Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 8 of 161
Found at i:2590215 original size:79 final size:81
Alignment explanation
Indices: 2590106--2590288 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
2590096 TACTCGTTCA
* * *
2590106 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
2590169 ATTTAGTAAC-TCGCAC
65 ATATAGTAACTTAGCAC
**
2590185 TAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGG
1 -AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
* *
2590248 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
2590265 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
2590289 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:2590288 original size:40 final size:40
Alignment explanation
Indices: 2590104--2590288 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
2590094 GCTACTCGTT
* * *
2590104 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
2590144 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
2590184 CTAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* * *
2590223 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
2590264 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2590289 CATCATTCGA
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 81 0.65
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:2591580 original size:23 final size:24
Alignment explanation
Indices: 2591528--2591585 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
2591518 AAAGGATGGA
*
2591528 CACATTTT-TTTTTCTTTTGTTTT
1 CACATTTTCTTTCTCTTTTGTTTT
*
2591551 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTTCTCTTTTGTTTT
2591576 C-CA-TTTCTTT
1 CACATTTTCTTT
2591586 ATTACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.19
25 14 0.45
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.71
Consensus pattern (24 bp):
CACATTTTCTTTCTCTTTTGTTTT
Found at i:2601754 original size:17 final size:18
Alignment explanation
Indices: 2601727--2601762 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
2601717 TAATAAATAT
2601727 ATGCATATTAATTTATTA
1 ATGCATATTAATTTATTA
2601745 ATGC-TATTAATTTATTA
1 ATGCATATTAATTTATTA
2601762 A
1 A
2601763 ACAAGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAATTTATTA
Found at i:2610378 original size:15 final size:16
Alignment explanation
Indices: 2610363--2610399 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2610353 TGCCTTATCA
2610363 CTTCCTTCCTCTTCAC
1 CTTCCTTCCTCTTCAC
*
2610379 CTT-CTTGCTCTTCAC
1 CTTCCTTCCTCTTCAC
2610394 CTTCCT
1 CTTCCT
2610400 AATGGGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.05, C:0.46, G:0.03, T:0.46
Consensus pattern (16 bp):
CTTCCTTCCTCTTCAC
Found at i:2611925 original size:17 final size:18
Alignment explanation
Indices: 2611903--2611937 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2611893 ACGATTCAAC
2611903 TTTTAATTAGT-TTTAAA
1 TTTTAATTAGTCTTTAAA
2611920 TTTTAATTAGTCTTTAAA
1 TTTTAATTAGTCTTTAAA
2611938 ACCAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTAATTAGTCTTTAAA
Found at i:2613717 original size:27 final size:27
Alignment explanation
Indices: 2613686--2613739 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
2613676 GTTATTGTTA
2613686 TACTTGGGTTCATGAACATGAGGATGG
1 TACTTGGGTTCATGAACATGAGGATGG
*
2613713 TACTTGGGTTCATGAACGTGAGGATGG
1 TACTTGGGTTCATGAACATGAGGATGG
2613740 ACTAACGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.11, G:0.35, T:0.30
Consensus pattern (27 bp):
TACTTGGGTTCATGAACATGAGGATGG
Found at i:2618624 original size:20 final size:20
Alignment explanation
Indices: 2618569--2618624 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2618559 AGTTTATACT
* * *
2618569 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
2618589 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
2618609 AAGTAAATGGAATGGT
1 AAGTAAATGGAATGGT
2618625 TCATAGTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:2620444 original size:23 final size:23
Alignment explanation
Indices: 2620418--2620476 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
2620408 TCCATATTCA
*
2620418 AAACATACCAAATCATGC-TTCTC
1 AAACATACCAAATCAT-CATCCTC
* *
2620441 AAACATATCAATTCATCATCCTC
1 AAACATACCAAATCATCATCCTC
2620464 AAATCATACCAAA
1 AAA-CATACCAAA
2620477 ATATACCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.03
23 21 0.72
24 7 0.24
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (23 bp):
AAACATACCAAATCATCATCCTC
Found at i:2622953 original size:43 final size:43
Alignment explanation
Indices: 2622887--2622973 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 43
2622877 AAATCGTACA
* *
2622887 ATGCCAACTTCCCAGACATGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACTTCCCAGACAGGGTCTTAC-TCGTAAACACATATCG
2622930 ATGCC-ACTGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCAACT-TCCCAGACAGGGTCTTACTCGTAAACACATATCG
2622973 A
1 A
2622974 AATCATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACTTCCCAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:2624563 original size:40 final size:40
Alignment explanation
Indices: 2624488--2624564 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
2624478 TTAGTGCCAC
* * *
2624488 ATATAACCGAAGCTATTCCAATTCGTACACTAAGTGCTAT
1 ATATAACCGAAGCTATTCCAATACGCACACCAAGTGCTAT
* *
2624528 ATATAGCCGAAGCTATCTCGAA-ACGCACACCAAGTGC
1 ATATAACCGAAGCTAT-TCCAATACGCACACCAAGTGC
2624565 CAACATAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ATATAACCGAAGCTATTCCAATACGCACACCAAGTGCTAT
Found at i:2626024 original size:28 final size:30
Alignment explanation
Indices: 2625993--2626053 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
2625983 ACTTAAGAAG
2625993 CAAATG-CTTCTAAAATAA-AA-AAAATTAA
1 CAAATGCCTT-TAAAATAATAAGAAAATTAA
2626021 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
2626051 CAA
1 CAA
2626054 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 14 0.47
29 5 0.17
30 11 0.37
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:2633539 original size:49 final size:47
Alignment explanation
Indices: 2633461--2633771 Score: 249
Period size: 48 Copynumber: 6.6 Consensus size: 47
2633451 AGATGCTGAC
*
2633461 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAGGCCGAT
1 GCCATGTCCTAGACA-GGTCTTACACTGGCTTTCATAT--TGAGGCCGAT
* * * * *
2633511 GCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATGGGTGTCAAT
1 GCCATGTCCTAGACAGGTCTTACACTGGCTTTCATAT-TGAG-GCCGAT
* * * * * * * *
2633560 GCCATGTCCTAGATAGGTCTTACACTGACATACA-A--CAAGCTGAC
1 GCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATTGAGGCCGAT
*
2633604 GCCATGTCCTAGACAGGTCTTACACTAGCTTATC-TATCTCGAGGCCGAT
1 GCCATGTCCTAGACAGGTCTTACACTGGCTT-TCATAT-T-GAGGCCGAT
* ** *
2633653 G-CATGTCCTAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTGAT
1 GCCATGTCCTAGACAGGTCTTACACTGGCTTTCATAT-T-GAGGCCGAT
* ** * *
2633701 G-CATGTCCCAGACATATCTTACACTGGCTCTCATATTGTGGCCGAT
1 GCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATTGAGGCCGAT
* *
2633747 G-CATGTCCCAGACATGTCTTACACT
1 GCCATGTCCTAGACAGGTCTTACACT
2633772 AGAACACAAA
Statistics
Matches: 211, Mismatches: 42, Indels: 20
0.77 0.15 0.07
Matches are distributed among these distances:
44 29 0.14
45 2 0.01
46 31 0.15
47 1 0.00
48 75 0.36
49 59 0.28
50 14 0.07
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (47 bp):
GCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATTGAGGCCGAT
Found at i:2640192 original size:7 final size:7
Alignment explanation
Indices: 2640180--2640209 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
2640170 AATTGTAATC
2640180 ATATGGT
1 ATATGGT
2640187 ATATGGT
1 ATATGGT
2640194 ATATGGT
1 ATATGGT
2640201 ATATGGT
1 ATATGGT
2640208 AT
1 AT
2640210 GATCATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (7 bp):
ATATGGT
Found at i:2640437 original size:38 final size:38
Alignment explanation
Indices: 2640319--2640443 Score: 135
Period size: 38 Copynumber: 3.3 Consensus size: 38
2640309 TAGGGTTTAG
*
2640319 CATATAGTATG-TGTTGATCATATAATGTATATTGTAAT
1 CATATAGTATGCT-TTGATCATATAGTGTATATTGTAAT
* * * ** * *
2640357 AATGTAGTATACTTTGATCATATAGTACAATATTATTAT
1 CATATAGTATGCTTTGATCATATAGT-GTATATTGTAAT
* *
2640396 CATATAGTATGCTTGGATCACATAGTGTATATTGTAAT
1 CATATAGTATGCTTTGATCATATAGTGTATATTGTAAT
2640434 CATATAGTAT
1 CATATAGTAT
2640444 ATGTAACATC
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
38 38 0.56
39 30 0.44
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.42
Consensus pattern (38 bp):
CATATAGTATGCTTTGATCATATAGTGTATATTGTAAT
Found at i:2648892 original size:4 final size:4
Alignment explanation
Indices: 2648847--2648872 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2648837 TTTGTCTTAG
2648847 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
2648873 AATCGGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:2649075 original size:18 final size:17
Alignment explanation
Indices: 2649045--2649078 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
2649035 GTTAAAAAAA
2649045 TAAATTTTTTAATTAAT
1 TAAATTTTTTAATTAAT
2649062 TAAATTTATTTAATTAA
1 TAAATTT-TTTAATTAA
2649079 AAATCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTTTTAATTAAT
Found at i:2650591 original size:21 final size:21
Alignment explanation
Indices: 2650565--2650611 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2650555 GAAAAATTGA
*
2650565 TATTATTTAAATCTCAAATGT
1 TATTATTGAAATCTCAAATGT
* *
2650586 TATTATTGATATTTCAAATGT
1 TATTATTGAAATCTCAAATGT
2650607 T-TTAT
1 TATTAT
2650612 AGTGTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (21 bp):
TATTATTGAAATCTCAAATGT
Found at i:2652880 original size:14 final size:14
Alignment explanation
Indices: 2652843--2652892 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2652833 AATTTTACTA
2652843 TATGTAATTAATTAT
1 TATGTAATTAATT-T
*
2652858 T-T-AAATTAATTT
1 TATGTAATTAATTT
*
2652870 TATGTAATTAATTA
1 TATGTAATTAATTT
*
2652884 TATTTAATT
1 TATGTAATT
2652893 TTTTGGTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.07
13 9 0.31
14 17 0.59
15 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (14 bp):
TATGTAATTAATTT
Found at i:2653317 original size:40 final size:39
Alignment explanation
Indices: 2653233--2653417 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
2653223 TCGAATGATG
* * * *
2653233 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGC-GAGTTACTAAA
* *
2653273 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
2653313 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
2653352 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
2653393 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
2653418 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 79 0.63
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:2653439 original size:79 final size:79
Alignment explanation
Indices: 2653286--2653450 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
2653276 GGACTAAGAT
* **
2653286 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
2653351 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
2653365 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
2653428 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
2653444 CCGAAGG
1 CCGAAGG
2653451 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:2661606 original size:40 final size:39
Alignment explanation
Indices: 2661415--2661599 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 39
2661405 TCGAATGATG
* *
2661415 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* * *
2661455 TCCGGACTAAGAT-CCAAAAGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
2661494 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTGAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
2661534 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
2661574 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2661600 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.26
40 82 0.67
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:2666201 original size:48 final size:47
Alignment explanation
Indices: 2666130--2666398 Score: 235
Period size: 49 Copynumber: 5.7 Consensus size: 47
2666120 CTTGTGTGCC
** *
2666130 AGTGTAAGACATGTCTGGGACATGGCATCAGTGTAGAGAATGAGCGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTAGAG-ATGAGAGCT
** * * *
2666178 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCTCGACGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTAGA-GATGAGAGCT
* * * * *
2666225 AGTGTAAGACGTGTCTGGGACA-CGCATC-GGCTA-AGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCCTAGAGATG-AGAGCT
* * *
2666269 AGTGTAAGACATGTTTGGGACAT-GCATCAGCACATATAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGC-C-TAGAGATGAGAGCT
* * * * *
2666317 AGTATAAGACCATGTTTGGGACATGGCATCAGCCTTGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTAGA-GATGAGAGCT
2666366 AGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGC
2666399 AACATATACC
Statistics
Matches: 180, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 29 0.16
45 2 0.01
46 4 0.02
47 41 0.23
48 41 0.23
49 54 0.30
50 8 0.04
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCCTAGAGATGAGAGCT
Found at i:2671106 original size:25 final size:25
Alignment explanation
Indices: 2671078--2671130 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
2671068 GATAACATCA
*
2671078 TTTTCAATC-TTTTCACTTGTTATCC
1 TTTTCAA-CATTTTAACTTGTTATCC
*
2671103 TTTTCAACATTTTAATTTGTTATCC
1 TTTTCAACATTTTAACTTGTTATCC
2671128 TTT
1 TTT
2671131 CTGAATAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTTCAACATTTTAACTTGTTATCC
Found at i:2675780 original size:24 final size:24
Alignment explanation
Indices: 2675753--2675808 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
2675743 AAGATATAAT
*
2675753 ATTTATTAGTACAATATATTTAAC
1 ATTTATTAGCACAATATATTTAAC
* *
2675777 ATTTATTAGCATAATATATTTGAC
1 ATTTATTAGCACAATATATTTAAC
*
2675801 ATTGATTA
1 ATTTATTA
2675809 CAATTAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATTTATTAGCACAATATATTTAAC
Found at i:2685188 original size:18 final size:17
Alignment explanation
Indices: 2685156--2685189 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2685146 GGCCTTAGCC
*
2685156 CATTACAGAATTAGAAA
1 CATTACAGAACTAGAAA
2685173 CATTATCAGAACTAGAA
1 CATTA-CAGAACTAGAA
2685190 TCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAACTAGAAA
Found at i:2685207 original size:6 final size:6
Alignment explanation
Indices: 2685177--2685301 Score: 60
Period size: 6 Copynumber: 20.3 Consensus size: 6
2685167 TAGAAACATT
* * * *
2685177 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
2685226 ATGAGA ATCAGA ATCAGA ATTAG- GTGCTAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT-C-AGA ATCAGA ATCAGA ATCAGA
* *
2685275 ATCAGGTA A-CAGA ATCAAA ATAAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
2685302 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 71 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:2685231 original size:31 final size:31
Alignment explanation
Indices: 2685194--2685289 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
2685184 CTAGAATCAA
*
2685194 AATGAGAATTAGAATCAGAATCAGGTGACAG
1 AATGAGAATCAGAATCAGAATCAGGTGACAG
*
2685225 AATGAGAATCAGAATCAGAATTAGGTG-CTAG
1 AATGAGAATCAGAATCAGAATCAGGTGAC-AG
* * *
2685256 AATTAGAATCAGAATCAGTATCAGGTAACAG
1 AATGAGAATCAGAATCAGAATCAGGTGACAG
2685287 AAT
1 AAT
2685290 CAAAATAAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.02
31 55 0.96
32 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (31 bp):
AATGAGAATCAGAATCAGAATCAGGTGACAG
Found at i:2685301 original size:31 final size:30
Alignment explanation
Indices: 2685198--2685301 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 30
2685188 AATCAAAATG
* *
2685198 AGAATTAGAATCAGAATCAGGTGACAGAATG
1 AGAATCAGAATCAGAATCAGGT-ACAGAATC
* * *
2685229 AGAATCAGAATCAGAATTAGGTGCTAGAATT
1 AGAATCAGAATCAGAATCAGGTAC-AGAATC
*
2685260 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGT-ACAGAATC
* *
2685291 AAAATAAGAAT
1 AGAATCAGAAT
2685302 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
30 1 0.02
31 59 0.97
32 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGGTACAGAATC
Found at i:2686194 original size:26 final size:27
Alignment explanation
Indices: 2686165--2686218 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2686155 TCACACAAGT
*
2686165 TAGTCATTT-ACGCACAAGGGGCAAAA
1 TAGTCATTTAACACACAAGGGGCAAAA
* *
2686191 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACAAGGGGCAAAA
2686218 T
1 T
2686219 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACAAGGGGCAAAA
Found at i:2686297 original size:27 final size:27
Alignment explanation
Indices: 2686223--2686310 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
2686213 CAAAATGGTA
* * *
2686223 ATTT-TACCCCACAAGGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * *
2686249 AATTCTACCCTACAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
*
2686276 ATTTCTACCCTACAAGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCAGT
*
2686303 AATTCTAC
1 ATTTCTAC
2686311 AACTTATCCA
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
26 3 0.06
27 47 0.94
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCAGT
Found at i:2695742 original size:24 final size:24
Alignment explanation
Indices: 2695679--2695730 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
2695669 CTTCTAGAAG
* *
2695679 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
2695703 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
2695727 ATTT
1 ATTT
2695731 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:2698156 original size:14 final size:15
Alignment explanation
Indices: 2698130--2698158 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2698120 TTCTATGCGA
2698130 AAAAAATGAGATGGT
1 AAAAAATGAGATGGT
2698145 AAAAAATG-GATGGT
1 AAAAAATGAGATGGT
2698159 GATCAAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.21
Consensus pattern (15 bp):
AAAAAATGAGATGGT
Found at i:2699628 original size:24 final size:24
Alignment explanation
Indices: 2699596--2699642 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2699586 TTCCTTTGAT
2699596 TAGTTCAAAAATAGAATTACTAAA
1 TAGTTCAAAAATAGAATTACTAAA
2699620 TAGTTCAAAAATAGAATTACTAA
1 TAGTTCAAAAATAGAATTACTAA
2699643 CCAGACCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (24 bp):
TAGTTCAAAAATAGAATTACTAAA
Found at i:2716405 original size:21 final size:21
Alignment explanation
Indices: 2716381--2716450 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
2716371 CACATATATC
2716381 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * *
2716402 ATGAGTTCAGAGGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
2716426 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
2716447 ATGA
1 ATGA
2716451 CTTCAGATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 4 0.11
23 4 0.11
24 10 0.28
25 2 0.06
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:2716419 original size:45 final size:44
Alignment explanation
Indices: 2716369--2716464 Score: 167
Period size: 45 Copynumber: 2.2 Consensus size: 44
2716359 CAAAACATGT
*
2716369 GTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 GTCACATATATCATGAACTCAGACCACAACTCAATGACTTCAGA
2716413 GGTCACATATATCATGAACTCAGACCACAACTCAATGACTTCAGA
1 -GTCACATATATCATGAACTCAGACCACAACTCAATGACTTCAGA
2716458 -TCACATA
1 GTCACATA
2716465 ATTCCTAGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 7 0.14
45 43 0.86
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (44 bp):
GTCACATATATCATGAACTCAGACCACAACTCAATGACTTCAGA
Found at i:2716435 original size:24 final size:23
Alignment explanation
Indices: 2716369--2716436 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 23
2716359 CAAAACATGT
2716369 GTCACATATATCATGAACTCAGA
1 GTCACATATATCATGAACTCAGA
* * **
2716392 -CCACA-A-CTCAATGAGTTCAGA
1 GTCACATATATC-ATGAACTCAGA
2716413 GGTCACATATATCATGAACTCAGA
1 -GTCACATATATCATGAACTCAGA
2716437 CCACAACTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 9
0.65 0.16 0.18
Matches are distributed among these distances:
20 2 0.06
21 10 0.31
22 4 0.12
23 4 0.12
24 10 0.31
25 2 0.06
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (23 bp):
GTCACATATATCATGAACTCAGA
Found at i:2716456 original size:21 final size:21
Alignment explanation
Indices: 2716387--2716462 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
2716377 TATCATGAAC
*
2716387 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGACT
* *
2716408 TCAGAGGTCACATATATC-ATGAAC-
1 TCAGA--CCACA-A-CTCAATG-ACT
2716432 TCAGACCACAACTCAATGACT
1 TCAGACCACAACTCAATGACT
*
2716453 TCAGATCACA
1 TCAGACCACA
2716463 TAATTCCTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 4 0.10
21 18 0.43
22 4 0.10
23 4 0.10
24 9 0.21
25 3 0.07
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (21 bp):
TCAGACCACAACTCAATGACT
Found at i:2725882 original size:43 final size:43
Alignment explanation
Indices: 2725835--2725922 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
2725825 CAATAAAAGA
* * *
2725835 AAGAAAAATAGATAGAACAGGTAAAATAGGAACACAATATATT
1 AAGAAAAATAGATAGAACAGGCAAAACAGAAACACAATATATT
* * * *
2725878 AAGAAAAATAGTTAGAATAGGCAAAACATAAACACTATATATT
1 AAGAAAAATAGATAGAACAGGCAAAACAGAAACACAATATATT
2725921 AA
1 AA
2725923 TCATTGAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.20
Consensus pattern (43 bp):
AAGAAAAATAGATAGAACAGGCAAAACAGAAACACAATATATT
Found at i:2730100 original size:40 final size:40
Alignment explanation
Indices: 2729183--2730099 Score: 1667
Period size: 40 Copynumber: 22.9 Consensus size: 40
2729173 ATATTCGGAT
* * * *
2729183 AATAACCGGGCTAAGTCCCAAAGGCATTTGTGCTAG-TGAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCT-AC
* *
2729223 TAAT-TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 -AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729263 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729303 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729343 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729383 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729423 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729463 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729503 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729543 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729583 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729623 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729663 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729703 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729743 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729783 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729823 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729863 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729903 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
*
2729943 AATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
2729983 AATAACCGGGTTAAGTCCCGAAGGCAATTTGTGCGAGCTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAA-TTGTGCGAGCTAC
* *
2730024 AATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
* * * * *
2730064 TATGACCGGGCTAAGTCCCGAAGGCATTTGGGCGAG
1 AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAG
2730100 TAGCTATATC
Statistics
Matches: 859, Mismatches: 14, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
39 3 0.00
40 813 0.95
41 43 0.05
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (40 bp):
AATAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAGCTAC
Found at i:2747241 original size:40 final size:39
Alignment explanation
Indices: 2747139--2747426 Score: 258
Period size: 40 Copynumber: 7.1 Consensus size: 39
2747129 TCGAATGATG
* *
2747139 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACAATA
** *
2747179 TCCGGATGGGCTAAGTTTCGAAGGCATTTGTGCTAGTGACTAAT-
1 TCC----GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AC-AATA
* *
2747223 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACAATA
*
2747263 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTACAATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACAATA
* * * *
2747303 ACCGGGTTAAGTCCCGAAGGGATTTGTGTGAGCTACAATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACAATA
* * * *
2747343 ACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACAAT-A
* * *
2747384 -CCGGGCTAAGTCCCGAAGGCATTTGGGCAAGTAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CAATA
2747423 TCCG
1 TCCG
2747427 ACTAAACCCC
Statistics
Matches: 212, Mismatches: 25, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.02
40 171 0.81
41 2 0.01
44 25 0.12
45 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACAATA
Found at i:2765816 original size:22 final size:22
Alignment explanation
Indices: 2765791--2765897 Score: 119
Period size: 22 Copynumber: 4.8 Consensus size: 22
2765781 AGCTCCTTCA
* *
2765791 AGCTGAACAATAAGCTCTATTG
1 AGCTGAACAGTAAGCTCTAATG
*
2765813 AGCTGAAATAGTAAGCTC-AATG
1 AGCTG-AACAGTAAGCTCTAATG
*
2765835 AGCTGAACAGTAAGCTCTATTG
1 AGCTGAACAGTAAGCTCTAATG
* *
2765857 AGCTAAATC-GTAAGCTCCAATG
1 AGCTGAA-CAGTAAGCTCTAATG
2765879 AGCTGAAACAGTAAGCTCT
1 AGCTG-AACAGTAAGCTCT
2765898 TACAAGCTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
21 11 0.16
22 38 0.54
23 21 0.30
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
AGCTGAACAGTAAGCTCTAATG
Found at i:2765842 original size:44 final size:44
Alignment explanation
Indices: 2765791--2765897 Score: 171
Period size: 44 Copynumber: 2.4 Consensus size: 44
2765781 AGCTCCTTCA
*
2765791 AGCTGAACAATAAGCTCTATTGAGCTGAAATAGTAAGCT-CAATG
1 AGCTGAACAGTAAGCTCTATTGAGCT-AAATAGTAAGCTCCAATG
*
2765835 AGCTGAACAGTAAGCTCTATTGAGCTAAATCGTAAGCTCCAATG
1 AGCTGAACAGTAAGCTCTATTGAGCTAAATAGTAAGCTCCAATG
2765879 AGCTGAAACAGTAAGCTCT
1 AGCTG-AACAGTAAGCTCT
2765898 TACAAGCTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
43 11 0.19
44 35 0.59
45 13 0.22
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (44 bp):
AGCTGAACAGTAAGCTCTATTGAGCTAAATAGTAAGCTCCAATG
Found at i:2781365 original size:42 final size:41
Alignment explanation
Indices: 2781263--2781382 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 41
2781253 GTTTGAGACA
* *
2781263 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACAC-GGCATCGATTGAGATT
* *
2781305 TACGTATAAGACCATGTCTAGGACATCGGCATCGTATCT-A-ATT
1 T-CGTGTAAGACCATGTCTGGGACA-CGGCATCG-AT-TGAGATT
* *
2781348 TCGTGTAAGACCTTGTCTGGGACAAAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGAC-ACGGCATCGAT
2781383 ACTGTACTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 31 0.48
44 4 0.06
45 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACGGCATCGATTGAGATT
Found at i:2786237 original size:55 final size:53
Alignment explanation
Indices: 2786129--2786336 Score: 199
Period size: 55 Copynumber: 3.8 Consensus size: 53
2786119 ATTAGGGTTT
* * *
2786129 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTTG-TAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CA-TTGATAA-G-TTCATAAGGC
* * *
2786184 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGG-C
* * * *
2786240 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATT-ATTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGA-TAAGTTCATAAGGC
* * *
2786292 AAGGATACCATGTAAGACCATGTCAGGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT
2786337 TCAAAAGGAT
Statistics
Matches: 125, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
52 6 0.05
53 43 0.34
54 6 0.05
55 66 0.53
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:2786335 original size:108 final size:110
Alignment explanation
Indices: 2786136--2786336 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
2786126 TTTAAGGATA
*
2786136 CCATGTAAGACCATGCCAAGGCATGGAAATTTGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTTGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
2786201 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
* * *
2786246 CCATGTAAGACCATGCCAAGGCATGG-CATTAT-TGA-G-TTCATAAGGCAAGGATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGAAATT-TGTAAGGTTTC-TAAGGCAAGGAAACCATGTAA
* *
2786307 GACCATGTCAGGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
2786337 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 5 0.06
110 27 0.33
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTTGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:2786596 original size:16 final size:16
Alignment explanation
Indices: 2786575--2786605 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2786565 ATAAATTTGA
2786575 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
2786591 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
2786606 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:2791908 original size:19 final size:19
Alignment explanation
Indices: 2791884--2791924 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2791874 TTACCTATTG
2791884 ACAGATCAAGCATCTAGAA
1 ACAGATCAAGCATCTAGAA
2791903 ACAGATCAAGCATCTAGAA
1 ACAGATCAAGCATCTAGAA
2791922 ACA
1 ACA
2791925 AACTCTGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.15, T:0.15
Consensus pattern (19 bp):
ACAGATCAAGCATCTAGAA
Found at i:2796319 original size:47 final size:47
Alignment explanation
Indices: 2796232--2797104 Score: 1665
Period size: 47 Copynumber: 18.6 Consensus size: 47
2796222 CCCTTCGGGA
* * * * * *
2796232 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
2796279 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796326 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796420 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796467 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796514 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796608 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796749 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796796 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796843 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796890 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796937 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2796984 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2797031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2797078 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
2797105 ACCAACCCTT
Statistics
Matches: 814, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 814 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:2797366 original size:40 final size:39
Alignment explanation
Indices: 2797329--2797420 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
2797319 GCTACTCGTT
*
2797329 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
2797369 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
2797408 CAAATGCCTTCGG
1 CAAATGCCTTCGG
2797421 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:2797400 original size:39 final size:40
Alignment explanation
Indices: 2797310--2797470 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
2797300 CGGAATTTAA
** *
2797310 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
2797350 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2797389 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
2797429 CCGGATATGGTCACTTGGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
2797469 CC
1 CC
2797471 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:2801514 original size:40 final size:40
Alignment explanation
Indices: 2801470--2801622 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
2801460 TCTTCAAGGT
* * * *
2801470 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
2801510 TTAGCCCAGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
2801550 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
2801590 TTAGCTCGGATATATCACTAGCACGAATGCTCC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCC
2801623 CTAATTCTCA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:2802573 original size:38 final size:38
Alignment explanation
Indices: 2802515--2802591 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
2802505 TTGTTATACG
* *
2802515 ATAAATCAGACTGTATCTCTACATCAACGGGAGAAATT
1 ATAAATCAGACTATACCTCTACATCAACGGGAGAAATT
2802553 ATAAATCAGACTATACCTCTACATCAACGGGAGAAATT
1 ATAAATCAGACTATACCTCTACATCAACGGGAGAAATT
2802591 A
1 A
2802592 CATGTGATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (38 bp):
ATAAATCAGACTATACCTCTACATCAACGGGAGAAATT
Found at i:2805517 original size:19 final size:19
Alignment explanation
Indices: 2805493--2805530 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2805483 GAAATGAATA
*
2805493 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
2805512 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
2805531 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:2807395 original size:20 final size:20
Alignment explanation
Indices: 2807361--2807411 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2807351 TAGTTAACTA
2807361 AAATTTATA-ATAAATATAT
1 AAATTTATATATAAATATAT
*
2807380 ATATTTATATATAAATATAT
1 AAATTTATATATAAATATAT
2807400 AAATTTAT-TATA
1 AAATTTATATATA
2807412 TTTGTACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTATATATAAATATAT
Found at i:2815189 original size:21 final size:20
Alignment explanation
Indices: 2815165--2815204 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
2815155 AATTGGACTG
2815165 AATTGA-GTATAAATTGTATTA
1 AATTGATGT-TAAATT-TATTA
2815186 AATTGATGTTAAATTTATT
1 AATTGATGTTAAATTTATT
2815205 CGAATAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (20 bp):
AATTGATGTTAAATTTATTA
Found at i:2815633 original size:26 final size:27
Alignment explanation
Indices: 2815604--2815686 Score: 109
Period size: 26 Copynumber: 3.2 Consensus size: 27
2815594 ACATACCGTA
* *
2815604 GCTCTTTGTGAGCGTCTTG-TTATATG
1 GCTCTTTGTGAGCTTCCTGATTATATG
* *
2815630 GCTCTTCGTGAGCTTCCCGATTATA-G
1 GCTCTTTGTGAGCTTCCTGATTATATG
2815656 GCTCTTTGTGAGCTTCCTGATTA-ATG
1 GCTCTTTGTGAGCTTCCTGATTATATG
2815682 GCTCT
1 GCTCT
2815687 CCAGAGCTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.02
26 43 0.88
27 5 0.10
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.41
Consensus pattern (27 bp):
GCTCTTTGTGAGCTTCCTGATTATATG
Found at i:2815815 original size:73 final size:71
Alignment explanation
Indices: 2815638--2815819 Score: 175
Period size: 73 Copynumber: 2.5 Consensus size: 71
2815628 TGGCTCTTCG
* * *
2815638 TGAGCTTCCCGATTATAGGCTCTTTGTGAGCTTCCTGATTAATGGCTCTCCAGAGCTGCCTGATA
1 TGAGCTTCCCGATT-TAGGCTC-TT-TGAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATA
* *
2815703 TGGCTTGCT
63 TGGCTCGCA
* * * * * * * *
2815712 TGAACTTCCCAATATACGACTATTTGGAGCTTTCTAATTAATGGCTCTTCAGAGCTACCCGTTAT
1 TGAGCTTCCCGATTTA-GGCTCTTT-GAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATA-
2815777 TGGCTCGCA
63 TGGCTCGCA
*
2815786 TGAGCTTCCTGATTTAGGCTCTTATGAGCTTCCT
1 TGAGCTTCCCGATTTAGGCTCTT-TGAGCTTCCT
2815820 GTTATAGCCC
Statistics
Matches: 84, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
72 1 0.01
73 49 0.58
74 34 0.40
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (71 bp):
TGAGCTTCCCGATTTAGGCTCTTTGAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCGATATGG
CTCGCA
Found at i:2821137 original size:24 final size:25
Alignment explanation
Indices: 2821101--2821197 Score: 90
Period size: 24 Copynumber: 4.0 Consensus size: 25
2821091 AGCCCTCTCT
* * *
2821101 CGAGCCATATAACAGGAAGCTCATG
1 CGAGCTATATAACGGGAAGCTCATC
* *
2821126 TGAGCT-TATAACGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTCATC
* *
2821150 CGGGCTATATAACGGGAAGCTCATA
1 CGAGCTATATAACGGGAAGCTCATC
* * *
2821175 AGAGCCATA-ATCGGGAAGCTCAT
1 CGAGCTATATAACGGGAAGCTCAT
2821198 ACGAACCATT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 32 0.55
25 26 0.45
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTCATC
Found at i:2821218 original size:24 final size:24
Alignment explanation
Indices: 2821158--2821206 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
2821148 TCCGGGCTAT
*
2821158 ATAA-CGGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAACC
*
2821181 ATAATCGGGAAGCTCATACGAACC
1 ATAATCGGGAAGCTCATAAGAACC
2821205 AT
1 AT
2821207 TAATGGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (24 bp):
ATAATCGGGAAGCTCATAAGAACC
Found at i:2821325 original size:26 final size:26
Alignment explanation
Indices: 2821296--2821353 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2821286 GAAGCTCCTG
* *
2821296 AGAGCGTTTAATCAGGGAGCTCACAA
1 AGAGCCTTTAATCAGGAAGCTCACAA
* * *
2821322 AGAGCCTTTAATTAGGAAGCTTACGA
1 AGAGCCTTTAATCAGGAAGCTCACAA
2821348 AGAGCC
1 AGAGCC
2821354 ATATATCGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (26 bp):
AGAGCCTTTAATCAGGAAGCTCACAA
Found at i:2821921 original size:13 final size:13
Alignment explanation
Indices: 2821903--2821931 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2821893 TTTTCTTTTA
2821903 TTATTTATCATCT
1 TTATTTATCATCT
2821916 TTATTTATCATCT
1 TTATTTATCATCT
2821929 TTA
1 TTA
2821932 AATTTCGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:2823796 original size:25 final size:25
Alignment explanation
Indices: 2823767--2823816 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2823757 CCTTATAACA
* * *
2823767 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
2823792 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
2823817 GTTTATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:2823900 original size:11 final size:11
Alignment explanation
Indices: 2823864--2823919 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
2823854 CATGGTATGT
2823864 ATGATATGCAC
1 ATGATATGCAC
* *
2823875 ATGACATG--T
1 ATGATATGCAC
2823884 ATGATATGCAC
1 ATGATATGCAC
*
2823895 ATGATATG--T
1 ATGATATGCAC
2823904 ATGATATGCAC
1 ATGATATGCAC
2823915 ATGAT
1 ATGAT
2823920 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:2823919 original size:20 final size:20
Alignment explanation
Indices: 2823853--2823919 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
2823843 ATTTTGATAG
*
2823853 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
2823873 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
2823893 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
2823913 ACATGAT
1 ACATGAT
2823920 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:2823994 original size:23 final size:23
Alignment explanation
Indices: 2823968--2824225 Score: 473
Period size: 23 Copynumber: 11.2 Consensus size: 23
2823958 GGAGGAAGTG
2823968 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2823991 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2824014 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2824037 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2824060 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2824083 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2824106 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2824129 TTAAAGGGCTTATGCCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
*
2824152 TTAAAGGGCTTATACCCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
2824175 TTAAAGGGCTTATG-CCCAGTTA
1 TTAAAGGGCTTATGCCCCAGTTA
* *
2824197 TTAAAAGGGCTTTTGCCCGAGTTA
1 TT-AAAGGGCTTATGCCCCAGTTA
2824221 TTAAA
1 TTAAA
2824226 AGAGGCTAGG
Statistics
Matches: 229, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
22 10 0.04
23 210 0.92
24 9 0.04
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (23 bp):
TTAAAGGGCTTATGCCCCAGTTA
Found at i:2824475 original size:31 final size:31
Alignment explanation
Indices: 2824440--2824503 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
2824430 CGTTTACAGT
2824440 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
2824471 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
2824502 AA
1 AA
2824504 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:2830712 original size:11 final size:11
Alignment explanation
Indices: 2830676--2830731 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
2830666 AAGAGCATTT
2830676 ATGATATGCAC
1 ATGATATGCAC
* *
2830687 ATGACATG--T
1 ATGATATGCAC
2830696 ATGATATGCAC
1 ATGATATGCAC
*
2830707 ATGATATG--T
1 ATGATATGCAC
2830716 ATGATATGCAC
1 ATGATATGCAC
2830727 ATGAT
1 ATGAT
2830732 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:2830731 original size:20 final size:20
Alignment explanation
Indices: 2830675--2830731 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
2830665 TAAGAGCATT
*
2830675 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
2830695 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
2830715 TATGATATGCACATGAT
1 TATGATATGCACATGAT
2830732 GTAATCATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:2830812 original size:23 final size:23
Alignment explanation
Indices: 2830782--2831544 Score: 1499
Period size: 23 Copynumber: 33.1 Consensus size: 23
2830772 AGGAAGTGAA
2830782 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830805 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830828 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830851 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830874 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830897 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830920 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830943 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830966 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2830989 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831012 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831035 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831058 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831081 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831104 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831127 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831150 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831173 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831196 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831219 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831242 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831265 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831288 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831311 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831334 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831357 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831380 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831403 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831426 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831449 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831472 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2831495 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
2831518 AAAAGGGCTTTTGCCCCAGCTATT
1 -AAAGGGCTTATGCCCCAGTTATT
2831542 AAA
1 AAA
2831545 AGAGGCTAGG
Statistics
Matches: 737, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
23 716 0.97
24 21 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:2831725 original size:50 final size:50
Alignment explanation
Indices: 2831650--2831750 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
2831640 TTGGTACGGG
* *
2831650 TAGAGAGTAGCGGATGGTGGGTTGAGTAGTCTCCCTAAATGGGCTTGCAT
1 TAGAGAGTAGCGGATGGTGGGTTGAGTAGTCTCCCCAAATAGGCTTGCAT
2831700 TAGAGAGTAGCGGATGGTGGGTTGAGTAGTCTCCCCAAATAGGCTTGCAT
1 TAGAGAGTAGCGGATGGTGGGTTGAGTAGTCTCCCCAAATAGGCTTGCAT
2831750 T
1 T
2831751 CTTTCATTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.28
Consensus pattern (50 bp):
TAGAGAGTAGCGGATGGTGGGTTGAGTAGTCTCCCCAAATAGGCTTGCAT
Found at i:2831844 original size:31 final size:31
Alignment explanation
Indices: 2831809--2831872 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
2831799 CGTTTACAGT
2831809 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
2831840 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
2831871 AA
1 AA
2831873 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:2839083 original size:25 final size:25
Alignment explanation
Indices: 2839054--2839160 Score: 90
Period size: 25 Copynumber: 4.3 Consensus size: 25
2839044 AACCCTCTCT
2839054 CGAGCCATATAACAGGAAGCTCATA
1 CGAGCCATATAACAGGAAGCTCATA
* ** * * *
2839079 TGAGCTGTATAACGGGAAGCTTATC
1 CGAGCCATATAACAGGAAGCTCATA
* * * *
2839104 CGGGCTATATAATAGGAAGTTCATA
1 CGAGCCATATAACAGGAAGCTCATA
* * *
2839129 AGAGCCATA-ATCAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATA
2839153 CGAGCCAT
1 CGAGCCAT
2839161 TAATGGATAA
Statistics
Matches: 60, Mismatches: 22, Indels: 1
0.72 0.27 0.01
Matches are distributed among these distances:
24 18 0.30
25 42 0.70
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATA
Found at i:2839145 original size:24 final size:23
Alignment explanation
Indices: 2839112--2839198 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 23
2839102 TCCGGGCTAT
*
2839112 ATAATAGGAAGTTCATAAGAGCC
1 ATAATAGGAAGCTCATAAGAGCC
**
2839135 ATAATCAGGAAGCTCATGCGAGCC
1 ATAAT-AGGAAGCTCATAAGAGCC
*
2839159 ATTAAT-GGATAACTC-TGAAGAGCC
1 A-TAATAGGA-AGCTCAT-AAGAGCC
2839183 ATTAAATAGGAAGCTC
1 A-T-AATAGGAAGCTC
2839199 TGGATAGCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
23 9 0.18
24 28 0.55
25 11 0.22
26 3 0.06
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
ATAATAGGAAGCTCATAAGAGCC
Found at i:2839279 original size:26 final size:26
Alignment explanation
Indices: 2839250--2839309 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
2839240 GAAGATCTTG
2839250 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * ** *
2839276 AGAGTCTTTAATTGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
2839302 AGAGCCAT
1 AGAGCCAT
2839310 ATATTGGGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:2839315 original size:26 final size:26
Alignment explanation
Indices: 2839264--2839324 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
2839254 CCATTAATCA
* *
2839264 GGAAGCTCACAAAGAGTCTTTAATTG
1 GGAAGCTCACAAAGAGCCTATAATTG
*
2839290 GGAAGCTCACGAAGAGCC-ATATATTG
1 GGAAGCTCACAAAGAGCCTATA-ATTG
*
2839316 GGACGCTCA
1 GGAAGCTCA
2839325 TAAAAGCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATTG
Found at i:2839626 original size:22 final size:21
Alignment explanation
Indices: 2839601--2839642 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2839591 GAAATTTATA
* *
2839601 CAATTCACATATATACAATATC
1 CAATTCAAACATATA-AATATC
2839623 CAATTCAAACATATAAATAT
1 CAATTCAAACATATAAATAT
2839643 ATAGAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (21 bp):
CAATTCAAACATATAAATATC
Found at i:2857816 original size:22 final size:23
Alignment explanation
Indices: 2857777--2857822 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
2857767 AAATTCTCAT
2857777 GAAACAGGGCTACACGCCCATGTG
1 GAAACAGGGC-ACACGCCCATGTG
2857801 GAAACAGGG-ACACGCCCATGTG
1 GAAACAGGGCACACGCCCATGTG
2857823 TCGACAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 13 0.59
24 9 0.41
ACGTcount: A:0.30, C:0.28, G:0.30, T:0.11
Consensus pattern (23 bp):
GAAACAGGGCACACGCCCATGTG
Found at i:2865239 original size:36 final size:36
Alignment explanation
Indices: 2865157--2865239 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
2865147 AATGAAAACA
* ** * *
2865157 TTTCTCGCTTTTTCTCGCTCACTTTCTTCTTTTTCT
1 TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
* *
2865193 TTTGTCTCTTTTTCTAACTCATTTTCTT-TTTATAT
1 TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
2865228 TTTCTCTTCTTT
1 TTTCTC-TCTTT
2865240 CTCATAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 10 0.26
36 28 0.74
ACGTcount: A:0.07, C:0.24, G:0.04, T:0.65
Consensus pattern (36 bp):
TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
Found at i:2865250 original size:33 final size:33
Alignment explanation
Indices: 2865183--2865250 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
2865173 GCTCACTTTC
* *
2865183 TTCTTTTTCTTTTGTCTCTTTTTCTAACTCATT
1 TTCTTTTTATTTTGTCTCTTTTTCTAACTAATT
*
2865216 TTCTTTTTATATTT-TCTCTTCTTTCTCA-TAATT
1 TTCTTTTTAT-TTTGTCTCTT-TTTCTAACTAATT
2865249 TT
1 TT
2865251 GTTCAATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.12, C:0.19, G:0.01, T:0.68
Consensus pattern (33 bp):
TTCTTTTTATTTTGTCTCTTTTTCTAACTAATT
Found at i:2866374 original size:11 final size:11
Alignment explanation
Indices: 2866351--2866407 Score: 91
Period size: 10 Copynumber: 5.3 Consensus size: 11
2866341 TCAAATTTTA
2866351 TTTTTTGAA-T
1 TTTTTTGAATT
2866361 TTTTTTGAATT
1 TTTTTTGAATT
2866372 TTTTTTGAA-T
1 TTTTTTGAATT
2866382 TTTTTTGAATTT
1 TTTTTTGAA-TT
2866394 TTTTTTGAATT
1 TTTTTTGAATT
2866405 TTT
1 TTT
2866408 ATACGAACCT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
10 19 0.43
11 15 0.34
12 10 0.23
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTTTGAATT
Found at i:2866377 original size:21 final size:22
Alignment explanation
Indices: 2866351--2866407 Score: 107
Period size: 21 Copynumber: 2.6 Consensus size: 22
2866341 TCAAATTTTA
2866351 TTTTTTGAATTTTTTTGAA-TT
1 TTTTTTGAATTTTTTTGAATTT
2866372 TTTTTTGAATTTTTTTGAATTT
1 TTTTTTGAATTTTTTTGAATTT
2866394 TTTTTTGAATTTTT
1 TTTTTTGAATTTTT
2866408 ATACGAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTTTGAATTTTTTTGAATTT
Found at i:2870970 original size:11 final size:12
Alignment explanation
Indices: 2870954--2870987 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2870944 AAAAGTACAA
*
2870954 GAAAAATAGATT
1 GAAAAAGAGATT
2870966 GAAAAAGAGATT
1 GAAAAAGAGATT
2870978 GAAAAAGAGA
1 GAAAAAGAGA
2870988 AAGAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
GAAAAAGAGATT
Found at i:2873363 original size:41 final size:40
Alignment explanation
Indices: 2873242--2873368 Score: 218
Period size: 40 Copynumber: 3.1 Consensus size: 40
2873232 GTTTAATAAA
2873242 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
* *
2873282 AATAAAGTCCAACAACTCAACTATTAACTAAGATGTGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
*
2873322 AATAAATTCCAACAACTTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAAC-TCAATTATTAACTAAGATGAGTTT
2873363 AATAAA
1 AATAAA
2873369 ATTAAAGTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 53 0.65
41 28 0.35
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:2879208 original size:22 final size:22
Alignment explanation
Indices: 2879181--2879233 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
2879171 CAATTAAAGA
2879181 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
2879203 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
2879225 CATTAAGGA
1 CATTAAGGA
2879234 GAATTGAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (22 bp):
CATTAAGGATCCTTAAAGTCTT
Found at i:2880024 original size:11 final size:11
Alignment explanation
Indices: 2880008--2880042 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2879998 GTAGGTTCGT
*
2880008 AAAAAAATTTG
1 AAAAAAATTTC
*
2880019 AAAAAAAATTC
1 AAAAAAATTTC
2880030 AAAAAAATTTC
1 AAAAAAATTTC
2880041 AA
1 AA
2880043 TATAAAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAAAAATTTC
Found at i:2882676 original size:12 final size:12
Alignment explanation
Indices: 2882659--2882696 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
2882649 GTAGGTTCGT
2882659 AAAAAAATTCAA
1 AAAAAAATTCAA
2882671 AAAAAAATTCAA
1 AAAAAAATTCAA
2882683 AAAAAAATTCAA
1 AAAAAAATTCAA
2882695 AA
1 AA
2882697 TAAAGATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:2887574 original size:27 final size:27
Alignment explanation
Indices: 2887544--2887721 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2887534 ATATTGAGTC
* * * *
2887544 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2887571 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2887598 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2887626 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2887653 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2887680 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2887707 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2887722 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:2887683 original size:82 final size:81
Alignment explanation
Indices: 2887565--2887720 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2887555 TGCTATATAA
* *
2887565 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2887630 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2887647 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2887711 CACTTAGTGC
65 CACTTAGTGC
2887721 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:2895473 original size:29 final size:29
Alignment explanation
Indices: 2895431--2895488 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2895421 ATTTAAACTG
2895431 AACCTATCAAATATTAAGTCTAGCCTATC
1 AACCTATCAAATATTAAGTCTAGCCTATC
*
2895460 AACCTATCAAATATTATGTCTAGCCTATC
1 AACCTATCAAATATTAAGTCTAGCCTATC
2895489 TTTTGAATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (29 bp):
AACCTATCAAATATTAAGTCTAGCCTATC
Found at i:2898721 original size:18 final size:18
Alignment explanation
Indices: 2898700--2898738 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2898690 AAAGGAAGAT
2898700 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
2898718 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
2898736 AGA
1 AGA
2898739 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:2900546 original size:33 final size:34
Alignment explanation
Indices: 2900509--2900580 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
2900499 GAGTTAGTTT
*
2900509 ATTAAATTTAGTTCATCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
2900542 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
2900576 ATTAA
1 ATTAA
2900581 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:2907412 original size:15 final size:13
Alignment explanation
Indices: 2907381--2907405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2907371 TTTTAGCTAA
2907381 TTAGAATTTAAAT
1 TTAGAATTTAAAT
2907394 TTAGAATTTAAA
1 TTAGAATTTAAA
2907406 AATTTAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAATTTAAAT
Found at i:2914529 original size:16 final size:16
Alignment explanation
Indices: 2914508--2914539 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2914498 GACATTTCTG
2914508 GCACTACAAAATTGTA
1 GCACTACAAAATTGTA
2914524 GCACTACAAAATTGTA
1 GCACTACAAAATTGTA
2914540 ATTAAAAAAA
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:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
GCACTACAAAATTGTA
Found at i:2916688 original size:15 final size:14
Alignment explanation
Indices: 2916634--2916684 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
2916624 TCCATTGAGC
2916634 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
2916648 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
2916662 GATTG-AAAAGAAAAA
1 GA--GAAAAAGAAAAA
2916677 GAGAAAAA
1 GAGAAAAA
2916685 AGAATGATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.59
15 11 0.34
16 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:2927426 original size:49 final size:52
Alignment explanation
Indices: 2927321--2927438 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 52
2927311 ATGAAGAAAC
* * * * * **
2927321 GAGTTACTTAATGAATGACTTAATTTAATGATGCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
2927373 GAGTTACAT-ATGCATGTCATAATTT-ATGATGCAAACTT-AACTAACATAA
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
2927422 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
2927439 ACTTTATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 18 0.31
50 19 0.33
51 13 0.22
52 8 0.14
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (52 bp):
GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
Found at i:2929774 original size:19 final size:18
Alignment explanation
Indices: 2929750--2929786 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2929740 TCAGACCAAG
2929750 TTGATATCGACCGCTCTT
1 TTGATATCGACCGCTCTT
*
2929768 NTTGATATCGCCCGCTCTT
1 -TTGATATCGACCGCTCTT
2929787 CGTTTCGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.38
Consensus pattern (18 bp):
TTGATATCGACCGCTCTT
Found at i:2931544 original size:13 final size:13
Alignment explanation
Indices: 2931513--2931553 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2931503 GGATATCAAG
*
2931513 TTGT-AAAAAATA
1 TTGTGAAAAAAAA
2931525 TTCGTGAAAAAAAA
1 TT-GTGAAAAAAAA
2931539 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
2931552 TT
1 TT
2931554 AGTTAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 2 0.08
13 15 0.58
14 9 0.35
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:2933397 original size:37 final size:37
Alignment explanation
Indices: 2933347--2933425 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
2933337 TTATTACGAA
* *
2933347 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
2933384 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
2933421 GTCTT
1 GTCTT
2933426 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:2933622 original size:47 final size:47
Alignment explanation
Indices: 2933559--2934079 Score: 938
Period size: 47 Copynumber: 11.1 Consensus size: 47
2933549 CACATTTATG
* * * * * * *
2933559 CACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACAT-ATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TCATATA
2933606 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
*
2933653 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2933700 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2933747 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2933794 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2933841 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2933888 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2933935 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2933982 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
2934029 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-ATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TCATATA
2934076 CACT
1 CACT
2934080 GTCTTGGCTG
Statistics
Matches: 463, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 461 1.00
48 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTCATATA
Found at i:2937274 original size:22 final size:22
Alignment explanation
Indices: 2937249--2937292 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2937239 AGCTTCCAAC
2937249 CCGATCAAGCTTTTGATAATCT
1 CCGATCAAGCTTTTGATAATCT
2937271 CCGATCAAGCTTTTGATAATCT
1 CCGATCAAGCTTTTGATAATCT
2937293 ATAAAGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (22 bp):
CCGATCAAGCTTTTGATAATCT
Found at i:2947066 original size:316 final size:317
Alignment explanation
Indices: 2946453--2947087 Score: 1069
Period size: 316 Copynumber: 2.0 Consensus size: 317
2946443 ATTTGGTCAT
* *
2946453 TACCGGCGGTATTGTAGGTGCGGGGGTAGTATTTGTTCGGGAATGGAGGTTGTGGAACAGCCATA
1 TACCGGAGGTATTGTAGGTGCGGGGGTAGTATTAGTTCGGGAATGGAGGTTGTGGAACAGCCATA
*
2946518 TTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAATGCTTGTCTAGCTTCATC
66 TTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCATC
* **
2946583 ATTCTGATTACTAGCATTAGGTTGAGAGTTTGCCGGCACTGTCCCTTGTACGGGAGCAGGCGCTA
131 ATTCGGATTACTAGCATTAGGTTGAGAGTCCGCCGGCACTGTCCCTTGTACGGGAGCAGGCGCTA
* * *
2946648 CACTCTCAAGATCATCAGCTACCTCTCGATCGGGATCGGGATCCATTACTATAAATTAACACATT
196 CACTCTCAAGATCATCAGCTACCGCTCGATCAGGATCGGGATCCATTACTATAAATAAACACATT
*
2946713 TGCAAATGTCAGAAATCACCACACTATCCAATAATCACATAAAATGGCATGTATAGC
261 TACAAATGTCAGAAATCACCACACTATCCAATAATCACATAAAATGGCATGTATAGC
* *
2946770 TACCGGAGGTATTGTAGGTGCGGGGGTGGTATTAGTT-GGGAATGGAGGTTGTGGAACAGCCGTA
1 TACCGGAGGTATTGTAGGTGCGGGGGTAGTATTAGTTCGGGAATGGAGGTTGTGGAACAGCCATA
*
2946834 TTAGTTCGAATGTATTGGTTGAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCATC
66 TTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCATC
* * * *
2946899 ATTCGGGTTACTAGCATTCGGTTGAGAGTCCGCCGGCGCTGTCCCTTGTGCGGGAGCAGGCGCTA
131 ATTCGGATTACTAGCATTAGGTTGAGAGTCCGCCGGCACTGTCCCTTGTACGGGAGCAGGCGCTA
2946964 CACTCTCAAGATCATCAGCTACCGCTC-AGTCAGGATCGGGATCCATTACTATAAATAAACACAT
196 CACTCTCAAGATCATCAGCTACCGCTCGA-TCAGGATCGGGATCCATTACTATAAATAAACACAT
*
2947028 TTACAATTGTCAGAAATCACCACACTAT-CAAGTAATCACATAAAATGGCATGTATAGC
260 TTACAAATGTCAGAAATCACCACACTATCCAA-TAATCACATAAAATGGCATGTATAGC
2947086 TA
1 TA
2947088 GACCCAAAAC
Statistics
Matches: 298, Mismatches: 18, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
315 4 0.01
316 260 0.87
317 34 0.11
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (317 bp):
TACCGGAGGTATTGTAGGTGCGGGGGTAGTATTAGTTCGGGAATGGAGGTTGTGGAACAGCCATA
TTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCATC
ATTCGGATTACTAGCATTAGGTTGAGAGTCCGCCGGCACTGTCCCTTGTACGGGAGCAGGCGCTA
CACTCTCAAGATCATCAGCTACCGCTCGATCAGGATCGGGATCCATTACTATAAATAAACACATT
TACAAATGTCAGAAATCACCACACTATCCAATAATCACATAAAATGGCATGTATAGC
Found at i:2948618 original size:39 final size:40
Alignment explanation
Indices: 2948504--2948687 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
2948494 GCTCCTCGTT
* * *
2948504 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTATCTCGCA
* *
2948544 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
2948584 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
2948623 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
2948664 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2948688 CATCATTCAA
Statistics
Matches: 129, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
38 2 0.02
39 50 0.39
40 66 0.51
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:2948648 original size:79 final size:82
Alignment explanation
Indices: 2948504--2948687 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 82
2948494 GCTCCTCGTT
* *
2948504 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
2948568 GAT-TTAGT-A-TCTCGCA
66 GATATT-GTCACT-TAGCA
* **
2948584 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
2948646 GGATATTGTCACTTAGCA
65 GGATATTGTCACTTAGCA
2948664 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2948688 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 12 0.13
79 56 0.61
80 23 0.25
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATTGTCACTTAGCA
Found at i:2951449 original size:40 final size:40
Alignment explanation
Indices: 2951405--2951485 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
2951395 GTGGACATAG
**
2951405 CTCACGACCTTGTCCCTGCGAGCCTTACGCGAACTCTCCT
1 CTCACGACCTCATCCCTGCGAGCCTTACGCGAACTCTCCT
* * * *
2951445 CTCACGACCTCATTCCTGCGAGGCTTACGTGAGCTCTCCT
1 CTCACGACCTCATCCCTGCGAGCCTTACGCGAACTCTCCT
2951485 C
1 C
2951486 GCGGGCTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.15, C:0.41, G:0.19, T:0.26
Consensus pattern (40 bp):
CTCACGACCTCATCCCTGCGAGCCTTACGCGAACTCTCCT
Found at i:2958106 original size:16 final size:16
Alignment explanation
Indices: 2958085--2958116 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2958075 GTTTTGTTGC
*
2958085 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
2958101 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
2958117 CTTTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:2958401 original size:51 final size:51
Alignment explanation
Indices: 2958342--2958532 Score: 207
Period size: 51 Copynumber: 3.8 Consensus size: 51
2958332 CCGGTTCACA
*
2958342 TAGTAGCCTGAACATAGTACTACATATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACACG
* * ** *
2958393 TAGTAGCCTGCACATAGTACTACACACGTGATGGA--AGCTATCCAGTATGCA--
1 TAGTAGCCTGAACATAGTACTACACATGTGA-CCATCA-CTATCC-G-ATACACG
* *
2958444 TAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCCGATACACG
1 TAGTAGCCTGAACATAGTACTACACATGTGACC-ATCACTATCCGATACACG
2958494 TAGTAGCCT-ACACATAGTACTACACATGTGACCATCACT
1 TAGTAGCCTGA-ACATAGTACTACACATGTGACCATCACT
2958533 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 14, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
48 4 0.03
49 5 0.04
50 35 0.30
51 64 0.56
52 2 0.02
53 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACACG
Found at i:2958499 original size:101 final size:102
Alignment explanation
Indices: 2958340--2958524 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
2958330 TACCGGTTCA
* * *
2958340 CATAGTAGCCTGAACATAGTACTACATATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
2958405 CATAGTACTACACACGTGATGGAAGCTATCCAGTATG
66 CATAGTACTACACACGTGATGGAAGCTATCCAGTATG
*
2958442 CATAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCCGATACACGTAGTAGCCTAC
1 CATAGTAGCCTGAACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
*
2958505 ACATAGTACTACACATGTGA
65 ACATAGTACTACACACGTGA
2958525 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 33 0.43
103 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATGGAAGCTATCCAGTATG
Found at i:2958547 original size:101 final size:103
Alignment explanation
Indices: 2958336--2958553 Score: 259
Period size: 101 Copynumber: 2.1 Consensus size: 103
2958326 ATGATACCGG
* *
2958336 TTCACATAGTAGCCTGAACATAGTACTACATATGTGACCATCACTATCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
* ** *
2958401 TGCACATAGTACTACACACGTGATGGAAGCTATCCAGT
66 TACACATAGTACTACACACGTGATCCAAGCTATCCACT
* * *
2958439 AT-GCATAGTAGCCTGTACATAGTACTACACATGCGACCTATCA-T-TCCGATACACGTAGTAGC
1 TTCACATAGTAGCCTGAACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGC
* *
2958501 CTACACATAGTACTACACATGTGA-CCATCA-CT-TTCACT
65 CTACACATAGTACTACACACGTGATCCA--AGCTATCCACT
*
2958539 TTCACATAGTGGCCT
1 TTCACATAGTAGCCT
2958554 ACACACAGTC
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
100 6 0.06
101 52 0.54
102 34 0.35
103 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (103 bp):
TTCACATAGTAGCCTGAACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
TACACATAGTACTACACACGTGATCCAAGCTATCCACT
Found at i:2961297 original size:20 final size:19
Alignment explanation
Indices: 2961250--2961298 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2961240 TTTATTGAAA
*
2961250 ATGAATCAATATATATGTT
1 ATGAAACAATATATATGTT
*
2961269 AT-AATACAATTTATCATGTT
1 ATGAA-ACAATATAT-ATGTT
2961289 ATGAAACAAT
1 ATGAAACAAT
2961299 GTAAATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 12 0.48
21 2 0.08
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
ATGAAACAATATATATGTT
Found at i:2962145 original size:31 final size:31
Alignment explanation
Indices: 2962107--2962168 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
2962097 TCGTAACATC
2962107 GACACATGAAATACATTATGTATTTTATCTA
1 GACACATGAAATACATTATGTATTTTATCTA
*
2962138 GACACATGAAATACATTATGTATTTTCTCTA
1 GACACATGAAATACATTATGTATTTTATCTA
2962169 ACTCAGACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (31 bp):
GACACATGAAATACATTATGTATTTTATCTA
Found at i:2966531 original size:42 final size:41
Alignment explanation
Indices: 2966470--2966664 Score: 204
Period size: 42 Copynumber: 4.7 Consensus size: 41
2966460 AACTCACACA
* *
2966470 ATGCCATAT-CCCAGATATGGTCTTACATGCTATCAT-ATATCG
1 ATGCCA-ATGCCCAGACATGGTCTTACATG-AATC-TCATATCG
* *
2966512 ATGCCAATAG-CCAG-CTATGGTCTTACAAGAATCTCATATTG
1 ATGCCAAT-GCCCAGAC-ATGGTCTTACATGAATCTCATATCG
*
2966553 ATGCCAATGTCCCAGACATGGTCTTACACGAATCTCATATCG
1 ATGCCAATG-CCCAGACATGGTCTTACATGAATCTCATATCG
*
2966595 ATGCCAATGTCCCAGACATGGTCTTACATGAATCAT-ATAACG
1 ATGCCAATG-CCCAGACATGGTCTTACATGAATC-TCATATCG
2966637 AT-CACAATGTCCCAGACATGGTCTTACA
1 ATGC-CAATG-CCCAGACATGGTCTTACA
2966665 CGTAATCACA
Statistics
Matches: 136, Mismatches: 8, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
40 2 0.01
41 19 0.14
42 113 0.83
43 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (41 bp):
ATGCCAATGCCCAGACATGGTCTTACATGAATCTCATATCG
Found at i:2966577 original size:84 final size:83
Alignment explanation
Indices: 2966470--2966671 Score: 227
Period size: 84 Copynumber: 2.4 Consensus size: 83
2966460 AACTCACACA
* * * *
2966470 ATGCC-ATATCCCAGATATGGTCTTACATGCTATCAT-ATATCGATGCCAATAG-CCAG-CTATG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATC-TCATATCGATGCCAAT-GCCCAGAC-ATG
**
2966531 GTCTTACAAGAATC-TCATATTG
62 GTCTTACAAGAATCAT-ATAACG
2966553 ATGCCAATGTCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGACATGGTC
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG-CCCAGACATGGTC
*
2966618 TTACATGAATCATATAACG
65 TTACAAGAATCATATAACG
2966637 AT-CACAATGTCCCAGACATGGTCTTACACGTAATC
1 ATGC-CAATGTCCCAGACATGGTCTTACACG-AATC
2966672 ACATCTCAGT
Statistics
Matches: 104, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
82 2 0.02
83 23 0.22
84 73 0.70
85 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (83 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATGCCCAGACATGGTCT
TACAAGAATCATATAACG
Found at i:2989278 original size:104 final size:103
Alignment explanation
Indices: 2989098--2989304 Score: 369
Period size: 104 Copynumber: 2.0 Consensus size: 103
2989088 ATTACCATTC
*
2989098 TTTCCCGAAGCTTTCAATAAATGATAATTTCATCCCTACTCAATTAACCTCTCAATTGAGCTGAT
1 TTTCCCGAAGCTTTCAATAAATGATAATTCCATCCCTACTCAATTAACCTCTCAATTGAGCTGAT
*
2989163 TTTTCTCAACCAACACTTTATTCCATCACTTTAAACTA
66 TGTTCTCAACCAACACTTTATTCCATCACTTTAAACTA
* *
2989201 NTTTCCCTAAGCTTTCAATAAATGATAATTCCATCCCTGCTCAATTAACCTCTCAATTGAGCTGA
1 -TTTCCCGAAGCTTTCAATAAATGATAATTCCATCCCTACTCAATTAACCTCTCAATTGAGCTGA
2989266 TTGTTCTCAACCAACACTTTATTCCATCACTTTAAACTA
65 TTGTTCTCAACCAACACTTTATTCCATCACTTTAAACTA
2989305 CTTTATAACC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 99 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (103 bp):
TTTCCCGAAGCTTTCAATAAATGATAATTCCATCCCTACTCAATTAACCTCTCAATTGAGCTGAT
TGTTCTCAACCAACACTTTATTCCATCACTTTAAACTA
Found at i:2990895 original size:17 final size:18
Alignment explanation
Indices: 2990863--2990898 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2990853 TACTTTAATC
*
2990863 TCTTTTTCAATTTTCTTT
1 TCTTTTTCAATATTCTTT
2990881 TCTTTTTCAA-ATTCTTT
1 TCTTTTTCAATATTCTTT
2990898 T
1 T
2990899 TCACTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTTTTCAATATTCTTT
Found at i:2990980 original size:22 final size:22
Alignment explanation
Indices: 2990942--2990986 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2990932 TCTTTCGCTT
*
2990942 TTTCAATTTCTTGTTTTTTTTC
1 TTTCAATTTCTTGTTTTGTTTC
*
2990964 TTTC-ATTTCTTTTTTTTGTTTC
1 TTTCAATTTC-TTGTTTTGTTTC
2990986 T
1 T
2990987 AGATTTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTCAATTTCTTGTTTTGTTTC
Found at i:2992042 original size:12 final size:12
Alignment explanation
Indices: 2992022--2992072 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
2992012 TACACCACAA
2992022 AAATTTTTTTTC
1 AAATTTTTTTTC
2992034 -AA-TTTTTTTC
1 AAATTTTTTTTC
*
2992044 GAATTTTTTTTC
1 AAATTTTTTTTC
2992056 AAAATTTTTTTTGC
1 -AAATTTTTTTT-C
2992070 AAA
1 AAA
2992073 CTTACTCCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 8 0.24
11 4 0.12
12 8 0.24
13 13 0.38
14 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (12 bp):
AAATTTTTTTTC
Found at i:2992051 original size:22 final size:23
Alignment explanation
Indices: 2992023--2992066 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
2992013 ACACCACAAA
2992023 AATTTTTTTTC-AATTTTTTTCG
1 AATTTTTTTTCAAATTTTTTTCG
2992045 AATTTTTTTTCAAAATTTTTTT
1 AATTTTTTTTC-AAATTTTTTT
2992067 TGCAAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (23 bp):
AATTTTTTTTCAAATTTTTTTCG
Found at i:2996356 original size:23 final size:23
Alignment explanation
Indices: 2996322--2996380 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
2996312 CTACCATGCT
* *
2996322 ATAAAAGTAGACATAATTGTGCT
1 ATAAAAGCAGACATAATTGTGCC
2996345 ATAGAAA-CAGACATAATTGTGCC
1 ATA-AAAGCAGACATAATTGTGCC
2996368 ATAAAAGCAGACA
1 ATAAAAGCAGACA
2996381 AAACCATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.09
23 26 0.81
24 3 0.09
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (23 bp):
ATAAAAGCAGACATAATTGTGCC
Found at i:3000737 original size:11 final size:12
Alignment explanation
Indices: 3000717--3000756 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
3000707 TAAATGGTTC
3000717 ATTTATATATTT
1 ATTTATATATTT
*
3000729 -TTTAAATATTT
1 ATTTATATATTT
3000740 ATTTATATATTAT
1 ATTTATATATT-T
3000753 ATTT
1 ATTT
3000757 TTAGCTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 9 0.38
13 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTATATATTT
Done.