Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 108 of 182
Found at i:32659430 original size:11 final size:11
Alignment explanation
Indices: 32659414--32659439 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32659404 CATATATATA
32659414 TATTTTTAATT
1 TATTTTTAATT
32659425 TATTTTTAATT
1 TATTTTTAATT
32659436 TATT
1 TATT
32659440 GAGAAACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTTAATT
Found at i:32660302 original size:21 final size:21
Alignment explanation
Indices: 32660276--32660320 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
32660266 CTAATGAAAT
32660276 CCATTTTCTTCAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
*
32660297 CCATTTTCTTTAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
32660318 CCA
1 CCA
32660321 ATCAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.51
Consensus pattern (21 bp):
CCATTTTCTTCAGTTTTCTCA
Found at i:32663439 original size:20 final size:20
Alignment explanation
Indices: 32663414--32663464 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
32663404 GTATCGATCC
*
32663414 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
32663434 GGTATCGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
32663454 GGTATCGATAT
1 GGTATCGATAT
32663465 TTCTACTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Found at i:32664488 original size:20 final size:20
Alignment explanation
Indices: 32664465--32664538 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
32664455 TTGTTTGATG
32664465 TTTAAATCAATTCATTCTTA
1 TTTAAATCAATTCATTCTTA
**
32664485 TTTAAATTGATTCATTGC-TA
1 TTTAAATCAATTCATT-CTTA
*
32664505 TTTTAAATCAATTCATTCTTG
1 -TTTAAATCAATTCATTCTTA
* *
32664526 TTCAAATCGATTC
1 TTTAAATCAATTC
32664539 TAAATTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTAAATCAATTCATTCTTA
Found at i:32666132 original size:19 final size:19
Alignment explanation
Indices: 32666107--32666148 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
32666097 ACTAAATTGA
*
32666107 AAAAAATCAAAAAATTTAGG
1 AAAAATTCAAAAAATTT-GG
*
32666127 AAAAATTTAAAAAATTTGG
1 AAAAATTCAAAAAATTTGG
32666146 AAA
1 AAA
32666149 CAGGGGTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAAATTCAAAAAATTTGG
Found at i:32668856 original size:54 final size:55
Alignment explanation
Indices: 32668738--32668859 Score: 131
Period size: 54 Copynumber: 2.2 Consensus size: 55
32668728 ATGTATTAAG
* * *
32668738 TCAGTGTGTTACACGGTCTAGCACACGGCCTACCGACACGACCGTGTGTCGCAAG
1 TCAGTGAGTTACACGGTCTAGCACACGGCCTACCGACACGACCGTGTGACGCAAC
** * * ** *
32668793 TCAAAGAGTTACACGGTCTGGCATACGG-CTTGCGACACGACTGTGTGAC-CTAAC
1 TCAGTGAGTTACACGGTCTAGCACACGGCCTACCGACACGACCGTGTGACGC-AAC
32668847 TCAGTGAGTTACA
1 TCAGTGAGTTACA
32668860 TGATTTAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
53 1 0.02
54 30 0.56
55 23 0.43
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (55 bp):
TCAGTGAGTTACACGGTCTAGCACACGGCCTACCGACACGACCGTGTGACGCAAC
Found at i:32669594 original size:16 final size:16
Alignment explanation
Indices: 32669555--32669599 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
32669545 GCGAGCTACA
* *
32669555 AAAGTGCGAGCTCATC
1 AAAGTGCAAGCTTATC
* *
32669571 AAAATGCAAGCTTATT
1 AAAGTGCAAGCTTATC
32669587 AAAGTGCAAGCTT
1 AAAGTGCAAGCTT
32669600 GCGAGCTTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (16 bp):
AAAGTGCAAGCTTATC
Found at i:32670195 original size:20 final size:22
Alignment explanation
Indices: 32670142--32670196 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
32670132 CAATTGTTTG
* *
32670142 ATGTTTAAATCGATTCATTGCT
1 ATGTTTAAATCGATCCATTGAT
*
32670164 AT-TTTGAATCGATCCATT-AT
1 ATGTTTAAATCGATCCATTGAT
32670184 -TGTTTAAATCGAT
1 ATGTTTAAATCGAT
32670197 TCTAAATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 11 0.39
21 14 0.50
22 2 0.07
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (22 bp):
ATGTTTAAATCGATCCATTGAT
Found at i:32678827 original size:18 final size:18
Alignment explanation
Indices: 32678797--32678831 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32678787 CCCATCTACC
32678797 AAAAGGAACAAAAAAGAT
1 AAAAGGAACAAAAAAGAT
32678815 AAAAGAGAA-AAAAAAGA
1 AAAAG-GAACAAAAAAGA
32678832 GCCTTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAGGAACAAAAAAGAT
Found at i:32697970 original size:35 final size:34
Alignment explanation
Indices: 32697902--32697991 Score: 80
Period size: 35 Copynumber: 2.6 Consensus size: 34
32697892 TGGAATAATT
*
32697902 AAATGTGGTTGTTTTGTATGTTATAAAGATGTCCC
1 AAATATGGTTGTTTTGTATGTTATAAAGATGT-CC
*
32697937 AAA-ATGGTTGTTTT-TACATGTTATAATA-TTGTCC
1 AAATATGGTTGTTTTGT--ATGTTATAA-AGATGTCC
* *
32697971 AAATATGATTG-TTCGTATGTT
1 AAATATGGTTGTTTTGTATGTT
32697992 TAATTGCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
33 6 0.13
34 17 0.37
35 22 0.48
36 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.46
Consensus pattern (34 bp):
AAATATGGTTGTTTTGTATGTTATAAAGATGTCC
Found at i:32710889 original size:17 final size:17
Alignment explanation
Indices: 32710846--32710894 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
32710836 ATACTAGAAT
*
32710846 AAAATAAAAAGAAAAAG
1 AAAATAAAATGAAAAAG
* *
32710863 AAAATGAAATGAAAATG
1 AAAATAAAATGAAAAAG
*
32710880 ATAATAAAAT-AAAAA
1 AAAATAAAATGAAAAA
32710895 AACAAATAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (17 bp):
AAAATAAAATGAAAAAG
Found at i:32711366 original size:22 final size:20
Alignment explanation
Indices: 32711324--32711366 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
32711314 TTTTTTCTGG
**
32711324 AAATTGTTGGTTGAGTTATT
1 AAATTGTTGGTTGAGAAATT
32711344 AAATTGTATGGTATGAGAAATT
1 AAATTGT-TGGT-TGAGAAATT
32711366 A
1 A
32711367 TTACTTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AAATTGTTGGTTGAGAAATT
Found at i:32713054 original size:16 final size:16
Alignment explanation
Indices: 32713033--32713065 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32713023 TTCGCTGTAT
32713033 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
32713049 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
32713065 T
1 T
32713066 AGCAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:32713109 original size:45 final size:44
Alignment explanation
Indices: 32713045--32713141 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
32713035 GAATAGAGGC
32713045 GTAATGGAATAGAGGCGTAATAGCA-ATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATA--ATATTC-ATGTGTTTGGTTGAAT
*
32713090 GTAATGGAATAGAGGCGTAATAATATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAATATTCATGTGTTTGGTTGAAT
*
32713134 GGAATGGA
1 GTAATGGA
32713142 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
43 2 0.04
44 24 0.50
45 22 0.46
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAATATTCATGTGTTTGGTTGAAT
Found at i:32713424 original size:18 final size:17
Alignment explanation
Indices: 32713403--32713437 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32713393 TTATTATTAA
*
32713403 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
32713421 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
32713438 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32713457 original size:16 final size:16
Alignment explanation
Indices: 32713436--32713478 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
32713426 ATTTAATAAA
*
32713436 ATTCTTAATAATCAAT
1 ATTCTTAATAACCAAT
32713452 ATTCTTAATAACCAAT
1 ATTCTTAATAACCAAT
32713468 ATTCTT-ATAAC
1 ATTCTTAATAAC
32713479 AAAAATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTCTTAATAACCAAT
Found at i:32721270 original size:26 final size:26
Alignment explanation
Indices: 32721234--32721373 Score: 165
Period size: 26 Copynumber: 5.3 Consensus size: 26
32721224 GGTGTTGACC
*
32721234 GAAATACCCTCGATGGGTAAATTATT
1 GAAATACCCTCGATGGGTAAATTACT
* * *
32721260 GAAATACCCTCGATAGGTAAATTGCC
1 GAAATACCCTCGATGGGTAAATTACT
*
32721286 AAAATACCCTCGATGGGTAAATTACT
1 GAAATACCCTCGATGGGTAAATTACT
*
32721312 GAAATACCCCCGATGGGTAAATTACT
1 GAAATACCCTCGATGGGTAAATTACT
* * * *
32721338 AAAATACCCCCG-TAAGGTAAAAATACT
1 GAAATACCCTCGAT-GGGT-AAATTACT
32721365 GAAATACCC
1 GAAATACCC
32721374 CCAGAAGGGT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 1 0.01
26 82 0.84
27 15 0.15
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (26 bp):
GAAATACCCTCGATGGGTAAATTACT
Found at i:32721296 original size:52 final size:52
Alignment explanation
Indices: 32721235--32721375 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
32721225 GTGTTGACCG
* * *
32721235 AAATACCCTCGATGGGTAAATTATTGAAATACCCTCGATAGGTAAATTGCCA
1 AAATACCCTCGATGGGTAAATTACTGAAATACCCCCGATAGGTAAATTACCA
* *
32721287 AAATACCCTCGATGGGTAAATTACTGAAATACCCCCGATGGGTAAATTACTA
1 AAATACCCTCGATGGGTAAATTACTGAAATACCCCCGATAGGTAAATTACCA
* * *
32721339 AAATACCCCCG-TAAGGTAAAAATACTGAAATACCCCC
1 AAATACCCTCGAT-GGGT-AAATTACTGAAATACCCCC
32721376 AGAAGGGTAG
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.01
52 60 0.76
53 18 0.23
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (52 bp):
AAATACCCTCGATGGGTAAATTACTGAAATACCCCCGATAGGTAAATTACCA
Found at i:32721569 original size:27 final size:27
Alignment explanation
Indices: 32721530--32721589 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
32721520 ATGGAGGAAG
* *
32721530 TACTGTTTCTGGTGGTTCTGCCACA-A
1 TACTGTTTCTGGTGGCTATGCCACATA
32721556 TTACTGTTAT-TGGTGGCTATGCCACATA
1 -TACTGTT-TCTGGTGGCTATGCCACATA
32721584 TACTGT
1 TACTGT
32721590 ACTAGCAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (27 bp):
TACTGTTTCTGGTGGCTATGCCACATA
Found at i:32728770 original size:26 final size:26
Alignment explanation
Indices: 32728734--32728844 Score: 177
Period size: 26 Copynumber: 4.3 Consensus size: 26
32728724 GTGTTGACCA
*
32728734 AAATACCCTCGATGGGTAAATTACTG
1 AAATACCCTCGATGGGTAAATTACCG
*
32728760 AAATACCCTCGATGGGTAAATTACCA
1 AAATACCCTCGATGGGTAAATTACCG
*
32728786 AAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTACCG
* *
32728812 AAATCCCCTCGATAGGTAAATTACCG
1 AAATACCCTCGATGGGTAAATTACCG
32728838 AAATACC
1 AAATACC
32728845 TCCGTAGGGC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (26 bp):
AAATACCCTCGATGGGTAAATTACCG
Found at i:32729288 original size:33 final size:36
Alignment explanation
Indices: 32729238--32729305 Score: 106
Period size: 33 Copynumber: 2.0 Consensus size: 36
32729228 AGGCCCACAC
32729238 TAATGCTATTGGGGCTAAGGCCCACACTG-TACTGA
1 TAATGCTATTGGGGCTAAGGCCCACACTGATACTGA
*
32729273 TAATG-TATT-GGGCTAAGGCCTACACTGATACTG
1 TAATGCTATTGGGGCTAAGGCCCACACTGATACTG
32729306 GAAAGGGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 17 0.55
34 9 0.29
35 5 0.16
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (36 bp):
TAATGCTATTGGGGCTAAGGCCCACACTGATACTGA
Found at i:32729646 original size:9 final size:9
Alignment explanation
Indices: 32729634--32729701 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
32729624 TTTTGGTTAA
32729634 AAATTAACC
1 AAATTAACC
32729643 AAATTAACC
1 AAATTAACC
32729652 AAATTAACC
1 AAATTAACC
* *
32729661 GAATTACCC
1 AAATTAACC
* *
32729670 GAATTACCC
1 AAATTAACC
*
32729679 GAATTAACC
1 AAATTAACC
*
32729688 GAATTAACC
1 AAATTAACC
32729697 AAATT
1 AAATT
32729702 GAATCACTAC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:32729666 original size:27 final size:27
Alignment explanation
Indices: 32729635--32729701 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
32729625 TTTGGTTAAA
32729635 AATTAACCAAATTAACCAAATTAACCG
1 AATTAACCAAATTAACCAAATTAACCG
* * * *
32729662 AATTACCCGAATTACCCGAATTAACCG
1 AATTAACCAAATTAACCAAATTAACCG
32729689 AATTAACCAAATT
1 AATTAACCAAATT
32729702 GAATCACTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (27 bp):
AATTAACCAAATTAACCAAATTAACCG
Found at i:32730463 original size:24 final size:24
Alignment explanation
Indices: 32730427--32730476 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
32730417 ATTTTCTTCG
32730427 TTAGACTTCGATTTCATAGAACAC
1 TTAGACTTCGATTTCATAGAACAC
* *
32730451 TTAGACTTTGATTTTATAGAACAC
1 TTAGACTTCGATTTCATAGAACAC
32730475 TT
1 TT
32730477 CTATGTGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (24 bp):
TTAGACTTCGATTTCATAGAACAC
Found at i:32730826 original size:75 final size:74
Alignment explanation
Indices: 32730699--32730838 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 74
32730689 GGAACAACTA
* * *
32730699 TTGTTGGTTATTCGACTAGCACTGGGCGCAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACA
1 TTGTTGGTTATCCGAATAGCACTGGGCGCAAACTTTGTCGATTTATTCGACTAGTGCTAGGCACA
32730764 ATATCATAC
66 ATATCATAC
* * *
32730773 TTGTTGGTTTATCCGAATAGCGCTGGGTGCAAACTTTGTC-AGTTTA-TCTGACTAGTGTTAGGC
1 TTGTTGG-TTATCCGAATAGCACTGGGCGCAAACTTTGTCGA-TTTATTC-GACTAGTGCTAGGC
32730836 ACA
63 ACA
32730839 CCATTATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
74 10 0.18
75 47 0.82
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (74 bp):
TTGTTGGTTATCCGAATAGCACTGGGCGCAAACTTTGTCGATTTATTCGACTAGTGCTAGGCACA
ATATCATAC
Found at i:32730946 original size:27 final size:27
Alignment explanation
Indices: 32730891--32730951 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
32730881 TTTCGTCGAT
* * * **
32730891 TCGTTCGACTAGTGCTGGGCACATCTA
1 TCGTTAGACTAGCGCTAGGCACAAATA
32730918 TCGTTAGACTAGCGCTAGGCACAAATA
1 TCGTTAGACTAGCGCTAGGCACAAATA
32730945 TCTGTTA
1 TC-GTTA
32730952 CGGTTTATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (27 bp):
TCGTTAGACTAGCGCTAGGCACAAATA
Found at i:32732344 original size:32 final size:33
Alignment explanation
Indices: 32732287--32732352 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
32732277 TGAATAGATT
* *
32732287 GCTCCCCTTTAATAAAATTCATTTTCAATTTAA
1 GCTCCCCTATAATAAAAATCATTTTCAATTTAA
*
32732320 GCTCCCCTAT-ATAAAAATCTTTTTCAATTTAA
1 GCTCCCCTATAATAAAAATCATTTTCAATTTAA
32732352 G
1 G
32732353 GCATAAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (33 bp):
GCTCCCCTATAATAAAAATCATTTTCAATTTAA
Found at i:32736179 original size:18 final size:18
Alignment explanation
Indices: 32736148--32736182 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32736138 AATTATTAAA
* *
32736148 TTTCTTCTTTCCCTTAGC
1 TTTCTACTTCCCCTTAGC
32736166 TTTCTACTTCCCCTTAG
1 TTTCTACTTCCCCTTAG
32736183 AGGACGACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTCTACTTCCCCTTAGC
Found at i:32743578 original size:45 final size:45
Alignment explanation
Indices: 32743514--32743679 Score: 158
Period size: 45 Copynumber: 3.7 Consensus size: 45
32743504 ATATCGTTGG
* * * * *
32743514 AAATATAGGTGGATGCTATGTGCTAATTCCACCCGGTATTAATGA
1 AAATATAAGTGGTTGCTATGTGCTGATTTCACCCGGTACTAATGA
* * *
32743559 AAATA-AACTTGGTTGCTATGTGTTGATTTCA-CCGGATACTAATGG
1 AAATATAA-GTGGTTGCTATGTGCTGATTTCACCCGG-TACTAATGA
** * *
32743604 TTATATAAGTGGTTGCTATGTGCTGATTTCACCCGGTACCATTGA
1 AAATATAAGTGGTTGCTATGTGCTGATTTCACCCGGTACTAATGA
* *
32743649 ATATA-AAGGTGGTTGCTCTGTGCTGATTTCA
1 AAATATAA-GTGGTTGCTATGTGCTGATTTCA
32743680 TTGAGTACTA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
44 7 0.07
45 86 0.87
46 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (45 bp):
AAATATAAGTGGTTGCTATGTGCTGATTTCACCCGGTACTAATGA
Found at i:32743689 original size:90 final size:90
Alignment explanation
Indices: 32743516--32743679 Score: 220
Period size: 90 Copynumber: 1.8 Consensus size: 90
32743506 ATCGTTGGAA
* ** *
32743516 ATATAGGTGGATGCTATGTGCTAATTCCACCCGGTATTAATGAAAATAAACTTGGTTGCTATGTG
1 ATATAAGTGGATGCTATGTGCTAATTCCACCCGGTACCAATGAAAATAAACGTGGTTGCTATGTG
*
32743581 TTGATTTCACCGGATACTAATGGTT
66 CTGATTTCACCGGATACTAATGGTT
* * * * * * *
32743606 ATATAAGTGGTTGCTATGTGCTGATTTCACCCGGTACCATTGAATATAAAGGTGGTTGCTCTGTG
1 ATATAAGTGGATGCTATGTGCTAATTCCACCCGGTACCAATGAAAATAAACGTGGTTGCTATGTG
32743671 CTGATTTCA
66 CTGATTTCA
32743680 TTGAGTACTA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (90 bp):
ATATAAGTGGATGCTATGTGCTAATTCCACCCGGTACCAATGAAAATAAACGTGGTTGCTATGTG
CTGATTTCACCGGATACTAATGGTT
Found at i:32749488 original size:40 final size:40
Alignment explanation
Indices: 32749444--32749705 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
32749434 GCTCCTCGTT
* *
32749444 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
32749484 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32749524 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32749563 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32749602 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
32749641 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
32749682 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32749706 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:32757835 original size:27 final size:27
Alignment explanation
Indices: 32757804--32757981 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32757794 TAAATTGTAC
32757804 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32757831 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32757857 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32757885 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32757913 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32757940 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32757967 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32757982 GACTCGATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32757918 original size:82 final size:81
Alignment explanation
Indices: 32757805--32757960 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32757795 AAATTGTACA
* *
32757805 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32757869 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32757886 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32757951 TGCGAGTTGA
65 TGCGAATTGA
32757961 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32757972 original size:82 final size:81
Alignment explanation
Indices: 32757801--32757981 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32757791 GATTAAATTG
* *
32757801 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32757866 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32757882 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32757946 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32757964 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32757982 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32761117 original size:39 final size:41
Alignment explanation
Indices: 32761003--32761186 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
32760993 GCTCCTCGTT
* *
32761003 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
32761043 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
32761083 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
32761122 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
32761163 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32761187 CATCATTCAA
Statistics
Matches: 129, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.02
39 52 0.40
40 64 0.50
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:32761147 original size:79 final size:82
Alignment explanation
Indices: 32761003--32761186 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 82
32760993 GCTCCTCGTT
* *
32761003 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
32761067 GAT-TTAGT-A-TCTCGCA
66 GATATT-GTCACT-TAGCA
**
32761083 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
32761144 CGGATATTGTCACTTAGCA
64 CGGATATTGTCACTTAGCA
32761163 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32761187 CATCATTCAA
Statistics
Matches: 92, Mismatches: 5, Indels: 15
0.82 0.04 0.13
Matches are distributed among these distances:
78 14 0.15
79 54 0.59
80 23 0.25
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATATTGTCACTTAGCA
Found at i:32768745 original size:108 final size:108
Alignment explanation
Indices: 32768556--32768771 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
32768546 CCGTCACCCT
32768556 GATTTGACAAATTTTTGGGTCTCGATCTTGATTTTGGGTTCTCAGACTCATTTTTCTATCTCAGG
1 GATTTGACAAATTTTTGGGTCTCGATCTTGATTTTGGGTTCTCAGACTCATTTTTCTATCTCAGG
32768621 TCCAATTTTCAAGTTTAATTACCAGTTTGACCAATTTTCTACC
66 TCCAATTTTCAAGTTTAATTACCAGTTTGACCAATTTTCTACC
32768664 GATTTGACAAATTTTTGGGTCTCGATCTTGATTTTGGGTTCTCAGACTCATTTTTCTATCTCAGG
1 GATTTGACAAATTTTTGGGTCTCGATCTTGATTTTGGGTTCTCAGACTCATTTTTCTATCTCAGG
32768729 TCCAATTTTCAAGTTTAATTACCAGTTTGACCAATTTTCTACC
66 TCCAATTTTCAAGTTTAATTACCAGTTTGACCAATTTTCTACC
32768772 TTGAAAATTA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (108 bp):
GATTTGACAAATTTTTGGGTCTCGATCTTGATTTTGGGTTCTCAGACTCATTTTTCTATCTCAGG
TCCAATTTTCAAGTTTAATTACCAGTTTGACCAATTTTCTACC
Found at i:32770484 original size:33 final size:31
Alignment explanation
Indices: 32770440--32770533 Score: 98
Period size: 33 Copynumber: 2.9 Consensus size: 31
32770430 AATTATATTC
* *
32770440 AATTCAATTTAAATTATTTAAAGTATATATACA
1 AATTAAATTTAAA-TATTTAAAATATATATA-A
* * * *
32770473 ATTTTATTTTAAATATTTAAAAATATATCTAA
1 AATTAAATTTAAATATTT-AAAATATATATAA
32770505 AATTAAATTTAAAATATTTAAAATATATA
1 AATTAAATTT-AAATATTTAAAATATATA
32770534 AAATATATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 22 0.44
33 28 0.56
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (31 bp):
AATTAAATTTAAATATTTAAAATATATATAA
Found at i:32770525 original size:9 final size:9
Alignment explanation
Indices: 32770477--32770545 Score: 57
Period size: 9 Copynumber: 7.0 Consensus size: 9
32770467 TATACAATTT
*
32770477 TATTTTAAA
1 TATTTAAAA
32770486 TATTTAAAAA
1 TATTT-AAAA
32770496 TATATCTAAAA
1 TAT-T-TAAAA
32770507 TTAAATTTAAAA
1 -T--ATTTAAAA
32770519 TATTTAAAA
1 TATTTAAAA
*
32770528 TATATAAAA
1 TATTTAAAA
*
32770537 TATATAAAA
1 TATTTAAAA
32770546 CTCCACATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
9 30 0.58
10 6 0.12
11 6 0.12
12 7 0.13
13 1 0.02
14 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (9 bp):
TATTTAAAA
Found at i:32773873 original size:27 final size:27
Alignment explanation
Indices: 32773792--32773880 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
32773782 TAGGGGTAAA
* * *
32773792 CAGTCATTCTACCTTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
32773819 -TGATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
32773846 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
32773873 CGGTCATT
1 CAGTCATT
32773881 CTACTTTGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:32773906 original size:68 final size:68
Alignment explanation
Indices: 32773817--32773952 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
32773807 ATGAGGGTAT
* *
32773817 TTTGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTC
1 TTTGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGAGGTATTTCGGTCATTC
32773882 TAC
66 TAC
* * *
32773885 TTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTTTGGTCATTC
1 TTTGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGAGGTATTTCGGTCATTC
32773950 TAC
66 TAC
32773953 CCTATGGGGG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (68 bp):
TTTGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGAGGTATTTCGGTCATTC
TAC
Found at i:32773926 original size:27 final size:27
Alignment explanation
Indices: 32773885--32774007 Score: 183
Period size: 27 Copynumber: 4.6 Consensus size: 27
32773875 GTCATTCTAC
32773885 TTTGGTCATTTTACCCTATGGGGGTAT
1 TTTGGTCATTTTACCCTATGGGGGTAT
* * *
32773912 TTCGGTCATTTTACCCTATAGAGGTAT
1 TTTGGTCATTTTACCCTATGGGGGTAT
*
32773939 TTTGGTCATTCTACCCTATGGGGGTAT
1 TTTGGTCATTTTACCCTATGGGGGTAT
*
32773966 TTTGATCATTTTACCCTATGGGGGTAT
1 TTTGGTCATTTTACCCTATGGGGGTAT
**
32773993 TTTAATCATTTTACC
1 TTTGGTCATTTTACC
32774008 TATTTTAGGG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (27 bp):
TTTGGTCATTTTACCCTATGGGGGTAT
Found at i:32773957 original size:95 final size:95
Alignment explanation
Indices: 32773794--32773967 Score: 258
Period size: 95 Copynumber: 1.8 Consensus size: 95
32773784 GGGGTAAACA
* * * * *
32773794 GTCATTCTACCTTATGAGGGTATTTTGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
1 GTCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGAGGTATTTCAGTCATTCTACC
32773859 CTATGGGGGTATTTCGGTCATTCTACTTTG
66 CTATGGGGGTATTTCGGTCATTCTACTTTG
* * * **
32773889 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTTTGGTCATTCTACC
1 GTCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGAGGTATTTCAGTCATTCTACC
32773954 CTATGGGGGTATTT
66 CTATGGGGGTATTT
32773968 TGATCATTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 69 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (95 bp):
GTCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGAGGTATTTCAGTCATTCTACC
CTATGGGGGTATTTCGGTCATTCTACTTTG
Found at i:32775507 original size:27 final size:27
Alignment explanation
Indices: 32775477--32775837 Score: 386
Period size: 27 Copynumber: 13.4 Consensus size: 27
32775467 GGTATTTATA
*
32775477 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
32775504 TCATTCTACCCTATAAGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
32775531 TCATTTTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * * *
32775558 TTATTTTACCCTATGGGGGTATTTTGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
32775585 TCATTTTACCCCAT-GAGGGTATTTTGG
1 TCATTTTACCCTATAG-GGGTATTTCGG
* * *
32775612 TCATTTTATCCTTTAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
32775639 TCATTTTACCCTCTGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
32775666 TCATTCTACCTTAT-GAGGGTATTTCAG
1 TCATTTTACCCTATAG-GGGTATTTCGG
* **
32775693 TTATTTTACCCTATAGGGGTATTTCAA
1 TCATTTTACCCTATAGGGGTATTTCGG
* **
32775720 TCATTTTACCCTCTAGGGGTATCTT-AA
1 TCATTTTACCCTATAGGGGTAT-TTCGG
* *
32775747 TCATTTTACCCTGTAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * **
32775774 TCATTTTAACCTATAGGGGCATTTTAG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
32775801 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
32775828 TCATTTTACC
1 TCATTTTACC
32775838 TAATTTGGGG
Statistics
Matches: 286, Mismatches: 42, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.01
27 278 0.97
28 4 0.01
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGG
Found at i:32777236 original size:27 final size:26
Alignment explanation
Indices: 32777206--32777465 Score: 216
Period size: 27 Copynumber: 9.7 Consensus size: 26
32777196 CAAATCAGGA
*
32777206 TATTTATGTCATTTTACCCTATGGGGG
1 TATTT-TGTCATTTTACCCTATAGGGG
* *
32777233 TATTTCGGTCATTCTACCCTATAGGGG
1 TATTT-TGTCATTTTACCCTATAGGGG
* * * *
32777260 TATTTCAGTCATTTTATCCTTTGGGGG
1 TATTT-TGTCATTTTACCCTATAGGGG
*
32777287 TATTTTGATCATTTTACCCTATAGAGG
1 TATTTTG-TCATTTTACCCTATAGGGG
* * *
32777314 TATTTTGGACATTCTACCCTATAGAGG
1 TATTTT-GTCATTTTACCCTATAGGGG
*
32777341 TATTTCGGTCATTTTACCCTATAGGGG
1 TATTT-TGTCATTTTACCCTATAGGGG
* * * * * *
32777368 AATTTCGATTACTTTACCTTATTGGGG
1 TATTTTG-TCATTTTACCCTATAGGGG
* *
32777395 TATTTCGGTCATTTTACCCTATAAGGG
1 TATTT-TGTCATTTTACCCTATAGGGG
* * *
32777422 CATTTTAGTTATTTTA-CCTATGGGGG
1 TATTTT-GTCATTTTACCCTATAGGGG
32777448 TATTTTGGTCATTTTACC
1 TATTTT-GTCATTTTACC
32777466 TATTTTAGGG
Statistics
Matches: 185, Mismatches: 41, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
26 23 0.12
27 160 0.86
28 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (26 bp):
TATTTTGTCATTTTACCCTATAGGGG
Found at i:32777288 original size:54 final size:53
Alignment explanation
Indices: 32777213--32777465 Score: 274
Period size: 54 Copynumber: 4.7 Consensus size: 53
32777203 GGATATTTAT
*
32777213 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATAGGGGTATTTCA
1 GTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCA
* * * * **
32777267 GTCATTTTATCCTTTGGGGGTATTTTGATCATTTTACCCTATAGAGGTATTTTG
1 GTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCA
* * * * *
32777321 GACATTCTACCCTATAGAGGTATTTCGGTCATTTTACCCTATAGGGGAATTTC-
1 GTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCA
* * * * * *
32777374 GATTACTTTACCTTATTGGGGTATTTCGGTCATTTTACCCTATAAGGGCATTTTA
1 G-TCATTTTACC-TATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCA
* *
32777429 GTTATTTTACCTATGGGGGTATTTTGGTCATTTTACC
1 GTCATTTTACCTATGGGGGTATTTCGGTCATTTTACC
32777466 TATTTTAGGG
Statistics
Matches: 165, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
53 27 0.16
54 137 0.83
55 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (53 bp):
GTCATTTTACCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCA
Found at i:32777343 original size:81 final size:80
Alignment explanation
Indices: 32777206--32777465 Score: 299
Period size: 81 Copynumber: 3.2 Consensus size: 80
32777196 CAAATCAGGA
* *
32777206 TATTTATG-TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATAGGGGTATTTCAGTC
1 TATTT-TGATCATTTTACCCTATAGGGGTATTTCGGTCATTCTACCCTATAGAGGTATTTCAGTC
*
32777270 ATTTTATCCTTTGGGGG
65 ATTTTA-CCTATGGGGG
* * * *
32777287 TATTTTGATCATTTTACCCTATAGAGGTATTTTGGACATTCTACCCTATAGAGGTATTTCGGTCA
1 TATTTTGATCATTTTACCCTATAGGGGTATTTCGGTCATTCTACCCTATAGAGGTATTTCAGTCA
*
32777352 TTTTACCCTATAGGGG
66 TTTTA-CCTATGGGGG
* * * * * * * * * *
32777368 AATTTCGATTACTTTACCTTATTGGGGTATTTCGGTCATTTTACCCTATA-AGGGCATTTTAGTT
1 TATTTTGATCATTTTACCCTATAGGGGTATTTCGGTCATTCTACCCTATAGA-GGTATTTCAGTC
32777432 ATTTTACCTATGGGGG
65 ATTTTACCTATGGGGG
*
32777448 TATTTTGGTCATTTTACC
1 TATTTTGATCATTTTACC
32777466 TATTTTAGGG
Statistics
Matches: 148, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
80 25 0.17
81 123 0.83
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (80 bp):
TATTTTGATCATTTTACCCTATAGGGGTATTTCGGTCATTCTACCCTATAGAGGTATTTCAGTCA
TTTTACCTATGGGGG
Found at i:32786184 original size:435 final size:435
Alignment explanation
Indices: 32785374--32786243 Score: 1704
Period size: 435 Copynumber: 2.0 Consensus size: 435
32785364 CCCTCAACTT
32785374 CCTTGATTTTCTCCTAAAATCCCTCCTCAAATCTCTCCACCTGATCACAACTCCCCTCAACCATT
1 CCTTGATTTTCTCCTAAAATCCCTCCTCAAATCTCTCCACCTGATCACAACTCCCCTCAACCATT
*
32785439 AAATTTGAAATCTCCTCAACCACTTCAGTGTTTTAGTCAAACTCCAACACTCCCTCCACAGCTCA
66 AAATTTGAAATCTCCTCAACCACTTCAGTGTTTTACTCAAACTCCAACACTCCCTCCACAGCTCA
32785504 GCAGTAAAATAAACACTCTCTTTCCTCCAGCAAGATTCGAACCTTAGACCACTAGCATAGGTAAC
131 GCAGTAAAATAAACACTCTCTTTCCTCCAGCAAGATTCGAACCTTAGACCACTAGCATAGGTAAC
32785569 ACGCCACTTACCCCTTAGACCAGCAAGCTTTTTATGTCATGCTTTACCAACAATAATTTAAAAGC
196 ACGCCACTTACCCCTTAGACCAGCAAGCTTTTTATGTCATGCTTTACCAACAATAATTTAAAAGC
32785634 CTGCTAACCATAGGCAAGGCTTTCTTTCCTTAAAAACAAAATTTTCTGCACAAGCCCAGGCTTGA
261 CTGCTAACCATAGGCAAGGCTTTCTTTCCTTAAAAACAAAATTTTCTGCACAAGCCCAGGCTTGA
32785699 ACCCAAGACTTCTCAGACACTCCCAAACACACCCGAATCACTTAACCACTAAAGCAAACAAGTAG
326 ACCCAAGACTTCTCAGACACTCCCAAACACACCCGAATCACTTAACCACTAAAGCAAACAAGTAG
32785764 TTGTGTTACAAACATGCAAAAATAAATACTTGGACTTTTAGGGCC
391 TTGTGTTACAAACATGCAAAAATAAATACTTGGACTTTTAGGGCC
* *
32785809 CCTTGATTTTCTCCTAAAATCCCTTCTCAAATCTCTCCACTTGATCACAACTCCCCTCAACCATT
1 CCTTGATTTTCTCCTAAAATCCCTCCTCAAATCTCTCCACCTGATCACAACTCCCCTCAACCATT
*
32785874 AAATTTGAAATCTCCTCAACCACTTCAGTGTTTTCCTCAAACTCCAACACTCCCTCCACAGCTCA
66 AAATTTGAAATCTCCTCAACCACTTCAGTGTTTTACTCAAACTCCAACACTCCCTCCACAGCTCA
32785939 GCAGTAAAATAAACACTCTCTTTCCTCCAGCAAGATTCGAACCTTAGACCACTAGCATAGGTAAC
131 GCAGTAAAATAAACACTCTCTTTCCTCCAGCAAGATTCGAACCTTAGACCACTAGCATAGGTAAC
32786004 ACGCCACTTACCCCTTAGACCAGCAAGCTTTTTATGTCATGCTTTACCAACAATAATTTAAAAGC
196 ACGCCACTTACCCCTTAGACCAGCAAGCTTTTTATGTCATGCTTTACCAACAATAATTTAAAAGC
32786069 CTGCTAACCATAGGCAAGGCTTTCTTTCCTTAAAAACAAAATTTTCTGCACAAGCCCAGGCTTGA
261 CTGCTAACCATAGGCAAGGCTTTCTTTCCTTAAAAACAAAATTTTCTGCACAAGCCCAGGCTTGA
32786134 ACCCAAGACTTCTCAGACACTCCCAAACACACCCGAATCACTTAACCACTAAAGCAAACAAGTAG
326 ACCCAAGACTTCTCAGACACTCCCAAACACACCCGAATCACTTAACCACTAAAGCAAACAAGTAG
32786199 TTGTGTTACAAACATGCAAAAATAAATACTTGGACTTTTAGGGCC
391 TTGTGTTACAAACATGCAAAAATAAATACTTGGACTTTTAGGGCC
32786244 TTACAATAAG
Statistics
Matches: 431, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
435 431 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (435 bp):
CCTTGATTTTCTCCTAAAATCCCTCCTCAAATCTCTCCACCTGATCACAACTCCCCTCAACCATT
AAATTTGAAATCTCCTCAACCACTTCAGTGTTTTACTCAAACTCCAACACTCCCTCCACAGCTCA
GCAGTAAAATAAACACTCTCTTTCCTCCAGCAAGATTCGAACCTTAGACCACTAGCATAGGTAAC
ACGCCACTTACCCCTTAGACCAGCAAGCTTTTTATGTCATGCTTTACCAACAATAATTTAAAAGC
CTGCTAACCATAGGCAAGGCTTTCTTTCCTTAAAAACAAAATTTTCTGCACAAGCCCAGGCTTGA
ACCCAAGACTTCTCAGACACTCCCAAACACACCCGAATCACTTAACCACTAAAGCAAACAAGTAG
TTGTGTTACAAACATGCAAAAATAAATACTTGGACTTTTAGGGCC
Found at i:32786875 original size:17 final size:18
Alignment explanation
Indices: 32786845--32786878 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32786835 CTTAATTAGA
*
32786845 ATAAAATATTAACAATTC
1 ATAAAATATGAACAATTC
32786863 ATAAAAT-TGAACAATT
1 ATAAAATATGAACAATT
32786879 AAATAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAAAATATGAACAATTC
Found at i:32786884 original size:18 final size:19
Alignment explanation
Indices: 32786838--32786884 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
32786828 CCAAAAACTT
*
32786838 AATTAGAATAAAATATTAAC
1 AATTA-AATAAAATATGAAC
*
32786858 AATT-CATAAAAT-TGAAC
1 AATTAAATAAAATATGAAC
32786875 AATTAAATAA
1 AATTAAATAA
32786885 TTAAATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
20 4 0.17
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTAAATAAAATATGAAC
Found at i:32800020 original size:41 final size:41
Alignment explanation
Indices: 32799840--32800026 Score: 257
Period size: 41 Copynumber: 4.6 Consensus size: 41
32799830 ACCGGCACTT
* * * * *
32799840 AGCCTACTAGACATAAAGTTTGATATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
* * *
32799881 AGCCTGCTAGAAGTAAAGTCTGGTATGTTTCACTGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
* *
32799922 AGCCTGCTAAACGTAATGTCTGGTATGTTTCATCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
* *
32799963 AGCCTGCTAGATGTAATGTCTGGTATGTTTCACCGGTATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
*
32800004 AGCCTGCTAGACGTAATGCCTGG
1 AGCCTGCTAGACGTAATGTCTGG
32800027 ATTACTTCAT
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
Found at i:32803433 original size:21 final size:20
Alignment explanation
Indices: 32803408--32803508 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 20
32803398 ATATTTGAGG
* *
32803408 ATTGAGGATTGAAAATTCGAA
1 ATTGAAGATTGAAAATT-AAA
*
32803429 ATTGAAAATTGAAAATTAAA
1 ATTGAAGATTGAAAATTAAA
*
32803449 ATTTGAAGATTGAAATTATAAA
1 A-TTGAAGATTGAAAAT-TAAA
***
32803471 ATTGGAA-ATTGGGGATTAAA
1 ATT-GAAGATTGAAAATTAAA
*
32803491 TATTGAAGATTGAGAATT
1 -ATTGAAGATTGAAAATT
32803509 TAGGAAGAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
20 10 0.16
21 46 0.72
22 8 0.12
ACGTcount: A:0.47, C:0.01, G:0.20, T:0.33
Consensus pattern (20 bp):
ATTGAAGATTGAAAATTAAA
Found at i:32803449 original size:6 final size:7
Alignment explanation
Indices: 32803415--32803481 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
32803405 AGGATTGAGG
32803415 ATTGAAA
1 ATTGAAA
32803422 ATTCG-AA
1 ATT-GAAA
32803429 ATTGAAA
1 ATTGAAA
32803436 ATTGAAA
1 ATTGAAA
32803443 ATT-AAA
1 ATTGAAA
*
32803449 ATTTGAAG
1 A-TTGAAA
32803457 ATTG-AA
1 ATTGAAA
*
32803463 ATTATAAA
1 ATT-GAAA
*
32803471 ATTGGAA
1 ATTGAAA
32803478 ATTG
1 ATTG
32803482 GGGATTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
6 9 0.18
7 31 0.63
8 9 0.18
ACGTcount: A:0.51, C:0.01, G:0.15, T:0.33
Consensus pattern (7 bp):
ATTGAAA
Found at i:32803464 original size:14 final size:14
Alignment explanation
Indices: 32803409--32803509 Score: 57
Period size: 14 Copynumber: 7.1 Consensus size: 14
32803399 TATTTGAGGA
*
32803409 TTGAGGATTGAAAAT
1 TTGAAGATTG-AAAT
* *
32803424 TCGAA-ATTGAAAA
1 TTGAAGATTGAAAT
* *
32803437 TTGAAAATTAAAAT
1 TTGAAGATTGAAAT
32803451 TTGAAGATTGAAAT
1 TTGAAGATTGAAAT
*
32803465 TAT-AAAATTGGAAA-
1 T-TGAAGATT-GAAAT
**
32803479 TTGGGGATT-AAAT
1 TTGAAGATTGAAAT
32803492 ATTGAAGATTGAGAAT
1 -TTGAAGATTGA-AAT
32803508 TT
1 TT
32803510 AGGAAGAAAG
Statistics
Matches: 64, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
12 3 0.05
13 8 0.12
14 39 0.61
15 11 0.17
16 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.34
Consensus pattern (14 bp):
TTGAAGATTGAAAT
Found at i:32803473 original size:42 final size:43
Alignment explanation
Indices: 32803427--32803508 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
32803417 TGAAAATTCG
32803427 AAATTGAAAATTGAAAATTAAA-ATTTGAAGATTGA-AATTATA
1 AAATTGAAAATTGAAAATTAAATA-TTGAAGATTGAGAATTATA
* ***
32803469 AAATTGGAAATTGGGGATTAAATATTGAAGATTGAGAATT
1 AAATTGAAAATTGAAAATTAAATATTGAAGATTGAGAATT
32803509 TAGGAAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 29 0.85
43 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (43 bp):
AAATTGAAAATTGAAAATTAAATATTGAAGATTGAGAATTATA
Found at i:32809739 original size:2 final size:2
Alignment explanation
Indices: 32809727--32809776 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
32809717 AGAAGTGAGC
* *
32809727 GA GA AA GA GA GA GA GA GT GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
32809769 AA GA GA GA
1 GA GA GA GA
32809777 CTATTTTAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (2 bp):
GA
Found at i:32828657 original size:146 final size:145
Alignment explanation
Indices: 32828471--32828804 Score: 437
Period size: 146 Copynumber: 2.3 Consensus size: 145
32828461 GGAAAAGTTT
* * *
32828471 TGATTTTTTTAAAAATAGAAAGTTTAGATTTTAAAAAATAAAAATAC-GTTTTTT-AGTCATTTT
1 TGATTTTTTT-AAAAGAGAAAGTTTAGATTTTGAAAAATAAAAAT-CTATTTTTTAAGTCATTTT
32828534 AAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCCAAATAAAAGTTT
64 AAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTT-AACTATTTCCAAAT-AAAGTTT
* *
32828599 TAATCTTTAAGAAAAATAG
127 AAATCTTTAAGAAAAATAA
32828618 TG-TTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTAAGTCATTTTA
1 TGATTTTTTTAAAA-GAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTAAGTCATTTTA
** * * *
32828682 AAGGAAAGTTTAAGTTTTTAAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAGTTTAAA
65 AAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTAACTATTTCCAAATAAAGTTTAAA
* *
32828747 TTTTTAAGAAAAGTAA
130 TCTTTAAGAAAAATAA
* *
32828763 TGATTTTTTCT-AAAGA-AAACTTT-GATTTTGCAAAAAAAAAAA
1 TGATTTTTT-TAAAAGAGAAAGTTTAGATTTTG-AAAAATAAAAA
32828805 ATCCGGCCAC
Statistics
Matches: 167, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
143 7 0.04
144 16 0.10
145 31 0.19
146 63 0.38
147 50 0.30
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.42
Consensus pattern (145 bp):
TGATTTTTTTAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTAAGTCATTTTAA
AGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTAACTATTTCCAAATAAAGTTTAAAT
CTTTAAGAAAAATAA
Found at i:32832073 original size:21 final size:21
Alignment explanation
Indices: 32832026--32832067 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32832016 AAAATCCTTG
*
32832026 TAATTTCTCTTTAACGAAATC
1 TAATTTCTCTTTAACAAAATC
*
32832047 TAATTTCTCTTTAATAAAATC
1 TAATTTCTCTTTAACAAAATC
32832068 AGATTTGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTTCTCTTTAACAAAATC
Found at i:32834407 original size:19 final size:17
Alignment explanation
Indices: 32834385--32834427 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
32834375 TGTTAATTTC
32834385 ATGAATTATATTATGTATG
1 ATGAATTATATT-TGT-TG
32834404 ATGAGA-TATATTTGTTG
1 ATGA-ATTATATTTGTTG
32834421 ATGAATT
1 ATGAATT
32834428 GAGAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.05
17 7 0.32
18 3 0.14
19 10 0.45
20 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (17 bp):
ATGAATTATATTTGTTG
Found at i:32842552 original size:12 final size:12
Alignment explanation
Indices: 32842511--32842553 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
32842501 TTGCCTAAAT
32842511 AAAAAGAACAACA
1 AAAAAGAA-AACA
*
32842524 AAACAACAAAACA
1 AAA-AAGAAAACA
*
32842537 AAAAAGAAACCA
1 AAAAAGAAAACA
32842549 AAAAA
1 AAAAA
32842554 ATAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 12 0.46
13 10 0.38
14 4 0.15
ACGTcount: A:0.79, C:0.16, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAACA
Found at i:32843029 original size:42 final size:42
Alignment explanation
Indices: 32842964--32843493 Score: 684
Period size: 42 Copynumber: 12.6 Consensus size: 42
32842954 ATTGCATTTA
* * * *
32842964 GAGGCCCATTTACTTTTCATTGCATTTAAAGATCTAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
* * *
32843006 GAGGTCCATTTACTTTTCGTTGCATTTAGAGGCCCAAGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
** * * *
32843048 GAGGTCTGTTTACTTTTCATTGCATTTAGAGGA-CTAAGTGTA
1 GAGGTCCATTTACTTTTCATTGCATTTAGA-GACCCAGGTGTG
* * *
32843090 GAGGTCTATTTACTTTTCATTGCATTTAGATATCCAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
* *
32843132 GAGGTCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
* * * *
32843174 GAGGTCCGTTTACTTTTCATTGCATTTAGAGGCGCAGGTATG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
* *
32843216 GAGGTCCATTCACTTTTCATTGCATTTAGAGACCTAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
* *
32843258 GAGGTCCATTCACTTTTCATTGCATTTAGAGACCTAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
*
32843300 GAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
* * * * **
32843342 GAGGTCTATTTGCTTTTTATTGCATTTAGAGGCTTAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
* * **
32843384 GAGGTCCATTTGCTTTTCATTGCATTTAGAGGCTTAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
*
32843426 GAGGTCCATTTGCTTTTCATTGCATTTAGAGACCCAGGTGTG
1 GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
** *
32843468 GAGGTCTGTTTAATTTTCATTGCATT
1 GAGGTCCATTTACTTTTCATTGCATT
32843494 GTATATGAAG
Statistics
Matches: 436, Mismatches: 50, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
41 1 0.00
42 434 1.00
43 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.38
Consensus pattern (42 bp):
GAGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGTGTG
Found at i:32844323 original size:18 final size:19
Alignment explanation
Indices: 32844276--32844324 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
32844266 CAAATTTTCT
32844276 TTTTTTTAAAAATGTTTGA
1 TTTTTTTAAAAATGTTTGA
*** *
32844295 TTTTGGGAAAAGT-TTTGA
1 TTTTTTTAAAAATGTTTGA
32844313 TTTTTTTAAAAA
1 TTTTTTTAAAAA
32844325 AAGAGAATGT
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTTTTTTAAAAATGTTTGA
Found at i:32844509 original size:147 final size:147
Alignment explanation
Indices: 32844313--32844581 Score: 378
Period size: 147 Copynumber: 1.8 Consensus size: 147
32844303 AAAGTTTTGA
* * ** *
32844313 TTTTTTTAAAAAAAGAGAATGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCTTTTTAA
1 TTTTTTTAAAAAAAGAGAAAGTTCAGATTTTAAAAAATAAAAATATGTTTTTCAAGTCATTTTAA
* * ** *
32844378 GGGAAAGTTTAAAATTTTTAAAACAATTTTTTTATTTTTTTCAACTATTTCAAAATAAAATTTTT
66 AGGAAAGTTTAAAA-TGTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAATTTTT
32844443 AATCTTTAAGAAATATAG
130 AATCTTTAAGAAATATAG
* * * *
32844461 TTTTTTT-TAAAAGGAGAAAGTTCAGATTTTGAAAAATAAAAATCTGTTTTTCAAGTCATTTTAA
1 TTTTTTTAAAAAAAGAGAAAGTTCAGATTTTAAAAAATAAAAATATGTTTTTCAAGTCATTTTAA
* *
32844525 AGGAAAGTTTAAAATGTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAA
66 AGGAAAGTTTAAAATGTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAA
32844582 TTTTTTGAGT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
146 37 0.35
147 61 0.58
148 7 0.07
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (147 bp):
TTTTTTTAAAAAAAGAGAAAGTTCAGATTTTAAAAAATAAAAATATGTTTTTCAAGTCATTTTAA
AGGAAAGTTTAAAATGTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAATTTTTA
ATCTTTAAGAAATATAG
Found at i:32844613 original size:147 final size:149
Alignment explanation
Indices: 32844301--32844615 Score: 372
Period size: 147 Copynumber: 2.1 Consensus size: 149
32844291 TTGATTTTGG
* * * *
32844301 GAAAAGTTTTGATTTTTTTAAAAAAAGAGAATGTTTAGATTTTAAAAAATAAAAATATGTTTTTT
1 GAAAAG-TATGATTTTTTT-AAAAAAGAGAAAGTTCAGATTTTAAAAAATAAAAATATGTTTTTC
* * * * ** *
32844366 TAGTCTTTTTAAGGGAAAGTTTAAAATTTTTAAAACAATTTTTTTATTTTTTTCAACTATTTCAA
64 AAGTCATTTTAAAGGAAAGTTTAAAATTGTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAA
32844431 AATAAAATTTTTAATCTTTAA
129 AATAAAATTTTTAATCTTTAA
* * * *
32844452 G-AAA-TAT-AGTTTTTTTTAAAAGGAGAAAGTTCAGATTTTGAAAAATAAAAATCTGTTTTTCA
1 GAAAAGTATGA-TTTTTTTAAAAAAGAGAAAGTTCAGATTTTAAAAAATAAAAATATGTTTTTCA
* *
32844514 AGTCATTTTAAAGGAAAGTTTAAAA-TGTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCGAA
65 AGTCATTTTAAAGGAAAGTTTAAAATTGTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAA
* *
32844578 AT-AATTTTTTGAGT-TTTAA
130 ATAAAATTTTT-AATCTTTAA
32844597 GAAAAGTAATGATTTTTTT
1 GAAAAGT-ATGATTTTTTT
32844616 CTAAAGAAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
145 13 0.09
146 40 0.29
147 63 0.45
148 18 0.13
149 1 0.01
150 3 0.02
151 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (149 bp):
GAAAAGTATGATTTTTTTAAAAAAGAGAAAGTTCAGATTTTAAAAAATAAAAATATGTTTTTCAA
GTCATTTTAAAGGAAAGTTTAAAATTGTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAA
TAAAATTTTTAATCTTTAA
Found at i:32845218 original size:10 final size:10
Alignment explanation
Indices: 32845184--32845219 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
32845174 CACTTGTATA
32845184 ATTTTTATTT
1 ATTTTTATTT
*
32845194 ATTCTTATTT
1 ATTTTTATTT
32845204 CATTTTTATTT
1 -ATTTTTATTT
32845215 ATTTT
1 ATTTT
32845220 CATGTCTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:32845968 original size:3 final size:3
Alignment explanation
Indices: 32845962--32845993 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
32845952 TTATTAATTA
32845962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32845994 AGGATCGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32846776 original size:20 final size:20
Alignment explanation
Indices: 32846753--32846796 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
32846743 AAATTACAAA
*
32846753 AAAAAATCAAATTAATTTTC
1 AAAAAATCAAAATAATTTTC
* * *
32846773 AAAAATTGAAAATAATTTTT
1 AAAAAATCAAAATAATTTTC
32846793 AAAA
1 AAAA
32846797 TTTAAAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTC
Found at i:32846815 original size:19 final size:19
Alignment explanation
Indices: 32846765--32846824 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
32846755 AAAATCAAAT
*
32846765 TAATTTTCAAAAATTGAAAA
1 TAATTTT-AAAAATTTAAAA
*
32846785 TAATTTTTAAAATTTAAAA
1 TAATTTTAAAAATTTAAAA
32846804 T-ATTTATAAAAATTCTAAAA
1 TAATTT-TAAAAATT-TAAAA
32846824 T
1 T
32846825 TTGTTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.11
19 18 0.51
20 13 0.37
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
TAATTTTAAAAATTTAAAA
Found at i:32851291 original size:83 final size:83
Alignment explanation
Indices: 32851152--32851318 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
32851142 TACCAATGAA
*
32851152 ATAATTGTAACATCTATCAAAAGTGCTAGAAAACTAAACCCATAAAATTTCATGAGGACCACAGT
1 ATAATTATAACATCTATCAAAAGTGCTAGAAAACTAAACCCATAAAATTTCATGAGGACCACAGT
32851217 AATAATCGATCAAAGTCT
66 AATAATCGATCAAAGTCT
32851235 ATAATTATAACATCTATCAAAAGTGCTAGAAAACTAAACCCATAAAATTTCATGAGGACCACAGT
1 ATAATTATAACATCTATCAAAAGTGCTAGAAAACTAAACCCATAAAATTTCATGAGGACCACAGT
32851300 AATAATCGATCAAAGTCT
66 AATAATCGATCAAAGTCT
32851318 A
1 A
32851319 ACCACATTGC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (83 bp):
ATAATTATAACATCTATCAAAAGTGCTAGAAAACTAAACCCATAAAATTTCATGAGGACCACAGT
AATAATCGATCAAAGTCT
Found at i:32865822 original size:24 final size:24
Alignment explanation
Indices: 32865778--32865824 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32865768 TTACACCAAC
**
32865778 CAAATGCACCTATTTTCATGCATT
1 CAAATGCACCTATCATCATGCATT
32865802 CAAATGGCACCTATCAT-ATGCAT
1 CAAAT-GCACCTATCATCATGCAT
32865825 ATACAAGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (24 bp):
CAAATGCACCTATCATCATGCATT
Found at i:32884460 original size:21 final size:21
Alignment explanation
Indices: 32884434--32884475 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32884424 TGGAATGGAA
*
32884434 CAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTACGAGCTTCTGTT
32884455 CAGCTCTTACGAGCTTCTGTT
1 CAGCTCTTACGAGCTTCTGTT
32884476 GGCGTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
CAGCTCTTACGAGCTTCTGTT
Found at i:32884512 original size:39 final size:40
Alignment explanation
Indices: 32884455--32884642 Score: 222
Period size: 39 Copynumber: 4.7 Consensus size: 40
32884445 AGCTTCTGTT
* *
32884455 CAGCTCTTACGAGCTTCTGTTGGCGTGTTTTAGG-TGGAC
1 CAGCTCTTATGAGCTTCTGTTGGCGTGTTTTCGGTTGGAC
* * *
32884494 CAACTCTTATGAGCTTCTGTTTGGCGT-ATTTCGGTTGGAT
1 CAGCTCTTATGAGCTTCTG-TTGGCGTGTTTTCGGTTGGAC
* * *
32884534 CAGCTCTTATGAACTTCTGTTGGCATG-TTTCGGGTGGAC
1 CAGCTCTTATGAGCTTCTGTTGGCGTGTTTTCGGTTGGAC
* *
32884573 CAGCTCTTATGAGCTTCTGTTTG-GTGTATTTCGGTTGGAT
1 CAGCTCTTATGAGCTTCTGTTGGCGTGT-TTTCGGTTGGAC
*
32884613 CAGCTCTTATGAGCTTCTGTCTGGTGTGTT
1 CAGCTCTTATGAGCTTCTGT-TGGCGTGTT
32884643 CGGTCTAGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 59 0.47
40 58 0.46
41 3 0.02
42 4 0.03
ACGTcount: A:0.13, C:0.19, G:0.28, T:0.40
Consensus pattern (40 bp):
CAGCTCTTATGAGCTTCTGTTGGCGTGTTTTCGGTTGGAC
Found at i:32884541 original size:40 final size:40
Alignment explanation
Indices: 32884454--32884632 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
32884444 GAGCTTCTGT
* * *
32884454 TCAGCTCTTACGAGCTTCTG-TTGGCGTGTTTTAGG-TGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGT-ATTTCGGTTGGA
* *
32884493 CCAACTCTTATGAGCTTCTGTTTGGCGTATTTCGGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGTTGGA
* * * *
32884533 TCAGCTCTTATGAACTTCTG-TTGGCATGTTTCGGGTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGTTGGA
* *
32884572 CCAGCTCTTATGAGCTTCTGTTTGGTGTATTTCGGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGTTGGA
32884612 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
32884633 CTGGTGTGTT
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 56 0.47
40 63 0.53
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCGTATTTCGGTTGGA
Found at i:32884585 original size:79 final size:79
Alignment explanation
Indices: 32884454--32884632 Score: 295
Period size: 79 Copynumber: 2.3 Consensus size: 79
32884444 GAGCTTCTGT
* * *
32884454 TCAGCTCTTACGAGCTTCTGTTGGCGTGTTTTAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
1 TCAGCTCTTATGAGCTTCTGTTGGCATGTTTCAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
32884519 GTATTTCGGTTGGA
66 GTATTTCGGTTGGA
* * * *
32884533 TCAGCTCTTATGAACTTCTGTTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGTTTGGT
1 TCAGCTCTTATGAGCTTCTGTTGGCATGTTTCAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
32884598 GTATTTCGGTTGGA
66 GTATTTCGGTTGGA
32884612 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
32884633 CTGGTGTGTT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 92 1.00
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (79 bp):
TCAGCTCTTATGAGCTTCTGTTGGCATGTTTCAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
GTATTTCGGTTGGA
Found at i:32885576 original size:16 final size:17
Alignment explanation
Indices: 32885543--32885576 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
32885533 CTTACAGATT
32885543 ATTGGAAGCTTGGTCGG
1 ATTGGAAGCTTGGTCGG
32885560 ATTGGAAGCTT-GTCGG
1 ATTGGAAGCTTGGTCGG
32885576 A
1 A
32885577 GATCTATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.21, C:0.12, G:0.38, T:0.29
Consensus pattern (17 bp):
ATTGGAAGCTTGGTCGG
Found at i:32891201 original size:27 final size:27
Alignment explanation
Indices: 32891171--32891348 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32891161 ATATTGAGTC
* * * *
32891171 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32891198 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32891225 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32891253 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32891280 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32891307 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32891334 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32891349 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32891310 original size:82 final size:81
Alignment explanation
Indices: 32891192--32891347 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32891182 TGCTATATAA
* *
32891192 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32891257 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32891274 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32891338 CACTTAGTGC
65 CACTTAGTGC
32891348 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32901306 original size:15 final size:15
Alignment explanation
Indices: 32901286--32901329 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
32901276 TTAGTCGGGC
32901286 TAGGTTAATTGGGTT
1 TAGGTTAATTGGGTT
*
32901301 TAGG-T--TTGGG-C
1 TAGGTTAATTGGGTT
32901312 TAGGTTAATTGGGTT
1 TAGGTTAATTGGGTT
32901327 TAG
1 TAG
32901330 TGGGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 4 0.17
12 6 0.26
14 6 0.26
15 7 0.30
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.43
Consensus pattern (15 bp):
TAGGTTAATTGGGTT
Found at i:32901917 original size:44 final size:42
Alignment explanation
Indices: 32901869--32902005 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 42
32901859 CTTTAAAGGT
* **
32901869 ATAAGATTCATCGTTTTAATCCACTCCACTACAACTTCAGGGAG
1 ATAAGATT-ATCG-TTCAATCTGCTCCACTACAACTTCAGGGAG
*
32901913 ATAAGATTAGTAGCTTCAATCTGCTCCAC-AGCAACTTCAGGGAG
1 ATAAGATTA-TCG-TTCAATCTGCTCCACTA-CAACTTCAGGGAG
*
32901957 ATAAGATTGGTATC-TTCAATTTGCTCCACTACAACTTCAGGGAG
1 ATAAGA-T--TATCGTTCAATCTGCTCCACTACAACTTCAGGGAG
32902001 ATAAG
1 ATAAG
32902006 GTTTGTTATC
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
43 2 0.03
44 73 0.91
45 2 0.03
46 1 0.01
47 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
ATAAGATTATCGTTCAATCTGCTCCACTACAACTTCAGGGAG
Found at i:32902030 original size:45 final size:44
Alignment explanation
Indices: 32901892--32902030 Score: 190
Period size: 44 Copynumber: 3.1 Consensus size: 44
32901882 TTTTAATCCA
* * * *
32901892 CTCCACTACAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGGTTTGTATCTTCAATTTG
* *
32901936 CTCCAC-AGCAACTTCAGGGAGATAAGATTGGTATCTTCAATTTG
1 CTCCACTA-CAACTTCAGGGAGATAAGGTTTGTATCTTCAATTTG
32901980 CTCCACTACAACTTCAGGGAGATAAGGTTTGTTATCTTCAATTTG
1 CTCCACTACAACTTCAGGGAGATAAGGTTTG-TATCTTCAATTTG
*
32902025 TTCCAC
1 CTCCAC
32902031 AGGGAGATAA
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
43 1 0.01
44 66 0.77
45 19 0.22
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTACAACTTCAGGGAGATAAGGTTTGTATCTTCAATTTG
Found at i:32902305 original size:44 final size:44
Alignment explanation
Indices: 32902257--32902579 Score: 318
Period size: 44 Copynumber: 7.4 Consensus size: 44
32902247 ATTTTAATCC
* *
32902257 GCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCGTCT
1 GCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTAGTCT
** * * * * *
32902301 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATAC---AATCT
1 GCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTAGTCT
* * *** * * *
32902342 GCTCGACTGCAACTTCAAAGAGATAAGATCCATGAT-TTTAATCC
1 GCTCCACTGCAACTTCAAAGAGATAGGATTGGT-TTCTTTAGTCT
* *
32902386 GCTCCACTGCAACTTCAAAGAGATAGGATTGGTGTCTTTCGTCT
1 GCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTAGTCT
* *
32902430 GCTCCACTGCAACTTCAAAGAGATAGGATTGGTGTCTTTCGTCT
1 GCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTAGTCT
* * *
32902474 GCTCCACTGCAACTTCAAAGAGATAAGATCT-GTGAT-TTTAATCT
1 GCTCCACTGCAACTTCAAAGAGATAGGAT-TGGT-TTCTTTAGTCT
** *
32902518 GCTCCAC-GTCAACTTCATGGAGATAGGATTGGTTTCTTTTGTCT
1 GCTCCACTG-CAACTTCAAAGAGATAGGATTGGTTTCTTTAGTCT
32902562 GCTCCACTGCAACTTCAA
1 GCTCCACTGCAACTTCAA
32902580 GGGGATAAGA
Statistics
Matches: 230, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
41 28 0.12
43 4 0.02
44 195 0.85
45 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTAGTCT
Found at i:32902519 original size:88 final size:88
Alignment explanation
Indices: 32902233--32902589 Score: 413
Period size: 88 Copynumber: 4.1 Consensus size: 88
32902223 AACTTAGAAT
* * *
32902233 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCG
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAAAGAGATAGGATTGGTGTCTTTCG
**
32902298 TCTGCTCCACTGCAACTTCAGGG
66 TCTGCTCCACTGCAACTTCAAAG
** * * *** *
32902321 AGATAAGA-CTG-GA-TACAATCTGCTCGACTGCAACTTCAAAGAGATAAGATCCATGAT-TTTA
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAAAGAGATAGGATTGGTG-TCTTTC
* *
32902382 ATCCGCTCCACTGCAACTTCAAAG
65 GTCTGCTCCACTGCAACTTCAAAG
* **
32902406 AGATAGGAT-TGGTG-TCTTTCGTCTGCTCCACTGCAACTTCAAAGAGATAGGATTGGTGTCTTT
1 AGATAAGATCT-GTGAT-TTTAATCTGCTCCACTGCAACTTCAAAGAGATAGGATTGGTGTCTTT
32902469 CGTCTGCTCCACTGCAACTTCAAAG
64 CGTCTGCTCCACTGCAACTTCAAAG
** * *
32902494 AGATAAGATCTGTGATTTTAATCTGCTCCAC-GTCAACTTCATGGAGATAGGATTGGTTTCTTTT
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTG-CAACTTCAAAGAGATAGGATTGGTGTCTTTC
*
32902558 GTCTGCTCCACTGCAACTTCAAGG
65 GTCTGCTCCACTGCAACTTCAAAG
*
32902582 GGATAAGA
1 AGATAAGA
32902590 CTTGCTTTTC
Statistics
Matches: 222, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
85 63 0.28
86 4 0.02
87 6 0.03
88 147 0.66
89 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (88 bp):
AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAAAGAGATAGGATTGGTGTCTTTCG
TCTGCTCCACTGCAACTTCAAAG
Found at i:32902531 original size:132 final size:129
Alignment explanation
Indices: 32902233--32902591 Score: 497
Period size: 132 Copynumber: 2.8 Consensus size: 129
32902223 AACTTAGAAT
*
32902233 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCG
1 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTCG
** *
32902298 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACAATCTGCTCGACTGCAACTTCAAAG
66 TCTGCTCCACTGCAACTTCAAAGAGATAAGACTGGATACAATCTGCTCCACTGCAACTTCAAAG
** *
32902362 AGATAAGATCCATGATTTTAATCCGCTCCACTGCAACTTCAAAGAGATAGGATTGGTGTCTTTCG
1 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTCG
* * * **
32902427 TCTGCTCCACTGCAACTTCAAAGAGATAGGATTGG-TGTCTTTCGTCTGCTCCACTGCAACTTCA
66 TCTGCTCCACTGCAACTTCAAAGAGATAAGACTGGAT-AC---AATCTGCTCCACTGCAACTTCA
32902491 AAG
127 AAG
* ** *
32902494 AGATAAGATCTGTGATTTTAATCTGCTCCAC-GTCAACTTCATGGAGATAGGATTGGTTTCTTTT
1 AGATAAGATCTGTGATTTTAATCCGCTCCACTG-CAACTTCAAAGAGATAGGATTGGTTTCTTTC
* *
32902558 GTCTGCTCCACTGCAACTTCAAGGGGATAAGACT
65 GTCTGCTCCACTGCAACTTCAAAGAGATAAGACT
32902592 TGCTTTTCTC
Statistics
Matches: 202, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
128 1 0.00
129 93 0.46
131 1 0.00
132 107 0.53
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (129 bp):
AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTTCG
TCTGCTCCACTGCAACTTCAAAGAGATAAGACTGGATACAATCTGCTCCACTGCAACTTCAAAG
Found at i:32913658 original size:6 final size:6
Alignment explanation
Indices: 32913647--32913680 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
32913637 TTTGGAAAGA
*
32913647 AAAAAT AAAAAT AAAAAT AAAAGT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
32913681 GATTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:32913681 original size:12 final size:12
Alignment explanation
Indices: 32913642--32913681 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
32913632 AAAATTTTGG
*
32913642 AAAGAAAAAATA
1 AAAGTAAAAATA
*
32913654 AAAATAAAAATA
1 AAAGTAAAAATA
32913666 AAAGTAAAAATA
1 AAAGTAAAAATA
32913678 AAAG
1 AAAG
32913682 ATTTAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (12 bp):
AAAGTAAAAATA
Found at i:32922524 original size:13 final size:14
Alignment explanation
Indices: 32922491--32922521 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
32922481 TGCAAATTAG
32922491 AAAAGAAAGAAATA
1 AAAAGAAAGAAATA
32922505 AAAAGAAAGAAATA
1 AAAAGAAAGAAATA
32922519 AAA
1 AAA
32922522 GAAGAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (14 bp):
AAAAGAAAGAAATA
Found at i:32923900 original size:7 final size:7
Alignment explanation
Indices: 32923890--32923927 Score: 67
Period size: 7 Copynumber: 5.3 Consensus size: 7
32923880 TCTCTATTGT
32923890 ATATTAC
1 ATATTAC
32923897 ATATTAC
1 ATATTAC
32923904 ATATTAC
1 ATATTAC
32923911 ATATTAC
1 ATATTAC
32923918 ATATTTAC
1 ATA-TTAC
32923926 AT
1 AT
32923928 TAAGATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (7 bp):
ATATTAC
Found at i:32924222 original size:25 final size:22
Alignment explanation
Indices: 32924190--32924247 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
32924180 TAGTTGAGGC
32924190 AATGTTGGTATGGTAGCTTAGCCT
1 AATGTTGGTAT-GT-GCTTAGCCT
32924214 AATGCTTGGTATGTGCTTAGCTTCT
1 AATG-TTGGTATGTGCTTAGC--CT
32924239 AAT-TTGGTA
1 AATGTTGGTA
32924248 ACTTTTGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 13 0.42
24 6 0.19
25 12 0.39
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (22 bp):
AATGTTGGTATGTGCTTAGCCT
Found at i:32925969 original size:56 final size:52
Alignment explanation
Indices: 32925873--32926168 Score: 279
Period size: 50 Copynumber: 5.8 Consensus size: 52
32925863 ATTTGGGTAA
* * *
32925873 AGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAGA-CATG
*
32925929 AGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCACCGAGAC--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
32925979 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG--ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
** * * * * *
32926029 AGAGGTCCCCCGTAAGACCATGTCTAGAACATGGCATGGGCACC--GATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
** * * * * * * *
32926079 AGAACTCCCATGTAAGACCATATCTAGGATATGACATTGGTA--G-TACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
** *
32926128 A-ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
32926169 TGTTATTATT
Statistics
Matches: 204, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
48 33 0.16
49 5 0.02
50 121 0.59
52 1 0.00
53 4 0.02
55 2 0.01
56 38 0.19
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
Found at i:32933464 original size:56 final size:50
Alignment explanation
Indices: 32933368--32933612 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 50
32933358 ATTTGGGTAA
*
32933368 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
32933424 AGAGGTCCCATGTAAGGCCATGT-TAGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCACCGAGACG
* *
32933474 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGAGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGACG
** * * * * * *
32933524 AGAACTCTCATATAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGACG
* ** * *
32933573 AAACATCCCAGGTAAGACCATGTCTGGGACATGGCTTTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
32933613 TGTGTTGTTA
Statistics
Matches: 161, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 75 0.47
51 3 0.02
52 1 0.01
53 4 0.02
55 3 0.02
56 37 0.23
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:32934506 original size:115 final size:115
Alignment explanation
Indices: 32934304--32934535 Score: 356
Period size: 115 Copynumber: 2.0 Consensus size: 115
32934294 GGTTCAGAAC
* **
32934304 AAACGCCGCTAAAGGTGATATATTACCGGTGTTTTGTAAAGAAACACCGCAAATTTCCTTTAACC
1 AAACGCCGCTAAAGGTGATATATTACCGGCGTTTTACAAAGAAACACCGCAAATTTCCTTTAACC
*
32934369 GTAACAAAGACGGTGCCGTTTTGTTGTTTGCTTTTTGTGGCGCATTTGAA
66 GTAACAAAGACGGTGCCGTTTTGTTGTTTGCTTTTAGTGGCGCATTTGAA
* * * * *
32934419 AAACGCCGCTAAAGGTGATATCTTACTGGCGTTTTACGAAGAAACGCCGCAAATTTCCTTTAACT
1 AAACGCCGCTAAAGGTGATATATTACCGGCGTTTTACAAAGAAACACCGCAAATTTCCTTTAACC
* * *
32934484 GTAACAAAGACGGTGCGGTTTTGTTGTTTTCTTTTAGTGGCGCATTTTAA
66 GTAACAAAGACGGTGCCGTTTTGTTGTTTGCTTTTAGTGGCGCATTTGAA
32934534 AA
1 AA
32934536 TGCCACAAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (115 bp):
AAACGCCGCTAAAGGTGATATATTACCGGCGTTTTACAAAGAAACACCGCAAATTTCCTTTAACC
GTAACAAAGACGGTGCCGTTTTGTTGTTTGCTTTTAGTGGCGCATTTGAA
Found at i:32934716 original size:72 final size:72
Alignment explanation
Indices: 32934640--32934861 Score: 195
Period size: 74 Copynumber: 3.0 Consensus size: 72
32934630 ATGTGTGTTA
*
32934640 AACGGCTGCGTTTGTATTGATATTAGTGGTGCTTATTGTTAAGCGCCGCAAAAATGTTTAATGTT
1 AACGGCTGCGTTTGTATTGATATTAGTGGTGCTTATTGTTAAGCGCCACAAAAATGTTTAATGTT
32934705 ATCTTAT
66 ATCTTAT
* * * ** *
32934712 AACGG-TGCCGTTTTGT-TCGTGTTATTAGTGGTG-TTTTTACTCTAAGCGCCAC-AAGTTTTAC
1 AACGGCTG-CG-TTTGTAT--TGATATTAGTGGTGCTTATT-GT-TAAGCGCCACAAAAATGT--
* *
32934773 TCTAATG-TGTGTTA-
58 T-TAATGTTATCTTAT
* * * * *
32934787 AACGGCTGCGTTTTTACTAATATTAGTGGTGCTTATTGTTAAGTGCCACAAAAATGATTAATGTT
1 AACGGCTGCGTTTGTATTGATATTAGTGGTGCTTATTGTTAAGCGCCACAAAAATGTTTAATGTT
32934852 ATCTTAT
66 ATCTTAT
32934859 AAC
1 AAC
32934862 AGTGCCATTT
Statistics
Matches: 113, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
70 5 0.04
71 8 0.07
72 20 0.18
73 25 0.22
74 26 0.23
75 16 0.14
76 8 0.07
77 5 0.04
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.41
Consensus pattern (72 bp):
AACGGCTGCGTTTGTATTGATATTAGTGGTGCTTATTGTTAAGCGCCACAAAAATGTTTAATGTT
ATCTTAT
Found at i:32934770 original size:147 final size:147
Alignment explanation
Indices: 32934565--32934979 Score: 695
Period size: 147 Copynumber: 2.8 Consensus size: 147
32934555 GAGTTGAGGA
* *
32934565 AACGGTGCCATTTTGTCCTTGTTATTAGTGGCATTTTTACTCTAAGCGCCATAAGTTTTACTCTA
1 AACGGTGCCATTTTGTCCGTGTTATTAGTGGCATTTTTACTCTAAGCGCCACAAGTTTTACTCTA
* *
32934630 ATGTGTGTTAAACGGCTGCGTTTGTATTGATATTAGTGGTGCTTATTGTTAAGCGCCGCAAAAAT
66 ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGTGCTTATTGTTAAGCGCCACAAAAAT
*
32934695 GTTTAATGTTATCTTAT
131 GATTAATGTTATCTTAT
* * **
32934712 AACGGTGCCGTTTTGTTCGTGTTATTAGTGGTGTTTTTACTCTAAGCGCCACAAGTTTTACTCTA
1 AACGGTGCCATTTTGTCCGTGTTATTAGTGGCATTTTTACTCTAAGCGCCACAAGTTTTACTCTA
* * *
32934777 ATGTGTGTTAAACGGCTGCGTTTTTACTAATATTAGTGGTGCTTATTGTTAAGTGCCACAAAAAT
66 ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGTGCTTATTGTTAAGCGCCACAAAAAT
32934842 GATTAATGTTATCTTAT
131 GATTAATGTTATCTTAT
*
32934859 AACAGTGCCATTTTGTCCGTGTTATTAGTGGCATTTTTACTCTAAGCGCCACAAGTTTTACTCTA
1 AACGGTGCCATTTTGTCCGTGTTATTAGTGGCATTTTTACTCTAAGCGCCACAAGTTTTACTCTA
* *
32934924 ATGTGTGTTAAACGGCTACGTTTGTACTGATATTAGTGGCGCTTATTGTTAAGCGC
66 ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGTGCTTATTGTTAAGCGC
32934980 TGTAAATGAT
Statistics
Matches: 246, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
147 246 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (147 bp):
AACGGTGCCATTTTGTCCGTGTTATTAGTGGCATTTTTACTCTAAGCGCCACAAGTTTTACTCTA
ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGTGCTTATTGTTAAGCGCCACAAAAAT
GATTAATGTTATCTTAT
Found at i:32934791 original size:75 final size:74
Alignment explanation
Indices: 32934564--32934938 Score: 263
Period size: 73 Copynumber: 5.1 Consensus size: 74
32934554 CGAGTTGAGG
* ** *
32934564 AAACGGTGCCATTTTGTCCTTGTTATTAGTGGCATTTTTACTCTAAGCGCCATAAGTTTTACTCT
1 AAACGGTGCCGTTTTGTCC-TGTTATTAGTGGTGTTTTTACTCTAAGCGCCACAAGTTTTACTCT
32934629 AATGTGTGTT
65 AATGTGTGTT
** * * * * ** *
32934639 AAACGGCTG-CG-TTTGTATTGATATTAGTGGTGCTTATT-GT-TAAGCGCCGCAAAAATGT--T
1 AAACGG-TGCCGTTTTGTCCTGTTATTAGTGGTG-TTTTTACTCTAAGCGCCAC-AAGTTTTACT
* *
32934698 -TAATGTTATCTT
63 CTAATG-TGTGTT
*
32934710 ATAACGGTGCCGTTTTGTTCGTGTTATTAGTGGTGTTTTTACTCTAAGCGCCACAAGTTTTACTC
1 A-AACGGTGCCGTTTTG-TCCTGTTATTAGTGGTGTTTTTACTCTAAGCGCCACAAGTTTTACTC
32934775 TAATGTGTGTT
64 TAATGTGTGTT
* ** * * * *** *
32934786 AAACGGCTG-CGTTTT-TACTAATATTAGTGGTGCTTATT-GT-TAAGTGCCACAAAAATGA-T-
1 AAACGG-TGCCGTTTTGTCCTGTTATTAGTGGTG-TTTTTACTCTAAGCGCCACAAGTTTTACTC
* *
32934845 TAATGTTATCTT
64 TAATG-TGTGTT
* * **
32934857 ATAACAGTGCCATTTTGTCCGTGTTATTAGTGGCATTTTTACTCTAAGCGCCACAAGTTTTACTC
1 A-AACGGTGCCGTTTTGTCC-TGTTATTAGTGGTGTTTTTACTCTAAGCGCCACAAGTTTTACTC
32934922 TAATGTGTGTT
64 TAATGTGTGTT
32934933 AAACGG
1 AAACGG
32934939 CTACGTTTGT
Statistics
Matches: 220, Mismatches: 56, Indels: 48
0.68 0.17 0.15
Matches are distributed among these distances:
70 10 0.05
71 16 0.07
72 37 0.17
73 44 0.20
74 43 0.20
75 44 0.20
76 16 0.07
77 10 0.05
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (74 bp):
AAACGGTGCCGTTTTGTCCTGTTATTAGTGGTGTTTTTACTCTAAGCGCCACAAGTTTTACTCTA
ATGTGTGTT
Found at i:32934979 original size:72 final size:72
Alignment explanation
Indices: 32934607--32934979 Score: 253
Period size: 73 Copynumber: 5.1 Consensus size: 72
32934597 ATTTTTACTC
* * *
32934607 TAAGCGCCATAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTTTGTATTGATATTAGTGGTGC
1 TAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTACGTTTGTACTGATATTAGTGGTGC
32934672 TTATTGT
66 TTATTGT
* ** * * * * * *
32934679 TAAGCGCCGCAAAAATGT--T-TAATGTTATCTTATAACGG-TGCCGTTTTGTTCGTGTTATTAG
1 TAAGCGCCAC-AAGTTTTACTCTAATG-TGTGTTA-AACGGCT-ACG-TTTGTAC-TGATATTAG
* *
32934740 TGGTG-TTTTTACT
60 TGGTGCTTATT-GT
* * *
32934753 CTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTTTTTACTAATATTAGTGGTG
1 -TAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTACGTTTGTACTGATATTAGTGGTG
32934818 CTTATTGT
65 CTTATTGT
* *** * * * * * * *
32934826 TAAGTGCCACAAAAATGA-T-TAATGTTATCTTATAACAGTGCCA-TTTTGTCCGTGTTATTAGT
1 TAAGCGCCACAAGTTTTACTCTAATG-TGTGTTA-AAC-G-GCTACGTTTGTAC-TGATATTAGT
* *
32934888 -G-GCATTTTTACT
61 GGTGC-TTATT-GT
*
32934900 CTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTACGTTTGTACTGATATTAGTGGCG
1 -TAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTACGTTTGTACTGATATTAGTGGTG
32934965 CTTATTGT
65 CTTATTGT
32934973 TAAGCGC
1 TAAGCGC
32934980 TGTAAATGAT
Statistics
Matches: 220, Mismatches: 55, Indels: 52
0.67 0.17 0.16
Matches are distributed among these distances:
70 10 0.05
71 13 0.06
72 40 0.18
73 50 0.23
74 50 0.23
75 34 0.15
76 13 0.06
77 10 0.05
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (72 bp):
TAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTACGTTTGTACTGATATTAGTGGTGC
TTATTGT
Found at i:32935317 original size:173 final size:169
Alignment explanation
Indices: 32935023--32935363 Score: 506
Period size: 173 Copynumber: 2.0 Consensus size: 169
32935013 TCATTTTTTT
* *
32935023 CCCATACATTTTACCGAAACTTAAACCCCTATTGTGACTTATCCCCTAAAATCCCATTCTCCCCC
1 CCCATACATTTAACCGAAACTTAAACCCCTATTGTGACTTATCCCCCAAAATCCCATTCTCCCCC
* *
32935088 AAATCCCTAAATTTCCCCTAATCCAGATTTCCCCAAAGCCGACCTCTTGGAACGTTGCCATTTCC
66 AAATCCCTAAATTTCCCCTAATCCACATTTCCCCAAAGCCGACCTCTTGCAACGTTGCCATTTCC
32935153 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCTGC
131 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCTGC
*
32935192 CCCATACATTTAACTGAAACTTAAACCCCAACTATTGTGACTTATCCCCCAAAAT-CCATTTCTC
1 CCCATACATTTAACCGAAACTTAAA-CCC--CTATTGTGACTTATCCCCCAAAATCCCA-TTCTC
* * * * *
32935256 CCCGAAATTCTTAAAATTTCCCCTAATCCACATTTTCCCAAA-CCTGACCTCTTGCAACGTTGCT
62 CCCCAAATCCCT-AAATTTCCCCTAATCCACATTTCCCCAAAGCC-GACCTCTTGCAACGTTGCC
* *
32935320 GTTTCCTCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTG
125 ATTTCCTCTGGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCTG
32935364 TTGCAACAAT
Statistics
Matches: 154, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
169 23 0.15
170 3 0.02
171 3 0.02
172 39 0.25
173 86 0.56
ACGTcount: A:0.23, C:0.38, G:0.10, T:0.29
Consensus pattern (169 bp):
CCCATACATTTAACCGAAACTTAAACCCCTATTGTGACTTATCCCCCAAAATCCCATTCTCCCCC
AAATCCCTAAATTTCCCCTAATCCACATTTCCCCAAAGCCGACCTCTTGCAACGTTGCCATTTCC
TCTGGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCTGC
Found at i:32937024 original size:9 final size:9
Alignment explanation
Indices: 32937010--32937452 Score: 240
Period size: 9 Copynumber: 50.8 Consensus size: 9
32937000 TTTAATTTAA
*
32937010 TACATAATT
1 TACATAACT
32937019 TACATAACT
1 TACATAACT
*
32937028 CACATAACT
1 TACATAACT
* *
32937037 TACAAAAGT
1 TACATAACT
* *
32937046 CACAT-ACA
1 TACATAACT
32937054 TACATAACT
1 TACATAACT
*
32937063 TA-ATAAAT
1 TACATAACT
*
32937071 GGTACATAGCT
1 --TACATAACT
*
32937082 TACATAATT
1 TACATAACT
32937091 TACATAA--
1 TACATAACT
32937098 TA-ATAACT
1 TACATAACT
* *
32937106 TAAATAA-A
1 TACATAACT
32937114 TACATAACT
1 TACATAACT
*
32937123 TATATAA--
1 TACATAACT
32937130 TACATAA--
1 TACATAACT
32937137 TACATAACT
1 TACATAACT
*
32937146 TACATAATAAGT
1 TAC---ATAACT
32937158 TACATAATATCT
1 TACAT-A-A-CT
32937170 TACATAATAACT
1 TAC---ATAACT
32937182 TACATAA-T
1 TACATAACT
* *
32937190 AATACATACCC
1 --TACATAACT
*
32937201 TACATAAAT
1 TACATAACT
* *
32937210 TAAATAAGT
1 TACATAACT
32937219 TACATAA--
1 TACATAACT
* *
32937226 TACACAA-A
1 TACATAACT
* *
32937234 AACAAAAACT
1 TAC-ATAACT
32937244 TACATAACT
1 TACATAACT
32937253 TACATAA--
1 TACATAACT
*
32937260 TACAGAACT
1 TACATAACT
32937269 TACATAACT
1 TACATAACT
*
32937278 TATATAA--
1 TACATAACT
*
32937285 TACACAACT
1 TACATAACT
32937294 TACATAACT
1 TACATAACT
*
32937303 TACGT-A-T
1 TACATAACT
*
32937310 TACATAATT
1 TACATAACT
32937319 TACATAACT
1 TACATAACT
32937328 TACATAA--
1 TACATAACT
*
32937335 GACATAACT
1 TACATAACT
*
32937344 TACGTAA--
1 TACATAACT
*
32937351 TACATAATT
1 TACATAACT
32937360 TACATAACT
1 TACATAACT
32937369 TACATAA--
1 TACATAACT
*
32937376 GACATAACT
1 TACATAACT
*
32937385 TACATAAGT
1 TACATAACT
*
32937394 TTCATAA--
1 TACATAACT
*
32937401 TACACAACT
1 TACATAACT
*
32937410 TACACAACT
1 TACATAACT
*
32937419 TACACAACT
1 TACATAACT
32937428 TACATAACT
1 TACATAACT
32937437 TACATAACT
1 TACATAACT
32937446 TACATAA
1 TACATAA
32937453 TGTATAACTT
Statistics
Matches: 337, Mismatches: 58, Indels: 78
0.71 0.12 0.16
Matches are distributed among these distances:
6 4 0.01
7 60 0.18
8 23 0.07
9 213 0.63
10 11 0.03
11 5 0.01
12 17 0.05
13 1 0.00
14 1 0.00
15 2 0.01
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:32937107 original size:24 final size:25
Alignment explanation
Indices: 32937080--32937198 Score: 95
Period size: 24 Copynumber: 4.7 Consensus size: 25
32937070 TGGTACATAG
*
32937080 CTTACATAATTTACATA-ATAATAA
1 CTTACATAATATACATACATAATAA
* *
32937104 CTTAAATAA-ATACATAACTTATATAA
1 CTTACATAATATACAT-ACATA-ATAA
*
32937130 --TACATAATACATAACTTACATAATAA
1 CTTACATAAT--AT-ACATACATAATAA
* *
32937156 GTTACATAATAT-CTTACATAATAA
1 CTTACATAATATACATACATAATAA
32937180 CTTACATAATAATACATAC
1 CTTACATAAT-ATACATAC
32937199 CCTACATAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
23 5 0.07
24 36 0.47
25 4 0.05
26 14 0.18
27 6 0.08
28 11 0.14
ACGTcount: A:0.50, C:0.14, G:0.01, T:0.34
Consensus pattern (25 bp):
CTTACATAATATACATACATAATAA
Found at i:32937149 original size:16 final size:16
Alignment explanation
Indices: 32937007--32937463 Score: 146
Period size: 16 Copynumber: 27.9 Consensus size: 16
32936997 TATTTTAATT
*
32937007 TAATACATAATTTACA
1 TAATACATAACTTACA
32937023 TAACTCACATAACTTACA
1 TAA-T-ACATAACTTACA
* *
32937041 AAAGTCACAT-ACATACA
1 TAA-T-ACATAACTTACA
*
32937058 TAACTTA-ATAAATGGTACA
1 TAA--TACATAACT--TACA
* *
32937077 TAGCTTACATAATTTACA
1 TA--ATACATAACTTACA
*
32937095 TAATA-ATAACTTAAA
1 TAATACATAACTTACA
*
32937110 TAAATACATAACTTATA
1 T-AATACATAACTTACA
32937127 TAATACATAA--TACA
1 TAATACATAACTTACA
* **
32937141 TAACTTACATAA-TAAGT
1 TAA--TACATAACTTACA
*
32937158 TACATA-ATATCTTACA
1 TA-ATACATAACTTACA
* *
32937174 TAATA-ACTTACATA-A
1 TAATACA-TAACTTACA
* *
32937189 TAATACATACCCTACA
1 TAATACATAACTTACA
* *
32937205 TAAATTAAATAAGTTACA
1 T-AA-TACATAACTTACA
* **
32937223 TAATACACAA-AAACAA
1 TAATACATAACTTAC-A
*
32937239 AAACTTACATAACTTACA
1 TAA--TACATAACTTACA
*
32937257 TAATACA-GA---AC-
1 TAATACATAACTTACA
*
32937268 T--TACATAACTTATA
1 TAATACATAACTTACA
*
32937282 TAATACACAACTTACA
1 TAATACATAACTTACA
*
32937298 TAACTTACGT-A-TTACA
1 TAA--TACATAACTTACA
32937314 TAATTTACATAACTTACA
1 TAA--TACATAACTTACA
* *
32937332 TAAGACATAACTTACG
1 TAATACATAACTTACA
*
32937348 TAATACATAATTTACA
1 TAATACATAACTTACA
*
32937364 TAACTTACATAA--GACA
1 TAA--TACATAACTTACA
* *
32937380 TAACTTACATAAGTTTCA
1 TAA--TACATAACTTACA
*
32937398 TAATACACAACTTACA
1 TAATACATAACTTACA
* *
32937414 CAACTTACACAACTTACA
1 TAA--TACATAACTTACA
32937432 TAACTTACATAACTTACA
1 TAA--TACATAACTTACA
**
32937450 TAATGTATAACTTA
1 TAATACATAACTTA
32937464 TTCCTAAATC
Statistics
Matches: 333, Mismatches: 66, Indels: 84
0.69 0.14 0.17
Matches are distributed among these distances:
9 4 0.01
10 1 0.00
11 1 0.00
12 2 0.01
13 1 0.00
14 7 0.02
15 29 0.09
16 142 0.43
17 30 0.09
18 101 0.30
19 10 0.03
20 5 0.02
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATACATAACTTACA
Found at i:32937160 original size:12 final size:12
Alignment explanation
Indices: 32937117--32937191 Score: 91
Period size: 12 Copynumber: 6.3 Consensus size: 12
32937107 AAATAAATAC
*
32937117 ATAACTTATATA
1 ATAACTTACATA
*
32937129 AT-ACATA-ATA
1 ATAACTTACATA
32937139 CATAACTTACATA
1 -ATAACTTACATA
*
32937152 ATAAGTTACATA
1 ATAACTTACATA
*
32937164 ATATCTTACATA
1 ATAACTTACATA
32937176 ATAACTTACATA
1 ATAACTTACATA
32937188 ATAA
1 ATAA
32937192 TACATACCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.06
11 6 0.11
12 42 0.78
13 3 0.06
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:32937268 original size:25 final size:26
Alignment explanation
Indices: 32937240--32937452 Score: 203
Period size: 25 Copynumber: 8.4 Consensus size: 26
32937230 CAAAAACAAA
*
32937240 AACTTACATAACTTACATAA-TACAG
1 AACTTACATAACTTACATAATTACAT
* *
32937265 AACTTACATAACTTATATAA-TACAC
1 AACTTACATAACTTACATAATTACAT
*
32937290 AACTTACATAACTTACGT-ATTACAT
1 AACTTACATAACTTACATAATTACAT
* *
32937315 AATTTACATAACTTACATAA-GACAT
1 AACTTACATAACTTACATAATTACAT
*
32937340 AACTTACGTAA--TACATAATTTACAT
1 AACTTACATAACTTACATAA-TTACAT
*
32937365 AACTTACATAA--GACATAACTTACAT
1 AACTTACATAACTTACATAA-TTACAT
* * * *
32937390 AAGTTTCATAA--TACACAACTTACAC
1 AACTTACATAACTTACATAA-TTACAT
*
32937415 AACTTACACAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA-TTACAT
32937442 AACTTACATAA
1 AACTTACATAA
32937453 TGTATAACTT
Statistics
Matches: 157, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
23 7 0.04
24 1 0.01
25 126 0.80
26 1 0.01
27 22 0.14
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (26 bp):
AACTTACATAACTTACATAATTACAT
Found at i:32937313 original size:41 final size:40
Alignment explanation
Indices: 32937268--32937387 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 40
32937258 AATACAGAAC
* * *
32937268 TTACATAACTTATATAA-TACACAACTTACATAACTTACGTA
1 TTACATAATTTACATAACTACACAA--GACATAACTTACGTA
*
32937309 TTACATAATTTACATAACTTACATAAGACATAACTTACGTA
1 TTACATAATTTACATAAC-TACACAAGACATAACTTACGTA
* *
32937350 ATACATAATTTACATAACTTACATAAGACATAACTTAC
1 TTACATAATTTACATAAC-TACACAAGACATAACTTAC
32937388 ATAAGTTTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
41 66 0.92
43 6 0.08
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (40 bp):
TTACATAATTTACATAACTACACAAGACATAACTTACGTA
Found at i:32937410 original size:41 final size:40
Alignment explanation
Indices: 32937295--32937452 Score: 156
Period size: 41 Copynumber: 3.8 Consensus size: 40
32937285 TACACAACTT
* *
32937295 ACATAACTTACGTATTACATAATTTACATAACTTACATAAG
1 ACATAACTTACATAATACATAA-TTACATAACTTACATAAG
*
32937336 ACATAACTTACGTAATACATAATTTACATAACTTACATAAG
1 ACATAACTTACATAATACATAA-TTACATAACTTACATAAG
* * * *
32937377 ACATAACTTACATAAGTTTCATAA-TACACAACTTACACAACTT
1 ACATAACTTACATAA--TACATAATTACATAACTTACATAA--G
*
32937420 ACACAACTTACATAACTTACATAACTTACATAA
1 ACATAACTTACATAA--TACATAA-TTACATAA
32937453 TGTATAACTT
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
41 68 0.67
43 27 0.27
45 6 0.06
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (40 bp):
ACATAACTTACATAATACATAATTACATAACTTACATAAG
Found at i:32943366 original size:42 final size:42
Alignment explanation
Indices: 32943210--32943440 Score: 230
Period size: 42 Copynumber: 5.5 Consensus size: 42
32943200 TTTGTGAAAT
* * ** *
32943210 AAGCGCCGCTAAAGAACACTACTTTTAGCGACGTTTGTAGATG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTT-TTTACG
* * * * *
32943253 AAGCGCCGCTAAAGAACATTACTTTTATCAGCATTTTCTACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACG
*
32943295 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTACG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACG
* * * * * *
32943337 AAGCGCCACTATAGAATATTACTTTTAGCGGTGCTTTTTTCCT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCG-TTTTTTACG
* * * * *
32943380 AAGCACCGCTAAAGAACATGA-TCTTTAGCGGTGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTACG
32943422 AAGCGCCGCTAAAGAACAT
1 AAGCGCCGCTAAAGAACAT
32943441 GATCATTAGC
Statistics
Matches: 159, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
42 95 0.60
43 64 0.40
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACG
Found at i:32943389 original size:85 final size:85
Alignment explanation
Indices: 32943209--32943464 Score: 252
Period size: 85 Copynumber: 3.0 Consensus size: 85
32943199 GTTTGTGAAA
* * ** *
32943209 TAAGCGCCGCTAAAGAACACTACTTTTAGCGACGTTTGTAGATGAAGCGCCGCTAAAGAACATTA
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTT-TTTACGAAGCGCCGCTAAAGAACATTA
* * *
32943274 CTTTTATC--AGCATTTTCTACC
65 CTTTTAGCGGTGC-TTTT-TTCC
* * * *
32943295 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTACGAAGCGCCACTATAGAATATTAC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACGAAGCGCCGCTAAAGAACATTAC
32943359 TTTTAGCGGTGCTTTTTTCC
66 TTTTAGCGGTGCTTTTTTCC
* * * * * *
32943379 TAAGCACCGCTAAAGAACATGA-TCTTTAGCGGTGTTTTTTCCCAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTACGAAGCGCCGCTAAAGAACATTA
* *
32943443 -TCATTAGCGGTGTTTTTTTCC
65 CT-TTTAGCGGTGCTTTTTTCC
32943464 T
1 T
32943465 CATTGCCGCA
Statistics
Matches: 141, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
84 33 0.23
85 106 0.75
86 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACGAAGCGCCGCTAAAGAACATTAC
TTTTAGCGGTGCTTTTTTCC
Found at i:32943407 original size:43 final size:42
Alignment explanation
Indices: 32943360--32943460 Score: 166
Period size: 42 Copynumber: 2.4 Consensus size: 42
32943350 GAATATTACT
32943360 TTTAGCGGTGCTTTTTTCCTAAGCACCGCTAAAGAACATGATC
1 TTTAGCGGTG-TTTTTTCCTAAGCACCGCTAAAGAACATGATC
* *
32943403 TTTAGCGGTGTTTTTTCCCAAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGTGTTTTTTCCTAAGCACCGCTAAAGAACATGATC
*
32943445 ATTAGCGGTGTTTTTT
1 TTTAGCGGTGTTTTTT
32943461 TCCTCATTGC
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 45 0.82
43 10 0.18
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (42 bp):
TTTAGCGGTGTTTTTTCCTAAGCACCGCTAAAGAACATGATC
Found at i:32949878 original size:19 final size:20
Alignment explanation
Indices: 32949845--32949885 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
32949835 TGCCTAGCCG
*
32949845 TGTGGGGGTCAACACGCCCA
1 TGTGGGGGACAACACGCCCA
32949865 TGTGGGGGAC-ACACGCCCA
1 TGTGGGGGACAACACGCCCA
32949884 TG
1 TG
32949886 CAGAAGGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.15
Consensus pattern (20 bp):
TGTGGGGGACAACACGCCCA
Found at i:32952444 original size:21 final size:21
Alignment explanation
Indices: 32952420--32952481 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
32952410 TTAAGGGTAA
32952420 TTTTAAATATTTTAAATTTAT
1 TTTTAAATATTTTAAATTTAT
** * *
32952441 TTTTCTATATTTTTAATGTAT
1 TTTTAAATATTTTAAATTTAT
* *
32952462 CTTTGAATCATTTTTAAATT
1 TTTTAAAT-A-TTTTAAATT
32952482 AGCCCCAAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 22 0.73
22 1 0.03
23 7 0.23
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTAAATATTTTAAATTTAT
Found at i:32956267 original size:16 final size:16
Alignment explanation
Indices: 32956246--32956277 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32956236 CATGAGATAA
32956246 AATAAGATCATGTTGG
1 AATAAGATCATGTTGG
32956262 AATAAGATCATGTTGG
1 AATAAGATCATGTTGG
32956278 GAGAATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
AATAAGATCATGTTGG
Found at i:32962259 original size:14 final size:14
Alignment explanation
Indices: 32962240--32962271 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
32962230 AAAAGCAATG
32962240 TCTCTAACCTTATT
1 TCTCTAACCTTATT
32962254 TCTCTAACCTTATT
1 TCTCTAACCTTATT
32962268 TCTC
1 TCTC
32962272 CCCCAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (14 bp):
TCTCTAACCTTATT
Found at i:32965494 original size:35 final size:36
Alignment explanation
Indices: 32965455--32965524 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
32965445 CATTATAATC
* * *
32965455 ACTGTCGCATGCTATGAA-AACATAATCACATATTT
1 ACTGTCACATGCAATGAATAACATAACCACATATTT
* *
32965490 ACTGTCACATGGAATGAATAACATACCCACATATT
1 ACTGTCACATGCAATGAATAACATAACCACATATT
32965525 CTCTTTCACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (36 bp):
ACTGTCACATGCAATGAATAACATAACCACATATTT
Found at i:32986003 original size:40 final size:39
Alignment explanation
Indices: 32985919--32986103 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
32985909 TTGAATGATG
* * * *
32985919 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
32985959 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
32985999 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTAAA
*
32986038 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
32986079 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
32986104 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32986125 original size:79 final size:78
Alignment explanation
Indices: 32985956--32986136 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 78
32985946 CTAAGTGACC
* * *
32985956 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCAT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCAT
**
32986021 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * *
32986035 AAATCCGGGTTAAG-TCTCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGG
1 ATATCC-GGTTAAGATC-CGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGG
*
32986098 CATTTGAACGAG-TAGCT
62 CATTGGAACGAGTTA-CT
32986115 ATATCCGGTTAA-ATTCCGAAGG
1 ATATCCGGTTAAGA-TCCGAAGG
32986137 TACGTGATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
78 4 0.05
79 54 0.64
80 27 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:32991899 original size:14 final size:14
Alignment explanation
Indices: 32991888--32991933 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
32991878 ATTAATATTA
32991888 AATTTATAATATAT
1 AATTTATAATATAT
*
32991902 AATTTTTAATATAT
1 AATTTATAATATAT
32991916 AATTTGAT-ATATA-
1 AATTT-ATAATATAT
32991929 AATTT
1 AATTT
32991934 TTATTTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 5 0.17
14 23 0.79
15 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
AATTTATAATATAT
Found at i:32991910 original size:28 final size:27
Alignment explanation
Indices: 32991879--32991936 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
32991869 CACGTAGCGA
32991879 TTAATAT-TAAATTT-ATAATATATAATTT
1 TTAATATAT-AATTTGAT-ATATA-AATTT
32991907 TTAATATATAATTTGATATATAAATTT
1 TTAATATATAATTTGATATATAAATTT
32991934 TTA
1 TTA
32991937 TTTGGTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 8 0.29
28 17 0.61
29 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTAATATATAATTTGATATATAAATTT
Found at i:32991925 original size:12 final size:13
Alignment explanation
Indices: 32991879--32991934 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
32991869 CACGTAGCGA
32991879 TTAATAT-TAAATT
1 TTAATATAT-AATT
32991892 TATAATATATAATTT
1 T-TAATATATAA-TT
32991907 TTAATATATAA-T
1 TTAATATATAATT
*
32991919 TTGATATATAAATT
1 TTAATATAT-AATT
32991933 TT
1 TT
32991935 TATTTGGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 9 0.24
13 3 0.08
14 21 0.57
15 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
TTAATATATAATT
Found at i:32992005 original size:31 final size:29
Alignment explanation
Indices: 32991950--32992017 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 29
32991940 GGTGTAATTA
* **
32991950 TATACATAAAATTTGTATTGTAATTAATAT
1 TATACATAAAAGTTAAATTGTAATTAA-AT
* *
32991980 GTATACATAAAAGTTAAATTTTAATTTAAT
1 -TATACATAAAAGTTAAATTGTAATTAAAT
32992010 TATACATA
1 TATACATA
32992018 TTTAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 8 0.25
30 2 0.06
31 22 0.69
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (29 bp):
TATACATAAAAGTTAAATTGTAATTAAAT
Found at i:32993077 original size:12 final size:11
Alignment explanation
Indices: 32993055--32993083 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
32993045 ATTATCAGCA
32993055 TTTTTTCTTTT
1 TTTTTTCTTTT
32993066 TTTTTTCTTTT
1 TTTTTTCTTTT
32993077 TTTTTTC
1 TTTTTTC
32993084 AATGCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:32993818 original size:24 final size:22
Alignment explanation
Indices: 32993791--32993837 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 22
32993781 AAATTTTCAA
32993791 TAAATTAAAATAATTATTAAATAT
1 TAAATTAAAATAA-TA-TAAATAT
32993815 TAAATTAAAATAATATAAATAT
1 TAAATTAAAATAATATAAATAT
32993837 T
1 T
32993838 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.35
23 2 0.09
24 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTAAAATAATATAAATAT
Found at i:32997254 original size:99 final size:99
Alignment explanation
Indices: 32997083--32997278 Score: 338
Period size: 99 Copynumber: 2.0 Consensus size: 99
32997073 GGGATAAACC
* *
32997083 AAAAGAGGAGTTTCAAGGTTTAAACAAGACCAGGTAGCAACAACTTATTAATCTCAGAAGAGATT
1 AAAAGAAGAGTTTCAAGGTTCAAACAAGACCAGGTAGCAACAACTTATTAATCTCAGAAGAGATT
*
32997148 TTAAGAACTTGAAGATGTGGGAGGCTGAAATACT
66 TTAAGAACTTGAAGATGAGGGAGGCTGAAATACT
* *
32997182 AAAAGAAGAGTTTCAAGGTTCAGACAAGACCAGGTAGCAATAACTTATTAATCTCAGAAGAGATT
1 AAAAGAAGAGTTTCAAGGTTCAAACAAGACCAGGTAGCAACAACTTATTAATCTCAGAAGAGATT
*
32997247 TTGAGAACTTGAAGATGAGGGAGGCTGAAATA
66 TTAAGAACTTGAAGATGAGGGAGGCTGAAATA
32997279 GTGAAGCAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (99 bp):
AAAAGAAGAGTTTCAAGGTTCAAACAAGACCAGGTAGCAACAACTTATTAATCTCAGAAGAGATT
TTAAGAACTTGAAGATGAGGGAGGCTGAAATACT
Done.