Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 42 of 205
Found at i:12600044 original size:27 final size:28
Alignment explanation
Indices: 12599999--12600072 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 28
12599989 ATAAGGGAAG
**
12599999 TATACTG-TACTGGTGGCTTTGGC-ACA
1 TATACTGTTACTGGCAGCTTTGGCTACA
*
12600025 TATACTGTTACTGGCAGCTTT-GCTGCA
1 TATACTGTTACTGGCAGCTTTGGCTACA
* *
12600052 T-TAATATTACTGGCAGCTTTG
1 TATACTGTTACTGGCAGCTTTG
12600073 CTGCGATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 26 0.65
27 14 0.35
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (28 bp):
TATACTGTTACTGGCAGCTTTGGCTACA
Found at i:12600228 original size:28 final size:28
Alignment explanation
Indices: 12600183--12600248 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
12600173 ACTGCTTTGT
*
12600183 ACTGATTACTGTATTGGGCTAAGGCCCAC
1 ACTG-TTACTGTAATGGGCTAAGGCCCAC
12600212 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCAC
12600240 ACTG-TACTG
1 ACTGTTACTG
12600249 ATACTGTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 5 0.14
28 27 0.75
29 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (28 bp):
ACTGTTACTGTAATGGGCTAAGGCCCAC
Found at i:12600254 original size:33 final size:33
Alignment explanation
Indices: 12600180--12600256 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 33
12600170 ATCACTGCTT
*
12600180 TGTACTGATTACTGTATTGGGCTAAGGCCCACAC
1 TGTACTGA-TACTGTAATGGGCTAAGGCCCACAC
12600214 TG---T--TACTGTAATGGGCTAAGGCCCACAC
1 TGTACTGATACTGTAATGGGCTAAGGCCCACAC
12600242 TGTACTGATACTGTA
1 TGTACTGATACTGTA
12600257 TAGGGCTCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
28 26 0.70
31 2 0.05
33 7 0.19
34 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (33 bp):
TGTACTGATACTGTAATGGGCTAAGGCCCACAC
Found at i:12606121 original size:18 final size:18
Alignment explanation
Indices: 12606100--12606134 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12606090 CGGTCGAAGC
12606100 GCTCATCCTAGACGAATT
1 GCTCATCCTAGACGAATT
12606118 GCTCATCCTAGACGAAT
1 GCTCATCCTAGACGAAT
12606135 CGAAAAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
GCTCATCCTAGACGAATT
Found at i:12617144 original size:14 final size:14
Alignment explanation
Indices: 12617125--12617152 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12617115 AAGACAATTT
12617125 TCTCCTTATGCAAA
1 TCTCCTTATGCAAA
12617139 TCTCCTTATGCAAA
1 TCTCCTTATGCAAA
12617153 CTATTTGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TCTCCTTATGCAAA
Found at i:12626552 original size:21 final size:21
Alignment explanation
Indices: 12626501--12626553 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
12626491 CGATAGCCAA
*
12626501 AATAAAAATAATAAATCGAAG
1 AATAAAAATAATAAATAGAAG
* *
12626522 ACTAAAAATAATAAATAGAAT
1 AATAAAAATAATAAATAGAAG
*
12626543 AATAACAATAA
1 AATAAAAATAA
12626554 ATGCAATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (21 bp):
AATAAAAATAATAAATAGAAG
Found at i:12626653 original size:51 final size:51
Alignment explanation
Indices: 12626598--12626704 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 51
12626588 TAATGTCCAG
* *
12626598 AAATAAATTAAAAATAAATACAAAAT-AAAATTAA-AGAAACT-AAATAAACAA
1 AAATAAA-TAAAAAGAAATAAAAAATAAAAATTAATA-AAA-TAAAATAAACAA
* *
12626649 AAATAAATAATAAGAAATAAAAAATAAAAATTAATAAAATAAAATAAATAA
1 AAATAAATAAAAAGAAATAAAAAATAAAAATTAATAAAATAAAATAAACAA
12626700 AAATA
1 AAATA
12626705 GGGCAAAAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
50 16 0.33
51 32 0.65
52 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.21
Consensus pattern (51 bp):
AAATAAATAAAAAGAAATAAAAAATAAAAATTAATAAAATAAAATAAACAA
Found at i:12626655 original size:14 final size:13
Alignment explanation
Indices: 12626607--12626702 Score: 79
Period size: 14 Copynumber: 7.2 Consensus size: 13
12626597 GAAATAAATT
12626607 AAAAATAAATACAA
1 AAAAATAAATA-AA
* *
12626621 AATAA-AATTAAA
1 AAAAATAAATAAA
* *
12626633 GAAACTAAATAAA
1 AAAAATAAATAAA
12626646 CAAAAATAAATAATA
1 -AAAAATAAATAA-A
*
12626661 AGAAATAAA-AAA
1 AAAAATAAATAAA
*
12626673 TAAAAATTAATAAA
1 -AAAAATAAATAAA
12626687 ATAAAATAAATAAA
1 A-AAAATAAATAAA
12626701 AA
1 AA
12626703 TAGGGCAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
12 5 0.08
13 21 0.33
14 37 0.58
15 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAAATAAATAAA
Found at i:12626666 original size:24 final size:22
Alignment explanation
Indices: 12626639--12626704 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 22
12626629 TAAAGAAACT
12626639 AAATAAACAAAAATAAATAATAA
1 AAATAAA-AAAAATAAATAATAA
12626662 GAAATAAAAAATAA-AAATTAAT-A
1 -AAATAAAAAA-AATAAA-TAATAA
*
12626685 AAATAAAATAAATAAA-AATA
1 AAATAAAAAAAATAAATAATA
12626705 GGGCAAAAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 12 0.32
23 7 0.19
24 13 0.35
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATAAAAAAAATAAATAATAA
Found at i:12632137 original size:17 final size:17
Alignment explanation
Indices: 12632104--12632148 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
12632094 TATCTTCCAC
*
12632104 TTTATTATTTTTTTATTT
1 TTTATT-TTTATTTATTT
12632122 TTTATTTTTATTTATTT
1 TTTATTTTTATTTATTT
* *
12632139 ATGATTTTTA
1 TTTATTTTTA
12632149 CCCAATGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTATTTTTATTTATTT
Found at i:12637507 original size:18 final size:18
Alignment explanation
Indices: 12637486--12637529 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
12637476 GGATTAGTGG
12637486 GCCCAATAGGAGCATTCA
1 GCCCAATAGGAGCATTCA
* *
12637504 GCCCAAGAGGAGCATTCG
1 GCCCAATAGGAGCATTCA
12637522 GCCCAATA
1 GCCCAATA
12637530 TTAGTGAGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.14
Consensus pattern (18 bp):
GCCCAATAGGAGCATTCA
Found at i:12638877 original size:13 final size:13
Alignment explanation
Indices: 12638859--12638884 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12638849 TATAGAAGTA
12638859 GATAACCACCTTC
1 GATAACCACCTTC
12638872 GATAACCACCTTC
1 GATAACCACCTTC
12638885 CTTAACAGAT
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:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
GATAACCACCTTC
Found at i:12640638 original size:8 final size:9
Alignment explanation
Indices: 12640586--12640639 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
12640576 GTGAAATGAG
12640586 TTTATAATT
1 TTTATAATT
*
12640595 TTTATGATT
1 TTTATAATT
*
12640604 TCTA-AATT
1 TTTATAATT
12640612 TATTA-ATATT
1 T-TTATA-ATT
12640622 TTTATAATT
1 TTTATAATT
12640631 TTTA-AATT
1 TTTATAATT
12640639 T
1 T
12640640 CTTTAGTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 9 0.24
9 24 0.63
10 5 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:12640764 original size:9 final size:9
Alignment explanation
Indices: 12640750--12640855 Score: 55
Period size: 9 Copynumber: 12.1 Consensus size: 9
12640740 TTTTTAGTAC
12640750 TTTATAATT
1 TTTATAATT
*
12640759 TTTATAA-A
1 TTTATAATT
*
12640767 TTAATAATT
1 TTTATAATT
*
12640776 TTT-T-ATA
1 TTTATAATT
12640783 TTT-TAATT
1 TTTATAATT
*
12640791 TTTAAAATT
1 TTTATAATT
*
12640800 TTTA-AA-A
1 TTTATAATT
12640807 TTTATAATT
1 TTTATAATT
*
12640816 TTTA-GATT
1 TTTATAATT
12640824 TTCTAAATAATT
1 TT-T--ATAATT
* *
12640836 ATTAATATTT
1 -TTTATAATT
12640846 TTTATAATT
1 TTTATAATT
12640855 T
1 T
12640856 CTAAACCTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
7 10 0.14
8 21 0.29
9 30 0.42
10 5 0.07
11 1 0.01
12 3 0.04
13 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTATAATT
Found at i:12640788 original size:18 final size:17
Alignment explanation
Indices: 12640739--12640800 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
12640729 CAAGATGCTC
*
12640739 ATTTTTAGTACTTT-ATA
1 ATTTTTA-TAATTTAATA
*
12640756 ATTTTTATAAATTAATA
1 ATTTTTATAATTTAATA
12640773 ATTTTT-TATATTT--TA
1 ATTTTTATA-ATTTAATA
*
12640788 ATTTTTAAAATTT
1 ATTTTTATAATTT
12640801 TTAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 12 0.32
16 7 0.18
17 19 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTTATAATTTAATA
Found at i:12640802 original size:16 final size:16
Alignment explanation
Indices: 12640754--12640830 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 16
12640744 TAGTACTTTA
**
12640754 TAATTTTTATAAATTAA
1 TAATTTTTA-AAATTTT
* *
12640771 TAATTTTTTATA-TTT
1 TAATTTTTAAAATTTT
12640786 TAATTTTTAAAATTTT
1 TAATTTTTAAAATTTT
** *
12640802 TAAAATTTATAATTTT
1 TAATTTTTAAAATTTT
12640818 TAGATTTTCTAAA
1 TA-ATTTT-TAAA
12640831 TAATTATTAA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
15 11 0.24
16 20 0.44
17 11 0.24
18 3 0.07
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (16 bp):
TAATTTTTAAAATTTT
Found at i:12640868 original size:18 final size:18
Alignment explanation
Indices: 12640845--12640879 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12640835 TATTAATATT
*
12640845 TTTTATAATTTCTAAACC
1 TTTTATAATTTCCAAACC
*
12640863 TTTTATAGTTTCCAAAC
1 TTTTATAATTTCCAAAC
12640880 TTAGACAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTATAATTTCCAAACC
Found at i:12640947 original size:20 final size:20
Alignment explanation
Indices: 12640919--12640980 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
12640909 AGATGTACCT
*
12640919 TTATATTATTTATCTTTAAA
1 TTATTTTATTTATCTTTAAA
*
12640939 TTATTTTATTTCTCTTTAAA
1 TTATTTTATTTATCTTTAAA
12640959 --A-TTTA-TTAT-TTTAAA
1 TTATTTTATTTATCTTTAAA
12640974 TT-TTTTA
1 TTATTTTA
12640981 CTAACATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
15 6 0.17
16 3 0.08
17 8 0.22
18 1 0.03
20 18 0.50
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTTATTTATCTTTAAA
Found at i:12641897 original size:20 final size:19
Alignment explanation
Indices: 12641852--12641893 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
12641842 AACAAGGAAG
*
12641852 AAAGAAAAAAATTTAAAAT
1 AAAGAAAAAAATTTAAAAA
12641871 AAAGAAAAAAATTTAAAAA
1 AAAGAAAAAAATTTAAAAA
12641890 AAAG
1 AAAG
12641894 GAAATGAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAGAAAAAAATTTAAAAA
Found at i:12648386 original size:19 final size:18
Alignment explanation
Indices: 12648362--12648414 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
12648352 TTAAAAATAT
*
12648362 AAATTTTGGAATTTTTATA
1 AAATTTT-GAATTTTTAAA
*
12648381 AAATTTTGAATTTTAAAA
1 AAATTTTGAATTTTTAAA
12648399 AATATTTTGAATTTTT
1 AA-ATTTTGAATTTTT
12648415 TTGTAACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
AAATTTTGAATTTTTAAA
Found at i:12650871 original size:20 final size:20
Alignment explanation
Indices: 12650846--12650894 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
12650836 AATCACGTAA
*
12650846 GTATCGATACTAAAACATAG
1 GTATCGATAATAAAACATAG
12650866 GTATCGATAATAAAACATAG
1 GTATCGATAATAAAACATAG
12650886 GTATCGATA
1 GTATCGATA
12650895 TTTTTCTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCGATAATAAAACATAG
Found at i:12668163 original size:21 final size:21
Alignment explanation
Indices: 12668137--12668176 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
12668127 TGAATTTGGC
12668137 GTGTCACATTGAAGTGTTTGT
1 GTGTCACATTGAAGTGTTTGT
12668158 GTGTCACATTGAAGTGTTT
1 GTGTCACATTGAAGTGTTT
12668177 TTCGAGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (21 bp):
GTGTCACATTGAAGTGTTTGT
Found at i:12668770 original size:28 final size:28
Alignment explanation
Indices: 12668730--12668816 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
12668720 TAGTGACAGT
12668730 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
*
12668758 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* * *
12668786 ACAGTGTGGGCCTCAACCCAATACATTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
12668814 ACA
1 ACA
12668817 ATACAGTGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:12669041 original size:22 final size:22
Alignment explanation
Indices: 12669016--12669081 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
12669006 GCTGCCAGTT
12669016 AACAGAACGGCTAAAAGCCATA
1 AACAGAACGGCTAAAAGCCATA
* *
12669038 AACAGAAAC-GC-AATAAGCCTTG
1 AACAG-AACGGCTAA-AAGCCATA
*
12669060 AACAGAACGGCTACAAGCCATA
1 AACAGAACGGCTAAAAGCCATA
12669082 CACTTCCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 5 0.14
22 26 0.74
23 4 0.11
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (22 bp):
AACAGAACGGCTAAAAGCCATA
Found at i:12669276 original size:27 final size:26
Alignment explanation
Indices: 12669246--12669336 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 26
12669236 GGATATATCA
12669246 ATCATTTTACCCTATAGGGGTATTTTG
1 ATCATTTTACCCT-TAGGGGTATTTTG
* * *
12669273 ATCATTTTA-ACTTACGAGTGTATTTCG
1 ATCATTTTACCCTTA-G-GGGTATTTTG
*
12669300 ATCATTTTACCCTTCGGGGGTATTTTG
1 ATCATTTTACCCTT-AGGGGTATTTTG
*
12669327 GTCATTTTAC
1 ATCATTTTAC
12669337 AATTTAAAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 43 0.83
28 4 0.08
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (26 bp):
ATCATTTTACCCTTAGGGGTATTTTG
Found at i:12669375 original size:27 final size:27
Alignment explanation
Indices: 12669301--12669415 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 27
12669291 TGTATTTCGA
* * **
12669301 TCATTTTACCCTTCGGGGGTATTTTGG
1 TCATTTTACCCTTCGGAGGTAATTCAG
** ***
12669328 TCATTTTACAATTTAAAGGTAATTCAG
1 TCATTTTACCCTTCGGAGGTAATTCAG
* * *
12669355 TCATTTTACCCTTTGGTGGTAATTTAG
1 TCATTTTACCCTTCGGAGGTAATTCAG
12669382 TCATTTTACCCTTCGGAGGTAATTCAG
1 TCATTTTACCCTTCGGAGGTAATTCAG
*
12669409 TTATTTT
1 TCATTTT
12669416 TTGGCCCAAG
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTTCGGAGGTAATTCAG
Found at i:12669402 original size:54 final size:54
Alignment explanation
Indices: 12669301--12669415 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
12669291 TGTATTTCGA
* * *
12669301 TCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACAATTTAAAGGTAATTCAG
1 TCATTTTACCCTTCGGGGGTAATTTAGTCATTTTACAATTCAAAGGTAATTCAG
* * ** **
12669355 TCATTTTACCCTTTGGTGGTAATTTAGTCATTTTACCCTTCGGAGGTAATTCAG
1 TCATTTTACCCTTCGGGGGTAATTTAGTCATTTTACAATTCAAAGGTAATTCAG
*
12669409 TTATTTT
1 TCATTTT
12669416 TTGGCCCAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTTCGGGGGTAATTTAGTCATTTTACAATTCAAAGGTAATTCAG
Found at i:12671396 original size:21 final size:21
Alignment explanation
Indices: 12671372--12671413 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12671362 CCCGAATTTG
*
12671372 GCGTGTCACGTTGAACTGTTT
1 GCGTGTCACATTGAACTGTTT
*
12671393 GCGTGTCACATTGAAGTGTTT
1 GCGTGTCACATTGAACTGTTT
12671414 TTCGAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (21 bp):
GCGTGTCACATTGAACTGTTT
Found at i:12671972 original size:28 final size:28
Alignment explanation
Indices: 12671928--12671993 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
12671918 AAACCACATG
12671928 CAGTAACAGTCTAGGCCTTAGCCCAATA
1 CAGTAACAGTCTAGGCCTTAGCCCAATA
* *
12671956 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTCTAGGCCTTAGCCCAATA
*
12671984 CAGTAGCAGT
1 CAGTAACAGT
12671994 ACAGTGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (28 bp):
CAGTAACAGTCTAGGCCTTAGCCCAATA
Found at i:12672434 original size:25 final size:26
Alignment explanation
Indices: 12672406--12672460 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
12672396 CATTTCGACT
12672406 CCTA-GGGGTATATT-AGTCATTTTAC
1 CCTAGGGGGTAT-TTCAGTCATTTTAC
12672431 CCTATGGGGGTATTTCAGTCATTTTAC
1 CCTA-GGGGGTATTTCAGTCATTTTAC
12672458 CCT
1 CCT
12672461 TCAGTGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 4 0.15
26 2 0.07
27 21 0.78
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
CCTAGGGGGTATTTCAGTCATTTTAC
Found at i:12672471 original size:27 final size:27
Alignment explanation
Indices: 12672421--12672726 Score: 269
Period size: 27 Copynumber: 11.3 Consensus size: 27
12672411 GGGTATATTA
* * *
12672421 GTCATTTTACCCTAT-GGGGGTATTTCA
1 GTCATTTTACCCT-TCAGGGGTAATTCG
* * * *
12672448 GTCATTTTACCCTTCAGTGATATTTTG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* * ** * *
12672475 GTCATTTTTCTCTTTTGTGGTACTTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
*
12672502 GTCATTTTACCCTTTAGGGGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* * *
12672529 GTTATTTTACCTTTCAGGTGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
*
12672556 GTCATTTTACCCTTCGGGGGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* *
12672583 ATCA-TTTACCCTTCGGGGGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* *
12672609 GTCATTTTACCCTTTAGGAGTAATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCG
* * * *
12672636 GTCATTTTTCCTTTCGGGGGTAATTTCA
1 GTCATTTTACCCTTCAGGGGTAA-TTCG
* *
12672664 GTCATTTTATCCTTC-GAGGGTAATTCT
1 GTCATTTTACCCTTCAG-GGGTAATTCG
* *
12672691 ATCATTTTATCCTTC-GTGGGTAATTCG
1 GTCATTTTACCCTTCAG-GGGTAATTCG
12672718 GTCAATTTT
1 GTC-ATTTT
12672727 TTACCGAAGC
Statistics
Matches: 230, Mismatches: 44, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
26 26 0.11
27 178 0.77
28 26 0.11
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCAGGGGTAATTCG
Found at i:12672536 original size:81 final size:80
Alignment explanation
Indices: 12672421--12672727 Score: 298
Period size: 81 Copynumber: 3.8 Consensus size: 80
12672411 GGGTATATTA
* * * * *
12672421 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTCAGTGATATTTTGGTCATTTTTCT
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGTGATAATTCGGTCATTTTTC-
* * *
12672486 CTTTTGTGGTACTTCG
65 CTTTGGGGGTAATTCG
* * * *
12672502 GTCATTTTACCCTTTAGGGGTAATTCGGTTATTTTACCTTTCAGGTG-TAATTCGGTCATTTTAC
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCA-GTGATAATTCGGTCATTTT-T
*
12672566 CCTTCGGGGGTAATTCG
64 CCTTTGGGGGTAATTCG
* * *
12672583 ATCA-TTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTTAG-GAGTAATTCGGTCATTTTTC
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGTGA-TAATTCGGTCATTTTTC
*
12672646 CTTTCGGGGGTAATTTCA
65 CTTT-GGGGGTAA-TTCG
* * * ** * *
12672664 GTCATTTTATCCTTCGAGGGTAATTCTATCATTTTATCCTTC-GTGGGTAATTCGGTCAATTTTT
1 GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGT-GATAATTCGGTC-ATTTTT
12672728 TACCGAAGCC
Statistics
Matches: 186, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.03
80 56 0.30
81 72 0.39
82 45 0.24
83 7 0.04
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (80 bp):
GTCATTTTACCCTTTGGGGGTAATTCGGTCATTTTACCCTTCAGTGATAATTCGGTCATTTTTCC
TTTGGGGGTAATTCG
Found at i:12672715 original size:82 final size:80
Alignment explanation
Indices: 12672449--12672727 Score: 246
Period size: 80 Copynumber: 3.4 Consensus size: 80
12672439 GGTATTTCAG
* * * * ** * * *
12672449 TCATTTTACCCTTCAGTGA-TATTTTGGTCATTTTTCTCTTTTGTGGTACTTCGGTCATTTTACC
1 TCATTTTACCCTTTAG-GAGTAATTCGGTCATTTTTCCCTTCGGGGGTAATTCGATCA-TTTACC
* *
12672513 CTT-TAGGGGTAATTCGG
64 CTTCGA-GGGTAATTCGA
* * *
12672530 TTATTTTA-CCTTTCAGGTGTAATTCGGTCATTTTACCCTTCGGGGGTAATTCGATCATTTACCC
1 TCATTTTACCCTTT-AGGAGTAATTCGGTCATTTTTCCCTTCGGGGGTAATTCGATCATTTACCC
* *
12672594 TTCGGGGGTAATTCGG
65 TTCGAGGGTAATTCGA
* *
12672610 TCATTTTACCCTTTAGGAGTAATTCGGTCATTTTTCCTTTCGGGGGTAATTTC-AGTCATTTTAT
1 TCATTTTACCCTTTAGGAGTAATTCGGTCATTTTTCCCTTCGGGGGTAA-TTCGA-TCA-TTTAC
*
12672674 CCTTCGAGGGTAATTCTA
63 CCTTCGAGGGTAATTCGA
*
12672692 TCATTTTATCCTTCGT-GG-GTAATTCGGTCAATTTTT
1 TCATTTTACCCTT--TAGGAGTAATTCGGTC-ATTTTT
12672728 TACCGAAGCC
Statistics
Matches: 165, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
80 65 0.39
81 49 0.30
82 42 0.25
83 8 0.05
84 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (80 bp):
TCATTTTACCCTTTAGGAGTAATTCGGTCATTTTTCCCTTCGGGGGTAATTCGATCATTTACCCT
TCGAGGGTAATTCGA
Found at i:12679345 original size:19 final size:21
Alignment explanation
Indices: 12679321--12679363 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
12679311 TTTTAATATT
*
12679321 TTATTTAATT-TAT-TCCTAA
1 TTATTTAATTATATAACCTAA
12679340 TTATTTAATTATATAACCTAA
1 TTATTTAATTATATAACCTAA
12679361 TTA
1 TTA
12679364 CGGTTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTTAATTATATAACCTAA
Found at i:12687030 original size:92 final size:91
Alignment explanation
Indices: 12686873--12687081 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
12686863 TTGATTTTAG
* * *
12686873 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
12686938 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
12686965 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
12687029 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
12687057 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12687082 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:12687044 original size:24 final size:25
Alignment explanation
Indices: 12687009--12687056 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
12686999 TTATGAAATT
12687009 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
12687033 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
12687057 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:12687132 original size:18 final size:20
Alignment explanation
Indices: 12687098--12687145 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
12687088 ATTATTTTAA
12687098 ATTTT-ATT-AAATCATAT-
1 ATTTTAATTAAAATCATATC
12687115 ATTTTAATTAAAAT-ATATC
1 ATTTTAATTAAAATCATATC
12687134 A-TTTAA-TAAAAT
1 ATTTTAATTAAAAT
12687146 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 11 0.39
18 12 0.43
19 5 0.18
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTTAATTAAAATCATATC
Found at i:12687213 original size:91 final size:91
Alignment explanation
Indices: 12687111--12687405 Score: 590
Period size: 91 Copynumber: 3.2 Consensus size: 91
12687101 TTATTAAATC
12687111 ATATATTTTAATTAAAATATATCATTTAATAAAATTCTTAATAATTAGGAGAAATTTGTTTTGGT
1 ATATATTTTAATTAAAATATATCATTTAATAAAATTCTTAATAATTAGGAGAAATTTGTTTTGGT
12687176 AAATTATTATTGTTATTGTTATGTAA
66 AAATTATTATTGTTATTGTTATGTAA
12687202 ATATATTTTAATTAAAATATATCATTTAATAAAATTCTTAATAATTAGGAGAAATTTGTTTTGGT
1 ATATATTTTAATTAAAATATATCATTTAATAAAATTCTTAATAATTAGGAGAAATTTGTTTTGGT
12687267 AAATTATTATTGTTATTGTTATGTAA
66 AAATTATTATTGTTATTGTTATGTAA
12687293 ATATATTTTAATTAAAATATATCATTTAATAAAATTCTTAATAATTAGGAGAAATTTGTTTTGGT
1 ATATATTTTAATTAAAATATATCATTTAATAAAATTCTTAATAATTAGGAGAAATTTGTTTTGGT
12687358 AAATTATTATTGTTATTGTTATGTAA
66 AAATTATTATTGTTATTGTTATGTAA
12687384 ATATATTTTAATTAAAATATAT
1 ATATATTTTAATTAAAATATAT
12687406 TTAATAATAA
Statistics
Matches: 204, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 204 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.48
Consensus pattern (91 bp):
ATATATTTTAATTAAAATATATCATTTAATAAAATTCTTAATAATTAGGAGAAATTTGTTTTGGT
AAATTATTATTGTTATTGTTATGTAA
Found at i:12687556 original size:18 final size:17
Alignment explanation
Indices: 12687528--12687562 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12687518 ATTATTAAGA
*
12687528 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12687545 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12687563 TTAAATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12687687 original size:39 final size:40
Alignment explanation
Indices: 12687644--12687748 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
12687634 TTCCATTATG
12687644 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
12687683 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
12687728 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
12687749 ACAGCGAACC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:12687759 original size:45 final size:42
Alignment explanation
Indices: 12687642--12687762 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 42
12687632 TTTTCCATTA
12687642 TGCTATTACACCTCTATTCCATT---CAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
* * ***
12687681 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACA--CAACCAAACACAAGA-T
12687726 TGCTATTACACCTCTATTCCATTACAGCGAACCAAAC
1 TGCTATTACACCTCTATTCCATTACA-C-AACCAAAC
12687763 GTGCTGTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
39 21 0.31
44 13 0.19
45 33 0.49
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.31
Consensus pattern (42 bp):
TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
Found at i:12688985 original size:39 final size:39
Alignment explanation
Indices: 12688942--12689043 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
12688932 CATGATTCAG
* * *
12688942 GTGGATCAGCTCTTATGAGCTTCTGTTGGCATTTTTTGA
1 GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
12688981 GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
1 GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
*
12689020 ATGGACCAGCTCTTATGAGCTTCT
1 GTGGACCAGCTCTTATGAGCTTCT
12689044 ATTTGGCGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (39 bp):
GTGGACCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGA
Found at i:12689103 original size:23 final size:21
Alignment explanation
Indices: 12689077--12689120 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12689067 TAAAAACCCT
12689077 AGAAAACTGTAGAGAAAAACTAA
1 AGAAAACT-TAGAG-AAAACTAA
*
12689100 AGAAAACTTATAGAAAACTAA
1 AGAAAACTTAGAGAAAACTAA
12689121 GCTAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (21 bp):
AGAAAACTTAGAGAAAACTAA
Found at i:12696463 original size:5 final size:5
Alignment explanation
Indices: 12696450--12696488 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
12696440 TCTCGCTTCT
* *
12696450 TTTTC TTTTG TTTTG TTTTG TTTTT TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
12696489 TCTTGACAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:12697100 original size:13 final size:13
Alignment explanation
Indices: 12697084--12697108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12697074 AAAAATATTT
12697084 TAAAAATAAAAAA
1 TAAAAATAAAAAA
12697097 TAAAAATAAAAA
1 TAAAAATAAAAA
12697109 TATTTTTTAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:12698993 original size:21 final size:23
Alignment explanation
Indices: 12698969--12699011 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
12698959 AAACATGTGA
12698969 TTTAATAG-CTAAA-AAC-TTAGT
1 TTTAA-AGACTAAATAACATTAGT
12698990 TTTAAAGACTAAATAACATTAG
1 TTTAAAGACTAAATAACATTAG
12699012 AAACTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 10 0.53
22 3 0.16
23 4 0.21
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
TTTAAAGACTAAATAACATTAGT
Found at i:12703296 original size:39 final size:39
Alignment explanation
Indices: 12703253--12703456 Score: 137
Period size: 39 Copynumber: 5.2 Consensus size: 39
12703243 CAAATATTAA
* * *
12703253 TAAAATTCCTATTGGGAAATCAATTTTGTAACTAAATAC
1 TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
* ** * * * *
12703292 TAAAATTCTTAATAAGAAACCATAATCTCTCAAC-AACTAA
1 TAAAATTCTTATTGGGAAACCA-ATTTTCT-AACTAAATAC
* * * *
12703332 TAAAATTCTTATTGGAAAATCAATTTTTTAACCAAATAC
1 TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
* * *
12703371 TAAAATTCTTAATT-GGAAACCATAATCTCTCAACT-ATTAC
1 TAAAATTCTT-ATTGGGAAACCA-ATTTTCT-AACTAAATAC
* * * *
12703411 TATAATTAC-TATTGGAAAACCAATTTTGTAACAAAATAC
1 TAAAATT-CTTATTGGGAAACCAATTTTCTAACTAAATAC
12703450 TAAAATT
1 TAAAATT
12703457 ATTTTTGAAA
Statistics
Matches: 121, Mismatches: 35, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
38 6 0.05
39 58 0.48
40 50 0.41
41 7 0.06
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (39 bp):
TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
Found at i:12703333 original size:79 final size:79
Alignment explanation
Indices: 12703208--12703456 Score: 331
Period size: 79 Copynumber: 3.2 Consensus size: 79
12703198 AAAAAAACCC
* * * *
12703208 AAATACTAAAATTCTT-ATTATAAACTATAATGTCTCAA-ATATTAATAAAATTCCTATTGGGAA
1 AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACA-ATTAATAAAATTCCTATTGGAAA
*
12703271 ATCAATTTTGTAACT
65 ATCAATTTTGTAACA
* * *
12703286 AAATACTAAAATTCTTAATAAGAAACCATAATCTCTCAACAACTAATAAAATTCTTATTGGAAAA
1 AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACAATTAATAAAATTCCTATTGGAAAA
* *
12703351 TCAATTTTTTAACC
66 TCAATTTTGTAACA
* * * * *
12703365 AAATACTAAAATTCTTAATTGGAAACCATAATCTCTCAACTATTACTATAATTACTATTGGAAAA
1 AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACAATTAATAAAATTCCTATTGGAAAA
*
12703430 CCAATTTTGTAACA
66 TCAATTTTGTAACA
12703444 AAATACTAAAATT
1 AAATACTAAAATT
12703457 ATTTTTGAAA
Statistics
Matches: 149, Mismatches: 20, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
78 16 0.11
79 132 0.89
80 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.35
Consensus pattern (79 bp):
AAATACTAAAATTCTTAATTAGAAACCATAATCTCTCAACAATTAATAAAATTCCTATTGGAAAA
TCAATTTTGTAACA
Found at i:12703341 original size:40 final size:40
Alignment explanation
Indices: 12703286--12703404 Score: 127
Period size: 40 Copynumber: 3.0 Consensus size: 40
12703276 TTTTGTAACT
* **
12703286 AAATACTAAAATTCTTAATAAGAAACCATAATCTCTCAAC
1 AAATAATAAAATTCTTAATTGGAAACCATAATCTCTCAAC
* * * *
12703326 AACTAATAAAATTCTT-ATTGGAAA--ATCAATTTTTTAACC
1 AAATAATAAAATTCTTAATTGGAAACCAT-AATCTCTCAA-C
*
12703365 AAATACTAAAATTCTTAATTGGAAACCATAATCTCTCAAC
1 AAATAATAAAATTCTTAATTGGAAACCATAATCTCTCAAC
12703405 TATTACTATA
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
37 2 0.03
38 7 0.11
39 21 0.34
40 23 0.37
41 7 0.11
42 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (40 bp):
AAATAATAAAATTCTTAATTGGAAACCATAATCTCTCAAC
Found at i:12703412 original size:40 final size:39
Alignment explanation
Indices: 12703209--12703428 Score: 137
Period size: 39 Copynumber: 5.6 Consensus size: 39
12703199 AAAAAACCCA
** * * *
12703209 AATACTAAAATTCTTATTATAAACTATAATGTCTCAAAT
1 AATACTAAAATTCTTATTGGAAACCATAATCTCTCAACT
* * * * * * *
12703248 ATTAATAAAATTCCTATTGGGAAATCA-ATTTTGT-AACT
1 AATACTAAAATTCTTATT-GGAAACCATAATCTCTCAACT
**
12703286 AAATACTAAAATTCTTAATAAGAAACCATAATCTCTCAAC-
1 -AATACTAAAATTCTT-ATTGGAAACCATAATCTCTCAACT
* * * * *
12703326 AACTAATAAAATTCTTATTGGAAA--ATCAATTTTTTAACCA
1 AA-TACTAAAATTCTTATTGGAAACCAT-AATCTCTCAA-CT
12703366 AATACTAAAATTCTTAATTGGAAACCATAATCTCTCAACT
1 AATACTAAAATTCTT-ATTGGAAACCATAATCTCTCAACT
* *
12703406 ATTACTATAATTAC-TATTGGAAA
1 AATACTAAAATT-CTTATTGGAAA
12703429 ACCAATTTTG
Statistics
Matches: 135, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
37 2 0.01
38 10 0.07
39 66 0.49
40 44 0.33
41 11 0.08
42 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (39 bp):
AATACTAAAATTCTTATTGGAAACCATAATCTCTCAACT
Found at i:12703515 original size:23 final size:23
Alignment explanation
Indices: 12703489--12703543 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
12703479 AATCAAATGC
12703489 TTTG-TAA-AAAAAATTTAAAAAAT
1 TTTGTTAATAAAAAA-TT-AAAAAT
*
12703512 TTTGTTAATTAAAAATTAAAAAT
1 TTTGTTAATAAAAAATTAAAAAT
*
12703535 TTTATTAAT
1 TTTGTTAAT
12703544 GATATGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 18 0.64
24 5 0.18
25 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
TTTGTTAATAAAAAATTAAAAAT
Found at i:12707588 original size:51 final size:51
Alignment explanation
Indices: 12707512--12707673 Score: 297
Period size: 51 Copynumber: 3.2 Consensus size: 51
12707502 CTGATCAGTA
12707512 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
12707563 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* * *
12707614 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAATGATAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
12707665 ACAAGTGAT
1 ACAAGTGAT
12707674 GTGATATGTG
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 108 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:12712210 original size:39 final size:38
Alignment explanation
Indices: 12712167--12712392 Score: 197
Period size: 39 Copynumber: 5.8 Consensus size: 38
12712157 CAACTATTAA
* *
12712167 TAAAATTCCTATTGGGAAATCAATTTTGTAACTAAATAC
1 TAAAATTCTTATT-GGAAACCAATTTTGTAACTAAATAC
* * * * * *
12712206 TAAAATTCTTAATGGAAACCATAATCTCTCAACT-ACTAA
1 TAAAATTCTTATTGGAAACCA-ATTTTGT-AACTAAATAC
* *
12712245 TAAAATTCTTATTGGAAATCAATTTTGTAACCAAATAC
1 TAAAATTCTTATTGGAAACCAATTTTGTAACTAAATAC
* * *
12712283 TAAAATTCTTAATTGGAAACC-ATAATCGCTCAACT-ATTAC
1 TAAAATTCTT-ATTGGAAACCAAT-TTTG-T-AACTAAATAC
* * *
12712323 TATAATTCCTATTGGAAAACCAATTTTGTAACAAAATAC
1 TAAAATTCTTATTGG-AAACCAATTTTGTAACTAAATAC
*
12712362 TAAAATTCTTATTGGAAACACAACTTTGTAA
1 TAAAATTCTTATTGGAAAC-CAATTTTGTAA
12712393 TCAAATGCTT
Statistics
Matches: 146, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
37 3 0.02
38 33 0.23
39 81 0.55
40 24 0.16
41 5 0.03
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (38 bp):
TAAAATTCTTATTGGAAACCAATTTTGTAACTAAATAC
Found at i:12712258 original size:78 final size:78
Alignment explanation
Indices: 12712122--12712380 Score: 358
Period size: 78 Copynumber: 3.3 Consensus size: 78
12712112 AAAAAAGCCC
* * ** * *
12712122 AAATGCTAAAATTCTTATTATAAACTATAATGTCTCAACTATTAATAAAATTCCTATTGGGAAAT
1 AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAAT
*
12712187 CAATTTTGTAACT
66 CAATTTTGTAACA
* *
12712200 AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTACTAATAAAATTCTTATT-GGAAAT
1 AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAAT
*
12712264 CAATTTTGTAACC
66 CAATTTTGTAACA
* * * *
12712277 AAATACTAAAATTCTTAATTGGAAACCATAATCGCTCAACTATTACTATAATTCCTATTGGAAAA
1 AAATACTAAAATTCTTAA-TGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAA
*
12712342 CCAATTTTGTAACA
65 TCAATTTTGTAACA
*
12712356 AAATACTAAAATTCTTATTGGAAAC
1 AAATACTAAAATTCTTAATGGAAAC
12712381 ACAACTTTGT
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
77 36 0.22
78 92 0.57
79 33 0.20
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (78 bp):
AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAAT
CAATTTTGTAACA
Found at i:12712434 original size:22 final size:22
Alignment explanation
Indices: 12712410--12712451 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12712400 CTTTGTAAAA
12712410 AAAATT-TAAAAATTATTAATT
1 AAAATTATAAAAATTATTAATT
*
12712431 AAAATTATAAAATTTATTAAT
1 AAAATTATAAAAATTATTAAT
12712452 GATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTATAAAAATTATTAATT
Found at i:12724258 original size:24 final size:25
Alignment explanation
Indices: 12724208--12724264 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
12724198 ATAACCCAAC
12724208 ATTATAAATTTTGTTATTATATAATA
1 ATTATAAATTTTGTTA-TATATAATA
12724234 ATTATATAATTTT-TTA-ATATAATA
1 ATTATA-AATTTTGTTATATATAATA
12724258 ATT-TAAA
1 ATTATAAA
12724265 AATATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.07
23 2 0.07
24 11 0.37
26 9 0.30
27 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATAAATTTTGTTATATATAATA
Found at i:12729736 original size:13 final size:13
Alignment explanation
Indices: 12729719--12729762 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
12729709 TATCATTTTG
*
12729719 ATAAAAATATTAG
1 ATAAAAATATTAA
12729732 ATAAAAA-A-TAA
1 ATAAAAATATTAA
*
12729743 ATATAAATATTAA
1 ATAAAAATATTAA
12729756 ATAAAAA
1 ATAAAAA
12729763 AACTGCAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 16 0.62
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAAATATTAA
Found at i:12733923 original size:19 final size:19
Alignment explanation
Indices: 12733899--12733952 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
12733889 AATCATATCT
12733899 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12733918 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
12733937 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12733953 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12733948 original size:38 final size:40
Alignment explanation
Indices: 12733876--12733952 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
12733866 AAATTAAATC
12733876 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
12733918 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
12733953 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:12734043 original size:25 final size:25
Alignment explanation
Indices: 12734009--12734057 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
12733999 CAACCTTTTC
12734009 AAGTAATGGGCCATCCCGATCGGGA
1 AAGTAATGGGCCATCCCGATCGGGA
*
12734034 AAGTAATGGGCTATCCCGATCGGG
1 AAGTAATGGGCCATCCCGATCGGG
12734058 CCAAATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (25 bp):
AAGTAATGGGCCATCCCGATCGGGA
Found at i:12734863 original size:217 final size:217
Alignment explanation
Indices: 12734573--12735118 Score: 932
Period size: 217 Copynumber: 2.5 Consensus size: 217
12734563 ATTTCTTGAG
** * **
12734573 TCTGCTCCACTACAACTTTAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
12734638 ATAAGATCTGTGATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
12734703 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
131 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
*
12734768 AGGATAAGGCTTGCTTACTTAA
196 AGGATAAAGCTTGCTTACTTAA
*
12734790 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
12734855 ATAAGATCTGTGATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
12734920 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
131 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
12734985 AGGATAAAGCTTGCTTACTTAA
196 AGGATAAAGCTTGCTTACTTAA
* *
12735007 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCAGGGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * ** * * *
12735072 ATAGGAT-TATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
66 ATAAGATCT-GTGATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATA
12735119 AGACTCGCTT
Statistics
Matches: 311, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
216 1 0.00
217 310 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (217 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
AGGATAAAGCTTGCTTACTTAA
Found at i:12734982 original size:173 final size:173
Alignment explanation
Indices: 12734803--12735338 Score: 683
Period size: 173 Copynumber: 3.1 Consensus size: 173
12734793 GCTCCACTGT
*
12734803 AACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTG
1 AACTTCAGGAG-GATAAGACTAGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTG
*
12734867 ATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
65 ATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
12734932 ACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
130 ACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
* * * * *
12734976 AACTTCAGGAGGATAA-AGCTTGCTTACTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-C
1 AACTTCAGGAGGATAAGA-CTAG-ATGC--AATCTGCT-CTCTGTAACTTCAGAGAGATAAGATC
* *** * *
12735039 T-AGA-TGCGATCTGCT-CTCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
61 TGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
* ** ** *
12735101 TGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG-CTCTACTGC
126 TGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTC-ACTAC
* ** *
12735149 AACTTTAGGTA-GATAAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATTTGTG
1 AACTTCAGG-AGGATAAGACTAGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTG
* * * *
12735213 ATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAA
65 ATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
* *
12735278 ACTTCAGGGAGATAAGATTCGCCATATTCAGTTTGCCTCACTAC
130 ACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
12735322 AACTTCAGGAGGATAAG
1 AACTTCAGGAGGATAAG
12735339 GCTTGCTTAC
Statistics
Matches: 303, Mismatches: 45, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
169 22 0.07
170 9 0.03
171 2 0.01
172 13 0.04
173 209 0.69
174 15 0.05
175 2 0.01
176 9 0.03
177 22 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (173 bp):
AACTTCAGGAGGATAAGACTAGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAC
Found at i:12735108 original size:84 final size:87
Alignment explanation
Indices: 12734883--12735387 Score: 301
Period size: 89 Copynumber: 5.8 Consensus size: 87
12734873 ATCCGCTCCC
12734883 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
12734948 ATTCGCCATCTTCAGTCTGCCTCA
66 ACTAG-CATC-TCAGTCTGCCTCA
* * * * * * *
12734972 CTACAACTTCA-GGAGGATAAAGCTTGCTT-AC-TTAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CTGCGACTTCAGGGA-GAT-AGGATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* *
12735034 AAGACTAG-AT-GC-GATCTG-CTCT
63 AAGACTAGCATCTCAG-TCTGCCTCA
12735056 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * **
12735121 ACTCGCTTTCTTGGGTCTG-CTCTA
66 ACTAGC-ATC-TCAGTCTGCCTC-A
* * * * ** * * *
12735145 CTGCAACTTTAGGTAGATAAGACCCGA-T-GC---AATCTGCT-CTCTGTAACTTCAGAGAGATA
1 CTGCGACTTCAGGGAGATAGGA--TTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * * * *
12735204 AGATTTGTGATTTTAATC--CACTCCA
64 AGACTAG-CATCTCAGTCTGC-CT-CA
* * *
12735229 CTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAG
1 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
12735294 ATTCGCCATATTCAGTTTGCCTCA
66 ACTAG-CAT-CTCAGTCTGCCTCA
* * * * * * * *
12735318 CTACAACTTCA-GGAGGATAAGGCTTGCTT-AC-TTAGTCTGCTCCACTACAACTTTAGGGAGAT
1 CTGCGACTTCAGGGA-GAT-AGGATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
12735380 AAGACTAG
63 AAGACTAG
12735388 ATGCGATCTG
Statistics
Matches: 321, Mismatches: 64, Indels: 62
0.72 0.14 0.14
Matches are distributed among these distances:
82 3 0.01
83 6 0.02
84 80 0.25
85 33 0.10
86 9 0.03
87 10 0.03
88 39 0.12
89 121 0.38
90 14 0.04
91 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (87 bp):
CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ACTAGCATCTCAGTCTGCCTCA
Found at i:12735141 original size:129 final size:129
Alignment explanation
Indices: 12735007--12735247 Score: 331
Period size: 129 Copynumber: 1.9 Consensus size: 129
12734997 GCTTACTTAA
* * * * *
12735007 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCAGGGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAG
* * **
12735072 ATAGGATTAT-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
66 ATAAGATT-TGTGACTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
* * * * *
12735136 TCTGCTCTACTGCAACTTTAGGTAGATAAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAG
*
12735201 ATAAGATTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
66 ATAAGATTTGTGACTTTAATCCACTCCACTGCAACTTCAGGGAGATA
12735248 GGATTATTAG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 1 0.01
129 95 0.99
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATTTGTGACTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
Found at i:12735150 original size:45 final size:44
Alignment explanation
Indices: 12734528--12735511 Score: 356
Period size: 44 Copynumber: 22.7 Consensus size: 44
12734518 GTTTATTTAG
* * *** * *
12734528 TCTGCCCCACTGCAATTTCAAGGG-GATAAGACTTTATTTCTTGAG
1 TCTGCTCCACTGCAACTTC-AGGGAGATAAGACTCGCTTGCTT-AA
* * * * *
12734573 TCTGCTCCACTACAACTTTAGGGAGATAAGACCCG-ATGC--GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTGCTTAA
* * * *
12734614 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGCTTGCTTAA
* * * * **
12734657 TCCGCTCCCCTGCGACTTCAGGGAGATAGGA-T-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-GC-TTAA
* * *
12734701 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCG-CTTGCTT-AA
* * * *
12734746 TCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTAA
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGCTTGCTTAA
* * * *
12734790 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAG-ATGC--GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTGCTTAA
* * * * *
12734831 TCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTGTGATT--TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGCTTGCTTAA
* * * * **
12734874 TCCGCTCCCCTGCGACTTCAGGGAGATAGGA-T-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-GC-TTAA
* * *
12734918 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCG-CTTGCTT-AA
* * *
12734963 TCTGC-CTCACTACAACTTCA-GGAGGATAA-AGCTTGCTTACTTAA
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-CTCGCTTGCTTAA
* * * *
12735007 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAG-ATGC--GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTGCTTAA
* * * **
12735048 TCTGCT-CTCTGCGACTTCAGGGAGATAGGA-T-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-GC-TTAA
* **
12735091 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTGCTT-AA
* * * * *
12735136 TCTGCTCTACTGCAACTTTAGGTAGATAAGACCCG-ATGC--AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTGCTTAA
* * * * * *
12735177 TCTGCT-CTCTGTAACTTCAGAGAGATAAGATTTG--TGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTG--CTTAA
** * **
12735220 TCCACTCCACTGCAACTTCAGGGAGATAGGA-T-TATTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-GC-TTAA
* * * * *
12735264 TCTGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCAT-ATTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCG-CTTGCTT-AA
* * * * * *
12735309 TTTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGCTTGCTTAA
* * * * *
12735353 TCTGCTCCACTACAACTTTAGGGAGATAAGACTAG-ATGC--GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTGCTTAA
* * * * * *
12735394 TCTGCT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATT--TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGCTTGCTTAA
* ** * * **
12735437 TCCGCTCCACTGTGACTTTAGGGAGATAGGA-T-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-GC-TTAA
12735481 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
12735512 TTCACCATCT
Statistics
Matches: 698, Mismatches: 163, Indels: 157
0.69 0.16 0.15
Matches are distributed among these distances:
39 4 0.01
40 112 0.16
41 37 0.05
42 6 0.01
43 41 0.06
44 335 0.48
45 158 0.23
46 2 0.00
47 3 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTGCTTAA
Found at i:12735408 original size:173 final size:173
Alignment explanation
Indices: 12734883--12735410 Score: 663
Period size: 173 Copynumber: 3.1 Consensus size: 173
12734873 ATCCGCTCCC
*
12734883 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
12734948 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAAGCTTGCTTACTTAATCTGCT
66 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
12735013 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
131 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
*
12735056 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* ** ** * * * ** * *
12735121 ACTCGCTTTCTTGGGTCTG-CTCTACTGCAACTTTAGGTA-GATAAGACCCG-ATGC--AATCTG
66 ATTCGCCATCTTCAGTCTGCCTC-ACTACAACTTCAGG-AGGATAAGGCTTGCTTACTTAATCTG
* * * * *** ** *
12735181 CT-CTCTGTAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCCA
129 CTCCACTGTAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCTGCT-CT
* *
12735229 CTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
12735294 ATTCGCCATATTCAGTTTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAGTCTGCT
66 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
** *
12735359 CCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCT
131 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
12735402 CTGCAACTT
1 CTGCAACTT
12735411 TAGAGAAATA
Statistics
Matches: 289, Mismatches: 54, Indels: 24
0.79 0.15 0.07
Matches are distributed among these distances:
169 22 0.08
170 9 0.03
171 2 0.01
172 12 0.04
173 203 0.70
174 12 0.04
175 2 0.01
176 8 0.03
177 19 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (173 bp):
CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
Found at i:12735438 original size:173 final size:172
Alignment explanation
Indices: 12734883--12735469 Score: 628
Period size: 173 Copynumber: 3.4 Consensus size: 172
12734873 ATCCGCTCCC
* *
12734883 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTA-TGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
12734948 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAAGCTTGCTTACTTAATCTGCT
65 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
12735013 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
130 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
* *
12735056 CTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTA-TGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* ** ** * * * ** * *
12735121 ACTCGCTTTCTTGGGTCTG-CTCTACTGCAACTTTAGGTA-GATAAGACCCG-ATGC--AATCTG
65 ATTCGCCATCTTCAGTCTGCCTC-ACTACAACTTCAGG-AGGATAAGGCTTGCTTACTTAATCTG
* * * * *** ** *
12735181 CT-CTCTGTAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCCA
128 CTCCACTGTAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCTGCT-CT
* *
12735229 CTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAGGATTATGA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
12735294 ATTCGCCATATTCAGTTTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAGTCTGCT
65 ATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCT
** *
12735359 CCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCT
130 CCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
* * * * * * * ** * *
12735402 CTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTCCACTGTGACTTTAGGGAGATAGG
1 CTGCAACTTCAGGGAGATAGGAT-TATGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
12735467 ATT
65 ATT
12735470 ATTGGCTTTA
Statistics
Matches: 333, Mismatches: 67, Indels: 28
0.78 0.16 0.07
Matches are distributed among these distances:
169 22 0.07
170 9 0.03
171 2 0.01
172 13 0.04
173 243 0.73
174 15 0.05
175 2 0.01
176 8 0.02
177 19 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (172 bp):
CTGCAACTTCAGGGAGATAGGATTATGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
TTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAATCTGCTC
CACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
Found at i:12735438 original size:346 final size:346
Alignment explanation
Indices: 12734790--12735511 Score: 1054
Period size: 346 Copynumber: 2.1 Consensus size: 346
12734780 GCTTACTTAA
* * *
12734790 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGTAACTTCAGAGAG
* * * *
12734855 ATAAGATCTGTGATTTTAATCCGCTCCCCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
* *
12734920 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGG
131 TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACTACAACTTCAGG
**
12734985 AGGATAAAGCTTGCTTACTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATC
196 AGGATAAAGCTTGCTTACTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATC
* * * * * * *
12735050 TGCTCTCTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
261 TGCTCTCTGCAACTTCAGAGAAATAAGATTAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGA
12735115 GATAAGACTCGCTTTCTTGGG
326 GATAAGACTCGCTTTCTTGGG
* * * *
12735136 TCTGCTCTACTGCAACTTTAGGTAGATAAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGTAACTTCAGAGAG
*
12735201 ATAAGATTTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
66 ATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
*
12735266 TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTTTGCCTCACTACAACTTCAGG
131 TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACTACAACTTCAGG
* * *
12735331 AGGATAAGGCTTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATC
196 AGGATAAAGCTTGCTTACTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATC
* * ** *
12735396 TGCTCTCTGCAACTTTAGAGAAATAAGATCT-GTGATTTTAATCCGCTCCACTGTGACTTTAGGG
261 TGCTCTCTGCAACTTCAGAGAAATAAGAT-TAGTGACTTTAATCCGCTCCACTGCAACTTCAGGG
* ** * ***
12735460 AGATAGGA-T-TATTGGCTTTAA
325 AGATAAGACTCGCTT-TCTTGGG
12735481 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
12735512 TTCACCATCT
Statistics
Matches: 332, Mismatches: 42, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
344 2 0.01
345 32 0.10
346 297 0.89
347 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (346 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTGCTCTCTGTAACTTCAGAGAG
ATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATC
TGCTCCACTGAAACTTCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACTACAACTTCAGG
AGGATAAAGCTTGCTTACTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATC
TGCTCTCTGCAACTTCAGAGAAATAAGATTAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAAGACTCGCTTTCTTGGG
Found at i:12735514 original size:217 final size:218
Alignment explanation
Indices: 12735098--12735526 Score: 628
Period size: 217 Copynumber: 2.0 Consensus size: 218
12735088 TAATCTGCTC
* * * * * *
12735098 CACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCTACTGCAACTTTAGGTAGAT
1 CACTACAACTTCAGGGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTACAACTTTAGGGAGAT
* * * *
12735163 AAGACCCGATGCAATCTGCTCTCTGTAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCC
66 AAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAAATAAGATCTGTGATTTTAATCCACTCC
12735228 ACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAA
131 ACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAA
*
12735293 GATTCGCCATATTCAGTTTGCCT
196 GATTCACCATATTCAGTTTGCCT
* *
12735316 CACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACTACAACTTTAGGGAGA
1 CACTACAACTTCAGGGA-GATAAGACTCGCTTACTTGAGTCTGCTCCACTACAACTTTAGGGAGA
* * * *
12735379 TAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTC
65 TAAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAAATAAGATCTGTGATTTTAATCCACTC
** * * *
12735444 CACTGTGACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
130 CACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATA
*
12735509 AGATTCACCATCTTCAGT
195 AGATTCACCATATTCAGT
12735527 CTTTTAAATT
Statistics
Matches: 187, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
217 160 0.86
218 27 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (218 bp):
CACTACAACTTCAGGGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTACAACTTTAGGGAGAT
AAGACCAGATGCAATCTGCTCTCTGCAACTTCAGAGAAATAAGATCTGTGATTTTAATCCACTCC
ACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAA
GATTCACCATATTCAGTTTGCCT
Found at i:12735935 original size:44 final size:44
Alignment explanation
Indices: 12735880--12735998 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 44
12735870 TGTTATTTTT
* * *
12735880 AACCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCATAATCTTC
1 AACCTATTCCACTGCTGCTCAGGGAGATAGGACTT-ACAATCTTC
*
12735924 AACCTATTCCACTGCTGAC-CAGGGAGATAAGACTTACAATCTTC
1 AACCTATTCCACTGCTG-CTCAGGGAGATAGGACTTACAATCTTC
*
12735968 AACCTATTCCACTACTG-TCTAGGGAGATAGG
1 AACCTATTCCACTGCTGCTC-AGGGAGATAGG
12735999 GCTGGGGTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.02
44 61 0.94
45 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
AACCTATTCCACTGCTGCTCAGGGAGATAGGACTTACAATCTTC
Found at i:12736060 original size:88 final size:88
Alignment explanation
Indices: 12735998--12736575 Score: 859
Period size: 88 Copynumber: 6.6 Consensus size: 88
12735988 AGGGAGATAG
* * *
12735998 GGCTGGGGTCATCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
12736063 TCCGCTGCAACCCAGAGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
12736086 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
12736151 TCCGCTGCAACCCAAGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
12736174 GGCTGGTATCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
12736239 TTCGCTACAGCCCAGAGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* ** * *
12736262 GGCTGGTGTCTTCAATCTGCTTCGCTGTCGACGCAAGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
12736327 TCTGCTATAACTCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
*
12736350 GGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
12736415 TCCGCTGCAACCCAGGGATGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
12736438 GGCTAGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
12736503 TCCGCTACAACTCAGGGAGACAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * *
12736526 GGTTAGTGTCTTCGATCTGCTTCGCTGTCGGAGCAGGAAGACAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
12736576 TTATCTTCAC
Statistics
Matches: 440, Mismatches: 50, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 440 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:12736112 original size:43 final size:43
Alignment explanation
Indices: 12736059--12736288 Score: 133
Period size: 43 Copynumber: 5.3 Consensus size: 43
12736049 TATTTTTAAC
* * * *
12736059 CTGCTCCGCTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGAT
1 CTGCTTCGCTGCAGCCCAGAGAGGCAAGGCTGGTATCTTCAAT
* ** * * * * *
12736102 CTGCTTCGCTGTCGGTGCAG-GAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTTCGCTG-CAGCCCAGAG-AGGCAAG-GCTGGTATCTTCAAT
* * *
12736147 CTGCTCCGCTGCAACCCA-AGGAGGCAAGGCTGGTATCTTCGAT
1 CTGCTTCGCTGCAGCCCAGA-GAGGCAAGGCTGGTATCTTCAAT
* * ** * ** * * *
12736190 CTGCTTCGCTATCGGTGCAG-GAAGGCAAGATCTACTATTTTTAAC
1 CTGCTTCGCT-GCAGCCCAGAG-AGGCAAG-GCTGGTATCTTCAAT
* *
12736235 CTGCTTCGCTACAGCCCAGAGAGGCAAGGCTGGTGTCTTCAAT
1 CTGCTTCGCTGCAGCCCAGAGAGGCAAGGCTGGTATCTTCAAT
12736278 CTGCTTCGCTG
1 CTGCTTCGCTG
12736289 TCGACGCAAG
Statistics
Matches: 129, Mismatches: 48, Indels: 20
0.65 0.24 0.10
Matches are distributed among these distances:
43 48 0.37
44 43 0.33
45 38 0.29
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (43 bp):
CTGCTTCGCTGCAGCCCAGAGAGGCAAGGCTGGTATCTTCAAT
Found at i:12737802 original size:23 final size:23
Alignment explanation
Indices: 12737775--12737820 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12737765 TCACCTTGGC
12737775 CTCTCCATTTTCTTTCTTCTTTT
1 CTCTCCATTTTCTTTCTTCTTTT
** * *
12737798 CTCTCTTTTTTTTTTCTTTTTTT
1 CTCTCCATTTTCTTTCTTCTTTT
12737821 ATATTTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (23 bp):
CTCTCCATTTTCTTTCTTCTTTT
Found at i:12737927 original size:14 final size:15
Alignment explanation
Indices: 12737904--12737936 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12737894 ATCTATGCTT
12737904 TTCCAAATAAGGT-C
1 TTCCAAATAAGGTCC
*
12737918 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
12737933 TTCC
1 TTCC
12737937 CAATTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:12738794 original size:25 final size:26
Alignment explanation
Indices: 12738743--12738803 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
12738733 AAGAAAATCC
* **
12738743 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
12738769 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
12738794 AAAATGAATG
1 AAAA-GAATG
12738804 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:12742205 original size:3 final size:3
Alignment explanation
Indices: 12742175--12742228 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
12742165 GCGCAAGAAT
* * *
12742175 ATA AAA ATA AAA ATA AAA ATA ATAA ATA ATAA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA AT-A ATA ATA ATA
12742223 ATA ATA
1 ATA ATA
12742229 CAAGATTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 33 0.79
4 9 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:12742218 original size:7 final size:7
Alignment explanation
Indices: 12742175--12742226 Score: 76
Period size: 6 Copynumber: 8.0 Consensus size: 7
12742165 GCGCAAGAAT
12742175 ATAA-AA
1 ATAATAA
12742181 ATAA-AA
1 ATAATAA
12742187 ATAA-AA
1 ATAATAA
12742193 ATAATAA
1 ATAATAA
12742200 ATAATAA
1 ATAATAA
12742207 ATAATAA
1 ATAATAA
12742214 ATAAT-A
1 ATAATAA
12742220 ATAATAA
1 ATAATAA
12742227 TACAAGATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
6 22 0.50
7 22 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAATAA
Found at i:12742282 original size:23 final size:23
Alignment explanation
Indices: 12742256--12742299 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
12742246 CATAATAGTA
**
12742256 TTAATAATATTAAAATAATTAAT
1 TTAATAATAAAAAAATAATTAAT
12742279 TTAATAATAAAAAAATAATTA
1 TTAATAATAAAAAAATAATTA
12742300 CATTAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TTAATAATAAAAAAATAATTAAT
Found at i:12742305 original size:23 final size:22
Alignment explanation
Indices: 12742255--12742305 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
12742245 ACATAATAGT
**
12742255 ATTAATAATATTAAAATAATTA
1 ATTAATAATAAAAAAATAATTA
12742277 ATTTAATAATAAAAAAATAATTA
1 A-TTAATAATAAAAAAATAATTA
12742300 CATTAA
1 -ATTAA
12742306 ATGTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 23 0.92
24 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTAATAATAAAAAAATAATTA
Found at i:12742930 original size:3 final size:3
Alignment explanation
Indices: 12742900--12742953 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
12742890 GCGCAAGAAT
* * *
12742900 ATA AAA ATA AAA ATA AAA ATA ATAA ATA ATAA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA AT-A ATA ATA ATA
12742948 ATA ATA
1 ATA ATA
12742954 CAAGATTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 33 0.79
4 9 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:12742943 original size:7 final size:7
Alignment explanation
Indices: 12742900--12742951 Score: 76
Period size: 6 Copynumber: 8.0 Consensus size: 7
12742890 GCGCAAGAAT
12742900 ATAA-AA
1 ATAATAA
12742906 ATAA-AA
1 ATAATAA
12742912 ATAA-AA
1 ATAATAA
12742918 ATAATAA
1 ATAATAA
12742925 ATAATAA
1 ATAATAA
12742932 ATAATAA
1 ATAATAA
12742939 ATAAT-A
1 ATAATAA
12742945 ATAATAA
1 ATAATAA
12742952 TACAAGATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
6 22 0.50
7 22 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAATAA
Found at i:12743451 original size:19 final size:19
Alignment explanation
Indices: 12743427--12743480 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
12743417 AATCATATCT
12743427 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12743446 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
12743465 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12743481 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12743476 original size:38 final size:40
Alignment explanation
Indices: 12743404--12743480 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
12743394 AAATTAAATC
12743404 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
12743446 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
12743481 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:12745368 original size:23 final size:23
Alignment explanation
Indices: 12745336--12745379 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12745326 CCTTTATTTT
* *
12745336 TTTAATATTTATATTGTTTTTAA
1 TTTAAAATTTAAATTGTTTTTAA
*
12745359 TTTAAAATTTAAATTTTTTTT
1 TTTAAAATTTAAATTGTTTTT
12745380 TCATATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTAAAATTTAAATTGTTTTTAA
Found at i:12749251 original size:12 final size:12
Alignment explanation
Indices: 12749236--12749266 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12749226 GGGATTTTAT
*
12749236 TTTTTCTTTTCG
1 TTTTTCTTTTCA
12749248 TTTTTCTTTTCA
1 TTTTTCTTTTCA
12749260 TTTTTCT
1 TTTTTCT
12749267 GTAAAGGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTCA
Found at i:12762861 original size:87 final size:87
Alignment explanation
Indices: 12762714--12763038 Score: 445
Period size: 87 Copynumber: 3.7 Consensus size: 87
12762704 CTGCGTTAAC
* * * * *
12762714 AGTGGAGCAGATCGAAGACAGCAAATCTTATCTTCCCTAGGAGTAGGGAAACATATTTAAGCCAT
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
12762779 TAATCCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * * *
12762801 TGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAT
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
*
12762866 TAATCCTATCGCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * *
12762888 AGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
** *
12762953 TGGTTCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * * * *
12762975 AGTGAAGCAGATCCAAGACGGCAAACCAT-ATCTTCCCCAATAATAGGGAAACAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGGCAAATC-TCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCA
12763039 CAAATACTAC
Statistics
Matches: 215, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 214 1.00
88 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (87 bp):
AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
TAATCCTATCTCCCTAAGCAAT
Found at i:12763637 original size:12 final size:12
Alignment explanation
Indices: 12763615--12763650 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
12763605 GGGGGAGGGA
12763615 TTTT-ATTTTTC
1 TTTTCATTTTTC
*
12763626 TTTTCGTTTTTC
1 TTTTCATTTTTC
12763638 TTTTCATTTTTC
1 TTTTCATTTTTC
12763650 T
1 T
12763651 GTAAAAGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTCATTTTTC
Found at i:12767588 original size:25 final size:25
Alignment explanation
Indices: 12767532--12767592 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
12767522 AGCTCTTATG
* * * *
12767532 AGCTTACCGATACTCAGCTTGTACA
1 AGCTTACCGTTACTCAGCTCGAAAA
* *
12767557 AGGTTACCGTTATTCAGCTCGAAAA
1 AGCTTACCGTTACTCAGCTCGAAAA
12767582 AGCTTACCGTT
1 AGCTTACCGTT
12767593 TATAACTCGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCTTACCGTTACTCAGCTCGAAAA
Found at i:12776381 original size:22 final size:24
Alignment explanation
Indices: 12776327--12776381 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
12776317 TATATAACTG
12776327 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
12776349 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
12776371 ATAATATATAT
1 ATAATATATAT
12776382 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:12776683 original size:3 final size:3
Alignment explanation
Indices: 12776675--12776715 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
12776665 ACTAATGTAC
*
12776675 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A
12776716 TGAAAATAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12776700 original size:19 final size:19
Alignment explanation
Indices: 12776678--12776715 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12776668 AATGTACAAT
12776678 AATAATAATAATAATAATA
1 AATAATAATAATAATAATA
*
12776697 AATAATAATATTAATAATA
1 AATAATAATAATAATAATA
12776716 TGAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATAATAATAATAATA
Found at i:12777608 original size:35 final size:35
Alignment explanation
Indices: 12777562--12777630 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
12777552 GGGTGTGTGA
12777562 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
12777597 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
12777631 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:12778697 original size:12 final size:12
Alignment explanation
Indices: 12778680--12778712 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12778670 ATTTTTTATT
12778680 TATAAATATTAA
1 TATAAATATTAA
*
12778692 TATAAATATAAA
1 TATAAATATTAA
12778704 T-TAAATATT
1 TATAAATATT
12778713 TTATTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAATATTAA
Found at i:12782570 original size:14 final size:15
Alignment explanation
Indices: 12782534--12782570 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
12782524 TGGCACATAG
12782534 AATTA-ATTTTATTT
1 AATTATATTTTATTT
12782548 AAGTTATATTTT-TTT
1 AA-TTATATTTTATTT
12782563 AATTATAT
1 AATTATAT
12782571 GATTATCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTATATTTTATTT
Found at i:12782631 original size:8 final size:8
Alignment explanation
Indices: 12782618--12782665 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
12782608 TCAATACATG
12782618 AATTGAAA
1 AATTGAAA
12782626 AATTGAAA
1 AATTGAAA
12782634 AATTGAAA
1 AATTGAAA
12782642 AATTGAAA
1 AATTGAAA
*
12782650 AATTGAGA
1 AATTGAAA
12782658 AATT-AAA
1 AATTGAAA
12782665 A
1 A
12782666 TTTCTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 3 0.08
8 35 0.92
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (8 bp):
AATTGAAA
Found at i:12784589 original size:24 final size:25
Alignment explanation
Indices: 12784561--12784610 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
12784551 TTTTTATATT
*
12784561 ATATAAGA-AAAAAGATTATAGATA
1 ATATAAGATAAAAAAATTATAGATA
*
12784585 ATATAAGATTAAAAAAATTGTAGATA
1 ATATAAGA-TAAAAAAATTATAGATA
12784611 TTTTGAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (25 bp):
ATATAAGATAAAAAAATTATAGATA
Found at i:12790963 original size:14 final size:14
Alignment explanation
Indices: 12790929--12790957 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12790919 TACTTGCAAG
12790929 TTCAACTAACCAAC
1 TTCAACTAACCAAC
12790943 TTCAACTAACCAAC
1 TTCAACTAACCAAC
12790957 T
1 T
12790958 GTAACTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (14 bp):
TTCAACTAACCAAC
Found at i:12791799 original size:22 final size:24
Alignment explanation
Indices: 12791774--12791818 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
12791764 TATGTTTAAA
12791774 TATATTTTA-ATTT-TTAATTTAT
1 TATATTTTATATTTATTAATTTAT
12791796 TATATTTTATATTTAGTTAATTT
1 TATATTTTATATTTA-TTAATTT
12791819 TAATTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
25 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTTTATATTTATTAATTTAT
Found at i:12791809 original size:16 final size:15
Alignment explanation
Indices: 12791780--12791829 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
12791770 TAAATATATT
12791780 TTAATTTTTAATTTA-
1 TTAA-TTTTAATTTAG
12791795 TTATATTTTATATTTAG
1 TTA-ATTTTA-ATTTAG
12791812 TTAATTTTAATTTTAG
1 TTAATTTTAA-TTTAG
12791828 TT
1 TT
12791830 TATTCCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.29
16 19 0.61
17 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTAATTTTAATTTAG
Found at i:12793424 original size:87 final size:87
Alignment explanation
Indices: 12793277--12793496 Score: 253
Period size: 87 Copynumber: 2.5 Consensus size: 87
12793267 TGCATTGCGA
* * * **
12793277 TAAACCGCTGTA-CAGACATGTTGTAGTTTAAACTGCCAAATCAGATAATAACACGTAGCAAAAC
1 TAAACCGCTGTACCA-ATAAGTTGTAG-TTAAACTGCCAGATCAGATAATAACACACAGCAAAAC
* *
12793341 TGACGTATATGTAGTACAGTGTGG
64 TGACGTACATGCAGTACAGTGTGG
* * * * * *
12793365 TAAACTGCTGTACTAATAAGTTGTAGTTAAATTACCAGATCAGATAATAGCACACAGCAAAGCTG
1 TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGATAATAACACACAGCAAAACTG
*
12793430 ACGTACATGCGGTACAGTGTGG
66 ACGTACATGCAGTACAGTGTGG
* * **
12793452 TAAACCGTTGTACCGATAAGTTACAGTTAAACTGCCAGATCAGAT
1 TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGAT
12793497 CAAAATCAGT
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
87 88 0.81
88 20 0.18
89 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (87 bp):
TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGATAATAACACACAGCAAAACTG
ACGTACATGCAGTACAGTGTGG
Found at i:12794671 original size:42 final size:42
Alignment explanation
Indices: 12794620--12794889 Score: 400
Period size: 42 Copynumber: 6.4 Consensus size: 42
12794610 GTTTACAAAC
*
12794620 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
12794662 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
12794704 AAAAACGCCGCTAAAGAAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAG-ACCATGTTCTTTAGCGGCGCTTAG-AA
* * *
12794747 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
12794789 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AA
* *
12794831 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
12794873 AAAAACGCCGCTAAAGA
1 AAAAACGCCGCTAAAGA
12794890 AGTTGCGACT
Statistics
Matches: 203, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
41 3 0.01
42 160 0.79
43 40 0.20
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:12794719 original size:84 final size:84
Alignment explanation
Indices: 12794620--12794890 Score: 454
Period size: 84 Copynumber: 3.2 Consensus size: 84
12794610 GTTTACAAAC
* * * * * *
12794620 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAAATGCCACTAAAGACCATG
12794684 TTCTTTAGCGGCGCTTAGAA
65 TTCTTTAGCGGCGCTTAGAA
12794704 AAAAACGCCGCTAAAGAAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATG
1 AAAAACGCCGCTAAAG-AACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATG
*
12794769 TTCTTTAGCGGCGCTTAGGA
65 TTCTTTAGCGGCGCTTAGAA
12794789 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
12794854 TCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGCTTAGAA
12794873 AAAAACGCCGCTAAAGAA
1 AAAAACGCCGCTAAAGAA
12794891 GTTGCGACTT
Statistics
Matches: 177, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
84 103 0.58
85 74 0.42
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
TCTTTAGCGGCGCTTAGAA
Found at i:12794773 original size:127 final size:126
Alignment explanation
Indices: 12794620--12794889 Score: 400
Period size: 127 Copynumber: 2.1 Consensus size: 126
12794610 GTTTACAAAC
** *
12794620 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
* *
12794685 TCTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGAAACATGTTCTTTAGCGGCG-TTTGTAA
66 TCTTTAGCGGCG-TTAGTAAAAAAACGCCACTAAAG-AACATGTTCTTTAGCGGCGCTTAG-AA
* *
12794747 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
* * *
12794812 TCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGTTAGTAAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
12794873 AAAAACGCCGCTAAAGA
1 AAAAACGCCACTAAAGA
12794890 AGTTGCGACT
Statistics
Matches: 129, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
126 38 0.29
127 91 0.71
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (126 bp):
AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCGTTAGTAAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:12794992 original size:21 final size:21
Alignment explanation
Indices: 12794962--12795015 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
12794952 GCTCTGCTCT
* *
12794962 GCTTCTCTCGCTGTAGCCT-CC
1 GCTTCCCTCGCTGCAG-CTGCC
*
12794983 GCTTCCCTCGCTGCAGCTGCT
1 GCTTCCCTCGCTGCAGCTGCC
12795004 GCTTCCCTCGCT
1 GCTTCCCTCGCT
12795016 TCCGCCTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.04, C:0.44, G:0.20, T:0.31
Consensus pattern (21 bp):
GCTTCCCTCGCTGCAGCTGCC
Found at i:12796359 original size:19 final size:21
Alignment explanation
Indices: 12796313--12796357 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
12796303 ATACACAAAG
*
12796313 ATATAATAACCTGGTTTACTT
1 ATATAATAACATGGTTTACTT
12796334 ATATAATAACATGGTTTACTT
1 ATATAATAACATGGTTTACTT
12796355 ATA
1 ATA
12796358 ATGTTTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (21 bp):
ATATAATAACATGGTTTACTT
Found at i:12796864 original size:19 final size:19
Alignment explanation
Indices: 12796840--12796879 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
12796830 AAATCCTATA
12796840 CCACCCAATGGATGGATGG
1 CCACCCAATGGATGGATGG
12796859 CCACCCAATGGATGGATGG
1 CCACCCAATGGATGGATGG
12796878 CC
1 CC
12796880 TCAAATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.15
Consensus pattern (19 bp):
CCACCCAATGGATGGATGG
Found at i:12797426 original size:25 final size:25
Alignment explanation
Indices: 12797393--12797459 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
12797383 CGGTGCAGCA
* *
12797393 GACTGTCGACGGTGATGCAACAGAG
1 GACTTTCGACGGCGATGCAACAGAG
* **
12797418 GACTTTCGACGGCGATGTAGTAGAG
1 GACTTTCGACGGCGATGCAACAGAG
*
12797443 GGCTTTCGACGGCGATG
1 GACTTTCGACGGCGATG
12797460 GCGACGGCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.21
Consensus pattern (25 bp):
GACTTTCGACGGCGATGCAACAGAG
Found at i:12797914 original size:41 final size:41
Alignment explanation
Indices: 12797853--12797966 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
12797843 TTTTGCAACA
* ***
12797853 TTTATGATAAAAATGCCGCTATAGCTCCAATCGTTTGTGGTG
1 TTTATGA-AAAAATGCCGCTATAGCTCCAACCGTTTACAGTG
* * *
12797895 TTTATGAAAAAATGTCGCTATAGCTCTAACCTTTTACAGTG
1 TTTATGAAAAAATGCCGCTATAGCTCCAACCGTTTACAGTG
* * *
12797936 TTTATGAAAAAACGCCACTATAGCTCTAACC
1 TTTATGAAAAAATGCCGCTATAGCTCCAACC
12797967 TTTTGCGGCG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 55 0.89
42 7 0.11
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (41 bp):
TTTATGAAAAAATGCCGCTATAGCTCCAACCGTTTACAGTG
Found at i:12797967 original size:41 final size:41
Alignment explanation
Indices: 12797892--12797970 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
12797882 ATCGTTTGTG
* * *
12797892 GTGTTTATGAAAAAATGTCGCTATAGCTCTAACCTTTTACA
1 GTGTTTATGAAAAAACGCCACTATAGCTCTAACCTTTTACA
12797933 GTGTTTATGAAAAAACGCCACTATAGCTCTAACCTTTT
1 GTGTTTATGAAAAAACGCCACTATAGCTCTAACCTTTT
12797971 GCGGCGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (41 bp):
GTGTTTATGAAAAAACGCCACTATAGCTCTAACCTTTTACA
Found at i:12806885 original size:112 final size:112
Alignment explanation
Indices: 12806688--12807676 Score: 1906
Period size: 112 Copynumber: 8.8 Consensus size: 112
12806678 NNNNNNNNNN
12806688 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
*
12806753 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGGC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
12806800 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
12806865 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
12806912 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
12806977 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
* *
12807024 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATTTATAAACGCCG
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
12807089 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
*
12807136 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAATGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
12807201 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
12807248 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
*
12807313 CTAATGCTCACTCTTTAGCGGCGCTTTGCAATAAACGCCACTAAGTC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
12807360 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
*
12807425 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAATGCCACTAAGTC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
*
12807472 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTGTTTGCGGCGTTATCTATAAACGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
12807537 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTCC
66 CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGT-C
12807585 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
1 CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
12807650 CTAATGCTCACTCTTTAGCGGCGCTTT
66 CTAATGCTCACTCTTTAGCGGCGCTTT
12807677 TCCTTAAACT
Statistics
Matches: 863, Mismatches: 13, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
112 771 0.89
113 92 0.11
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (112 bp):
CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTATCTATAAACGCCA
CTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTC
Found at i:12807691 original size:40 final size:40
Alignment explanation
Indices: 12807641--12807757 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
12807631 GCGTTATCTA
**
12807641 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
*
12807681 TAAACTCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
* *
12807721 TAAACGCCGCTATTGCTCACTCTTTAGCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTT
12807758 GCTCCAAACG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
Found at i:12828438 original size:31 final size:30
Alignment explanation
Indices: 12828395--12828796 Score: 249
Period size: 31 Copynumber: 13.1 Consensus size: 30
12828385 ATATACCACA
* *
12828395 CAATTCGACAATGTATAACCATACACAAAT
1 CAATTCGGCAATGTATAACCATATACAAAT
*
12828425 CAAGTTCGGCAATGTATAATCATATACAAAT
1 CAA-TTCGGCAATGTATAACCATATACAAAT
* * ** * *
12828456 CAAATTCGGC-TTCCTATATTCATAAACAATT
1 C-AATTCGGCAAT-GTATAACCATATACAAAT
* * *
12828487 CAACTTCGACAATATATAACCATGTACAAAT
1 CAA-TTCGGCAATGTATAACCATATACAAAT
* * * *
12828518 TAATTCCAGCAATGTACAACCATATACGAAT
1 CAATT-CGGCAATGTATAACCATATACAAAT
** **
12828549 CAATTAAGCAACT-TATATTCATATACCAAA-
1 CAATTCGGCAA-TGTATAACCATATA-CAAAT
* * *
12828579 CAATTCGGCAATGCATAACCATACACGAAT
1 CAATTCGGCAATGTATAACCATATACAAAT
* *
12828609 CAAGTTCAGCAATGTATAATCATATACAAAT
1 CAA-TTCGGCAATGTATAACCATATACAAAT
* * * ** * *
12828640 CAAACTCGGC-TTCCTATATTCATAAACAATT
1 C-AATTCGGCAAT-GTATAACCATATACAAAT
* * *
12828671 CAATTTCGTCAATATATAACCATGTACAAAT
1 CAA-TTCGGCAATGTATAACCATATACAAAT
* * * *
12828702 TAATTCCAGCAATGTACAACCATATACGAAT
1 CAATT-CGGCAATGTATAACCATATACAAAT
* * *
12828733 CAATTCAGTAACT-TATATCCATATACAAAAT
1 CAATTCGGCAA-TGTATAACCATATAC-AAAT
*
12828764 -AATTCGGCAATGTATAACCATACACAAAT
1 CAATTCGGCAATGTATAACCATATACAAAT
12828793 CAAT
1 CAAT
12828797 ATATCCATAT
Statistics
Matches: 279, Mismatches: 73, Indels: 40
0.71 0.19 0.10
Matches are distributed among these distances:
29 9 0.03
30 85 0.30
31 179 0.64
32 6 0.02
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (30 bp):
CAATTCGGCAATGTATAACCATATACAAAT
Found at i:12828516 original size:93 final size:92
Alignment explanation
Indices: 12828395--12828796 Score: 377
Period size: 93 Copynumber: 4.4 Consensus size: 92
12828385 ATATACCACA
* * * *
12828395 CAATTCGACAATGTATAACCATACACAAATCAAGTT-CGGCAATGTATAATCATATACAAATCAA
1 CAATTCGACAATATATAACCATACACAAATCAA-TTCCAGCAATGTACAACCATATACAAATCAA
12828459 ATTCGGCTTCCTATATTCATAAACAATT
65 ATTCGGCTTCCTATATTCATAAACAATT
** * *
12828487 CAACTTCGACAATATATAACCATGTACAAATTAATTCCAGCAATGTACAACCATATACGAATC-A
1 CAA-TTCGACAATATATAACCATACACAAATCAATTCCAGCAATGTACAACCATATACAAATCAA
** ** * * *
12828551 ATTAAGCAACTTATATTCATATACCAA-A
65 ATTCGGCTTCCTATATTCATA-AACAATT
* ** * * *
12828579 CAATTCGGCAATGCATAACCATACACGAATCAAGTT-CAGCAATGTATAATCATATACAAATCAA
1 CAATTCGACAATATATAACCATACACAAATCAA-TTCCAGCAATGTACAACCATATACAAATCAA
*
12828643 ACTCGGCTTCCTATATTCATAAACAATT
65 ATTCGGCTTCCTATATTCATAAACAATT
* ** * *
12828671 CAATTTCGTCAATATATAACCATGTACAAATTAATTCCAGCAATGTACAACCATATACGAATC-A
1 CAA-TTCGACAATATATAACCATACACAAATCAATTCCAGCAATGTACAACCATATACAAATCAA
* * * * * *
12828735 ATTCAG-TAACTTATATCCATATACAAAAT
65 ATTCGGCT-TCCTATATTCATAAAC-AATT
* *
12828764 -AATTCGGCAATGTATAACCATACACAAATCAAT
1 CAATTCGACAATATATAACCATACACAAATCAAT
12828797 ATATCCATAT
Statistics
Matches: 245, Mismatches: 55, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
91 77 0.31
92 67 0.27
93 101 0.41
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (92 bp):
CAATTCGACAATATATAACCATACACAAATCAATTCCAGCAATGTACAACCATATACAAATCAAA
TTCGGCTTCCTATATTCATAAACAATT
Found at i:12828694 original size:184 final size:184
Alignment explanation
Indices: 12828379--12828795 Score: 708
Period size: 184 Copynumber: 2.3 Consensus size: 184
12828369 TCAACAATGA
* * * *
12828379 ATATCAATATACCACACAATTCGACAATGTATAACCATACACAAATCAAGTTCGGCAATGTATAA
1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACAAATCAAGTTCAGCAATGTATAA
*
12828444 TCATATACAAATCAAATTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA
66 TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA
12828509 TGTACAAATTAATTCCAGCAATGTACAACCATATACGAATCAATTAAGCAACTT
131 TGTACAAATTAATTCCAGCAATGTACAACCATATACGAATCAATTAAGCAACTT
* * *
12828563 ATATTCATATACCAAACAATTCGGCAATGCATAACCATACACGAATCAAGTTCAGCAATGTATAA
1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACAAATCAAGTTCAGCAATGTATAA
* *
12828628 TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAATTTCGTCAATATATAACCA
66 TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA
* *
12828693 TGTACAAATTAATTCCAGCAATGTACAACCATATACGAATCAATTCAGTAACTT
131 TGTACAAATTAATTCCAGCAATGTACAACCATATACGAATCAATTAAGCAACTT
* *
12828747 ATATCCATATACAAAATAATTCGGCAATGTATAACCATACACAAATCAA
1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACAAATCAA
12828796 TATATCCATA
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 216 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.28
Consensus pattern (184 bp):
ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACAAATCAAGTTCAGCAATGTATAA
TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA
TGTACAAATTAATTCCAGCAATGTACAACCATATACGAATCAATTAAGCAACTT
Found at i:12828804 original size:20 final size:20
Alignment explanation
Indices: 12828776--12828815 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12828766 TTCGGCAATG
12828776 TATAACCATACACAAATCAA
1 TATAACCATACACAAATCAA
* * *
12828796 TATATCCATATACAATTCAA
1 TATAACCATACACAAATCAA
12828816 CTTCGACAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (20 bp):
TATAACCATACACAAATCAA
Found at i:12833102 original size:28 final size:31
Alignment explanation
Indices: 12833033--12833095 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 31
12833023 TATATTTGTA
*
12833033 ATAGACTATTTTAATCATTTTTTATAATTTTT
1 ATAG-CTATTTTAATCATTTTTTATAATTTAT
12833065 ATAGCT-TTTTAAT-A-TTTTTATAATTTAT
1 ATAGCTATTTTAATCATTTTTTATAATTTAT
12833093 ATA
1 ATA
12833096 TTATTTTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 16 0.53
29 1 0.03
30 7 0.23
31 2 0.07
32 4 0.13
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (31 bp):
ATAGCTATTTTAATCATTTTTTATAATTTAT
Found at i:12833176 original size:21 final size:21
Alignment explanation
Indices: 12833152--12833213 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
12833142 TTTTTTAAAT
12833152 TTTTTTATTATTTTTAATAAC
1 TTTTTTATTATTTTTAATAAC
* *
12833173 TTTTATATT-TTTTT-ACAAC
1 TTTTTTATTATTTTTAATAAC
*
12833192 TTTTAATAATTATTTTATAATA
1 TTTT--TTATTATTTT-TAATA
12833214 TTCTAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 5 0.16
21 11 0.35
22 4 0.13
23 1 0.03
24 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTATTATTTTTAATAAC
Found at i:12833195 original size:29 final size:29
Alignment explanation
Indices: 12833144--12833200 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
12833134 TTATCTTCTT
** *
12833144 TTTTAAATTTTTTTATTATTTTTAATAAC
1 TTTTAAATTTTTTTACAACTTTTAATAAC
*
12833173 TTTTATATTTTTTTACAACTTTTAATAA
1 TTTTAAATTTTTTTACAACTTTTAATAA
12833201 TTATTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTAAATTTTTTTACAACTTTTAATAAC
Found at i:12836440 original size:3 final size:3
Alignment explanation
Indices: 12836432--12836460 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12836422 CTTTAAGTAA
12836432 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
12836461 AAGGTTATGA
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:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12836891 original size:4 final size:4
Alignment explanation
Indices: 12836884--12836914 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
12836874 TAAAAAAAAA
12836884 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
12836915 AGAAGAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Done.