matches: 252, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
275 129 0.51
276 89 0.35
277 34 0.13
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (277 bp):
GTGCAAAATATCCTAATGTTGCAATTTACTCCACTATCTTCTCTTTTCCCCGTTTGAGGTAGTCT
TCTCATCTTTCTTGATCTATAATAGCAAATTTAACTCATTTAACATTCACACTTATTAAAAAAAT
CCACCACCCAAACTTTTTGAAAAATTACAATTTTGCCCCCAAAATTTTGCATAATTACACTTTTG
TCCCCAAGCTCGGAAATTAAATTTCATCACTTATTATTATGTTTTATGACATGCTGAACATTTTT
CCCTTCTATGGAAACAT
Found at i:33962461 original size:11 final size:12
Alignment explanation
Indices: 33962433--33962466 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
33962423 GCCCAAACGT
33962433 CGAAATTTTTGAA
1 CGAAATTTTT-AA
33962446 CGAAATTTTT-A
1 CGAAATTTTTAA
33962457 CGAAATTTTT
1 CGAAATTTTT
33962467 CCGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:33967076 original size:18 final size:18
Alignment explanation
Indices: 33967053--33967091 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33967043 AAACCATATT
*
33967053 TAAAACTTAATTTAAAAA
1 TAAAACTCAATTTAAAAA
* *
33967071 TAAAACTCACTTTAAATA
1 TAAAACTCAATTTAAAAA
33967089 TAA
1 TAA
33967092 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAACTCAATTTAAAAA
Done.