Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 322 of 352
Found at i:104436387 original size:18 final size:18
Alignment explanation
Indices: 104436337--104436388 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
104436327 AAATTATTCA
104436337 ATTTATATTT-TAT-TTT
1 ATTTATATTTATATATTT
* ** *
104436353 ATATATAAATATTTATTT
1 ATTTATATTTATATATTT
104436371 ATTTATATTTATATATTT
1 ATTTATATTTATATATTT
104436389 GTTCGCTAAC
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
16 7 0.27
17 2 0.08
18 17 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATATTTATATATTT
Found at i:104436630 original size:2 final size:2
Alignment explanation
Indices: 104436623--104436655 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
104436613 AATATGGCCA
104436623 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
104436656 ACACACACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:104438053 original size:2 final size:2
Alignment explanation
Indices: 104438046--104438072 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104438036 GAAAGTTGAC
104438046 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
104438073 CGAATTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104439410 original size:14 final size:14
Alignment explanation
Indices: 104439372--104439419 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
104439362 CGAGTTTTTT
104439372 TAAAAAAAATAATA
1 TAAAAAAAATAATA
104439386 TGAAAAGAAAATAATAATA
1 T---AA-AAAA-AATAATA
104439405 TAAAAAAAATAATA
1 TAAAAAAAATAATA
104439419 T
1 T
104439420 GAAATGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.31
15 4 0.14
16 2 0.07
17 2 0.07
18 4 0.14
19 8 0.28
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (14 bp):
TAAAAAAAATAATA
Found at i:104439413 original size:17 final size:18
Alignment explanation
Indices: 104439373--104439418 Score: 69
Period size: 17 Copynumber: 2.6 Consensus size: 18
104439363 GAGTTTTTTT
104439373 AAAAAA-AATAATATGAA
1 AAAAAATAATAATATGAA
104439390 AAGAAAATAATAATAT-AA
1 AA-AAAATAATAATATGAA
104439408 AAAAAATAATA
1 AAAAAATAATA
104439419 TGAAATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.41
18 8 0.30
19 8 0.30
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAAAATAATAATATGAA
Found at i:104439435 original size:25 final size:25
Alignment explanation
Indices: 104439398--104439458 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
104439388 AAAAGAAAAT
104439398 AATAATAT-AAAAAAAA-T-AATATGA
1 AATAAT-TGAAAAAAAATTGAA-ATGA
104439422 AATGAATTGAAAAAAAATTGAAATGA
1 AAT-AATTGAAAAAAAATTGAAATGA
104439448 AATAATTGAAA
1 AATAATTGAAA
104439459 TTAAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
24 4 0.12
25 19 0.58
26 8 0.24
27 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.25
Consensus pattern (25 bp):
AATAATTGAAAAAAAATTGAAATGA
Found at i:104439456 original size:14 final size:14
Alignment explanation
Indices: 104439418--104439464 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
104439408 AAAAAATAAT
104439418 ATGAAATGAATTGAA
1 ATGAAAT-AATTGAA
104439433 A--AAA-AATTGAA
1 ATGAAATAATTGAA
104439444 ATGAAATAATTGAA
1 ATGAAATAATTGAA
*
104439458 ATTAAAT
1 ATGAAAT
104439465 TAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 8 0.29
13 6 0.21
14 13 0.46
15 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.28
Consensus pattern (14 bp):
ATGAAATAATTGAA
Found at i:104439464 original size:25 final size:25
Alignment explanation
Indices: 104439406--104439469 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
104439396 ATAATAATAT
104439406 AAAAAAAA-TAATATGAAATGAATTG
1 AAAAAAAATTAA-ATGAAATGAATTG
104439431 AAAAAAAATTGAAATGAAAT-AATTG
1 AAAAAAAATT-AAATGAAATGAATTG
**
104439456 AAATTAAATTAAAT
1 AAAAAAAATTAAAT
104439470 TAAAAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 4 0.11
25 21 0.60
26 8 0.23
27 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (25 bp):
AAAAAAAATTAAATGAAATGAATTG
Found at i:104440879 original size:18 final size:18
Alignment explanation
Indices: 104440856--104440894 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
104440846 TCAGTCGACT
104440856 AAAGGGGAAAAGGGGTTG
1 AAAGGGGAAAAGGGGTTG
104440874 AAAGGGGAAAAGGGGTTG
1 AAAGGGGAAAAGGGGTTG
104440892 AAA
1 AAA
104440895 ATTTTTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (18 bp):
AAAGGGGAAAAGGGGTTG
Found at i:104446767 original size:15 final size:15
Alignment explanation
Indices: 104446732--104446783 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
104446722 TTAAGAATTT
*
104446732 TATTAAATTAT-ATA
1 TATTTAATTATAATA
104446746 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
104446760 TATTTAATAATAAT-
1 TATTTAATTATAATA
104446774 TATGTTAATT
1 TAT-TTAATT
104446784 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:104446809 original size:120 final size:120
Alignment explanation
Indices: 104446607--104446904 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
104446597 AATTATTTTA
* * *
104446607 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTTTATTT
*
104446671 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
104446727 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTT-TATTT
* *
104446791 TACAGTATTATATATTATGATTTGAGTAAATTCATATGAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
104446847 AATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
104446905 ATGATTAAAA
Statistics
Matches: 165, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 5 0.03
120 153 0.93
121 4 0.02
122 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:104446840 original size:66 final size:62
Alignment explanation
Indices: 104446645--104446843 Score: 166
Period size: 66 Copynumber: 3.2 Consensus size: 62
104446635 AAATATATTT
* *
104446645 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT--AATTTTATTTTA-AGTATTATATATTATGATTTGAGTAAATTCATAT-A
104446710 G
62 G
* * * **
104446711 AATATTAATTATTAAGAATTTTA--TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATATTT
1 AATATTAATTATT--TAATTTTATTTTAAGTATTATATATTATGATTTGAGTAAATTCATATAG
*
104446765 AATAATAATTATGTTAATTTATATTTTACAGTATTATATATTATGATTTGAGTAAATTCATATGA
1 AATATTAATTAT-TTAATTT-TATTTTA-AGTATTATATATTATGATTTGAGTAAATTCATAT-A
104446830 G
62 G
104446831 AATATTAATTATT
1 AATATTAATTATT
104446844 AAGAATTTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 11 0.11
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 4 0.04
65 5 0.05
66 30 0.29
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (62 bp):
AATATTAATTATTTAATTTTATTTTAAGTATTATATATTATGATTTGAGTAAATTCATATAG
Found at i:104447139 original size:16 final size:16
Alignment explanation
Indices: 104447118--104447185 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
104447108 GATTTGCTAT
104447118 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
104447134 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
104447150 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
104447166 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
104447182 TACA
1 TACA
104447186 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:104447683 original size:21 final size:21
Alignment explanation
Indices: 104447659--104447724 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 21
104447649 TGACATGTCA
*
104447659 ATATTTAATTAATTTTAATAT
1 ATATTTAAATAATTTTAATAT
104447680 ATATTTTAAATAA-TTTAA-AT
1 ATA-TTTAAATAATTTTAATAT
* *
104447700 A-ATTTAAAAAATTTTTAT-T
1 ATATTTAAATAATTTTAATAT
104447719 ATATTT
1 ATATTT
104447725 TTTATTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 8 0.21
19 7 0.18
20 7 0.18
21 8 0.21
22 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTTAAATAATTTTAATAT
Found at i:104447698 original size:9 final size:9
Alignment explanation
Indices: 104447661--104447713 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
104447651 ACATGTCAAT
*
104447661 ATTTAATTA
1 ATTTAAATA
104447670 ATTTTAATATA
1 A-TTTAA-ATA
104447681 TATTTTAAATA
1 -A-TTTAAATA
104447692 ATTTAAATA
1 ATTTAAATA
*
104447701 ATTTAAAAA
1 ATTTAAATA
104447710 ATTT
1 ATTT
104447714 TTATTATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 21 0.54
10 6 0.15
11 5 0.13
12 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTAAATA
Found at i:104448777 original size:16 final size:16
Alignment explanation
Indices: 104448753--104448784 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104448743 AATTAAGCTT
104448753 TTAACTTTATTTTTAA
1 TTAACTTTATTTTTAA
*
104448769 TTAATTTTATTTTTAA
1 TTAACTTTATTTTTAA
104448785 ATATCTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTAACTTTATTTTTAA
Found at i:104449045 original size:42 final size:41
Alignment explanation
Indices: 104448983--104449089 Score: 162
Period size: 42 Copynumber: 2.6 Consensus size: 41
104448973 TTTAAACTTT
*
104448983 TAAAGTAATACTCAGCCTACAAGTTTCACGCTTTTGCAGTC
1 TAAAGTAATACTCAGCCTACAAGTTTCACACTTTTGCAGTC
*
104449024 TAAA-TAATAAACTCAGCCTACAAGTTTCACACTTTTGCAGTT
1 TAAAGTAAT--ACTCAGCCTACAAGTTTCACACTTTTGCAGTC
*
104449066 TAAAGTAGTACTCAGCCTACAAGT
1 TAAAGTAATACTCAGCCTACAAGT
104449090 CTCTAAGAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
40 4 0.07
41 19 0.32
42 34 0.57
43 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (41 bp):
TAAAGTAATACTCAGCCTACAAGTTTCACACTTTTGCAGTC
Found at i:104457939 original size:15 final size:15
Alignment explanation
Indices: 104457916--104457951 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
104457906 CAAACCCTAA
*
104457916 ATATGTTGTTAATAT
1 ATATTTTGTTAATAT
104457931 ATATTTTGTTAATAT
1 ATATTTTGTTAATAT
104457946 ATATTT
1 ATATTT
104457952 ATCATAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (15 bp):
ATATTTTGTTAATAT
Found at i:104459223 original size:40 final size:41
Alignment explanation
Indices: 104459145--104459223 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
104459135 CACAACCTCA
* *
104459145 AACCCTTAAACCCTGAATCTTAAACCCAAAATTCAAACTCG
1 AACCCTTAAACCCTAAATCTTAAACCCAAAATCCAAACTCG
* *
104459186 AACCC-TAAACCTTAAATCTTGAACCC-AAATCCTAAACT
1 AACCCTTAAACCCTAAATCTTAAACCCAAAATCC-AAACT
104459224 TCGGGATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.15
40 23 0.70
41 5 0.15
ACGTcount: A:0.42, C:0.32, G:0.04, T:0.23
Consensus pattern (41 bp):
AACCCTTAAACCCTAAATCTTAAACCCAAAATCCAAACTCG
Found at i:104461677 original size:28 final size:26
Alignment explanation
Indices: 104461646--104461697 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
104461636 TATTACTAGA
*
104461646 TTTAATTTTTATATTTTAATTTAATTAT
1 TTTAATTCTTATATTTT--TTTAATTAT
*
104461674 TTTAGTTCTTATATTTTTTTAATT
1 TTTAATTCTTATATTTTTTTAATT
104461698 GGTCAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
28 15 0.68
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTAATTCTTATATTTTTTTAATTAT
Found at i:104461697 original size:31 final size:31
Alignment explanation
Indices: 104461659--104461741 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
104461649 AATTTTTATA
* *
104461659 TTTTAATTTAATTATTTTAGTTCTTATATTT
1 TTTTAATTTAATAATTTTAGTTCCTATATTT
**
104461690 TTTTAA-TTGGTCAA-TTTAGTTCCTATATTT
1 TTTTAATTTAAT-AATTTTAGTTCCTATATTT
*
104461720 TTTAAATTTTAA-AATTTTAGTT
1 TTTTAA-TTTAATAATTTTAGTT
104461742 TTGACCTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
30 25 0.61
31 14 0.34
32 2 0.05
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (31 bp):
TTTTAATTTAATAATTTTAGTTCCTATATTT
Found at i:104473106 original size:17 final size:17
Alignment explanation
Indices: 104473084--104473119 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
104473074 ATCACGTCAT
* *
104473084 AAAAATATAAAATTTAA
1 AAAAATAAAAAAATTAA
104473101 AAAAATAAAAAAATTAA
1 AAAAATAAAAAAATTAA
104473118 AA
1 AA
104473120 GGAATACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATAAAAAAATTAA
Found at i:104473271 original size:20 final size:19
Alignment explanation
Indices: 104473234--104473271 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
104473224 CTTTAAATTT
104473234 TAAAAATTTTATAAATATG
1 TAAAAATTTTATAAATATG
104473253 TAAAATATTATTA-AAATAT
1 TAAAA-ATT-TTATAAATAT
104473272 AAAAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 9 0.53
21 3 0.18
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAAATTTTATAAATATG
Found at i:104478731 original size:14 final size:14
Alignment explanation
Indices: 104478703--104478748 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
104478693 GATCATTTTT
104478703 TAATTA-AAAAT-A
1 TAATTATAAAATAA
104478715 TAATTATAAAATAA
1 TAATTATAAAATAA
** *
104478729 TAACAATAATATAA
1 TAATTATAAAATAA
104478743 TAATTA
1 TAATTA
104478749 ATTTATAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 16 0.59
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATTATAAAATAA
Found at i:104479582 original size:213 final size:213
Alignment explanation
Indices: 104479244--104479672 Score: 571
Period size: 213 Copynumber: 2.0 Consensus size: 213
104479234 ACCGAACTTG
* * *
104479244 ATCTTAAAGGCTGCTCAAATCTGTATAGTTTTCCAGAAATCATGGACACCATGGAGAGTTTGAGG
1 ATCTTAAAGGCTGCTCAAATCTGGAGAGTTTTCCAGAAATCATGGACACCATGGAGAGTTTGAAG
* ** * *
104479309 CATCTTTCTTTAAGTGGAACGGCTTTGAAAGAATTACCATCCTCAATTAAAAACCTTATTGGTCT
66 CAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACCATCCTCAATTAAAAACCTTATTGATCT
**
104479374 TAAGCAATTGAAATTGAAAAAATGTGAAAACCTTGTTTGTTTTCCTGAAAGCTTTTATAAATTGA
131 TAAGCAATTGAAATTGAAAAAATGTGAAAACCTTGTTTGCCTTCCTGAAAGCTTTTATAAATTGA
104479439 AATCTCTCAAGAGAA-TCA
196 AATCTCTCAAGA-AATTCA
* *
104479457 ATCTTAAAGGTTGCTCAAGAT-TGGAGA-TTTTCCCAGAAATCATGGACACTATGGAGA-TGTTG
1 ATCTTAAAGGCTGCTCAA-ATCTGGAGAGTTTT-CCAGAAATCATGGACACCATGGAGAGT-TTG
* * * * *
104479519 ATAG-AACTTGATTTAGGCGGAACGGGTTTGAAAGAATTACCATCCTCAATTGATAATCTTATTG
63 A-AGCAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACCATCCTCAATTAAAAACCTTATTG
* * * * *
104479583 ATCTTAATCAATTGAGATTGAAAAACTGTGAAAACCTTGTTTGCCTTCTTGACAGCTTTTATAAA
127 ATCTTAAGCAATTGAAATTGAAAAAATGTGAAAACCTTGTTTGCCTTCCTGAAAGCTTTTATAAA
*
104479648 TTGAAATCTCTTAAGAAATTCA
192 TTGAAATCTCTCAAGAAATTCA
104479670 ATC
1 ATC
104479673 AGGCTTAGGC
Statistics
Matches: 188, Mismatches: 23, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
212 7 0.04
213 178 0.95
214 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (213 bp):
ATCTTAAAGGCTGCTCAAATCTGGAGAGTTTTCCAGAAATCATGGACACCATGGAGAGTTTGAAG
CAACTTGATTTAAGCGGAACGGCTTTGAAAGAATTACCATCCTCAATTAAAAACCTTATTGATCT
TAAGCAATTGAAATTGAAAAAATGTGAAAACCTTGTTTGCCTTCCTGAAAGCTTTTATAAATTGA
AATCTCTCAAGAAATTCA
Found at i:104488550 original size:3 final size:3
Alignment explanation
Indices: 104488544--104488569 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
104488534 TCTTTAAAAA
104488544 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
104488570 AATTCCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:104489260 original size:9 final size:9
Alignment explanation
Indices: 104489242--104489276 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
104489232 CATATCCACA
*
104489242 TTTAACAAT
1 TTTAAAAAT
104489251 TTTAAAAAT
1 TTTAAAAAT
104489260 TTTAAAAAT
1 TTTAAAAAT
*
104489269 ATTAAAAA
1 TTTAAAAA
104489277 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:104491713 original size:18 final size:19
Alignment explanation
Indices: 104491675--104491729 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
104491665 ATAAGCATTA
104491675 ATAAAAATA-A-AAATATT
1 ATAAAAATATATAAATATT
104491692 -TAAAAATATATAAAT-TT
1 ATAAAAATATATAAATATT
*
104491709 ATAAAAAAATATTAAA-ATT
1 ATAAAAATATA-TAAATATT
104491728 AT
1 AT
104491730 TTAACATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.25
17 3 0.09
18 13 0.41
19 8 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAAATATATAAATATT
Found at i:104491997 original size:6 final size:6
Alignment explanation
Indices: 104491986--104492011 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
104491976 GGATCATTTC
104491986 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
104492012 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:104492068 original size:15 final size:17
Alignment explanation
Indices: 104492048--104492084 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
104492038 AATATTTTAT
*
104492048 TTATAAAAGA-AAT-AA
1 TTATAAAAAACAATCAA
104492063 TTATAAAAAACAATCAA
1 TTATAAAAAACAATCAA
104492080 TTATA
1 TTATA
104492085 TATTTGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 3 0.16
17 7 0.37
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (17 bp):
TTATAAAAAACAATCAA
Found at i:104493590 original size:17 final size:19
Alignment explanation
Indices: 104493570--104493604 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
104493560 AATAATAGAT
104493570 TTATTAAA-CT-AATTAAA
1 TTATTAAATCTAAATTAAA
104493587 TTATTAAATCTAAATTAA
1 TTATTAAATCTAAATTAA
104493605 CATAAAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATTAAATCTAAATTAAA
Found at i:104499420 original size:20 final size:20
Alignment explanation
Indices: 104499374--104499420 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
104499364 ATACATGTAT
104499374 TTAATTATAAAAGATATTTA
1 TTAATTATAAAAGATATTTA
104499394 -TAGATTATAAAAGATATTTA
1 TTA-ATTATAAAAGATATTTA
104499414 TTAATTA
1 TTAATTA
104499421 AATAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (20 bp):
TTAATTATAAAAGATATTTA
Found at i:104502494 original size:39 final size:39
Alignment explanation
Indices: 104502451--104502528 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
104502441 AATAATTATG
*
104502451 TATTTATGAAGTATCATTTGTTTATTTGAGATAATCAAT
1 TATTTATGAAGTATCATCTGTTTATTTGAGATAATCAAT
*
104502490 TATTTATGAAGTATCCTCTGTTTATTTGAGATAATCAAT
1 TATTTATGAAGTATCATCTGTTTATTTGAGATAATCAAT
104502529 GTGATTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (39 bp):
TATTTATGAAGTATCATCTGTTTATTTGAGATAATCAAT
Found at i:104505189 original size:15 final size:15
Alignment explanation
Indices: 104505153--104505191 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
104505143 CACAATTTGG
*
104505153 TTCTCAATTTTCTTG
1 TTCTCAATTTTCTTA
*
104505168 TTCTCAATTTTTTTA
1 TTCTCAATTTTCTTA
*
104505183 TTTTCAATT
1 TTCTCAATT
104505192 GCCAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.64
Consensus pattern (15 bp):
TTCTCAATTTTCTTA
Found at i:104505441 original size:52 final size:51
Alignment explanation
Indices: 104505349--104505453 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 51
104505339 TTACAAATGG
*
104505349 TAAGAAAATATTATATAATTATTTATTTTTAATCTATTAATTATTATGATGT
1 TAAGAAAATATTATATAATTATTTATTTTTAA-CAATTAATTATTATGATGT
* * *
104505401 TAAGAAAATATTATCTAATTATTTAATTTTTAA-AAGTTAATTGTTATGCTGT
1 TAAGAAAATATTATATAATTATTT-ATTTTTAACAA-TTAATTATTATGATGT
104505453 T
1 T
104505454 TAGATTAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
51 1 0.02
52 38 0.81
53 8 0.17
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (51 bp):
TAAGAAAATATTATATAATTATTTATTTTTAACAATTAATTATTATGATGT
Found at i:104510080 original size:50 final size:51
Alignment explanation
Indices: 104510003--104510116 Score: 185
Period size: 50 Copynumber: 2.3 Consensus size: 51
104509993 GACCATGGCA
* * *
104510003 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
104510054 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
104510104 ACAAGTGAAAAGT
1 ACAAGTGATAAGT
104510117 GGTACTTTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.81
51 11 0.19
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:104510145 original size:31 final size:31
Alignment explanation
Indices: 104510107--104510286 Score: 229
Period size: 31 Copynumber: 5.8 Consensus size: 31
104510097 ACAAATGACA
104510107 AGTGAAAAGTGGTA-CTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGC-TTCGGCTACCTGATC
**
104510138 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
104510169 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
104510200 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * ** *
104510231 AGTGAAAAATGGTAGCTCCAACTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
104510262 AGT-AAATAGTGGTAGCTTCGGCTAC
1 AGTGAAA-AGTGGTAGCTTCGGCTAC
104510287 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
30 3 0.02
31 130 0.97
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:104510374 original size:47 final size:46
Alignment explanation
Indices: 104510304--104510427 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
104510294 AAGTGATTTC
* *
104510304 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
** * *
104510350 CTGTATAAGACCATATCTGGGATATGGCATCATTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
104510397 CGTGTAAGACCATAGCTGGGATATGACATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
104510428 ATAAATGAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:104510464 original size:42 final size:43
Alignment explanation
Indices: 104510398--104510480 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
104510388 TATGTGATTC
* *
104510398 GTGTAAGACCATAGCTGGGATATGACATCGA-TAAATGAAGAT
1 GTGTAAGACCATAGCTGGAATATGACATCGAGTAAACGAAGAT
*
104510440 GTGTAAGACCATAG-TTGAATTATGACATCGAGTAAACGAAG
1 GTGTAAGACCATAGCTGGAA-TATGACATCGAGTAAACGAAG
104510481 TACTCAATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.08
42 25 0.69
43 8 0.22
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGAATATGACATCGAGTAAACGAAGAT
Found at i:104513598 original size:107 final size:108
Alignment explanation
Indices: 104513475--104513690 Score: 416
Period size: 107 Copynumber: 2.0 Consensus size: 108
104513465 TAAACAAAAA
104513475 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
104513540 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
*
104513582 ATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
104513647 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
104513690 A
1 A
104513691 CGTGTTTTTT
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 94 0.88
108 13 0.12
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:104522601 original size:25 final size:27
Alignment explanation
Indices: 104522564--104522616 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
104522554 TCAAACATGC
104522564 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
104522590 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
104522616 A
1 A
104522617 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:104524135 original size:32 final size:32
Alignment explanation
Indices: 104524098--104524162 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
104524088 AATGCTTACC
104524098 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
104524130 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
104524162 A
1 A
104524163 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:104529214 original size:61 final size:61
Alignment explanation
Indices: 104529147--104529273 Score: 254
Period size: 61 Copynumber: 2.1 Consensus size: 61
104529137 TAAAAGGGAC
104529147 AAAATTAATTTGACTTCTAGTACAATAACCTCTATGATACTTTTACCATAAAATTGAGGAA
1 AAAATTAATTTGACTTCTAGTACAATAACCTCTATGATACTTTTACCATAAAATTGAGGAA
104529208 AAAATTAATTTGACTTCTAGTACAATAACCTCTATGATACTTTTACCATAAAATTGAGGAA
1 AAAATTAATTTGACTTCTAGTACAATAACCTCTATGATACTTTTACCATAAAATTGAGGAA
104529269 AAAAT
1 AAAAT
104529274 CTTGTGAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (61 bp):
AAAATTAATTTGACTTCTAGTACAATAACCTCTATGATACTTTTACCATAAAATTGAGGAA
Found at i:104529509 original size:20 final size:18
Alignment explanation
Indices: 104529486--104529524 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
104529476 AAATTTTCTT
104529486 ATAATTTGTATACTTTTTAA
1 ATAATTT-TA-ACTTTTTAA
*
104529506 ATAATTTTAATTTTTTAA
1 ATAATTTTAACTTTTTAA
104529524 A
1 A
104529525 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
ATAATTTTAACTTTTTAA
Found at i:104530235 original size:20 final size:20
Alignment explanation
Indices: 104530210--104530258 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
104530200 AGGGACAATT
104530210 AAATC-AATTTGATTAAAATC
1 AAATCAAATTT-ATTAAAATC
*
104530230 AAATCAAATTTATTAGAATC
1 AAATCAAATTTATTAAAATC
*
104530250 AAATAAAAT
1 AAATCAAAT
104530259 AATGATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATCAAATTTATTAAAATC
Found at i:104534379 original size:10 final size:10
Alignment explanation
Indices: 104534349--104534402 Score: 53
Period size: 9 Copynumber: 5.7 Consensus size: 10
104534339 AGTTTTATAC
104534349 TTTTT-AATA
1 TTTTTAAATA
*
104534358 ATTTT-AAT-
1 TTTTTAAATA
104534366 TTTTTAAATA
1 TTTTTAAATA
104534376 TTTTTAAA-A
1 TTTTTAAATA
*
104534385 TTTTTAAAAA
1 TTTTTAAATA
104534395 TTATTTAA
1 TT-TTTAA
104534403 TTGTTGACGT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 4 0.10
9 19 0.49
10 11 0.28
11 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:104539852 original size:213 final size:213
Alignment explanation
Indices: 104539543--104540533 Score: 1508
Period size: 213 Copynumber: 4.7 Consensus size: 213
104539533 ATCTGTGTAG
* * * * * *** ****
104539543 TTTTCCAGAAATCTTGGACACTATGGAAAGGTTGAGGAATCTTGATTTAAATGGAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCAAAACGGCTTTGA
* * * * * *
104539608 AGAAATTACCATCCTCAATTGACAATCTTATTGGTCTTCAGAATTTGATATTGTACAATTGTGAA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAAATGTGAA
*
104539673 AACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTGAGAG-ATTCA-CAATTCAA
131 AACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTGAGAGTATTCATC--TTGAA
104539736 GGTTGCTCGAGATTGGAGAT
194 GGTTGCTCGAGATTGGAGAT
* * ** *
104539756 TTTTCCCGAAATCTTAGAGACCATGGAGAGGTTGA-CGAGTCTTAATTTAAGCAAAACGGCTTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGC-TTTCTTGATTTAAGCAAAACGGCTTTG
*
104539820 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAACTGTGA
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAAATGTGA
* * *
104539885 AAACCTTGTTTGCCTTCCTGGCAGCCTTTATAAATTGAAATCTCTTGAGAGTTTTGATCTTGAAG
130 AAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTGAGAGTATTCATCTTGAAG
104539950 GTTGCTCGAGATTGGAGAT
195 GTTGCTCGAGATTGGAGAT
*
104539969 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCAGAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCAAAACGGCTTTGA
* *
104540034 AGGAATTACCATCCTCAATTGACAATCTTATTGTTCTTTAGGATTTGAGATTGAACAAATGTGAA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAAATGTGAA
* *
104540099 AACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTGAGAGTTTTGATCTTGAAGG
131 AACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTGAGAGTATTCATCTTGAAGG
104540164 TTGCTCGAGATTGGAGAT
196 TTGCTCGAGATTGGAGAT
* *
104540182 TTTTCCAAAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCGAAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCAAAACGGCTTTGA
104540247 AGGAATTACCATCCTCAATTGACAATCTTATT-GTCCTTGAGGATTTGAGATTGAACAAATGTGA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGT-CTTGAGGATTTGAGATTGAACAAATGTGA
* * *
104540311 AAACCTTGTTTGCCTTCCTGGCAGCTTTTATAAATTGAAATCTCTTGAGAG-ATTCATACTTAAA
130 AAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTGAGAGTATTCAT-CTTGAA
* *
104540375 GGCTGCTCGAGATTGGAAAT
194 GGTTGCTCGAGATTGGAGAT
104540395 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCAAAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCAAAACGGCTTTGA
* * *
104540460 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTAAGGATTTGAGATTGAACAACTGTGAG
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAAATGTGAA
104540525 AA-CTTGTTT
131 AACCTTGTTT
104540534 ACTGCCATTG
Statistics
Matches: 722, Mismatches: 49, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
212 12 0.02
213 703 0.97
214 6 0.01
215 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (213 bp):
TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTAAGCTTTCTTGATTTAAGCAAAACGGCTTTGA
AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAAATGTGAA
AACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTGAGAGTATTCATCTTGAAGG
TTGCTCGAGATTGGAGAT
Found at i:104542106 original size:20 final size:22
Alignment explanation
Indices: 104542073--104542117 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
104542063 TTTTAAAAAT
**
104542073 AAAATATGTAAAATATTATTAA
1 AAAATATGTAAAATAAAATTAA
104542095 AAAATAT-T-AAATAAAATTAA
1 AAAATATGTAAAATAAAATTAA
104542115 AAA
1 AAA
104542118 GTTACAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATATGTAAAATAAAATTAA
Found at i:104542133 original size:16 final size:15
Alignment explanation
Indices: 104542107--104542146 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
104542097 AATATTAAAT
104542107 AAAATTAAAAAGTTACA
1 AAAATTAAAAA-TTA-A
104542124 AAAATTAAAAATTAA
1 AAAATTAAAAATTAA
104542139 AAATATTA
1 AAA-ATTA
104542147 TACTATGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 7 0.32
17 11 0.50
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAATTAAAAATTAA
Found at i:104542975 original size:28 final size:28
Alignment explanation
Indices: 104542943--104543030 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
104542933 AAAAAAGTCG
*
104542943 TAAAAATATAAAAAATTGTAAAATTTTA
1 TAAAAATATAAAAAATTATAAAATTTTA
* * *
104542971 TAAAAATCATAAAAAAATATAATA-TATA
1 TAAAAAT-ATAAAAAATTATAAAATTTTA
* *
104542999 TAGAAATATAACAAATTAT-AAATTTTGA
1 TAAAAATATAAAAAATTATAAAATTTT-A
104543027 TAAA
1 TAAA
104543031 GTTGTAAGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.04
27 12 0.26
28 20 0.43
29 13 0.28
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (28 bp):
TAAAAATATAAAAAATTATAAAATTTTA
Found at i:104543412 original size:90 final size:90
Alignment explanation
Indices: 104543296--104543493 Score: 204
Period size: 90 Copynumber: 2.2 Consensus size: 90
104543286 AATTTTACAA
* * * * * * * *
104543296 TTTTTTT-ATAAATTTTGAGGGTCTTTTTTATGCATTTTAAAAATTTAAGTACCTAATTGAGTG-
1 TTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTAAAAATTCAAATACCTAATTGAGTGC
* * *
104543359 AAAAAAAAGTATGCGCTTAATTGA-TT
66 AAAAAAAAG-AGGAGATTAATT-ACTT
* * * *
104543385 TTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTGAAAATTCAAATGCTTATTTGAGTGC
1 TTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTAAAAATTCAAATACCTAATTGAGTGC
*
104543450 AAAAAAGAGAGGAGATTAATTACTT
66 AAAAAAAAGAGGAGATTAATTACTT
*
104543475 TTTTTCTGAAAAAGTTTGA
1 TTTTTTTGAAAAAGTTTGA
104543494 GGTTTTTTAC
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
89 8 0.09
90 73 0.82
91 8 0.09
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (90 bp):
TTTTTTTGAAAAAGTTTGAAGGCCTTTTTGATACATTTTAAAAATTCAAATACCTAATTGAGTGC
AAAAAAAAGAGGAGATTAATTACTT
Found at i:104545608 original size:39 final size:37
Alignment explanation
Indices: 104545554--104545682 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 37
104545544 CGTTTAAACA
*
104545554 AAAAACGCCGA-TATAGTTCAGCATTAGCGGCGTTTCTT
1 AAAAACGCC-ACTATAGATCAGCATTAGCGGCGTTT-TT
*
104545592 AACAAACGCCACTATAGATAAGACATTAGCGGCGTTTTT
1 AA-AAACGCCACTATAGATCAG-CATTAGCGGCGTTTTT
104545631 ATAAAAGCGCCACTATAGATCGAGCATTAGCGGCGCTTTTAT
1 A-AAAA-CGCCACTATAGATC-AGCATTAGCGGCG-TTTT-T
104545673 AAAAAACGCC
1 -AAAAACGCC
104545683 GCAAATGTCC
Statistics
Matches: 79, Mismatches: 3, Indels: 15
0.81 0.03 0.15
Matches are distributed among these distances:
38 3 0.04
39 21 0.27
40 39 0.49
41 10 0.13
42 5 0.06
43 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (37 bp):
AAAAACGCCACTATAGATCAGCATTAGCGGCGTTTTT
Found at i:104546008 original size:28 final size:29
Alignment explanation
Indices: 104545963--104546017 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
104545953 CAAAAAGTAT
*
104545963 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
104545991 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
104546018 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:104546399 original size:7 final size:7
Alignment explanation
Indices: 104546389--104546477 Score: 52
Period size: 7 Copynumber: 12.3 Consensus size: 7
104546379 AGTTGGTAAA
104546389 GGTTAAG
1 GGTTAAG
*
104546396 GGTTATG
1 GGTTAAG
* *
104546403 GATTATG
1 GGTTAAG
104546410 GGTTTAAG
1 GG-TTAAG
*
104546418 GATTAAG
1 GGTTAAG
* *
104546425 GGTCATG
1 GGTTAAG
*
104546432 GGTTATG
1 GGTTAAG
*
104546439 GGTTTAAT
1 GG-TTAAG
104546447 GGTTAAAG
1 GGTT-AAG
* *
104546455 GGATATG
1 GGTTAAG
*
104546462 GGTTAGG
1 GGTTAAG
104546469 GGTTAAG
1 GGTTAAG
104546476 GG
1 GG
104546478 ATTTAATTAA
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
7 47 0.76
8 15 0.24
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (7 bp):
GGTTAAG
Found at i:104546432 original size:29 final size:28
Alignment explanation
Indices: 104546387--104546452 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
104546377 TTAGTTGGTA
*
104546387 AAGGTTAAGGGTTATGGATTATGGGTTT
1 AAGGTTAAGGGTCATGGATTATGGGTTT
*
104546415 AAGGATTAAGGGTCATGGGTTATGGGTTT
1 AAGG-TTAAGGGTCATGGATTATGGGTTT
104546444 AATGGTTAA
1 AA-GGTTAA
104546453 AGGGATATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 4 0.12
29 28 0.82
30 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.35, T:0.36
Consensus pattern (28 bp):
AAGGTTAAGGGTCATGGATTATGGGTTT
Found at i:104546941 original size:26 final size:27
Alignment explanation
Indices: 104546868--104546942 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
104546858 AATAATTTAA
*
104546868 AATTTTAAAGATTTCAAA-TTTAGAAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
104546894 AAATTTCAAGATTTCAAATTTTA-AAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
104546920 AATTTTCAATATTTCAAATTTTA
1 AATTTTCAAGATTTCAAATTTTA
104546943 TCTAATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (27 bp):
AATTTTCAAGATTTCAAATTTTAGAAT
Found at i:104547562 original size:14 final size:13
Alignment explanation
Indices: 104547525--104547558 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
104547515 CCTTAAGTGT
104547525 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
104547538 CTTTCCCCTAAAA
1 TTTTCCCCTAAAA
104547551 TTTTCCCC
1 TTTTCCCC
104547559 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:104547632 original size:25 final size:26
Alignment explanation
Indices: 104547603--104547654 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
104547593 CCATTTCTCC
104547603 ATCGCCG-GACCCGACCATCTGTTGT
1 ATCGCCGCGACCCGACCATCTGTTGT
*
104547628 ATCGCCGTCGACTCGACCATCTGTTGT
1 ATCGCCG-CGACCCGACCATCTGTTGT
104547655 GTCACATTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.29
27 17 0.71
ACGTcount: A:0.15, C:0.35, G:0.23, T:0.27
Consensus pattern (26 bp):
ATCGCCGCGACCCGACCATCTGTTGT
Found at i:104551131 original size:240 final size:241
Alignment explanation
Indices: 104550699--104551792 Score: 2030
Period size: 240 Copynumber: 4.6 Consensus size: 241
104550689 GCTCCATCAG
* *
104550699 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGCTTACCTTATATCGAG
1 ATTTTAAA-ATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
104550764 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
65 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
104550829 AAAAATACTTGAAAAAAATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGCTT
130 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
104550894 GCTTGTCCATTAAAATTAC-ACAATATCTGACCTTCTCTCCAACCTT
195 GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
104550940 ATTTTAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGC
1 ATTTTAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGC
104551005 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
66 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
104551070 AAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
131 AAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
104551135 CTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
196 CTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
104551181 A-TTTAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGC
1 ATTTTAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGC
104551245 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
66 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
*
104551310 AAAATACTTGAAAAAAATTTCTATCGAGCTTATTTACTATTGAATATTTATTACCATGTAGCTTG
131 AAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
*
104551375 CTTGTCCATTAAAATTAGAACAATATCTGACCTTCTCTCCAACCTT
196 CTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
104551421 ATTTTAAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTT-AAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
104551486 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAATTC
65 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
104551550 AAAAATACTTG-AAAAAATTTCTATCGAGCTCATTTACTATTGAATA-TTATTA-CATGTAGCTT
130 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
104551612 GCTTGTCCATTAAAATTACAACAATAT-TGACCTTCTCTCCAACCTT
195 GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
104551658 ATTTTAAAATTTT-AAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCC-T-TATCGAGC
1 ATTTTAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGC
*
104551720 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGT-TGATGAATCTTAAAAAAATTT
66 TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAAATTC
104551784 AAAAATACT
130 AAAAATACT
104551793 GATATTGATC
Statistics
Matches: 840, Mismatches: 8, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
232 11 0.01
233 51 0.06
234 17 0.02
235 40 0.05
236 8 0.01
237 24 0.03
238 36 0.04
239 6 0.01
240 474 0.56
241 58 0.07
242 115 0.14
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (241 bp):
ATTTTAAAATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGC
TGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
AAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
CTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
Found at i:104551830 original size:9 final size:9
Alignment explanation
Indices: 104551816--104551931 Score: 99
Period size: 9 Copynumber: 12.3 Consensus size: 9
104551806 CTTAAAGAAA
104551816 TTACATAAC
1 TTACATAAC
104551825 TTACATAAC
1 TTACATAAC
* *
104551834 TCATATAAC
1 TTACATAAC
*
104551843 TTACATAAT
1 TTACATAAC
104551852 TTA-ATAACAAC
1 TTACAT---AAC
104551863 TTACATAAC
1 TTACATAAC
*
104551872 TCACATAAC
1 TTACATAAC
*
104551881 TTACATAAT
1 TTACATAAC
*
104551890 TTACATATC
1 TTACATAAC
*
104551899 TCACATAAC
1 TTACATAAC
*
104551908 GTACATAACAAC
1 TTACAT---AAC
104551920 TTACATAAC
1 TTACATAAC
104551929 TTA
1 TTA
104551932 ACTAATACAT
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
8 2 0.02
9 67 0.80
11 5 0.06
12 10 0.12
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:104558014 original size:85 final size:85
Alignment explanation
Indices: 104557849--104558051 Score: 302
Period size: 85 Copynumber: 2.4 Consensus size: 85
104557839 AGAAAAAGCG
*
104557849 CCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAGCCCTGACCTTTA
1 CCGCTAAAAGCCCTGACCTTTAGCGGCG-TTTTCCAACAAACGCCGCTAAAAGCCATGACCTTTA
104557914 GCGGCATTTTTCCCACAAACA
65 GCGGCATTTTTCCCACAAACA
* * **
104557935 CCGCTAAAAGCCATGAGCTTTAGCGGCGTGTTTCCCAA-AAACG-TTCTAAAAGCCATGACCTTT
1 CCGCTAAAAGCCCTGACCTTTAGCGGCGT-TTT-CCAACAAACGCCGCTAAAAGCCATGACCTTT
* *
104557998 AGCGGCGTTTTTCCCACAAACG
64 AGCGGCATTTTTCCCACAAACA
104558020 CCGCTAAAAGCCCTGACCTTTAGCGGCGTTTT
1 CCGCTAAAAGCCCTGACCTTTAGCGGCGTTTT
104558052 TTTTCCAATA
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
84 3 0.03
85 65 0.61
86 34 0.32
87 4 0.04
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (85 bp):
CCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTCCAACAAACGCCGCTAAAAGCCATGACCTTTAG
CGGCATTTTTCCCACAAACA
Found at i:104558052 original size:43 final size:43
Alignment explanation
Indices: 104557847--104558052 Score: 306
Period size: 43 Copynumber: 4.8 Consensus size: 43
104557837 GTAGAAAAAG
* *
104557847 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCAACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCCACAAA
*
104557890 CGCCGCTAAAAGCCCTGACCTTTAGCGGCATTTTTCCCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCCACAAA
* * * * *
104557933 CACCGCTAAAAGCCATGAGCTTTAGCGGCGTGTTTCCCAAAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCCACAAA
** *
104557976 CG-TTCTAAAAGCCATGACCTTTAGCGGCGTTTTTCCCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCCACAAA
104558018 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTT
104558053 TTTCCAATAA
Statistics
Matches: 144, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 37 0.26
43 107 0.74
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCCTGACCTTTAGCGGCGTTTTTCCCACAAA
Found at i:104570462 original size:22 final size:22
Alignment explanation
Indices: 104570420--104570462 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
104570410 AAAATAGACT
**
104570420 TTTAGCGGCGTTTTTTTTAGCC
1 TTTAGCGGCGTTTTTACTAGCC
104570442 TTTAGCGGCGTTTTTACTAGC
1 TTTAGCGGCGTTTTTACTAGC
104570463 GCCGCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (22 bp):
TTTAGCGGCGTTTTTACTAGCC
Found at i:104571416 original size:23 final size:23
Alignment explanation
Indices: 104571385--104571881 Score: 383
Period size: 23 Copynumber: 21.7 Consensus size: 23
104571375 AAATAAGTAC
*
104571385 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104571408 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
104571431 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104571454 TCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
104571478 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
104571501 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104571523 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * *
104571545 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104571568 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
104571591 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104571614 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104571637 TTAAACTCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104571660 TCAAACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTGCAGCA-T
*
104571684 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
104571706 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
104571730 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
** *
104571752 TTATGCACCTT-AA-TTACAGCGA-
1 TTAAACA-CTTCAATTTGCAGC-AT
* * * *
104571774 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104571797 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
104571820 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
104571843 TTGAGCACTTCAATTTAC-GACAT
1 TTAAACACTTCAATTTGCAG-CAT
*
104571866 TTAAACACTTCGATTT
1 TTAAACACTTCAATTT
104571882 ACGATTTACA
Statistics
Matches: 376, Mismatches: 75, Indels: 46
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.00
21 1 0.00
22 38 0.10
23 325 0.86
24 10 0.03
25 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAGCAT
Found at i:104571464 original size:46 final size:45
Alignment explanation
Indices: 104571385--104573755 Score: 740
Period size: 46 Copynumber: 51.1 Consensus size: 45
104571375 AAATAAGTAC
* *
104571385 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* *
104571431 TTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCATT-AAACACTTCAATTTACAGCA-T
* * *
104571478 TT-AACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
* * * * * * *
104571523 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
104571568 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104571614 TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104571660 TCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * *
104571706 TTAAGCACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
** * * * * *
104571752 TTATGCACCTT-AA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACA-CTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
104571797 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104571843 TTGAGCACTTCAATTTAC-GACATTTAAACACTTCGATTTACGATTTACAGCAT
1 TTAAACACTTCAATTTGCAG-CA-TTAAACACTTC-----A--ATTTACAGCAT
** * * * *
104571896 CCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * * * * *
104571942 TTATACACTTCAA-TTACAGTGATAAAACA-TCTCAATGTCCTA-CCT
1 TTAAACACTTCAATTTGCAG-CATTAAACACT-TCAATTTAC-AGCAT
* ** ** * * **
104571987 TCCCTGAAACCTATCTTGAACCTGC-G-A-GGAAC-GTGGCGAAGATAC--C-T
1 T---T-AAA-C-A-CTTCAATTTGCAGCATTAAACACT-TC-AATTTACAGCAT
* * ** * * * * * *
104572034 CTATACAC--CGGTGATGGAG-ATGTTAGC-CTCATCTAATTGAAACCAACAGCT
1 TTAAACACTTCAAT-TTGCAGCAT-TAAACACT--TC-AATT--TA-CAGCA--T
** * * * * * ** * *
104572085 AGAAACAC--AAATAAT-CACACAAGTTAAAAAAC-CCAAAATA-AGTAC
1 TTAAACACTTCAAT-TTGCA-GC-A-TT-AAACACTTCAATTTACAGCAT
* *
104572130 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* *
104572176 TTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCATT-AAACACTTCAATTTACAGCA-T
* * *
104572223 TT-AACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
* * * * * * *
104572268 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
104572313 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104572359 TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104572405 TCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * *
104572451 TTAAGCACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
** * * * * *
104572497 TTATGCACCTT-AA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACA-CTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
104572542 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104572588 TTGAGCACTTCAATTTAC-GACATTTAAACACTTCGATTTACGATTTACAGCAT
1 TTAAACACTTCAATTTGCAG-CA-TTAAACACTTC-----A--ATTTACAGCAT
** * * * *
104572641 CCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * * * * *
104572687 TTATACACTTCAA-TTACAGTGATAAAACA-TCTCAATGTCCTA-CCT
1 TTAAACACTTCAATTTGCAG-CATTAAACACT-TCAATTTAC-AGCAT
* ** ** * * **
104572732 TCCCTGAAACCTATCTTGAACCTGC-G-A-GGAAC-GTGGCGAAGATAC--C-T
1 T---T-AAA-C-A-CTTCAATTTGCAGCATTAAACACT-TC-AATTTACAGCAT
* * ** * * * * * *
104572779 CTATACAC--CGGTGATGGAG-ATGTTAGC-CTCATCTAATTGAAACCAACAGCT
1 TTAAACACTTCAAT-TTGCAGCAT-TAAACACT--TC-AATT--TA-CAGCA--T
** * * * * * ** * *
104572830 AGAAACAC--AAATAAT-CACACAAGTTAAAAAAC-CCAAAATA-AGTAC
1 TTAAACACTTCAAT-TTGCA-GC-A-TT-AAACACTTCAATTTACAGCAT
* *
104572875 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* *
104572921 TTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCATT-AAACACTTCAATTTACAGCA-T
* * *
104572968 TT-AACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
* * * * * * *
104573013 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
104573058 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104573104 TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104573150 TCAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * *
104573196 TTAAGCACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
** * * * * *
104573242 TTATGCACCTT-AA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACA-CTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
104573287 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104573333 TTGAGCACTTCAATTTAC-GACATTTAAACACTTCGATTTACGATTTACAGCAT
1 TTAAACACTTCAATTTGCAG-CA-TTAAACACTTC-----A--ATTTACAGCAT
** * * * *
104573386 CCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * * * * *
104573432 TTATACACTTCAA-TTACAGTGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAG-CATTAAACACT-TCAATTTACAGCAT
* * * *
104573477 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* *
104573523 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
104573569 TCAAACACTTCAATTTGCAGCAATTTAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGC-ATTAAACACTTCAATTTACAGCAT
* * * * *
104573615 TAAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * * * *
104573661 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
104573706 CTAACACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAA-ACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
104573753 TTA
1 TTA
104573756 CTACTAATAT
Statistics
Matches: 1702, Mismatches: 461, Indels: 323
0.68 0.19 0.13
Matches are distributed among these distances:
39 4 0.00
40 6 0.00
41 2 0.00
42 8 0.00
43 10 0.01
44 20 0.01
45 333 0.20
46 1050 0.62
47 72 0.04
48 10 0.01
49 16 0.01
50 14 0.01
51 27 0.02
52 14 0.01
53 107 0.06
54 7 0.00
55 2 0.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.30
Consensus pattern (45 bp):
TTAAACACTTCAATTTGCAGCATTAAACACTTCAATTTACAGCAT
Found at i:104571791 original size:229 final size:228
Alignment explanation
Indices: 104571385--104571956 Score: 860
Period size: 229 Copynumber: 2.5 Consensus size: 228
104571375 AAATAAGTAC
* * * * * *
104571385 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCA
1 TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCA
* * *
104571450 GCA-TTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAAT
66 GCACTT-TAACACTTCAATTTACAGCA-TTTAACACTTCAATTTGCAGCACTTTAACATCTCAAT
104571514 TAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTC
129 TAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTC
104571579 AATTTGCAGTACTTAAACACTTCAATTTGCAACAT
194 AATTTGCAGTACTTAAACACTTCAATTTGCAACAT
104571614 TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCA
1 TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCA
*
104571679 ACACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATT
66 GCACTTTAACACTTCAATTTACAGCATTTAA-CACTTCAATTTGCAGCACTTTAACATCTCAATT
* *
104571744 AACAACATTTATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCA
130 AACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCA
104571809 ATTTGCAGTACTTAAACACTTCAATTTGCAACAT
195 ATTTGCAGTACTTAAACACTTCAATTTGCAACAT
* * *
104571843 TTGAGCACTTCAATTTAC-GACATTTAAACACTTCGATTTACGATTTACAGCATCCAAACACTTC
1 TTAAGCACTTCAATTTACAG-CATTT-AA-AC-TC---TT-CAATTTACAGCATTCAAACACTTC
* * *
104571907 AATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACACTTCAATT
58 AATTTGCAGCACTTTAACACTTCAATTTACAGCATTTA-ACACTTCAATT
104571957 ACAGTGATAA
Statistics
Matches: 313, Mismatches: 19, Indels: 15
0.90 0.05 0.04
Matches are distributed among these distances:
228 6 0.02
229 230 0.73
230 4 0.01
231 2 0.01
232 2 0.01
235 2 0.01
236 66 0.21
237 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (228 bp):
TTAAGCACTTCAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCA
GCACTTTAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAA
TTTGCAGTACTTAAACACTTCAATTTGCAACAT
Found at i:104571925 original size:23 final size:22
Alignment explanation
Indices: 104571899--104571957 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
104571889 ACAGCATCCA
** *
104571899 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTAACAACA-TTT
*
104571922 AACACCTCAATTAACAACATTT
1 AACACTTCAATTAACAACATTT
104571944 ATACACTTCAATTA
1 A-ACACTTCAATTA
104571958 CAGTGATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.32
Consensus pattern (22 bp):
AACACTTCAATTAACAACATTT
Found at i:104572161 original size:23 final size:23
Alignment explanation
Indices: 104572130--104572626 Score: 383
Period size: 23 Copynumber: 21.7 Consensus size: 23
104572120 AAATAAGTAC
*
104572130 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104572153 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
104572176 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104572199 TCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
104572223 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
104572246 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104572268 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * *
104572290 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104572313 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
104572336 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104572359 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104572382 TTAAACTCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104572405 TCAAACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTGCAGCA-T
*
104572429 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
104572451 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
104572475 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
** *
104572497 TTATGCACCTT-AA-TTACAGCGA-
1 TTAAACA-CTTCAATTTGCAGC-AT
* * * *
104572519 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104572542 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
104572565 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
104572588 TTGAGCACTTCAATTTAC-GACAT
1 TTAAACACTTCAATTTGCAG-CAT
*
104572611 TTAAACACTTCGATTT
1 TTAAACACTTCAATTT
104572627 ACGATTTACA
Statistics
Matches: 376, Mismatches: 75, Indels: 46
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.00
21 1 0.00
22 38 0.10
23 325 0.86
24 10 0.03
25 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAGCAT
Found at i:104572664 original size:745 final size:745
Alignment explanation
Indices: 104571234--104573471 Score: 4476
Period size: 745 Copynumber: 3.0 Consensus size: 745
104571224 ATTAGCATTT
104571234 TCCTACCTTCCCTGAAACCTATCTTGAACCTGCGAGGAACGTGGCGAAGATACCTCTATACACCG
1 TCCTACCTTCCCTGAAACCTATCTTGAACCTGCGAGGAACGTGGCGAAGATACCTCTATACACCG
104571299 GTGATGGAGATGTTAGCCTCATCTAATTGAAACCAACAGCTAGAAACACAAATAATCACACAAGT
66 GTGATGGAGATGTTAGCCTCATCTAATTGAAACCAACAGCTAGAAACACAAATAATCACACAAGT
104571364 TAAAAAACCCAAAATAAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
131 TAAAAAACCCAAAATAAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
104571429 ATTTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTG
196 ATTTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTG
104571494 CAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT
261 CAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT
104571559 GTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTT
326 GTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTT
104571624 CAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCAACACTTTAAC
391 CAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCAACACTTTAAC
104571689 ACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTT
456 ACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTT
104571754 ATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTA
521 ATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTA
104571819 CTTAAACACTTCAATTTGCAACATTTGAGCACTTCAATTTACGACATTTAAACACTTCGATTTAC
586 CTTAAACACTTCAATTTGCAACATTTGAGCACTTCAATTTACGACATTTAAACACTTCGATTTAC
104571884 GATTTACAGCATCCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACA
651 GATTTACAGCATCCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACA
104571949 CTTCAATTACAGTGATAAAACATCTCAATG
716 CTTCAATTACAGTGATAAAACATCTCAATG
104571979 TCCTACCTTCCCTGAAACCTATCTTGAACCTGCGAGGAACGTGGCGAAGATACCTCTATACACCG
1 TCCTACCTTCCCTGAAACCTATCTTGAACCTGCGAGGAACGTGGCGAAGATACCTCTATACACCG
104572044 GTGATGGAGATGTTAGCCTCATCTAATTGAAACCAACAGCTAGAAACACAAATAATCACACAAGT
66 GTGATGGAGATGTTAGCCTCATCTAATTGAAACCAACAGCTAGAAACACAAATAATCACACAAGT
104572109 TAAAAAACCCAAAATAAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
131 TAAAAAACCCAAAATAAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
104572174 ATTTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTG
196 ATTTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTG
104572239 CAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT
261 CAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT
104572304 GTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTT
326 GTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTT
104572369 CAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCAACACTTTAAC
391 CAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCAACACTTTAAC
104572434 ACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTT
456 ACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTT
104572499 ATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTA
521 ATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTA
104572564 CTTAAACACTTCAATTTGCAACATTTGAGCACTTCAATTTACGACATTTAAACACTTCGATTTAC
586 CTTAAACACTTCAATTTGCAACATTTGAGCACTTCAATTTACGACATTTAAACACTTCGATTTAC
104572629 GATTTACAGCATCCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACA
651 GATTTACAGCATCCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACA
104572694 CTTCAATTACAGTGATAAAACATCTCAATG
716 CTTCAATTACAGTGATAAAACATCTCAATG
104572724 TCCTACCTTCCCTGAAACCTATCTTGAACCTGCGAGGAACGTGGCGAAGATACCTCTATACACCG
1 TCCTACCTTCCCTGAAACCTATCTTGAACCTGCGAGGAACGTGGCGAAGATACCTCTATACACCG
104572789 GTGATGGAGATGTTAGCCTCATCTAATTGAAACCAACAGCTAGAAACACAAATAATCACACAAGT
66 GTGATGGAGATGTTAGCCTCATCTAATTGAAACCAACAGCTAGAAACACAAATAATCACACAAGT
104572854 TAAAAAACCCAAAATAAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
131 TAAAAAACCCAAAATAAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
104572919 ATTTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTG
196 ATTTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTG
104572984 CAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT
261 CAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT
104573049 GTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTT
326 GTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTT
104573114 CAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCAACACTTTAAC
391 CAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCAACACTTTAAC
104573179 ACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTT
456 ACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTT
104573244 ATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTA
521 ATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTA
104573309 CTTAAACACTTCAATTTGCAACATTTGAGCACTTCAATTTACGACATTTAAACACTTCGATTTAC
586 CTTAAACACTTCAATTTGCAACATTTGAGCACTTCAATTTACGACATTTAAACACTTCGATTTAC
104573374 GATTTACAGCATCCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACA
651 GATTTACAGCATCCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACA
104573439 CTTCAATTACAGTGATAAAACATCTCAATG
716 CTTCAATTACAGTGATAAAACATCTCAATG
104573469 TCC
1 TCC
104573472 AGCAACTAAA
Statistics
Matches: 1493, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
745 1493 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (745 bp):
TCCTACCTTCCCTGAAACCTATCTTGAACCTGCGAGGAACGTGGCGAAGATACCTCTATACACCG
GTGATGGAGATGTTAGCCTCATCTAATTGAAACCAACAGCTAGAAACACAAATAATCACACAAGT
TAAAAAACCCAAAATAAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
ATTTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTTG
CAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAAT
GTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTT
CAATTTACAGCATTTAAACTCTTCAATTTACAGCATTCAAACACTTCAATTTGCAACACTTTAAC
ACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTT
ATGCACCTTAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTA
CTTAAACACTTCAATTTGCAACATTTGAGCACTTCAATTTACGACATTTAAACACTTCGATTTAC
GATTTACAGCATCCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACA
CTTCAATTACAGTGATAAAACATCTCAATG
Found at i:104572670 original size:23 final size:22
Alignment explanation
Indices: 104572644--104572702 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
104572634 ACAGCATCCA
** *
104572644 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTAACAACA-TTT
*
104572667 AACACCTCAATTAACAACATTT
1 AACACTTCAATTAACAACATTT
104572689 ATACACTTCAATTA
1 A-ACACTTCAATTA
104572703 CAGTGATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.32
Consensus pattern (22 bp):
AACACTTCAATTAACAACATTT
Found at i:104572906 original size:23 final size:23
Alignment explanation
Indices: 104572875--104573755 Score: 472
Period size: 23 Copynumber: 38.1 Consensus size: 23
104572865 AAATAAGTAC
*
104572875 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104572898 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
104572921 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104572944 TCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
104572968 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
104572991 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104573013 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * *
104573035 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104573058 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
104573081 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104573104 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104573127 TTAAACTCTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104573150 TCAAACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTGCAGCA-T
*
104573174 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
104573196 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
104573220 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
** *
104573242 TTATGCACCTT-AA-TTACAGCGA-
1 TTAAACA-CTTCAATTTGCAGC-AT
* * * *
104573264 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104573287 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
104573310 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
104573333 TTGAGCACTTCAATTTAC-GACAT
1 TTAAACACTTCAATTTGCAG-CAT
* *
104573356 TTAAACACTTCGATTTAC-G-AT
1 TTAAACACTTCAATTTGCAGCAT
* * *
104573377 TTACAGCA-TCCAAACACTT-CA--AT
1 TTA-AACACTTC--A-ATTTGCAGCAT
* * * **
104573400 TTGCAGCACTTTAACACCT-CA--AT
1 TT-AAACAC-TTCA-ATTTGCAGCAT
* * * * *
104573423 TAACAACATTTATACACTT-CAATTACAGT
1 TTA-AACACTT-CA-ATTTGC-A--GCA-T
* * * *
104573452 GATAAA-ACATCTCAATGTCCAGCAA
1 -TTAAACAC-T-TCAATTTGCAGCAT
* * *
104573477 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
104573500 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
104573523 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
104573546 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
104573569 TCAAACACTTCAATTTGCAGCAAT
1 TTAAACACTTCAATTTGCAGC-AT
104573593 TT-AACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
104573615 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
104573639 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
104573661 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * *
104573683 TAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
104573706 CTAACACACTTCAATTTGCAGTAC
1 TTAA-ACACTTCAATTTGCAGCAT
*
104573730 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
104573753 TTA
1 TTA
104573756 CTACTAATAT
Statistics
Matches: 667, Mismatches: 137, Indels: 108
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.00
21 8 0.01
22 64 0.10
23 533 0.80
24 41 0.06
25 5 0.01
26 2 0.00
28 5 0.01
29 6 0.01
30 2 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAGCAT
Found at i:104574716 original size:23 final size:23
Alignment explanation
Indices: 104574682--104574894 Score: 201
Period size: 23 Copynumber: 9.4 Consensus size: 23
104574672 ACTTGTATAA
*
104574682 CATTTAAGCACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
*
104574705 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
104574728 CACTTT-AACA-TCTCAA-TTA-A-
1 CA-TTTAAACACT-TCAATTTACAG
* *
104574748 CATTTATACAAC-TCAA-TTACAA
1 CATTTAAAC-ACTTCAATTTACAG
* *
104574770 CGA-TAAAACA-TCTCAATTTCCAG
1 C-ATTTAAACACT-TCAATTTACAG
** *
104574793 CAACTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
* * *
104574816 TACTTAAACACTTCAATTTACAA
1 CATTTAAACACTTCAATTTACAG
104574839 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
*
104574862 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
104574885 CATTTAAACA
1 CATTTAAACA
104574895 ACAGTAGCCA
Statistics
Matches: 157, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.02
20 11 0.07
21 4 0.03
22 13 0.08
23 122 0.78
24 4 0.03
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:104578300 original size:14 final size:14
Alignment explanation
Indices: 104578280--104578317 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
104578270 AACCCTTAAA
104578280 CCATAAACCATAATC
1 CCATAAACCATAA-C
104578295 CC-TAAACCCATAAC
1 CCATAAA-CCATAAC
104578309 CCATAAACC
1 CCATAAACC
104578318 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
CCATAAACCATAAC
Found at i:104578322 original size:22 final size:21
Alignment explanation
Indices: 104578273--104578322 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
104578263 AAACCCCAAC
*
104578273 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAACCATAAA
* *
104578294 CCCTAAACCCATAACCCATAAA
1 CCTTAAA-CCATAAACCATAAA
104578316 CCTTAAA
1 CCTTAAA
104578323 ATAGTAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTTAAACCATAAACCATAAA
Found at i:104581096 original size:30 final size:30
Alignment explanation
Indices: 104581065--104581224 Score: 216
Period size: 30 Copynumber: 5.3 Consensus size: 30
104581055 CTTAGCTTTT
*
104581065 TCCACCACCAACTCCACTAGCCACACCTTT
1 TCCACCACCAACTCCACTAGCCACACCTTC
* *
104581095 TCCACCACCAACTCCACTAGCCACTCCTTT
1 TCCACCACCAACTCCACTAGCCACACCTTC
104581125 TCCACCACCAACTCCACTAGCCACACCTTC
1 TCCACCACCAACTCCACTAGCCACACCTTC
*
104581155 TCCACCACCAAATCCACTAGCCACA-CTTGC
1 TCCACCACCAACTCCACTAGCCACACCTT-C
** * *
104581185 TCCATTACCTACTCCACTAACCACA-CTTGC
1 TCCACCACCAACTCCACTAGCCACACCTT-C
104581215 TCCACCACCA
1 TCCACCACCA
104581225 CTTGTACCAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 3 0.03
30 114 0.97
ACGTcount: A:0.27, C:0.49, G:0.04, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACCTTC
Found at i:104581750 original size:23 final size:23
Alignment explanation
Indices: 104581713--104581842 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
104581703 CCTTTTTTGT
104581713 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
104581736 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
104581758 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
104581781 TATTACGTATATATAT-TTTATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
104581806 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
104581831 TATTATTTATAT
1 TATTATATATAT
104581843 ATATATTTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 4 0.05
25 28 0.35
26 4 0.05
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:104581818 original size:27 final size:25
Alignment explanation
Indices: 104581730--104581929 Score: 95
Period size: 25 Copynumber: 7.8 Consensus size: 25
104581720 ATATTTCTTA
* * *
104581730 ATATTATATTATATATATTCTTTTAAT
1 ATATTAT-GTATATATATT-TTATACT
* ** *
104581757 ATATTAGGTATAT-T-TTAAATTCT
1 ATATTATGTATATATATTTTATACT
*
104581780 ATATTACGTATATATATTTTATACT
1 ATATTATGTATATATATTTTATACT
* * * *
104581805 ATTTTATGTATATATCTTTAATATT
1 ATATTATGTATATATATTTTATACT
* * *
104581830 ATATTATTTATATATATATTTTTTCT
1 ATATTATGTATATATAT-TTTATACT
* * *
104581856 ACATGTTATCTTATGTATATATCTTA-ACT
1 --ATATTAT-GTA--TATATATTTTATACT
* *
104581885 ATATTATGTATGTAT-TTTTAACACT
1 ATATTATGTATATATATTTT-ATACT
*
104581910 ATATTATGTACATAT-TTTTA
1 ATATTATGTATATATATTTTA
104581930 ATATTATCAC
Statistics
Matches: 130, Mismatches: 33, Indels: 23
0.70 0.18 0.12
Matches are distributed among these distances:
23 17 0.13
24 9 0.07
25 61 0.47
26 11 0.08
27 12 0.09
28 6 0.05
29 5 0.04
30 2 0.02
31 7 0.05
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
ATATTATGTATATATATTTTATACT
Found at i:104582105 original size:16 final size:15
Alignment explanation
Indices: 104582081--104582132 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
104582071 TAATTATTAT
*
104582081 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
104582097 TATTTTAATATTTTA
1 TATTTTAATATTTTA
104582112 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
104582128 CTATT
1 -TATT
104582133 CACATCATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 8 0.24
16 21 0.64
17 4 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:104582116 original size:7 final size:8
Alignment explanation
Indices: 104582081--104582132 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
104582071 TAATTATTAT
*
104582081 TATTCTAA
1 TATTTTAA
*
104582089 TATTTTGA
1 TATTTTAA
104582097 TATTTTAA
1 TATTTTAA
104582105 TATTTT-A
1 TATTTTAA
104582112 TATTTTATA
1 TATTTTA-A
*
104582121 TATTTTAC
1 TATTTTAA
104582129 TATT
1 TATT
104582133 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:104592380 original size:71 final size:71
Alignment explanation
Indices: 104592100--104592392 Score: 318
Period size: 73 Copynumber: 4.0 Consensus size: 71
104592090 TTTATTTCTA
*
104592100 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCTGGACACGACACACTGAGGTAT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---A-A-GACACGCTGAGGTAT
**
104592165 TTTCAATCTCTGG
61 TTTCAAT-T-TAT
* * * * *
104592178 TTTTCAAAAAAATCAAC-CTACATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATT
1 TTTTC--AAAAATCAACTC-ATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
104592242 TCAATTTAT
63 TCAATTTAT
* ** * * *
104592251 GTTTGTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGGCCCGCTGAGGTATTTT
1 -TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
104592316 CAATTTAT
64 CAATTTAT
* * *
104592324 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTCCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCA
104592389 ATTT
66 ATTT
104592393 CTGCTCACAT
Statistics
Matches: 185, Mismatches: 24, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
71 57 0.31
72 3 0.02
73 59 0.32
74 5 0.03
75 20 0.11
77 1 0.01
78 5 0.03
79 1 0.01
80 34 0.18
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (71 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCA
ATTTAT
Found at i:104592413 original size:58 final size:58
Alignment explanation
Indices: 104592338--104592453 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
104592328 CAAAAATCAA
* *
104592338 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGT-ATTTCCAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTT-CAATTTCTG
* * *
104592396 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
104592454 TTTTTCAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
58 48 0.92
59 4 0.08
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (58 bp):
CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
Found at i:104592507 original size:133 final size:129
Alignment explanation
Indices: 104592267--104592528 Score: 391
Period size: 133 Copynumber: 2.0 Consensus size: 129
104592257 TAAAAATCAA
* * *
104592267 CTCATATTGCGAGAAATGAGTTGAGCCTCAGGGCCCGCTGAGGTATTTTCAATTTATTTTTCAAA
1 CTCACATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATTTTTCAAA
*
104592332 AATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTCCAATTTCTG
66 AATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAAGACACGTTGAGGTATTTCCAATTTCTG
** *
104592396 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTTTTTC
1 CTCACATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAA-TT-TATTTTTC
* *
104592460 AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
63 --AAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAAGACACGTTGAGGTATTTCCAATT
104592525 TCTG
126 TCTG
104592529 TTTTTTTAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
129 41 0.34
130 7 0.06
131 7 0.06
133 64 0.54
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (129 bp):
CTCACATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTATTTTTCAAA
AATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAAGACACGTTGAGGTATTTCCAATTTCTG
Found at i:104592575 original size:77 final size:77
Alignment explanation
Indices: 104592396--104592696 Score: 344
Period size: 75 Copynumber: 3.8 Consensus size: 77
104592386 CCAATTTCTG
* *
104592396 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTG--TTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTCTGTTTTTT
*
104592458 TCAAAAAAATCAA
65 TAAAAAAAATCAA
* *
104592471 CTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTTT
104592536 AAAAAAAATCAA
66 AAAAAAAATCAA
104592548 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCCGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT-C---TG---
** *
104592611 ATTTATTTTTCAAAAATTCAA
59 -TTT-TTTTAAAAAAAATCAA
* * *
104592632 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCAATTTCTATTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC--GCTGAGGTATTTTCAATTTCTGTTTT
104592696 T
63 T
104592697 CAATTTCTGT
Statistics
Matches: 197, Mismatches: 12, Indels: 30
0.82 0.05 0.13
Matches are distributed among these distances:
74 5 0.03
75 68 0.35
76 1 0.01
77 47 0.24
79 4 0.02
80 3 0.02
83 4 0.02
84 43 0.22
86 2 0.01
87 1 0.01
88 19 0.10
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (77 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTTT
AAAAAAAATCAA
Found at i:104592721 original size:88 final size:86
Alignment explanation
Indices: 104592539--104592794 Score: 290
Period size: 88 Copynumber: 3.0 Consensus size: 86
104592529 TTTTTTTAAA
*
104592539 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACGCTGAGGTATTTTCAATTTC
** * * *
104592602 CGTTTGTCAATTTAT-TTTTC
66 TATTTTTCAATTTCTGTTGTC
104592622 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCAA
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC-CAC--GCTGAGGTATTTTCAA
104592686 TTTCTATTTTTCAATTTCTGTTCGTC
62 TTTCTATTTTTCAATTTCTGTT-GTC
* * * * * *
104592712 -AAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCGGGCCACACGCTAAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-C-CACGCTGAGGTATTTTCAATT
*
104592776 TCTATTTTT-AAATTCTGTT
64 TCTATTTTTCAATTTCTGTT
104592795 TTTTTTTTAT
Statistics
Matches: 150, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
83 6 0.04
84 33 0.22
86 2 0.01
87 9 0.06
88 86 0.57
89 8 0.05
90 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACGCTGAGGTATTTTCAATTTC
TATTTTTCAATTTCTGTTGTC
Found at i:104593528 original size:30 final size:30
Alignment explanation
Indices: 104593494--104593658 Score: 190
Period size: 30 Copynumber: 5.5 Consensus size: 30
104593484 TAAATCTTAG
*
104593494 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* *
104593524 CCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* * *
104593554 TCTTTTCCACCATCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* *
104593584 CCTTCTCCACCACCAAATCCACTAGTCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
** * *
104593614 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-CTCCACCACCAACTCCACTAGCCACA
104593644 -CTTGCTCCACCACCA
1 CCTT-CTCCACCACCA
104593659 CTTGTACCTA
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
29 3 0.03
30 113 0.97
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (30 bp):
CCTTCTCCACCACCAACTCCACTAGCCACA
Found at i:104594183 original size:23 final size:23
Alignment explanation
Indices: 104594146--104594275 Score: 72
Period size: 23 Copynumber: 5.5 Consensus size: 23
104594136 CCTTTTTTGT
104594146 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
104594169 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
104594191 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
104594214 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
104594239 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
104594264 TATTATTTATAT
1 TATTATATATAT
104594276 ATATATTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 6 0.07
25 26 0.32
26 2 0.02
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:104594239 original size:25 final size:26
Alignment explanation
Indices: 104594211--104594364 Score: 86
Period size: 25 Copynumber: 6.0 Consensus size: 26
104594201 ATTTTAAATT
*
104594211 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
104594236 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* * * *
104594261 TTATATTATTTATATATATATT-TTT
1 CTATATTATGTATATATATATTAATA
* * * *
104594286 CTACATGTTATCTTATGTATATATCTTA-A
1 CT--ATATTAT-GTATATATATAT-TAATA
* * *
104594315 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATATTAATA
* *
104594340 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATATTAATA
104594365 TTATCACGTA
Statistics
Matches: 100, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
24 4 0.04
25 61 0.61
26 9 0.09
27 12 0.12
28 11 0.11
29 3 0.03
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:104594542 original size:16 final size:14
Alignment explanation
Indices: 104594523--104594556 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
104594513 TATTATTCTA
104594523 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
104594538 GATATTTTATATTTT
1 -ATATTTTATATTTT
104594553 ATAT
1 ATAT
104594557 ATTTTACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:104594551 original size:7 final size:8
Alignment explanation
Indices: 104594523--104594556 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
104594513 TATTATTCTA
104594523 ATATTTTG
1 ATATTTTG
104594531 ATATTTTG
1 ATATTTTG
104594539 ATATTTT-
1 ATATTTTG
104594546 ATATTTT-
1 ATATTTTG
104594553 ATAT
1 ATAT
104594557 ATTTTACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:104594558 original size:16 final size:15
Alignment explanation
Indices: 104594523--104594567 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
104594513 TATTATTCTA
104594523 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
104594539 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
104594555 ATATTTTACTATT
1 ATATTTTA-TATT
104594568 CACATCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.27
16 15 0.58
17 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:104596603 original size:3 final size:3
Alignment explanation
Indices: 104596595--104596691 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
104596585 ATTCCTTTTC
* *
104596595 TAT TAT TATT TAT TA- TAT T-T TA- TAT TAT CAT TAT TA- GAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
104596637 TAT T-T TCT TAT TAAT GTAA TAT TAGT T-T CTAC T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT -TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT
104596683 TAT TAT TAT
1 TAT TAT TAT
104596692 CATTTCTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
2 11 0.15
3 53 0.73
4 8 0.11
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:104596620 original size:22 final size:22
Alignment explanation
Indices: 104596590--104596648 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
104596580 GTTTTATTCC
* *
104596590 TTTTCTATTATTATTTATTATA
1 TTTTATATTATTATTTATTAGA
*
104596612 TTTTATATTATCA-TTATTAGA
1 TTTTATATTATTATTTATTAGA
* *
104596633 TTATTATTTTCTTATT
1 TT-TTATATTATTATT
104596649 AATGTAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 9 0.31
22 19 0.66
23 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTATATTATTATTTATTAGA
Found at i:104600547 original size:35 final size:35
Alignment explanation
Indices: 104600489--104600583 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
104600479 ATAAATTTAG
* **
104600489 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
*
104600525 T-TAAATATAATTTGAAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
* *
104600560 TATGACTATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
104600584 AAATTTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
35 36 0.72
36 14 0.28
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:104603498 original size:26 final size:26
Alignment explanation
Indices: 104603460--104603517 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
104603450 CATGAAATTC
104603460 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
104603486 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
104603512 TTATCA
1 TTATCA
104603518 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:104611564 original size:26 final size:26
Alignment explanation
Indices: 104611528--104611637 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
104611518 CATGAAATTC
*
104611528 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
104611554 TTATCATGAAACATTTACCTAACCAA
1 TTATCATGAAACATTTACCTAACCCA
104611580 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
104611606 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
104611632 TTATCA
1 TTATCA
104611638 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:104615265 original size:26 final size:26
Alignment explanation
Indices: 104615235--104615284 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
104615225 CCACTTAATC
*
104615235 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
104615261 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
104615285 CTTTTATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:104615366 original size:26 final size:26
Alignment explanation
Indices: 104615336--104615385 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
104615326 CCAATGAACT
*
104615336 GGGGAATCAGCACTTAGCAACCCCTC
1 GGGGAATCAGCACATAGCAACCCCTC
104615362 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
104615386 CTTTCACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTC
Found at i:104615522 original size:104 final size:103
Alignment explanation
Indices: 104615202--104615567 Score: 585
Period size: 104 Copynumber: 3.6 Consensus size: 103
104615192 AACCGTTATT
* * * * ** *
104615202 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGAA
* *
104615267 TCAGCACATAGCAACCCCCTTT--TATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
104615303 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 GGTGGATATCGCACATAGCACCACCAATGAATC-GGGGAATCAGCACACAGCAACCCCTCGGGGA
104615367 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
104615406 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTC-GGGGA
104615471 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
104615510 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
104615568 TTATGTACAA
Statistics
Matches: 251, Mismatches: 9, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
100 1 0.00
101 81 0.32
103 66 0.26
104 103 0.41
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:104622486 original size:101 final size:103
Alignment explanation
Indices: 104622309--104622572 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 103
104622299 AACCGTTATT
* * * *
104622309 GGTGGATCTCGCACTTAGCACCACCACTTAAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGG
1 GGTGGATATCGCACTTAGCACCACCA-ATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
104622374 AATCAGCACATAGCAACCCCCTTT-TATTTCAGAGATAC
65 AATCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
104622412 GGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
104622476 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATAC
* **
104622515 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
104622573 TTATGTACAA
Statistics
Matches: 149, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
101 55 0.37
102 3 0.02
103 67 0.45
104 24 0.16
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
Found at i:104626587 original size:20 final size:19
Alignment explanation
Indices: 104626564--104626609 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
104626554 ACTTTAAACT
104626564 TATTTTTAATT-TATTATATA
1 TATTTTT-ATTATATTAT-TA
104626584 TATTATTTATTATATTATTA
1 TATT-TTTATTATATTATTA
104626604 TATTTT
1 TATTTT
104626610 CAAAATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTATTATATTATTA
Found at i:104626589 original size:12 final size:12
Alignment explanation
Indices: 104626574--104626606 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
104626564 TATTTTTAAT
104626574 TTATTATATATA
1 TTATTATATATA
104626586 TTATT-TATTATA
1 TTATTATA-TATA
104626598 TTATTATAT
1 TTATTATAT
104626607 TTTCAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.11
12 15 0.79
13 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATATATA
Found at i:104626593 original size:16 final size:15
Alignment explanation
Indices: 104626572--104626604 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
104626562 CTTATTTTTA
104626572 ATTTATTATATATATT
1 ATTTATTATAT-TATT
104626588 ATTTATTATATTATT
1 ATTTATTATATTATT
104626603 AT
1 AT
104626605 ATTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATTATATTATT
Found at i:104626681 original size:21 final size:21
Alignment explanation
Indices: 104626626--104626690 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
104626616 TTGTAAATTA
*
104626626 TTATTATATATTATAT-TTTAAC
1 TTATT-TATATTATATATTT-AT
** *
104626648 TTAAATATCTTATATATTTAT
1 TTATTTATATTATATATTTAT
*
104626669 TTATTTATATTATACA-TTAT
1 TTATTTATATTATATATTTAT
104626689 TT
1 TT
104626691 TAGAAACTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 6 0.18
21 22 0.65
22 6 0.18
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTATATTATATATTTAT
Found at i:104639090 original size:206 final size:206
Alignment explanation
Indices: 104638729--104639245 Score: 770
Period size: 206 Copynumber: 2.5 Consensus size: 206
104638719 TGGCTGAAGT
* * *
104638729 AGATCCCAGATGATTTAGCATCCTTGTACTTACAAAGAGCAAATTGAAAACATAGCTGATTTGGC
1 AGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATTGAAAACATAGCTGATTTGGC
* * *
104638794 TTTCACGTGTTTACGATGAAGCAAATCTAAAATGATTTAGCATCTCTGTATTGTCAGAGAGCAAA
66 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAA
*
104638859 TCGAAGTCTGGCATCTCCACTTCAACGG-GGAGCAGATACATAGCAAATCTCACCTTCAGATG-T
131 TCGAAGTCTGGCATCTCCACTTCAACGGAGG-GCAGACACATAGCAAATCTCACCTTCAGATGAT
*
104638922 TTATACTAAAGC-
195 TT-CACTAAAGCA
104638934 AGATCCAAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATTGAAAACATAGCTGATTTGG
1 AGATCC-AAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATTGAAAACATAGCTGATTTGG
*
104638999 CTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAA
65 CTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAA
* * *
104639064 ATCGAAGTCTGGCATCTCCACTTCAACGGAGGGTAGACACATTGCAGATCTCACCTTCAGATGAT
130 ATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGACACATAGCAAATCTCACCTTCAGATGAT
*
104639129 TTCACTGAAGCA
195 TTCACTAAAGCA
* * * * * * *
104639141 AGATCCAAGATGGTTTAGTATCCTTGCGCTTACAAGGAACGAATCGAAAACATAGCTGATTTGGT
1 AGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATTGAAAACATAGCTGATTTGGC
* * * *
104639206 TTTCGCGTGCTTACGCTAAAGCAAATCTAAGATGATTTGG
66 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGG
104639246 AGAACAAATC
Statistics
Matches: 283, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
205 6 0.02
206 266 0.94
207 11 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (206 bp):
AGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATTGAAAACATAGCTGATTTGGC
TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAAA
TCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGACACATAGCAAATCTCACCTTCAGATGATT
TCACTAAAGCA
Found at i:104639594 original size:30 final size:30
Alignment explanation
Indices: 104639544--104639602 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
104639534 AGCCCAAACA
104639544 CAAAGCCCAAATACCTCAGACCCGTTACAG
1 CAAAGCCCAAATACCTCAGACCCGTTACAG
*
104639574 CAAA-CCCAAAATAGCC-CAGACCTGTTACA
1 CAAAGCCC-AAATA-CCTCAGACCCGTTACA
104639603 CCCTACCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.39, C:0.36, G:0.12, T:0.14
Consensus pattern (30 bp):
CAAAGCCCAAATACCTCAGACCCGTTACAG
Found at i:104639809 original size:25 final size:25
Alignment explanation
Indices: 104639781--104639860 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 25
104639771 CGCTGTGATT
104639781 CTGTTACACCAGCCCTCGTCACTAC
1 CTGTTACACCAGCCCTCGTCACTAC
* * *
104639806 CTGTTACACCAGCCCAAAATAG-CCCAGAC
1 CTGTTACACCAGCCC----TCGTCAC-TAC
104639835 CTGTTACACCAGCCCTCGTCACTAC
1 CTGTTACACCAGCCCTCGTCACTAC
104639860 C
1 C
104639861 AGATTTCTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
25 20 0.47
26 2 0.05
28 2 0.05
29 19 0.44
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.20
Consensus pattern (25 bp):
CTGTTACACCAGCCCTCGTCACTAC
Found at i:104641260 original size:12 final size:12
Alignment explanation
Indices: 104641245--104641277 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
104641235 TATTTTTAAT
104641245 TTATTATATATA
1 TTATTATATATA
104641257 TTATT-TATTATA
1 TTATTATA-TATA
104641269 TTATTATAT
1 TTATTATAT
104641278 TTTCAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.11
12 15 0.79
13 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATATATA
Found at i:104641264 original size:16 final size:15
Alignment explanation
Indices: 104641243--104641275 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
104641233 CTTATTTTTA
104641243 ATTTATTATATATATT
1 ATTTATTATAT-TATT
104641259 ATTTATTATATTATT
1 ATTTATTATATTATT
104641274 AT
1 AT
104641276 ATTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATTATATTATT
Found at i:104641307 original size:7 final size:7
Alignment explanation
Indices: 104641295--104641437 Score: 52
Period size: 7 Copynumber: 20.6 Consensus size: 7
104641285 ATTTGTAAAT
104641295 TATTATA
1 TATTATA
104641302 TATTATA
1 TATTATA
104641309 T-TT-TA
1 TATTATA
104641314 -ACTTATA
1 TA-TTATA
104641321 TATCTTATA
1 TA--TTATA
*
104641330 TATTTATT
1 TA-TTATA
104641338 TATT-TA
1 TATTATA
104641344 TATTATA
1 TATTATA
*
104641351 CATTAT-
1 TATTATA
*
104641357 T-TTAAA
1 TATTATA
* *
104641363 AACTTACA
1 TA-TTATA
*
104641371 T-TTTTA
1 TATTATA
104641377 TATTATA
1 TATTATA
104641384 TATTATA
1 TATTATA
* *
104641391 AATTATT
1 TATTATA
104641398 TCATT-TA
1 T-ATTATA
104641405 TTATTAT-
1 -TATTATA
*
104641412 TTTTATA
1 TATTATA
*
104641419 TACTATTA
1 TATTA-TA
*
104641427 TATTATC
1 TATTATA
104641434 TATT
1 TATT
104641438 TTAAAATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 30
0.66 0.14 0.20
Matches are distributed among these distances:
5 5 0.05
6 18 0.18
7 47 0.47
8 22 0.22
9 8 0.08
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.59
Consensus pattern (7 bp):
TATTATA
Found at i:104641378 original size:77 final size:77
Alignment explanation
Indices: 104641248--104641419 Score: 173
Period size: 77 Copynumber: 2.3 Consensus size: 77
104641238 TTTTAATTTA
* ** *
104641248 TTATATATATTATTTATTATATTATTATATTTTCAAAATTTGTAAATTATTATA-TATTATATTT
1 TTATATATATTATTTATTATATTATCATATTTTCAAAAACTGTAAATTATTATATTA-TATATTA
*
104641312 TAACTTATATATC
65 TAAATTATATATC
* *
104641325 TTATATAT-TTATTTATTTATATTATACATTATTTT-AAAAACT-TACATTTTTATATTATATAT
1 TTATATATATTATTTA-TTATATTAT-CA-TATTTTCAAAAACTGTAAATTATTATATTATATAT
104641387 TATAAATTAT-T-TC
63 TATAAATTATATATC
104641400 ATT-TAT-TATTATTT-TTATAT
1 -TTATATATATTATTTATTATAT
104641420 ACTATTATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
73 6 0.07
74 1 0.01
75 11 0.13
76 10 0.12
77 40 0.49
78 8 0.10
79 6 0.07
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (77 bp):
TTATATATATTATTTATTATATTATCATATTTTCAAAAACTGTAAATTATTATATTATATATTAT
AAATTATATATC
Found at i:104644061 original size:49 final size:48
Alignment explanation
Indices: 104643952--104644070 Score: 121
Period size: 49 Copynumber: 2.4 Consensus size: 48
104643942 ATCCCAGATG
* * *
104643952 GCTCAAAAATGATGACTTTCATTATCTATATATTCTACCATCTCGAGT
1 GCTCAAAAATGATGACTTTCATTATCTATATATTCTACCAACCCAAGT
* * * * * *
104644000 GACCCGATAATGATGGCTTTCATTTTCTATATATTTTACCAACCCAAGT
1 G-CTCAAAAATGATGACTTTCATTATCTATATATTCTACCAACCCAAGT
* *
104644049 AGCTCAACAATGATGATTTTCA
1 -GCTCAAAAATGATGACTTTCA
104644071 CTATTTCGAT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
48 1 0.02
49 53 0.96
50 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (48 bp):
GCTCAAAAATGATGACTTTCATTATCTATATATTCTACCAACCCAAGT
Found at i:104645351 original size:213 final size:212
Alignment explanation
Indices: 104644979--104645579 Score: 730
Period size: 213 Copynumber: 2.8 Consensus size: 212
104644969 TCTATCTAGT
* *
104644979 TTTCCAGAAATCTTAAAGACCATGGAGAGGTTGATATATCTTGATTTAAGCGGAAC-GGCTTTGA
1 TTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGCGGAACTGG-TTTGA
** * ** *
104645043 AGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTGTGAACTTGAG-TTTGGACAACTGTAA
65 AGGAATTACCATCCTCAATTGATAATCTTATTGGTCTT-ACAAATTGAGATTAAG-CAACTGTGA
* * *
104645107 AAATCTTGTTTGCCTTCCTAACAGTTTTTATAAATTGAAATCTCTTAAGATATTCACA-ATTCAA
128 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGATATTCA-ATATTCAA
*
104645171 GGTTGCTCGAGATTGGAGATA
192 GGTTGCTCAAGATTGGAGATA
**
104645192 TTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGTAGAACTGGTTTGAA
1 TTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGCGGAACTGGTTTGAA
* *
104645257 GGAATTACCATCCTCAATTGACAATCTTATTGGTCTTACACAATTGAGACTAAGCAACTGTGAAA
66 GGAATTACCATCCTCAATTGATAATCTTATTGGTCTTACA-AATTGAGATTAAGCAACTGTGAAA
* * * * *
104645322 ACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTCAGTTTTTCAATCTTGAAGGT
130 ACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGATATTCAATATTCAAGGT
* * *
104645387 TGTTTAAGATTGGAGATT
195 TGCTCAAGATTGGAGATA
* * * * *
104645405 TTTCCAAAAACCTTGGACACCATGGAGAGGTTG-G-TGCATCTTGATTTAAGCGGAA-TGTCTTT
1 TTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGAT--ATCTTGATTTAAGCGGAACTG-GTTT
* * * * *
104645467 GAAGGAATTACCATTCTCAAATGATAATCTTATTGGTCTTATATATTTAAGATTGAA-CAACTGT
63 GAAGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTACA-AATTGAGATT-AAGCAACTGT
* * *
104645531 GAAAACCTTGTTTGTCTTCCTGACAACTTTTATAAATTGAAATATCTTA
126 GAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTA
104645580 TCTTTTTCTC
Statistics
Matches: 337, Mismatches: 43, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
211 1 0.00
212 5 0.01
213 325 0.96
214 6 0.02
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (212 bp):
TTTCCAGAAATCTTAGAGACCATGGAGAGGTTGAGATATCTTGATTTAAGCGGAACTGGTTTGAA
GGAATTACCATCCTCAATTGATAATCTTATTGGTCTTACAAATTGAGATTAAGCAACTGTGAAAA
CCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAAGATATTCAATATTCAAGGTT
GCTCAAGATTGGAGATA
Found at i:104645613 original size:34 final size:34
Alignment explanation
Indices: 104645574--104645643 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
104645564 AAATTGAAAT
104645574 ATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAG
1 ATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAG
104645608 ATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAG
1 ATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAG
104645642 AT
1 AT
104645644 TGGAGATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (34 bp):
ATCTTATCTTTTTCTCTCTTCAAAATTGCTCGAG
Found at i:104645654 original size:34 final size:34
Alignment explanation
Indices: 104645582--104645655 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
104645572 ATATCTTATC
* **
104645582 TTTTTCTCTCTTCAAAATTGCTCGAGATCTTATC
1 TTTTTCTCTCTTCAAAATTGCTCGAGATCTGAGA
104645616 TTTTTCTCTCTTCAAAATTGCTCGAGAT-TGGAGA
1 TTTTTCTCTCTTCAAAATTGCTCGAGATCT-GAGA
104645650 TTTTTC
1 TTTTTC
104645656 CAGAAATCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 35 0.97
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (34 bp):
TTTTTCTCTCTTCAAAATTGCTCGAGATCTGAGA
Found at i:104645843 original size:247 final size:247
Alignment explanation
Indices: 104645393--104646073 Score: 967
Period size: 247 Copynumber: 2.8 Consensus size: 247
104645383 AGGTTGTTTA
* * * * * *
104645393 AGATTGGAGATTTTTCCAAAAACCTTGGACACCATGGAGAGGTTG-GTGCAT-CTTGATTTAAGC
1 AGATTGGAGATTTTTCCAGAAATCTTAGAGACCATGGAGTGGTTGAG-G-GTGCTTGATTTAAGC
* * * * * *
104645456 GGAATGTCTTTGAAGGAATTACCATTCTCAAATGAT-AATCTTATTGGTCTTATATATTTAAGAT
64 GGAACGGCTTTGAAGGAATTACCATCCTCAATTG-TCAATCTTATTGGTCTTATAGATTTGAGAT
* *
104645520 TGAACAACTGTGAAAACCTTGTTTGTCTTCCTGACAACTTTTATAAATTGAAATA-TCTTATCTT
128 TGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAACTTTTATAAATTGAAA-ACTCTTACCTT
***
104645584 TTTCTCTCTTCAAAATTGCTCGAGATCTTATCTTTTTCTCTCTTCAAAATTGCTCG
192 TTTAAATCTTCAAAATTGCTCGAGATCTTATCTTTTTCTCTCTTCAAAATTGCTCG
* *
104645640 AGATTGGAGATTTTTCCAGAAATCTTAGAGGCCATGGAGTGGTTGAGGGTGCTTGATTTAAGTGG
1 AGATTGGAGATTTTTCCAGAAATCTTAGAGACCATGGAGTGGTTGAGGGTGCTTGATTTAAGCGG
* * * ** *
104645705 AACGGCTTTGAAGAAACTACCATCCTCAATTGTCAATTTTATTTTTCTTATAGATTTGAGACTGA
66 AACGGCTTTGAAGGAATTACCATCCTCAATTGTCAATCTTATTGGTCTTATAGATTTGAGATTGA
* *
104645770 GCGACTGTGAAAACCTTGTTTGCCTTCCTGACAACTTTTATAAATTGAAAACTCTTACCTTTTTA
131 ACAACTGTGAAAACCTTGTTTGCCTTCCTGACAACTTTTATAAATTGAAAACTCTTACCTTTTTA
104645835 AATCTTCAAAATTGCTCGAGATCTTATCTTTTTCTCTCTTCAAAATTGCTCG
196 AATCTTCAAAATTGCTCGAGATCTTATCTTTTTCTCTCTTCAAAATTGCTCG
* *
104645887 AGATTGGAGATTTTTCCAGAAATCTTAGAGACCATGGAATGGTTGAGGGAGCTTGATTTAAGCGG
1 AGATTGGAGATTTTTCCAGAAATCTTAGAGACCATGGAGTGGTTGAGGGTGCTTGATTTAAGCGG
* *
104645952 AACGGCTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGA-GGATTTGAGATTG
66 AACGGCTTTGAAGGAATTACCATCCTCAATTGTCAATCTTATTGGTCTT-ATAGATTTGAGATTG
* * * *
104646016 AACAACTGTGAAAACCTTGTTTGCCTTCCTGATAGCCTTTATAAATTGAAATCTCTTA
130 AACAACTGTGAAAACCTTGTTTGCCTTCCTGACAACTTTTATAAATTGAAAACTCTTA
104646074 ACAGATTCAC
Statistics
Matches: 384, Mismatches: 45, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
246 3 0.01
247 379 0.99
248 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (247 bp):
AGATTGGAGATTTTTCCAGAAATCTTAGAGACCATGGAGTGGTTGAGGGTGCTTGATTTAAGCGG
AACGGCTTTGAAGGAATTACCATCCTCAATTGTCAATCTTATTGGTCTTATAGATTTGAGATTGA
ACAACTGTGAAAACCTTGTTTGCCTTCCTGACAACTTTTATAAATTGAAAACTCTTACCTTTTTA
AATCTTCAAAATTGCTCGAGATCTTATCTTTTTCTCTCTTCAAAATTGCTCG
Found at i:104645866 original size:34 final size:34
Alignment explanation
Indices: 104645822--104645890 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
104645812 AATTGAAAAC
104645822 TCTTACCTTTTTAAATCTTCAAAATTGCTCGAGA
1 TCTTACCTTTTTAAATCTTCAAAATTGCTCGAGA
* ***
104645856 TCTTATCTTTTTCTCTCTTCAAAATTGCTCGAGA
1 TCTTACCTTTTTAAATCTTCAAAATTGCTCGAGA
104645890 T
1 T
104645891 TGGAGATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.45
Consensus pattern (34 bp):
TCTTACCTTTTTAAATCTTCAAAATTGCTCGAGA
Found at i:104645901 original size:34 final size:34
Alignment explanation
Indices: 104645837--104645902 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
104645827 CCTTTTTAAA
* **
104645837 TCTTCAAAATTGCTCGAGATCTTATCTTTTTCTC
1 TCTTCAAAATTGCTCGAGATCTGAGATTTTTCTC
104645871 TCTTCAAAATTGCTCGAGAT-TGGAGATTTTTC
1 TCTTCAAAATTGCTCGAGATCT-GAGATTTTTC
104645903 CAGAAATCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.44
Consensus pattern (34 bp):
TCTTCAAAATTGCTCGAGATCTGAGATTTTTCTC
Found at i:104647439 original size:13 final size:13
Alignment explanation
Indices: 104647421--104647451 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
104647411 ATGCTTCAAC
104647421 CTCATTTAGTTAT
1 CTCATTTAGTTAT
104647434 CTCATTTAGTTAT
1 CTCATTTAGTTAT
104647447 CTCAT
1 CTCAT
104647452 ATGACCGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52
Consensus pattern (13 bp):
CTCATTTAGTTAT
Found at i:104650141 original size:3 final size:3
Alignment explanation
Indices: 104650124--104650253 Score: 56
Period size: 3 Copynumber: 43.0 Consensus size: 3
104650114 AAAGTAAAAA
* ** *
104650124 AAT AA- AAT AAA AAT AAT AAT AGC AAT AAT AAGT -AT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * * **
104650168 AGT AAT AAT AAC AAC AAT ACG AAT AAT AAT ATAT ATAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT -AAT AAT AAT
* *
104650216 AGTT AGA- AAT AA- AA- AAT AAT AGA- AGT AAT AAT AAT AAT
1 A-AT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
104650254 GGTATTAGAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
2 8 0.08
3 75 0.77
4 13 0.13
5 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:104650253 original size:18 final size:17
Alignment explanation
Indices: 104650161--104650253 Score: 70
Period size: 18 Copynumber: 5.4 Consensus size: 17
104650151 ATAAGTATAT
104650161 TAATAATAGTAATAATAA
1 TAATAATAG-AATAATAA
* *
104650179 CAACAATACGAATAATAA
1 TAATAATA-GAATAATAA
104650197 TATATATATA-AATAATAA
1 TA-ATA-ATAGAATAATAA
*
104650215 TAGT--TAGAAATAA-AA
1 TAATAATAG-AATAATAA
104650230 -AATAATAGAAGTAATAA
1 TAATAATAGAA-TAATAA
104650247 TAATAAT
1 TAATAAT
104650254 GGTATTAGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 4 0.07
15 4 0.07
16 11 0.19
17 3 0.05
18 31 0.53
19 3 0.05
20 3 0.05
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATAATAGAATAATAA
Done.