Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 27 of 328
Found at i:7901429 original size:367 final size:371
Alignment explanation
Indices: 7900611--7901513 Score: 1735
Period size: 367 Copynumber: 2.4 Consensus size: 371
7900601 GAAACATACA
7900611 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
7900676 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
7900741 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
7900806 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
7900871 AATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAAT
261 AATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAAT
7900936 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
326 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
7900982 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
7901047 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT-TTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
7901111 AGGTTGGAGATAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
7901176 TTTAAAAATATTAAATATTAAAATAAAACATTATT-AT-TAAAAAA-AGTAATTTGAATATAATA
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
7901238 ATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAA
261 A-ATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAA
7901303 TATTCAATAGTAAATGAGCTCGATAGAA-TTTTTTCAAGTCTTTTTG
325 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
7901349 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
7901414 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
* *
7901479 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
131 AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTT
7901514 AATGGACAAG
Statistics
Matches: 526, Mismatches: 4, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
367 148 0.28
368 148 0.28
369 2 0.00
370 117 0.22
371 111 0.21
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (371 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGGTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
AATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:7905754 original size:15 final size:15
Alignment explanation
Indices: 7905734--7905765 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7905724 AAATAATAAT
*
7905734 TTATATATATTTATC
1 TTATATACATTTATC
7905749 TTATATACATTTATC
1 TTATATACATTTATC
7905764 TT
1 TT
7905766 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:7905836 original size:14 final size:15
Alignment explanation
Indices: 7905800--7905841 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7905790 TCTAAATTTA
7905800 AAACCCTAAA-CTTC
1 AAACCCTAAACCTTC
* *
7905814 AGACTCTAAACCTT-
1 AAACCCTAAACCTTC
7905828 AAACCCTAAACCTT
1 AAACCCTAAACCTT
7905842 GGACCACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.24
Consensus pattern (15 bp):
AAACCCTAAACCTTC
Found at i:7906215 original size:18 final size:18
Alignment explanation
Indices: 7906192--7906241 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
7906182 TTACACCCTA
7906192 AATATATATTATAA-TCTT
1 AATATATATTATAAGT-TT
*
7906210 AATATATATTAGAAGTTT
1 AATATATATTATAAGTTT
7906228 AATATATATATATA
1 AATATATAT-TATA
7906242 TAACAAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
AATATATATTATAAGTTT
Found at i:7906596 original size:41 final size:41
Alignment explanation
Indices: 7906551--7906699 Score: 244
Period size: 41 Copynumber: 3.6 Consensus size: 41
7906541 TTACTTTTTT
* ** *
7906551 GCGGCGTTTTTCCAGAAGCGCTTCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGGCCTATA
7906592 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGGCCTATA
* *
7906633 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGGCCTATA
7906674 GCGGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
7906700 TTGTACAGTT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGGCCTATA
Found at i:7906730 original size:41 final size:41
Alignment explanation
Indices: 7906672--7906804 Score: 144
Period size: 41 Copynumber: 3.3 Consensus size: 41
7906662 CCTCGACCTA
** * *
7906672 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTG-TACAGTTTT
1 TAGCGGCGTTTGGGCCAAAAACACCGCTATTGCT-CAGTTTT
7906712 TAGCGGCGTTTGGGCCAAAAACACCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGGCCAAAAACACCGCTATTGCTCAGTTTT
*** * * *
7906753 TAGCGGCGTTTGGATAAAAAACGCTGCTATTGCTCTGTTTT
1 TAGCGGCGTTTGGGCCAAAAACACCGCTATTGCTCAGTTTT
*
7906794 TTGCGGCGTTT
1 TAGCGGCGTTT
7906805 TATTGCAAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 11 0.14
41 68 0.85
42 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (41 bp):
TAGCGGCGTTTGGGCCAAAAACACCGCTATTGCTCAGTTTT
Found at i:7906739 original size:82 final size:81
Alignment explanation
Indices: 7906574--7906740 Score: 174
Period size: 82 Copynumber: 2.0 Consensus size: 81
7906564 AGAAGCGCTT
* *
7906574 CTAAAACATCGGCCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGGCCTATAGCGGCG
1 CTAAAACATCGACCTATAGCGGCGTTTTTCCAAAAGCGCCGCT-AAACCTCAGCCTATAGCGGCG
** * * *
7906639 TTTTTCCAGAAGCGCCG
65 TTTGGCCAAAAACACCG
* *** ** *
7906656 CTAAAACCTCGACCTATAGCGGCGTTTTTCCAAAAGCGCCGCT-ATTGTACAGTTTTTAGCGGCG
1 CTAAAACATCGACCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAACCT-CAGCCTATAGCGGCG
7906720 TTTGGGCCAAAAACACCG
65 TTT-GGCCAAAAACACCG
7906738 CTA
1 CTA
7906741 TTGCTCAGTT
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
80 2 0.03
81 14 0.20
82 53 0.77
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (81 bp):
CTAAAACATCGACCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAACCTCAGCCTATAGCGGCGT
TTGGCCAAAAACACCG
Found at i:7915603 original size:8 final size:8
Alignment explanation
Indices: 7915561--7915585 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7915551 ATATAGACTA
7915561 AATAAAAT
1 AATAAAAT
7915569 AATAAAAT
1 AATAAAAT
7915577 AATAAAAT
1 AATAAAAT
7915585 A
1 A
7915586 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:7915609 original size:29 final size:31
Alignment explanation
Indices: 7915558--7915630 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
7915548 TATATATAGA
*
7915558 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
7915587 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
7915618 CTAATT-AAATAAT
1 CTAATTAAAATAAT
7915631 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:7915635 original size:29 final size:30
Alignment explanation
Indices: 7915565--7915636 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
7915555 AGACTAAATA
*
7915565 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
7915593 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
7915624 AAATAATTATAAA
1 AAATAATTATAAA
7915637 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:7916560 original size:54 final size:52
Alignment explanation
Indices: 7916480--7916648 Score: 189
Period size: 53 Copynumber: 3.2 Consensus size: 52
7916470 CCATGGCAAC
* *
7916480 AAGTGATAAGCGATATACGTACAAGACCATAGCTTGGCTATGGCATCGGAAAA
1 AAGTGATAAGCGAT-TCCGTATAAGACCATAGCTTGGCTATGGCATCGGAAAA
* * * **
7916533 CAAGTGATAAGTGATTCCCGTATAAGACCATAGCTGGGCTATGGCTTCGGATTA
1 -AAGTGATAAGCGATT-CCGTATAAGACCATAGCTTGGCTATGGCATCGGAAAA
* *
7916587 AAGTGATACAAGCGA-TCCATATAAGACCATAG-TTGGGCTATGGCATCGGAGAA
1 AAGTGAT--AAGCGATTCCGTATAAGACCATAGCTT-GGCTATGGCATCGGAAAA
7916640 AAGTGATAA
1 AAGTGATAA
7916649 CTGCTTTCGT
Statistics
Matches: 98, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
51 2 0.02
52 1 0.01
53 45 0.46
54 45 0.46
55 5 0.05
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (52 bp):
AAGTGATAAGCGATTCCGTATAAGACCATAGCTTGGCTATGGCATCGGAAAA
Found at i:7916707 original size:32 final size:32
Alignment explanation
Indices: 7916664--7916728 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
7916654 TTCGTGTAAG
7916664 ACCATAACCGGGATATGGCATCAATATGATAT
1 ACCATAACCGGGATATGGCATCAATATGATAT
* **
7916696 ACCATATCCGGGATATGGCATCGGTATGATAT
1 ACCATAACCGGGATATGGCATCAATATGATAT
7916728 A
1 A
7916729 TGACTCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
ACCATAACCGGGATATGGCATCAATATGATAT
Found at i:7918043 original size:23 final size:22
Alignment explanation
Indices: 7917931--7918044 Score: 74
Period size: 23 Copynumber: 5.0 Consensus size: 22
7917921 ATATATATGT
*
7917931 ATATATA-ATAATAT-TTAAGA
1 ATATATACATAATATATTAAAA
*
7917951 ATATATACATAAGATGA-TATAAA
1 ATATATACATAATAT-ATTA-AAA
* * *
7917974 ATACATACATGGAATAGTATGAGAA
1 ATATATACAT--AATA-TATTAAAA
*
7917999 ATATATA-ACTAATGACATTAAAA
1 ATATATACA-TAAT-ATATTAAAA
7918022 ATATATACATAATATATATAAAA
1 ATATATACATAATATAT-TAAAA
7918045 TGCATATAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
20 7 0.10
21 6 0.08
22 5 0.07
23 35 0.49
24 3 0.04
25 13 0.18
26 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (22 bp):
ATATATACATAATATATTAAAA
Found at i:7918605 original size:11 final size:12
Alignment explanation
Indices: 7918589--7918624 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
7918579 GAAAAAAAAA
7918589 GAAGAGAG-AGG
1 GAAGAGAGAAGG
7918600 GAAGAGAGAAGG
1 GAAGAGAGAAGG
7918612 G-AGAGAGAAGG
1 GAAGAGAGAAGG
7918623 GA
1 GA
7918625 GGGGGAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:7918773 original size:13 final size:13
Alignment explanation
Indices: 7918725--7918775 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
7918715 AAAAGGTAAA
7918725 TTTTTT-TTATAT
1 TTTTTTATTATAT
*
7918737 TTGTTTTGTATATAT
1 TT-TTTTAT-TATAT
*
7918752 ATTTTTATTATAT
1 TTTTTTATTATAT
7918765 TTTTTTATTAT
1 TTTTTTATTAT
7918776 GATGTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 2 0.06
13 19 0.58
14 6 0.18
15 6 0.18
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (13 bp):
TTTTTTATTATAT
Found at i:7918840 original size:17 final size:17
Alignment explanation
Indices: 7918819--7918859 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7918809 GAGGAAAAAA
*
7918819 ATAAAATAA-AAATAAG
1 ATAAAATAATAAAGAAG
7918835 AGTAAAATAATAAAGAAG
1 A-TAAAATAATAAAGAAG
7918853 ATAAAAT
1 ATAAAAT
7918860 CACCTTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (17 bp):
ATAAAATAATAAAGAAG
Found at i:7919208 original size:22 final size:22
Alignment explanation
Indices: 7919159--7919222 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
7919149 TAGGGTTTCT
7919159 TGGGTTTTTTTTTTGGG-TT-A
1 TGGGTTTTTTTTTTGGGTTTAA
*
7919179 -GGTTTTTTTTTTTGGGTTTAA
1 TGGGTTTTTTTTTTGGGTTTAA
* ***
7919200 TGGGCTTTTGAATTGGGTTTAA
1 TGGGTTTTTTTTTTGGGTTTAA
7919222 T
1 T
7919223 ATTTGGGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 15 0.43
20 2 0.06
21 1 0.03
22 17 0.49
ACGTcount: A:0.11, C:0.02, G:0.28, T:0.59
Consensus pattern (22 bp):
TGGGTTTTTTTTTTGGGTTTAA
Found at i:7920166 original size:24 final size:24
Alignment explanation
Indices: 7920139--7920187 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7920129 CCAAGGCTCA
7920139 ACTCACTTCTCGCAATATGAGTTG
1 ACTCACTTCTCGCAATATGAGTTG
7920163 ACTCACTTCTCGCAATATGAGTTG
1 ACTCACTTCTCGCAATATGAGTTG
7920187 A
1 A
7920188 TTTTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
ACTCACTTCTCGCAATATGAGTTG
Found at i:7920213 original size:14 final size:14
Alignment explanation
Indices: 7920190--7920224 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7920180 TGAGTTGATT
7920190 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
7920203 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
7920217 TTTGAAAA
1 TTTGAAAA
7920225 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:7920416 original size:77 final size:79
Alignment explanation
Indices: 7920248--7920459 Score: 241
Period size: 77 Copynumber: 2.7 Consensus size: 79
7920238 GACCCGAGGC
* * * * * *
7920248 TCAACTCACATCTCGCAATGTGCGTTGATTTTTTTTGAAAAATATAAATTGAAAAAATACCTCAG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTG--AAAATACCTCAG
* * * *
7920313 TGTGTGATCTGAAGCT
64 CGCGTGAGCTCAAGCT
* *
7920329 T-AACTCACCTCTCGCAATATGGGTTGA-TTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCG
*
7920392 CGTGAGC-CAAGGT
66 CGTGAGCTCAAGCT
** *
7920405 TCAACTCACCTCTCGCAATATGAGTCAATTTTTTTTGAAAGGCAGAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAA
7920460 ACGGAAATTG
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
76 5 0.04
77 40 0.35
78 25 0.22
79 19 0.17
80 23 0.20
81 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (79 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCG
CGTGAGCTCAAGCT
Found at i:7920428 original size:269 final size:272
Alignment explanation
Indices: 7919889--7920429 Score: 677
Period size: 277 Copynumber: 2.0 Consensus size: 272
7919879 AAGGCTCAAT
* **
7919889 TCACCTCTCGCCATATAAGTTGATTTTTGAAACTTAACTTGAAAAACAGATTTTGAAAATACCTC
1 TCACCTCTCGCAATATAAGTTGATTTTTGAAACAGAACTTGAAAAACAGATTTTGAAAATACCTC
* * * *
7919954 GATATGTGACTCGAGACTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAAAAATTA
66 GACATGTGACCCGAGACTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
*
7920019 AAATACTCAACTCAACTCTAGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAA
131 AAATAATCAACTCAACTCTAGCAG-AATT-AAAAGCTCAACTCACCTCTCGCAATATGAGTTGAA
* *
7920084 TTTTTTTGAAAAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCT
194 TTTTTTTG--AAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCT
7920149 CGCAATATGAGTTGAC
257 CGCAATATGAGTTGAC
* * *
7920165 TCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAACAGATTTTGAAAATACCT
1 TCACCTCTCGCAATATAAGTTGATTTTTG-AAACAGAACTTGAAAAACAGATTTTGAAAATACCT
* * * * *
7920230 CGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGCGTTGATTTTTTTTGAAAAATATAA
65 CGACATGTGACCCGAGACTCAACTCACATCTCGCAATATGAGTTGA---TTTTTGAAAAACAAAA
* * * * * * *
7920295 ATTGAAAA-AAT-ACCTC-AGTGT-G-TG-ATCT-GAAGCTTAACTCACCTCTCGCAATATGGGT
127 ATT-AAAATAATCAACTCAACTCTAGCAGAAT-TAAAAGCTCAACTCACCTCTCGCAATATGAGT
* * *
7920353 TG-ATTTTTTTG-AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGTTCAACTCACCT
190 TGAATTTTTTTGAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCT
7920416 CTCGCAATATGAGT
255 CTCGCAATATGAGT
7920430 CAATTTTTTT
Statistics
Matches: 231, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
269 61 0.26
272 9 0.04
273 29 0.13
274 2 0.01
275 1 0.00
276 27 0.12
277 72 0.31
278 3 0.01
279 4 0.02
280 19 0.08
281 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (272 bp):
TCACCTCTCGCAATATAAGTTGATTTTTGAAACAGAACTTGAAAAACAGATTTTGAAAATACCTC
GACATGTGACCCGAGACTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
AAATAATCAACTCAACTCTAGCAGAATTAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATT
TTTTTGAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCA
ATATGAGTTGAC
Found at i:7920528 original size:92 final size:91
Alignment explanation
Indices: 7920361--7920549 Score: 229
Period size: 92 Copynumber: 2.1 Consensus size: 91
7920351 GTTGATTTTT
* * * * *
7920361 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGTTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
7920426 GAGTCAATTTTTTTTGA-AAGGCAGAAA
66 GAGTCAATTTTTTTTGACAA--CAGAAA
* * * * *
7920453 TTGAAAAACGGAAATTGAAAATACCTCGGCATGTGA-CCTGAGGCTCAACTCGCCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
**
7920517 CGAGTTGATTTTTTTTGACAACAGAAA
65 CGAGTCAATTTTTTTTGACAACAGAAA
7920544 TTGAAA
1 TTGAAA
7920550 TTACCTCAGC
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
91 14 0.17
92 67 0.81
93 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
GAGTCAATTTTTTTTGACAACAGAAA
Found at i:7920588 original size:75 final size:78
Alignment explanation
Indices: 7920463--7920628 Score: 232
Period size: 75 Copynumber: 2.1 Consensus size: 78
7920453 TTGAAAAACG
* *
7920463 GAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TT
1 GAAATTGAAAATACCTCAGCA-GTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
7920527 TT-TTTTGACAA-CA
65 TTATTTTGA-AAGCA
* * *
7920540 GAAATTGAAATTACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
7920604 TATTTTGAAAGGCA
66 TATTTTGAAA-GCA
7920618 GAAATTGAAAA
1 GAAATTGAAAA
7920629 ACGGAAATTG
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
75 37 0.47
76 6 0.08
77 24 0.30
78 12 0.15
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (78 bp):
GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TATTTTGAAAGCA
Found at i:7920780 original size:168 final size:168
Alignment explanation
Indices: 7920301--7920781 Score: 682
Period size: 169 Copynumber: 2.9 Consensus size: 168
7920291 ATAAATTGAA
* * * * * * *
7920301 AAAATACCTCAGTGTGTGATCTGAAGCTTAACTCACCTCTCGCAATATGGGTTGATTTTTTTGAA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTT-AA
* * * * *
7920366 -AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGTTCAACTCACCTCTCGCAATATGAG
65 CA-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
7920429 -TCA-ATTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
126 TTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * *
7920470 AAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTGA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGA-TTTTTTTAA
7920535 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
7920600 TTTTTATTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
130 TTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * *
7920639 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTTGCAATATGAGTTGATTATTTTAAC
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTAAC
*
7920704 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCACTATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
7920769 TTTTTTTTTGAAA
131 TTTTTTTTTGAAA
7920782 ATACCTCAGC
Statistics
Matches: 281, Mismatches: 26, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
166 2 0.01
167 32 0.11
168 86 0.31
169 153 0.54
170 8 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (168 bp):
AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTAAC
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
Found at i:7920813 original size:64 final size:64
Alignment explanation
Indices: 7920712--7920836 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
7920702 ACAACAGAAA
* * *
7920712 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCACTATGAGTTGATTTTTTTT
1 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
7920776 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7920837 GAAACATACG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (64 bp):
TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
Found at i:7920889 original size:141 final size:139
Alignment explanation
Indices: 7920636--7920913 Score: 382
Period size: 141 Copynumber: 2.0 Consensus size: 139
7920626 AAAACGGAAA
* * ** * *
7920636 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTTGCAATATGAGTTGATTATTTT
1 TTGAAAATACCTCAGCGCGT-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTA
* * * *
7920701 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCACTATGAGTT
65 AACAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATT
*
7920766 GATTTTTTTT
130 GAATTTTTTT
7920776 TTGAAAATACCTCAGCGCGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGA
1 TTGAAAATACCTCAGCGCGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTT-A
7920839 AACATACGAAAAAATTGACAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
65 AACA-AC--AAAAATTGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
7920903 AATTGAATTTT
126 AATTGAATTTT
7920914 GAAATAAAAC
Statistics
Matches: 122, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
137 3 0.02
138 39 0.32
139 2 0.02
140 18 0.15
141 58 0.48
142 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (139 bp):
TTGAAAATACCTCAGCGCGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAA
ACAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
AATTTTTTT
Found at i:7933275 original size:2 final size:2
Alignment explanation
Indices: 7933259--7933312 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
7933249 GGCATTAAAA
* * **
7933259 AT AT AT AC AT A- AT AT AT AT A- AA AT GC AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7933298 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
7933313 CGTATTAGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:7933873 original size:11 final size:11
Alignment explanation
Indices: 7933841--7933875 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7933831 AAAAAAAAGA
*
7933841 AGAGAGAAGGA
1 AGAGAGAAGGG
*
7933852 AGAGTGAAGGG
1 AGAGAGAAGGG
7933863 AGAGAGAAGGG
1 AGAGAGAAGGG
7933874 AG
1 AG
7933876 GGGGGAAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.03
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:7934008 original size:13 final size:13
Alignment explanation
Indices: 7933999--7934027 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7933989 TTGTTTTGTA
7933999 TATATATTTTTAT
1 TATATATTTTTAT
7934012 TATATATTTTTAT
1 TATATATTTTTAT
7934025 TAT
1 TAT
7934028 GATGTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATATATTTTTAT
Found at i:7934100 original size:17 final size:17
Alignment explanation
Indices: 7934080--7934118 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7934070 AAATAAAATA
*
7934080 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
7934097 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
7934114 AAAAT
1 AAAAT
7934119 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:7935194 original size:41 final size:41
Alignment explanation
Indices: 7935134--7935223 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
7935124 TGTGTCTAGG
*
7935134 CCGTGTGTGACATACGGTAGTCCCACGAGCGTGTGATATGA
1 CCGTGTGTGACACACGGTAGTCCCACGAGCGTGTGATATGA
*
7935175 CCGTGTGTGACACATGGTAGTCCCACGAGCGTGTGATATGA
1 CCGTGTGTGACACACGGTAGTCCCACGAGCGTGTGATATGA
7935216 CCGTGTGT
1 CCGTGTGT
7935224 CCTCTGCATC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (41 bp):
CCGTGTGTGACACACGGTAGTCCCACGAGCGTGTGATATGA
Found at i:7935938 original size:29 final size:30
Alignment explanation
Indices: 7935869--7935938 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
7935859 CTTGAGTTTA
7935869 AAATTTAAAAATTAAATGAACTAAATTCTT
1 AAATTTAAAAATTAAATGAACTAAATTCTT
** * *
7935899 AAAAATAAAAA-TATATGAATTAAATTC-T
1 AAATTTAAAAATTAAATGAACTAAATTCTT
7935927 AAATTTACAAAA
1 AAATTTA-AAAA
7935939 AGTACAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.18
29 18 0.55
30 9 0.27
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATTTAAAAATTAAATGAACTAAATTCTT
Found at i:7946835 original size:40 final size:40
Alignment explanation
Indices: 7946780--7946860 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
7946770 TTAGGATGAC
7946780 ATATTAATGCATCATGAAGCATAGATGTACAAAATATTCT
1 ATATTAATGCATCATGAAGCATAGATGTACAAAATATTCT
7946820 ATATTAATGCATCATGAAGCATAGATGTACAAAATATTCT
1 ATATTAATGCATCATGAAGCATAGATGTACAAAATATTCT
7946860 A
1 A
7946861 ACATTTCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (40 bp):
ATATTAATGCATCATGAAGCATAGATGTACAAAATATTCT
Found at i:7947598 original size:22 final size:21
Alignment explanation
Indices: 7947568--7947633 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
7947558 TACAAATTAA
7947568 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
7947590 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
7947611 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
7947630 ATCT
1 ATCT
7947634 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:7947620 original size:19 final size:19
Alignment explanation
Indices: 7947585--7947663 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
7947575 AGATTACAAG
7947585 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
7947606 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
7947625 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
7947642 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
7947661 ATC
1 ATC
7947664 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:7947627 original size:14 final size:15
Alignment explanation
Indices: 7947607--7947663 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
7947597 AGATTGCATA
7947607 TCATATCTAAGATTG
1 TCATATCTAAGATTG
7947622 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
7947641 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
7947658 -CATATC
1 TCATATC
7947664 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:7947649 original size:36 final size:39
Alignment explanation
Indices: 7947585--7947663 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
7947575 AGATTACAAG
7947585 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
7947625 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
7947661 ATC
1 ATC
7947664 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:7949419 original size:20 final size:20
Alignment explanation
Indices: 7949396--7949441 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
7949386 AAAAAAAGCT
*
7949396 AAAAAAACAAAAATT-TGAAA
1 AAAAAAACAAAAGTTGT-AAA
7949416 AAAAAAACAAAAGTTGTAAA
1 AAAAAAACAAAAGTTGTAAA
7949436 AAAAAA
1 AAAAAA
7949442 TGATGTGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAAAAACAAAAGTTGTAAA
Found at i:7950171 original size:32 final size:32
Alignment explanation
Indices: 7950107--7950179 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
7950097 AAAATAGAAT
***
7950107 AAAAAATAAAATACCAAAAAAATATGTTTATG
1 AAAAAATAAAATACCAAAAAAATATAAATATG
*
7950139 AAAAAATAAAATACGAAAAGAAATA-AAATATG
1 AAAAAATAAAATACCAAAA-AAATATAAATATG
*
7950171 AAGAAATAA
1 AAAAAATAA
7950180 CTTTTTTGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 30 0.86
33 5 0.14
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.19
Consensus pattern (32 bp):
AAAAAATAAAATACCAAAAAAATATAAATATG
Found at i:7950655 original size:154 final size:153
Alignment explanation
Indices: 7950220--7950887 Score: 1017
Period size: 153 Copynumber: 4.4 Consensus size: 153
7950210 TTTTACTAAA
* **
7950220 ATTTTAAAAAATAAAATCCGAAAATAAGCAAAATACCAACAAAGGGCTAAAATCAAATTTTTTTT
1 ATTTTAAAAAATAAAATCCGAAAATAAGCAAAATACCAACAAAGGGCCAAAATC--ATGGTTTTT
* *
7950285 TACTAAATTTATATAAAAAAGGCACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
64 TACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
7950350 AAAAAAATAAAATACGAAAATAGTAT
129 -AAAAAATAAAATACGAAAATAGTAT
* *
7950376 ATTTT-AAAAATAAAATCCGAAAATAAGCAAAATACCAACAAATGGCCAAAATCAAGGTTTTTTA
1 ATTTTAAAAAATAAAATCCGAAAATAAGCAAAATACCAACAAAGGGCCAAAATCATGGTTTTTTA
* * **
7950440 CTAAATTTATATAAAAAAGACACTAAAATAATATATTTGAAACATTATGTAGAAAAATAATATAA
66 CTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
7950505 AAAATAAAATACGAAAATAGTAT
131 AAAATAAAATACGAAAATAGTAT
* * * *
7950528 ATTTTTAAAAATAAAATCTGAAAATAAGCAAAATACCAACAAATGGCCAAAATTATGGTTTTCTT
1 ATTTTAAAAAATAAAATCCGAAAATAAGCAAAATACCAACAAAGGGCCAAAATCATGGTTTT-TT
7950593 ACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-
65 ACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATA
7950657 AAAAATAAAATACGAAAATAGTAT
130 AAAAATAAAATACGAAAATAGTAT
* * * * * *
7950681 ATTTTAAAAAACAAAATCCAAAAATAAGAAAAATACCAACAAA-GGCCAAAATTA-GGGTATTTA
1 ATTTTAAAAAATAAAATCCGAAAATAAGCAAAATACCAACAAAGGGCCAAAATCATGGTTTTTTA
* *
7950744 CTAAATTCATATGAAAAA-ACACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAA
66 CTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
7950808 AAAATAAAATACGAAAATAGTAT
131 AAAATAAAATACGAAAATAGTAT
* *
7950831 ATTTTAAAAAATAAAAT-CGAAAAATAA-AAAAAAACCAACAAAGGGCCAAAATCATGG
1 ATTTTAAAAAATAAAATCCG-AAAATAAGCAAAATACCAACAAAGGGCCAAAATCATGG
7950888 GAAAAAATAA
Statistics
Matches: 477, Mismatches: 29, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
149 58 0.12
150 77 0.16
151 6 0.01
152 41 0.09
153 182 0.38
154 62 0.13
155 46 0.10
156 5 0.01
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (153 bp):
ATTTTAAAAAATAAAATCCGAAAATAAGCAAAATACCAACAAAGGGCCAAAATCATGGTTTTTTA
CTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
AAAATAAAATACGAAAATAGTAT
Found at i:7950834 original size:303 final size:305
Alignment explanation
Indices: 7950220--7950887 Score: 1024
Period size: 303 Copynumber: 2.2 Consensus size: 305
7950210 TTTTACTAAA
* * *
7950220 ATTTTAAAAAATAAAATCCGAAAATAAGCAAAATACCAACAAAGGGCTAAAATCAAAT-TTTTTT
1 ATTTTAAAAAATAAAAT-CGAAAATAAGCAAAATACCAACAAAGGGCCAAAAT--AATGGTTTTC
* *
7950284 TTACTAAATTTATATAAAAAAGGCACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
63 TTACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
* * *
7950349 TAAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATAAGCAAAATACCAA
128 T-AAAAAATAAAATACGAAAATAGTATATTTTAAAAACAAAATCCAAAAATAAGAAAAATACCAA
* * * *
7950414 CAAATGGCCAAAATCAAGGTTTTTTACTAAATTTATATAAAAAAGACACTAAAATAATATATTTG
192 CAAATGGCCAAAATCAAGGGTATTTACTAAATTCATATAAAAAAGACACTAAAATAATACATTTG
*
7950479 AAACATTATGTAGAAAAATAATATAAAAAATAAAATACGAAAATAGTAT
257 AAACATTATGTACAAAAATAATATAAAAAATAAAATACGAAAATAGTAT
* * *
7950528 ATTTTTAAAAATAAAATCTGAAAATAAGCAAAATACCAACAAATGGCCAAAATTATGGTTTTCTT
1 ATTTTAAAAAATAAAATC-GAAAATAAGCAAAATACCAACAAAGGGCCAAAATAATGGTTTTCTT
7950593 ACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-
65 ACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATA
7950657 AAAAATAAAATACGAAAATAGTATATTTTAAAAAACAAAATCCAAAAATAAGAAAAATACCAACA
130 AAAAATAAAATACGAAAATAGTATATTTT-AAAAACAAAATCCAAAAATAAGAAAAATACCAACA
* *
7950722 AA-GGCCAAAAT-TAGGGTATTTACTAAATTCATATGAAAAA-ACACTAAAATAATACATTTGAA
194 AATGGCCAAAATCAAGGGTATTTACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAA
* *
7950784 ATATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAT
259 ACATTATGTACAAAAATAATATAAAAAATAAAATACGAAAATAGTAT
* * *
7950831 ATTTTAAAAAATAAAATCGAAAAATAA-AAAAAAACCAACAAAGGGCCAAAATCATGG
1 ATTTTAAAAAATAAAATCG-AAAATAAGCAAAATACCAACAAAGGGCCAAAATAATGG
7950888 GAAAAAATAA
Statistics
Matches: 331, Mismatches: 25, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
302 27 0.08
303 89 0.27
304 24 0.07
305 38 0.11
306 36 0.11
307 69 0.21
308 48 0.15
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (305 bp):
ATTTTAAAAAATAAAATCGAAAATAAGCAAAATACCAACAAAGGGCCAAAATAATGGTTTTCTTA
CTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
AAAATAAAATACGAAAATAGTATATTTTAAAAACAAAATCCAAAAATAAGAAAAATACCAACAAA
TGGCCAAAATCAAGGGTATTTACTAAATTCATATAAAAAAGACACTAAAATAATACATTTGAAAC
ATTATGTACAAAAATAATATAAAAAATAAAATACGAAAATAGTAT
Found at i:7955654 original size:82 final size:82
Alignment explanation
Indices: 7955517--7955682 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 82
7955507 ATTGGGGTGC
*
7955517 ATTAACGCACTAATTGTTAATTTCAATATAGTCGAGTGGTTCCATAGGGATCAAGTAGTACAACA
1 ATTAACGCACTAATTGTTAATTTCAATATAGTCGAGTGGTTCCATAGGGATCAAGTACTACAACA
7955582 GTTTGGTTGCATCCAGT
66 GTTTGGTTGCATCCAGT
7955599 ATTAACGCACTAATTGTTAATTTCAATATAGTCGAGTGGTTCCATAGGGATCAAGTACTACAACA
1 ATTAACGCACTAATTGTTAATTTCAATATAGTCGAGTGGTTCCATAGGGATCAAGTACTACAACA
7955664 GTTTGGTTGCATCCAGT
66 GTTTGGTTGCATCCAGT
7955681 AT
1 AT
7955683 ATCTCGGATC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (82 bp):
ATTAACGCACTAATTGTTAATTTCAATATAGTCGAGTGGTTCCATAGGGATCAAGTACTACAACA
GTTTGGTTGCATCCAGT
Found at i:7960210 original size:39 final size:39
Alignment explanation
Indices: 7960170--7960467 Score: 302
Period size: 39 Copynumber: 7.6 Consensus size: 39
7960160 ATAAATAAAA
*
7960170 AATAATAATAACTAACAATAATTAGGGTTTTTTACTAAA
1 AATAATAATAACTAACAATAATTAGGGTTTTTTACTAAC
* * * **
7960209 AATAATAACCAAC-AATAATAATAATAGTTTTTTACTAAC
1 AATAATAA-TAACTAACAATAATTAGGGTTTTTTACTAAC
*
7960248 AATAATAATAACTAACAATAATTA-AG-TTTTTACTAAC
1 AATAATAATAACTAACAATAATTAGGGTTTTTTACTAAC
** * * **
7960285 AATAATAACCGAC-AATAATAATAATAGTTTTTTACTAAC
1 AATAATAA-TAACTAACAATAATTAGGGTTTTTTACTAAC
7960324 AATAATAATAACTAACAATAATAATAAGGGTTTTTTACTAAC
1 AATAATAATAACTAACAATAAT--T-AGGGTTTTTTACTAAC
*
7960366 AATAATAATAACTAACAATAATAATAAGGGTTTTTTACCAAC
1 AATAATAATAACTAACAATAAT--T-AGGGTTTTTTACTAAC
* * * *
7960408 AATAATAATTAAC-AATAATAA-TAAGGTCTTTTACTAAG
1 AATAATAA-TAACTAACAATAATTAGGGTTTTTTACTAAC
*
7960446 AATAATAATAATTAACAATAAT
1 AATAATAATAACTAACAATAAT
7960468 AACTAACAAC
Statistics
Matches: 220, Mismatches: 27, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
37 31 0.14
38 38 0.17
39 74 0.34
40 3 0.01
42 70 0.32
43 4 0.02
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (39 bp):
AATAATAATAACTAACAATAATTAGGGTTTTTTACTAAC
Found at i:7960233 original size:42 final size:40
Alignment explanation
Indices: 7960170--7960456 Score: 292
Period size: 42 Copynumber: 7.3 Consensus size: 40
7960160 ATAAATAAAA
* *
7960170 AATAATAATAAC--TAACAATAATTAGGGTTTTTTACTAAA
1 AATAATAATAACAATAATAATAATTA-GGTTTTTTACTAAC
*
7960209 AATAATAACCAACAATAATAATAA-TA-GTTTTTTACTAAC
1 AATAATAA-TAACAATAATAATAATTAGGTTTTTTACTAAC
* *
7960248 AATAATAATAAC--TAACAATAATTAAG-TTTTTACTAAC
1 AATAATAATAACAATAATAATAATTAGGTTTTTTACTAAC
**
7960285 AATAATAACCGACAATAATAATAA-TA-GTTTTTTACTAAC
1 AATAATAA-TAACAATAATAATAATTAGGTTTTTTACTAAC
* *
7960324 AATAATAATAACTAACAATAATAATAAGGGTTTTTTACTAAC
1 AATAATAATAAC-AATAATAATAATTA-GGTTTTTTACTAAC
* * *
7960366 AATAATAATAACTAACAATAATAATAAGGGTTTTTTACCAAC
1 AATAATAATAAC-AATAATAATAATTA-GGTTTTTTACTAAC
* *
7960408 AATAATAATTAACAATAATAAT-A--AGGTCTTTTACTAAG
1 AATAATAA-TAACAATAATAATAATTAGGTTTTTTACTAAC
7960446 AATAATAATAA
1 AATAATAATAA
7960457 TTAACAATAA
Statistics
Matches: 217, Mismatches: 17, Indels: 30
0.82 0.06 0.11
Matches are distributed among these distances:
36 8 0.04
37 24 0.11
38 28 0.13
39 60 0.28
40 12 0.06
41 3 0.01
42 78 0.36
43 4 0.02
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (40 bp):
AATAATAATAACAATAATAATAATTAGGTTTTTTACTAAC
Found at i:7960339 original size:16 final size:16
Alignment explanation
Indices: 7960318--7960350 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7960308 ATAGTTTTTT
7960318 ACTAACAATAATAATA
1 ACTAACAATAATAATA
7960334 ACTAACAATAATAATA
1 ACTAACAATAATAATA
7960350 A
1 A
7960351 GGGTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:7960381 original size:16 final size:16
Alignment explanation
Indices: 7960360--7960392 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7960350 AGGGTTTTTT
7960360 ACTAACAATAATAATA
1 ACTAACAATAATAATA
7960376 ACTAACAATAATAATA
1 ACTAACAATAATAATA
7960392 A
1 A
7960393 GGGTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:7960423 original size:13 final size:13
Alignment explanation
Indices: 7960405--7960429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7960395 GTTTTTTACC
7960405 AACAATAATAATT
1 AACAATAATAATT
7960418 AACAATAATAAT
1 AACAATAATAAT
7960430 AAGGTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AACAATAATAATT
Found at i:7960467 original size:13 final size:12
Alignment explanation
Indices: 7960449--7960510 Score: 74
Period size: 13 Copynumber: 5.1 Consensus size: 12
7960439 TACTAAGAAT
7960449 AATAATAATTAAC
1 AATAATAA-TAAC
7960462 AATAATAACTAAC
1 AATAATAA-TAAC
*
7960475 AACAA-AA-AAC
1 AATAATAATAAC
7960485 AATAATAATCAAC
1 AATAATAAT-AAC
7960498 AATAATAATAAC
1 AATAATAATAAC
7960510 A
1 A
7960511 GCAAAAACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
10 7 0.16
11 2 0.05
12 6 0.14
13 28 0.65
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:7960478 original size:16 final size:16
Alignment explanation
Indices: 7960446--7960508 Score: 56
Period size: 16 Copynumber: 3.7 Consensus size: 16
7960436 TTTTACTAAG
*
7960446 AATAATAATAATTAAC
1 AATAATAATAATCAAC
7960462 AATAATAACTAA-CAAC
1 AATAATAA-TAATCAAC
*
7960478 AAAAAACAATAATAATCAAC
1 ----AATAATAATAATCAAC
7960498 AATAATAATAA
1 AATAATAATAA
7960509 CAGCAAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
16 21 0.55
17 3 0.08
19 3 0.08
20 11 0.29
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAATAATAATCAAC
Found at i:7960492 original size:36 final size:36
Alignment explanation
Indices: 7960449--7960525 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 36
7960439 TACTAAGAAT
*
7960449 AATAATAATTAACAATAATAACTAACAACAAAAA-AC
1 AATAATAATCAACAATAATAA-TAACAACAAAAACAC
*
7960485 AATAATAATCAACAATAATAATAACAGCAAAAACAC
1 AATAATAATCAACAATAATAATAACAACAAAAACAC
7960521 AATAA
1 AATAA
7960526 CAATATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 11 0.29
36 27 0.71
ACGTcount: A:0.66, C:0.14, G:0.01, T:0.18
Consensus pattern (36 bp):
AATAATAATCAACAATAATAATAACAACAAAAACAC
Found at i:7960617 original size:26 final size:26
Alignment explanation
Indices: 7960584--7960640 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
7960574 TATTTCTTTT
7960584 TCCTTTTCCTTCTTCTTCT-TCTCTTC
1 TCCTTTTCCTTCTTCTTCTCT-TCTTC
* *
7960610 TCCTTTTCTTTCTTTTTCTCTTCTTC
1 TCCTTTTCCTTCTTCTTCTCTTCTTC
7960636 TCCTT
1 TCCTT
7960641 GCTGCTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (26 bp):
TCCTTTTCCTTCTTCTTCTCTTCTTC
Found at i:7960618 original size:38 final size:37
Alignment explanation
Indices: 7960563--7960636 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
7960553 AAAATTGTAC
7960563 CTTCTCTTATCTATTTCTTTTTCCTTTTC-CTTCTTCTT
1 CTTCTCTTATCTATTTC--TTTCCTTTTCTCTTCTTCTT
* *
7960601 CTTCTCTTCTCCT-TTTCTTTCTTTTTCTCTTCTTCT
1 CTTCTCTTAT-CTATTTCTTTCCTTTTCTCTTCTTCT
7960637 CCTTGCTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 9 0.28
37 8 0.25
38 13 0.41
39 2 0.06
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (37 bp):
CTTCTCTTATCTATTTCTTTCCTTTTCTCTTCTTCTT
Found at i:7960740 original size:27 final size:27
Alignment explanation
Indices: 7960700--7960764 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
7960690 TATTGGTTAG
* *
7960700 GTGCCACCTATGCCAGAGGCACAACCA
1 GTGCCGCCTCTGCCAGAGGCACAACCA
*
7960727 GTGCCGCCTCTGCCAGAGGCACAACCG
1 GTGCCGCCTCTGCCAGAGGCACAACCA
7960754 GTGCCGCCTCT
1 GTGCCGCCTCT
7960765 AGCACCCCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.20, C:0.40, G:0.26, T:0.14
Consensus pattern (27 bp):
GTGCCGCCTCTGCCAGAGGCACAACCA
Found at i:7961578 original size:15 final size:15
Alignment explanation
Indices: 7961538--7961611 Score: 59
Period size: 16 Copynumber: 5.1 Consensus size: 15
7961528 GTCTACTTTA
7961538 AATT-TTAATATTTTT
1 AATTATTAATA-TTTT
*
7961553 GAATGATTAATATTTT
1 -AATTATTAATATTTT
*
7961569 AATTATTAATA-ATT
1 AATTATTAATATTTT
7961583 AA--ATT-ATATTTT
1 AATTATTAATATTTT
*
7961595 ATAATATTAATATTTT
1 A-ATTATTAATATTTT
7961611 A
1 A
7961612 TTAAAATACC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.06
12 6 0.12
13 1 0.02
14 4 0.08
15 13 0.27
16 15 0.31
17 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
AATTATTAATATTTT
Found at i:7962921 original size:29 final size:30
Alignment explanation
Indices: 7962855--7962921 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
7962845 GTTATAATTT
*
7962855 ATTTCA-TCAAAATATCACACTTTTTTATA
1 ATTTCATTTAAAATATCACACTTTTTTATA
* * * *
7962884 ATTTAATTTAAAATATCATA-TTTTTTGTC
1 ATTTCATTTAAAATATCACACTTTTTTATA
7962913 ATTTCATTT
1 ATTTCATTT
7962922 TTTCATCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.34, C:0.12, G:0.01, T:0.52
Consensus pattern (30 bp):
ATTTCATTTAAAATATCACACTTTTTTATA
Found at i:7971051 original size:44 final size:45
Alignment explanation
Indices: 7970998--7971100 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
7970988 TGTCTTTGAC
* * * *
7970998 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
** * *
7971042 ATGGACTTACATGGCTCAATCCTATTTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATA-TTATAAT
7971088 ATGGACTTACATG
1 ATGGACTTACATG
7971101 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
Found at i:7976965 original size:13 final size:12
Alignment explanation
Indices: 7976947--7976976 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
7976937 AAATAGAATA
7976947 AAAATAATAACAT
1 AAAATAATAA-AT
7976960 AAAATAATAAAT
1 AAAATAATAAAT
7976972 AAAAT
1 AAAAT
7976977 TTTTTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:7979036 original size:14 final size:15
Alignment explanation
Indices: 7979014--7979043 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7979004 GAATATCAAA
7979014 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
7979029 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
7979043 A
1 A
7979044 AGTGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:7979257 original size:69 final size:69
Alignment explanation
Indices: 7979146--7979283 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
7979136 TACAAAGGTA
7979146 AACATCTTAGAAGAATAATGAATACAAAACATAAAGAAAAACCCAAAACTCCTGAAGGAAAATTG
1 AACATCTTAGAAGAATAATGAATACAAAACATAAAGAAAAACCCAAAACTCCTGAAGGAAAATTG
7979211 AGGG
66 AGGG
*
7979215 AACATCTTAGAAGAATAATGAATACAAAACATAAAGAAAAACCCAAAACTCCTGAAGGGAAATTG
1 AACATCTTAGAAGAATAATGAATACAAAACATAAAGAAAAACCCAAAACTCCTGAAGGAAAATTG
7979280 AGGG
66 AGGG
7979284 GAGATTTTCA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.16
Consensus pattern (69 bp):
AACATCTTAGAAGAATAATGAATACAAAACATAAAGAAAAACCCAAAACTCCTGAAGGAAAATTG
AGGG
Found at i:7982176 original size:443 final size:443
Alignment explanation
Indices: 7981350--7982235 Score: 1614
Period size: 443 Copynumber: 2.0 Consensus size: 443
7981340 TATATAAATT
7981350 TATCAATCTTAACAAGAACATCTTCAATGATACCCCTAGGAAATCTAATGGTTTTTGTAGAAACC
1 TATCAATCTTAACAAGAACATCTTCAATGATACCCCTAGGAAATCTAATGGTTTTTGTAGAAACC
*
7981415 ATTTTTAAAAAAAAACAGAGGTCGACTTTAATTTTGAAAATGATAAACGAAAATTTGGAGTCGTC
66 ATTTTTAAAAAAAAACAGAGGTCGACTTTAATTTTGAAAATGATAAACGAAAATTTGGAGTCGCC
7981480 ACCAATCTTTTTTGTTTAGGTGTGATCGGATCACCAAGAAGTTTGGTCATTTTAATAAAACATTT
131 ACCAATCTTTTTTGTTTAGGTGTGATCGGATCACCAAGAAGTTTGGTCATTTTAATAAAACATTT
* *
7981545 TGGGTTTACTAAAACAACGATTTTGGTCTAAGAAATTTGAGAAAACGGGTTTGGGAGTCAGTTAC
196 TGGGTTTACTAAAACAACAATTTTGGTCTAAGAAATTCGAGAAAACGGGTTTGGGAGTCAGTTAC
*
7981610 GTGCAAGGAAGGATTAACACCCTCATAACATCCAAAATTGGTACCTAATTCATTAATTAATGTCC
261 GTGCAAGGAAGGATTAACACCCTCATAACATCCAAAATTGGGACCTAATTCATTAATTAATGTCC
*
7981675 TAATGTCGAAAATTGAAAAGATTTAAAATAAATTTTGAAATATGATCCATTTTTATGAATGTTTA
326 TAATGTCGAAAATTGAAAAGATTTAAAATAAATTTTGAAATACGATCCATTTTTATGAATGTTTA
7981740 GCTAACTTGAAGTGGATATTAAGATTCTCTTATTTCGAAGAAGTAAAATATCA
391 GCTAACTTGAAGTGGATATTAAGATTCTCTTATTTCGAAGAAGTAAAATATCA
*
7981793 TATCAATCTTAACAAGAACATCTTCAATGATACCCCTAGGAAATCTAATGGTTTTTGTCGAAACC
1 TATCAATCTTAACAAGAACATCTTCAATGATACCCCTAGGAAATCTAATGGTTTTTGTAGAAACC
***
7981858 ATTTTTTTTAAAAAACAGAGGTCGACTTTAATTTTGAAAATGATAAACGAAAATTTGGAGTCGCC
66 ATTTTTAAAAAAAAACAGAGGTCGACTTTAATTTTGAAAATGATAAACGAAAATTTGGAGTCGCC
7981923 ACCAATCTTTTTTGTTTAGGTGTGATCGGATCACCAAGAAGTTTGGTCATTTTAATAAAACATTT
131 ACCAATCTTTTTTGTTTAGGTGTGATCGGATCACCAAGAAGTTTGGTCATTTTAATAAAACATTT
*
7981988 TGGGTTTACTAAAACAACAATTTTGGTCTACA-AAATTCGAGAAAACGGGTTTGGGAGTCTGTTA
196 TGGGTTTACTAAAACAACAATTTTGGTCTA-AGAAATTCGAGAAAACGGGTTTGGGAGTCAGTTA
* *
7982052 CGTGCAAGGAAGGATTAACACCCTCATAACA-CCTAAATTTGGGACCTAATTGATTAATTAATGT
260 CGTGCAAGGAAGGATTAACACCCTCATAACATCC-AAAATTGGGACCTAATTCATTAATTAATGT
* *
7982116 CCTAATGTTGAAATTTGAAAAGATTTAAAATAAATTTTGAAATACGATCCATTTTTATGAATGTT
324 CCTAATGTCGAAAATTGAAAAGATTTAAAATAAATTTTGAAATACGATCCATTTTTATGAATGTT
7982181 TAGCTAACTTGAAGTGGATATTAAGATTCTCTTATTTCGAAGAAGTAAAATATCA
389 TAGCTAACTTGAAGTGGATATTAAGATTCTCTTATTTCGAAGAAGTAAAATATCA
7982236 CATCCAACAC
Statistics
Matches: 427, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
442 2 0.00
443 424 0.99
444 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (443 bp):
TATCAATCTTAACAAGAACATCTTCAATGATACCCCTAGGAAATCTAATGGTTTTTGTAGAAACC
ATTTTTAAAAAAAAACAGAGGTCGACTTTAATTTTGAAAATGATAAACGAAAATTTGGAGTCGCC
ACCAATCTTTTTTGTTTAGGTGTGATCGGATCACCAAGAAGTTTGGTCATTTTAATAAAACATTT
TGGGTTTACTAAAACAACAATTTTGGTCTAAGAAATTCGAGAAAACGGGTTTGGGAGTCAGTTAC
GTGCAAGGAAGGATTAACACCCTCATAACATCCAAAATTGGGACCTAATTCATTAATTAATGTCC
TAATGTCGAAAATTGAAAAGATTTAAAATAAATTTTGAAATACGATCCATTTTTATGAATGTTTA
GCTAACTTGAAGTGGATATTAAGATTCTCTTATTTCGAAGAAGTAAAATATCA
Found at i:7982677 original size:130 final size:130
Alignment explanation
Indices: 7982420--7982679 Score: 376
Period size: 130 Copynumber: 2.0 Consensus size: 130
7982410 GCCTTGTCTT
* * *
7982420 AGAATTTAGAAAACATTAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAGCGAGAAATT
1 AGAATTTAGAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATT
* * * * * *
7982485 GCAATCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACGTTGCCTTCGTTTTAA
66 GCAACCCAGCACGATAGGGCACGATACCCCGAATTTCCAAACATCAAACATCGCCTTCGTTTTAA
**
7982550 AGAATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATT
1 AGAATTTAGAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATT
* * * * *
7982615 GCAACCCAGCACGATAGGGCACGATACCTCGAATTTCTAAGCATCAAACATCGCTTTTGTTTTAA
66 GCAACCCAGCACGATAGGGCACGATACCCCGAATTTCCAAACATCAAACATCGCCTTCGTTTTAA
7982680 GGTTTAGACA
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 114 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (130 bp):
AGAATTTAGAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATT
GCAACCCAGCACGATAGGGCACGATACCCCGAATTTCCAAACATCAAACATCGCCTTCGTTTTAA
Found at i:7983173 original size:13 final size:13
Alignment explanation
Indices: 7983157--7983194 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7983147 ATATAAATAG
7983157 AATAAATTAAAAT
1 AATAAATTAAAAT
*
7983170 AAT-AATTAAAAA
1 AATAAATTAAAAT
*
7983182 AATAATTTAAAAT
1 AATAAATTAAAAT
7983195 TGCGTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAATTAAAAT
Found at i:7983608 original size:17 final size:18
Alignment explanation
Indices: 7983581--7983615 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
7983571 ATAGAAATAC
7983581 AATATATAGAAATATAAA
1 AATATATAGAAATATAAA
7983599 AATA-ATAGAAATATAAA
1 AATATATAGAAATATAAA
7983616 TAGACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AATATATAGAAATATAAA
Found at i:7983682 original size:3 final size:3
Alignment explanation
Indices: 7983674--7983712 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
7983664 TGTGGAAACG
*
7983674 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7983713 ATATACTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7986248 original size:46 final size:46
Alignment explanation
Indices: 7986196--7986459 Score: 422
Period size: 46 Copynumber: 5.7 Consensus size: 46
7986186 TGTCATAGCG
* * * *
7986196 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
7986242 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
7986288 TCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
7986334 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* * *
7986380 TCTTTCAACCACGGTCTTACACATTTTATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
7986426 TCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
7986460 AGAGCACACT
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 199 0.98
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:7988952 original size:30 final size:30
Alignment explanation
Indices: 7988885--7988952 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
7988875 CACCCTTAAA
* *
7988885 ATATTTGCACTATTAATCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
7988915 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
7988944 AGTATTTAC
1 A-TATTTAC
7988953 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:7990640 original size:24 final size:24
Alignment explanation
Indices: 7990611--7990659 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7990601 GTAGCAATAT
7990611 AATTTACTTTTAATAATACACATA
1 AATTTACTTTTAATAATACACATA
7990635 AATTTACTTTTAATAATACACATA
1 AATTTACTTTTAATAATACACATA
7990659 A
1 A
7990660 CATTCATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (24 bp):
AATTTACTTTTAATAATACACATA
Found at i:7991456 original size:26 final size:26
Alignment explanation
Indices: 7991420--7991529 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
7991410 TGATACAAAT
7991420 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
7991446 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
7991472 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
7991498 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTTCA
7991524 TGATAA
1 TGATAA
7991530 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 1 0.01
26 79 0.99
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:7993548 original size:130 final size:132
Alignment explanation
Indices: 7993315--7993594 Score: 465
Period size: 130 Copynumber: 2.1 Consensus size: 132
7993305 GAGTAGTCTC
7993315 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
7993380 TGTTATATGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG-A-TCTGGCCCAGTACCACTGT
66 TGTTATATAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAGTCTGGCCCAGTACCACTGT
7993443 TA
131 TA
7993445 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
7993510 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATATAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG--AA--G-TCTGGCCCAGTACC
7993575 ACTGTTA
126 ACTGTTA
**
7993582 CCTGAATGGGCTT
1 CCCAAATGGGCTT
7993595 AGGCCCAATA
Statistics
Matches: 139, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
130 106 0.76
133 1 0.01
137 32 0.23
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (132 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATATAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAGTCTGGCCCAGTACCACTGT
TA
Found at i:7994935 original size:45 final size:46
Alignment explanation
Indices: 7994884--7994980 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
7994874 CCCATCCACG
* * *
7994884 GTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTATA
1 GTCTTATTCATCTTCTGACATGATGCCATAGTATCTTTCAACCATA
* * * * *
7994929 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
1 GTCTTATTCATCTTCTGACATGATGCCATAGTATCTTTCAACCATA
7994975 GTCTTA
1 GTCTTA
7994981 CACATTTCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 12 0.28
46 31 0.72
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (46 bp):
GTCTTATTCATCTTCTGACATGATGCCATAGTATCTTTCAACCATA
Found at i:7995119 original size:46 final size:46
Alignment explanation
Indices: 7994906--7995133 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
7994896 TTTGACATGA
* * * * ** * *
7994906 TGCCATAGTGTCTTTCAACTATAGTCTTATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
7994952 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7994998 TGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7995044 TGCCATGGTATCTTTCAACCATGTTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7995090 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7995134 AGAGTACACT
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 160 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:7997602 original size:29 final size:30
Alignment explanation
Indices: 7997552--7997619 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
7997542 CACCCTTAAA
* * *
7997552 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
7997582 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
7997611 AGTATTTAC
1 A-TATTTAC
7997620 TCTTGAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:8003333 original size:23 final size:23
Alignment explanation
Indices: 8003307--8003351 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8003297 TGGGTATGTA
* *
8003307 ATGACGTTATCTTGTAAATATGC
1 ATGAAGTTATCTTGAAAATATGC
*
8003330 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
8003352 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:8012975 original size:40 final size:40
Alignment explanation
Indices: 8012914--8012989 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
8012904 TGGGACTTTA
*
8012914 TGGTGTGTAGGGTTAGATGGGTCAATTTTATCCCCATATT
1 TGGTGTGTAGGGATAGATGGGTCAATTTTATCCCCATATT
* *
8012954 TGGTGTGTAGGGATGGGTGGGTCAATTTTATCCCCA
1 TGGTGTGTAGGGATAGATGGGTCAATTTTATCCCCA
8012990 CATGGTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (40 bp):
TGGTGTGTAGGGATAGATGGGTCAATTTTATCCCCATATT
Found at i:8014153 original size:15 final size:15
Alignment explanation
Indices: 8014133--8014166 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8014123 AATTTCTTCA
8014133 AATTATTATTTAATC
1 AATTATTATTTAATC
8014148 AATTATTATTTAATC
1 AATTATTATTTAATC
8014163 AATT
1 AATT
8014167 GGAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTATTATTTAATC
Found at i:8015767 original size:23 final size:24
Alignment explanation
Indices: 8015736--8015789 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
8015726 CACATGAATT
*
8015736 TATATATTTTTA-ATTTATTAAATA
1 TATATATTTTTATATTT-TCAAATA
8015760 -ATATATTTTTATATTTTCAAATA
1 TATATATTTTTATATTTTCAAATA
8015783 TATATAT
1 TATATAT
8015790 GTTATACCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATTTTTATATTTTCAAATA
Found at i:8017022 original size:34 final size:34
Alignment explanation
Indices: 8016984--8017055 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
8016974 TTAAAAAAAT
* *
8016984 TTATTTTTA-TAATAATGTCAAAATTAAATTATAA
1 TTATTTTAACTAACAAT-TCAAAATTAAATTATAA
**
8017018 TTATTTTAACTAACAATTTTAAATTAAATTATAA
1 TTATTTTAACTAACAATTCAAAATTAAATTATAA
8017052 TTAT
1 TTAT
8017056 AATTATCGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (34 bp):
TTATTTTAACTAACAATTCAAAATTAAATTATAA
Found at i:8023923 original size:23 final size:23
Alignment explanation
Indices: 8023897--8023944 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
8023887 CGTCTCGATG
8023897 ATAAACATATCTCCGTCGACCAA
1 ATAAACATATCTCCGTCGACCAA
* * *
8023920 ATAAATATATCTTCGTCGACTAA
1 ATAAACATATCTCCGTCGACCAA
8023943 AT
1 AT
8023945 GAAAATGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (23 bp):
ATAAACATATCTCCGTCGACCAA
Found at i:8024760 original size:20 final size:20
Alignment explanation
Indices: 8024735--8024773 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8024725 TTAATTAAAA
8024735 TATAAAT-TTTATAAAATTTT
1 TATAAATATTT-TAAAATTTT
8024755 TATAAATATTTTAAAATTT
1 TATAAATATTTTAAAATTT
8024774 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATAAATATTTTAAAATTTT
Found at i:8024769 original size:36 final size:36
Alignment explanation
Indices: 8024719--8024802 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
8024709 TGATAAACTT
*
8024719 AAATTATTAATTAAAATATAAATTTTATAAAATT-TTTA
1 AAATTATT--TTAAAATATAAAATTTA-AAAATTATTTA
* *
8024757 TAAA-TATTTTAAAATTTAAAATTTAAAATTTATTTA
1 -AAATTATTTTAAAATATAAAATTTAAAAATTATTTA
8024793 AAATTATTTT
1 AAATTATTTT
8024803 GTAATTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
35 8 0.20
36 25 0.62
38 4 0.10
39 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
AAATTATTTTAAAATATAAAATTTAAAAATTATTTA
Found at i:8024776 original size:7 final size:7
Alignment explanation
Indices: 8024764--8024788 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8024754 TTATAAATAT
8024764 TTTAAAA
1 TTTAAAA
8024771 TTTAAAA
1 TTTAAAA
8024778 TTTAAAA
1 TTTAAAA
8024785 TTTA
1 TTTA
8024789 TTTAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:8025838 original size:22 final size:23
Alignment explanation
Indices: 8025813--8025990 Score: 99
Period size: 21 Copynumber: 7.9 Consensus size: 23
8025803 TATATTATTT
*
8025813 AAAATATATATTTAATA-TTTAA
1 AAAATATATATTTAAAATTTTAA
*
8025835 AAAATA-ATATTCAAAATTTTAA
1 AAAATATATATTTAAAATTTTAA
*
8025857 AAAATA-A-ATTCAAAATTTTAA
1 AAAATATATATTTAAAATTTTAA
* *
8025878 AAAATA-A-ATTCAAAAATATATATTTA
1 AAAATATATATT--TAAA-AT-T-TTAA
* * * * *
8025904 AAATTTTAAAATTAATA-TTT-A
1 AAAATATATATTTAAAATTTTAA
8025925 AAAATA-ATATTTAAAATTTTAA
1 AAAATATATATTTAAAATTTTAA
*
8025947 AAAATATATATTATAAAACATTT--
1 AAAATATATATT-TAAAA-TTTTAA
* *
8025970 CAAATATATATTTCAAATTTT
1 AAAATATATATTTAAAATTTT
8025991 TTAAAATTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 27
0.74 0.11 0.16
Matches are distributed among these distances:
20 7 0.06
21 43 0.34
22 31 0.25
23 20 0.16
24 7 0.06
25 5 0.04
26 9 0.07
27 1 0.01
28 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATATATATTTAAAATTTTAA
Found at i:8025887 original size:35 final size:35
Alignment explanation
Indices: 8025848--8025952 Score: 119
Period size: 34 Copynumber: 3.0 Consensus size: 35
8025838 ATAATATTCA
*
8025848 AAATTTTAAAAAATAAATTCAAAATTTTAAAAAAT
1 AAATTTTAAAAAATAAATTTAAAATTTTAAAAAAT
* *
8025883 AAA-TTCAAAAATATATATTTAAAATTTT--AAAAT
1 AAATTTTAAAAA-ATAAATTTAAAATTTTAAAAAAT
*
8025916 TAATATTT-AAAAATAATATTTAAAATTTTAAAAAAT
1 AAAT-TTTAAAAAATAA-ATTTAAAATTTTAAAAAAT
8025952 A
1 A
8025953 TATATTATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
33 10 0.18
34 23 0.40
35 19 0.33
36 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (35 bp):
AAATTTTAAAAAATAAATTTAAAATTTTAAAAAAT
Found at i:8025906 original size:14 final size:13
Alignment explanation
Indices: 8025877--8025940 Score: 59
Period size: 13 Copynumber: 5.3 Consensus size: 13
8025867 CAAAATTTTA
*
8025877 AAAAATAA-ATTC
1 AAAAATAATATTT
8025889 AAAAATATATATTT
1 AAAAATA-ATATTT
8025903 ---AA-AAT-TTT
1 AAAAATAATATTT
*
8025911 AAAATTAATATTT
1 AAAAATAATATTT
8025924 AAAAATAATATTT
1 AAAAATAATATTT
8025937 AAAA
1 AAAA
8025941 TTTTAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 1 0.02
11 3 0.07
12 10 0.24
13 20 0.48
14 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAATAATATTT
Found at i:8025940 original size:34 final size:33
Alignment explanation
Indices: 8025856--8025949 Score: 127
Period size: 34 Copynumber: 2.8 Consensus size: 33
8025846 CAAAATTTTA
*
8025856 AAAAATAA-ATTCAAAATTTTAAAAAATAAATTC
1 AAAAATAATATTTAAAATTTT-AAAAATAAATTC
* *
8025889 AAAAATATATATTTAAAATTTTAAAATTAATATTT
1 AAAAATA-ATATTTAAAATTTTAAAAATAA-ATTC
8025924 AAAAATAATATTTAAAATTTTAAAAA
1 AAAAATAATATTTAAAATTTTAAAAA
8025950 ATATATATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
33 7 0.13
34 26 0.48
35 21 0.39
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAAATAATATTTAAAATTTTAAAAATAAATTC
Found at i:8025997 original size:23 final size:22
Alignment explanation
Indices: 8025925--8025997 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
8025915 TTAATATTTA
**
8025925 AAAATA-ATATTTAAAATTTTAA
1 AAAATATATATTT-AAATTTTTT
***
8025947 AAAATATATATTATAAAACATTT
1 AAAATATATATT-TAAATTTTTT
*
8025970 CAAATATATATTTCAAATTTTTT
1 AAAATATATATTT-AAATTTTTT
8025993 AAAAT
1 AAAAT
8025998 TAATAACAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
22 7 0.18
23 30 0.79
24 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATATATTTAAATTTTTT
Found at i:8026030 original size:9 final size:9
Alignment explanation
Indices: 8026018--8026042 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8026008 AAAATGAAAT
8026018 AAATAAACA
1 AAATAAACA
8026027 AAATAAACA
1 AAATAAACA
8026036 AAATAAA
1 AAATAAA
8026043 ATAAGACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAACA
Found at i:8026083 original size:19 final size:19
Alignment explanation
Indices: 8026040--8026106 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
8026030 TAAACAAAAT
* *
8026040 AAAATAAGACAAAAATTAG
1 AAAAAAAGACAAAAATTAA
* *
8026059 AGAAAAAGACAAAAGTTAA
1 AAAAAAAGACAAAAATTAA
*
8026078 AAAAAAAGTA-AAAAATAAA
1 AAAAAAAG-ACAAAAATTAA
8026097 AAAAGAAAGA
1 AAAA-AAAGA
8026107 AAGAAGGTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 34 0.87
20 5 0.13
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (19 bp):
AAAAAAAGACAAAAATTAA
Found at i:8027471 original size:40 final size:40
Alignment explanation
Indices: 8027427--8027506 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
8027417 ATATCACTGA
*
8027427 ACATCTTCAATACACCATTAATCAAACCAATCAATTGAAT
1 ACATCTTCAATACACCATTAATAAAACCAATCAATTGAAT
* * **
8027467 ACATCTTCAATGCACTATTAATAAAATTAATCAATTGAAT
1 ACATCTTCAATACACCATTAATAAAACCAATCAATTGAAT
8027507 CAATTAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (40 bp):
ACATCTTCAATACACCATTAATAAAACCAATCAATTGAAT
Found at i:8034926 original size:29 final size:27
Alignment explanation
Indices: 8034894--8034951 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
8034884 ATGGAGGATT
* *
8034894 TTTTTATCTAATAAAATTAGATAAATTAA
1 TTTTTATAT-ATAAAATTA-AAAAATTAA
*
8034923 TTTTTATATATTAAATTAAAAAATTAA
1 TTTTTATATATAAAATTAAAAAATTAA
8034950 TT
1 TT
8034952 AGTTGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.38
28 8 0.31
29 8 0.31
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
TTTTTATATATAAAATTAAAAAATTAA
Found at i:8035103 original size:25 final size:26
Alignment explanation
Indices: 8035071--8035124 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
8035061 CTATTTTAAT
*
8035071 TTTTTAAT-AGTAAAA-ATAAATATAA
1 TTTTTAATAAATAAAACA-AAATATAA
8035096 TTTTTAATAAATAAAACAAAATATAA
1 TTTTTAATAAATAAAACAAAATATAA
8035122 TTT
1 TTT
8035125 CACTCGTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 17 0.65
27 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
TTTTTAATAAATAAAACAAAATATAA
Found at i:8035857 original size:3 final size:3
Alignment explanation
Indices: 8035851--8035882 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8035841 AAAGAAAACA
*
8035851 CAG CAG CAG CAG CAG CAG CAG CAG CAG GAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
8035883 AGAAAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:8035899 original size:9 final size:8
Alignment explanation
Indices: 8035882--8035915 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
8035872 CAGCAGGAGC
8035882 AAGAAAAG
1 AAGAAAAG
8035890 AAGAAGAAG
1 AAGAA-AAG
8035899 AAGAAAAAG
1 AAG-AAAAG
8035908 AAGAAAAG
1 AAGAAAAG
8035916 TAGTAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 10 0.42
9 12 0.50
10 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (8 bp):
AAGAAAAG
Found at i:8039814 original size:24 final size:21
Alignment explanation
Indices: 8039779--8039838 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 21
8039769 AAAGAAATTG
8039779 TTTTTAAGATTTTTAAATATTAT
1 TTTTTAAGATTTTT-AA-ATTAT
8039802 TTTTTAAGAATTTTTAAATTA-
1 TTTTTAAG-ATTTTTAAATTAT
*
8039823 TTTTTAATATTTTTAA
1 TTTTTAAGATTTTTAA
8039839 TTTAAATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 8 0.23
21 7 0.20
22 4 0.11
23 10 0.29
24 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTTAAGATTTTTAAATTAT
Found at i:8039861 original size:25 final size:25
Alignment explanation
Indices: 8039814--8039883 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
8039804 TTTAAGAATT
**
8039814 TTTAAATTATTTTTAATATTTTTAA
1 TTTAAATTATTTTTTTTATTTTTAA
8039839 TTTAAATTATTTTTTTTCA-TTTTAA
1 TTTAAATTATTTTTTTT-ATTTTTAA
* *
8039864 TATAAAATATTTATTTTTAT
1 TTTAAATTATTT-TTTTTAT
8039884 ATCATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 32 0.84
26 6 0.16
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTAAATTATTTTTTTTATTTTTAA
Found at i:8040539 original size:36 final size:36
Alignment explanation
Indices: 8040492--8040568 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
8040482 AACAACACAA
* *
8040492 AAATTTAACGAGAATTTATAAATTATATATTGTAAG
1 AAATTTAACGAGAATTTACAAAGTATATATTGTAAG
8040528 AAATTTAACGAGAATTTACAAAGTATATATTGTAAG
1 AAATTTAACGAGAATTTACAAAGTATATATTGTAAG
8040564 AAATT
1 AAATT
8040569 ATGTAATAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (36 bp):
AAATTTAACGAGAATTTACAAAGTATATATTGTAAG
Found at i:8041000 original size:2 final size:2
Alignment explanation
Indices: 8040995--8041025 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8040985 GTAAGGAGTA
*
8040995 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8041026 ATGAGTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 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):
AT
Found at i:8041973 original size:31 final size:31
Alignment explanation
Indices: 8041930--8041992 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
8041920 AAACAAGTTC
*
8041930 TCCACCTCTTCCATAAAACCCCTTAAGGGTT
1 TCCAACTCTTCCATAAAACCCCTTAAGGGTT
*
8041961 TCCAACTCTTCCATAAAACCCTTTAAGGGTT
1 TCCAACTCTTCCATAAAACCCCTTAAGGGTT
8041992 T
1 T
8041993 AACTTCAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (31 bp):
TCCAACTCTTCCATAAAACCCCTTAAGGGTT
Found at i:8048679 original size:29 final size:29
Alignment explanation
Indices: 8048618--8048716 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 29
8048608 ACAGTAAGTC
*
8048618 CGCACACTTAGTGCT-TA-ATATTCAAACC
1 CGCACACTTAGTGCTATACA-ATTCAAACT
*
8048646 CGCACACTTAGTACTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
8048675 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
8048703 CGCACACTTAGTGC
1 CGCACACTTAGTGC
8048717 CAATCTCATT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
28 33 0.50
29 32 0.48
30 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:8049838 original size:17 final size:18
Alignment explanation
Indices: 8049801--8049838 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8049791 CACTTTTTTT
8049801 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
8049820 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
8049837 TT
1 TT
8049839 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:8057141 original size:24 final size:24
Alignment explanation
Indices: 8057109--8057155 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8057099 ACCATGCATT
8057109 TTCAAAGAAAGTTACAAGTTATTA
1 TTCAAAGAAAGTTACAAGTTATTA
8057133 TTCAAAGAAAGTTACAAGTTATT
1 TTCAAAGAAAGTTACAAGTTATT
8057156 TTTTACTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.34
Consensus pattern (24 bp):
TTCAAAGAAAGTTACAAGTTATTA
Found at i:8061381 original size:94 final size:94
Alignment explanation
Indices: 8061271--8061460 Score: 319
Period size: 94 Copynumber: 2.0 Consensus size: 94
8061261 CACCATTTAA
8061271 AATATTGTACACCAACTAGTACATTAGTTAAAATTTACCAACTTTAAACTT-ATTTTATTTATTT
1 AATATTGTACACCAACTAGTACATTAGTTAAAATTTACCAACTTTAAACTTAATTTTATTTATTT
8061335 TAAAATAAAAAAACTAATAAATAATAAAAG
66 TAAAAT-AAAAAACTAATAAATAATAAAAG
* * * *
8061365 AATATTGTGCACCAACTCGTACATTATTTAAAGTTTACCAACTTTAAACTTAATTTTATTTATTT
1 AATATTGTACACCAACTAGTACATTAGTTAAAATTTACCAACTTTAAACTTAATTTTATTTATTT
*
8061430 TAAAATAAAAAATTAATAAATAATAAAAG
66 TAAAATAAAAAACTAATAAATAATAAAAG
8061459 AA
1 AA
8061461 GTGTTGGGTT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 71 0.79
95 19 0.21
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.37
Consensus pattern (94 bp):
AATATTGTACACCAACTAGTACATTAGTTAAAATTTACCAACTTTAAACTTAATTTTATTTATTT
TAAAATAAAAAACTAATAAATAATAAAAG
Found at i:8065350 original size:3 final size:3
Alignment explanation
Indices: 8065342--8065385 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
8065332 TTGCACGAAC
* * * *
8065342 TGT TGT TGT TGT TGT TGT TGT TGC TGC TGC TGT TGC TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
8065386 ATCCAATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.09, G:0.34, T:0.57
Consensus pattern (3 bp):
TGT
Found at i:8074468 original size:23 final size:24
Alignment explanation
Indices: 8074427--8074473 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
8074417 ATAAAATAAT
*
8074427 AAATTTACTTTTAATGTGCTCGAA
1 AAATTTACTTTTAACGTGCTCGAA
8074451 AAATTTAC-TTTAACGTGCTCGAA
1 AAATTTACTTTTAACGTGCTCGAA
8074474 TCCTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (24 bp):
AAATTTACTTTTAACGTGCTCGAA
Found at i:8083026 original size:18 final size:19
Alignment explanation
Indices: 8082993--8083029 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8082983 TTTTAAAATT
*
8082993 CATATTGTTCATATTTTCA
1 CATATTATTCATATTTTCA
8083012 CATATTATT-ATATTTTCA
1 CATATTATTCATATTTTCA
8083030 TTATTATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.54
Consensus pattern (19 bp):
CATATTATTCATATTTTCA
Found at i:8083088 original size:30 final size:27
Alignment explanation
Indices: 8083030--8083088 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 27
8083020 TATATTTTCA
**
8083030 TTATTATCCTTTTTATTTCTTGTTATT
1 TTATTATCCTTTTTATTTCTTGGCATT
*
8083057 TTATTATTCCTTTTATTATTTTTTGGCATT
1 TTATTA-TCC-TTT-TTATTTCTTGGCATT
8083087 TT
1 TT
8083089 TCAAATCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.23
28 3 0.12
29 3 0.12
30 14 0.54
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (27 bp):
TTATTATCCTTTTTATTTCTTGGCATT
Found at i:8084871 original size:2 final size:2
Alignment explanation
Indices: 8084866--8084900 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8084856 TATGTACAAG
8084866 TA TA TA 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 TA TA TA T
8084901 TTAAATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8089752 original size:19 final size:20
Alignment explanation
Indices: 8089709--8089753 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
8089699 TGCCTCTTTT
*
8089709 TGCA-TACATTCCATGCATT
1 TGCATTACATTCCATGCATA
*
8089728 TGCATTACATTGCAT-CATA
1 TGCATTACATTCCATGCATA
8089747 TGCATTA
1 TGCATTA
8089754 AATTTTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (20 bp):
TGCATTACATTCCATGCATA
Found at i:8091239 original size:23 final size:23
Alignment explanation
Indices: 8091191--8091309 Score: 112
Period size: 23 Copynumber: 5.1 Consensus size: 23
8091181 GATATATCAA
*
8091191 CTCGTAAGAGCTTACTGTTTTCAG
1 CTCGTTAGAGCTTACTG-TTTCAG
*
8091215 CTCGTTAGAGCTTATTGTTTCAG
1 CTCGTTAGAGCTTACTGTTTCAG
* *
8091238 CTCGTTGGAGCTTACTGTTTTAG
1 CTCGTTAGAGCTTACTGTTTCAG
** * * *
8091261 CTTATAAAAGCTTATTGTTTTCAG
1 CTCGTTAGAGCTTACTG-TTTCAG
* * *
8091285 CTCGTCAGAGCTTACCGTTTGAG
1 CTCGTTAGAGCTTACTGTTTCAG
8091308 CT
1 CT
8091310 TAATAGAGCT
Statistics
Matches: 75, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 44 0.59
24 31 0.41
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (23 bp):
CTCGTTAGAGCTTACTGTTTCAG
Found at i:8091252 original size:47 final size:47
Alignment explanation
Indices: 8091191--8091325 Score: 141
Period size: 47 Copynumber: 2.9 Consensus size: 47
8091181 GATATATCAA
* * * *
8091191 CTCGTAAGAGCTTACTGTTTTCAGCTCGTTAGAGCTTATTG-TTTCAG
1 CTCGTCAGAGCTTACTGTTTT-AGCTCATAAAAGCTTATTGTTTTCAG
** *
8091238 CTCGTTGGAGCTTACTGTTTTAGCTTATAAAAGCTTATTGTTTTCAG
1 CTCGTCAGAGCTTACTGTTTTAGCTCATAAAAGCTTATTGTTTTCAG
* *
8091285 CTCGTCAGAGCTTACCGTTTGAGCT--TAATAGAGCTTATTGT
1 CTCGTCAGAGCTTACTGTTTTAGCTCATAA-A-AGCTTATTGT
8091326 CCATCAACTC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 3 0.04
46 16 0.21
47 56 0.75
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (47 bp):
CTCGTCAGAGCTTACTGTTTTAGCTCATAAAAGCTTATTGTTTTCAG
Found at i:8094209 original size:13 final size:12
Alignment explanation
Indices: 8094187--8094217 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
8094177 CACCAAAACT
8094187 AAACAATAATAA
1 AAACAATAATAA
8094199 AAACTAATAATAA
1 AAAC-AATAATAA
8094212 AAACAA
1 AAACAA
8094218 AACAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (12 bp):
AAACAATAATAA
Found at i:8094295 original size:17 final size:18
Alignment explanation
Indices: 8094265--8094306 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
8094255 AGCCCATTAC
8094265 AAACCCAAACCTAA-ATT
1 AAACCCAAACCTAACATT
8094282 AAACCC-AACTCTAATCATT
1 AAACCCAAAC-CTAA-CATT
8094301 AAACCC
1 AAACCC
8094307 TAAGACCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
19 9 0.41
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (18 bp):
AAACCCAAACCTAACATT
Found at i:8095615 original size:25 final size:27
Alignment explanation
Indices: 8095553--8095615 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
8095543 TCCATGTTAT
*
8095553 TTTATATATA-ATTTCTTTTAAATCTA
1 TTTATATATATATTTCTTTGAAATCTA
*
8095579 TTTATATGTATATTT-TTTGAAATCTA
1 TTTATATATATATTTCTTTGAAATCTA
*
8095605 -TTATGTATATA
1 TTTATATATATA
8095616 ATTCATTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 9 0.28
26 19 0.59
27 4 0.12
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTATATATATATTTCTTTGAAATCTA
Found at i:8096484 original size:13 final size:13
Alignment explanation
Indices: 8096466--8096493 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8096456 AATATAGGGG
8096466 AAAATGTACCATT
1 AAAATGTACCATT
8096479 AAAATGTACCATT
1 AAAATGTACCATT
8096492 AA
1 AA
8096494 CGAATTTTCA
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:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:8104560 original size:45 final size:45
Alignment explanation
Indices: 8104174--8104793 Score: 317
Period size: 44 Copynumber: 13.7 Consensus size: 45
8104164 AAAGTCATCG
* * * * *
8104174 TAGCAAATATTATCTCCCTAAAGTTGCAGTGGAGCATATTAAAGC
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * * *
8104219 CA-CAAGTCTTATCTCCCTAAAGTTGCAATAGAGCAGACTGAAGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
** * * * * *
8104263 TAGTGAATCTTATTTCCCTGAAGTTGCAGTGAAACAAATTAAGGCTACAAA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGA
* * * *
8104314 TTA-CAAATCTGATCACCTTGAAGTTGCAGTGGAGCAGATTGAAGT
1 -TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * ** *
8104359 TA-CAGAT-TTGATCTCCCTGTAGTTGCATTAGATTAGATTAAAGA
1 TAGCAAATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * ** * * * * *
8104403 TAGCAAATCTTATCTCTCTGAAATTGCAGCAGAGTATAGTAAAGT
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * **
8104448 TA-TAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAATT
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * *
8104492 TA-CAAGTCTTACCTCCCTGAAGTTGTAGTGGAGTACATTGAAGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
*
8104536 TAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * *
8104581 TAGCGAACCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGA
* * * * *
8104632 TTA-TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCGGATTGCAA-C
1 -TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGA
* * * * **
8104677 CA-CAAATCTTATCTTCCTGAAGTTGCAATGAAAAAGATTGAAGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * ** * * * * *
8104721 TA-CGAGTCTCATCTCTTTGAAGTTACATTGGAGCAAATTAAAGC
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * *
8104765 TA-CAAGTCTAATCTCCCTGAAGTTACAGT
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGT
8104794 AGAGTAGGTC
Statistics
Matches: 426, Mismatches: 129, Indels: 41
0.71 0.22 0.07
Matches are distributed among these distances:
43 3 0.01
44 217 0.51
45 130 0.31
46 4 0.01
47 1 0.00
48 4 0.01
50 2 0.00
51 61 0.14
52 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
Found at i:8106429 original size:3 final size:3
Alignment explanation
Indices: 8106421--8106466 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
8106411 TTCATTCGTA
*
8106421 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8106467 GTCTTACTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8123082 original size:10 final size:10
Alignment explanation
Indices: 8123045--8123081 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
8123035 TGGACTTTAA
8123045 TTTTATTTT-
1 TTTTATTTTG
8123054 TTTTATTTTG
1 TTTTATTTTG
*
8123064 ATTTATTTTG
1 TTTTATTTTG
8123074 TTTT-TTTT
1 TTTTATTTT
8123082 TTTGGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 13 0.52
10 12 0.48
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:8124653 original size:9 final size:9
Alignment explanation
Indices: 8124645--8124677 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
8124635 ACCAAGTTAT
8124645 TTTTTTTA-
1 TTTTTTTAC
8124653 -TTTTTTAC
1 TTTTTTTAC
8124661 TTTTTTTAC
1 TTTTTTTAC
8124670 TTTTTTTA
1 TTTTTTTA
8124678 TCGAACCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
9 16 0.70
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:8130692 original size:21 final size:21
Alignment explanation
Indices: 8130655--8130694 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8130645 ATGTTGACCG
*
8130655 AGCATTGACTGATCATTGACT
1 AGCATTGACTCATCATTGACT
8130676 AGCATTGAC-CATCCATTGA
1 AGCATTGACTCAT-CATTGA
8130695 TTGGTCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
AGCATTGACTCATCATTGACT
Found at i:8130824 original size:20 final size:20
Alignment explanation
Indices: 8130801--8130853 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
8130791 AAATATATAT
8130801 AATATATATAAAAAGTAAAA
1 AATATATATAAAAAGTAAAA
* *
8130821 AATAGTATAT-AAAATTGAAA
1 AATA-TATATAAAAAGTAAAA
8130841 AATAT-TATAAAAA
1 AATATATATAAAAA
8130854 TAATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 5 0.17
20 16 0.55
21 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (20 bp):
AATATATATAAAAAGTAAAA
Done.