Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 72 of 182
Found at i:22809748 original size:28 final size:28
Alignment explanation
Indices: 22809706--22809778 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
22809696 AATTGTAGAT
*
22809706 ATTTATTATAGTTTTATTATA-TGTTTGTA
1 ATTTA-TATAATTTT-TTATATTGTTTGTA
*
22809735 ATTTATATAATTTTTTATATTTTTTGTA
1 ATTTATATAATTTTTTATATTGTTTGTA
*
22809763 ATTTTATATTATTTTT
1 A-TTTATATAATTTTT
22809779 AATAATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 5 0.13
28 16 0.41
29 18 0.46
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (28 bp):
ATTTATATAATTTTTTATATTGTTTGTA
Found at i:22809766 original size:19 final size:19
Alignment explanation
Indices: 22809742--22809814 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
22809732 GTAATTTATA
*
22809742 TAATTTTTTATATTTTTTG
1 TAATTTTATATATTTTTTG
**
22809761 TAATTTTATATTATTTTTAA
1 TAATTTTATA-TATTTTTTG
*
22809781 TAATATTTA-ACATTTTTTG
1 TAAT-TTTATATATTTTTTG
*
22809800 TAATTATATATATTT
1 TAATTTTATATATTT
22809815 AACATTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
18 3 0.07
19 24 0.56
20 12 0.28
21 4 0.09
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (19 bp):
TAATTTTATATATTTTTTG
Found at i:22809769 original size:17 final size:17
Alignment explanation
Indices: 22809747--22809810 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
22809737 TTATATAATT
22809747 TTTTATATTTTTTGTAA
1 TTTTATATTTTTTGTAA
*
22809764 TTTTATATTATTTTTAATAA
1 TTTTATA-T-TTTTT-GTAA
*
22809784 TATTTAACATTTTTTGTAA
1 T-TTT-ATATTTTTTGTAA
*
22809803 TTATATAT
1 TTTTATAT
22809811 ATTTAACATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
17 10 0.27
18 3 0.08
19 9 0.24
20 9 0.24
21 4 0.11
22 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTATATTTTTTGTAA
Found at i:22809784 original size:39 final size:39
Alignment explanation
Indices: 22809736--22809814 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
22809726 ATGTTTGTAA
* * * *
22809736 TTTATATAATTTTTTATATTTTTTGTAATTTTATATTATT
1 TTTATATAATATTTAACATTTTTTGTAATTATATA-TATT
22809776 TTTA-ATAATATTTAACATTTTTTGTAATTATATATATT
1 TTTATATAATATTTAACATTTTTTGTAATTATATATATT
22809814 T
1 T
22809815 AACATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 5 0.14
39 26 0.74
40 4 0.11
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (39 bp):
TTTATATAATATTTAACATTTTTTGTAATTATATATATT
Found at i:22820459 original size:20 final size:20
Alignment explanation
Indices: 22820436--22820496 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
22820426 TTTTTGCAAC
22820436 TTTTTTAATTTTAATTAATG
1 TTTTTTAATTTTAATTAATG
* * *
22820456 TTTTGATGATTTT-TTTAAT-
1 TTTT-TTAATTTTAATTAATG
*
22820475 TATTTTTATTTTTAATTAATG
1 T-TTTTTAATTTTAATTAATG
22820496 T
1 T
22820497 ATTTATTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 6 0.20
20 17 0.57
21 7 0.23
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTTTAATTTTAATTAATG
Found at i:22827343 original size:2 final size:2
Alignment explanation
Indices: 22827336--22827367 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22827326 GTTATTTTTA
22827336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22827368 GACACATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22842838 original size:17 final size:16
Alignment explanation
Indices: 22842816--22842864 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 16
22842806 AACTAAGTTA
22842816 ACAAAAGGAATGCAGTG
1 ACAAAA-GAATGCAGTG
*
22842833 ACAAAACAAAATGCAGTG
1 AC-AAA-AGAATGCAGTG
22842851 ACAATAAGAATGCA
1 ACAA-AAGAATGCA
22842865 TAAAAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 11 0.41
18 15 0.56
19 1 0.04
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.12
Consensus pattern (16 bp):
ACAAAAGAATGCAGTG
Found at i:22845202 original size:20 final size:21
Alignment explanation
Indices: 22845177--22845215 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22845167 GCAAGGAATT
22845177 TGAAAC-AACAAAAGTAAAAA
1 TGAAACAAACAAAAGTAAAAA
*
22845197 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
22845216 TAGAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.69, C:0.08, G:0.10, T:0.13
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAA
Found at i:22861055 original size:17 final size:17
Alignment explanation
Indices: 22861031--22861077 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
22861021 ATATATATGG
**
22861031 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
22861048 AGATGCAACGACAATAA
1 AAATGCAATGACAATAA
22861065 AAATGCAATGACA
1 AAATGCAATGACA
22861078 TTAATTATGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:22861606 original size:6 final size:6
Alignment explanation
Indices: 22861595--22861669 Score: 70
Period size: 6 Copynumber: 13.0 Consensus size: 6
22861585 ACCCAAACAT
* *
22861595 AATTTA AATTTA AATTT- AATTAA AATTAA AATTT- -ATTTGA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA
*
22861641 AATTT- -ATTGTA AATTTA AGTTTA AATTTA
1 AATTTA AATT-TA AATTTA AATTTA AATTTA
22861670 TTATTGTCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
4 7 0.12
5 5 0.09
6 39 0.67
7 7 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (6 bp):
AATTTA
Found at i:22861620 original size:17 final size:17
Alignment explanation
Indices: 22861594--22861669 Score: 84
Period size: 17 Copynumber: 4.4 Consensus size: 17
22861584 GACCCAAACA
22861594 TAATTTAAATTTAAATT
1 TAATTTAAATTTAAATT
* *
22861611 TAATTAAAATTAAAATT
1 TAATTTAAATTTAAATT
22861628 T-ATTTGAAATTTAAATT
1 TAATTT-AAATTTAAATT
*
22861645 T-ATTGTAAATTTAAGTT
1 TAATT-TAAATTTAAATT
22861662 TAAATTTA
1 T-AATTTA
22861670 TTATTGTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.06
17 41 0.82
18 3 0.06
19 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TAATTTAAATTTAAATT
Found at i:22862301 original size:2 final size:2
Alignment explanation
Indices: 22862294--22862342 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
22862284 AGGACATTTC
*
22862294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
22862334 TT AT -T AT AT
1 AT AT AT AT AT
22862343 TATTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
AT
Found at i:22862346 original size:12 final size:13
Alignment explanation
Indices: 22862299--22862355 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
22862289 ATTTCATATA
*
22862299 TATATATATATAT
1 TATATATATTTAT
*
22862312 ATATATATATGTAT
1 -TATATATATTTAT
22862326 TA-ATATATTTAT
1 TATATATATTTAT
22862338 TATATTATTATTTAT
1 TATA-TA-TATTTAT
22862353 TAT
1 TAT
22862356 CATTTAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
12 11 0.29
13 3 0.08
14 14 0.37
15 10 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TATATATATTTAT
Found at i:22863525 original size:29 final size:29
Alignment explanation
Indices: 22863411--22863679 Score: 181
Period size: 29 Copynumber: 9.2 Consensus size: 29
22863401 AAAAGGTCCT
* * *
22863411 AAACTTTCCAAAAATCACATTTTGACCCCC
1 AAACTTTTC-AAAATTACATTTTGACCCTC
* *
22863441 AAACTTTTTCAAAATTACATTTTGA-CATT
1 AAAC-TTTTCAAAATTACATTTTGACCCTC
* * *
22863470 GAATTTTTCCAAAATTATATTTTGACCCTC
1 AAACTTTT-CAAAATTACATTTTGACCCTC
* * *
22863500 GAACTTTTCCAAATTACATTTTGACCCTT
1 AAACTTTTCAAAATTACATTTTGACCCTC
*
22863529 AAACTTCTCAATAATTACACTTTT-ACCCTC
1 AAACTTTTCAA-AATTACA-TTTTGACCCTC
* * *
22863559 AAACTTCTAAAAATTACATTTT-ACCCCC
1 AAACTTTTCAAAATTACATTTTGACCCTC
* *
22863587 AAAC-TTCCAAAACTTACATTTTTG-CCCTT
1 AAACTTTTCAAAA-TTACA-TTTTGACCCTC
* * * * *
22863616 GAACTTTTAAAAATCACATTTTTATCCTC
1 AAACTTTTCAAAATTACATTTTGACCCTC
* * * * *
22863645 GAACTTCTAAAAATCACATTTTTA-CCTCC
1 AAACTTTTCAAAATTACATTTTGACCCT-C
22863674 AAACTT
1 AAACTT
22863680 CTAACAAAAA
Statistics
Matches: 194, Mismatches: 34, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
27 5 0.03
28 29 0.15
29 97 0.50
30 55 0.28
31 8 0.04
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (29 bp):
AAACTTTTCAAAATTACATTTTGACCCTC
Found at i:22863545 original size:59 final size:59
Alignment explanation
Indices: 22863421--22863637 Score: 187
Period size: 59 Copynumber: 3.7 Consensus size: 59
22863411 AAACTTTCCA
* * * * * * *
22863421 AAAATCACA-TTTTGACCCCCAAACTTTTTCAAAATTACATTTTGA-CATTGAATTTTTCC
1 AAAATTACACTTTTGACCCTCAAAC-TTTTAAAAATTACATTTTGACCCTTAAACTTCT-C
* * **
22863480 AAAATTATA-TTTTGACCCTCGAACTTTTCCAAATTACATTTTGACCCTTAAACTTCTC
1 AAAATTACACTTTTGACCCTCAAACTTTTAAAAATTACATTTTGACCCTTAAACTTCTC
* **
22863538 AATAATTACACTTTT-ACCCTCAAACTTCTAAAAATTACATTTT-ACCCCCAAACTTC-C
1 AA-AATTACACTTTTGACCCTCAAACTTTTAAAAATTACATTTTGACCCTTAAACTTCTC
* ** *
22863595 AAAACTTACATTTTTG-CCCTTGAACTTTTAAAAATCACATTTT
1 AAAA-TTACACTTTTGACCCTCAAACTTTTAAAAATTACATTTT
22863638 TATCCTCGAA
Statistics
Matches: 132, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
56 2 0.02
57 35 0.27
58 33 0.25
59 58 0.44
60 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (59 bp):
AAAATTACACTTTTGACCCTCAAACTTTTAAAAATTACATTTTGACCCTTAAACTTCTC
Found at i:22863589 original size:28 final size:29
Alignment explanation
Indices: 22863510--22863902 Score: 260
Period size: 29 Copynumber: 13.5 Consensus size: 29
22863500 GAACTTTTCC
* **
22863510 AAATTACATTTTGACCCTTAAACTTCTCAA
1 AAATTACATTTTTACCCCCAAACTTCT-AA
* * *
22863540 TAATTACACTTTTACCCTCAAACTTCTAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
*
22863569 AAATTACA-TTTTACCCCCAAACTTCCAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
* * *** *
22863597 AACTTACATTTTTGCCCTTGAACTTTTAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
* * * *
22863626 AAATCACATTTTTATCCTCGAACTTCTAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
* *
22863655 AAATCACATTTTTACCTCCAAACTTCTAACAA
1 AAATTACATTTTTACCCCCAAACTTCT---AA
* * ***
22863687 AAATCACATTTTTACTCTTGAACTTCTAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
* * * * *
22863716 AAATAACCTTTTTACTCCCGAACTTCCAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
* * *
22863745 AAATCACATTTTTACCCCCGATCTTCTAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
** *
22863774 AAATTTGATTTTT-CCCCCAAACTTCCAA
1 AAATTACATTTTTACCCCCAAACTTCTAA
22863802 AAATTACA-TTTT-CCCCTCAAACTT-TCAA
1 AAATTACATTTTTACCCC-CAAACTTCT-AA
* ** * *
22863830 AAATCAC-TTTTTTGCCTCGAACTTCTGAA
1 AAATTACATTTTTACCCCCAAACTTCT-AA
* * * *
22863859 AAATCACGTTTTTA-CCCCAAATTTTCTCA
1 AAATTACATTTTTACCCCCAAA-CTTCTAA
*
22863888 AAATGACATTTTTAC
1 AAATTACATTTTTAC
22863903 GCCTAAAATA
Statistics
Matches: 291, Mismatches: 60, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
27 8 0.03
28 68 0.23
29 159 0.55
30 32 0.11
32 24 0.08
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTTACCCCCAAACTTCTAA
Found at i:22863710 original size:61 final size:58
Alignment explanation
Indices: 22863624--22863813 Score: 206
Period size: 61 Copynumber: 3.2 Consensus size: 58
22863614 TTGAACTTTT
*
22863624 AAAAATCACATTTTTA-TCCTCGAACTTCTAAAAATCACATTTTTAC-CTCCAAACTTCTAAC
1 AAAAATCACATTTTTACT-CTCGAACTTCTAAAAATAACATTTTTACTC-CCAAACTTC---C
* * *
22863685 AAAAATCACATTTTTACTCTTGAACTTCTAAAAATAACCTTTTTACTCCCGAACTTCC
1 AAAAATCACATTTTTACTCTCGAACTTCTAAAAATAACATTTTTACTCCCAAACTTCC
* * * *** *
22863743 AAAAATCACATTTTTACCCCCGATCTTCTAAAAATTTGATTTTT-CCCCCAAACTTCC
1 AAAAATCACATTTTTACTCTCGAACTTCTAAAAATAACATTTTTACTCCCAAACTTCC
*
22863800 AAAAATTACATTTT
1 AAAAATCACATTTT
22863814 CCCCTCAAAC
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
57 24 0.21
58 37 0.33
61 49 0.44
62 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAAATCACATTTTTACTCTCGAACTTCTAAAAATAACATTTTTACTCCCAAACTTCC
Found at i:22863717 original size:90 final size:87
Alignment explanation
Indices: 22863510--22863813 Score: 299
Period size: 90 Copynumber: 3.5 Consensus size: 87
22863500 GAACTTTTCC
* * * * * * * *
22863510 AAATTACATTTTGACCCTTAAACTTCTCAATAATTACACTTTTACCCTCAAACTTCTAAAAATTA
1 AAATTACATTTTTACCCTTGAACTTCT-AAAAATAACATTTTTATCCTCGAACTTCTAAAAATCA
22863575 CA-TTTTACCCCCAAACTTCCAA
65 CATTTTTACCCCCAAACTTCCAA
* * * *
22863597 AACTTACATTTTTGCCCTTGAACTTTTAAAAATCACATTTTTATCCTCGAACTTCTAAAAATCAC
1 AAATTACATTTTTACCCTTGAACTTCTAAAAATAACATTTTTATCCTCGAACTTCTAAAAATCAC
*
22863662 ATTTTTACCTCCAAACTTCTAACAA
66 ATTTTTACCCCCAAACTTC---CAA
* * * *
22863687 AAATCACATTTTTACTCTTGAACTTCTAAAAATAACCTTTTTACTCC-CGAACTTCCAAAAATCA
1 AAATTACATTTTTACCCTTGAACTTCTAAAAATAACATTTTTA-TCCTCGAACTTCTAAAAATCA
* * *
22863751 CATTTTTACCCCCGATCTTCTAA
65 CATTTTTACCCCCAAACTTCCAA
** *** * *
22863774 AAATTTGATTTTT-CCCCCAAACTTCCAAAAATTACATTTT
1 AAATTACATTTTTACCCTTGAACTTCTAAAAATAACATTTT
22863814 CCCCTCAAAC
Statistics
Matches: 178, Mismatches: 34, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
86 53 0.30
87 50 0.28
90 72 0.40
91 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.37
Consensus pattern (87 bp):
AAATTACATTTTTACCCTTGAACTTCTAAAAATAACATTTTTATCCTCGAACTTCTAAAAATCAC
ATTTTTACCCCCAAACTTCCAA
Found at i:22863803 original size:27 final size:28
Alignment explanation
Indices: 22863736--22863833 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
22863726 TTTACTCCCG
* *
22863736 AACTTCCAAAAATCACATTTTTACCCC-CG
1 AACTTCCAAAAATTACA-TTTT-CCCCTCA
* * **
22863765 ATCTTCTAAAAATTTGATTTTTCCCC-CA
1 AACTTCCAAAAATTACA-TTTTCCCCTCA
22863793 AACTTCCAAAAATTACATTTTCCCCTCA
1 AACTTCCAAAAATTACATTTTCCCCTCA
*
22863821 AACTTTCAAAAAT
1 AACTTCCAAAAAT
22863834 CACTTTTTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
27 8 0.14
28 32 0.56
29 17 0.30
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.34
Consensus pattern (28 bp):
AACTTCCAAAAATTACATTTTCCCCTCA
Found at i:22870898 original size:59 final size:59
Alignment explanation
Indices: 22870766--22870888 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 59
22870756 AAGAAATAAT
* * *
22870766 ATTT-TTGAAATTTTTAGAATTAAAACTAAATTGACAAATTTGTAAATGTTGAGGGCTAG
1 ATTTATTG-AATTTTTAGAATTAAAACTAAATTGACAAATTTATAAATATTGAGGGCTAA
* ** * *
22870825 CTTTATTGAATTTTTAGAATTCGAACTAAATTGATAAATTTTATAAATATTGAGGTCTAA
1 ATTTATTGAATTTTTAGAATTAAAACTAAATTGACAAA-TTTATAAATATTGAGGGCTAA
22870885 ATTT
1 ATTT
22870889 GTTGGTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
59 30 0.57
60 23 0.43
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (59 bp):
ATTTATTGAATTTTTAGAATTAAAACTAAATTGACAAATTTATAAATATTGAGGGCTAA
Found at i:22871960 original size:19 final size:17
Alignment explanation
Indices: 22871945--22871979 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
22871935 TTCTTTTTCT
22871945 AATTTTCAAATATTTTTAA
1 AATTTT-AAA-ATTTTTAA
22871964 AATTTTAAAATTTTTA
1 AATTTTAAAATTTTTA
22871980 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTTAAAATTTTTAA
Found at i:22871999 original size:9 final size:9
Alignment explanation
Indices: 22871890--22872002 Score: 70
Period size: 9 Copynumber: 12.3 Consensus size: 9
22871880 CTCTTTTTCA
22871890 AATTTTTAT
1 AATTTTTAT
22871899 AAATTTTTA-
1 -AATTTTTAT
*
22871908 GATTTTTAGT
1 AATTTTTA-T
22871918 AATTTTTAAT
1 AATTTTT-AT
*
22871928 AA-TATTAT
1 AATTTTTAT
** *
22871936 TCTTTTTCT
1 AATTTTTAT
* *
22871945 AATTTTCAA
1 AATTTTTAT
22871954 ATATTTTTA-
1 A-ATTTTTAT
* *
22871963 AAATTTTAA
1 AATTTTTAT
22871972 AATTTTTATT
1 AATTTTTA-T
*
22871982 TATTTTTAT
1 AATTTTTAT
22871991 AATTTTTAT
1 AATTTTTAT
22872000 AAT
1 AAT
22872003 AAATTTTTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
8 15 0.19
9 32 0.41
10 30 0.38
11 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:22881661 original size:20 final size:21
Alignment explanation
Indices: 22881623--22881662 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22881613 TAAACTGAAC
*
22881623 ATCACTGAGTTAGAAAATACA
1 ATCACTAAGTTAGAAAATACA
22881644 ATCACTAAGTTA-AAAATAC
1 ATCACTAAGTTAGAAAATAC
22881663 TAAAAATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (21 bp):
ATCACTAAGTTAGAAAATACA
Found at i:22883110 original size:25 final size:23
Alignment explanation
Indices: 22883082--22883127 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
22883072 GTTGGATCCA
22883082 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
22883107 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
22883128 CCCTAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:22885470 original size:24 final size:24
Alignment explanation
Indices: 22885441--22885523 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
22885431 TTTAGCCAAC
*
22885441 ACGAGCCCATAATGATTATCTCTT
1 ACGAGCCCAGAATGATTATCTCTT
22885465 ACGAGCCCAGAATGATTAGT-TCTT
1 ACGAGCCCAGAATGATTA-TCTCTT
* * *
22885489 ACAAGCCCAGAATGTTTAGCTCTT
1 ACGAGCCCAGAATGATTATCTCTT
22885513 ACGAGCCCAGA
1 ACGAGCCCAGA
22885524 TAGAGTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
24 51 0.98
25 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (24 bp):
ACGAGCCCAGAATGATTATCTCTT
Found at i:22888674 original size:106 final size:106
Alignment explanation
Indices: 22888489--22888700 Score: 406
Period size: 106 Copynumber: 2.0 Consensus size: 106
22888479 GTACGCCTTA
*
22888489 GGAGATGGAAACACTTTACCAGTGATAGTTTCTAGCAAACTTTCAAGATTGGAGGAGGAGAATTT
1 GGAGATGGAAACACTTTACCAGTGATAGTTTCTAGCAAACTTTCAAGATTGGAGGAGGAGAAATT
22888554 AGTTCAAGTCTTGAGGGACTACAAAGGGGCGAATGAATGGT
66 AGTTCAAGTCTTGAGGGACTACAAAGGGGCGAATGAATGGT
*
22888595 GGAGATGGAAACACTTTACCAGTGATAGTTTTTAGCAAACTTTCAAGATTGGAGGAGGAGAAATT
1 GGAGATGGAAACACTTTACCAGTGATAGTTTCTAGCAAACTTTCAAGATTGGAGGAGGAGAAATT
22888660 AGTTCAAGTCTTGAGGGACTACAAAGGGGCGAATGAATGGT
66 AGTTCAAGTCTTGAGGGACTACAAAGGGGCGAATGAATGGT
22888701 CGATTGCTGA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (106 bp):
GGAGATGGAAACACTTTACCAGTGATAGTTTCTAGCAAACTTTCAAGATTGGAGGAGGAGAAATT
AGTTCAAGTCTTGAGGGACTACAAAGGGGCGAATGAATGGT
Found at i:22891386 original size:24 final size:24
Alignment explanation
Indices: 22891344--22891402 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
22891334 TATACTTTTC
* *
22891344 AAAACCCAACTCCCCAAAACAAATA
1 AAAACCCAA-TACCCAAAACAAACA
* *
22891369 AAAACCCAATACCTAAAACCAACA
1 AAAACCCAATACCCAAAACAAACA
*
22891393 ATAACCCAAT
1 AAAACCCAAT
22891403 TAGAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.10
Consensus pattern (24 bp):
AAAACCCAATACCCAAAACAAACA
Found at i:22893093 original size:41 final size:41
Alignment explanation
Indices: 22892998--22893109 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
22892988 TACATCGGCT
* * * *
22892998 TGAAGCCTACTAGACTCAAAGCCTGAATTATTACACTGGAA
1 TGAAACCTACTAGGCACAAAGCCTGAATTATTACACCGGAA
**
22893039 TGAAACCTACTAGGCACAAAGCCTGAATTATTACACCGGCG
1 TGAAACCTACTAGGCACAAAGCCTGAATTATTACACCGGAA
*** *
22893080 TGAAGTTTGCTAGGCACAAAGCCTGAATTA
1 TGAAACCTACTAGGCACAAAGCCTGAATTA
22893110 ATATATTCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (41 bp):
TGAAACCTACTAGGCACAAAGCCTGAATTATTACACCGGAA
Found at i:22897342 original size:23 final size:23
Alignment explanation
Indices: 22897315--22897584 Score: 190
Period size: 23 Copynumber: 11.8 Consensus size: 23
22897305 TATAGACTTT
22897315 AATTTACAGCACTTAAACATCTC
1 AATTTACAGCACTTAAACATCTC
* * *
22897338 AATTTACAAC-CTTTATACACCTC
1 AATTTACAGCAC-TTAAACATCTC
* * *
22897361 AATTTACAACATTTAAACACCTC
1 AATTTACAGCACTTAAACATCTC
* * * *
22897384 GATTTGCAACACTTAAACATATC
1 AATTTACAGCACTTAAACATCTC
** * *
22897407 AATTTATGGTATTTAAACA-CTTC
1 AATTTACAGCACTTAAACATC-TC
* * *
22897430 AATTTAAAACA-TTAAAACAACTC
1 AATTTACAGCACTT-AAACATCTC
* *
22897453 AATTTGCAGCACTTAAACATCAC
1 AATTTACAGCACTTAAACATCTC
* *
22897476 AATTTATAGCATTTAAACA-CTTC
1 AATTTACAGCACTTAAACATC-TC
* * *
22897499 AATGTACAACA-TTAAACACCTC
1 AATTTACAGCACTTAAACATCTC
** *
22897521 AATTTGTAGCACTTAAACATCTA
1 AATTTACAGCACTTAAACATCTC
*
22897544 AATTTGCAGCACTTAAACATCTC
1 AATTTACAGCACTTAAACATCTC
* * *
22897567 GATTTATAGCATTTAAAC
1 AATTTACAGCACTTAAAC
22897585 CTCAATAGAA
Statistics
Matches: 192, Mismatches: 46, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
22 20 0.10
23 169 0.88
24 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (23 bp):
AATTTACAGCACTTAAACATCTC
Found at i:22897435 original size:69 final size:69
Alignment explanation
Indices: 22897315--22897584 Score: 287
Period size: 69 Copynumber: 3.9 Consensus size: 69
22897305 TATAGACTTT
* * * * * * *
22897315 AATTTACAGCACTTAAACATCTCAATTTACAACCTTTATACACCTCAATTTACAACATTTAAACA
1 AATTTGCAGCACTTAAACATCACAATTTATAGCATTTAAACACTTCAATTTACAACATTTAAACA
22897380 CCTC
66 CCTC
* * * * * *
22897384 GATTTGCAACACTTAAACAT-ATCAATTTATGGTATTTAAACACTTCAATTTAAAACATTAAAAC
1 AATTTGCAGCACTTAAACATCA-CAATTTATAGCATTTAAACACTTCAATTTACAACATTTAAAC
*
22897448 AACTC
65 ACCTC
*
22897453 AATTTGCAGCACTTAAACATCACAATTTATAGCATTTAAACACTTCAATGTACAACA-TTAAACA
1 AATTTGCAGCACTTAAACATCACAATTTATAGCATTTAAACACTTCAATTTACAACATTTAAACA
22897517 CCTC
66 CCTC
* ** * * * *
22897521 AATTTGTAGCACTTAAACATCTA-AATTTGCAGCACTTAAACA-TCTCGATTTATAGCATTTAAA
1 AATTTGCAGCACTTAAACATC-ACAATTTATAGCATTTAAACACT-TCAATTTACAACATTTAAA
22897584 C
64 C
22897585 CTCAATAGAA
Statistics
Matches: 166, Mismatches: 30, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
67 1 0.01
68 54 0.33
69 110 0.66
70 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (69 bp):
AATTTGCAGCACTTAAACATCACAATTTATAGCATTTAAACACTTCAATTTACAACATTTAAACA
CCTC
Found at i:22897531 original size:45 final size:46
Alignment explanation
Indices: 22897462--22897584 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 46
22897452 CAATTTGCAG
* *
22897462 CACTTAAACATCACAATTTATAGCATTTAAACA-CTTCAATGTACAA
1 CACTTAAACATCTCAATTTATAGCATTTAAACATC-TAAATGTACAA
* * * * * *
22897508 CA-TTAAACACCTCAATTTGTAGCACTTAAACATCTAAATTTGCAG
1 CACTTAAACATCTCAATTTATAGCATTTAAACATCTAAATGTACAA
*
22897553 CACTTAAACATCTCGATTTATAGCATTTAAAC
1 CACTTAAACATCTCAATTTATAGCATTTAAAC
22897585 CTCAATAGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 35 0.56
46 28 0.44
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (46 bp):
CACTTAAACATCTCAATTTATAGCATTTAAACATCTAAATGTACAA
Found at i:22908731 original size:61 final size:61
Alignment explanation
Indices: 22908662--22908808 Score: 249
Period size: 61 Copynumber: 2.4 Consensus size: 61
22908652 ATGATTGAAT
*
22908662 ACAAAATTAGGAATAGGTACAACCCATATTTTCATTTAATCACCTACAATAAGAAAAGAAA
1 ACAAAATTAGGAATGGGTACAACCCATATTTTCATTTAATCACCTACAATAAGAAAAGAAA
* * *
22908723 ACAAAATTAGGAATGGGTACAACCCATATTTTCATTTAATCACTTATAGTAAGAAAAGAAA
1 ACAAAATTAGGAATGGGTACAACCCATATTTTCATTTAATCACCTACAATAAGAAAAGAAA
*
22908784 ACAAAATTAAGAATGGGTACAACCC
1 ACAAAATTAGGAATGGGTACAACCC
22908809 GCGGGAGCAT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 81 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (61 bp):
ACAAAATTAGGAATGGGTACAACCCATATTTTCATTTAATCACCTACAATAAGAAAAGAAA
Found at i:22909275 original size:3 final size:3
Alignment explanation
Indices: 22909267--22909301 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
22909257 CGAAACCAAT
*
22909267 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
22909302 GATGGTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22912280 original size:2 final size:2
Alignment explanation
Indices: 22912273--22912307 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22912263 CTAAAATTTA
22912273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22912308 CAATTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22914101 original size:30 final size:30
Alignment explanation
Indices: 22914067--22914130 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
22914057 TTTAGGTACC
*
22914067 AAATTAAAAAAAATGTCAAGTTCAGATACA
1 AAATTAAAAAAAATGTCAAATTCAGATACA
*
22914097 AAATTAAAAAAAATGTCAAATTCAGATACC
1 AAATTAAAAAAAATGTCAAATTCAGATACA
22914127 AAAT
1 AAAT
22914131 ATCATATTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.23
Consensus pattern (30 bp):
AAATTAAAAAAAATGTCAAATTCAGATACA
Found at i:22914479 original size:17 final size:17
Alignment explanation
Indices: 22914446--22914479 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22914436 GAATGATAAT
*
22914446 TTAAAAAAAATACAAAA
1 TTAAAAAAAATAAAAAA
*
22914463 TTAAAAATAATAAAAAA
1 TTAAAAAAAATAAAAAA
22914480 GTGTTGATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
TTAAAAAAAATAAAAAA
Found at i:22915308 original size:6 final size:6
Alignment explanation
Indices: 22915297--22915326 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
22915287 ATAAATCTGG
*
22915297 GGATGA GGATGA GAATGA GGATGA GGATGA
1 GGATGA GGATGA GGATGA GGATGA GGATGA
22915327 TGACAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.47, T:0.17
Consensus pattern (6 bp):
GGATGA
Found at i:22917174 original size:15 final size:17
Alignment explanation
Indices: 22917153--22917193 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
22917143 TAATTTTTTA
22917153 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATGAT
*
22917169 -AAATTATTAAAATGAT
1 AAAATTATAAAAATGAT
22917185 AAAATTATA
1 AAAATTATA
22917194 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATGAT
Found at i:22928583 original size:19 final size:21
Alignment explanation
Indices: 22928527--22928585 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
22928517 TTTTTATAAT
22928527 TTTTTAAAAATATAAATTTTGAAA
1 TTTTTAAAAAT-T--ATTTTGAAA
*
22928551 TTTTTATAAA-TATTTTG-AA
1 TTTTTAAAAATTATTTTGAAA
22928570 -TTTTAAAAATTATTTT
1 TTTTTAAAAATTATTTT
22928586 AATCTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 8 0.25
19 8 0.25
20 6 0.19
22 1 0.03
24 9 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTTAAAAATTATTTTGAAA
Found at i:22929716 original size:135 final size:134
Alignment explanation
Indices: 22929464--22929732 Score: 359
Period size: 135 Copynumber: 2.0 Consensus size: 134
22929454 TCACCCTTAC
*
22929464 TCTAGAGATTTTGAAGAATGAATCAACATAAGGAAAAGATAGGGAAGTTATATGTCAATTTTTCG
1 TCTAGAGAATTTGAAGAATGAATCAACATAAGGAAAAGATAGGGAAGTTATATGTCAATTTTTCG
* *
22929529 TAAGAAAAAATCTTGACATTTATTTTTTATGAAAACAATGCACACCTTTGATTATTGGAGGTAAG
66 TAAGAAAAAATCTTGACATTTATTTTTTACGAAAACAAT-CACACCTTTGATTATAGGAGGTAAG
22929594 AGAAG
130 AGAAG
* *
22929599 TCTAGAGAATTTGAAGAATGAATCAACATAA-GAAAATGATATGGAAGTTATATGTC-GTTTTTC
1 TCTAGAGAATTTGAAGAATGAATCAACATAAGGAAAA-GATAGGGAAGTTATATGTCAATTTTTC
* **
22929662 GTAAG-AAAAA-CTTGACATTTATTTATTTTTACGAAATCAAT-ATGCTCTTGTGATTATAGGAG
65 GTAAGAAAAAATCTTGACATTTA--T-TTTTTACGAAAACAATCACAC-CTT-TGATTATAGGAG
*
22929724 TTAAGAGAA
125 GTAAGAGAA
22929733 ATATGTACAA
Statistics
Matches: 119, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
132 11 0.09
133 7 0.06
134 20 0.17
135 81 0.68
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (134 bp):
TCTAGAGAATTTGAAGAATGAATCAACATAAGGAAAAGATAGGGAAGTTATATGTCAATTTTTCG
TAAGAAAAAATCTTGACATTTATTTTTTACGAAAACAATCACACCTTTGATTATAGGAGGTAAGA
GAAG
Found at i:22934831 original size:16 final size:16
Alignment explanation
Indices: 22934790--22934835 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
22934780 GATAACAAAA
22934790 AGAGTAGAAAAATTTG
1 AGAGTAGAAAAATTTG
*
22934806 AGGGTAAGAAAAATTTG
1 AGAGT-AGAAAAATTTG
22934823 TAGAG-AGAAAAAT
1 -AGAGTAGAAAAAT
22934836 GAAAGGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 12 0.46
17 11 0.42
18 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (16 bp):
AGAGTAGAAAAATTTG
Found at i:22937336 original size:59 final size:57
Alignment explanation
Indices: 22937273--22937556 Score: 195
Period size: 59 Copynumber: 4.8 Consensus size: 57
22937263 TTCGAAGTCG
* * * *
22937273 AAAATGTGACTTGTGGAAATTTAAGGGCAAAATGGTAATTTTTGGAAAAGTTTGGGGTC
1 AAAATGTGAATTTTGGAAATTTAAGGGAAAAAT-GTGATTTTTGG-AAAGTTTGGGGTC
* ** *
22937332 AAAATGTGATTTTTGAGAAATTCGAGGGTAAAAATGTGATTTTTGG-AAGTTTGGGGTTA
1 AAAATGTGAATTTTG-GAAATTTAAGGG-AAAAATGTGATTTTTGGAAAGTTTGGGG-TC
* **
22937391 AAAATAT-AATTTTGGAAAGTTTAGAGGTTAAAATGTGATTTTTGGAAAGTTTGGGGGTC
1 AAAATGTGAATTTTGGAAA-TTTA-AGGGAAAAATGTGATTTTTGGAAAGTTT-GGGGTC
* * * * *
22937450 AAAATGT-AATCTTGGAAAAGTTT-GGGGTGAAAATGTGA-TTTTGGAAAAGTTCGAGGGTT
1 AAAATGTGAATTTTGG-AAA-TTTAAGGG-AAAAATGTGATTTTTGG-AAAGTTTG-GGGTC
* * * *
22937509 AAAATGT-AATTTTTGTAAAGTTTGAGGGTCAAGATGTGA-TTTTGGAAA
1 AAAATGTGAA-TTTTGGAAA-TTTAAGGG-AAAAATGTGATTTTTGGAAA
22937557 AGATAGAGTG
Statistics
Matches: 186, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
57 4 0.02
58 43 0.23
59 81 0.44
60 53 0.28
61 5 0.03
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (57 bp):
AAAATGTGAATTTTGGAAATTTAAGGGAAAAATGTGATTTTTGGAAAGTTTGGGGTC
Found at i:22937344 original size:29 final size:29
Alignment explanation
Indices: 22937312--22937558 Score: 225
Period size: 30 Copynumber: 8.4 Consensus size: 29
22937302 AAATGGTAAT
22937312 TTTTGGAAAAGTTTGGGGTCAAAATGTGA
1 TTTTGGAAAAGTTTGGGGTCAAAATGTGA
* * *
22937341 TTTTTGAGAAA-TTCGAGGGTAAAAATGTGA
1 TTTTGGA-AAAGTTTG-GGGTCAAAATGTGA
* * *
22937371 TTTTTGG--AAGTTTGGGGTTAAAAATATAA
1 -TTTTGGAAAAGTTTGGGG-TCAAAATGTGA
* *
22937400 TTTTGG-AAAGTTTAGAGGTTAAAATGTGA
1 TTTTGGAAAAGTTT-GGGGTCAAAATGTGA
*
22937429 TTTTTGG-AAAGTTTGGGGGTCAAAATGTAA
1 -TTTTGGAAAAGTTT-GGGGTCAAAATGTGA
* *
22937459 TCTTGGAAAAGTTTGGGGTGAAAATGTGA
1 TTTTGGAAAAGTTTGGGGTCAAAATGTGA
* * *
22937488 TTTTGGAAAAGTTCGAGGGTTAAAATGTAA
1 TTTTGGAAAAGTTTG-GGGTCAAAATGTGA
* * *
22937518 TTTTTGTAAAGTTTGAGGGTCAAGATGTGA
1 TTTTGGAAAAGTTTG-GGGTCAAAATGTGA
22937548 TTTTGGAAAAG
1 TTTTGGAAAAG
22937559 ATAGAGTGAC
Statistics
Matches: 178, Mismatches: 30, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
28 11 0.06
29 66 0.37
30 96 0.54
31 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (29 bp):
TTTTGGAAAAGTTTGGGGTCAAAATGTGA
Found at i:22938060 original size:27 final size:25
Alignment explanation
Indices: 22938012--22938062 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
22938002 AGGCTATTTT
**
22938012 CTTCAAAAAAAATTCATTTCCTTTC
1 CTTCAAAAAAAATTCAAATCCTTTC
22938037 CTTCTAAAAAAAATTCAAAATCCTTT
1 CTTC-AAAAAAAATTC-AAATCCTTT
22938063 TTCTTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 11 0.50
27 7 0.32
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (25 bp):
CTTCAAAAAAAATTCAAATCCTTTC
Found at i:22938664 original size:7 final size:7
Alignment explanation
Indices: 22938652--22938695 Score: 52
Period size: 7 Copynumber: 5.7 Consensus size: 7
22938642 GCATATTCAG
22938652 AAATAAT
1 AAATAAT
22938659 AAATAAT
1 AAATAAT
22938666 AAATAAT
1 AAATAAT
22938673 AACAGTAAT
1 AA-A-TAAT
22938682 ATAATAAAT
1 A-AAT-AAT
22938691 AAATA
1 AAATA
22938696 TATATATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 17 0.52
8 5 0.15
9 10 0.30
10 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:22939838 original size:39 final size:39
Alignment explanation
Indices: 22939779--22940271 Score: 403
Period size: 39 Copynumber: 12.7 Consensus size: 39
22939769 GATGGTTGCA
* *
22939779 ATCTGCCCCTGGCTCTGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
22939818 ATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATAGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
22939857 ATCTGCCCTAAGCTCGGGGTAAGAGA-T--C-GAATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTG-ATGG-TG
*
22939894 CAATCT-ACCCAGGCTCGAGGG-AAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAGGCTCG-GGGTAAGAGATTGGCTGATGGTG
* * *
22939934 ATCTACCCCAGGCTCGGGATAAGAGATTGGCTGATAGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* ** * * **
22939973 ATCTGCCTCAGGCTCGGGGTAAGAGATTGAATGGTTGCA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
22940012 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGACGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
22940051 ATCTGCCCCAAGCTTGGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * **** * **
22940090 ATCTACCTCAGGCTCGGGATAAAAGATCAAATAACT-GCA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTG
* * * *
22940129 ATCTGCCCTAGGCTTGGGGTAAGAGATTGACTGATGGCG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
**
22940168 ATCTGCCCCAGGCTCGGGGTAAGAGA-T--CCAATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGG-TG
* * * ** * *
22940205 CAATTTACCCCAAGCTTAGGGTAAGAGATTGACTGGTGGTG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
*
22940246 ATTTGCCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGA
22940272 CCAGAATTTT
Statistics
Matches: 358, Mismatches: 77, Indels: 38
0.76 0.16 0.08
Matches are distributed among these distances:
35 1 0.00
36 9 0.03
37 3 0.01
38 23 0.06
39 306 0.85
40 4 0.01
41 7 0.02
42 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:22940099 original size:117 final size:117
Alignment explanation
Indices: 22939770--22940194 Score: 568
Period size: 117 Copynumber: 3.6 Consensus size: 117
22939760 TAAGCATTAG
* * * *
22939770 ATGGTTGCAATCTGCCCCTGGCTCTGGGTAAGAGATTGGCTGATGGTGATCTACCTCAGGCTCGG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCGG
*
22939835 GGTAAGAGATTGGCTGATAGTGATCTGCC-CTAAGCTCGGGGTAAGAGATCGA
66 GGTAAGAGATTGGCTGATAGTGATCTGCCTC-AGGCTCGGGGTAAGAGATCGA
*
22939887 ATGGCTGCAATCT-ACCCAGGCTCGAGGG-AAGAGATTGGCTGATGGTGATCTACCCCAGGCTCG
1 ATGGCTGCAATCTGCCCCAGGCTCG-GGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCG
* *
22939950 GGATAAGAGATTGGCTGATAGTGATCTGCCTCAGGCTCGGGGTAAGAGATTGA
65 GGGTAAGAGATTGGCTGATAGTGATCTGCCTCAGGCTCGGGGTAAGAGATCGA
* * * * * *
22940003 ATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGACGGTGATCTGCCCCAAGCTTGG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCGG
* * * * * *
22940068 GGTAAGAGATTGGTTGATGGTGATCTACCTCAGGCTCGGGATAAAAGATCAA
66 GGTAAGAGATTGGCTGATAGTGATCTGCCTCAGGCTCGGGGTAAGAGATCGA
** * * * * *
22940120 ATAACTGCAATCTGCCCTAGGCTTGGGGTAAGAGATTGACTGATGGCGATCTGCCCCAGGCTCGG
1 ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCGG
22940185 GGTAAGAGAT
66 GGTAAGAGAT
22940195 CCAATGGCTG
Statistics
Matches: 270, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
116 105 0.39
117 165 0.61
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (117 bp):
ATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCGG
GGTAAGAGATTGGCTGATAGTGATCTGCCTCAGGCTCGGGGTAAGAGATCGA
Found at i:22952635 original size:29 final size:29
Alignment explanation
Indices: 22952603--22952663 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
22952593 AACTTGTAAA
* *
22952603 AAATTCGAGGTCGAAAAT-GTGACTTTTGG
1 AAATTCGAGGGC-AAAATGGTAACTTTTGG
* *
22952632 AAATTTGAGGGCAAAATGGTAATTTTTGG
1 AAATTCGAGGGCAAAATGGTAACTTTTGG
22952661 AAA
1 AAA
22952664 AGTTTGGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (29 bp):
AAATTCGAGGGCAAAATGGTAACTTTTGG
Found at i:22952687 original size:29 final size:29
Alignment explanation
Indices: 22952616--22952847 Score: 145
Period size: 29 Copynumber: 7.9 Consensus size: 29
22952606 TTCGAGGTCG
*
22952616 AAAATGTGACTTTTGG-AAA-TTTGAGGG-C
1 AAAATGTGA-TTTTGGAAAAGTTTG-GGGTA
* *
22952644 AAAATGGTAATTTTTGGAAAAGTTTGGGGTT
1 AAAAT-GTGA-TTTTGGAAAAGTTTGGGGTA
* * * *
22952675 AAAATCTGATTTTTGAAAAGTTCGAAGGTA
1 AAAATGTGATTTTGGAAAAGTTTG-GGGTA
*
22952705 AAAATGTGATTTTGG--AAGTTTAAGGGTA
1 AAAATGTGATTTTGGAAAAGTTT-GGGGTA
** *
22952733 AAAATGCAATTTTGG-AAAGTTTAGGGGTC
1 AAAATGTGATTTTGGAAAAGTTT-GGGGTA
* ***
22952762 AAAATGTGATTTT-AAGAAAGTTCAAAGGTA
1 AAAATGTGATTTTGGA-AAAGTT-TGGGGTA
* * * * * *
22952792 AAAATGTAATCTTGGAAAATTTTAGGTTG
1 AAAATGTGATTTTGGAAAAGTTTGGGGTA
22952821 AAAATGTGATTTTGGAAAAGTTTGGGG
1 AAAATGTGATTTTGGAAAAGTTTGGGG
22952848 GTCATAATGT
Statistics
Matches: 155, Mismatches: 38, Indels: 21
0.72 0.18 0.10
Matches are distributed among these distances:
28 27 0.17
29 69 0.45
30 49 0.32
31 10 0.06
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
AAAATGTGATTTTGGAAAAGTTTGGGGTA
Found at i:22952709 original size:30 final size:30
Alignment explanation
Indices: 22952653--22952721 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
22952643 CAAAATGGTA
* * *
22952653 ATTTTTGGAAAAGTTTGGGGTTAAAATCTG
1 ATTTTTGGAAAAGTTCGAGGTAAAAATCTG
*
22952683 ATTTTT-GAAAAGTTCGAAGGTAAAAATGTG
1 ATTTTTGGAAAAGTTCG-AGGTAAAAATCTG
22952713 A-TTTTGGAA
1 ATTTTTGGAA
22952722 GTTTAAGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
ATTTTTGGAAAAGTTCGAGGTAAAAATCTG
Found at i:22952772 original size:87 final size:87
Alignment explanation
Indices: 22952616--22952866 Score: 265
Period size: 87 Copynumber: 2.8 Consensus size: 87
22952606 TTCGAGGTCG
* * *
22952616 AAAATGTGACTTTTGGAAATTTGAGGG-CAAAATGGTAATTTTTGGAAAAGTTTGGGGTTAAAAT
1 AAAATGTGA-TTTTGGAAATTTAAGGGTAAAAAT-GTAA-TTTTGGAAAAGTTTGGGGTCAAAAT
* * *
22952680 CTGATTTT-TGAAAAGTTCGAAGGTA
63 GTGATTTTAAG-AAAGTTCAAAGGTA
* *
22952705 AAAATGTGATTTTGGAAGTTTAAGGGTAAAAATGCAATTTTGG-AAAGTTTAGGGGTCAAAATGT
1 AAAATGTGATTTTGGAAATTTAAGGGTAAAAATGTAATTTTGGAAAAGTTT-GGGGTCAAAATGT
22952769 GATTTTAAGAAAGTTCAAAGGTA
65 GATTTTAAGAAAGTTCAAAGGTA
* * * * * * *
22952792 AAAATGTAATCTTGGAAAATTTTAGGTTGAAAATGTGATTTTGGAAAAGTTTGGGGGTCATAATG
1 AAAATGTGATTTTGG-AAATTTAAGGGTAAAAATGTAATTTTGGAAAAGTTT-GGGGTCAAAATG
*
22952857 TAGTTTTTAA
64 T-GATTTTAA
22952867 ACAAAATAGA
Statistics
Matches: 137, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
86 7 0.05
87 49 0.36
88 41 0.30
89 33 0.24
90 7 0.05
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (87 bp):
AAAATGTGATTTTGGAAATTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTGGGGTCAAAATGTG
ATTTTAAGAAAGTTCAAAGGTA
Found at i:22952841 original size:59 final size:59
Alignment explanation
Indices: 22952705--22952842 Score: 158
Period size: 59 Copynumber: 2.4 Consensus size: 59
22952695 TTCGAAGGTA
* * *
22952705 AAAATGTGATTTTGG--AAGTTTAAGGGTAAAAATGCAATTTTGGAAAGTTTAGGGGTC
1 AAAATGTGATTTTGGAAAAGTTCAAAGGTAAAAATGCAATCTTGGAAAGTTTAGGGGTC
* * * * *
22952762 AAAATGTGATTTT-AAGAAAGTTCAAAGGTAAAAATGTAATCTTGGAAAATTTTA-GGTTG
1 AAAATGTGATTTTGGA-AAAGTTCAAAGGTAAAAATGCAATCTTGG-AAAGTTTAGGGGTC
22952821 AAAATGTGATTTTGGAAAAGTT
1 AAAATGTGATTTTGGAAAAGTT
22952843 TGGGGGTCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
57 13 0.19
59 46 0.69
60 8 0.12
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (59 bp):
AAAATGTGATTTTGGAAAAGTTCAAAGGTAAAAATGCAATCTTGGAAAGTTTAGGGGTC
Found at i:22955900 original size:20 final size:21
Alignment explanation
Indices: 22955854--22955916 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
22955844 TATTCAGAAA
*
22955854 TAATAAATA-ATA-ACAGTAAT
1 TAATAAATATATATATAGT-AT
22955874 ATAATAAATATATATATA-TAT
1 -TAATAAATATATATATAGTAT
*
22955895 TAATAAATATATGTATAGTAT
1 TAATAAATATATATATAGTAT
22955916 T
1 T
22955917 CAAACAGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 16 0.43
21 15 0.41
22 4 0.11
23 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
TAATAAATATATATATAGTAT
Found at i:22959463 original size:43 final size:43
Alignment explanation
Indices: 22959367--22959581 Score: 220
Period size: 43 Copynumber: 5.0 Consensus size: 43
22959357 ATACAGCTGT
* * *
22959367 AGAACATGGCCTTTAGCGGCGC-TTTCCCATAAACGCCATTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
* *
22959409 AGAACATGGTCTTTAGCGGCGCTTTTCTCACAAAAGCCACTAA
1 AGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
* ** *
22959452 AGAACATGGTCTTTAGCTGCGC-TTTCCTCACAAACGCCGGTAC
1 AGAACATGGTCTTTAGCGGCGCTTTTCC-CACAAACGCCACTAA
* * * *
22959495 AGAAAATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAT
1 AGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
* * * * * *
22959538 AGATA-ATGTTTTTTAGCGACGTTTTTCCCACAAACACCGCTAA
1 AGA-ACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
22959581 A
1 A
22959582 ATTAACATAT
Statistics
Matches: 148, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
42 25 0.17
43 117 0.79
44 6 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (43 bp):
AGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
Found at i:22959595 original size:43 final size:43
Alignment explanation
Indices: 22959506--22959595 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
22959496 GAAAATGTTC
* * * ** *
22959506 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATAATGTTT
1 TTTAGCGACGCTTTTCCCACAAACACCGCTATAAATAACATAT
*
22959549 TTTAGCGACGTTTTTCCCACAAACACCGCTA-AAATTAACATAT
1 TTTAGCGACGCTTTTCCCACAAACACCGCTATAAA-TAACATAT
22959592 TTTA
1 TTTA
22959596 ACAACTCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.05
43 37 0.95
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (43 bp):
TTTAGCGACGCTTTTCCCACAAACACCGCTATAAATAACATAT
Found at i:22961428 original size:30 final size:28
Alignment explanation
Indices: 22961394--22961542 Score: 147
Period size: 30 Copynumber: 5.0 Consensus size: 28
22961384 TTAAAATCAA
22961394 GTCAAATTTGAATTTTTGAAAACTTTATGG
1 GTCAAATTTGAATTTTTGAAAA-TTT-TGG
* *
22961424 GTCAAA-TCGTAATTTTTGAAAAGTTTGAGG
1 GTCAAATTTG-AATTTTTGAAAA-TTT-TGG
*
22961454 GTCAAATTGGAATTTTTGAAAAATTTTGG
1 GTCAAATTTGAATTTTTG-AAAATTTTGG
22961483 TGTCAAATTTGAATTTTTGGAAAATTCTTGG
1 -GTCAAATTTGAATTTTT-GAAAATT-TTGG
* * * *
22961514 TTCAGATTTGAATTTTTGGAAAGTTTGG
1 GTCAAATTTGAATTTTTGAAAATTTTGG
22961542 G
1 G
22961543 GGCAAAATAT
Statistics
Matches: 101, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.04
29 9 0.09
30 77 0.76
31 11 0.11
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.42
Consensus pattern (28 bp):
GTCAAATTTGAATTTTTGAAAATTTTGG
Found at i:22961557 original size:29 final size:29
Alignment explanation
Indices: 22961524--22961587 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
22961514 TTCAGATTTG
*
22961524 AATTTTTGGAAAGTTT-GGGGGCAAAATAT
1 AATTTTTAGAAAGTTTAGGGGGCAAAA-AT
**
22961553 AATTTTTAGAAAGTTTAGGGGTTAAAAAT
1 AATTTTTAGAAAGTTTAGGGGGCAAAAAT
22961582 AATTTT
1 AATTTT
22961588 AAAATAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.39
Consensus pattern (29 bp):
AATTTTTAGAAAGTTTAGGGGGCAAAAAT
Found at i:22963229 original size:40 final size:40
Alignment explanation
Indices: 22963166--22963420 Score: 166
Period size: 40 Copynumber: 6.4 Consensus size: 40
22963156 TTGGACTGCC
* **
22963166 TCAATCTGCCCGATGGTCGGGGTAAGAGATCGTATGGTCT
1 TCAATCTGCCCCATGGTTAGGGTAAGAGATCGTATGGTCT
* * * *
22963206 TCAGTCTGCCCCATGGTTAGGGTAA-AGGATTGGATTG-CT
1 TCAATCTGCCCCATGGTTAGGGTAAGA-GATCGTATGGTCT
* * * * *
22963245 TCAATTTGCCTCATGGTTGGGGTAAGAGATCGGATAGTCT
1 TCAATCTGCCCCATGGTTAGGGTAAGAGATCGTATGGTCT
* * *
22963285 TCAATCTACCCTC-TAGTTAGGGAAAGAGATC-TGATGGTCT
1 TCAATCTGCCC-CATGGTTAGGGTAAGAGATCGT-ATGGTCT
* * * *
22963325 TCAATATGCCCTC-TGGTTAAGGAAAGGGATC-TGATGGTCT
1 TCAATCTGCCC-CATGGTTAGGGTAAGAGATCGT-ATGGTCT
** * * * *
22963365 TCAATCTGCCCTC-TAATTAGGGTAAAAGATTGGATTG-CT
1 TCAATCTGCCC-CATGGTTAGGGTAAGAGATCGTATGGTCT
*
22963404 TCAATTTGCCCCATGGT
1 TCAATCTGCCCCATGGT
22963421 CGGGGTAAAA
Statistics
Matches: 169, Mismatches: 39, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
38 1 0.01
39 46 0.27
40 121 0.72
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
TCAATCTGCCCCATGGTTAGGGTAAGAGATCGTATGGTCT
Found at i:22963285 original size:79 final size:79
Alignment explanation
Indices: 22963142--22963428 Score: 296
Period size: 79 Copynumber: 3.6 Consensus size: 79
22963132 CTCTACAAGT
* * * *
22963142 TTAGGTGTAAAAGATTGGACTGCCTCAATCTGCC-CGATGGTCGGGGTAAGAGATCGTATGGTCT
1 TTAGG-GTAAAAGATTGGATTGCTTCAATTTGCCTC-ATGGTCGGGGTAAGAGATCGGATGGTCT
* *
22963206 TCAGTCTGCCC-CATGG
64 TCAATCTGCCCTC-TAG
* * *
22963222 TTAGGGTAAAGGATTGGATTGCTTCAATTTGCCTCATGGTTGGGGTAAGAGATCGGATAGTCTTC
1 TTAGGGTAAAAGATTGGATTGCTTCAATTTGCCTCATGGTCGGGGTAAGAGATCGGATGGTCTTC
*
22963287 AATCTACCCTCTAG
66 AATCTGCCCTCTAG
* * *** * * *
22963301 TTAGGG-AAAGAGATCT-GATGGTCTTCAATATGCCCTC-TGGTTAAGGAAAGGGATCTGATGGT
1 TTAGGGTAAA-AGAT-TGGATTG-CTTCAATTTG-CCTCATGGTCGGGGTAAGAGATCGGATGGT
*
22963363 CTTCAATCTGCCCTCTAA
62 CTTCAATCTGCCCTCTAG
*
22963381 TTAGGGTAAAAGATTGGATTGCTTCAATTTGCCCCATGGTCGGGGTAA
1 TTAGGGTAAAAGATTGGATTGCTTCAATTTGCCTCATGGTCGGGGTAA
22963429 AATACTCGAG
Statistics
Matches: 170, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
78 6 0.04
79 91 0.54
80 66 0.39
81 7 0.04
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (79 bp):
TTAGGGTAAAAGATTGGATTGCTTCAATTTGCCTCATGGTCGGGGTAAGAGATCGGATGGTCTTC
AATCTGCCCTCTAG
Found at i:22963526 original size:50 final size:50
Alignment explanation
Indices: 22963472--22963618 Score: 179
Period size: 50 Copynumber: 2.9 Consensus size: 50
22963462 CTTCAAGAGT
*
22963472 ATGAGATTCATCC-TTGCGACTTCAATTTGCCCCTCTACAGCTTTAGGTGA
1 ATGAGATTCA-CCATTGCGACTTCAATCTGCCCCTCTACAGCTTTAGGTGA
* *
22963522 ATGAGATTCACCATTGCGGCTTCAATCTGCCCCTCTACAGCTTTAGGTGT
1 ATGAGATTCACCATTGCGACTTCAATCTGCCCCTCTACAGCTTTAGGTGA
** * * * ** *
22963572 ATGAGATTTGCCGTTGCGGCTTCAATCCGTTCCTCTATAGCTTTAGG
1 ATGAGATTCACCATTGCGACTTCAATCTGCCCCTCTACAGCTTTAGG
22963619 GGTATAGGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 2 0.02
50 84 0.98
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (50 bp):
ATGAGATTCACCATTGCGACTTCAATCTGCCCCTCTACAGCTTTAGGTGA
Found at i:22963630 original size:50 final size:50
Alignment explanation
Indices: 22963485--22963636 Score: 162
Period size: 50 Copynumber: 3.0 Consensus size: 50
22963475 AGATTCATCC
* ** * * ** *
22963485 TTGCGACTTCAATTTGCCCCTCTACAGCTTTAGGTGAATGAGATTCACCA
1 TTGCGGCTTCAATCCGCCCCTCTACAGCTTTAGGGGTATGAGATTTGCCG
* *
22963535 TTGCGGCTTCAATCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGCCG
1 TTGCGGCTTCAATCCGCCCCTCTACAGCTTTAGGGGTATGAGATTTGCCG
** * *
22963585 TTGCGGCTTCAATCCGTTCCTCTATAGCTTTAGGGGTAT-AGGATTTGTCG
1 TTGCGGCTTCAATCCGCCCCTCTACAGCTTTAGGGGTATGA-GATTTGCCG
22963635 TT
1 TT
22963637 CTATTACCAT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 88 0.99
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (50 bp):
TTGCGGCTTCAATCCGCCCCTCTACAGCTTTAGGGGTATGAGATTTGCCG
Found at i:22974704 original size:16 final size:17
Alignment explanation
Indices: 22974683--22974738 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 17
22974673 ATTTACAGGT
22974683 ATACATAATAAAA-ACA
1 ATACATAATAAAATACA
*
22974699 ATACATACTTAAAATACA
1 ATACATA-ATAAAATACA
22974717 ATA-A-AATAAAATA-A
1 ATACATAATAAAATACA
22974731 CATACATA
1 -ATACATA
22974739 TGCATGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 10 0.30
16 9 0.27
17 7 0.21
18 6 0.18
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.23
Consensus pattern (17 bp):
ATACATAATAAAATACA
Found at i:22974810 original size:30 final size:29
Alignment explanation
Indices: 22974776--22974928 Score: 109
Period size: 30 Copynumber: 5.2 Consensus size: 29
22974766 ACATTAAAAC
*
22974776 TGGGTCAAATTTGAATTTTTGAAAACTTTA
1 TGGGTCAAATTAGAATTTTTGAAAA-TTTA
* * *
22974806 TGGGTCAAATCAAAATTTTTGGAAAGTTTGA
1 TGGGTCAAATTAGAATTTTT-GAAAATTT-A
*
22974837 -GTGTCAAATTAGAATTTTTGGAAAATTT-
1 TGGGTCAAATTAGAATTTTT-GAAAATTTA
* *
22974865 TGAGGTCAAATTTGAATTTTTGGAAAGTTTGA
1 TG-GGTCAAATTAGAATTTTT-GAAAATTT-A
** *
22974897 -GGG-CAAAACATAATTTTTGAAAAGTTTA
1 TGGGTCAAATTAGAATTTTTGAAAA-TTTA
22974925 -GGGT
1 TGGGT
22974929 TAAAAAATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
28 8 0.08
29 15 0.15
30 70 0.71
31 6 0.06
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.39
Consensus pattern (29 bp):
TGGGTCAAATTAGAATTTTTGAAAATTTA
Found at i:22974852 original size:60 final size:58
Alignment explanation
Indices: 22974778--22974928 Score: 171
Period size: 60 Copynumber: 2.6 Consensus size: 58
22974768 ATTAAAACTG
*
22974778 GGTCAAATTTGAATTTTTGAAAACTTTATGGGTCAAATCAAAATTTTTGGAAAGTTTGA
1 GGTCAAATTAGAATTTTTGAAAA-TTTATGGGTCAAATCAAAATTTTTGGAAAGTTTGA
***
22974837 GTGTCAAATTAGAATTTTTGGAAAATTT-TGAGGTCAAATTTGAATTTTTGGAAAGTTTGA
1 G-GTCAAATTAGAATTTTT-GAAAATTTATG-GGTCAAATCAAAATTTTTGGAAAGTTTGA
* ** *
22974897 GGGCAAAACATAATTTTTGAAAAGTTTA-GGGT
1 GGTCAAATTAGAATTTTTGAAAA-TTTATGGGT
22974929 TAAAAAATAA
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
58 8 0.10
59 20 0.25
60 46 0.58
61 5 0.06
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.38
Consensus pattern (58 bp):
GGTCAAATTAGAATTTTTGAAAATTTATGGGTCAAATCAAAATTTTTGGAAAGTTTGA
Found at i:22974911 original size:29 final size:29
Alignment explanation
Indices: 22974819--22974927 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 29
22974809 GTCAAATCAA
* * *
22974819 AATTTTTGGAAAGTTTGAGTGTCAAATTAG
1 AATTTTTGGAAAGTTTGAG-GGCAAAATAT
* * *
22974849 AATTTTTGGAAAATTTTGAGGTC-AAATTT
1 AATTTTTGG-AAAGTTTGAGGGCAAAATAT
*
22974878 GAATTTTTGGAAAGTTTGAGGGCAAAACAT
1 -AATTTTTGGAAAGTTTGAGGGCAAAATAT
*
22974908 AATTTTTGAAAAGTTT-AGGG
1 AATTTTTGGAAAGTTTGAGGG
22974928 TTAAAAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
28 4 0.06
29 29 0.43
30 25 0.37
31 9 0.13
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.39
Consensus pattern (29 bp):
AATTTTTGGAAAGTTTGAGGGCAAAATAT
Found at i:22974933 original size:29 final size:29
Alignment explanation
Indices: 22974789--22974940 Score: 87
Period size: 29 Copynumber: 5.1 Consensus size: 29
22974779 GTCAAATTTG
* *
22974789 AATTTTTGAAAACTTT-ATGGGTCAAATCAA-
1 AATTTTTGAAAAGTTTGA-GGG-CAAA-AAAT
* * ** *
22974819 AATTTTTGGAAAGTTTGAGTGTCAAATTAG
1 AATTTTTGAAAAGTTTGAG-GGCAAAAAAT
* * **
22974849 AATTTTTGGAAAATTTTGAGGTC-AAATTT
1 AATTTTT-GAAAAGTTTGAGGGCAAAAAAT
* *
22974878 GAATTTTTGGAAAGTTTGAGGGCAAAACAT
1 -AATTTTTGAAAAGTTTGAGGGCAAAAAAT
*
22974908 AATTTTTGAAAAGTTT-AGGGTTAAAAAAT
1 AATTTTTGAAAAGTTTGAGGG-CAAAAAAT
22974937 AATT
1 AATT
22974941 GTAAAATAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
28 4 0.04
29 41 0.42
30 40 0.41
31 12 0.12
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (29 bp):
AATTTTTGAAAAGTTTGAGGGCAAAAAAT
Found at i:22975955 original size:19 final size:20
Alignment explanation
Indices: 22975917--22975955 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
22975907 TTGTATTTAT
* *
22975917 AAAATAAATAAATAATAATA
1 AAAATAAATAAAGAAAAATA
22975937 AAAATAAA-AAAGAAAAATA
1 AAAATAAATAAAGAAAAATA
22975956 GTGTACTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAATAAATAAAGAAAAATA
Found at i:22983925 original size:9 final size:9
Alignment explanation
Indices: 22983911--22983936 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22983901 TACTTTCTCT
22983911 CAAAGAATA
1 CAAAGAATA
22983920 CAAAGAATA
1 CAAAGAATA
22983929 CAAAGAAT
1 CAAAGAAT
22983937 GGAATGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (9 bp):
CAAAGAATA
Found at i:22984556 original size:110 final size:109
Alignment explanation
Indices: 22984403--22984729 Score: 428
Period size: 110 Copynumber: 2.9 Consensus size: 109
22984393 AATAACTAAT
* *
22984403 TAAATAATTAATTATTTTAAT--TGAGTTCTATTTTTAATAATTTAATATTTATTTAAATATAAT
1 TAAATAAATAATTATTTTAATAAT-TGTTCTATTTTTAATAATTTAATATTTATTTAAATATAAT
*
22984466 TAACTAATTTAATATTTTGAATTAAATATTTGGGTTTATGGTTTAA
65 TAAATAATTTAATATTTTGAATTAAATATTTGGGTTTA-GGTTTAA
* *
22984512 TAAATAACTAATTATTTTAATAATTGTTCTATTTTTAATAATTTAATATTTATTTAAATATAACT
1 TAAATAAATAATTATTTTAATAATTGTTCTATTTTTAATAATTTAATATTTATTTAAATATAATT
*
22984577 AAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGTTTAA
66 AAATAATTTAATATTTTGAATTAAATATTTGGGTTTAGGTTTAA
* *
22984621 TAAATAAATAATTAAATAATTAATTATTTTAATTGATT-T-TTTTTAATAGTTTAATATTTATTT
1 TAAATAAATAA-T---T-ATT--TTA--ATAATTG-TTCTATTTTTAATAATTTAATATTTATTT
* *
22984684 AAATATAATGAAATAATTTAACATTTTGAATTAAATATTTGGGTTT
56 AAATATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTTT
22984730 TTTTTTACAT
Statistics
Matches: 194, Mismatches: 12, Indels: 16
0.87 0.05 0.07
Matches are distributed among these distances:
109 37 0.19
110 75 0.39
111 1 0.01
113 1 0.01
114 3 0.02
116 3 0.02
117 65 0.34
118 7 0.04
119 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (109 bp):
TAAATAAATAATTATTTTAATAATTGTTCTATTTTTAATAATTTAATATTTATTTAAATATAATT
AAATAATTTAATATTTTGAATTAAATATTTGGGTTTAGGTTTAA
Found at i:22984567 original size:121 final size:116
Alignment explanation
Indices: 22984340--22984729 Score: 501
Period size: 121 Copynumber: 3.4 Consensus size: 116
22984330 ATAGTTGCAA
* *
22984340 ATAATTAAATAATTAAATATTTTGAATTAAATAGTTGGGTTTAGGGTTTAATAAATAACTAATTA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTTTA-GGTTTAATAAATAACTAATTA
*
22984405 AATAATTAATTATTTTAATTGAGTTCTATTTTTAATAATTTAATATTTATTTAAAT
65 AATAATTAATTATTTTAATT-AATT-TATTTTT-AT-ATTTAATATTTATTTAAAT
*
22984461 ATAATTAACTAATTTAATATTTTGAATTAAATATTTGGGTTTATGGTTTAATAAATAACTAATT-
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTTTA-GGTTTAATAAATAACTAATTA
* * * **
22984525 -AT-TTTAATAATTGTT--CT-ATTT-TTAATA-ATTTAATATTTATTTAAAT
65 AATAATTAATTATT-TTAATTAATTTATTTTTATATTTAATATTTATTTAAAT
* * *
22984571 ATAACTAAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGTTTAATAAATAAATAATTAA
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTTTAGGTTTAATAAATAACTAATTAA
*
22984636 ATAATTAATTATTTTAATTGATTT-TTTTTAATAGTTTAATATTTATTTAAAT
66 ATAATTAATTATTTTAATTAATTTATTTTT-ATA-TTTAATATTTATTTAAAT
* *
22984688 ATAATGAAATAATTTAACATTTTGAATTAAATATTTGGGTTT
1 ATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTTT
22984730 TTTTTTACAT
Statistics
Matches: 236, Mismatches: 23, Indels: 24
0.83 0.08 0.08
Matches are distributed among these distances:
109 19 0.08
110 59 0.25
111 4 0.02
112 9 0.04
113 4 0.02
114 8 0.03
115 3 0.01
116 1 0.00
117 57 0.24
118 8 0.03
119 4 0.02
121 60 0.25
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (116 bp):
ATAATTAAATAATTTAATATTTTGAATTAAATATTTGGGTTTAGGTTTAATAAATAACTAATTAA
ATAATTAATTATTTTAATTAATTTATTTTTATATTTAATATTTATTTAAAT
Found at i:22984753 original size:117 final size:120
Alignment explanation
Indices: 22984512--22984729 Score: 329
Period size: 117 Copynumber: 1.8 Consensus size: 120
22984502 TATGGTTTAA
22984512 TAAATAACTAATTATTTTAATAATTGTTCTATTTTTAATAATTTAATATTTATTTAAATATAACT
1 TAAATAACTAATTATTTT-ATAATTGTTCTATTTTTAATAATTTAATATTTATTTAAATATAACT
* *
22984577 AAATAATTTAATATTTTGAATTAAATATTTGAGTTTAGGTTTAATAAATAAATAAT
65 AAATAATTTAACATTTTGAATTAAATATTTGAGTTTAGGTTTAATAAACAAATAAT
* *
22984633 TAAATAATTAATTA-TTT-TAATTGATT-T-TTTTTAATAGTTTAATATTTATTTAAATATAA-T
1 TAAATAACTAATTATTTTATAATTG-TTCTATTTTTAATAATTTAATATTTATTTAAATATAACT
*
22984693 GAAATAATTTAACATTTTGAATTAAATATTTGGGTTT
65 -AAATAATTTAACATTTTGAATTAAATATTTGAGTTT
22984730 TTTTTTACAT
Statistics
Matches: 91, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
116 1 0.01
117 65 0.71
118 7 0.08
119 2 0.02
120 3 0.03
121 13 0.14
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TAAATAACTAATTATTTTATAATTGTTCTATTTTTAATAATTTAATATTTATTTAAATATAACTA
AATAATTTAACATTTTGAATTAAATATTTGAGTTTAGGTTTAATAAACAAATAAT
Found at i:22989843 original size:41 final size:41
Alignment explanation
Indices: 22989798--22989883 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
22989788 TTTATGGGGA
* * *
22989798 AAACACCGTTATTACT-TAACCTTTAGC-AGCGTTTTTCTCAT
1 AAACACCGCTAATACTCTAACCTTTAGCGA-CG-TTTTCTAAT
*
22989839 AAACACCGCTAATGCTCTAACCTTTAGCGACGTTTTCTAAT
1 AAACACCGCTAATACTCTAACCTTTAGCGACGTTTTCTAAT
22989880 AAAC
1 AAAC
22989884 GTTGTTAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 25 0.64
42 13 0.33
43 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (41 bp):
AAACACCGCTAATACTCTAACCTTTAGCGACGTTTTCTAAT
Found at i:22993911 original size:40 final size:41
Alignment explanation
Indices: 22993867--22993965 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
22993857 TATAAACGCT
* **
22993867 GCTATTGCTTCACCTTTTACAGCGTTTATG-GAAAAACGTC
1 GCTATTGCTTCACCTTTTACAGCGTTTATGAAAAAAACACC
* **
22993907 GCTATTGCTTTACCTTTTATGGCGTTTATGAAAAAAACACC
1 GCTATTGCTTCACCTTTTACAGCGTTTATGAAAAAAACACC
* *
22993948 ACTATTGCTTGACCTTTT
1 GCTATTGCTTCACCTTTT
22993966 GTGGCGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 27 0.54
41 23 0.46
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (41 bp):
GCTATTGCTTCACCTTTTACAGCGTTTATGAAAAAAACACC
Found at i:22993955 original size:41 final size:40
Alignment explanation
Indices: 22993868--22993974 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 40
22993858 ATAAACGCTG
** * ** *
22993868 CTATTGCTTCACCTTTTACAGCGTTTATGGAAAAACGTCG
1 CTATTGCTTCACCTTTTATGGCGTTTATGAAAAAACACCA
*
22993908 CTATTGCTTTACCTTTTATGGCGTTTATGAAAAAAACACCA
1 CTATTGCTTCACCTTTTATGGCGTTTATG-AAAAAACACCA
* *
22993949 CTATTGCTTGACCTTTTGTGGCGTTT
1 CTATTGCTTCACCTTTTATGGCGTTT
22993975 TCTGTCCAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
40 26 0.46
41 31 0.54
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (40 bp):
CTATTGCTTCACCTTTTATGGCGTTTATGAAAAAACACCA
Found at i:23003490 original size:25 final size:23
Alignment explanation
Indices: 23003439--23003483 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
23003429 AAATATACTA
*
23003439 ATAATATTTTTAATTTTTATATT
1 ATAATATATTTAATTTTTATATT
23003462 ATAATATATTTAATTTTTATAT
1 ATAATATATTTAATTTTTATAT
23003484 CATATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
ATAATATATTTAATTTTTATATT
Found at i:23007871 original size:25 final size:26
Alignment explanation
Indices: 23007830--23007880 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
23007820 CATTAACGGT
*
23007830 ATATCAAATAATTTTTTAA-ATTTTA
1 ATATCAAATAATATTTTAATATTTTA
23007855 ATAT-AAATATATATTTTAATATTTTA
1 ATATCAAATA-ATATTTTAATATTTTA
23007881 TGAATAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 12 0.52
26 6 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
ATATCAAATAATATTTTAATATTTTA
Found at i:23009144 original size:20 final size:20
Alignment explanation
Indices: 23009119--23009159 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23009109 GTTTGATAGC
23009119 TAGTTCATATATTGATCCAT
1 TAGTTCATATATTGATCCAT
23009139 TAGTTCATATATTGATCCAT
1 TAGTTCATATATTGATCCAT
23009159 T
1 T
23009160 TTTTACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TAGTTCATATATTGATCCAT
Found at i:23010807 original size:21 final size:22
Alignment explanation
Indices: 23010767--23010809 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23010757 AAAACCCATT
23010767 AAAGCCCAAAACTACTTAAACCC
1 AAAGCCCAAAAC-ACTTAAACCC
*
23010790 AAAGCCCATAAC-CTTAAACC
1 AAAGCCCAAAACACTTAAACC
23010810 TAAACAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.47, C:0.35, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAGCCCAAAACACTTAAACCC
Found at i:23011349 original size:19 final size:19
Alignment explanation
Indices: 23011327--23011410 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
23011317 TAATTTAATT
23011327 ATAAAATAATTAATTTGTG
1 ATAAAATAATTAATTTGTG
**
23011346 ATAAAATTTTTAATTAATGTCG
1 ATAAAATAATTAATT--TGT-G
* *
23011368 A-AAAAT-A-TAATTTAATT
1 ATAAAATAATTAATTT-GTG
*
23011385 ATAAAATAATTAATTTGCG
1 ATAAAATAATTAATTTGTG
23011404 ATAAAAT
1 ATAAAAT
23011411 TTCTGACATA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
17 2 0.04
18 6 0.12
19 26 0.52
20 6 0.12
21 8 0.16
22 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (19 bp):
ATAAAATAATTAATTTGTG
Found at i:23011370 original size:58 final size:58
Alignment explanation
Indices: 23011300--23011412 Score: 217
Period size: 58 Copynumber: 1.9 Consensus size: 58
23011290 ATTCAGAGTT
*
23011300 ATTAATGTCGAAAAATATAATTTAATTATAAAATAATTAATTTGTGATAAAATTTTTA
1 ATTAATGTCGAAAAATATAATTTAATTATAAAATAATTAATTTGCGATAAAATTTTTA
23011358 ATTAATGTCGAAAAATATAATTTAATTATAAAATAATTAATTTGCGATAAAATTT
1 ATTAATGTCGAAAAATATAATTTAATTATAAAATAATTAATTTGCGATAAAATTT
23011413 CTGACATATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (58 bp):
ATTAATGTCGAAAAATATAATTTAATTATAAAATAATTAATTTGCGATAAAATTTTTA
Found at i:23012284 original size:12 final size:12
Alignment explanation
Indices: 23012267--23012292 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23012257 TGTTATTATG
23012267 ATGAATGCTATT
1 ATGAATGCTATT
23012279 ATGAATGCTATT
1 ATGAATGCTATT
23012291 AT
1 AT
23012293 TTATCTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:23013011 original size:16 final size:17
Alignment explanation
Indices: 23012981--23013015 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23012971 TGCATCGAAA
23012981 TTTAACATAGATTTAAT
1 TTTAACATAGATTTAAT
*
23012998 TTTAACTTAG-TTTAAT
1 TTTAACATAGATTTAAT
23013014 TT
1 TT
23013016 AGTTTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTAACATAGATTTAAT
Found at i:23016120 original size:14 final size:14
Alignment explanation
Indices: 23016103--23016147 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
23016093 CAAAAACCCA
*
23016103 CACATAAAATAGTT
1 CACATAAAACAGTT
*
23016117 CACATACAACAGTT
1 CACATAAAACAGTT
*
23016131 CGCATATAAACAGTT
1 CACATA-AAACAGTT
23016146 CA
1 CA
23016148 GTGATATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.24
Consensus pattern (14 bp):
CACATAAAACAGTT
Found at i:23018809 original size:52 final size:52
Alignment explanation
Indices: 23018686--23018873 Score: 216
Period size: 52 Copynumber: 3.6 Consensus size: 52
23018676 ATTTTGTTTA
* ** * * * *
23018686 ATACTCACGATGATACATAGTCATCGGACCTTTTAATTCGTAGAAGAAATCCT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTA-AAGGATTCAT
* * * *
23018739 ACACTCATGATGACACATAGTTATCGGACCTCATAATCCGTAAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
23018791 ATACTCACGATGACACATAGCCATCGGACCTCATAATCCG-AAACAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAA-GGATTCAT
* *
23018843 ATACTCACGATGACACGTAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
23018874 TTTTTGTTTA
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
51 3 0.03
52 76 0.67
53 35 0.31
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:23020588 original size:6 final size:6
Alignment explanation
Indices: 23020581--23020626 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
23020571 TATTTGATAA
* * * *
23020581 ATATAA ATATAT ATATAT ATATAT ATATTT ATATTT ATATTT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
23020627 TTTTCTTGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATATAT
Found at i:23020598 original size:8 final size:8
Alignment explanation
Indices: 23020581--23020626 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
23020571 TATTTGATAA
*
23020581 ATATAAAT
1 ATATATAT
23020589 ATATATAT
1 ATATATAT
23020597 ATATATAT
1 ATATATAT
*
23020605 ATATTTAT
1 ATATATAT
*
23020613 ATTTATAT
1 ATATATAT
*
23020621 TTATAT
1 ATATAT
23020627 TTTTCTTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATATAT
Found at i:23020627 original size:6 final size:6
Alignment explanation
Indices: 23020587--23020628 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
23020577 ATAAATATAA
* * *
23020587 ATATAT ATATAT ATATAT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
23020629 TTCTTGATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
ATATTT
Found at i:23020998 original size:18 final size:18
Alignment explanation
Indices: 23020972--23021031 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
23020962 ATATTTTTAA
* *
23020972 TTATGTAAAATAATAATT
1 TTATTTAAAATAATAAAT
* *
23020990 TTATTTAAATTATTAAAT
1 TTATTTAAAATAATAAAT
* *
23021008 TTAATTAAAATAAATTAAT
1 TTATTTAAAAT-AATAAAT
23021027 TTATT
1 TTATT
23021032 AATTAATGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
18 23 0.72
19 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATTTAAAATAATAAAT
Found at i:23021032 original size:18 final size:17
Alignment explanation
Indices: 23020968--23021033 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 17
23020958 TATTATATTT
23020968 TTAA-TTATGTAAAATAA
1 TTAATTTAT-TAAAATAA
* *
23020985 -TAATTTTATTTAAATTA
1 TTAA-TTTATTAAAATAA
23021002 TTAAATTTAATTAAAATAAA
1 TT-AATTT-ATTAAAAT-AA
23021022 TTAATTTATTAA
1 TTAATTTATTAA
23021034 TTAATGTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
16 3 0.08
17 6 0.15
18 13 0.33
19 14 0.36
20 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAATTTATTAAAATAA
Found at i:23021166 original size:13 final size:15
Alignment explanation
Indices: 23021148--23021184 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
23021138 ATCTAAAATA
23021148 ATAATTAA-T-TAAT
1 ATAATTAACTCTAAT
23021161 ATAATTAACTCTAAT
1 ATAATTAACTCTAAT
23021176 ATTAATTAA
1 A-TAATTAA
23021185 GTCATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 5 0.24
16 7 0.33
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTAACTCTAAT
Found at i:23027228 original size:76 final size:76
Alignment explanation
Indices: 23027137--23027285 Score: 235
Period size: 76 Copynumber: 2.0 Consensus size: 76
23027127 TAAATGTAAC
* *
23027137 ACAATTTTTATAATTAATAATTCTAATTTAAATTTTAATTATTTTAAAAAATGAAACTAGTAATA
1 ACAATTTTTACAATTAATAATTCTAATTTAAATTTTAATTATTTTAAAAAATGAAACTAGTAACA
23027202 ACTTGAAAGTT
66 ACTTGAAAGTT
* * * **
23027213 ACAATTTTTACAATTAATAGTTGTAATTTAAATTTTAATTATTTTTAAAAATGAATTTAGTAACA
1 ACAATTTTTACAATTAATAATTCTAATTTAAATTTTAATTATTTTAAAAAATGAAACTAGTAACA
23027278 ACTTGAAA
66 ACTTGAAA
23027286 AATAAAAGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (76 bp):
ACAATTTTTACAATTAATAATTCTAATTTAAATTTTAATTATTTTAAAAAATGAAACTAGTAACA
ACTTGAAAGTT
Found at i:23028479 original size:30 final size:30
Alignment explanation
Indices: 23028399--23028890 Score: 470
Period size: 30 Copynumber: 16.6 Consensus size: 30
23028389 TAGAGAATTT
* **
23028399 AGGGTTAAAATGTAATTTT-AAAAAGTTT-
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* *
23028427 AGGG-TAAACATGTAATTATGGGAAAGTTTA
1 AGGGTTAAA-ATGTGATTTTGGGAAAGTTTA
*
23028457 AGGGTTAAAATGTGATTTTGGGAAAATTT-
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* * *
23028486 -GGGATCAAAATGTCATTTT-GGAAAGTTTTG
1 AGGG-TTAAAATGTGATTTTGGGAAAG-TTTA
** * *
23028516 AGGGTTAAAATGCAATTTTAGGAAATTTTA
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
*
23028546 GGGGTTAAAATGTGATTTTGGG-AAGTTTA
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* * *
23028575 AAGGTTAAAATGTAATTTT-GGAAAGGTTA
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
*
23028604 AGGGGTTAAAATGTGATTTTAGG-AAGTTTA
1 A-GGGTTAAAATGTGATTTTGGGAAAGTTTA
* *
23028634 GGGGTTAAAATGTAATTTTGGGAAAGTTTA
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* * *
23028664 GGGGTTAAAATGTAATTTTAGG-AAGTTTA
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* ** *
23028693 AGGGTTAAAATGTGGTTTTAAGAAAATTTA
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* * **
23028723 AGGGTCAAAATGTGGTTTTAAGAAAGTTT-
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* *
23028752 GGAGGTCAAAATGTGATTTTGGG-AAGTTTA
1 AG-GGTTAAAATGTGATTTTGGGAAAGTTTA
* *
23028782 GGGGTTAAAATGTAATTTTGGGAAAGTTTTA
1 AGGGTTAAAATGTGATTTTGGGAAAG-TTTA
* *
23028813 GGGGTCAAAATGTGATTTTGGG-AAGTTTA
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* *
23028842 AGGGTTAAAATGTGGTTTTGGGAAAGTTTG
1 AGGGTTAAAATGTGATTTTGGGAAAGTTTA
* *
23028872 GGGGTCAAAATGTGATTTT
1 AGGGTTAAAATGTGATTTT
23028891 AAAGAAAATA
Statistics
Matches: 393, Mismatches: 52, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.01
28 23 0.06
29 144 0.37
30 184 0.47
31 38 0.10
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (30 bp):
AGGGTTAAAATGTGATTTTGGGAAAGTTTA
Found at i:23028540 original size:59 final size:61
Alignment explanation
Indices: 23028399--23028870 Score: 411
Period size: 59 Copynumber: 8.0 Consensus size: 61
23028389 TAGAGAATTT
* *
23028399 AGGGTTAAAATGTAATTTTA--AAAAGTTTA-GGG-TAAACATGTAATTATGGGAAAG-TTTA
1 AGGGTTAAAATGTAATTTTAGGAAAA-TTTAGGGGTTAAA-ATGTAATTTTAGGAAAGTTTTA
* * * * * *
23028457 AGGGTTAAAATGTGATTTTGGGAAAATTT-GGGATCAAAATGTCATTTT-GGAAAGTTTTG
1 AGGGTTAAAATGTAATTTTAGGAAAATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTTA
* * * *
23028516 AGGGTTAAAATGCAATTTTAGGAAATTTTAGGGGTTAAAATGTGATTTT-GGGAAG-TTTA
1 AGGGTTAAAATGTAATTTTAGGAAAATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTTA
* * * *
23028575 AAGGTTAAAATGTAATTTT-GGAAAGGTTAAGGGGTTAAAATGTGATTTTAGG-AAG-TTTA
1 AGGGTTAAAATGTAATTTTAGGAAA-ATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTTA
* * *
23028634 GGGGTTAAAATGTAATTTTGGGAAAGTTTAGGGGTTAAAATGTAATTTTAGG-AAG-TTTA
1 AGGGTTAAAATGTAATTTTAGGAAAATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTTA
** * * * ** * **
23028693 AGGGTTAAAATGTGGTTTTAAGAAAATTTAAGGGTCAAAATGTGGTTTTAAGAAAGTTTGG
1 AGGGTTAAAATGTAATTTTAGGAAAATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTTA
* * * * *
23028754 A-GGTCAAAATGTGATTTT-GGGAAGTTTAGGGGTTAAAATGTAATTTTGGGAAAGTTTTA
1 AGGGTTAAAATGTAATTTTAGGAAAATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTTA
* * * * * * ** *
23028813 GGGGTCAAAATGTGATTTT-GGGAAGTTTAAGGGTTAAAATGTGGTTTTGGGAAAGTTT
1 AGGGTTAAAATGTAATTTTAGGAAAATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTT
23028871 GGGGGTCAAA
Statistics
Matches: 348, Mismatches: 54, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
58 29 0.08
59 210 0.60
60 106 0.30
61 3 0.01
ACGTcount: A:0.34, C:0.01, G:0.28, T:0.36
Consensus pattern (61 bp):
AGGGTTAAAATGTAATTTTAGGAAAATTTAGGGGTTAAAATGTAATTTTAGGAAAGTTTTA
Found at i:23028560 original size:89 final size:89
Alignment explanation
Indices: 23028396--23028891 Score: 497
Period size: 89 Copynumber: 5.6 Consensus size: 89
23028386 TTTTAGAGAA
* ** * * *
23028396 TTTA-GGGTTAAAATGTAATTTTAAAAAGTTT-AGGG-TAAACATGTAATTATGGGAAAGTTTAA
1 TTTAGGGGTCAAAATGTAATTTTGGAAAGTTTAAGGGTTAAA-ATGTAATTTTAGGAAAGTTTAG
*
23028458 GGGTTAAAATGTGATTTTGGGAAAA
65 GGGTTAAAATGTGATTTTGGGAAAG
* * * * *
23028483 TTT-GGGATCAAAATGTCATTTTGGAAAGTTTTGAGGGTTAAAATGCAATTTTAGGAAATTTTAG
1 TTTAGGGGTCAAAATGTAATTTTGGAAAG-TTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTAG
23028547 GGGTTAAAATGTGATTTTGGG-AAG
65 GGGTTAAAATGTGATTTTGGGAAAG
** * * *
23028571 TTTAAAGGTTAAAATGTAATTTTGGAAAGGTTAAGGGGTTAAAATGTGATTTTAGG-AAGTTTAG
1 TTTAGGGGTCAAAATGTAATTTTGGAAAGTTTAA-GGGTTAAAATGTAATTTTAGGAAAGTTTAG
*
23028635 GGGTTAAAATGTAATTTTGGGAAAG
65 GGGTTAAAATGTGATTTTGGGAAAG
* ** * * *
23028660 TTTAGGGGTTAAAATGTAATTTTAGG-AAGTTTAAGGGTTAAAATGTGGTTTTAAGAAAATTTAA
1 TTTAGGGGTCAAAATGTAATTTT-GGAAAGTTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTAG
* * **
23028724 GGGTCAAAATGTGGTTTTAAGAAAG
65 GGGTTAAAATGTGATTTTGGGAAAG
* * * *
23028749 TTT-GGAGGTCAAAATGTGATTTTGGGAAGTTTAGGGGTTAAAATGTAATTTTGGGAAAGTTTTA
1 TTTAGG-GGTCAAAATGTAATTTTGGAAAGTTTAAGGGTTAAAATGTAATTTTAGGAAAG-TTTA
*
23028813 GGGGTCAAAATGTGATTTTGGG-AAG
64 GGGGTTAAAATGTGATTTTGGGAAAG
* * ** ** * *
23028838 TTTAAGGGTTAAAATGTGGTTTTGGGAAAGTTTGGGGGTCAAAATGTGATTTTA
1 TTTAGGGGTCAAAATGTAATTTT-GGAAAGTTTAAGGGTTAAAATGTAATTTTA
23028892 AAGAAAATAA
Statistics
Matches: 341, Mismatches: 54, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
87 22 0.06
88 61 0.18
89 204 0.60
90 54 0.16
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (89 bp):
TTTAGGGGTCAAAATGTAATTTTGGAAAGTTTAAGGGTTAAAATGTAATTTTAGGAAAGTTTAGG
GGTTAAAATGTGATTTTGGGAAAG
Found at i:23030755 original size:26 final size:26
Alignment explanation
Indices: 23030726--23030781 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
23030716 TTTTTATAAT
* *
23030726 TTTTAAAAGATTAAATTATTTTTTTA
1 TTTTAAAAGATTAAAATATATTTTTA
***
23030752 TTTTAGGGGATTAAAATATATTTTTA
1 TTTTAAAAGATTAAAATATATTTTTA
23030778 TTTT
1 TTTT
23030782 TACTAATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TTTTAAAAGATTAAAATATATTTTTA
Found at i:23033044 original size:39 final size:38
Alignment explanation
Indices: 23032996--23033329 Score: 107
Period size: 35 Copynumber: 9.1 Consensus size: 38
23032986 CGAAGGCAAT
*
23032996 CTTTTAAAAAAGGTTGGAATAAACCCATCTAAGACAAC
1 CTTTTAAAAAAGGTTAGAATAAACCCATCTAAGACAAC
* * * *
23033034 CTTTTAAAAAAAGGTTAGAATAGATCCGTCTAAGGCAAC
1 CTTTT-AAAAAAGGTTAGAATAAACCCATCTAAGACAAC
* * ** *
23033073 C--TT-AGAAAGATT-GAGATAAACATTATCTAAGACAAT
1 CTTTTAAAAAAGGTTAGA-ATAAAC-CCATCTAAGACAAC
* * * *
23033109 C-TTTAAAAAAGGTT-GAGATAGACTCGTCTAAGGCAAC
1 CTTTTAAAAAAGGTTAGA-ATAAACCCATCTAAGACAAC
* ** *
23033146 C--TT-AAAAAGGTT-GAGATAGACTTATCTAAGCCAAC
1 CTTTTAAAAAAGGTTAGA-ATAAACCCATCTAAGACAAC
*** * *
23033181 C--TT-AAAAAGGTTGAGAA-AAATCTTGTTTAAGGCAAC
1 CTTTTAAAAAAGGTT-AGAATAAA-CCCATCTAAGACAAC
* * * * *
23033217 C-TTTGAAAAAGATT-GAGATAAATCTATCTAAAACAAC
1 CTTTTAAAAAAGGTTAGA-ATAAACCCATCTAAGACAAC
* * ** *
23033254 C--TTAAAAAA-GTTGGGATAAACATTATCTAAAACAAC
1 CTTTTAAAAAAGGTTAGAATAAAC-CCATCTAAGACAAC
* * *
23033290 C-TTTAAAAAAGGTTGGGATAAATCCATCTAA-AGCAAC
1 CTTTTAAAAAAGGTTAGAATAAACCCATCTAAGA-CAAC
23033327 CTT
1 CTT
23033330 AAAAAGGTTG
Statistics
Matches: 235, Mismatches: 43, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
34 2 0.01
35 61 0.26
36 51 0.22
37 49 0.21
38 43 0.18
39 29 0.12
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (38 bp):
CTTTTAAAAAAGGTTAGAATAAACCCATCTAAGACAAC
Found at i:23033137 original size:73 final size:72
Alignment explanation
Indices: 23033022--23033271 Score: 262
Period size: 73 Copynumber: 3.4 Consensus size: 72
23033012 GAATAAACCC
*
23033022 ATCTAAGACAACCTTTTAAAAAAAGGTT-AGAATAGA-TCCGTCTAAGGCAACCTTAGAAAGATT
1 ATCTAAGACAACC--TT-AAAAAAGGTTGAG-ATAGACT-CGTCTAAGGCAACCTTAAAAAGATT
23033085 GAGATAAACATT
61 GAGATAAACATT
* *
23033097 ATCTAAGACAATCTTTAAAAAAGGTTGAGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGAGA
1 ATCTAAGACAA-CCTTAAAAAAGGTTGAGATAGACTCGTCTAAGGCAACCTTAAAAAGATTGAGA
*
23033162 TAGAC-TT
65 TAAACATT
* * * * *
23033169 ATCTAAGCCAACCTT-AAAAAGGTTGAGAAAAATCTTGTTTAAGGCAACCTTTGAAAAAGATTGA
1 ATCTAAGACAACCTTAAAAAAGGTTGAGATAGA-CTCGTCTAAGGCAACC-TT-AAAAAGATTGA
23033233 GAT-AA-ATCT
63 GATAAACAT-T
* *
23033242 ATCTAAAACAACCTTAAAAAA-GTTGGGATA
1 ATCTAAGACAACCTTAAAAAAGGTTGAGATA
23033272 AACATTATCT
Statistics
Matches: 150, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
70 15 0.10
71 17 0.11
72 16 0.11
73 80 0.53
74 10 0.07
75 11 0.07
76 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (72 bp):
ATCTAAGACAACCTTAAAAAAGGTTGAGATAGACTCGTCTAAGGCAACCTTAAAAAGATTGAGAT
AAACATT
Found at i:23033195 original size:108 final size:109
Alignment explanation
Indices: 23033062--23033384 Score: 284
Period size: 108 Copynumber: 3.0 Consensus size: 109
23033052 AATAGATCCG
* * * * *
23033062 TCTAAGGCAACCTTAGAAAGATTGAGATAAA-CATTATCTAAGACAATCTTTAAAAAAGGTTGAG
1 TCTAAGACAACCTTAAAAAGGTTGAGATAAATC-TTATCTAAGACAACCTTTAAAAAAGATTGAG
* * ** * *
23033126 ATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGAGATAGAC-TTA
65 ATAAATCT-ATCTAAAACAACCTTAAAAAAGTTGAGATAAACATTA
* * * * * *
23033170 TCTAAGCCAACCTTAAAAAGGTTGAGAAAAATCTTGTTTAAGGCAACCTTTGAAAAAGATTGAGA
1 TCTAAGACAACCTTAAAAAGGTTGAGATAAATCTTATCTAAGACAACCTTTAAAAAAGATTGAGA
*
23033235 TAAATCTATCTAAAACAACCTTAAAAAAGTTGGGATAAACATTA
66 TAAATCTATCTAAAACAACCTTAAAAAAGTTGAGATAAACATTA
* * * *
23033279 TCTAAAACAACCTTTAAAAAAGGTTGGGATAAATC-CATCTAA-AGCAACC-TT-AAAAAGGTTG
1 TCTAAGACAACC-TT-AAAAAGGTTGAGATAAATCTTATCTAAGA-CAACCTTTAAAAAAGATTG
* * *
23033340 -GCATAAACCTTGTTTAAAACAACCTATAAAAAAGATTGAGATAAA
63 AG-ATAAATC-TATCTAAAACAACCT-TAAAAAAG-TTGAGATAAA
23033385 TTCGTTTAAG
Statistics
Matches: 175, Mismatches: 30, Indels: 17
0.79 0.14 0.08
Matches are distributed among these distances:
107 1 0.01
108 98 0.56
109 31 0.18
110 19 0.11
111 26 0.15
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (109 bp):
TCTAAGACAACCTTAAAAAGGTTGAGATAAATCTTATCTAAGACAACCTTTAAAAAAGATTGAGA
TAAATCTATCTAAAACAACCTTAAAAAAGTTGAGATAAACATTA
Found at i:23033290 original size:73 final size:73
Alignment explanation
Indices: 23033078--23033385 Score: 279
Period size: 73 Copynumber: 4.2 Consensus size: 73
23033068 GCAACCTTAG
* * * * **
23033078 AAAGATTGAGATAAA-CATTATCTAAGACAATCTTTAAAAAAGGTTGAGATAGACTCGTCTAAGG
1 AAAGATTGAGATAAATC-TTATCTAAAACAA-CCTTAAAAAA-GTTGAGATAAACTTGTCTAAAA
23033142 CAACC-TT-AA
63 CAACCTTTAAA
* * ** * * * **
23033151 AAAGGTTGAGATAGA-CTTATCTAAGCCAACCTTAAAAAGGTTGAGAAAAATCTTGTTTAAGGCA
1 AAAGATTGAGATAAATCTTATCTAAAACAACCTTAAAAAAGTTGAGATAAA-CTTGTCTAAAACA
*
23033215 ACCTTTGAA
65 ACCTTTAAA
* *
23033224 AAAGATTGAGATAAATC-TATCTAAAACAACCTTAAAAAAGTTGGGATAAACATTATCTAAAACA
1 AAAGATTGAGATAAATCTTATCTAAAACAACCTTAAAAAAGTTGAGATAAAC-TTGTCTAAAACA
23033288 ACCTTTAAA
65 ACCTTTAAA
* * * * * *
23033297 AAAGGTTGGGATAAATC-CATCTAAAGCAACCTTAAAAAGGTTG-GCATAAACCTTGTTTAAAAC
1 AAAGATTGAGATAAATCTTATCTAAAACAACCTTAAAAAAGTTGAG-ATAAA-CTTGTCTAAAAC
*
23033360 AACCTATAAA
64 AACCTTTAAA
23033370 AAAGATTGAGATAAAT
1 AAAGATTGAGATAAAT
23033386 TCGTTTAAGG
Statistics
Matches: 197, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
70 9 0.05
71 22 0.11
72 16 0.08
73 148 0.75
74 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (73 bp):
AAAGATTGAGATAAATCTTATCTAAAACAACCTTAAAAAAGTTGAGATAAACTTGTCTAAAACAA
CCTTTAAA
Found at i:23033399 original size:73 final size:71
Alignment explanation
Indices: 23033177--23033414 Score: 246
Period size: 73 Copynumber: 3.3 Consensus size: 71
23033167 TTATCTAAGC
* * ** *
23033177 CAACCTTAAAAAGGTTGAGAAAAATCTTGTTTAAGGCAACCTTTGAAAAAGATTGAGATAAA-TC
1 CAACCTTAAAAAGGTTG-GATAAACCTTGTTTAAAACAACCTTTAAAAAAGATTGAGATAAATTC
*
23033241 TATCTAAAA
65 T-T-TAAAG
* * * * * * *
23033250 CAACCTTAAAAAAGTTGGGATAAACATTATCTAAAACAACCTTTAAAAAAGGTTGGGATAAATCC
1 CAACCTTAAAAAGGTT-GGATAAACCTTGTTTAAAACAACCTTTAAAAAAGATTGAGATAAATTC
*
23033315 ATCTAAAG
65 -TTTAAAG
*
23033323 CAACCTTAAAAAGGTTGGCATAAACCTTGTTTAAAACAACCTATAAAAAAGATTGAGATAAATTC
1 CAACCTTAAAAAGGTTGG-ATAAACCTTGTTTAAAACAACCTTTAAAAAAGATTGAGATAAATTC
*
23033388 GTTTAAGG
65 -TTTAAAG
23033396 CAA-CTTCAAAAAGGTTGGA
1 CAACCTT-AAAAAGGTTGGA
23033415 ATAGGCACGT
Statistics
Matches: 135, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
72 6 0.04
73 126 0.93
74 2 0.01
75 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (71 bp):
CAACCTTAAAAAGGTTGGATAAACCTTGTTTAAAACAACCTTTAAAAAAGATTGAGATAAATTCT
TTAAAG
Found at i:23037191 original size:36 final size:36
Alignment explanation
Indices: 23037133--23037471 Score: 450
Period size: 36 Copynumber: 9.3 Consensus size: 36
23037123 TTTATTGAAG
* * * *
23037133 GGTTGAGATAGA-CTCGTTTAAGGCAACTTTAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* *
23037168 GATTAGGG-CAGACCTTGTCTAAGGCAACCTTTAAAAAA
1 GGTT-GGGATAGACCTTGTCTAAGGCAACC-TT-AAAAA
23037206 GGTTGGGATAGACC-TGTCTAAGGCAACCTTAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
*
23037241 TGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* *
23037277 GGTTGGGATAGACCTTGTTTGAGGCAACCTATAAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCT-T-AAAAA
* *
23037315 GGTTGGGATAGATCTTGTCTAAGGTAACCTTAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
* *
23037351 GGTTGGGATAAACCTTGTCTAAGGTAACCTTTTAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACC--TTAAAAA
*
23037389 GGTTGGGATAGATCTTGTCTAAGGCAACCTTAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
*
23037425 GGTTGGGATAGACCATGTCTAAGGCAACCTTAAAAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
*
23037461 GGTTGGCATAG
1 GGTTGGGATAG
23037472 TGTTGGATAA
Statistics
Matches: 270, Mismatches: 24, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
35 24 0.09
36 148 0.55
37 21 0.08
38 77 0.29
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (36 bp):
GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAA
Found at i:23037344 original size:74 final size:72
Alignment explanation
Indices: 23037133--23037471 Score: 450
Period size: 74 Copynumber: 4.7 Consensus size: 72
23037123 TTTATTGAAG
* * * * * * *
23037133 GGTTGAGATAGA-CTCGTTTAAGGCAACTTTAAAAAGATTAGGG-CAGACCTTGTCTAAGGCAAC
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTT-GGGATAGATCTTGTCTAAGGCAAC
23037196 CTTTAAAAAA
65 C-TT-AAAAA
* *
23037206 GGTTGGGATAGACC-TGTCTAAGGCAACCTTAAAAATGTTGGGATAGACCTTGTCTAAGGCAACC
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGATCTTGTCTAAGGCAACC
23037270 TTAAAAA
66 TTAAAAA
* * *
23037277 GGTTGGGATAGACCTTGTTTGAGGCAACCTATAAAAAAGGTTGGGATAGATCTTGTCTAAGGTAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACCT-T-AAAAAGGTTGGGATAGATCTTGTCTAAGGCAA
23037342 CCTTAAAAA
64 CCTTAAAAA
* *
23037351 GGTTGGGATAAACCTTGTCTAAGGTAACCTTTTAAAAAGGTTGGGATAGATCTTGTCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGGCAACC--TTAAAAAGGTTGGGATAGATCTTGTCTAAGGCAA
23037416 CCTTAAAAA
64 CCTTAAAAA
* *
23037425 GGTTGGGATAGACCATGTCTAAGGCAACCTTAAAAAGGTTGGCATAG
1 GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATAG
23037472 TGTTGGATAA
Statistics
Matches: 238, Mismatches: 21, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
71 19 0.08
72 35 0.15
73 52 0.22
74 130 0.55
75 1 0.00
76 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (72 bp):
GGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGATCTTGTCTAAGGCAACC
TTAAAAA
Found at i:23037380 original size:110 final size:108
Alignment explanation
Indices: 23037151--23037466 Score: 447
Period size: 110 Copynumber: 2.9 Consensus size: 108
23037141 TAGACTCGTT
* * *
23037151 TAAGGCAACTTTAAAAAGATTAGGG-CAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGAT
1 TAAGGCAACCTTAAAAAGGTT-GGGATAGACCTTGTCTAAGGCAACC-TTAAAAAAGGTTGGGAT
* * *
23037215 AGACCTGTCTAAGGCAACCTTAAAAATGTTGGGATAGACCTTGTC
64 AGACATGTCTAAGGCAACCTTAAAAAGGTTGGGATAAACCTTGTC
* *
23037260 TAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTTTGAGGCAACCTATAAAAAAGGTTGGGATA
1 TAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCT-TAAAAAAGGTTGGGATA
* *
23037325 GATCTTGTCTAAGGTAACCTTAAAAAGGTTGGGATAAACCTTGTC
65 GA-CATGTCTAAGGCAACCTTAAAAAGGTTGGGATAAACCTTGTC
* *
23037370 TAAGGTAACCTTTTAAAAAGGTTGGGATAGATCTTGTCTAAGGCAACCTT-AAAAAGGTTGGGAT
1 TAAGGCAACC--TTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGGTTGGGAT
23037434 AGACCATGTCTAAGGCAACCTTAAAAAGGTTGG
64 AGA-CATGTCTAAGGCAACCTTAAAAAGGTTGG
23037467 CATAGTGTTG
Statistics
Matches: 186, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
108 4 0.02
109 56 0.30
110 91 0.49
111 1 0.01
112 34 0.18
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (108 bp):
TAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGGTTGGGATAG
ACATGTCTAAGGCAACCTTAAAAAGGTTGGGATAAACCTTGTC
Found at i:23037763 original size:141 final size:142
Alignment explanation
Indices: 23037480--23037885 Score: 529
Period size: 141 Copynumber: 2.9 Consensus size: 142
23037470 AGTGTTGGAT
*
23037480 AAAGCCAAC-TCTTATTTAAGCGTTGCCTTAGGCATGAATATCCCAACCCTTATAC-AAAGAGTT
1 AAAGCCAACTTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAAGAGTT
* * * * * * * * *
23037543 GGCCAAAGCGTTTGCCGGCAAGTTTATCCCAACACCTAGGAAAGTGCCGACCCAAATGTGTTGCC
66 GGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAGTGTCGCCCCAAAAGTGTCGCC
*
23037608 ATAGTGTTAGAC
131 ATAGTATTAGAC
* *
23037620 AAAGTCGA-TTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAAGAGTT
1 AAAGCCAACTTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAAGAGTT
* * *
23037684 GGCAAAAGCGTATGTCGGCAAGTCTATGCCAACACTTAAGAAAGTGTCGCCCCAAAAGTGTCGGC
66 GGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAGTGTCGCCCCAAAAGTGTCGCC
23037749 ATAGTATT-GAAC
131 ATAGTATTAG-AC
* * * * *
23037761 AAAGCCAACTT-TAATTTAAGTGTTGGCTTAGGCATACATATCTCAACCCTTATACAAAAG-GTT
1 AAAGCCAACTTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAAGAGTT
* * *
23037824 GGCCAAAGCGTATGTTGGCAAGTCTATTCCAACACTT-AGAAAAGTGTCGCCCCAAAAATGTC
66 GGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAAG-AAAGTGTCGCCCCAAAAGTGTC
23037886 ATCTTAAGAC
Statistics
Matches: 234, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
139 2 0.01
140 110 0.47
141 120 0.51
142 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (142 bp):
AAAGCCAACTTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAAGAGTT
GGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAGTGTCGCCCCAAAAGTGTCGCC
ATAGTATTAGAC
Found at i:23037880 original size:140 final size:140
Alignment explanation
Indices: 23037457--23037885 Score: 528
Period size: 140 Copynumber: 3.1 Consensus size: 140
23037447 GGCAACCTTA
* * *
23037457 AAAAG-GTTGGCATAGTGTTGGATAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGA-ATA
1 AAAAGTGTCGGCATAGTGTTGAACAAAGCCAACT-TTATTTAAGCGTTGCCTTAGGCAT-ACATA
* * * * *
23037520 TCCCAACCCTTATAC-AAAGAGTTGGCCAAAGCGTTTGCCGGCAAGTTTATCCCAACACCTAGGA
64 TCCCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGAA
* *
23037584 AAGTGCCGACCC
129 AAGTGTCGCCCC
* * * * * * *
23037596 AAATGTGTTGCCATAGTGTT-AGACAAAGTCGATTCTTATTTAAGCGTTGCCTTAGGCATGCATA
1 AAAAGTGTCGGCATAGTGTTGA-ACAAAGCCAACT-TTATTTAAGCGTTGCCTTAGGCATACATA
* *
23037660 TCCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGGCAAGTCTATGCCAACACTTA-AG
64 TCCCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGA-
23037724 AAAGTGTCGCCCC
128 AAAGTGTCGCCCC
* * *
23037737 AAAAGTGTCGGCATAGTATTGAACAAAGCCAACTTTAATTTAAGTGTTGGCTTAGGCATACATAT
1 AAAAGTGTCGGCATAGTGTTGAACAAAGCCAACTTT-ATTTAAGCGTTGCCTTAGGCATACATAT
* * *
23037802 CTCAACCCTTATACAAAAG-GTTGGCCAAAGCGTATGTTGGCAAGTCTATTCCAACACTTAGAAA
65 CCCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGAAA
23037866 AGTGTCGCCCC
130 AGTGTCGCCCC
*
23037877 AAAAATGTC
1 AAAAGTGTC
23037886 ATCTTAAGAC
Statistics
Matches: 250, Mismatches: 32, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
139 4 0.02
140 125 0.50
141 120 0.48
142 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (140 bp):
AAAAGTGTCGGCATAGTGTTGAACAAAGCCAACTTTATTTAAGCGTTGCCTTAGGCATACATATC
CCAACCCTTATACAAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGAAAA
GTGTCGCCCC
Found at i:23055523 original size:27 final size:27
Alignment explanation
Indices: 23055488--23055550 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
23055478 TTTAATGTTT
*
23055488 CAATATTTCTTTTCTTTAAAAAGGTTC
1 CAATCTTTCTTTTCTTTAAAAAGGTTC
* * *
23055515 CAATCTTTCTTTTTTTTCAAAAGGTTT
1 CAATCTTTCTTTTCTTTAAAAAGGTTC
23055542 CAATCTTTC
1 CAATCTTTC
23055551 ATACATTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.51
Consensus pattern (27 bp):
CAATCTTTCTTTTCTTTAAAAAGGTTC
Found at i:23059519 original size:3 final size:3
Alignment explanation
Indices: 23059511--23059553 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
23059501 TACATCCCAA
23059511 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23059554 TAGAATAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23060617 original size:13 final size:13
Alignment explanation
Indices: 23060599--23060653 Score: 92
Period size: 13 Copynumber: 4.2 Consensus size: 13
23060589 GGTTTTCAAA
23060599 AAAGTCAACGGTC
1 AAAGTCAACGGTC
23060612 AAAGTCAACGGTC
1 AAAGTCAACGGTC
*
23060625 AATGGTCAACGGTC
1 AA-AGTCAACGGTC
23060639 AAAGTCAACGGTC
1 AAAGTCAACGGTC
23060652 AA
1 AA
23060654 TCAACACCGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
13 27 0.69
14 12 0.31
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:23060634 original size:27 final size:27
Alignment explanation
Indices: 23060602--23060654 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
23060592 TTTCAAAAAA
23060602 GTCAACGGTCAAAGTCAACGGTCAATG
1 GTCAACGGTCAAAGTCAACGGTCAATG
23060629 GTCAACGGTCAAAGTCAACGGTCAAT
1 GTCAACGGTCAAAGTCAACGGTCAAT
23060655 CAACACCGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
GTCAACGGTCAAAGTCAACGGTCAATG
Found at i:23060664 original size:27 final size:27
Alignment explanation
Indices: 23060604--23060667 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
23060594 TCAAAAAAGT
***
23060604 CAACGGTCAAAGTCAACGGTCAATGGT
1 CAACGGTCAAAGTCAACGGTCAATCAA
23060631 CAACGGTCAAAGTCAACGGTCAATCAA
1 CAACGGTCAAAGTCAACGGTCAATCAA
*
23060658 CACCGGTCAA
1 CAACGGTCAA
23060668 TGGTCGGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.16
Consensus pattern (27 bp):
CAACGGTCAAAGTCAACGGTCAATCAA
Found at i:23060672 original size:7 final size:7
Alignment explanation
Indices: 23060602--23060653 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
23060592 TTTCAAAAAA
23060602 GTCAACG
1 GTCAACG
*
23060609 GTCAA-A
1 GTCAACG
23060615 GTCAACG
1 GTCAACG
*
23060622 GTCAATG
1 GTCAACG
23060629 GTCAACG
1 GTCAACG
*
23060636 GTCAA-A
1 GTCAACG
23060642 GTCAACG
1 GTCAACG
23060649 GTCAA
1 GTCAA
23060654 TCAACACCGG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
6 10 0.27
7 27 0.73
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:23060672 original size:21 final size:21
Alignment explanation
Indices: 23060642--23060712 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
23060632 AACGGTCAAA
* *
23060642 GTCAACGGTCAATCAACACCG
1 GTCAATGGTCAATCAACATCG
**
23060663 GTCAATGGTCGGTCAACATCG
1 GTCAATGGTCAATCAACATCG
* *
23060684 GTCAAT-GCCAATCAACGTCG
1 GTCAATGGTCAATCAACATCG
23060704 GTCAATGGT
1 GTCAATGGT
23060713 TTGACTTGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (21 bp):
GTCAATGGTCAATCAACATCG
Found at i:23060753 original size:14 final size:15
Alignment explanation
Indices: 23060734--23060768 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23060724 TGGGTTGAAC
*
23060734 TTGGTTC-ATTTGGT
1 TTGGTTCAATTGGGT
23060748 TTGGTTCAATTGGGT
1 TTGGTTCAATTGGGT
23060763 TTGGTT
1 TTGGTT
23060769 TACATGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.09, C:0.06, G:0.31, T:0.54
Consensus pattern (15 bp):
TTGGTTCAATTGGGT
Found at i:23060783 original size:21 final size:21
Alignment explanation
Indices: 23060757--23060825 Score: 111
Period size: 21 Copynumber: 3.2 Consensus size: 21
23060747 TTTGGTTCAA
*
23060757 TTGGGTTTGGTTTACATGAAT
1 TTGGGTTTGGTTTAAATGAAT
23060778 TTGGGTTTGGTTTAAATGAAT
1 TTGGGTTTGGTTTAAATGAAT
*
23060799 GTGGGTTTGGTTTAAATAGAAT
1 TTGGGTTTGGTTTAAAT-GAAT
23060821 TTGGG
1 TTGGG
23060826 CTTAATGGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 36 0.82
22 8 0.18
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (21 bp):
TTGGGTTTGGTTTAAATGAAT
Found at i:23061228 original size:11 final size:11
Alignment explanation
Indices: 23061195--23061269 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
23061185 AAGTTTGATT
*
23061195 AAAAGAGGAAG
1 AAAAGAGAAAG
*
23061206 AAAATAGAAAAG
1 AAAAGAG-AAAG
23061218 AAAAGAGAAAG
1 AAAAGAGAAAG
23061229 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
23061241 AATGAGAAAAAG
1 AA-AAGAGAAAG
23061253 AAAAGAGAAAG
1 AAAAGAGAAAG
*
23061264 GAAAGA
1 AAAAGA
23061270 TGAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 30 0.59
12 17 0.33
13 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:23061237 original size:23 final size:23
Alignment explanation
Indices: 23061195--23061267 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
23061185 AAGTTTGATT
*
23061195 AAAAGAGGAAGAAAATAGAAAAG
1 AAAAGAGAAAGAAAATAGAAAAG
*
23061218 AAAAGAGAAAG-AAATAAGAAATG
1 AAAAGAGAAAGAAAAT-AGAAAAG
* * * *
23061241 AATGAGAAAAAGAAAAGAGAAAGG
1 AA-AAGAGAAAGAAAATAGAAAAG
23061265 AAA
1 AAA
23061268 GATGAGAGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 15 0.38
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGAGAAAGAAAATAGAAAAG
Found at i:23066552 original size:6 final size:6
Alignment explanation
Indices: 23066543--23066570 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23066533 AAATGTAACC
23066543 TTTCCT TTTCCT TTTCCT TTTCCT TTTC
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTC
23066571 AATAGTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCCT
Found at i:23104040 original size:21 final size:21
Alignment explanation
Indices: 23103992--23104041 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
23103982 CATTGAAGAG
* *
23103992 TGTTGTGGCTGCATCTGATTC
1 TGTTATGGCTACATCTGATTC
* * *
23104013 TGATATGGCTACATCTGGTTT
1 TGTTATGGCTACATCTGATTC
23104034 TGTTATGG
1 TGTTATGG
23104042 ATTCATTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.44
Consensus pattern (21 bp):
TGTTATGGCTACATCTGATTC
Found at i:23109965 original size:6 final size:6
Alignment explanation
Indices: 23109951--23110017 Score: 75
Period size: 6 Copynumber: 11.2 Consensus size: 6
23109941 TCTAAATTTG
* * *
23109951 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAA ATTAGATA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-A-A TTTAAA TTTAAA
23109999 TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
23110018 AAAGATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 8 0.16
6 37 0.73
7 2 0.04
8 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:23109973 original size:27 final size:25
Alignment explanation
Indices: 23109927--23109976 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
23109917 GACTTTTGAG
23109927 TTAAATTGATTTTTTCTAAATTTGT
1 TTAAATTGATTTTTTCTAAATTTGT
23109952 TTAAATTTAGATTTATTT-TAAATTT
1 TTAAA-TT-GATTT-TTTCTAAATTT
23109977 AAAATTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
27 12 0.55
28 3 0.14
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (25 bp):
TTAAATTGATTTTTTCTAAATTTGT
Done.