Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 76 of 322
Found at i:24289556 original size:81 final size:81
Alignment explanation
Indices: 24289467--24289789 Score: 399
Period size: 81 Copynumber: 4.0 Consensus size: 81
24289457 TACCCTACAA
* * * *
24289467 GGGTATTTCGGTGATTTTATACTAC-AAGGGTATTTCGGTAATTTTACAAAT-TGAGGGTATTTC
1 GGGTATTTCGGTAATTTTACA-AACTGAGGGTATTTCGGTAATTTTAC-AATCTGAGGGTATTTC
* *
24289530 GGTAACTTTACAAATCGG
64 GATAATTTTACAAATCGG
* * * *
24289548 GGGTATTTCAGTAATTTTACAATCTGAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTT-T
1 GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTAC-AATCTGAGGGTATTTCG
*
24289611 AGTAATTTTAC-AATCTGA
65 A-TAATTTTACAAATC-GG
* *
24289629 GGGTATTGT-GGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCG
1 GGGTATT-TCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAATCTGAGGGTATTTCG
24289693 ATAATTTTACAAATCGG
65 ATAATTTTACAAATCGG
* *
24289710 GGGTATTTCGATAATTTTACAAACT-AGAGGTATTTCGGTAATTTTACAATCTAAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACAAACTGAG-GGTATTTCGGTAATTTTACAATCTGAGGGTATTTCG
24289774 ATAATTTTACAAATCG
65 ATAATTTTACAAATCG
24289790 AGGGCCTTAA
Statistics
Matches: 210, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
80 11 0.05
81 193 0.92
82 6 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAATCTGAGGGTATTTCGA
TAATTTTACAAATCGG
Found at i:24289785 original size:27 final size:27
Alignment explanation
Indices: 24289493--24289793 Score: 332
Period size: 27 Copynumber: 11.1 Consensus size: 27
24289483 TTATACTACA
*
24289493 AGGGTATTTCGGTAATTTTACAAAT-TG
1 AGGGTATTTCGATAATTTTAC-AATCTG
* *
24289520 AGGGTATTTCGGTAACTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
*
24289547 GGGGTATTTC-AGTAATTTTACAATCTG
1 AGGGTATTTCGA-TAATTTTACAATCTG
* *
24289574 AGGGTATTTTGGTAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
*
24289601 AGGGTATTT-TAGTAATTTTACAATCTG
1 AGGGTATTTCGA-TAATTTTACAATCTG
* *
24289628 AGGGTATTGT-GGTAATTTTACAAACTG
1 AGGGTATT-TCGATAATTTTACAATCTG
*
24289655 GGGGTATTTCGATAATTTTACAATCTG
1 AGGGTATTTCGATAATTTTACAATCTG
24289682 AGGGTATTTCGATAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
* *
24289709 GGGGTATTTCGATAATTTTACAAACT-
1 AGGGTATTTCGATAATTTTACAATCTG
* *
24289735 AGAGGTATTTCGGTAATTTTACAATCTA
1 AG-GGTATTTCGATAATTTTACAATCTG
24289763 AGGGTATTTCGATAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
24289790 AGGG
1 AGGG
24289794 CCTTAACGAC
Statistics
Matches: 237, Mismatches: 23, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
26 13 0.05
27 209 0.88
28 15 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAATCTG
Found at i:24291537 original size:46 final size:46
Alignment explanation
Indices: 24291470--24291641 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
24291460 TGTAACCCGC
* *
24291470 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
* *
24291516 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCACAT
* * * * *
24291566 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
*
24291609 CCATAAGTGAACTCAGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
24291642 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.55
47 27 0.26
48 1 0.01
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:24293281 original size:59 final size:59
Alignment explanation
Indices: 24293189--24293307 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
24293179 CAAATAGTGT
24293189 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
1 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
*
24293248 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTGCCTTGAGTAGA
1 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
24293307 T
1 T
24293308 CGGTCGACTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (59 bp):
TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
Found at i:24293826 original size:5 final size:6
Alignment explanation
Indices: 24293809--24293833 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24293799 ATCGGTCACT
24293809 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
24293834 AATACATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:24297879 original size:92 final size:92
Alignment explanation
Indices: 24297757--24297932 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 92
24297747 TAGCATATCT
* * ** *
24297757 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACATCTC-ATAGTTGATGCATGTCCTA
1 ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACAC-TCACAATAGCCGATGCATGTCCCA
24297821 GACATGTCTTACACTAGCACTCGTCTTA
65 GACATGTCTTACACTAGCACTCGTCTTA
* * ** *
24297849 ATGCCGATGCCATGTCCTAGACATGATCTTACACTGGCTCTCACAATATAGCCGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACACTCAC-A-ATAGCCGATGCATGTCCC
24297914 AGACATGTCTTACACTAGC
64 AGACATGTCTTACACTAGC
24297933 TCACAATAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
91 3 0.04
92 34 0.48
94 34 0.48
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (92 bp):
ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACACTCACAATAGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCGTCTTA
Found at i:24300092 original size:86 final size:86
Alignment explanation
Indices: 24299973--24300143 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 86
24299963 CCCTCCTCTT
* * *
24299973 TTTTTTTCACTTAATTAAACACTTGAACTTTCAAAATGCATAAAAAAG-GCCTTCAAACTTCTTC
1 TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTT-AAACTTCTTC
24300037 AAAAACAA-AATTAAGCCCCTAC
65 AAAAA-AACAATTAAGCCCCTAC
** * * * ** *
24300059 TTTTTTTCACTCAATTGGATACGTGAACTTTCAAAATGTATCAAAAAGACCCTTAATTTTTTTCA
1 TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTTAAACTTCTTCA
24300124 AAAAAACAATTAAGCCCCTA
66 AAAAAACAATTAAGCCCCTA
24300144 GTCTAATTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
85 2 0.03
86 66 0.92
87 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (86 bp):
TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTTAAACTTCTTCA
AAAAAACAATTAAGCCCCTAC
Found at i:24300201 original size:19 final size:19
Alignment explanation
Indices: 24300164--24300210 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
24300154 AAAATACAAA
* *
24300164 AAATTATTATAAAATTTATT
1 AAATT-TTAGAAAACTTATT
24300184 AAATTTTAGAAAACTTATT
1 AAATTTTAGAAAACTTATT
24300203 AAATTTTA
1 AAATTTTA
24300211 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
AAATTTTAGAAAACTTATT
Found at i:24300232 original size:17 final size:18
Alignment explanation
Indices: 24300201--24300236 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24300191 AGAAAACTTA
24300201 TTAAATTTTAATAAAAAT
1 TTAAATTTTAATAAAAAT
*
24300219 TTAAA-TTTATTAAAAAT
1 TTAAATTTTAATAAAAAT
24300236 T
1 T
24300237 AGATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTTTAATAAAAAT
Found at i:24300280 original size:11 final size:10
Alignment explanation
Indices: 24300267--24300305 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
24300257 AAAAAATAAA
24300267 AAAAATTTAT
1 AAAAATTTAT
*
24300277 AAAATTTTAT
1 AAAAATTTAT
24300287 AAAAA-TTAT
1 AAAAATTTAT
24300296 AAAAAATTTA
1 -AAAAATTTA
24300306 ACAGCCCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 4 0.16
10 18 0.72
11 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:24300518 original size:10 final size:10
Alignment explanation
Indices: 24300505--24300590 Score: 60
Period size: 9 Copynumber: 9.2 Consensus size: 10
24300495 CTTTATAAAA
24300505 TTTTATAT-T
1 TTTTATATAT
24300514 TTTT-TATAT
1 TTTTATATAT
*
24300523 TTCTATATA-
1 TTTTATATAT
24300532 TTTTATATA-
1 TTTTATATAT
*
24300541 TTTTAT-GAT
1 TTTTATATAT
* *
24300550 TTTTATAAAA
1 TTTTATATAT
*
24300560 TTTTACA-AT
1 TTTTATATAT
*
24300569 TTTTAATAAAT
1 TTTT-ATATAT
24300580 TTTTA-ATAT
1 TTTTATATAT
24300589 TT
1 TT
24300591 GAATTTTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 4 0.06
9 38 0.61
10 14 0.23
11 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATATAT
Found at i:24300562 original size:19 final size:18
Alignment explanation
Indices: 24300496--24300590 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 18
24300486 TTATTATGAC
24300496 TTTATAAAATTTTATATT
1 TTTATAAAATTTTATATT
* *
24300514 TTT-TTATATTTCTATATAT
1 TTTATAAAATTT-TATAT-T
*
24300533 TTTAT-ATATTTTATGATT
1 TTTATAAAATTTTAT-ATT
*
24300551 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTA-TATT
*
24300570 TTTAATAAATTTTTAATATT
1 TTT-ATAAAATTTT-ATATT
24300590 T
1 T
24300591 GAATTTTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
17 6 0.10
18 17 0.27
19 25 0.40
20 14 0.22
21 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTATAAAATTTTATATT
Found at i:24300571 original size:27 final size:27
Alignment explanation
Indices: 24300496--24300564 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
24300486 TTATTATGAC
*
24300496 TTTATAAAATTTTATATTTTTTTATATT
1 TTTATAAAATTTTATA-TATTTTATATT
* *
24300524 TCTAT-ATATTTTATATATTTTATGATT
1 TTTATAAAATTTTATATATTTTAT-ATT
24300551 TTTATAAAATTTTA
1 TTTATAAAATTTTA
24300565 CAATTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.21
27 16 0.47
28 11 0.32
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATAAAATTTTATATATTTTATATT
Found at i:24300604 original size:26 final size:28
Alignment explanation
Indices: 24300566--24300618 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
24300556 AAAATTTTAC
*
24300566 AATTTTTAAT-AAATTT-TTAATATTTG
1 AATTTTTAATAAAATTTAATAATATTTG
*
24300592 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTTAATAATATTT
24300619 ATAACTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTTTTAATAAAATTTAATAATATTTG
Found at i:24300641 original size:45 final size:46
Alignment explanation
Indices: 24300548--24300648 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
24300538 ATATTTTATG
* * *
24300548 ATTTTTA-TAAAATTTTACAATTTTTAATAAATTTTTAATATTTGA
1 ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAATATTTGA
* * *
24300593 ATTTTTATTAAAATTTAATAATATTT-AT-AACTTTTATTGATTTTA
1 ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAAT-ATTTGA
24300638 ATTTTTTATTA
1 A-TTTTTATTA
24300649 TTTTTTCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
44 8 0.17
45 15 0.32
46 24 0.51
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (46 bp):
ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAATATTTGA
Found at i:24300823 original size:97 final size:95
Alignment explanation
Indices: 24300675--24300962 Score: 335
Period size: 90 Copynumber: 3.1 Consensus size: 95
24300665 ATAAAAGCAT
**
24300675 GGGCTTAA-TTGTG-TTTTTTTTTTTGGAAAA-GTTCAAGGGTCC-TTTTGATGCATTTTGAAAG
1 GGGCTTAAGTT-TGATTTTTTTTTTT-GAAAAGGTTTGAGGG-CCTTTTTGATGCATTTTGAAAG
* *
24300736 TTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAG
63 TTCAAGTACCAAAATGAGTGCAAAAAAAAA-TAG
**
24300770 GGGCTTAAGTTTTTCTTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTT
1 GGGCTTAAG-TTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTT
*
24300835 CAAGTACCTAAATGAGTGCAAAAAAAAATCA-
65 CAAGTACCAAAATGAGTGCAAAAAAAAAT-AG
** * * *
24300866 -GG----AGTTTGATTGCTTTTTTTGAAAAGGTTTGAAGACCTTTTTGATACATTTTGAAAGTTC
1 GGGCTTAAGTTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
*
24300926 AAGTACCAAAATGAGTGCAAAAAAAATTAG
66 AAGTACCAAAATGAGTGCAAAAAAAAATAG
24300956 GGGCTTA
1 GGGCTTA
24300963 GTTGCTTTGT
Statistics
Matches: 167, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
89 1 0.01
90 75 0.45
91 4 0.02
95 10 0.06
96 9 0.05
97 68 0.41
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (95 bp):
GGGCTTAAGTTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
AAGTACCAAAATGAGTGCAAAAAAAAATAG
Found at i:24300897 original size:90 final size:88
Alignment explanation
Indices: 24300789--24300996 Score: 301
Period size: 90 Copynumber: 2.3 Consensus size: 88
24300779 TTTTTCTTTT
*
24300789 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCTAAATGAGTGC
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
24300854 AAAAAAAAATCAGGAGTTTGATTGC
66 AAAAAAAAAT-AGGAGTTT-ATTGC
* * *
24300879 TTTTTTTGAAAAGGTTTGAAGACCTTTTTGATACATTTTGAAAGTTCAAGTACCAAAATGAGTGC
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
* * *
24300944 AAAAAAAATTAGGGGCTTAGTTGC
66 AAAAAAAAATAGGAGTTTA-TTGC
* *
24300968 TTTGTTTGAAAAAGTTTGA-GGCCTTTTTG
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTG
24300997 CACCTTTAAG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
88 10 0.09
89 27 0.25
90 70 0.65
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (88 bp):
TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
AAAAAAAAATAGGAGTTTATTGC
Found at i:24310811 original size:63 final size:63
Alignment explanation
Indices: 24310739--24311557 Score: 1638
Period size: 63 Copynumber: 13.0 Consensus size: 63
24310729 CAAGCTTTGG
24310739 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24310802 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24310865 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24310928 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24310991 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311054 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311117 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311180 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311243 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311306 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311369 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311432 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311495 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
1 CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
24311558 GTATGCTATC
Statistics
Matches: 756, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 756 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (63 bp):
CTGCTGCTGTTTTCTCTCCAACCCATAAGTCTGCCGTTCTGAATCAATTTCAGCAACAGCAAA
Found at i:24314511 original size:30 final size:31
Alignment explanation
Indices: 24314477--24314538 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
24314467 AAAGGAAAAG
* *
24314477 TTTAA-AATTTTAAAATAAAATTTTGATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
*
24314507 TTTAACTATTTCAAAATAAAATTTTAATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
24314538 T
1 T
24314539 AAGAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTAACAATTTCAAAATAAAATTTTAATTTT
Found at i:24314557 original size:148 final size:143
Alignment explanation
Indices: 24314119--24314549 Score: 504
Period size: 139 Copynumber: 3.0 Consensus size: 143
24314109 AAAGTTTTGA
* *
24314119 TTTTTTTT--AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTACTCATTTTAGA
1 TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATAT-ATTTTTAGTCATTTTA-A
* * *
24314182 A-GAAAAGTTTAAAATTTTAAAGCAAAGTTTTGACCTTTTTCAACTATTTCGAAATAAAAGTTTG
64 AGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTT-AACTATTTCGAAATAAAATTTTG
24314246 ATTTTTAAGAAAAATAGT
126 ATTTTTAAGAAAAATAGT
* * * * *
24314264 TATTTTTTAAAAAAAAGAGAAACTTTTGGTTTTTAAAAAATAAAAATATGTTTTTAGTCATTTTA
1 T-TTTTTT-TAAAAAAGAGAAAGTTTAGATTTTT-AAAAATAAAAATATATTTTTAGTCATTTTA
* * *
24314329 AAGGAAAATTTTAAATTTTTAAAACAAAATTTTG-------ACTATTTCGAAATAAATTTTTGAT
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGAT
24314387 TTTTAAGAAAAATAGT
128 TTTTAAGAAAAATAGT
* * *
24314403 GATTTTTTTTAAAAAATGAGAAAGTTTAAATTTTTAAAAATTAAAATATATATTTAGTCATTTTA
1 --TTTTTTTTAAAAAA-GAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTA
* * *
24314468 AAGGAAAAGTTTAAAATTTTAAAATAAAATTTTGATTTTTTTAACTATTTCAAAATAAAATTTTA
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTTAACTATTTCGAAATAAAATTTTG
24314533 ATTTTTAAGAAAAATAG
126 ATTTTTAAGAAAAATAG
24314550 ACTTTTTTAA
Statistics
Matches: 242, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
139 102 0.42
140 20 0.08
141 1 0.00
145 1 0.00
146 6 0.02
148 38 0.16
149 60 0.25
150 14 0.06
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (143 bp):
TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTAAAG
GAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGATTTT
TAAGAAAAATAGT
Found at i:24320422 original size:76 final size:77
Alignment explanation
Indices: 24320299--24320445 Score: 242
Period size: 76 Copynumber: 1.9 Consensus size: 77
24320289 ATTCTACGAT
24320299 TGTTGTCCTAAAAACAGTTCTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAA
1 TGTTGTCCTAAAAACAG-T-TTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAA
24320364 ATGGATTCTAGGGC
64 ATGGATTCTAGGGC
* * *
24320378 TGTTGTCCTAGAAACAG-TTAAATTTTACTAAGATTCGAGTTCCTTTACATGTTCTAATTTAAAT
1 TGTTGTCCTAAAAACAGTTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAAAT
24320442 GGAT
66 GGAT
24320446 GTGGATTTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
76 49 0.75
79 16 0.25
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (77 bp):
TGTTGTCCTAAAAACAGTTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAAAT
GGATTCTAGGGC
Found at i:24322282 original size:30 final size:31
Alignment explanation
Indices: 24322248--24322309 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
24322238 AAAGGAAAAG
* *
24322248 TTTAA-AATTTTAAAATAAAATTTTGATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
*
24322278 TTTAACTATTTCAAAATAAAATTTTAATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
24322309 T
1 T
24322310 AAGAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTAACAATTTCAAAATAAAATTTTAATTTT
Found at i:24322328 original size:148 final size:143
Alignment explanation
Indices: 24321890--24322320 Score: 504
Period size: 139 Copynumber: 3.0 Consensus size: 143
24321880 AAAGTTTTGA
* *
24321890 TTTTTTTT--AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTACTCATTTTAGA
1 TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATAT-ATTTTTAGTCATTTTA-A
* * *
24321953 A-GAAAAGTTTAAAATTTTAAAGCAAAGTTTTGACCTTTTTCAACTATTTCGAAATAAAAGTTTG
64 AGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTT-AACTATTTCGAAATAAAATTTTG
24322017 ATTTTTAAGAAAAATAGT
126 ATTTTTAAGAAAAATAGT
* * * * *
24322035 TATTTTTTAAAAAAAAGAGAAACTTTTGGTTTTTAAAAAATAAAAATATGTTTTTAGTCATTTTA
1 T-TTTTTT-TAAAAAAGAGAAAGTTTAGATTTTT-AAAAATAAAAATATATTTTTAGTCATTTTA
* * *
24322100 AAGGAAAATTTTAAATTTTTAAAACAAAATTTTG-------ACTATTTCGAAATAAATTTTTGAT
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGAT
24322158 TTTTAAGAAAAATAGT
128 TTTTAAGAAAAATAGT
* * *
24322174 GATTTTTTTTAAAAAATGAGAAAGTTTAAATTTTTAAAAATTAAAATATATATTTAGTCATTTTA
1 --TTTTTTTTAAAAAA-GAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTA
* * *
24322239 AAGGAAAAGTTTAAAATTTTAAAATAAAATTTTGATTTTTTTAACTATTTCAAAATAAAATTTTA
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTTAACTATTTCGAAATAAAATTTTG
24322304 ATTTTTAAGAAAAATAG
126 ATTTTTAAGAAAAATAG
24322321 ACTTTTTTAA
Statistics
Matches: 242, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
139 102 0.42
140 20 0.08
141 1 0.00
145 1 0.00
146 6 0.02
148 38 0.16
149 60 0.25
150 14 0.06
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (143 bp):
TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTAAAG
GAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGATTTT
TAAGAAAAATAGT
Found at i:24323543 original size:53 final size:53
Alignment explanation
Indices: 24323485--24323590 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
24323475 TGTTGACATG
24323485 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
1 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
*
24323538 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAATCATAAGGTTTTTACATTC
1 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
24323591 GAATTTAGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (53 bp):
AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
Found at i:24323588 original size:27 final size:27
Alignment explanation
Indices: 24323503--24323589 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
24323493 TAAGTAGGTG
*
24323503 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAATCATAAGGTTT
* * ** * *
24323530 TTACA-TTCAAGTTAGTTAAGT-AGG-TG
1 TTACATTTTAA-TGAAATCA-TAAGGTTT
24323556 TTACATTTTAATGAAATCATAAGGTTT
1 TTACATTTTAATGAAATCATAAGGTTT
24323583 TTACATT
1 TTACATT
24323590 CGAATTTAGG
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 1 0.02
26 17 0.40
27 23 0.55
28 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAATCATAAGGTTT
Found at i:24324414 original size:14 final size:14
Alignment explanation
Indices: 24324392--24324430 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
24324382 TTATTGTCTA
*
24324392 GAATATGTGAATAT
1 GAATGTGTGAATAT
24324406 GAATGTGTGAATAT
1 GAATGTGTGAATAT
24324420 GAATGTGTGAA
1 GAATGTGTGAA
24324431 AGTTTTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.33
Consensus pattern (14 bp):
GAATGTGTGAATAT
Found at i:24326028 original size:39 final size:40
Alignment explanation
Indices: 24325931--24326028 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
24325921 CGGATGATAA
* *
24325931 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
24325971 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTA-CTATAT
*
24326011 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24326029 TACTTGGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.31
40 37 0.69
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
Found at i:24328958 original size:120 final size:120
Alignment explanation
Indices: 24328745--24328983 Score: 442
Period size: 120 Copynumber: 2.0 Consensus size: 120
24328735 GCACATCATG
*
24328745 TGTACAAGAGAGCTACAAGACCTTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACC
1 TGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACC
* *
24328810 ATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGTATGCGTGGTTCCAA
66 ATGTAGACAACAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAA
*
24328865 TGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATTGGTGATACTATGTGTACACC
1 TGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACC
24328930 ATGTAGACAACAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCA
66 ATGTAGACAACAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCA
24328984 GGTGAAGGAC
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (120 bp):
TGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACC
ATGTAGACAACAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAA
Found at i:24328967 original size:64 final size:64
Alignment explanation
Indices: 24328892--24329076 Score: 180
Period size: 67 Copynumber: 2.9 Consensus size: 64
24328882 AGACATTATG
* * * *
24328892 ATGTAGCTAGGTCGCATTGGTGATACTATGTGTACACCATGTAGACAACAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATTGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
24328956 ATGTAGCTAGGTCGCA-TGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATTG-GTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
24329020 TAA
62 TAA
* * * *
24329023 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATTGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCT
24329077 GAACTATATG
Statistics
Matches: 98, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 22 0.22
64 23 0.23
66 19 0.19
67 31 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATTGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24330569 original size:147 final size:147
Alignment explanation
Indices: 24330302--24330587 Score: 527
Period size: 147 Copynumber: 1.9 Consensus size: 147
24330292 ATGAATGCTT
*
24330302 GATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAATGTATAAGTGGTACTATA
1 GATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAATGTATAAATGGTACTATA
* *
24330367 ATAAACAAGGTAAAATGAGTATGTGATACACATGTATGATGACATACAAATGCTATGTTTGTGGT
66 ATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTATGTTTGTGGT
*
24330432 TTAATTGAGAATATTTA
131 TAAATTGAGAATATTTA
24330449 GATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAATGTATAAATGGTACTATA
1 GATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAATGTATAAATGGTACTATA
*
24330514 ATAAACAATGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTATGTTTGTGGT
66 ATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTATGTTTGTGGT
24330579 TAAATTGAG
131 TAAATTGAG
24330588 GATGCTTAAT
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 134 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (147 bp):
GATGATTAAGCTGAAGATATTTGGTAAGATGATAATCTTGGTATAAATGTATAAATGGTACTATA
ATAAACAAGGTAAAATGAGTATGAGAGACACATGTATGATGACATACAAATGCTATGTTTGTGGT
TAAATTGAGAATATTTA
Found at i:24335382 original size:39 final size:39
Alignment explanation
Indices: 24335339--24335505 Score: 244
Period size: 39 Copynumber: 4.3 Consensus size: 39
24335329 GGTCTTTAAC
** *
24335339 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
24335378 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
24335417 CCGGATATTTTTCTAGCATATAGCCTTCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
24335456 CCGGATATTTTTCCAGCATATAGCCTACGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
24335495 CCGGATATTTT
1 CCGGATATTTT
24335506 CAATCTCATA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:24345482 original size:40 final size:40
Alignment explanation
Indices: 24345377--24345522 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
24345367 GCTACTCGTT
* * *
24345377 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
24345417 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
24345457 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24345498 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24345523 CATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.03
40 75 0.83
41 12 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24346719 original size:56 final size:56
Alignment explanation
Indices: 24346652--24346771 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
24346642 TATTAGTTTA
24346652 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
24346708 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
24346764 TTGCCCAT
1 TTGCCCAT
24346772 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:24352436 original size:146 final size:146
Alignment explanation
Indices: 24352172--24352439 Score: 527
Period size: 146 Copynumber: 1.8 Consensus size: 146
24352162 CTACACTGAC
24352172 CTTTGCTCATTACGACTTGGATATCTCCCTGTACAGGGCTTAAATACTGATGTCGTTTGTTTCTA
1 CTTTGCTCATTACGACTTGGATATCTCCCTGTACAGGGCTTAAATACTGATGTCGTTTGTTTCTA
24352237 TAGAAACTAGACTCAAAAAGGAATCTATTCATATATGGCATGACTTCTAATTATCTCATCTCCCT
66 TAGAAACTAGACTCAAAAAGGAATCTATTCATATATGGCATGACTTCTAATTATCTCATCTCCCT
24352302 GTACAGGGCTTAAATA
131 GTACAGGGCTTAAATA
*
24352318 CTTTGCTCATTACGGCTTGGATATCTCCCTGTACAGGGCTTAAATACTGATGTCGTTTGTTTCTA
1 CTTTGCTCATTACGACTTGGATATCTCCCTGTACAGGGCTTAAATACTGATGTCGTTTGTTTCTA
24352383 TAGAAACTAGACTCAAAAAGGAATCTATTCATATATGGCATGACTTCTAATTATCTC
66 TAGAAACTAGACTCAAAAAGGAATCTATTCATATATGGCATGACTTCTAATTATCTC
24352440 TGGTTAATTT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 121 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (146 bp):
CTTTGCTCATTACGACTTGGATATCTCCCTGTACAGGGCTTAAATACTGATGTCGTTTGTTTCTA
TAGAAACTAGACTCAAAAAGGAATCTATTCATATATGGCATGACTTCTAATTATCTCATCTCCCT
GTACAGGGCTTAAATA
Found at i:24353496 original size:40 final size:40
Alignment explanation
Indices: 24353391--24353536 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
24353381 GCTACTCGTT
* * *
24353391 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
24353431 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
24353471 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24353512 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24353537 CATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.03
40 75 0.83
41 12 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24354731 original size:56 final size:56
Alignment explanation
Indices: 24354664--24354783 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
24354654 TATTAGATTA
24354664 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
24354720 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
24354776 TTGCCCAT
1 TTGCCCAT
24354784 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:24362321 original size:56 final size:56
Alignment explanation
Indices: 24362254--24362373 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
24362244 TATTAGTTTA
24362254 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
24362310 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
24362366 TTGCCCAT
1 TTGCCCAT
24362374 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:24364916 original size:30 final size:30
Alignment explanation
Indices: 24364880--24364949 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
24364870 CACGGGCACA
*
24364880 AGACACGGCCGTATCTCTCGGCCGTGTGAG
1 AGACACGGCCGTATATCTCGGCCGTGTGAG
* *
24364910 AGACACGGCTGTATATCTCGGTCGTGTGAG
1 AGACACGGCCGTATATCTCGGCCGTGTGAG
*
24364940 AGACAAGGCC
1 AGACACGGCC
24364950 ATAGGACATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.20
Consensus pattern (30 bp):
AGACACGGCCGTATATCTCGGCCGTGTGAG
Found at i:24366047 original size:10 final size:10
Alignment explanation
Indices: 24366032--24366078 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
24366022 TAACATGTTG
24366032 AATTTTAATT
1 AATTTTAATT
24366042 AATTTTATAATT
1 AA-TTT-TAATT
*
24366054 AATTTTGATT
1 AATTTTAATT
*
24366064 AATTTTGATT
1 AATTTTAATT
24366074 -ATTTT
1 AATTTT
24366079 CAACAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.15
10 16 0.47
11 6 0.18
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:24368485 original size:28 final size:28
Alignment explanation
Indices: 24368459--24368511 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
24368449 ATGAATTTGA
*
24368459 GTAAATT-GGG-CTAAATTGTGAAATTT
1 GTAAATTAGGGACTAAAATGTGAAATTT
24368485 GTAAATTGAGGGACTAAAATGTGAAAT
1 GTAAATT-AGGGACTAAAATGTGAAAT
24368512 AAATGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
28 3 0.13
29 13 0.57
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
GTAAATTAGGGACTAAAATGTGAAATTT
Found at i:24369132 original size:44 final size:42
Alignment explanation
Indices: 24369063--24369217 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
24369053 TGTGTTGTCA
* * **
24369063 TGTAAGACCACGTCTGGGACGTTGGCATC-TATTTGTGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA--TACGATTT-CG
*
24369107 TGTATGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
* * * * * *
24369149 TGTAAGACCCTGTCTGGGACAGTGGCATTG-ATAATTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-A-CGATTTCG
* *
24369192 TGTAAGACCACGTCTGGGACGTTGGC
1 TGTAAGACCATGTCTGGGACATTGGC
24369218 CTTGTACGAG
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 33 0.36
44 26 0.28
45 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
Found at i:24369210 original size:43 final size:43
Alignment explanation
Indices: 24369061--24369211 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 43
24369051 TATGTGTTGT
* *
24369061 CATGTAAGACCACGTCTGGGAC-GTTGGCATCT-ATTTGTGATTTA
1 CATGTAAGACCACGTCTGGGACAG-TGGCAT-TGATATATGA-TTA
* * * * * * *
24369105 CGTGTATGACCATGTCTGGGACATTGGCATCG-TATACGATTT
1 CATGTAAGACCACGTCTGGGACAGTGGCATTGATATATGATTA
*
24369147 CGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATA-ATTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATTGATATA-TGATTA
24369190 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCACGTCTGGGAC
24369212 GTTGGCCTTG
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 30 0.35
43 29 0.34
44 26 0.31
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATTGATATATGATTA
Found at i:24370596 original size:55 final size:54
Alignment explanation
Indices: 24370481--24370598 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 54
24370471 CTTACGATTT
* * * *
24370481 TAAGTCAGTCTCGAGCACGGCCAAGGCACATAGGTGTGTGGCTAGTCGTGTGAC
1 TAAGTCAGTATCGACCACGGCCAAGGCACATAGGTGTCTGGCTAGTCGTGTGAA
* * * *
24370535 TCAAGTCAGTATCGACCACGGCCAAGGCACGTGGGCATGTCTTG-TGGTCGTGTGAA
1 T-AAGTCAGTATCGACCACGGCCAAGGCACATAGG--TGTCTGGCTAGTCGTGTGAA
24370591 TAAGTCAG
1 TAAGTCAG
24370599 CATGTATGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 1 0.02
55 36 0.68
56 11 0.21
57 5 0.09
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (54 bp):
TAAGTCAGTATCGACCACGGCCAAGGCACATAGGTGTCTGGCTAGTCGTGTGAA
Found at i:24370678 original size:42 final size:42
Alignment explanation
Indices: 24370629--24370725 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
24370619 ATGGCCTAGA
*
24370629 CACACGGGTGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
1 CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
*
24370671 CATACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
1 CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
24370713 CACACGGGCGTGT
1 CACACGGGCGTGT
24370726 GACCTTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (42 bp):
CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
Found at i:24375979 original size:44 final size:42
Alignment explanation
Indices: 24375914--24376023 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 42
24375904 ATATGTGTTA
* ** * **
24375914 TCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTGTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATACGATT
*
24375957 TAGGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
*
24376000 TCGTGTAAGACCCTGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
24376024 GCGGCATTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 21 0.37
43 8 0.14
44 28 0.49
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
Found at i:24380559 original size:12 final size:12
Alignment explanation
Indices: 24380538--24380568 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24380528 ATTCAAATCC
24380538 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
24380550 AAAAAGAAAAAG
1 AAAAAAAAAAAG
24380562 AAAAAAA
1 AAAAAAA
24380569 GAAACCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:24381754 original size:11 final size:11
Alignment explanation
Indices: 24381722--24381746 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24381712 ATATTTAGGG
24381722 AGTGTTATTAA
1 AGTGTTATTAA
24381733 AGTGTTATTAA
1 AGTGTTATTAA
24381744 AGT
1 AGT
24381747 TTCATTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
AGTGTTATTAA
Found at i:24382974 original size:45 final size:45
Alignment explanation
Indices: 24382861--24382974 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
24382851 CCAAATATCC
* *
24382861 CTTCTCCTCCCTCTCAAATAGTTTCTCCTTGACCGATTACTTCTT
1 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
*
24382906 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTGCTTCTT
1 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
* *
24382951 CTTCTCCTCTCTCTCAAACGGTTT
1 CTTCTCCTCCCTCTCAAATGGTTT
24382975 TCTTCTCAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.14, C:0.36, G:0.08, T:0.42
Consensus pattern (45 bp):
CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
Found at i:24383001 original size:46 final size:45
Alignment explanation
Indices: 24382861--24383010 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 45
24382851 CCAAATATCC
** ** * *
24382861 CTTCTCCTCCCTCTCAAATAGTTTCTCCTTGACCGATTACTTCTT
1 CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
* **
24382906 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTGCTTCTT
1 CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
* * **
24382951 CTTCTCCTCTCTCTCAAACGGTTTTCTTCTCAACTGATTGCTT-TT
1 CTTCTCCTCCCTCTCAAACGG-TTTCTCCTCAACCAATTGCTTCTT
*
24382996 ACTTCTTCTGCCCTC
1 -CTTCTCCT-CCCTC
24383011 ACTGTAACAC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 63 0.70
46 23 0.26
47 4 0.04
ACGTcount: A:0.13, C:0.35, G:0.08, T:0.43
Consensus pattern (45 bp):
CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
Found at i:24383885 original size:37 final size:37
Alignment explanation
Indices: 24383826--24383927 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
24383816 AGCTCAGACG
* *
24383826 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
24383863 AAATCTCCATACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
24383900 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
24383928 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:24384171 original size:49 final size:47
Alignment explanation
Indices: 24384044--24384213 Score: 259
Period size: 47 Copynumber: 3.6 Consensus size: 47
24384034 CCCTTCGGGA
* * * *
24384044 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24384091 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24384138 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24384187 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
24384214 TATTCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 66 0.59
49 46 0.41
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24391855 original size:19 final size:18
Alignment explanation
Indices: 24391830--24391868 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
24391820 ATTTTGATAC
24391830 AGCTAAAATCTGGGAAAG
1 AGCTAAAATCTGGGAAAG
24391848 ANGCTAAAATCTGGGAAAG
1 A-GCTAAAATCTGGGAAAG
24391867 AG
1 AG
24391869 TTCACTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.15
Consensus pattern (18 bp):
AGCTAAAATCTGGGAAAG
Found at i:24394591 original size:45 final size:45
Alignment explanation
Indices: 24394476--24394588 Score: 192
Period size: 45 Copynumber: 2.5 Consensus size: 45
24394466 CCAAATATCC
*
24394476 CTTCTCCTCTCTCTCAAACGATTTCTCCTTGACCAATTGCTTGTT
1 CTTCTCCTCTCTCTCAAACGGTTTCTCCTTGACCAATTGCTTGTT
* *
24394521 CTTCTCCTCTCTTTCAAACGGTTTCTCCTTGGCCAATTGCTT-TT
1 CTTCTCCTCTCTCTCAAACGGTTTCTCCTTGACCAATTGCTTGTT
24394565 CTTCTCCTCTCTCTCAAACGGTTT
1 CTTCTCCTCTCTCTCAAACGGTTT
24394589 TCTTCTTAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 25 0.39
45 39 0.61
ACGTcount: A:0.13, C:0.34, G:0.10, T:0.43
Consensus pattern (45 bp):
CTTCTCCTCTCTCTCAAACGGTTTCTCCTTGACCAATTGCTTGTT
Found at i:24397189 original size:27 final size:27
Alignment explanation
Indices: 24397157--24397212 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
24397147 ATTTAAATGA
24397157 ATCAATATGTACAAATGTATCAATGCC
1 ATCAATATGTACAAATGTATCAATGCC
24397184 ATCAATATGTACAAATGTATCAATGCC
1 ATCAATATGTACAAATGTATCAATGCC
24397211 AT
1 AT
24397213 GATGAATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
ATCAATATGTACAAATGTATCAATGCC
Found at i:24398338 original size:67 final size:67
Alignment explanation
Indices: 24398230--24398363 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
24398220 ACACACGGCT
*
24398230 GGGACACACTCCCGTGTCTCTACCCATGTGGAAAAAAATAGGCTATTTACCACGCCATCTTGCAA
1 GGGACACACTCCCGTGTCTCTACCCATGTGGAAAAAAATAGGCTATTTACCAAGCCATCTTGCAA
24398295 CC
66 CC
24398297 GGGACACACTCCCGTGTCTCTACCCATGTGGAAAAAAATAGGCTATTTACCAAGCCATCTTGCAA
1 GGGACACACTCCCGTGTCTCTACCCATGTGGAAAAAAATAGGCTATTTACCAAGCCATCTTGCAA
24398362 CC
66 CC
24398364 CAAATTTGCA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (67 bp):
GGGACACACTCCCGTGTCTCTACCCATGTGGAAAAAAATAGGCTATTTACCAAGCCATCTTGCAA
CC
Found at i:24400824 original size:47 final size:49
Alignment explanation
Indices: 24400761--24400875 Score: 146
Period size: 49 Copynumber: 2.4 Consensus size: 49
24400751 TGTTGTGTGT
* * *
24400761 CAGTATAAGACCTGTCTGGGACATAGCATC-GAC-CGATAG-ATGACAGC
1 CAGTGTAAGACCTGTCTGGGACACAGCATCAGACTCGAT-GTATGAAAGC
* * *
24400808 CAGTGTAAGACCTGTCTGGGACACGGCATCAGCCTCGATGTATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACACAGCATCAGACTCGATGTATGAAAGC
24400857 CAGTGTAAGACCTGTCTGG
1 CAGTGTAAGACCTGTCTGG
24400876 AACGTGGCGT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
47 27 0.46
48 3 0.05
49 29 0.49
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACAGCATCAGACTCGATGTATGAAAGC
Found at i:24400886 original size:140 final size:138
Alignment explanation
Indices: 24400628--24400886 Score: 303
Period size: 140 Copynumber: 1.9 Consensus size: 138
24400618 TGTGCTAGTG
* * * * *
24400628 TAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGGCAT
1 TAAGACATGTCTGGGACATGCATCGCCATTGAGACGACAGCCAGTGTAAGACATGTCTGGGACAG
* * *
24400693 GCATCAACCTCGAGATATACAAGCTAGTGTAAGACTTGTCTGGGACATTGCGTCATCTTGTTGTG
66 GCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGAACATGGCGTCATCTTGTTGTG
24400758 TGTCAGTA
131 TGTCAGTA
* * *
24400766 TAAGACCTGTCTGGGACATAGCATCGACCGA-T-AGATGACAGCCAGTGTAAGACCTGTCTGGGA
1 TAAGACATGTCTGGGACAT-GCATCG-CC-ATTGAGACGACAGCCAGTGTAAGACATGTCTGGGA
* *
24400829 CACGGCATCAGCCTCGATG-TATGA-AAG-TCAGTGTAAGACCTGTCTGGAACGTGGCGTC
63 CA-GGCATCAACCTCGA-GATAT-ACAAGCT-AGTGTAAGACCTGTCTGGAACATGGCGTC
24400887 GACATCTTAT
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
138 18 0.18
139 35 0.35
140 45 0.45
141 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (138 bp):
TAAGACATGTCTGGGACATGCATCGCCATTGAGACGACAGCCAGTGTAAGACATGTCTGGGACAG
GCATCAACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGAACATGGCGTCATCTTGTTGTG
TGTCAGTA
Found at i:24412860 original size:20 final size:20
Alignment explanation
Indices: 24412764--24412855 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
24412754 AAGCTTATGC
* *
24412764 TAAGTAATTGCAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
24412784 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
* *
24412804 TAAGTAAATGGGATGGAAAT
1 TAAGTAAATGGAATGGAAAG
*
24412824 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
24412844 TAAGTAAATGGA
1 TAAGTAAATGGA
24412856 GTGGTTCATA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.47, C:0.01, G:0.28, T:0.24
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:24416467 original size:11 final size:11
Alignment explanation
Indices: 24416441--24416505 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
24416431 ATTTTGATAT
24416441 ACATGATATG-
1 ACATGATATGC
24416451 ACATGATATGC
1 ACATGATATGC
24416462 ACATGATATG-
1 ACATGATATGC
** *
24416472 TTATGAGATGC
1 ACATGATATGC
*
24416483 ACATGATATAC
1 ACATGATATGC
* *
24416494 TCATTATATGC
1 ACATGATATGC
24416505 A
1 A
24416506 TGGGCTGGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:24416467 original size:21 final size:21
Alignment explanation
Indices: 24416441--24416491 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24416431 ATTTTGATAT
*
24416441 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
24416462 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
24416483 ACATGATAT
1 ACATGATAT
24416492 ACTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:24416503 original size:32 final size:31
Alignment explanation
Indices: 24416443--24416503 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
24416433 TTTGATATAC
* *
24416443 ATGATATGACATGATATGCACATGATATGTT
1 ATGAGATGACATGATATACACATGATATGTT
* *
24416474 ATGAGATGCACATGATATACTCATTATATG
1 ATGAGATG-ACATGATATACACATGATATG
24416504 CATGGGCTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGAGATGACATGATATACACATGATATGTT
Found at i:24416868 original size:30 final size:31
Alignment explanation
Indices: 24416801--24416883 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
24416791 CGCTTACAGT
*
24416801 AAAGGCTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
24416832 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
24416862 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
24416884 TTGAGACTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.08
30 16 0.33
31 28 0.58
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:24419518 original size:22 final size:22
Alignment explanation
Indices: 24419490--24419611 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
24419480 TTCCACATCC
24419490 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
24419512 ATCACATATATACACTTTC-ACATTT
1 ATCACAT-T-GGC-CATTCGGC-CTT
24419537 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
24419559 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
24419583 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
24419606 ATCACA
1 ATCACA
24419612 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 28 0.40
23 10 0.14
24 10 0.14
25 22 0.31
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:24419525 original size:47 final size:47
Alignment explanation
Indices: 24419462--24419718 Score: 356
Period size: 47 Copynumber: 5.4 Consensus size: 47
24419452 CCCTTCGGGA
* * *
24419462 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
24419509 CTTATCACATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
24419556 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
24419603 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
24419650 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
24419699 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
24419719 GTACATCAAT
Statistics
Matches: 190, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 148 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:24428680 original size:11 final size:11
Alignment explanation
Indices: 24428654--24428718 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
24428644 ATTTTGATAT
24428654 ACATGATATG-
1 ACATGATATGC
24428664 ACATGATATGC
1 ACATGATATGC
24428675 ACATGATATG-
1 ACATGATATGC
** *
24428685 TTATGAGATGC
1 ACATGATATGC
*
24428696 ACATGATATAC
1 ACATGATATGC
* *
24428707 TCATTATATGC
1 ACATGATATGC
24428718 A
1 A
24428719 TGGGTTAGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:24428680 original size:21 final size:21
Alignment explanation
Indices: 24428654--24428704 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24428644 ATTTTGATAT
*
24428654 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
24428675 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
24428696 ACATGATAT
1 ACATGATAT
24428705 ACTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:24428716 original size:32 final size:31
Alignment explanation
Indices: 24428656--24428716 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
24428646 TTTGATATAC
* *
24428656 ATGATATGACATGATATGCACATGATATGTT
1 ATGAGATGACATGATATACACATGATATGTT
* *
24428687 ATGAGATGCACATGATATACTCATTATATG
1 ATGAGATG-ACATGATATACACATGATATG
24428717 CATGGGTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGAGATGACATGATATACACATGATATGTT
Found at i:24429082 original size:30 final size:31
Alignment explanation
Indices: 24429015--24429097 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
24429005 CGCTTATAGT
*
24429015 AAAGGCTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
24429046 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
**
24429076 AAAGGCTTTAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
24429098 TTGAGACTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 4 0.09
30 15 0.32
31 28 0.60
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:24431594 original size:20 final size:20
Alignment explanation
Indices: 24431564--24431615 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
24431554 GGAAGTTTAT
* *
24431564 CTACATCACTGGTGGCTTGAC
1 CTACATTACTGGTAGCTTG-C
24431585 C-ACATTACTGGTAGCTTGC
1 CTACATTACTGGTAGCTTGC
24431604 CTACATTACTGG
1 CTACATTACTGG
24431616 CAATTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (20 bp):
CTACATTACTGGTAGCTTGC
Found at i:24433279 original size:46 final size:46
Alignment explanation
Indices: 24433212--24433303 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
24433202 TAGTGATTAC
*
24433212 GGTTTGTAAATAAGAATTGTGCTAATCAATTGTAGGACATCGGAAG
1 GGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAG
*
24433258 GGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGGCATCGGAAG
1 GGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAG
24433304 AGATCTCAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (46 bp):
GGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAG
Found at i:24441272 original size:50 final size:49
Alignment explanation
Indices: 24441196--24441292 Score: 167
Period size: 50 Copynumber: 2.0 Consensus size: 49
24441186 ATTACGGTTT
* *
24441196 GTAAATAAGAATTGTGCTAATCAATTGTAGGACATCGGAAGGGATCTTG
1 GTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCTTG
24441245 GNTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCT
1 G-TAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCT
24441293 CAGTAGCGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 1 0.02
50 44 0.98
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (49 bp):
GTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCTTG
Found at i:24453615 original size:44 final size:41
Alignment explanation
Indices: 24453560--24453716 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 41
24453550 TTTCAATATG
* *
24453560 TGATTTCGTGTAAGACCACATCTGGGACATTGACATCGACTT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGACATCGA-TT
* * * *
24453602 ATGATTTACGTGTAAGACCATGTCTAGGACATCGACATCGTATT
1 -TGATTT-CATGTAAGACCACGTCTGGGACATTGACATCG-ATT
* *
24453646 TGATTTCATGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCAC-GTCTGGGACATTGACATCG--ATT
* *
24453689 TGATTACATGTAAGACCACTTCTGGGAC
1 TGATTTCATGTAAGACCACGTCTGGGAC
24453717 GCTGGCATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.26
43 40 0.41
44 31 0.32
45 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
TGATTTCATGTAAGACCACGTCTGGGACATTGACATCGATT
Found at i:24454902 original size:38 final size:38
Alignment explanation
Indices: 24454859--24454957 Score: 146
Period size: 38 Copynumber: 2.6 Consensus size: 38
24454849 GGCTCAAAGG
* * *
24454859 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
24454897 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
24454935 CCC-AGATATATTACCAGCACGAA
1 CCCGA-ATATAATACCAGCACGAA
24454958 AATCCCCGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
37 1 0.02
38 55 0.98
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.19
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:24455010 original size:65 final size:65
Alignment explanation
Indices: 24454897--24455022 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 65
24454887 CGGGATTTAA
24454897 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATATTACCAGCACGAAAATC
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATATTACCAGCACGAAAATC
* * * * * * *
24454962 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTGACCCGGTTATATTACCAGTACGAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATATTACCAGCACGAA
24455023 GCCTGCAGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (65 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATATTACCAGCACGAAAATC
Found at i:24455013 original size:38 final size:38
Alignment explanation
Indices: 24454962--24455035 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
24454952 CACGAAAATC
*
24454962 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTGA
1 CCCGGATATATTACCAGCACGAAGCCTGCAGGATTTGA
* *
24455000 CCCGGTTATATTACCAGTACGAAGCCTGCAGGATTT
1 CCCGGATATATTACCAGCACGAAGCCTGCAGGATTT
24455036 TAAGCCCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCAGGATTTGA
Found at i:24457518 original size:40 final size:40
Alignment explanation
Indices: 24457463--24457680 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
24457453 CGGATGATAA
* *
24457463 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
24457503 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
24457543 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
24457583 CTGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
24457623 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
24457663 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24457681 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 146 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24463862 original size:13 final size:13
Alignment explanation
Indices: 24463844--24463868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24463834 TAATTTATAT
24463844 GTGTGAAAATTTC
1 GTGTGAAAATTTC
24463857 GTGTGAAAATTT
1 GTGTGAAAATTT
24463869 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:24465048 original size:44 final size:43
Alignment explanation
Indices: 24464972--24465140 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 43
24464962 CACAGGATTC
* *
24464972 CGATATGTGATTTCATGTAAGAACATGTCTGGGACATTGGCAT
1 CGATATATGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
* * *
24465015 CGATTTTTAATTTACATGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATATGATTT-CATGTAAGACCATGTCTGGGACATTGGCAT
* * * * *
24465059 CG-TATATGAGTTCGTGTAAGACCCTGTTTGGGACAGTGGCAT
1 CGATATATGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
* * * *
24465101 CGATATGTGATTACATGTAAGACCACGGCTGGGACATTGG
1 CGATATATGATTTCATGTAAGACCATGTCTGGGACATTGG
24465141 TGTTGTACAA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
42 28 0.27
43 44 0.43
44 31 0.30
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATATATGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
Found at i:24467746 original size:42 final size:42
Alignment explanation
Indices: 24467692--24467854 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 42
24467682 CTTCATTTTC
* * *
24467692 TCGATGTCATAGCTCAACTATGGTCTTACATATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACATATCTTCACAT-A
* * *
24467735 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACATATCTTCACATA
24467776 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA--T-AT--C-T-TCACATA
24467825 TCGATGCCATAGCCCAGCTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
24467855 CGAATCACAT
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 61 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACATATCTTCACATA
Found at i:24467950 original size:47 final size:46
Alignment explanation
Indices: 24467777--24467945 Score: 203
Period size: 47 Copynumber: 3.6 Consensus size: 46
24467767 ATTCATATAT
* *
24467777 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * *
24467826 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
24467872 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
*
24467919 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATAGCCCAGATATGGTCTTA
24467946 TACAGAAATC
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 27 0.25
47 38 0.36
48 11 0.10
49 31 0.29
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:24467957 original size:95 final size:94
Alignment explanation
Indices: 24467736--24467945 Score: 245
Period size: 95 Copynumber: 2.3 Consensus size: 94
24467726 TTCACATAAT
* * * *
24467736 GATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
24467796 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* *
24467827 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* *
24467892 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
*
24467920 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
24467946 TACAGAAATC
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
91 31 0.30
92 7 0.07
93 26 0.25
94 1 0.01
95 36 0.35
96 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:24467966 original size:7 final size:7
Alignment explanation
Indices: 24467954--24467982 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
24467944 TATACAGAAA
24467954 TCACTTG
1 TCACTTG
24467961 TCACTTG
1 TCACTTG
24467968 TCACTTG
1 TCACTTG
24467975 TCACTTG
1 TCACTTG
24467982 T
1 T
24467983 AGCCGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:24468016 original size:31 final size:31
Alignment explanation
Indices: 24467981--24468222 Score: 398
Period size: 31 Copynumber: 7.8 Consensus size: 31
24467971 CTTGTCACTT
*
24467981 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24468012 GTAGCC-AGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
24468043 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
24468074 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
24468105 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
24468136 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24468167 GTAG-CTAGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
24468198 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
24468223 TCTCATTTGT
Statistics
Matches: 196, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
30 3 0.02
31 190 0.97
32 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:24468302 original size:50 final size:51
Alignment explanation
Indices: 24468198--24468324 Score: 175
Period size: 50 Copynumber: 2.5 Consensus size: 51
24468188 CACTGATCAG
* * * *
24468198 GTAGCCGAAGCTACCACTTTTCACTTCTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTCTCACTTGTCATTGATCAGATAAAT
* *
24468249 GTAGCCGAAGCTATCACTTATCA-TTTTCACTTGTCCTTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTCTCACTTGTCATTGATCAGATAAAT
* *
24468299 GTAGCCGAAACTATCATTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
24468325 GTTGCCATGG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 44 0.66
51 23 0.34
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTCTCACTTGTCATTGATCAGATAAAT
Found at i:24471710 original size:16 final size:16
Alignment explanation
Indices: 24471689--24471738 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
24471679 ATTTGAATAA
24471689 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
24471705 ATGTGATAAGTG-ATGA-
1 ATGTGA-AAGTGTAT-AT
24471721 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
24471737 AT
1 AT
24471739 ATGTGATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.20
16 18 0.60
17 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (16 bp):
ATGTGAAAGTGTATAT
Found at i:24471806 original size:47 final size:47
Alignment explanation
Indices: 24471714--24471888 Score: 233
Period size: 49 Copynumber: 3.6 Consensus size: 47
24471704 TATGTGATAA
*
24471714 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTACTGGCCGAT
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
24471763 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-C-CGAT
* * * * * *
24471812 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
24471859 GTGATGGATGTGAAAGTGTATAAATGTGAT
1 GTGATGAATGTGAAAGTGTATATATGTGAT
24471889 GAGTCCCGAA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
47 52 0.46
48 2 0.02
49 60 0.53
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
Found at i:24479825 original size:13 final size:13
Alignment explanation
Indices: 24479803--24479835 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24479793 AAGGGTTCAT
24479803 TTAT-TAAACTAA
1 TTATCTAAACTAA
24479815 TTATCTAAACTAA
1 TTATCTAAACTAA
*
24479828 TTAACTAA
1 TTATCTAA
24479836 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:24492753 original size:16 final size:16
Alignment explanation
Indices: 24492712--24492754 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
24492702 GTAGTCAAAC
24492712 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTTGGCA
**
24492728 TTTCAACTTTTTGGCA
1 TTTCGGCTTTTTGGCA
*
24492744 TTTTGGCTTTT
1 TTTCGGCTTTT
24492755 GCCGATCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.19, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTTGGCA
Found at i:24505527 original size:40 final size:40
Alignment explanation
Indices: 24505482--24505738 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 40
24505472 CAAGCTCAAT
* * * * *
24505482 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
24505522 TGCCTTCGGGTCTTAACCCGG--------ATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
24505554 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
24505594 TGCCTTCGGGTCTTATCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
24505634 TGCCTTCGGGTCTTAGT-CCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTA-TCCCGGATATATCAATTCGCACAAA
24505674 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
24505714 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTATCCCGGATAT
24505739 CATTCAAATG
Statistics
Matches: 201, Mismatches: 6, Indels: 20
0.89 0.03 0.09
Matches are distributed among these distances:
32 29 0.14
39 1 0.00
40 170 0.85
41 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
Found at i:24505549 original size:32 final size:32
Alignment explanation
Indices: 24505513--24505576 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
24505503 GTATAGCAAC
*
24505513 TCGCACGAATGCCTTCGGGTCTTAACCCGGAT
1 TCGCACAAATGCCTTCGGGTCTTAACCCGGAT
*
24505545 TCGCACAAATGCCTTCGGGTCTTATCCCGGAT
1 TCGCACAAATGCCTTCGGGTCTTAACCCGGAT
24505577 ATATCAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (32 bp):
TCGCACAAATGCCTTCGGGTCTTAACCCGGAT
Found at i:24514336 original size:18 final size:19
Alignment explanation
Indices: 24514303--24514344 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
24514293 CATGACAGTG
*
24514303 TAAATTCATTAGGTATTTA
1 TAAATTCATTAGGTATATA
*
24514322 TAAATT-ATTATGTATATA
1 TAAATTCATTAGGTATATA
24514340 TAAAT
1 TAAAT
24514345 GAATTGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TAAATTCATTAGGTATATA
Found at i:24516858 original size:46 final size:46
Alignment explanation
Indices: 24516808--24516980 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
24516798 TGGTTGAGCA
24516808 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
24516854 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
24516899 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
24516947 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24516981 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24516964 original size:93 final size:93
Alignment explanation
Indices: 24516805--24516975 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
24516795 GGATGGTTGA
*
24516805 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
24516870 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
24516898 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCATTGAG
24516962 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
24516976 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24517889 original size:21 final size:20
Alignment explanation
Indices: 24517846--24517889 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
24517836 CTATTATGAA
*
24517846 TTTAAAAATTAATAATAAAT
1 TTTAAAAATTAATAAGAAAT
* *
24517866 TTTAAAAATATAATTAGAAGT
1 TTTAAAAAT-TAATAAGAAAT
24517887 TTT
1 TTT
24517890 TCTTTATATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (20 bp):
TTTAAAAATTAATAAGAAAT
Found at i:24521223 original size:233 final size:233
Alignment explanation
Indices: 24520816--24521278 Score: 917
Period size: 233 Copynumber: 2.0 Consensus size: 233
24520806 ACACATAGTA
24520816 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCA
1 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCA
24520881 GCACCATACATGTGACGTAGCTACATACTATCTGTATCATCCAATCTTTCCGAAGGTTCAACTGG
66 GCACCATACATGTGACGTAGCTACATACTATCTGTATCATCCAATCTTTCCGAAGGTTCAACTGG
*
24520946 GATTTCTCTCTCTTTTCCAACAATTTCACCGATCAAGTAATTATCCACAAACATATTTCCAATAT
131 GATTTCTCTCTCTTTTCCAACAATTTCACCAATCAAGTAATTATCCACAAACATATTTCCAATAT
24521011 TATAATAAAATATCATAATACAAGTAATATTGATGCAT
196 TATAATAAAATATCATAATACAAGTAATATTGATGCAT
24521049 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCA
1 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCA
24521114 GCACCATACATGTGACGTAGCTACATACTATCTGTATCATCCAATCTTTCCGAAGGTTCAACTGG
66 GCACCATACATGTGACGTAGCTACATACTATCTGTATCATCCAATCTTTCCGAAGGTTCAACTGG
24521179 GATTTCTCTCTCTTTTCCAACAATTTCACCAATCAAGTAATTATCCACAAACATATTTCCAATAT
131 GATTTCTCTCTCTTTTCCAACAATTTCACCAATCAAGTAATTATCCACAAACATATTTCCAATAT
24521244 TATAATAAAATATCATAATACAAGTAATATTGATG
196 TATAATAAAATATCATAATACAAGTAATATTGATG
24521279 TATTACTTAC
Statistics
Matches: 229, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 229 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (233 bp):
TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCA
GCACCATACATGTGACGTAGCTACATACTATCTGTATCATCCAATCTTTCCGAAGGTTCAACTGG
GATTTCTCTCTCTTTTCCAACAATTTCACCAATCAAGTAATTATCCACAAACATATTTCCAATAT
TATAATAAAATATCATAATACAAGTAATATTGATGCAT
Found at i:24521837 original size:30 final size:30
Alignment explanation
Indices: 24521803--24521863 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24521793 TCCTTAACTC
24521803 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24521833 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24521863 A
1 A
24521864 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:24524020 original size:27 final size:26
Alignment explanation
Indices: 24523966--24524053 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
24523956 TTAGTTTACC
* * *
24523966 AAATTACTGAAATACCCCC-AGTTGTA
1 AAATTAC-CAAATACCCCCGATTTATA
*
24523992 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAA-TACCCCCGATTTATA
* * *
24524019 AAATTACCCAAATATCCTCGATTTACA
1 AAATTA-CCAAATACCCCCGATTTATA
24524046 AAATTACC
1 AAATTACC
24524054 GTTTTACCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
25 3 0.06
26 16 0.31
27 27 0.53
28 5 0.10
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (26 bp):
AAATTACCAAATACCCCCGATTTATA
Found at i:24524064 original size:27 final size:27
Alignment explanation
Indices: 24524034--24524186 Score: 234
Period size: 27 Copynumber: 5.7 Consensus size: 27
24524024 ACCCAAATAT
*
24524034 CCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* * *
24524061 CCTCGATTTATAGAATTATTGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* *
24524088 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
* *
24524115 CCTCGATTGACAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
24524142 CCTCGATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTGTTTTAC
24524169 CCTCGATTTACAAAATTA
1 CCTCGATTTACAAAATTA
24524187 ATGAAATACT
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTGTTTTAC
Found at i:24524107 original size:81 final size:81
Alignment explanation
Indices: 24524004--24524186 Score: 231
Period size: 81 Copynumber: 2.3 Consensus size: 81
24523994 ATTACCAAAG
* * * * *
24524004 TACCCCCGGTTTATAAAATTACCCAAATATCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCCAAATACCCTCGATTGACAAAATTACCGTTTTACCCTCGATT
* * *
24524069 TATAGAATTATTGTTT
66 TACAAAATTACTGTTT
* **** * *
24524085 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTGACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCCAAATACCCTCGATTGACAAAATTACCGTTTTACCCTCGATT
24524150 TACAAAATTACTGTTT
66 TACAAAATTACTGTTT
24524166 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAAAATTA
24524187 ATGAAATACT
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCCAAATACCCTCGATTGACAAAATTACCGTTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:24524385 original size:161 final size:161
Alignment explanation
Indices: 24524180--24524482 Score: 493
Period size: 161 Copynumber: 1.9 Consensus size: 161
24524170 CTCGATTTAC
* * ** *
24524180 AAAATTAATGAAATACTCTTGTAGGGTAGAATTACCGCAATACCCCTGTAGGGTAGAATTACTGA
1 AAAATTAATGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCAATAGGGTAGAATTACTAA
* *
24524245 AATACCCCTGTAGGGTAGAATTATCGGAATACCCCTGTAGGGTAGAATTA-CTGGAATACCCCTG
66 AATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTATC-GAAATACCCCTG
*
24524309 TAGGGTAGAATTATGAAATACCCCTGTAGGGT
130 TAGGATAGAATTATGAAATACCCCTGTAGGGT
*
24524341 AAAATT-ATCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCAATAGGGTAGAATTACTA
1 AAAATTAAT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCAATAGGGTAGAATTACTA
24524405 AAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTG
65 AAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTG
24524470 TAGGATAGAATTA
130 TAGGATAGAATTA
24524483 CCGAGATACC
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
160 2 0.02
161 128 0.98
162 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (161 bp):
AAAATTAATGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCAATAGGGTAGAATTACTAA
AATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGT
AGGATAGAATTATGAAATACCCCTGTAGGGT
Found at i:24524445 original size:81 final size:81
Alignment explanation
Indices: 24524189--24524492 Score: 450
Period size: 81 Copynumber: 3.8 Consensus size: 81
24524179 CAAAATTAAT
* * * *
24524189 GAAATACTCTTGTAGGGTAGAATTACCGCAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
24524254 GTAGGGTAGAATTATC
66 GTAGGGTAGAATTATC
* *
24524270 GGAATACCCCTGTAGGGTAGAATTA-CTGGAATACCCCTGTAGGGTAGAATTA-TGAAATACCCC
1 GAAATACCCCTGTAGGGTAGAATTATC-GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCC
*
24524333 TGTAGGGTAAAATTATC
65 TGTAGGGTAGAATTATC
* ** *
24524350 GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCAATAGGGTAGAATTACTAAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
24524415 GTAGGGTAGAATTATC
66 GTAGGGTAGAATTATC
* * * *
24524431 GCAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAGATACC
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACC
24524493 TTATGGGGTA
Statistics
Matches: 200, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
80 73 0.37
81 127 0.63
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
GTAGGGTAGAATTATC
Found at i:24524491 original size:27 final size:27
Alignment explanation
Indices: 24524189--24524492 Score: 403
Period size: 27 Copynumber: 11.3 Consensus size: 27
24524179 CAAAATTAAT
* *
24524189 GAAATACTCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24524216 GCAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
24524243 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24524270 GGAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24524297 GGAATACCCCTGTAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24524323 GAAATACCCCTGTAGGGTAAAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24524350 GAAATACCCTTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
** *
24524377 GAAATACCCCAATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24524404 AAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24524431 GCAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
24524458 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
24524485 GAGATACC
1 GAAATACC
24524493 TTATGGGGTA
Statistics
Matches: 245, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 24 0.10
27 221 0.90
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:24525183 original size:27 final size:27
Alignment explanation
Indices: 24525153--24525254 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 27
24525143 ATTCTGTTAA
*
24525153 GTGGCCTTGCCACATTATCTGTTTCTG
1 GTGGCCTTGCCACAATATCTGTTTCTG
24525180 GTGG-CTATGCCACAAATATCTG-TTCTG
1 GTGGCCT-TGCCAC-AATATCTGTTTCTG
*
24525207 GTGGCTTTGCCACAATATCTGTATT-TG
1 GTGGCCTTGCCACAATATCTGT-TTCTG
* *
24525234 GT-GACTCTGTCACAATATCTG
1 GTGGCCT-TGCCACAATATCTG
24525255 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
26 12 0.19
27 42 0.66
28 10 0.16
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCCTTGCCACAATATCTGTTTCTG
Found at i:24525211 original size:54 final size:53
Alignment explanation
Indices: 24525153--24525254 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
24525143 ATTCTGTTAA
* *
24525153 GTGGCCTTGCCACATTATCTGT-TTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCCTTGCCACAATATCTGTATT-TGGTGACTATGCCAC-AATATCTGTTCTG
* * *
24525207 GTGGCTTTGCCACAATATCTGTATTTGGTGACTCTGTCACAATATCTG
1 GTGGCCTTGCCACAATATCTGTATTTGGTGACTATGCCACAATATCTG
24525255 ATAACTGAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 8 0.19
54 32 0.76
55 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCCTTGCCACAATATCTGTATTTGGTGACTATGCCACAATATCTGTTCTG
Found at i:24525493 original size:31 final size:31
Alignment explanation
Indices: 24525391--24525499 Score: 146
Period size: 31 Copynumber: 3.5 Consensus size: 31
24525381 TTGCATTCAC
*
24525391 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTTTGTTACCTGATACTG
* *
24525423 ATTTTGATGTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTTTGTTACCTGATACTG
* * *
24525454 ATTCTGATTTTGATTTTGTCACCTAATTCTG
1 ATTCTGATTTTGATTTTGTTACCTGATACTG
*
24525485 ATTCTGATTCTGATT
1 ATTCTGATTTTGATT
24525500 CTAGTTCTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
31 62 0.91
32 6 0.09
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTTTGTTACCTGATACTG
Found at i:24529226 original size:30 final size:30
Alignment explanation
Indices: 24529192--24529252 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24529182 TCCTTAACTC
24529192 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24529222 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24529252 A
1 A
24529253 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:24533800 original size:27 final size:27
Alignment explanation
Indices: 24533761--24533873 Score: 106
Period size: 27 Copynumber: 4.1 Consensus size: 27
24533751 AGCATGGCTG
*
24533761 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGACAGAGCCA
* *
24533787 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGACAGAGCCA
* *
24533815 CTAGA-ACAGATATATGTGTCAGAGCCA
1 CCAGATACAGATA-ATGTGACAGAGCCA
* *
24533842 CCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGACAGAGCCA
24533870 CCAG
1 CCAG
24533874 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
26 6 0.08
27 35 0.49
28 31 0.43
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATAATGTGACAGAGCCA
Found at i:24533846 original size:55 final size:54
Alignment explanation
Indices: 24533763--24533870 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 54
24533753 CATGGCTGCC
* *
24533763 AGAACAGATAATGTGACAGAGTCACCAGATATAGATAA-TCGTGGCAGAGCCACT
1 AGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCACT
* * *
24533817 AGAACAGATATATGTGTCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCAC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCAC
24533871 CAGGACGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
54 16 0.34
55 31 0.66
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCACT
Found at i:24533869 original size:28 final size:28
Alignment explanation
Indices: 24533761--24533873 Score: 99
Period size: 28 Copynumber: 4.1 Consensus size: 28
24533751 AGCATGGCTG
* * *
24533761 CCAGAACAGATAA--TGTGACAGAGTCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
* *
24533787 CCAGATATAGATAA-TCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTTGTGGCAGAGCCA
* * * *
24533815 CTAGAACAGAT-ATATGTGTCAGAGCCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
*
24533842 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
24533870 CCAG
1 CCAG
24533874 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
26 6 0.09
27 30 0.45
28 31 0.46
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (28 bp):
CCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:24538078 original size:41 final size:41
Alignment explanation
Indices: 24538019--24538100 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
24538009 ATAGAAAAAC
*
24538019 CAAATCATCAAAGTAAATGAAAAATGAAGTCCAGTTCATCA
1 CAAATCATCAAAGAAAATGAAAAATGAAGTCCAGTTCATCA
24538060 CAAATCATCAAAGAAAATGAAAAATGAAGTCCAGTTCATCA
1 CAAATCATCAAAGAAAATGAAAAATGAAGTCCAGTTCATCA
24538101 GAAGAAAACC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (41 bp):
CAAATCATCAAAGAAAATGAAAAATGAAGTCCAGTTCATCA
Found at i:24538506 original size:27 final size:28
Alignment explanation
Indices: 24538466--24538533 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
24538456 AGCATAGCTG
* *
24538466 CCAGA-ACAGTTAAT-ATGACAGAGTCA
1 CCAGATACAGATAATCATGACAGAGCCA
* *
24538492 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAATCATGACAGAGCCA
24538520 CCAGAT-CAGATAAT
1 CCAGATACAGATAAT
24538534 TTGTGGCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.14
27 16 0.44
28 15 0.42
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATAATCATGACAGAGCCA
Found at i:24538521 original size:28 final size:28
Alignment explanation
Indices: 24538484--24538551 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
24538474 GTTAATATGA
*
24538484 CAGAGTCACCAGATACAGATAA-TCGTGG
1 CAGAGCCACCAGAT-CAGATAATTCGTGG
*
24538512 CAGAGCCACCAGATCAGATAATTTGTGG
1 CAGAGCCACCAGATCAGATAATTCGTGG
*
24538540 CATAGCCACCAG
1 CAGAGCCACCAG
24538552 GACGCTTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 7 0.19
28 29 0.81
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.18
Consensus pattern (28 bp):
CAGAGCCACCAGATCAGATAATTCGTGG
Found at i:24541664 original size:17 final size:18
Alignment explanation
Indices: 24541637--24541672 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24541627 AATAAAATAT
24541637 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
24541655 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
24541672 A
1 A
24541673 AATTAAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:24548633 original size:19 final size:19
Alignment explanation
Indices: 24548611--24548679 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
24548601 AAAAAGGGAA
*
24548611 AGAGGAGAGAAGAATTGTG
1 AGAGAAGAGAAGAATTGTG
* * **
24548630 AGAGAAGAGATGTGAATNGAA
1 AGAGAAGAGA--AGAATTGTG
* *
24548651 AGAGGAGAGAAGAACTGTG
1 AGAGAAGAGAAGAATTGTG
24548670 AGAGAAGAGA
1 AGAGAAGAGA
24548680 TGTGAATGAG
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 22 0.61
21 14 0.39
ACGTcount: A:0.46, C:0.01, G:0.39, T:0.12
Consensus pattern (19 bp):
AGAGAAGAGAAGAATTGTG
Found at i:24548639 original size:21 final size:20
Alignment explanation
Indices: 24548615--24548679 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
24548605 AGGGAAAGAG
24548615 GAGAGAAGAATTGTGAGAGAA
1 GAGAGAAGAA-TGTGAGAGAA
* * * *
24548636 GAGATG-TGAAT-NGAAAGAG
1 GAGA-GAAGAATGTGAGAGAA
24548655 GAGAGAAGAACTGTGAGAGAA
1 GAGAGAAGAA-TGTGAGAGAA
24548676 GAGA
1 GAGA
24548680 TGTGAATGAG
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 1 0.03
19 12 0.38
20 2 0.06
21 16 0.50
22 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.38, T:0.12
Consensus pattern (20 bp):
GAGAGAAGAATGTGAGAGAA
Found at i:24548643 original size:14 final size:14
Alignment explanation
Indices: 24548615--24548684 Score: 62
Period size: 14 Copynumber: 5.1 Consensus size: 14
24548605 AGGGAAAGAG
24548615 GAGAGAAGA-ATTGT
1 GAGAGAAGAGA-TGT
24548629 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
24548643 GA-ATNGAA-AGA-G-
1 GAGA--GAAGAGATGT
24548655 GAGAGAAGA-ACTGT
1 GAGAGAAGAGA-TGT
24548669 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
24548683 GA
1 GA
24548685 ATGAGGGATG
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
11 4 0.09
12 3 0.06
13 4 0.09
14 31 0.66
15 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.39, T:0.14
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:24548653 original size:40 final size:39
Alignment explanation
Indices: 24548608--24548688 Score: 144
Period size: 40 Copynumber: 2.1 Consensus size: 39
24548598 GAGAAAAAGG
*
24548608 GAAAGAGGAGAGAAGAATTGTGAGAGAAGAGATGTGAAT
1 GAAAGAGGAGAGAAGAACTGTGAGAGAAGAGATGTGAAT
24548647 NGAAAGAGGAGAGAAGAACTGTGAGAGAAGAGATGTGAAT
1 -GAAAGAGGAGAGAAGAACTGTGAGAGAAGAGATGTGAAT
24548687 GA
1 GA
24548689 GGGATGTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.46, C:0.01, G:0.38, T:0.14
Consensus pattern (39 bp):
GAAAGAGGAGAGAAGAACTGTGAGAGAAGAGATGTGAAT
Found at i:24556062 original size:28 final size:30
Alignment explanation
Indices: 24556008--24556084 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
24555998 CACCAAAATG
* *
24556008 TCCAACCAAAACACACCAG-TATCATATAA
1 TCCATCCAAAACACACCAGATATAATATAA
24556037 TCC-TCTC-AAACACACCAGAT-TAATATAA
1 TCCATC-CAAAACACACCAGATATAATATAA
24556065 TCCATCCAAAACACACCAGA
1 TCCATCCAAAACACACCAGA
24556085 ATAGCACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 23 0.55
29 19 0.45
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.18
Consensus pattern (30 bp):
TCCATCCAAAACACACCAGATATAATATAA
Found at i:24558316 original size:65 final size:65
Alignment explanation
Indices: 24558178--24558306 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
24558168 ATCAGCATAT
*
24558178 AAACAATTTAAAGCTCTAATTCTATGTCAAATCATCATATACTTCCAGCACATATTCATGGAAAA
1 AAACAATTTAAAGCTCTAATTCTATGTCAAATCATCATATACTTCCAGCACATATTCATAGAAAA
24558243 AAACAATTTAAAGCTCTAATTCTATGTCAAATCATCATATACTTCCAGCACATATTCATAGAAA
1 AAACAATTTAAAGCTCTAATTCTATGTCAAATCATCATATACTTCCAGCACATATTCATAGAAA
24558307 CTTTCAATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (65 bp):
AAACAATTTAAAGCTCTAATTCTATGTCAAATCATCATATACTTCCAGCACATATTCATAGAAAA
Found at i:24562053 original size:43 final size:43
Alignment explanation
Indices: 24561931--24562056 Score: 130
Period size: 42 Copynumber: 2.9 Consensus size: 43
24561921 AAGACCACAT
* *
24561931 CTAGGACATTGGCATCGACT-TATGATTTACATGTAAGACCATGT
1 CTAGGACATTGGCATCGA-TATTTGA-TTACATGTAAGACCATGC
* * * * *
24561975 CTAAGACATTGGCATCG-TATTTTATTTCGTGTAAGACCCTGC
1 CTAGGACATTGGCATCGATATTTGATTACATGTAAGACCATGC
* * *
24562017 CTGGGACAGTGGCATCGATATTTGATTAAATGTAAGACCA
1 CTAGGACATTGGCATCGATATTTGATTACATGTAAGACCA
24562057 CGTCTGGGAT
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
42 29 0.45
43 20 0.31
44 16 0.25
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
CTAGGACATTGGCATCGATATTTGATTACATGTAAGACCATGC
Done.