Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 19 of 39
Found at i:2805622 original size:79 final size:79
Alignment explanation
Indices: 2805522--2805722 Score: 237
Period size: 79 Copynumber: 2.5 Consensus size: 79
2805512 ACAACGGGGC
* *
2805522 TGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATCGATGT-TTTGA
1 TGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATC-A-GTATTTGA
2805586 -AAATAAAATCGAGAT
64 GAAATAAAATCGAGAT
* * * * * *
2805601 TGTAGTATTCCCGT-AAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAGTATTTTAG
1 TGGAGTA-TCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAGTATTTGAG
* * *
2805665 AAATAAAGTCGGGGT
65 AAATAAAATCGAGAT
* *
2805680 TGGAGTATCCCCTCAGAAATAAAGGGGTTGGAGTATCCCCGAT
1 TGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
2805723 GAAATAACGG
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
77 2 0.02
78 10 0.10
79 85 0.83
80 5 0.05
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
TGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAGTATTTGAGA
AATAAAATCGAGAT
Found at i:2805748 original size:28 final size:28
Alignment explanation
Indices: 2805674--2805750 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
2805664 GAAATAAAGT
*
2805674 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2805702 AGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2805730 CGGGGTTGGAGGATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2805751 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.98
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2805802 original size:51 final size:51
Alignment explanation
Indices: 2805734--2805848 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
2805724 AAATAACGGG
* * *
2805734 GTTGGAGGATCCCCGATTGT-GAAAAATTGATATTTTGGAAATAAAATCAAA
1 GTTGGAGTATCCCCGATTGTAG-AAAATTGATATTTTAGAAATAAAACCAAA
* * * *
2805785 GTTGGAGTATCCTCGATTGTAGAAAATTGATGTTTTAGAAATAAAACCGAG
1 GTTGGAGTATCCCCGATTGTAGAAAATTGATATTTTAGAAATAAAACCAAA
2805836 GTTGGAGTATCCC
1 GTTGGAGTATCCC
2805849 TTTGGAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTAGAAAATTGATATTTTAGAAATAAAACCAAA
Found at i:2805868 original size:237 final size:237
Alignment explanation
Indices: 2805548--2806015 Score: 627
Period size: 237 Copynumber: 2.0 Consensus size: 237
2805538 AAATAACGGG
* *
2805548 GTTGGAGTATCCTCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGAGATTGTAGTATTCCC
1 GTTGGAGTATCCTCGATTATGAAAAATCGATGTTTTGAAAATAAAACCGAGATTGGAGTATTCCC
* * * *
2805613 GTAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAGTATTTTAGAAATAAAGTCGGG
66 GTAAAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTATTTTAAAAATAAAATCGGG
* * * *
2805678 GTTGGAGTATCCCCTCAGAAATAAAGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGGA
131 GTTAGAGTATCCCCTCAGAAACAAAGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGGA
* * ** *
2805743 TCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAATCAAA
196 CCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCAAA
* * *
2805785 GTTGGAGTATCCTCGATTGT-AGAAAATTGATGTTTT-AGAAATAAAACCGAGGTTGGAGTA-TC
1 GTTGGAGTATCCTCGATTATGA-AAAATCGATGTTTTGA-AAATAAAACCGAGATTGGAGTATTC
* ** *
2805847 CCTTTGGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATC
64 CC-GTAAAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTATTTTAAAAATAAAATC
** ** *
2805912 GGGGTTAGAGTATCCCCTTGGAAACAACTGGATTGGAGTATCCCCGATGACATAACGAGGTTGGA
128 GGGGTTAGAGTATCCCCTCAGAAACAAAGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGA
* *
2805977 GTACCCCCGATTATGAAAAATCAATATTTTAGATATAAA
193 GGACCCCCGATTATGAAAAATCAATATTTTAGAAATAAA
2806016 GCTGGGGTTG
Statistics
Matches: 199, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
236 6 0.03
237 193 0.97
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (237 bp):
GTTGGAGTATCCTCGATTATGAAAAATCGATGTTTTGAAAATAAAACCGAGATTGGAGTATTCCC
GTAAAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTATTTTAAAAATAAAATCGGG
GTTAGAGTATCCCCTCAGAAACAAAGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGGA
CCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCAAA
Found at i:2805872 original size:79 final size:79
Alignment explanation
Indices: 2805789--2805959 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
2805779 ATCAAAGTTG
* * * * *
2805789 GAGTATCCTCGATTGT-AGAAAATT-GATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCTTT
1 GAGTATCCCCGATTGTGA-AAAATTAG-TATTTTAAAAATAAAACCGAGGTTAGAGTATCCCCTT
* *
2805852 GGAAATAACAGGGTTA
64 GGAAACAACAGGATTA
* *
2805868 GAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATCGGGGTTAGAGTATCCCCTTGG
1 GAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAACCGAGGTTAGAGTATCCCCTTGG
* *
2805933 AAACAACTGGATTG
66 AAACAACAGGATTA
2805947 GAGTATCCCCGAT
1 GAGTATCCCCGAT
2805960 GACATAACGA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 77 0.97
80 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (79 bp):
GAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAACCGAGGTTAGAGTATCCCCTTGG
AAACAACAGGATTA
Found at i:2806023 original size:107 final size:107
Alignment explanation
Indices: 2805863--2806141 Score: 323
Period size: 107 Copynumber: 2.6 Consensus size: 107
2805853 GAAATAACAG
* * * *
2805863 GGTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATCGGGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAAAAATAAAATCGGGGTTAGAGTATCCC
*
2805928 CTTGGAAACAACTGGA-TTGGAGTATCCCCGATGACA-TAACGA
66 CTCGGAAACAAC-GGAGTTGGAGTATCCCCGATGA-AGTAACGA
* * * * *
2805970 GGTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGATAT-AAAGCTGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAAAAATAAAATC-GGGGTTAGAGTATCC
* *
2806034 CCTCGGAAATAACGGAGTTGGAGTATCCCCGATGAAGTAACGG
65 CCTCGGAAACAACGGAGTTGGAGTATCCCCGATGAAGTAACGA
* *** ** * *
2806077 GGTTGGAGTATCCCCAATTATG-AAAATTGGTATTTTGGAAATAAAATCGGAGTTTGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAAAAATAAAATCGGGGTTAGAGTATCCC
2806141 C
66 C
2806142 AATTGCGGTA
Statistics
Matches: 146, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
106 38 0.26
107 108 0.74
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (107 bp):
GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAAAAATAAAATCGGGGTTAGAGTATCCC
CTCGGAAACAACGGAGTTGGAGTATCCCCGATGAAGTAACGA
Found at i:2806062 original size:28 final size:28
Alignment explanation
Indices: 2806022--2806091 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
2806012 TAAAGCTGGG
**
2806022 GTTGGAGTATCCCCTCGGAAATAACGGA
1 GTTGGAGTATCCCCGAGGAAATAACGGA
* * *
2806050 GTTGGAGTATCCCCGATGAAGTAACGGG
1 GTTGGAGTATCCCCGAGGAAATAACGGA
2806078 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2806092 AATTATGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (28 bp):
GTTGGAGTATCCCCGAGGAAATAACGGA
Found at i:2806220 original size:51 final size:50
Alignment explanation
Indices: 2806082--2806220 Score: 152
Period size: 51 Copynumber: 2.7 Consensus size: 50
2806072 AACGGGGTTG
* * * *
2806082 GAGTATCCCCAATTATGAAAATTGGTATTTTGGAAATAAAATCGGAGTTT
1 GAGTATCCCCAATTAAGAAAATTGATGTTTTGGAAATAAAATCGGAGTTA
** * * * * *
2806132 GAGTATCCCCAATTGCGGTAAATCGACGCTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCAATT-AAGAAAATTGATGTTTTGGAAATAAAATCGGAGTTA
*
2806183 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 GAGTATCCCCAATTAAG-AAAATTGATGTTTTGGAAAT
2806221 GGAACCGAGA
Statistics
Matches: 69, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
50 15 0.22
51 54 0.78
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (50 bp):
GAGTATCCCCAATTAAGAAAATTGATGTTTTGGAAATAAAATCGGAGTTA
Found at i:2808595 original size:13 final size:13
Alignment explanation
Indices: 2808577--2808606 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2808567 GTAAATCCAG
*
2808577 AATGTATCGATAT
1 AATGTATCGATAC
2808590 AATGTATCGATAC
1 AATGTATCGATAC
2808603 AATG
1 AATG
2808607 CAAAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2808625 original size:62 final size:62
Alignment explanation
Indices: 2808528--2808650 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
2808518 AAAATGCTTG
* * * *
2808528 AATGTATCGATATATTATAAAATGTATCGATACATCTGGGTAAA-TCCAGAATGTATCGATAT
1 AATGTATCGATACAATACAAAATGTATCGATACATCTAGGTAAACT-CAGAATGTATCGATAT
*
2808590 AATGTATCGATACAATGCAAAATGTATCGATACATCTAGGTAAACTCAGAATGTATCGATA
1 AATGTATCGATACAATACAAAATGTATCGATACATCTAGGTAAACTCAGAATGTATCGATA
2808651 CAAATTGTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 54 0.98
63 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (62 bp):
AATGTATCGATACAATACAAAATGTATCGATACATCTAGGTAAACTCAGAATGTATCGATAT
Found at i:2808652 original size:29 final size:29
Alignment explanation
Indices: 2808548--2808652 Score: 104
Period size: 29 Copynumber: 3.5 Consensus size: 29
2808538 TATATTATAA
*
2808548 AATGTATCGATACATCTGGGTAAATCCAG
1 AATGTATCGATACATCTAGGTAAATCCAG
* * * * *
2808577 AATGTATCGATATAATGTATCGATACAATGCAA
1 AATGTATCGATA-CATCTA--GGTA-AATCCAG
2808610 AATGTATCGATACATCTAGGTAAA-CTCAG
1 AATGTATCGATACATCTAGGTAAATC-CAG
2808639 AATGTATCGATACA
1 AATGTATCGATACA
2808653 AATTGTGAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
29 30 0.50
30 6 0.10
32 7 0.12
33 17 0.28
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (29 bp):
AATGTATCGATACATCTAGGTAAATCCAG
Found at i:2808963 original size:65 final size:64
Alignment explanation
Indices: 2808852--2808975 Score: 221
Period size: 65 Copynumber: 1.9 Consensus size: 64
2808842 GCCCAGCGAT
* *
2808852 ATTCGTCCCCATATCTTTCGACCTCCCATCTAAACATGCTTTGGGTTATCGAAAAATTGTATGG
1 ATTCGTCCCCATACCTTTCGACCCCCCATCTAAACATGCTTTGGGTTATCGAAAAATTGTATGG
2808916 ATTCGTCCCCATACCTTTCGACCCCTCCATCTAAACATGCTTTGGGTTATCGAAAAATTG
1 ATTCGTCCCCATACCTTTCGACCCC-CCATCTAAACATGCTTTGGGTTATCGAAAAATTG
2808976 GCCCGGACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 23 0.40
65 34 0.60
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (64 bp):
ATTCGTCCCCATACCTTTCGACCCCCCATCTAAACATGCTTTGGGTTATCGAAAAATTGTATGG
Found at i:2809420 original size:61 final size:60
Alignment explanation
Indices: 2809324--2809855 Score: 542
Period size: 61 Copynumber: 9.0 Consensus size: 60
2809314 AAGAGAAAAT
* * *
2809324 AAAGTGCGTCATGCTCTTTGAGAACT-AGAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
1 AAAG-GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* * * * *
2809386 AAAGGCATCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGCAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* * * * **
2809447 AAAGGCGTCTTGCTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGTTTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA
* * *
2809508 GAAA-GCATCCTGCTCTTTGAGGACTGAAAACTGCCACCAACTTGTGTAGGCTTT----G-
1 -AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * *
2809563 AAAGGCGTCCTACTCTTTAAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT----GA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * * *
2809619 AAA-GCGTCCTGCTCCTTGAGGACTGAAAAATGCCACCAACTTATGTAGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA
* * *
2809679 AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCATCAACTTATGTGGGCTTT-----A
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * *
2809735 AAAGGCGTCCTGCTCTTTGAGGACT-AGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGC
1 AAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA
* * *
2809796 GAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
2809856 GCATCCTGCT
Statistics
Matches: 400, Mismatches: 49, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
54 4 0.01
55 114 0.28
56 29 0.07
60 8 0.02
61 182 0.46
62 62 0.16
63 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (60 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGA
Found at i:2809709 original size:28 final size:28
Alignment explanation
Indices: 2809677--2809763 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
2809667 GCTTTAAAAG
2809677 GAAAAGGCGTCCTACTCTTTGAGGACTA
1 GAAAAGGCGTCCTACTCTTTGAGGACTA
* * * * * *
2809705 GAAAAGTGCCAT-CAACT-TATGTGGGCTT
1 GAAAAG-G-CGTCCTACTCTTTGAGGACTA
* *
2809733 TAAAAGGCGTCCTGCTCTTTGAGGACTA
1 GAAAAGGCGTCCTACTCTTTGAGGACTA
2809761 GAA
1 GAA
2809764 GGTACCACCA
Statistics
Matches: 40, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 27 0.68
29 5 0.12
30 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (28 bp):
GAAAAGGCGTCCTACTCTTTGAGGACTA
Found at i:2809755 original size:117 final size:116
Alignment explanation
Indices: 2809337--2809873 Score: 572
Period size: 117 Copynumber: 4.6 Consensus size: 116
2809327 GTGCGTCATG
* * *
2809337 CTCTTTGAGAACT-AGAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCATGCTC
1 CTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT----A-AAAAGGCATCCTGCTC
* * * * *
2809401 TTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGCAAAGAAAAGGCGTCTTG
60 TTTGAGGACTGAAAAGTGCCACCAACTTATGTAGGCTTT-AAAAGAAAAGGCGTCCTA
* * * **
2809459 CTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGTTTTTAAAAGGAGAAAGCATCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA--AG---GCATCCTGCTCT
* *
2809524 TTGAGGACTGAAAACTGCCACCAACTTGTGTAGGCTTT----G-AAAGGCGTCCTA
61 TTGAGGACTGAAAAGTGCCACCAACTTATGTAGGCTTTAAAAGAAAAGGCGTCCTA
* * * * *
2809575 CTCTTTAAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GCGTCCTGCTCCTTGAG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGCTCTTTGAG
*
2809639 GACTGAAAAATGCCACCAACTTATGTAGGCTTTAAAAGGAAAAGGCGTCCTA
66 GACTGAAAAGTGCCACCAACTTATGTAGGCTTTAAAA-GAAAAGGCGTCCTA
* * *
2809691 CTCTTTGAGGACTAGAAAAGTGCCATCAACTTATGTGGGCTTT-AAAAGGCGTCCTGCTCTTTGA
1 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGCTCTTTGA
* * * * **
2809755 GGACT-AGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCGTCCTA
65 GGACTGA-AAAGTGCCACCAACTTATGTAGGCTTTAAAA-GAAAAGGCGTCCTA
*
2809808 CTCTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTT-AAAAGGCATCCTGCTCTTTGA
1 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGCTCTTTGA
2809872 GG
65 GG
2809874 GCTAGAAGGT
Statistics
Matches: 358, Mismatches: 42, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
110 46 0.13
114 1 0.00
115 1 0.00
116 77 0.22
117 151 0.42
118 1 0.00
119 2 0.01
122 79 0.22
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (116 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGCTCTTTGAG
GACTGAAAAGTGCCACCAACTTATGTAGGCTTTAAAAGAAAAGGCGTCCTA
Found at i:2809980 original size:61 final size:58
Alignment explanation
Indices: 2809898--2810069 Score: 197
Period size: 61 Copynumber: 2.9 Consensus size: 58
2809888 GGAAAGAGCG
*
2809898 TCCTGCTCTTAGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAG-A--CA
* * *
2809959 TCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGC-TTCAAA--AGACA
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGACA
** * * *
2810014 TCCTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTTATGTAGGCTTTGAAAGGA
1 TCCTGCTCTTTGAGGACT--AGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGA
2810070 AAAGAAGTCC
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
55 19 0.20
57 22 0.23
58 7 0.07
60 6 0.06
61 41 0.43
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (58 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGACA
Found at i:2810077 original size:155 final size:155
Alignment explanation
Indices: 2809740--2810039 Score: 356
Period size: 156 Copynumber: 1.9 Consensus size: 155
2809730 CTTTAAAAGG
** * * * * *
2809740 CGTCCTGCTCTTTGAGGAC-TAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCGT
1 CGTCCTGCTCTTAAAGGACAAAGAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCAT
* * *
2809804 CCTACTCTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
65 CCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGACATCCTGCTCTT
* ** * * *
2809869 TGAGGGCTAGAAGGTGAAAGGAAAGAG
130 TGAGGACTAGAA-GAAAAAGCAAACAA
* * *
2809896 CGTCCTGCTCTTAGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCATC
1 CGTCCTGCTCTTAAAGGACAAAGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCATC
* * *
2809961 TTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTCAAAAGACATCCTGCTCTTT
66 CTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGACATCCTGCTCTTT
2810025 GAGGACTA-AA-AAAAA
131 GAGGACTAGAAGAAAAA
2810040 TGCCACCAAC
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
152 3 0.02
154 2 0.02
155 49 0.39
156 70 0.55
157 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (155 bp):
CGTCCTGCTCTTAAAGGACAAAGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCATC
CTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGACATCCTGCTCTTT
GAGGACTAGAAGAAAAAGCAAACAA
Found at i:2811105 original size:17 final size:16
Alignment explanation
Indices: 2811083--2811139 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
2811073 TTTTTCTCTC
*
2811083 TTTTTTCTTTGTTTTG
1 TTTTTTTTTTGTTTTG
2811099 TTTTTTTTTTTGTTGTT-
1 -TTTTTTTTTTGTT-TTG
2811116 TTTTGTTTTTTG-TTTG
1 TTTT-TTTTTTGTTTTG
2811132 TTTTTTTT
1 TTTTTTTT
2811140 AAAAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 6 0.17
16 9 0.25
17 19 0.53
18 2 0.06
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTGTTTTG
Found at i:2811108 original size:22 final size:22
Alignment explanation
Indices: 2811094--2811139 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
2811084 TTTTTCTTTG
2811094 TTTTGTTTTTTTTTTTGTTGTT
1 TTTTGTTTTTTTTTTTGTTGTT
*
2811116 TTTTG-TTTTTTGTTTGTT-TT
1 TTTTGTTTTTTTTTTTGTTGTT
2811136 TTTT
1 TTTT
2811140 AAAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (22 bp):
TTTTGTTTTTTTTTTTGTTGTT
Found at i:2823736 original size:28 final size:28
Alignment explanation
Indices: 2823702--2823771 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
2823692 AATAGAGTAG
2823702 GGGTTGGAGTATCCCCTCA-GAAATAACA
1 GGGTTGGAGTATCCCC-CATGAAATAACA
* *
2823730 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCCATGAAATAACA
*
2823758 GGGTTGGAGGATCC
1 GGGTTGGAGTATCC
2823772 TCGATTATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCATGAAATAACA
Found at i:2823828 original size:51 final size:51
Alignment explanation
Indices: 2823770--2823870 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
2823760 GTTGGAGGAT
* * **
2823770 CCTCGATTAT-GAAAAATTGATGTTTTGGAAATAAAATTGGAGTTGCAGTAA
1 CCTCGATTATAG-AAAATTAATGTTTTAGAAATAAAACCGGAGTTGCAGTAA
* *
2823821 CCTCGATTGTAGAAAATTAATGTTTTAGAAATAAAACCGGAGTTGGAGTA
1 CCTCGATTATAGAAAATTAATGTTTTAGAAATAAAACCGGAGTTGCAGTA
2823871 TCTCTTTGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (51 bp):
CCTCGATTATAGAAAATTAATGTTTTAGAAATAAAACCGGAGTTGCAGTAA
Found at i:2823932 original size:79 final size:79
Alignment explanation
Indices: 2823824--2823985 Score: 193
Period size: 79 Copynumber: 2.1 Consensus size: 79
2823814 GCAGTAACCT
* * * * **
2823824 CGATTGTAGAAAATTAATGTTTTAGAAATAAAACCGGAG-TTGGAGTATCTCTTTGGAAATAATG
1 CGATTGTAGAAAATTAATATTTTAAAAATAAAA-CGGAGATTGGAGTATCCCTTTGGAAACAACA
*
2823888 GGGTTAGAGTATCCC
65 GGATTAGAGTATCCC
* **
2823903 CGATTGT-GAAAAATTAGTATTTTAAAAATAAAATTGAGATTGGAGTATCCCTTTGGAAACAACA
1 CGATTGTAG-AAAATTAATATTTTAAAAATAAAACGGAGATTGGAGTATCCCTTTGGAAACAACA
*
2823967 GGATTGGAGTATCCC
65 GGATTAGAGTATCCC
2823982 CGAT
1 CGAT
2823986 GACATAACGG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 4 0.06
79 66 0.94
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (79 bp):
CGATTGTAGAAAATTAATATTTTAAAAATAAAACGGAGATTGGAGTATCCCTTTGGAAACAACAG
GATTAGAGTATCCC
Found at i:2824053 original size:107 final size:106
Alignment explanation
Indices: 2823881--2824166 Score: 306
Period size: 107 Copynumber: 2.7 Consensus size: 106
2823871 TCTCTTTGGA
* * * * *
2823881 AATAATGGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATTGAGATTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAACTGAGATTGG
* *
2823946 AGTATCC-CTTTGGAAACAACAGGATTGGAGTATCCCCGATG
66 AGTATCCTC-TCGGAAACAACAGGATTGGAGCATCCCCGATG
* * * * * * *
2823987 ACATAACGGGGTTGGAGTACCCCCGACTATGAAAAATCAATATTTTAAATATAAAGCTGGGGTTG
1 A-ATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAACTGAGATTG
* * *
2824052 GAGTATCCTCTCGGAAATAACGGGGTTGGAGCATCCCCGATG
65 GAGTATCCTCTCGGAAACAACAGGATTGGAGCATCCCCGATG
* * * ** *
2824094 AAGTAACGAGGTTGGAGTATCCCCAATTATGAAAAATTGATATTTTGGAAATAAAATCGGAG-TT
1 AA-TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAA-CTGAGATT
*
2824158 TGAGTATCC
64 GGAGTATCC
2824167 CCAATTGCGG
Statistics
Matches: 146, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
106 2 0.01
107 140 0.96
108 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (106 bp):
AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAAAAATAAAACTGAGATTGG
AGTATCCTCTCGGAAACAACAGGATTGGAGCATCCCCGATG
Found at i:2824243 original size:51 final size:51
Alignment explanation
Indices: 2824108--2824247 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
2824098 AACGAGGTTG
* * * *
2824108 GAGTATCCCCAATTATGAAAAATTGATATTTTGGAAATAAAATCGGAGTTT
1 GAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTA
** ** * * *
2824159 GAGTATCCCCAATTGCGGTAAATCGACGCTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTA
*
2824210 GAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAAT
1 GAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAAT
2824248 GGAACCGGGA
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGAGTTA
Found at i:2826638 original size:12 final size:13
Alignment explanation
Indices: 2826621--2826649 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2826611 GTAAATCCAG
2826621 AATGTATCGATA-
1 AATGTATCGATAC
2826633 AATGTATCGATAC
1 AATGTATCGATAC
2826646 AATG
1 AATG
2826650 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2826680 original size:20 final size:20
Alignment explanation
Indices: 2826632--2826683 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2826622 ATGTATCGAT
2826632 AAATGTATCGATACAATGAG
1 AAATGTATCGATACAATGAG
*
2826652 CAATGTATCGATACAATGCA-
1 AAATGTATCGATACAATG-AG
*
2826672 AAATATATCGAT
1 AAATGTATCGAT
2826684 GCATCTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (20 bp):
AAATGTATCGATACAATGAG
Found at i:2826707 original size:81 final size:81
Alignment explanation
Indices: 2826572--2826768 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 81
2826562 AAAATACCTG
* *
2826572 AATGTATCGATACATTAT-AAAATGTATCGATACATCTGGGTAAATCCAGAATGTATCGATA-AA
1 AATGTATCGATACA--ATGAAAATGTATCGATACATCTAGGTAAACCCAGAATGTATCGATACAA
*
2826635 TGTATCGATACAATGAGC
64 TGTATCGATACAATGAAC
* *
2826653 AATGTATCGATACAATGCAAAATATATCGATGCATCTAGGTAAACCCAGAATGTATCGATACAAT
1 AATGTATCGATACAATG-AAAATGTATCGATACATCTAGGTAAACCCAGAATGTATCGATACAAT
2826718 GTATCGATACAATGAAC
65 GTATCGATACAATGAAC
2826735 AATGTATCGATACAATGAACAATGTATCGATACA
1 AATGTATCGATACAATGAA-AATGTATCGATACA
2826769 AATTGTGAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
79 2 0.02
81 55 0.52
82 48 0.46
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (81 bp):
AATGTATCGATACAATGAAAATGTATCGATACATCTAGGTAAACCCAGAATGTATCGATACAATG
TATCGATACAATGAAC
Found at i:2826738 original size:20 final size:20
Alignment explanation
Indices: 2826713--2826769 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
2826703 ATGTATCGAT
2826713 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
2826733 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
2826753 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
2826770 ATTGTGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:2826769 original size:13 final size:13
Alignment explanation
Indices: 2826702--2826731 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2826692 GTAAACCCAG
2826702 AATGTATCGATAC
1 AATGTATCGATAC
2826715 AATGTATCGATAC
1 AATGTATCGATAC
2826728 AATG
1 AATG
2826732 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2828988 original size:214 final size:214
Alignment explanation
Indices: 2828619--2829042 Score: 848
Period size: 214 Copynumber: 2.0 Consensus size: 214
2828609 AATGCATGGT
2828619 CAAAGGCTACTAGGATGAACATGGCATTTTAGTCTTAAAAGATGGCATCAAAAATCAAGACAATC
1 CAAAGGCTACTAGGATGAACATGGCATTTTAGTCTTAAAAGATGGCATCAAAAATCAAGACAATC
2828684 CTAAAACTACCACATCCAAGGCCACAATAATGCATAATATTCTTAAAAGGGTCATGGAAGCATGA
66 CTAAAACTACCACATCCAAGGCCACAATAATGCATAATATTCTTAAAAGGGTCATGGAAGCATGA
2828749 TAAACTCACTAAAATGATGAGAATAATAAAAATAGCAAGTGAGAGTGAAAAATTAAAAAATATAC
131 TAAACTCACTAAAATGATGAGAATAATAAAAATAGCAAGTGAGAGTGAAAAATTAAAAAATATAC
2828814 CAACGAGATAAAAATATAC
196 CAACGAGATAAAAATATAC
2828833 CAAAGGCTACTAGGATGAACATGGCATTTTAGTCTTAAAAGATGGCATCAAAAATCAAGACAATC
1 CAAAGGCTACTAGGATGAACATGGCATTTTAGTCTTAAAAGATGGCATCAAAAATCAAGACAATC
2828898 CTAAAACTACCACATCCAAGGCCACAATAATGCATAATATTCTTAAAAGGGTCATGGAAGCATGA
66 CTAAAACTACCACATCCAAGGCCACAATAATGCATAATATTCTTAAAAGGGTCATGGAAGCATGA
2828963 TAAACTCACTAAAATGATGAGAATAATAAAAATAGCAAGTGAGAGTGAAAAATTAAAAAATATAC
131 TAAACTCACTAAAATGATGAGAATAATAAAAATAGCAAGTGAGAGTGAAAAATTAAAAAATATAC
2829028 CAACGAGATAAAAAT
196 CAACGAGATAAAAAT
2829043 CTAATTTATT
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 210 1.00
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (214 bp):
CAAAGGCTACTAGGATGAACATGGCATTTTAGTCTTAAAAGATGGCATCAAAAATCAAGACAATC
CTAAAACTACCACATCCAAGGCCACAATAATGCATAATATTCTTAAAAGGGTCATGGAAGCATGA
TAAACTCACTAAAATGATGAGAATAATAAAAATAGCAAGTGAGAGTGAAAAATTAAAAAATATAC
CAACGAGATAAAAATATAC
Found at i:2829788 original size:20 final size:20
Alignment explanation
Indices: 2829762--2829816 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2829752 AAAAGAATAG
*
2829762 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
2829782 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
2829802 AATGTATCGATACAT
1 AATGTATCGATACAT
2829817 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:2829828 original size:71 final size:70
Alignment explanation
Indices: 2829712--2829866 Score: 229
Period size: 71 Copynumber: 2.2 Consensus size: 70
2829702 TTTTAACTAG
* * *
2829712 ATGTATCGATATATTAAAAAATGTATCGATACATTTGGGTAAAAGAATAGAATGTATCGATACAT
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAG-ATAGAATATATCGATACAT
* * *
2829777 TCATAC
65 TAAAAA
* *
2829783 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAGATAGAATATATCGATATATT
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAGATAGAATATATCGATACATT
2829848 AAAAA
66 AAAAA
2829853 ATGTATCGATACAT
1 ATGTATCGATACAT
2829867 CTAGGTAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
70 34 0.45
71 42 0.55
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (70 bp):
ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAGATAGAATATATCGATACATT
AAAAA
Found at i:2837828 original size:20 final size:20
Alignment explanation
Indices: 2837803--2837866 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
2837793 AAAATTATTG
2837803 ATACATTTTTCATTGTATCA
1 ATACATTTTTCATTGTATCA
*
2837823 ATACATTTTTCATTGTATCG
1 ATACATTTTTCATTGTATCA
* *
2837843 GTACATTCTTCATTGTATCA
1 ATACATTTTTCATTGTATCA
2837863 ATAC
1 ATAC
2837867 GTTATGGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (20 bp):
ATACATTTTTCATTGTATCA
Found at i:2837929 original size:51 final size:52
Alignment explanation
Indices: 2837838--2837953 Score: 126
Period size: 51 Copynumber: 2.2 Consensus size: 52
2837828 TTTTTCATTG
* * * *
2837838 TATCGGTACATTCTTCATTGTATCAATACGTTATGGGTTTTGA-CCCAAATA
1 TATCGATACATGCTTCATTGTATCAATACATTATGAGTTTTGAGCCCAAATA
* * * * **
2837889 TATCGATACATGCTTCATTGTATCGATATATTCTGAGTTTTTAGCTTAAATA
1 TATCGATACATGCTTCATTGTATCAATACATTATGAGTTTTGAGCCCAAATA
*
2837941 TATCGATGCATGC
1 TATCGATACATGC
2837954 AGGCAAAATT
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
51 35 0.66
52 18 0.34
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (52 bp):
TATCGATACATGCTTCATTGTATCAATACATTATGAGTTTTGAGCCCAAATA
Found at i:2841889 original size:23 final size:22
Alignment explanation
Indices: 2841859--2841924 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 22
2841849 GACTTATTTC
2841859 CTTTTTCATCTTTTTTTCCTTTG
1 CTTTTTCAT-TTTTTTTCCTTTG
2841882 CTTTTTCAATTTTTCTATTCCTTTG
1 CTTTTTC-ATTTTT-T-TTCCTTTG
*
2841907 -TTTATCATATATTTTTTC
1 CTTTTTCAT-T-TTTTTTC
2841925 AAAAAGTACC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 16 0.43
24 10 0.27
25 11 0.30
ACGTcount: A:0.12, C:0.18, G:0.03, T:0.67
Consensus pattern (22 bp):
CTTTTTCATTTTTTTTCCTTTG
Found at i:2842378 original size:20 final size:20
Alignment explanation
Indices: 2842348--2842397 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2842338 TATTATTTAA
*
2842348 ATTATATCAATCAATATAAAT
1 ATTA-ATCAATAAATATAAAT
*
2842369 ATTAATCAATAAATATAATT
1 ATTAATCAATAAATATAAAT
*
2842389 ATTTATCAA
1 ATTAATCAA
2842398 ACCCATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTAATCAATAAATATAAAT
Found at i:2843547 original size:18 final size:18
Alignment explanation
Indices: 2843524--2843565 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
2843514 TATCATTCAT
2843524 GTTCTACATGTATATGCC
1 GTTCTACATGTATATGCC
2843542 GTTCTACATGTATATGCC
1 GTTCTACATGTATATGCC
2843560 GTTCTA
1 GTTCTA
2843566 GCTATGGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (18 bp):
GTTCTACATGTATATGCC
Found at i:2844820 original size:20 final size:22
Alignment explanation
Indices: 2844778--2844823 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2844768 AATCTAATTT
2844778 GAAATAAAAAAAGAAAAAGAGA
1 GAAATAAAAAAAGAAAAAGAGA
*
2844800 GAAATAAAAAAGGAAAAAGAGA
1 GAAATAAAAAAAGAAAAAGAGA
2844822 GA
1 GA
2844824 GAGAGAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (22 bp):
GAAATAAAAAAAGAAAAAGAGA
Found at i:2845120 original size:19 final size:16
Alignment explanation
Indices: 2845096--2845134 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 16
2845086 TTTATATTAT
2845096 TATATAATATAATACATAA
1 TATATAATA-AA-A-ATAA
2845115 TATATAATAAAAATAA
1 TATATAATAAAAATAA
2845131 TATA
1 TATA
2845135 CCATATCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 1 0.05
18 2 0.10
19 9 0.45
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
TATATAATAAAAATAA
Found at i:2845172 original size:25 final size:25
Alignment explanation
Indices: 2845144--2845226 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
2845134 ACCATATCAC
*
2845144 AAAATTTTAAATTATTGTTATTTAT
1 AAAATTTTAAATTATTATTATTTAT
* * *
2845169 AAAA-TATAATTTTATTCATATTATATAT
1 AAAATTTTAA-ATTA-T--TATTATTTAT
*
2845197 AAAATTTTAAATTATTTTTATTTAT
1 AAAATTTTAAATTATTATTATTTAT
2845222 AAAAT
1 AAAAT
2845227 ATAATTTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
24 4 0.09
25 20 0.44
26 1 0.02
27 1 0.02
28 15 0.33
29 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
AAAATTTTAAATTATTATTATTTAT
Found at i:2845198 original size:28 final size:28
Alignment explanation
Indices: 2845161--2845260 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
2845151 TAAATTATTG
*
2845161 TTATTTATAAAATATAATTTTATTCATA
1 TTATATATAAAATATAATTTTATTCATA
* *
2845189 TTATATATAAAATTTTAA-ATTATT--T-
1 TTATATATAAAA-TATAATTTTATTCATA
*
2845214 TTATTTATAAAATATAATTTTATTCATA
1 TTATATATAAAATATAATTTTATTCATA
2845242 TTATATATAAAATATAATT
1 TTATATATAAAATATAATT
2845261 AAAAATAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
24 4 0.07
25 16 0.27
26 1 0.02
27 1 0.02
28 34 0.57
29 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATATATAAAATATAATTTTATTCATA
Found at i:2845206 original size:53 final size:53
Alignment explanation
Indices: 2845144--2845254 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
2845134 ACCATATCAC
2845144 AAAATTTTAAATTATTGTTATTTATAAAATATAATTTTATTCATATTATATAT
1 AAAATTTTAAATTATTGTTATTTATAAAATATAATTTTATTCATATTATATAT
*
2845197 AAAATTTTAAATTATTTTTATTTATAAAATATAATTTTATTCATATTATATAT
1 AAAATTTTAAATTATTGTTATTTATAAAATATAATTTTATTCATATTATATAT
2845250 AAAAT
1 AAAAT
2845255 ATAATTAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (53 bp):
AAAATTTTAAATTATTGTTATTTATAAAATATAATTTTATTCATATTATATAT
Found at i:2845236 original size:19 final size:19
Alignment explanation
Indices: 2845161--2845237 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
2845151 TAAATTATTG
2845161 TTATTTATAAAATATAATT
1 TTATTTATAAAATATAATT
* ** *
2845180 TTATTCATATTATAT-ATA
1 TTATTTATAAAATATAATT
** *
2845198 AAATTT-T-AAAT-TATTT
1 TTATTTATAAAATATAATT
2845214 TTATTTATAAAATATAATT
1 TTATTTATAAAATATAATT
2845233 TTATT
1 TTATT
2845238 CATATTATAT
Statistics
Matches: 40, Mismatches: 14, Indels: 8
0.65 0.23 0.13
Matches are distributed among these distances:
15 1 0.03
16 7 0.17
17 2 0.05
18 9 0.22
19 21 0.52
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTTATAAAATATAATT
Found at i:2845627 original size:22 final size:21
Alignment explanation
Indices: 2845589--2845630 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2845579 ATATTTTATT
2845589 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
2845610 TAAATATTAA-TATAAAA-ATA
1 TAAAT-TTAATTATAAAATATA
2845630 T
1 T
2845631 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:2845723 original size:7 final size:7
Alignment explanation
Indices: 2845701--2845734 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2845691 AAATCAAATA
2845701 TAAA-TT
1 TAAATTT
2845707 TAAA-TT
1 TAAATTT
2845713 TAAATTT
1 TAAATTT
2845720 TAAATTT
1 TAAATTT
2845727 TAAATTT
1 TAAATTT
2845734 T
1 T
2845735 TTCAAATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 10 0.37
7 17 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAAATTT
Found at i:2845723 original size:13 final size:13
Alignment explanation
Indices: 2845696--2845734 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
2845686 AAACTAAATC
*
2845696 AAATATAAA-TTT
1 AAATTTAAATTTT
2845708 AAATTTAAATTTT
1 AAATTTAAATTTT
2845721 AAATTTTAAATTTT
1 AAA-TTTAAATTTT
2845735 TTCAAATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 6 0.25
14 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTTAAATTTT
Found at i:2846148 original size:25 final size:25
Alignment explanation
Indices: 2846120--2846174 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
2846110 TTTATATTTC
*
2846120 ATATTTATATATAAAT-ATATTTAAA
1 ATATTTATATATAAATCAAATTT-AA
* *
2846145 ATATATATATATATATCAAATTTAA
1 ATATTTATATATAAATCAAATTTAA
2846170 ATATT
1 ATATT
2846175 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTATATATAAATCAAATTTAA
Found at i:2846165 original size:19 final size:19
Alignment explanation
Indices: 2846126--2846173 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
2846116 TTTCATATTT
*
2846126 ATATATAAATATATTTAAA
1 ATATATAAATATATATAAA
* *
2846145 ATATATATATATATATCAA
1 ATATATAAATATATATAAA
2846164 AT-T-TAAATAT
1 ATATATAAATAT
2846174 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 6 0.24
18 1 0.04
19 18 0.72
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATAAATATATATAAA
Found at i:2846476 original size:2 final size:2
Alignment explanation
Indices: 2846471--2846496 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2846461 TATATATATA
2846471 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
2846497 CACGCGCGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2847440 original size:21 final size:21
Alignment explanation
Indices: 2847395--2847447 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 21
2847385 ATTTTTATTA
2847395 TTAAATT-AAT-AATAATAAT
1 TTAAATTAAATAAATAATAAT
2847414 TT---TTAAATAAATAATAAT
1 TTAAATTAAATAAATAATAAT
2847432 TTAAATTAAATTAAAT
1 TTAAATTAAA-TAAAT
2847448 CAAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.07
17 3 0.11
18 11 0.39
19 2 0.07
21 5 0.18
22 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAATTAAATAAATAATAAT
Found at i:2849971 original size:3 final size:3
Alignment explanation
Indices: 2849963--2849996 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2849953 CATTTCAAAA
2849963 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2849997 GATGATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2850764 original size:17 final size:16
Alignment explanation
Indices: 2850733--2850766 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2850723 AAAAATAAAA
*
2850733 AAATATATTTTTATAT
1 AAATATATATTTATAT
2850749 AAATATAATATTTATAT
1 AAATAT-ATATTTATAT
2850766 A
1 A
2850767 TTTTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATATATTTATAT
Found at i:2850859 original size:16 final size:18
Alignment explanation
Indices: 2850827--2850860 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2850817 AATAAAAATC
2850827 AACTCAAACTCATAAAAA
1 AACTCAAACTCATAAAAA
2850845 AACTCAAA-T-ATAAAAA
1 AACTCAAACTCATAAAAA
2850861 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (18 bp):
AACTCAAACTCATAAAAA
Found at i:2856833 original size:13 final size:13
Alignment explanation
Indices: 2856815--2856842 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2856805 TCTTAGTTTA
2856815 TTTATTACTTGTT
1 TTTATTACTTGTT
2856828 TTTATTACTTGTT
1 TTTATTACTTGTT
2856841 TT
1 TT
2856843 CATTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (13 bp):
TTTATTACTTGTT
Found at i:2858676 original size:16 final size:17
Alignment explanation
Indices: 2858655--2858696 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2858645 ATATGCATCC
2858655 TAAATTTTATATTTAT-
1 TAAATTTTATATTTATA
* *
2858671 TAAATTTGATTTTTATA
1 TAAATTTTATATTTATA
2858688 TATAATTTT
1 TA-AATTTT
2858697 TAATTGAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 14 0.67
17 2 0.10
18 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TAAATTTTATATTTATA
Found at i:2859234 original size:2 final size:2
Alignment explanation
Indices: 2859227--2859267 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2859217 CATATCTAAA
2859227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2859268 AACCCACAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2864123 original size:36 final size:36
Alignment explanation
Indices: 2864083--2864163 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
2864073 ACCGAAATCT
* *
2864083 GTCACTACCACATTCTGAGTCTCAAAACCAAGCTAA
1 GTCACTACCACAATCTAAGTCTCAAAACCAAGCTAA
* *
2864119 GTCACTACCACAATCTAAGTCTCAAAACTAAGCTGA
1 GTCACTACCACAATCTAAGTCTCAAAACCAAGCTAA
2864155 GTCACTACC
1 GTCACTACC
2864164 TTTGTCCCCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (36 bp):
GTCACTACCACAATCTAAGTCTCAAAACCAAGCTAA
Found at i:2871549 original size:54 final size:54
Alignment explanation
Indices: 2871485--2871613 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 54
2871475 ACTTAGCCTA
*
2871485 GTTTTGAGACTCAGAATGTGGCAGATTTTGGTTTTCGTTATGTACTTGGGGCTG
1 GTTTTGAGACTCAGAATGTGGCAGATTTTGGTTTTCGTTATGTACTTGGGACTG
*
2871539 GTTTTGAGACTCAGAATGTGGCAGATTTTGGTTTTTGTTATGTACTTGGGACTG
1 GTTTTGAGACTCAGAATGTGGCAGATTTTGGTTTTCGTTATGTACTTGGGACTG
* *
2871593 ATTTGGAGACTCA-AACTGTGG
1 GTTTTGAGACTCAGAA-TGTGG
2871614 TAAATTAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 2 0.03
54 68 0.97
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.40
Consensus pattern (54 bp):
GTTTTGAGACTCAGAATGTGGCAGATTTTGGTTTTCGTTATGTACTTGGGACTG
Found at i:2875838 original size:3 final size:3
Alignment explanation
Indices: 2875830--2875867 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
2875820 ATAAGCTGAT
* *
2875830 TTA TTA TTA TTA CTA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2875868 TTGTGCTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2876255 original size:17 final size:18
Alignment explanation
Indices: 2876233--2876271 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
2876223 TTAAAAATTA
2876233 ATATTAAA-TAATATAAT
1 ATATTAAATTAATATAAT
2876250 ATATTAAATTTAATATAAT
1 ATATTAAA-TTAATATAAT
2876269 ATA
1 ATA
2876272 AATTATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTAAATTAATATAAT
Found at i:2876280 original size:17 final size:16
Alignment explanation
Indices: 2876244--2876288 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
2876234 TATTAAATAA
2876244 TATAATAT-ATTAAAT
1 TATAATATAATTAAAT
2876259 T-TAATATAATATAAAT
1 TATAATATAAT-TAAAT
2876275 TATAATAT-ATTAAA
1 TATAATATAATTAAA
2876289 ATTTATGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 8 0.30
17 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAATATAATTAAAT
Found at i:2876282 original size:31 final size:31
Alignment explanation
Indices: 2876244--2876302 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
2876234 TATTAAATAA
2876244 TATAATATATT-AAATTTAATATAATATAAAT
1 TATAATATATTAAAATTT-ATATAATATAAAT
*
2876275 TATAATATATTAAAATTTATGTAATATA
1 TATAATATATTAAAATTTATATAATATA
2876303 TAATATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (31 bp):
TATAATATATTAAAATTTATATAATATAAAT
Found at i:2878857 original size:14 final size:14
Alignment explanation
Indices: 2878827--2878855 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2878817 ATTAAAGCAT
2878827 AATAAATATATATA
1 AATAAATATATATA
2878841 AATAAATATAT-TA
1 AATAAATATATATA
2878854 AA
1 AA
2878856 ATTTCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAAATATATATA
Found at i:2879068 original size:17 final size:17
Alignment explanation
Indices: 2879046--2879079 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2879036 ATAAATTATA
*
2879046 TAAAATATATTATGAAT
1 TAAAATATAGTATGAAT
2879063 TAAAATATAGTATGAAT
1 TAAAATATAGTATGAAT
2879080 ACAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
TAAAATATAGTATGAAT
Found at i:2879127 original size:10 final size:10
Alignment explanation
Indices: 2879114--2879196 Score: 50
Period size: 10 Copynumber: 8.5 Consensus size: 10
2879104 TTTATATTGC
* *
2879114 ATAATATAAA
1 ATAAAATAAT
*
2879124 ATAAATTAAT
1 ATAAAATAAT
*
2879134 -TAAAAATAAC
1 AT-AAAATAAT
*
2879144 ATAAAAATGAT
1 AT-AAAATAAT
2879155 ATAAATATAAT
1 ATAAA-ATAAT
2879166 A-AAAAT-AT
1 ATAAAATAAT
2879174 AT-AAAT-AT
1 ATAAAATAAT
*
2879182 ATAAAATAAA
1 ATAAAATAAT
2879192 ATAAA
1 ATAAA
2879197 TTATTAATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
8 11 0.19
9 7 0.12
10 25 0.43
11 15 0.26
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:2879175 original size:19 final size:19
Alignment explanation
Indices: 2879144--2879187 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
2879134 TAAAAATAAC
2879144 ATAAAAATGATATAAATAT
1 ATAAAAATGATATAAATAT
2879163 AATAAAAAT-ATATAAATAT
1 -ATAAAAATGATATAAATAT
2879182 ATAAAA
1 ATAAAA
2879188 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
20 8 0.33
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAATGATATAAATAT
Found at i:2879211 original size:25 final size:26
Alignment explanation
Indices: 2879148--2879213 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 26
2879138 AATAACATAA
2879148 AAATGATATAAATATAATAAAAATATAT
1 AAAT-ATATAAA-ATAATAAAAATATAT
2879176 AAATATATAAAATAA-AATAAAT-TAT
1 AAATATATAAAATAATAA-AAATATAT
*
2879201 TAATATATAAAAT
1 AAATATATAAAAT
2879214 TTTACATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 17 0.47
26 8 0.22
27 7 0.19
28 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AAATATATAAAATAATAAAAATATAT
Found at i:2887013 original size:20 final size:20
Alignment explanation
Indices: 2886984--2887146 Score: 110
Period size: 20 Copynumber: 7.6 Consensus size: 20
2886974 TACCCAGATG
2886984 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * * *
2887004 TATTGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* *
2887024 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATA
*
2887044 TATCGATATATTCTATCTTTTTACCCAGATG
1 TATCG--ATA--C-A--TTTTT---CA-ATA
*
2887075 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATA
* * * *
2887095 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
2887115 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
2887135 TATCGATACATT
1 TATCGATACATT
2887147 CTATCTTTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
20 83 0.73
21 2 0.02
22 3 0.03
24 6 0.05
25 1 0.01
26 1 0.01
27 5 0.04
29 3 0.03
30 2 0.02
31 8 0.07
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:2887041 original size:40 final size:40
Alignment explanation
Indices: 2886981--2887145 Score: 168
Period size: 40 Copynumber: 3.9 Consensus size: 40
2886971 TTTTACCCAG
*
2886981 ATGTATCGATACATTTTTCAATATATTGATACATGTATGA
1 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
* * * **
2887021 ATGTATCGATACATTCTTCAATGTATCGATATATTCTATCTTTTTACCCA
1 ATGTATCGATACATTTTTCAATATATCG--ATA--C-A----TGTA-TGA
*
2887071 GATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 -ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
2887112 ATGTATCGATACATTTTTCAATATATCGATACAT
1 ATGTATCGATACATTTTTCAATATATCGATACAT
2887146 TCTATCTTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
40 58 0.56
41 1 0.01
42 6 0.06
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
49 6 0.06
50 1 0.01
51 27 0.26
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (40 bp):
ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
Found at i:2887079 original size:51 final size:51
Alignment explanation
Indices: 2887021--2887193 Score: 206
Period size: 51 Copynumber: 3.6 Consensus size: 51
2887011 ACATGTATGA
*
2887021 ATGTATCGATACATTCTTCAATGTATCGATATATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGTATCGATATATTCTATCTTTTTACCCAG
* **
2887072 ATGTATCGATACATTTTTCAATGTATCG--ATA--C-A----TGTA-TGA-
1 ATGTATCGATACATTTTTCAATGTATCGATATATTCTATCTTTTTACCCAG
* *
2887112 ATGTATCGATACATTTTTCAATATATCGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGTATCGATATATTCTATCTTTTTACCCAG
*
2887163 ATGTATCGATACATTATTCAATGTATCGATA
1 ATGTATCGATACATTTTTCAATGTATCGATA
2887194 CATCTAGTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
40 27 0.27
41 1 0.01
42 5 0.05
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
49 6 0.06
50 1 0.01
51 56 0.56
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (51 bp):
ATGTATCGATACATTTTTCAATGTATCGATATATTCTATCTTTTTACCCAG
Found at i:2887125 original size:91 final size:91
Alignment explanation
Indices: 2886970--2887196 Score: 400
Period size: 91 Copynumber: 2.5 Consensus size: 91
2886960 AAAAATCACA
* *
2886970 TTTTTACCCAGATGTATCGATACATTTTTCAATATATTGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
* *
2887035 TCTTCAATGTATCGATATATTCTATC
66 TCTTCAATATATCGATACATTCTATC
2887061 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
2887126 TTTTCAATATATCGATACATTCTATC
66 TCTTCAATATATCGATACATTCTATC
*
2887152 TTTTTACCCAGATGTATCGATACATTATTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
2887197 CTAGTTAAAA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 130 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTCAATATATCGATACATTCTATC
Found at i:2898903 original size:15 final size:16
Alignment explanation
Indices: 2898883--2898912 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2898873 TCTGTCAAAC
2898883 CCGCCAGTG-TTGGTA
1 CCGCCAGTGCTTGGTA
2898898 CCGCCAGTGCTTGGT
1 CCGCCAGTGCTTGGT
2898913 CGTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.30, G:0.33, T:0.27
Consensus pattern (16 bp):
CCGCCAGTGCTTGGTA
Found at i:2901115 original size:5 final size:5
Alignment explanation
Indices: 2901102--2901156 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
2901092 CTTTCGTACA
* * * *
2901102 AAAAA AAAAC AAAAT AAAAC AAAAT AAAAC AAAAT AAAAC -AAA- AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
2901150 -AAAC AAA
1 AAAAC AAA
2901157 TAAAAAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
4 10 0.25
5 30 0.75
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (5 bp):
AAAAC
Found at i:2901120 original size:10 final size:10
Alignment explanation
Indices: 2901102--2901145 Score: 79
Period size: 10 Copynumber: 4.4 Consensus size: 10
2901092 CTTTCGTACA
*
2901102 AAAAAAAAAC
1 AAAATAAAAC
2901112 AAAATAAAAC
1 AAAATAAAAC
2901122 AAAATAAAAC
1 AAAATAAAAC
2901132 AAAATAAAAC
1 AAAATAAAAC
2901142 AAAA
1 AAAA
2901146 AAACAAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAATAAAAC
Found at i:2901130 original size:20 final size:20
Alignment explanation
Indices: 2901102--2901165 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
2901092 CTTTCGTACA
2901102 AAAAAAAAACAAAATAAAAC
1 AAAAAAAAACAAAATAAAAC
*
2901122 AAAATAAAACAAAATAAAAC
1 AAAAAAAAACAAAATAAAAC
2901142 AAAAAAACAA-ACAAATAAAA-
1 AAAAAAA-AACA-AAATAAAAC
2901162 AAAA
1 AAAA
2901166 GGGTCCTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 30 0.75
21 10 0.25
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.06
Consensus pattern (20 bp):
AAAAAAAAACAAAATAAAAC
Found at i:2902412 original size:28 final size:28
Alignment explanation
Indices: 2902354--2902735 Score: 408
Period size: 28 Copynumber: 13.5 Consensus size: 28
2902344 TGTTTATCTC
* * * *
2902354 TTCAAAGCCCACAGGTTAGTGGTAT-CT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
* *
2902381 CTTCAAAAAACCATAAGTCAGTGGCATCCT
1 -TTC-AAAACCCACAAGTCAGTGGCATCCT
*
2902411 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAACCCACAAGTCAGTGGCATCCT
* *
2902440 TTCAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
2902468 TTCAAAACCCACAAGTCAGTGGCATCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
* *
2902496 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
* * * ** *
2902524 TTTAAAGCCCATAAGAT-AGTATCACCCT
1 TTCAAAACCCACAAG-TCAGTGGCATCCT
*
2902552 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
* ** * *
2902580 TTCAAAGCGTACAAGCCAGTGACATCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
* ** * *
2902608 TTCAAAGCATACAAGTTAGTGGCACCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
*
2902636 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
*
2902664 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAACCCACAAGTCAGTGGCATCCT
* *
2902692 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAACCCACAAGTCAGTGGCATCC-T
*
2902721 TTCAAAGCCCACAAG
1 TTCAAAACCCACAAG
2902736 CTAGTGGTAA
Statistics
Matches: 311, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
27 1 0.00
28 249 0.80
29 57 0.18
30 4 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAACCCACAAGTCAGTGGCATCCT
Found at i:2902486 original size:56 final size:56
Alignment explanation
Indices: 2902354--2902843 Score: 502
Period size: 56 Copynumber: 8.5 Consensus size: 56
2902344 TGTTTATCTC
* * * ** *
2902354 TTCAAAGCCCACAGGTTAGTGGTAT-CTCTTCAAAAAACCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
2902411 TCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2902468 TTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * ** *
2902524 TTTAAAGCCCATAAGAT-AGTATCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAG-TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
** * * ** * *
2902580 TTCAAAGCGTACAAGCCAGTGACATCCTTTCAAAGCATACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
2902636 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2902692 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTC-AGTGG-CA-TCCT
* * * * * * * *
2902751 TTCAAAGCCTATAAGTTAGTGGTAACTCTTTTCAAAGCTCATACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCTTTCAAAGC-C-CACAAGTCAGTGGC-A-TCCT
*
2902813 TTCAAAGCCCACACAAGTTAGTGGCA-CCTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTTT
2902844 TTTAAAAGCT
Statistics
Matches: 364, Mismatches: 53, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
56 217 0.60
57 45 0.12
58 25 0.07
59 24 0.07
60 10 0.03
61 6 0.02
62 22 0.06
63 4 0.01
64 11 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:2902510 original size:84 final size:84
Alignment explanation
Indices: 2902395--2902843 Score: 517
Period size: 84 Copynumber: 5.2 Consensus size: 84
2902385 AAAAAACCAT
*
2902395 AAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAGT
1 AAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
* *
2902460 GGCATCCTTTCAAAACCCAC
65 GGCACCCTTTCAAAGCCCAC
* * *
2902480 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCATAAGAT-AGT
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG-TCAGT
**
2902544 ATCACCCTTTCAAAGCCCAC
65 GGCACCCTTTCAAAGCCCAC
** * * ** *
2902564 AAGTCAGTGGCATCCTTTCAAAGCGTACAAGCCAGTGACATCCTTTCAAAGCATACAAGTTAGTG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
2902629 GCACCCTTTCAAAGCCCAC
66 GCACCCTTTCAAAGCCCAC
2902648 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
2902713 GCACCCTTTTCAAAGCCCAC
66 GCACCC-TTTCAAAGCCCAC
* * * * * * * *
2902733 AAG-CTAGTGGTAACTCTTTTCAAAGCCTATAAGTTAGTGGTAACTCTTTTCAAAGCTCATACAA
1 AAGTC-AGTGG-CA-TCCTTTCAAAGCCCACAAGTCAGTGG-CA-TCCTTTCAAAGC-C-CACAA
* *
2902797 GTCGGTGGCAACTCTTTTCAAAGCCCACAC
59 GTCAGTGGC-AC-CCTTTCAAAG-CC-CAC
*
2902827 AAGTTAGTGGCA-CCTTT
1 AAGTCAGTGGCATCCTTT
2902844 TTTAAAAGCT
Statistics
Matches: 310, Mismatches: 39, Indels: 24
0.83 0.10 0.06
Matches are distributed among these distances:
83 1 0.00
84 193 0.62
85 39 0.13
86 1 0.00
87 22 0.07
88 1 0.00
89 11 0.04
90 1 0.00
91 16 0.05
92 10 0.03
93 4 0.01
94 11 0.04
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (84 bp):
AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
GCACCCTTTCAAAGCCCAC
Found at i:2902815 original size:32 final size:30
Alignment explanation
Indices: 2902395--2902882 Score: 385
Period size: 28 Copynumber: 16.8 Consensus size: 30
2902385 AAAAAACCAT
* *
2902395 AAGTCAGTGGCATC-CTTCTCAAAGCCCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
* *
2902424 AAGTCAGTGGC-A-TCCTTTCAAAGCTCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
* *
2902452 AAGTCAGTGGC-A-TCCTTTCAAAACCCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
*
2902480 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
* *
2902508 AAGTCAGTGGC-ACCCTTTT-AAAGCCCAT
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
** *
2902536 AAGAT-AGTATC-AC-CCTTTCAAAGCCCAC
1 AAG-TCAGTGGCAACTCTTTTCAAAGCCCAC
* **
2902564 AAGTCAGTGGC-A-TCCTTTCAAAGCGTAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
* * * **
2902592 AAGCCAGTGAC-A-TCCTTTCAAAGCATAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
* *
2902620 AAGTTAGTGGC-AC-CCTTTCAAAGCCCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
*
2902648 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
*
2902676 AAGTCAGTGGC-A-TCCTTTCAAAGCCCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
*
2902704 AAGTCAGTGGC-ACCCTTTTCAAAGCCCAC
1 AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
* * *
2902733 AAG-CTAGTGGTAACTCTTTTCAAAGCCTAT
1 AAGTC-AGTGGCAACTCTTTTCAAAGCCCAC
* * *
2902763 AAGTTAGTGGTAACTCTTTTCAAAGCTCATAC
1 AAGTCAGTGGCAACTCTTTTCAAAGC-C-CAC
*
2902795 AAGTCGGTGGCAACTCTTTTCAAAGCCCACAC
1 AAGTCAGTGGCAACTCTTTTCAAAG-CC-CAC
* * * * *
2902827 AAGTTAGTGGCACCTTTTTTAAAAGCTCACGC
1 AAGTCAGTGGCAACTCTTTTCAAAGC-C-CAC
* *
2902859 AAGTCGGTGGCAACCCTTTTCAAA
1 AAGTCAGTGGCAACTCTTTTCAAA
2902883 TCACCACTTT
Statistics
Matches: 392, Mismatches: 51, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
27 5 0.01
28 237 0.60
29 38 0.10
30 39 0.10
31 2 0.01
32 70 0.18
33 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (30 bp):
AAGTCAGTGGCAACTCTTTTCAAAGCCCAC
Found at i:2906128 original size:27 final size:27
Alignment explanation
Indices: 2906090--2906154 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
2906080 TATCATCATC
*
2906090 GGGGATACTCCGACCCCATTCCTCCGA
1 GGGGATACTCCGACCCCATTCCTCCAA
*
2906117 GGGGTTACTCCGACCCCATTCCTCCAA
1 GGGGATACTCCGACCCCATTCCTCCAA
2906144 GGGGATACTCC
1 GGGGATACTCC
2906155 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.38, G:0.23, T:0.20
Consensus pattern (27 bp):
GGGGATACTCCGACCCCATTCCTCCAA
Found at i:2906173 original size:14 final size:14
Alignment explanation
Indices: 2906154--2906183 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2906144 GGGGATACTC
2906154 CAAAAAAATTAAAT
1 CAAAAAAATTAAAT
2906168 CAAAAAAATTAAAT
1 CAAAAAAATTAAAT
2906182 CA
1 CA
2906184 TTTCCTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (14 bp):
CAAAAAAATTAAAT
Found at i:2911362 original size:3 final size:3
Alignment explanation
Indices: 2911354--2911397 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2911344 ATGATCTCTG
2911354 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2911398 CTCTTTAACC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2912936 original size:16 final size:15
Alignment explanation
Indices: 2912915--2912944 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2912905 ATGTTACACT
2912915 TAGAATAGCAATATAG
1 TAGAATAG-AATATAG
2912931 TAGAATAGAATATA
1 TAGAATAGAATATA
2912945 AAGTTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (15 bp):
TAGAATAGAATATAG
Found at i:2913872 original size:16 final size:16
Alignment explanation
Indices: 2913834--2913880 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
2913824 CCTAAAATCG
* *
2913834 ACTCGAACCCGAATAA
1 ACTCGAACTCGAAAAA
* *
2913850 GCCCGAACTCGAAAAA
1 ACTCGAACTCGAAAAA
2913866 ACTCGAA-TCGAAAAA
1 ACTCGAACTCGAAAAA
2913881 GTTTGAGCCC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.47, C:0.28, G:0.15, T:0.11
Consensus pattern (16 bp):
ACTCGAACTCGAAAAA
Found at i:2914109 original size:26 final size:27
Alignment explanation
Indices: 2914080--2914139 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
2914070 TCCATACAAA
* *
2914080 TTTTGTTCATATTT-TTTCACTTTT-C
1 TTTTTTTCATATTTGTTTCAATTTTCC
* *
2914105 TTTTTTTCTTTTTTGTTTCAATTTTCC
1 TTTTTTTCATATTTGTTTCAATTTTCC
2914132 TTTTTTTC
1 TTTTTTTC
2914140 TTCCTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 11 0.38
26 9 0.31
27 9 0.31
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTTTTTCATATTTGTTTCAATTTTCC
Found at i:2914159 original size:30 final size:29
Alignment explanation
Indices: 2914105--2914185 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
2914095 TTCACTTTTC
*
2914105 TTTTT-TTCTTTTTTGTTTCAATTTTCCTT
1 TTTTTATTCTTTTTTTTTTC-ATTTTCCTT
* *
2914134 TTTTTCTTCCTTTTTTTTTTCATTTTCATT
1 TTTTTATT-CTTTTTTTTTTCATTTTCCTT
*
2914164 TTTTTATTTTTCTTTTTTTTCA
1 TTTTTATTCTT-TTTTTTTTCA
2914186 AAGCAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 7 0.16
30 27 0.60
31 11 0.24
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTATTCTTTTTTTTTTCATTTTCCTT
Found at i:2914183 original size:15 final size:15
Alignment explanation
Indices: 2914108--2914185 Score: 63
Period size: 15 Copynumber: 5.0 Consensus size: 15
2914098 ACTTTTCTTT
2914108 TTTTCTTTTTTGTTTCAA
1 TTTTC-TTTTT-TTTC-A
*
2914126 TTTTCCTTTTTTTC-
1 TTTTCTTTTTTTTCA
2914140 TTCCTT-TTTTTTTTCA
1 TT--TTCTTTTTTTTCA
*
2914156 TTTTCATTTTTTT-A
1 TTTTCTTTTTTTTCA
2914170 TTTTTCTTTTTTTTCA
1 -TTTTCTTTTTTTTCA
2914186 AAGCAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
14 5 0.10
15 27 0.54
16 9 0.18
17 4 0.08
18 5 0.10
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTTTCA
Found at i:2917164 original size:24 final size:24
Alignment explanation
Indices: 2917132--2917178 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2917122 CAATTTTTTG
*
2917132 TTTATATTTTATAATACTTGTTTC
1 TTTATATTTTATAACACTTGTTTC
*
2917156 TTTATATTTTATAACATTTGTTT
1 TTTATATTTTATAACACTTGTTT
2917179 ATGACCATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTATATTTTATAACACTTGTTTC
Found at i:2917216 original size:24 final size:24
Alignment explanation
Indices: 2917123--2917260 Score: 73
Period size: 24 Copynumber: 5.5 Consensus size: 24
2917113 CCTCAATCTC
*
2917123 AATTTTTTGTTTATATTTTATAAT
1 AATTGTTTGTTTATATTTTATAAT
* * *
2917147 ACTTGTTTCTTTATATTTTATAAC
1 AATTGTTTGTTTATATTTTATAAT
* * * * **
2917171 ATTTGTTT-ATGACCATAGTATAAT
1 AATTGTTTGTTTA-TATTTTATAAT
*
2917195 AATTGTTTGTTTTTATTTTAT-AT
1 AATTGTTTGTTTATATTTTATAAT
*
2917218 CAATTGCTATTTCTTCATATATTTTATAAT
1 -AATTG---TTTGTT--TATATTTTATAAT
* *
2917248 AATTTTTTATTTA
1 AATTGTTTGTTTA
2917261 AATATATTTG
Statistics
Matches: 83, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
23 4 0.05
24 53 0.64
25 1 0.01
26 5 0.06
27 5 0.06
29 13 0.16
30 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (24 bp):
AATTGTTTGTTTATATTTTATAAT
Found at i:2919915 original size:35 final size:32
Alignment explanation
Indices: 2919870--2919934 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 32
2919860 AAAATATAAT
* *
2919870 AATTAGAAATTAACAAGAATATAAATTTAATAAAA
1 AATTAAAAATTAA-AA-AATA-AAAATTAATAAAA
2919905 AATTAAAAATTAAAAAATAAAAATTAATAA
1 AATTAAAAATTAAAAAATAAAAATTAATAA
2919935 CATTATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 4 0.14
34 2 0.07
35 12 0.43
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (32 bp):
AATTAAAAATTAAAAAATAAAAATTAATAAAA
Found at i:2919919 original size:6 final size:7
Alignment explanation
Indices: 2919902--2919956 Score: 65
Period size: 7 Copynumber: 7.3 Consensus size: 7
2919892 AAATTTAATA
2919902 AAAAATT
1 AAAAATT
2919909 AAAAATT
1 AAAAATT
*
2919916 AAAAAAT
1 AAAAATT
2919923 AAAAATT
1 AAAAATT
2919930 AATAACATT
1 AA-AA-ATT
2919939 ATAATAATT
1 A-AA-AATT
2919948 AAAAATT
1 AAAAATT
2919955 AA
1 AA
2919957 TAAAAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 27 0.64
8 4 0.10
9 9 0.21
10 2 0.05
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:2919925 original size:14 final size:15
Alignment explanation
Indices: 2919900--2919956 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
2919890 ATAAATTTAA
2919900 TAAAAAATTAAAAAT
1 TAAAAAATTAAAAAT
2919915 TAAAAAA-TAAAAAT
1 TAAAAAATTAAAAAT
*
2919929 TAATAACATTATAATAAT
1 TAA-AAAATTA-AA-AAT
2919947 T-AAAAATTAA
1 TAAAAAATTAA
2919957 TAAAAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 10 0.28
15 11 0.31
16 8 0.22
17 3 0.08
18 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAAAATTAAAAAT
Found at i:2919966 original size:25 final size:25
Alignment explanation
Indices: 2919858--2919967 Score: 100
Period size: 25 Copynumber: 4.4 Consensus size: 25
2919848 ATTAATTTTT
*
2919858 TAAAAATATAATAATTAGAAATTAA
1 TAAAAATATAATAATTAAAAATTAA
* * * *
2919883 CAAGAATATAA-ATTTAATAAA-AAA
1 TAAAAATATAATAATTAA-AAATTAA
* *
2919907 TTAAAAAT-TAAAAAATAAAAATTAA
1 -TAAAAATATAATAATTAAAAATTAA
* *
2919932 TAACATTATAATAATTAAAAATTAA
1 TAAAAATATAATAATTAAAAATTAA
2919957 TAAAAATATAA
1 TAAAAATATAA
2919968 CTGTAATATT
Statistics
Matches: 64, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
24 17 0.27
25 47 0.73
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
TAAAAATATAATAATTAAAAATTAA
Found at i:2922154 original size:18 final size:18
Alignment explanation
Indices: 2922117--2922154 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2922107 TCATCCAACC
*
2922117 AATATATCATTTCATCAA
1 AATATATCATTTCATAAA
*
2922135 AATATATCTTTTCATAAA
1 AATATATCATTTCATAAA
2922153 AA
1 AA
2922155 ATGGTGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATATCATTTCATAAA
Found at i:2927133 original size:21 final size:21
Alignment explanation
Indices: 2927109--2927161 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2927099 AGTTACATTT
*
2927109 TTTCATCCAAAAAATGTATTC-
1 TTTCATCCAAAAAATGCA-TCA
* *
2927130 TTTCATCTAACAAATGCATCA
1 TTTCATCCAAAAAATGCATCA
2927151 TTTCATCCAAA
1 TTTCATCCAAA
2927162 TATAACTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.36
Consensus pattern (21 bp):
TTTCATCCAAAAAATGCATCA
Found at i:2927908 original size:17 final size:19
Alignment explanation
Indices: 2927886--2927926 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
2927876 TGAATTAATC
2927886 TATAATAAAAT-AAT-TAT
1 TATAATAAAATAAATATAT
*
2927903 TATAATAAATTAAATATAT
1 TATAATAAAATAAATATAT
2927922 TATAA
1 TATAA
2927927 ATTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 3 0.14
19 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAATAAAATAAATATAT
Found at i:2929541 original size:16 final size:16
Alignment explanation
Indices: 2929520--2929551 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2929510 GATTAGAATA
*
2929520 TAATTTAATAATAATT
1 TAATTTAACAATAATT
2929536 TAATTTAACAATAATT
1 TAATTTAACAATAATT
2929552 AAAGATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAACAATAATT
Found at i:2930558 original size:22 final size:22
Alignment explanation
Indices: 2930533--2930574 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2930523 ATTTAATAAT
* *
2930533 TAAATTTAATTATAAAAATATA
1 TAAATATAAATATAAAAATATA
2930555 TAAATATAAATATAAAAATA
1 TAAATATAAATATAAAAATA
2930575 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATATAAATATAAAAATATA
Found at i:2931181 original size:22 final size:21
Alignment explanation
Indices: 2931134--2931182 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2931124 TTAAGTTCAG
* *
2931134 TTTTTGAAGATTTAAAATAAA
1 TTTTTTAAAATTTAAAATAAA
* *
2931155 ATTTTTAAAATTTAATAATAGA
1 TTTTTTAAAATTTAA-AATAAA
2931177 TTTTTT
1 TTTTTT
2931183 TATCAATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTTTAAAATTTAAAATAAA
Found at i:2932755 original size:16 final size:16
Alignment explanation
Indices: 2932734--2932768 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2932724 TACAAAAAAG
2932734 TTAGAGATGTATTTAT
1 TTAGAGATGTATTTAT
2932750 TTAGAGATGTATTTAT
1 TTAGAGATGTATTTAT
2932766 TTA
1 TTA
2932769 TAGTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (16 bp):
TTAGAGATGTATTTAT
Found at i:2932873 original size:26 final size:26
Alignment explanation
Indices: 2932844--2932893 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2932834 CTAAAATCCC
2932844 AAATAAAGTTAAACTTTATCAATCTT
1 AAATAAAGTTAAACTTTATCAATCTT
*
2932870 AAATAAAGTTGAACTTTATCAATC
1 AAATAAAGTTAAACTTTATCAATC
2932894 CTATCTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (26 bp):
AAATAAAGTTAAACTTTATCAATCTT
Found at i:2936023 original size:10 final size:9
Alignment explanation
Indices: 2936008--2936046 Score: 69
Period size: 9 Copynumber: 4.2 Consensus size: 9
2935998 CCAGTTCATA
2936008 TTTTTTTCT
1 TTTTTTTCT
2936017 TTTTTTTCT
1 TTTTTTTCT
2936026 TTTTTTTCT
1 TTTTTTTCT
2936035 TTTTCTTTCT
1 TTTT-TTTCT
2936045 TT
1 TT
2936047 CTTCTTCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:2936031 original size:18 final size:19
Alignment explanation
Indices: 2936008--2936073 Score: 80
Period size: 18 Copynumber: 3.3 Consensus size: 19
2935998 CCAGTTCATA
2936008 TTTTTTTCTTTTT-TTTCT
1 TTTTTTTCTTTTTCTTTCT
2936026 TTTTTTTCTTTTTCTTTCT
1 TTTTTTTCTTTTTCTTTCT
2936045 TTCTTCTTCATCTTCTTTCTTTCT
1 TT-TT-TT--TCTT-TTTCTTTCT
2936069 TTTTT
1 TTTTT
2936074 ACCTAACCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
18 13 0.31
19 7 0.17
20 2 0.05
21 2 0.05
22 1 0.02
23 6 0.14
24 11 0.26
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTCTTTTTCTTTCT
Found at i:2937360 original size:32 final size:32
Alignment explanation
Indices: 2937311--2937717 Score: 651
Period size: 32 Copynumber: 12.8 Consensus size: 32
2937301 AAAATGGTGA
* * **
2937311 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2937343 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
2937375 TTTGAAAAGGGTTGCCACCAACTTGTGCGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2937407 TTTGAAATGGGTTGCC-CTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2937438 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2937470 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2937502 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2937534 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2937566 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2937598 TTTGAAAT-AG-TGCCACCGACTTGTATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2937628 TTTGAAATGGATTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2937660 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
2937692 TTTGAAATGGG-TGCCACTAACTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
2937718 GGCTTTATAA
Statistics
Matches: 348, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
30 27 0.08
31 42 0.12
32 279 0.80
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:2937439 original size:95 final size:96
Alignment explanation
Indices: 2937311--2937717 Score: 660
Period size: 95 Copynumber: 4.3 Consensus size: 96
2937301 AAAATGGTGA
* ** *
2937311 TTTGAAAAGGGTTGCCACTGACTTGCATGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
* *
2937376 TTGAAAAGGGTTGCCACCAACTTGTGCGGGC
66 TTGAAAAGGGTTGCCACCGACTTGTGTGGGC
2937407 TTTGAAATGGGTTGCC-CTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
*
2937471 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
2937502 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
2937567 TTGAAAAGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * * *
2937598 TTTGAAAT-AG-TGCCACCGACTTGTATGGGCTTTGAAATGGATTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
*
2937661 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
2937692 TTTGAAATGGG-TGCCACTAACTTGTG
1 TTTGAAATGGGTTGCCACTGACTTGTG
2937718 GGCTTTATAA
Statistics
Matches: 292, Mismatches: 17, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
94 89 0.30
95 103 0.35
96 100 0.34
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (96 bp):
TTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
TTGAAAAGGGTTGCCACCGACTTGTGTGGGC
Found at i:2937829 original size:27 final size:27
Alignment explanation
Indices: 2937743--2938499 Score: 1073
Period size: 27 Copynumber: 27.6 Consensus size: 27
2937733 TGCCACCGCC
* * *
2937743 TTGTGGACTTAAAAAAGGTGCCATGAAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* *
2937771 TTGTGAACTTAAAAGGGATGCCACAGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
* *
2937799 TTGTGGACTTAAAATGGTGCCACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2937826 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2937853 TTCTAGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2937881 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2937908 TTGTGGACTTAAAAGGGTGCCACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2937935 TTGTGGACTTAAAAGGGATGCCATGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
* *
2937963 TTGTGGACTTAAAAGGGTGACACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2937990 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2938017 TTGTGGACTTAAAAGGGTGCCACAGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2938044 TTGTGGACTTTAAAAGGGTGCCATGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
2938072 TTCTAGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2938100 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2938127 TTGTGGACTTAAAAGGGTGCCACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2938154 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
2938182 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2938209 TTGTGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2938236 TTGTGGACTAAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
** *
2938263 TTGTGGACTTTAAAAGGGTGTTACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
2938291 TTGTGGACTTAAAAGGATGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
** *
2938318 TTGTGGACTTTAAAAGAAAATGCCACTGAG
1 TTGTGGAC-TTAAAAG--GGTGCCACGGAG
*
2938348 TCGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2938375 TTGTGGACTTAAAAGGGTGCCACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2938402 TTGTGAACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2938429 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2938457 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2938485 TTGTGGACTTTAAAG
1 TTGTGGACTTAAAAG
2938500 AGGTCACGAT
Statistics
Matches: 660, Mismatches: 59, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
27 397 0.60
28 239 0.36
29 7 0.01
30 17 0.03
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:2937840 original size:55 final size:54
Alignment explanation
Indices: 2937743--2938499 Score: 1073
Period size: 55 Copynumber: 13.8 Consensus size: 54
2937733 TGCCACCGCC
* * * * *
2937743 TTGTGGACTTAAAAAAGGTGCCATGAAGTTGTGAACTTAAAAGGGATGCCACAGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
* *
2937799 TTGTGGACTTAAAATGGTGCCACGGAATTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2937853 TTCTAGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2937908 TTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGATGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
* * *
2937963 TTGTGGACTTAAAAGGGTGACACGAAGTTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
2938017 TTGTGGACTTAAAAGGGTGCCACAGAATTGTGGACTTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
2938072 TTCTAGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2938127 TTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
*
2938182 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * ** *
2938236 TTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGTTACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * ** *
2938291 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGAAAATGCCACTGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG--GGTGCCACGGAG
* *
2938348 TCGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2938402 TTGTGAACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2938457 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
2938500 AGGTCACGAT
Statistics
Matches: 629, Mismatches: 62, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
54 206 0.33
55 316 0.50
56 68 0.11
57 39 0.06
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (54 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:2937893 original size:82 final size:81
Alignment explanation
Indices: 2937743--2938499 Score: 1073
Period size: 82 Copynumber: 9.2 Consensus size: 81
2937733 TGCCACCGCC
* * * * *
2937743 TTGTGGACTTAAAAAAGGTGCCATGAAGTTGTGAACTTAAAAGGGATGCCACAGAGTTGTGGACT
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT
* *
2937808 TAAAATGGTGCCACGGAA
64 TAAAAGGGTGCCACGGAG
* *
2937826 TTGTGGACTTAAAAGGGTGCCACGGAGTTCTAGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT
2937891 AAAAGGGTGCCACGGAG
65 AAAAGGGTGCCACGGAG
* *
2937908 TTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGATGCCATGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTT
* *
2937973 AAAAGGGTGACACGAAG
65 AAAAGGGTGCCACGGAG
* * *
2937990 TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAATTGTGGACTTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
*
2938055 AAAAGGGTGCCATGGAG
65 AAAAGGGTGCCACGGAG
* *
2938072 TTCTAGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
2938137 AAAAGGGTGCCACGGAA
65 AAAAGGGTGCCACGGAG
2938154 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
2938219 AAAAGGGTGCCATGGAG
65 AAAAGGGTGCCACGGAG
* * ** *
2938236 TTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGTTACAGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT
* *
2938301 AAAAGGATGCCACAGAG
65 AAAAGGGTGCCACGGAG
** * *
2938318 TTGTGGACTTTAAAAGAAAATGCCACTGAGTCGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTGTGGAC-TTAAAAG--GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
2938383 TTAAAAGGGTGCCACGAAG
63 TTAAAAGGGTGCCACGGAG
* *
2938402 TTGTGAACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-T
2938467 TAAAAGGGTGCCACGGAG
64 TAAAAGGGTGCCACGGAG
*
2938485 TTGTGGACTTTAAAG
1 TTGTGGACTTAAAAG
2938500 AGGTCACGAT
Statistics
Matches: 602, Mismatches: 61, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
81 66 0.11
82 359 0.60
83 114 0.19
84 47 0.08
85 16 0.03
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (81 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
AAAGGGTGCCACGGAG
Found at i:2939521 original size:9 final size:9
Alignment explanation
Indices: 2939507--2939531 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2939497 AAAGGTTTTT
2939507 TTTTTTTGG
1 TTTTTTTGG
2939516 TTTTTTTGG
1 TTTTTTTGG
2939525 TTTTTTT
1 TTTTTTT
2939532 TTTAGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTTTGG
Found at i:2939844 original size:23 final size:24
Alignment explanation
Indices: 2939818--2939862 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2939808 ACTTTTGCAT
*
2939818 TTTTTCTTTTCA-TTTTTTTGTGC
1 TTTTGCTTTTCACTTTTTTTGTGC
*
2939841 TTTTGCTTTTGACTTTTTTTGT
1 TTTTGCTTTTCACTTTTTTTGT
2939863 CATTAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.04, C:0.11, G:0.11, T:0.73
Consensus pattern (24 bp):
TTTTGCTTTTCACTTTTTTTGTGC
Found at i:2946276 original size:9 final size:9
Alignment explanation
Indices: 2946262--2946291 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2946252 CTATTTAATA
2946262 TTTTTTTCT
1 TTTTTTTCT
2946271 TTTTTTTCT
1 TTTTTTTCT
2946280 TTTTCTTTCT
1 TTTT-TTTCT
2946290 TT
1 TT
2946292 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:2949729 original size:29 final size:29
Alignment explanation
Indices: 2949697--2949755 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
2949687 TAGGGTTCTT
* * * *
2949697 ATAAATATTAAATTCTTGCAAAAATCAAA
1 ATAAAGATCAAATTCTTACAAAAATAAAA
2949726 ATAAAGATCAAATTCTTACAAAAATAAAA
1 ATAAAGATCAAATTCTTACAAAAATAAAA
2949755 A
1 A
2949756 AACATACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.27
Consensus pattern (29 bp):
ATAAAGATCAAATTCTTACAAAAATAAAA
Found at i:2951170 original size:26 final size:26
Alignment explanation
Indices: 2951140--2951194 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
2951130 TATTTAGAAT
*
2951140 CTAGATAAAATTGAACTTTATTAATC
1 CTAGATAAAATTGAACTTTATCAATC
*
2951166 CTAGATAAAGTTGAACTTTATCAATC
1 CTAGATAAAATTGAACTTTATCAATC
2951192 CTA
1 CTA
2951195 TCTCTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (26 bp):
CTAGATAAAATTGAACTTTATCAATC
Found at i:2952928 original size:3 final size:3
Alignment explanation
Indices: 2952920--2952944 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2952910 CAAAGAGAAC
2952920 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
2952945 TAAATACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2962195 original size:23 final size:24
Alignment explanation
Indices: 2962148--2962196 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
2962138 TTTTACAAAG
* *
2962148 TTTAATTAGAATTTTTAATTCTAT
1 TTTAATTAGAACTATTAATTCTAT
*
2962172 TTTAATTA-AACTATTAATTTTAT
1 TTTAATTAGAACTATTAATTCTAT
2962195 TT
1 TT
2962197 ACCTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTAATTAGAACTATTAATTCTAT
Found at i:2973257 original size:2 final size:2
Alignment explanation
Indices: 2973252--2973285 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2973242 AAATCATGTG
*
2973252 TA TA TA TA TA -A AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2973286 GAAATTGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2973426 original size:2 final size:2
Alignment explanation
Indices: 2973421--2973446 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2973411 ACATCCATAC
2973421 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2973447 GAAAAATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2973944 original size:73 final size:72
Alignment explanation
Indices: 2973848--2973989 Score: 266
Period size: 73 Copynumber: 2.0 Consensus size: 72
2973838 ATATAAACAA
*
2973848 ATTTGAATCACTACATGTATTAAAATCATAATTAAAGAAAACAAAAGGATTATAAATATATATAT
1 ATTTGAAACACTACATGTATTAAAATCATAATTAAAGAAAACAAAAGGATTATAAATATATATAT
2973913 ATATGAC
66 ATATGAC
2973920 ATTTAGAAACACTACATGTATTAAAATCATAATTAAAGAAAACAAAAGGATTATAAATATATATA
1 ATTT-GAAACACTACATGTATTAAAATCATAATTAAAGAAAACAAAAGGATTATAAATATATATA
2973985 TATAT
65 TATAT
2973990 ATATGACATT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 4 0.06
73 64 0.94
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (72 bp):
ATTTGAAACACTACATGTATTAAAATCATAATTAAAGAAAACAAAAGGATTATAAATATATATAT
ATATGAC
Found at i:2974277 original size:2 final size:2
Alignment explanation
Indices: 2974272--2974299 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2974262 ATGCGTTTTT
2974272 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2974300 GATTGCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2979648 original size:4 final size:4
Alignment explanation
Indices: 2979639--2979710 Score: 135
Period size: 4 Copynumber: 18.0 Consensus size: 4
2979629 ACAAAAAATC
*
2979639 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTCT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
2979687 CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT
2979711 TTATAACCAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 66 1.00
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (4 bp):
CTAT
Done.