Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 38 of 147
Found at i:7649906 original size:55 final size:54
Alignment explanation
Indices: 7649727--7649907 Score: 127
Period size: 55 Copynumber: 3.1 Consensus size: 54
7649717 TGAAAATTTT
* *
7649727 ATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAGAATATATACATATTTTTTAAA
1 ATTTTTAAGGAAAATTGATACTTTCAAC-TTTT-CCAA-AAAATAT-C-T-TTTTTGAAA
* ** *
7649787 ATTTTATTTTCAAGGGAAATTGATACTTTCAAC-TTTCC-TTAAA-AT-GTTTTTGAAAA
1 A---T-TTTT-AAGGAAAATTGATACTTTCAACTTTTCCAAAAAATATCTTTTTTG-AAA
7649843 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCAAAAAATATCTTTTTTGAAA
1 ----ATTTTTAAGGAAAATTGATACTTTCAACTTTTC-CAAAAAATATCTTTTTTGAAA
7649902 ATTTTT
1 ATTTTT
7649908 TATTTTAAGA
Statistics
Matches: 96, Mismatches: 10, Indels: 35
0.68 0.07 0.25
Matches are distributed among these distances:
55 32 0.33
56 11 0.11
57 2 0.02
58 3 0.03
59 7 0.07
60 10 0.10
62 2 0.02
63 4 0.04
64 4 0.04
65 21 0.22
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (54 bp):
ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCAAAAAATATCTTTTTTGAAA
Found at i:7650724 original size:15 final size:16
Alignment explanation
Indices: 7650704--7650736 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7650694 AATCCCAGCC
7650704 AAAAAAAAAGA-AAAT
1 AAAAAAAAAGATAAAT
*
7650719 AAAAAAATAGATAAAT
1 AAAAAAAAAGATAAAT
7650735 AA
1 AA
7650737 TAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAAAAAGATAAAT
Found at i:7650861 original size:48 final size:46
Alignment explanation
Indices: 7650732--7650858 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 46
7650722 AAAATAGATA
*
7650732 AATAATAAATATATATACTAATAGATAAATAATAGATAATAGTTAAT
1 AATAA-AAATATATATATTAATAGATAAATAATAGATAATAGTTAAT
* *
7650779 AATAAAAATTTGCATACATTAATAGATAAATAATA-ATATATA-TTAAT
1 AATAAAAATAT--ATATATTAATAGATAAATAATAGATA-ATAGTTAAT
*
7650826 AGATAAAAATATATATATTAATAAAT-AATAATA
1 A-ATAAAAATATATATATTAATAGATAAATAATA
7650859 ATAGCAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 7 0.10
46 17 0.24
47 14 0.20
48 32 0.46
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (46 bp):
AATAAAAATATATATATTAATAGATAAATAATAGATAATAGTTAAT
Found at i:7661835 original size:5 final size:5
Alignment explanation
Indices: 7661825--7661865 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
7661815 AATGGGTTAG
* *
7661825 AAATA AAATA AAATC AAATA AAAT- CAA-A AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
7661866 ATGGAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:7662727 original size:3 final size:3
Alignment explanation
Indices: 7662701--7662829 Score: 163
Period size: 3 Copynumber: 43.7 Consensus size: 3
7662691 GAAACAAAAA
* * * * *
7662701 AAT AAA AAT AAA AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
7662749 GAT GAT GAT -AT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7662796 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7662830 AGAATCTAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
2 4 0.03
3 112 0.97
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7662892 original size:25 final size:26
Alignment explanation
Indices: 7662858--7662914 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
7662848 AATGGGCTAT
* *
7662858 AATGGGCCTAGCTGGGCTTG-ACCAA
1 AATGGGCCTAACTGGGCCTGAACCAA
*
7662883 AATGGGCCTAATTGGGCCTGAACCAA
1 AATGGGCCTAACTGGGCCTGAACCAA
7662909 AATGGG
1 AATGGG
7662915 TGTCTACAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.19
Consensus pattern (26 bp):
AATGGGCCTAACTGGGCCTGAACCAA
Found at i:7663361 original size:119 final size:118
Alignment explanation
Indices: 7663040--7663658 Score: 522
Period size: 119 Copynumber: 5.2 Consensus size: 118
7663030 GACCGGGATT
* * * *
7663040 AAACCACGAGTC-AAATAAAGTGACCAAGATTGAGTCGAGGTCAAAAATAAATGATCGGGAT-AG
1 AAACCACAAGTCAAAATAAAGTGACCAGGA-TGAGTCGAGGTCAAAAATGAATGATCGAGATGA-
* * *
7663103 AATCACGAATCATAAGAAATGATCTGGACTGAGCCAAAATTAGGTGA-TTGGGATG
64 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAGGG-TG
* * * * * * *
7663158 AAACCATAAGTTAAAATAAAGCGACCAGGATTAATCGAGGTAAAAAATGAATGATCGATATGAAA
1 AAACCACAAGTCAAAATAAAGTGACCAGGATGAGTCGAGGTCAAAAATGAATGATCGAGATGAAA
* * * * *
7663223 CCACGAATCAT-AGAAAATGATCTGGATTGAGTCAAGATCATGTGACCAGGGTG
66 CCACGAATCATAAG-AAATGATCTGGACTGAGCCAAAATCAGGTGACTAGGGTG
* * *
7663276 AAACCACAAGTCAAAATAAAGTGACCAGGACTGAGTCGAAGTCGAAAATGAATAATCGAGATGAA
1 AAACCACAAGTCAAAATAAAGTGACCAGGA-TGAGTCGAGGTCAAAAATGAATGATCGAGATGAA
* * *
7663341 ACCACAAATCATAAGAAATGATCTAGACTGAGCCAAAATCAGGTGACTAAGGTG
65 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAGGGTG
* * ** * *
7663395 AAACCACAAGTCAAAATAAAATAACCAAAATCGAGTCGAGGTCAAAAATAAATGATC-AGGA-CA
1 AAACCACAAGTCAAAATAAAGTGACCAGGAT-GAGTCGAGGTCAAAAATGAATGATCGA-GATGA
* * * * * * **
7663458 AAACATGAATCAATAA-AGA-GAATCTGGATTGAGCTAAGATCAGGTGACT-GGGACA
64 AACCACGAATC-ATAAGAAATG-ATCTGGACTGAGCCAAAATCAGGTGACTAGGG-TG
* * * * * * * *
7663513 AAATCACAAGTCGAAATAAAGCGACCAAGATCGAGTTGAGGTCAAAAATAAATGAT-TAGGATAA
1 AAACCACAAGTCAAAATAAAGTGACCAGGAT-GAGTCGAGGTCAAAAATGAATGATCGA-GATGA
* * * * *****
7663577 AACCATGAATCAATAA-AGATGATCTGGACTGAGCCAAGATCAAGTGACTAAAACA
64 AACCACGAATC-ATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAGGGTG
* *
7663632 AAACCACAAGCCAAAATAAAGCGACCA
1 AAACCACAAGTCAAAATAAAGTGACCA
7663659 AGACCAAGTC
Statistics
Matches: 411, Mismatches: 75, Indels: 29
0.80 0.15 0.06
Matches are distributed among these distances:
117 5 0.01
118 191 0.46
119 212 0.52
120 3 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (118 bp):
AAACCACAAGTCAAAATAAAGTGACCAGGATGAGTCGAGGTCAAAAATGAATGATCGAGATGAAA
CCACGAATCATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAGGGTG
Found at i:7663485 original size:237 final size:234
Alignment explanation
Indices: 7663040--7663687 Score: 650
Period size: 237 Copynumber: 2.7 Consensus size: 234
7663030 GACCGGGATT
* *
7663040 AAACCACGAGTCAAATAAAGTGACCAAGATTGAGTCGAGGTCAAAAATAAATGATCGGGATAGAA
1 AAACCACAAGTCAAATAAAGTGACCAAGA-TGAGTCGAGGTCAAAAATAAATGATCGAGATA-AA
* * ** *
7663105 TCACGAATCATAAGAAATGATCTGGACTGAGCCAAAATTAGGTGA-TTGGGATGAAACCATAAGT
64 CCACGAATCATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAAGG-TGAAACCACAAGT
* * * * *
7663169 TAAAATAAAGCGACCAGGATTAA-TCGAGGTAAAAAATGAATGATCGATATGAAACCACGAATCA
128 CAAAATAAAGCGACCAAGATCAAGTCGAGGTAAAAAATAAATGATCGACA-GAAACCACGAATCA
* **
7663233 TAGAAAATGATCTGGATTGAG-TCAAGATCATGTGACCAGGG-TG
192 TAGAAAATGATCTGGATTGAGCT-AAGATCAGGTGA-CAGGGACA
* * * * *
7663276 AAACCACAAGTCAAAATAAAGTGACCAGGACTGAGTCGAAGTCGAAAATGAATAATCGAGATGAA
1 AAACCACAAGTC-AAATAAAGTGACCAAGA-TGAGTCGAGGTCAAAAATAAATGATCGAGAT-AA
* *
7663341 ACCACAAATCATAAGAAATGATCTAGACTGAGCCAAAATCAGGTGACTAAGGTGAAACCACAAGT
63 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAAGGTGAAACCACAAGT
*** * * * *
7663406 CAAAATAAAATAACCAAAATCGAGTCGAGGTCAAAAATAAATGATCAGGACA-AAA-CATGAATC
128 CAAAATAAAGCGACCAAGATCAAGTCGAGGTAAAAAATAAATGATC--GACAGAAACCACGAATC
* *
7663469 AATA-AAGA-GAATCTGGATTGAGCTAAGATCAGGTGACTGGGACA
191 -ATAGAAAATG-ATCTGGATTGAGCTAAGATCAGGTGACAGGGACA
* * * *
7663513 AAATCACAAGTCGAAATAAAGCGACCAAGATCGAGTTGAGGTCAAAAATAAATGAT-TAGGATAA
1 AAACCACAAGTC-AAATAAAGTGACCAAGAT-GAGTCGAGGTCAAAAATAAATGATCGA-GAT-A
* * * * ****
7663577 AACCATGAATCAATAA-AGATGATCTGGACTGAGCCAAGATCAAGTGACTAAAACAAAACCACAA
62 AACCACGAATC-ATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAAGGTGAAACCACAA
* * *
7663641 GCCAAAATAAAGCGACCAAGACCAAGTCAAGGTAAAAAATAAATGAT
126 GTCAAAATAAAGCGACCAAGATCAAGTCGAGGTAAAAAATAAATGAT
7663688 TGGGATGAAA
Statistics
Matches: 337, Mismatches: 62, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
236 18 0.05
237 281 0.83
238 35 0.10
240 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (234 bp):
AAACCACAAGTCAAATAAAGTGACCAAGATGAGTCGAGGTCAAAAATAAATGATCGAGATAAACC
ACGAATCATAAGAAATGATCTGGACTGAGCCAAAATCAGGTGACTAAGGTGAAACCACAAGTCAA
AATAAAGCGACCAAGATCAAGTCGAGGTAAAAAATAAATGATCGACAGAAACCACGAATCATAGA
AAATGATCTGGATTGAGCTAAGATCAGGTGACAGGGACA
Found at i:7663679 original size:119 final size:119
Alignment explanation
Indices: 7663040--7663740 Score: 488
Period size: 119 Copynumber: 5.9 Consensus size: 119
7663030 GACCGGGATT
* * * ** *
7663040 AAACCACGAGTC-AAATAAAGTGACCAAGATTGAGTCGAGGTCAAAAATAAATGATCGGGATAGA
1 AAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATTAGGATAAA
* * * * * * * * ** **
7663104 ATCACGAATC-ATAAGAAATGATCTGGACTGAGCCAAAATTAGGTGATTGGGATG
66 ACCATGAATCAATAA-AGATGATCTAGACTGAGCCAAGATCAAGTGACTAAGACA
* * * * * * * *
7663158 AAACCATAAGTTAAAATAAAGCGACCAGGAT-TAATCGAGGTAAAAAATGAATGA-T-CGATATG
1 AAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATTAGGATA--
* * * * * * * * ***
7663220 AAACCACGAATC-ATAGAAAATGATCTGGATTGAGTCAAGATCATGTGACCAGGGTG
64 AAACCATGAATCAATA-AAGATGATCTAGACTGAGCCAAGATCAAGTGACTAAGACA
* * * * * * * *
7663276 AAACCACAAGTCAAAATAAAGTGACCAGGA-CTGAGTCGAAGTCGAAAATGAAT-AATCGAGATG
1 AAACCACAAGTCAAAATAAAGCGACCAAGATC-GAGTCGAGGTCAAAAATAAATGATTAG-GATA
** * * * ***
7663339 AAACCACAAATC-ATAAGAAATGATCTAGACTGAGCCAAAATCAGGTGACTAAGGTG
64 AAACCATGAATCAATAA-AGATGATCTAGACTGAGCCAAGATCAAGTGACTAAGACA
*** * * *
7663395 AAACCACAAGTCAAAATAAAATAACCAAAATCGAGTCGAGGTCAAAAATAAATGATCAGGACAAA
1 AAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATTAGGATAAA
* * * * **
7663460 A-CATGAATCAATAAAGA-GAATCTGGATTGAGCTAAGATCAGGTGACTGGGACA
66 ACCATGAATCAATAAAGATG-ATCTAGACTGAGCCAAGATCAAGTGACTAAGACA
* * *
7663513 AAATCACAAGTCGAAATAAAGCGACCAAGATCGAGTTGAGGTCAAAAATAAATGATTAGGATAAA
1 AAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATTAGGATAAA
* *
7663578 ACCATGAATCAATAAAGATGATCTGGACTGAGCCAAGATCAAGTGACTAAAACA
66 ACCATGAATCAATAAAGATGATCTAGACTGAGCCAAGATCAAGTGACTAAGACA
* * * * * * *
7663632 AAACCACAAGCCAAAATAAAGCGACCAAGACCAAGTCAAGGTAAAAAATAAATGATTGGGATGAA
1 AAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATTAGGATAAA
* ** ** * * *
7663697 ACTACAAATCAATAGGGATGATCTAGACTAAACCAAGATTAAGT
66 ACCATGAATCAATAAAGATGATCTAGACTGAGCCAAGATCAAGT
7663741 AAGCAAATAA
Statistics
Matches: 469, Mismatches: 98, Indels: 31
0.78 0.16 0.05
Matches are distributed among these distances:
116 4 0.01
117 1 0.00
118 190 0.41
119 267 0.57
120 4 0.01
121 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (119 bp):
AAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATTAGGATAAA
ACCATGAATCAATAAAGATGATCTAGACTGAGCCAAGATCAAGTGACTAAGACA
Found at i:7664008 original size:34 final size:33
Alignment explanation
Indices: 7663956--7664053 Score: 101
Period size: 34 Copynumber: 3.0 Consensus size: 33
7663946 TGTAATTTTG
* *
7663956 GCAAAAAAACCATCTTTCATCGGCCTAGAGGCAT
1 GCAAAGAAACCAT-TTTCATCAGCCTAGAGGCAT
* * * * *
7663990 GCAAAGAAACTATTTTTCATTAGCTTAAAGGCGT
1 GCAAAGAAACCA-TTTTCATCAGCCTAGAGGCAT
7664024 GCAAAGAAACCA-TTT-ATCAGCCTAGAGGCA
1 GCAAAGAAACCATTTTCATCAGCCTAGAGGCA
7664054 AAGGAACCTT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
31 11 0.22
32 3 0.06
34 36 0.71
35 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (33 bp):
GCAAAGAAACCATTTTCATCAGCCTAGAGGCAT
Found at i:7671901 original size:14 final size:14
Alignment explanation
Indices: 7671882--7671908 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7671872 AATGGGTTAA
7671882 AAATAAAATAAAAT
1 AAATAAAATAAAAT
7671896 AAATAAAATAAAA
1 AAATAAAATAAAA
7671909 ATGAAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:7671917 original size:14 final size:15
Alignment explanation
Indices: 7671882--7671923 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7671872 AATGGGTTAA
7671882 AAATAAAAT-AAAAT
1 AAATAAAATAAAAAT
7671896 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
* *
7671911 GAA-AAAAGAAAAA
1 AAATAAAATAAAAA
7671924 CCTGCGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:7671922 original size:19 final size:19
Alignment explanation
Indices: 7671881--7671922 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7671871 AAATGGGTTA
*
7671881 AAAATAAAATAAAATAAAT
1 AAAATAAAATAAAATAAAG
*
7671900 AAAATAAAAATGAAA-AAAG
1 AAAAT-AAAATAAAATAAAG
7671919 AAAA
1 AAAA
7671923 ACCTGCGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAATAAAATAAAATAAAG
Found at i:7672777 original size:3 final size:3
Alignment explanation
Indices: 7672745--7672815 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
7672735 GAAACAGAAA
* * * * * * * * *
7672745 AAT AAA AAT AAA AAT AAC AAT AAT AGT AAT AAT GAT GAT GAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7672793 -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
7672816 CTAATTGGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7673213 original size:15 final size:16
Alignment explanation
Indices: 7673193--7673235 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
7673183 TTATGTGGGC
*
7673193 TTTAAGGTTTCAGGA-
1 TTTAAGGTTTCAGAAT
* *
7673208 TTTAAGATTTTAGAAT
1 TTTAAGGTTTCAGAAT
7673224 TTTAAGGTTTCA
1 TTTAAGGTTTCA
7673236 AGGTTTTAGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTAAGGTTTCAGAAT
Found at i:7673451 original size:10 final size:10
Alignment explanation
Indices: 7673438--7673465 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7673428 CTCTCTCTTT
7673438 GTTACTCTCC
1 GTTACTCTCC
7673448 GTTACTCTCC
1 GTTACTCTCC
7673458 GTTACTCT
1 GTTACTCT
7673466 TATACACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.36, G:0.11, T:0.43
Consensus pattern (10 bp):
GTTACTCTCC
Found at i:7675867 original size:8 final size:8
Alignment explanation
Indices: 7675854--7675972 Score: 66
Period size: 8 Copynumber: 14.8 Consensus size: 8
7675844 GAGTTATGTG
7675854 GGTTTTAA
1 GGTTTTAA
7675862 GGTTTT-A
1 GGTTTTAA
* *
7675869 GGGTTTCA
1 GGTTTTAA
7675877 GGATTTTAA
1 GG-TTTTAA
*
7675886 GGTGTT-A
1 GGTTTTAA
*
7675893 GGTTTTTTA
1 GG-TTTTAA
*
7675902 GGTTTTGA
1 GGTTTTAA
*
7675910 GATTTTAA
1 GGTTTTAA
*
7675918 GGTTTTTA
1 GGTTTTAA
*
7675926 GAGTTTTAG
1 G-GTTTTAA
7675935 GGTTTT-A
1 GGTTTTAA
*
7675942 GGATATT-A
1 GG-TTTTAA
7675950 GAGTTTTAA
1 G-GTTTTAA
* *
7675959 AGTTTTAG
1 GGTTTTAA
7675967 GGTTTT
1 GGTTTT
7675973 TTAATCATTA
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
7 11 0.13
8 57 0.67
9 17 0.20
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (8 bp):
GGTTTTAA
Found at i:7675874 original size:16 final size:15
Alignment explanation
Indices: 7675853--7675972 Score: 80
Period size: 16 Copynumber: 7.5 Consensus size: 15
7675843 TGAGTTATGT
7675853 GGGTTTTAAGGTTTTA
1 GGGTTTT-AGGTTTTA
*
7675869 GGGTTTCAGGATTTTA
1 GGGTTTTAGG-TTTTA
* *
7675885 AGGTGTTAGGTTTTTTA
1 GGGTTTTAGG--TTTTA
*
7675902 -GGTTTTGAGATTTTAA
1 GGGTTTT-AGGTTTT-A
*
7675918 GGTTTTTAGAGTTTTA
1 GGGTTTTAG-GTTTTA
*
7675934 GGGTTTTAGGATATTA
1 GGGTTTTAGG-TTTTA
* *
7675950 GAGTTTTAAAGTTTTA
1 GGGTTTT-AGGTTTTA
7675966 GGGTTTT
1 GGGTTTT
7675973 TTAATCATTA
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
15 8 0.10
16 55 0.68
17 18 0.22
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (15 bp):
GGGTTTTAGGTTTTA
Found at i:7675888 original size:24 final size:24
Alignment explanation
Indices: 7675855--7675972 Score: 105
Period size: 24 Copynumber: 4.9 Consensus size: 24
7675845 AGTTATGTGG
*
7675855 GTTTTAAGGTTTTAGGGTTTCAG-
1 GTTTTAAGGTTTTAGGGTTTTAGA
* *
7675878 GATTTTAAGGTGTTAGGTTTTTTAG-
1 G-TTTTAAGGTTTTAGG-GTTTTAGA
* * *
7675903 GTTTTGAGATTTTAAGGTTTTTAGA
1 GTTTTAAGGTTTT-AGGGTTTTAGA
* * *
7675928 GTTTTAGGGTTTTAGGATATTAGA
1 GTTTTAAGGTTTTAGGGTTTTAGA
*
7675952 GTTTTAAAGTTTTAGGGTTTT
1 GTTTTAAGGTTTTAGGGTTTT
7675973 TTAATCATTA
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
23 1 0.01
24 56 0.74
25 19 0.25
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.51
Consensus pattern (24 bp):
GTTTTAAGGTTTTAGGGTTTTAGA
Found at i:7675933 original size:32 final size:32
Alignment explanation
Indices: 7675854--7675972 Score: 93
Period size: 32 Copynumber: 3.7 Consensus size: 32
7675844 GAGTTATGTG
* *
7675854 GGTTTTAAGGTTTTAGGGTTTCAGGATTTTAA
1 GGTTTTTAGGTTTTAGGTTTTCAGGATTTTAA
* *
7675886 GG-TGTTAGGTTTTTTAGGTTTTGA-GATTTTAA
1 GGTTTTTAGG--TTTTAGGTTTTCAGGATTTTAA
*
7675918 GGTTTTTAGAGTTTTAGGGTTTT-AGGATATT-A
1 GGTTTTTAG-GTTTTA-GGTTTTCAGGATTTTAA
* *
7675950 GAGTTTTAAAGTTTTAGGGTTTT
1 G-GTTTTTAGGTTTTA-GGTTTT
7675973 TTAATCATTA
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
31 5 0.07
32 33 0.46
33 33 0.46
34 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (32 bp):
GGTTTTTAGGTTTTAGGTTTTCAGGATTTTAA
Found at i:7678928 original size:10 final size:11
Alignment explanation
Indices: 7678913--7678945 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
7678903 ACTTTAGGTA
7678913 TTTGTTTTT-T
1 TTTGTTTTTAT
7678923 TTTGTTTTTAT
1 TTTGTTTTTAT
7678934 TTTG-TTTTAT
1 TTTGTTTTTAT
7678944 TT
1 TT
7678946 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (11 bp):
TTTGTTTTTAT
Found at i:7679443 original size:27 final size:28
Alignment explanation
Indices: 7679395--7679447 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
7679385 TATTACCAAC
*
7679395 ATATTAAGATAATTTAAGAAAATTTTTA
1 ATATTAAAATAATTTAAGAAAATTTTTA
*
7679423 ATATTAAAAT-ATTTAATAAAATTTT
1 ATATTAAAATAATTTAAGAAAATTTT
7679448 AAAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
ATATTAAAATAATTTAAGAAAATTTTTA
Found at i:7679451 original size:20 final size:18
Alignment explanation
Indices: 7679426--7679464 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
7679416 ATTTTTAATA
7679426 TTAAAATATTTAATAAAATT
1 TTAAAATATTT--TAAAATT
7679446 TTAAAATATTTTAAAATT
1 TTAAAATATTTTAAAATT
7679464 T
1 T
7679465 GAATAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATATTTTAAAATT
Found at i:7679453 original size:28 final size:28
Alignment explanation
Indices: 7679395--7679455 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
7679385 TATTACCAAC
* *
7679395 ATATTAAGATAATTTAAGAAAATTTTTA
1 ATATTAAAATAATTTAAGAAAATTTTAA
*
7679423 ATATTAAAAT-ATTTAATAAAATTTTAAA
1 ATATTAAAATAATTTAAGAAAATTTT-AA
7679451 ATATT
1 ATATT
7679456 TTAAAATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (28 bp):
ATATTAAAATAATTTAAGAAAATTTTAA
Found at i:7682101 original size:17 final size:17
Alignment explanation
Indices: 7682061--7682102 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
7682051 CCCAATTAGC
*
7682061 TAGTTTTTATTTATTTT
1 TAGTTTTTATTAATTTT
*
7682078 TATTTTTTATTAATTTT
1 TAGTTTTTATTAATTTT
*
7682095 TGGTTTTT
1 TAGTTTTT
7682103 TGTTGATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (17 bp):
TAGTTTTTATTAATTTT
Found at i:7686741 original size:7 final size:7
Alignment explanation
Indices: 7686730--7686776 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
7686720 TTATTTTTTT
7686730 ATTTTCA
1 ATTTTCA
*
7686737 GTTTTCA
1 ATTTTCA
7686744 ATTTTCA
1 ATTTTCA
*
7686751 AGTTTCA
1 ATTTTCA
7686758 ATTTTCA
1 ATTTTCA
*
7686765 ATTTTCG
1 ATTTTCA
7686772 ATTTT
1 ATTTT
7686777 GATTTTCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.57
Consensus pattern (7 bp):
ATTTTCA
Found at i:7686842 original size:18 final size:18
Alignment explanation
Indices: 7686807--7686856 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
7686797 TTTTTTCATT
*
7686807 TTGATTTT-CTTT-TTTA
1 TTGATTTTATTTTATTTA
*
7686823 TT-ATTTATGTTTTATTTA
1 TTGATTT-TATTTTATTTA
7686841 TTGATTTTATTTTATT
1 TTGATTTTATTTTATT
7686857 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 3 0.11
18 14 0.50
19 4 0.14
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (18 bp):
TTGATTTTATTTTATTTA
Found at i:7686996 original size:22 final size:21
Alignment explanation
Indices: 7686949--7687019 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
7686939 CTATGGTTTA
*
7686949 TTATGAT-TTTTGCATGATTTAA
1 TTATGATATTTTGCATGA--TAT
7686971 TTATGATATTATTGCATGATAT
1 TTATGATATT-TTGCATGATAT
7686993 TTATGA-ATTTT-CTATGATAT
1 TTATGATATTTTGC-ATGATAT
7687013 TT-TGATA
1 TTATGATA
7687020 CTAATTTTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 4 0.09
20 12 0.27
21 3 0.07
22 15 0.34
23 2 0.05
24 8 0.18
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.54
Consensus pattern (21 bp):
TTATGATATTTTGCATGATAT
Found at i:7694328 original size:19 final size:20
Alignment explanation
Indices: 7694279--7694320 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7694269 TTTATTTTCA
*
7694279 ATTTTCAATTTTTGATTTTG
1 ATTTTCTATTTTTGATTTTG
7694299 ATTTTCTATTTTTG-TTTT-
1 ATTTTCTATTTTTGATTTTG
7694317 ATTT
1 ATTT
7694321 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 4 0.19
20 13 0.62
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (20 bp):
ATTTTCTATTTTTGATTTTG
Found at i:7694438 original size:19 final size:21
Alignment explanation
Indices: 7694408--7694446 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
7694398 ATTTGCATGA
7694408 TATTTCCTATGGTTT-TTATT
1 TATTTCCTATGGTTTATTATT
7694428 TATTT-CTATGGTTTATTAT
1 TATTTCCTATGGTTTATTAT
7694447 GATTTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (21 bp):
TATTTCCTATGGTTTATTATT
Found at i:7694451 original size:19 final size:20
Alignment explanation
Indices: 7694409--7694451 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7694399 TTTGCATGAT
*
7694409 ATTTCCTATGGTTTTTATTT
1 ATTTCCTATGGTTTTTATTG
7694429 ATTT-CTATGGTTTATTA-TG
1 ATTTCCTATGGTTT-TTATTG
7694448 ATTT
1 ATTT
7694452 TTTGGCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.63
Consensus pattern (20 bp):
ATTTCCTATGGTTTTTATTG
Found at i:7694495 original size:22 final size:21
Alignment explanation
Indices: 7694467--7694515 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7694457 CAAGATTTAA
7694467 TTATGATATTGTTGC-ATGATAT
1 TTATGATATT-TT-CTATGATAT
7694489 TTATGAT-TTTTCTATGATAT
1 TTATGATATTTTCTATGATAT
7694509 TT-TGATA
1 TTATGATA
7694516 ATACTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 2 0.08
22 7 0.28
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (21 bp):
TTATGATATTTTCTATGATAT
Found at i:7699950 original size:25 final size:25
Alignment explanation
Indices: 7699921--7699970 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7699911 TAATTAGAGT
* *
7699921 CTAATTATAATAATATTAATATTCA
1 CTAATAATAAAAATATTAATATTCA
7699946 CTAATAATAAAAATATTAATATTCA
1 CTAATAATAAAAATATTAATATTCA
7699971 AATATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (25 bp):
CTAATAATAAAAATATTAATATTCA
Found at i:7699979 original size:23 final size:24
Alignment explanation
Indices: 7699927--7699981 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
7699917 GAGTCTAATT
*
7699927 ATAATAATATTAATATTCACTAATA
1 ATAAAAATATTAATATTCAC-AATA
7699952 ATAAAAATATTAATATTCA-AATA
1 ATAAAAATATTAATATTCACAATA
*
7699975 TTAAAAA
1 ATAAAAA
7699982 GATGCAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 10 0.36
25 18 0.64
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAAAAATATTAATATTCACAATA
Found at i:7700360 original size:19 final size:20
Alignment explanation
Indices: 7700322--7700360 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7700312 ATTTATTTTT
* *
7700322 TATATTTAATATGAATAAAA
1 TATATTCAATATGAAAAAAA
7700342 TATATTCAA-ATGAAAAAAA
1 TATATTCAATATGAAAAAAA
7700361 ATAATATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
TATATTCAATATGAAAAAAA
Found at i:7704450 original size:3 final size:3
Alignment explanation
Indices: 7704429--7704491 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
7704419 CATTTCAGTT
* ** *
7704429 TAA TAT TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7704476 TAA -AA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
7704492 AAAAAGGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:7704495 original size:15 final size:15
Alignment explanation
Indices: 7704448--7704496 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
7704438 TAATTTTAAT
* *
7704448 AATAATAATAATAAT
1 AATAATAATAAAAAA
7704463 AATAATAATATATTAAAA
1 AATAATAATA-A--AAAA
7704481 AATAATAATAAAAAA
1 AATAATAATAAAAAA
7704496 A
1 A
7704497 GGAAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 15 0.52
16 1 0.03
17 1 0.03
18 12 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATAATAAAAAA
Found at i:7705629 original size:3 final size:3
Alignment explanation
Indices: 7705621--7705645 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7705611 AAAATGCTTA
7705621 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
7705646 GAATTTTTTT
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:7706001 original size:23 final size:23
Alignment explanation
Indices: 7705951--7705994 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7705941 CTAAAATTTG
* *
7705951 AAATCCTTTAAATCCAAACCCCA
1 AAATCCCTAAAATCCAAACCCCA
7705974 AAATCCCTAAAATCCAAACCC
1 AAATCCCTAAAATCCAAACCC
7705995 TTAAATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (23 bp):
AAATCCCTAAAATCCAAACCCCA
Found at i:7713618 original size:88 final size:88
Alignment explanation
Indices: 7713493--7713677 Score: 228
Period size: 88 Copynumber: 2.1 Consensus size: 88
7713483 AGACTTTCAA
* ** * * * *
7713493 GCATAATTTTGATTCGCGATGTTGTCTTGATCTATTCTTTATTTCTCAACTTACGGTGTTATCCT
1 GCATAATTTTGATTCACGATGTTGTCCCGATCGATTCTTTATTTATCAACTTACAGTGTTATCCC
*
7713558 AGTCGATTC-GTTAAGACCTCTGG
66 AGTCGATTCTG-TAAGACCTCCGG
* * * ** *
7713581 GCATAATTTTGATTTACGGTGTTGTCCCGATCGATTCTTTATTTATCGACTTGTAGTGTTGTCCC
1 GCATAATTTTGATTCACGATGTTGTCCCGATCGATTCTTTATTTATCAACTTACAGTGTTATCCC
7713646 AGTCGATTCTGTAAGACCTCCGG
66 AGTCGATTCTGTAAGACCTCCGG
7713669 GCATAATTT
1 GCATAATTT
7713678 CTAAGACCTC
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 81 0.99
89 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (88 bp):
GCATAATTTTGATTCACGATGTTGTCCCGATCGATTCTTTATTTATCAACTTACAGTGTTATCCC
AGTCGATTCTGTAAGACCTCCGG
Found at i:7713682 original size:22 final size:22
Alignment explanation
Indices: 7713657--7713700 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7713647 GTCGATTCTG
7713657 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGGGCATAATTTC
7713679 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGGGCATAATTTC
7713701 AATTCGCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATTTC
Found at i:7713804 original size:23 final size:23
Alignment explanation
Indices: 7713772--7713838 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
7713762 ATCCCAGTCA
7713772 ATTCTCTAAGACCTCCGGGCATG
1 ATTCTCTAAGACCTCCGGGCATG
* ** * *
7713795 ATTCTATAAGATTTTCAGGCATG
1 ATTCTCTAAGACCTCCGGGCATG
7713818 ATT-TCTAAGACCTCCGGGCAT
1 ATTCTCTAAGACCTCCGGGCAT
7713839 AATTTCGATT
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (23 bp):
ATTCTCTAAGACCTCCGGGCATG
Found at i:7713837 original size:22 final size:22
Alignment explanation
Indices: 7713776--7713844 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
7713766 CAGTCAATTC
7713776 TCTAAGACCTCCGGGCATGATT
1 TCTAAGACCTCCGGGCATGATT
* ** * *
7713798 CTATAAGATTTTCAGGCATGATT
1 -TCTAAGACCTCCGGGCATGATT
*
7713821 TCTAAGACCTCCGGGCATAATT
1 TCTAAGACCTCCGGGCATGATT
7713843 TC
1 TC
7713845 GATTTGCAGT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (22 bp):
TCTAAGACCTCCGGGCATGATT
Found at i:7714099 original size:110 final size:109
Alignment explanation
Indices: 7713813--7714107 Score: 333
Period size: 110 Copynumber: 2.7 Consensus size: 109
7713803 AGATTTTCAG
* * *
7713813 GCATGATTTCTAAGACCTCCGGGCATAATTTCGATTTGCAGTGTTGTCCCAATCGATTCATTATT
1 GCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCCCAATCGATTC-TTATT
* *
7713878 TCTCAACTTGCAGTATTGTACTAGTCGATTCTATAAGACCTCCGA
65 TTTTAACTTGCAGTATTGTACTAGTCGATTCTATAAGACCTCCGA
* * * * * * **
7713923 GCATGATTTCTAAGACGTCCAGACAAAAATTCGATTCACGGTGTTATCCTGATCGATTTCTTATT
1 GCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCCCAATCGA-TTCTTATT
* *
7713988 TTTTAACTTGC-GATGTTGTCAC-AGTCGATTTTATAAGACCTCCGA
65 TTTTAACTTGCAG-TATTGT-ACTAGTCGATTCTATAAGACCTCCGA
* * ** * *
7714033 GTATGATTTCTAAGACCTTCGGGCATAATTTTAATTCGCGGTGTTCTCCCAATTGATTCTTAATT
1 GCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCCCAATCGATTCTT-ATT
*
7714098 TTTTGACTTG
65 TTTTAACTTG
7714108 TGGTTTAGTC
Statistics
Matches: 151, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
109 6 0.04
110 140 0.93
111 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (109 bp):
GCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGCGGTGTTATCCCAATCGATTCTTATTT
TTTAACTTGCAGTATTGTACTAGTCGATTCTATAAGACCTCCGA
Found at i:7714379 original size:16 final size:16
Alignment explanation
Indices: 7714355--7714394 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
7714345 AAATTATAGT
*
7714355 TTAATCTCAATTGTTG
1 TTAACCTCAATTGTTG
7714371 TTAACCTCAATTGTTG
1 TTAACCTCAATTGTTG
7714387 TTAACCTC
1 TTAACCTC
7714395 TAACTAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (16 bp):
TTAACCTCAATTGTTG
Found at i:7714599 original size:102 final size:102
Alignment explanation
Indices: 7714457--7714965 Score: 582
Period size: 102 Copynumber: 5.0 Consensus size: 102
7714447 GGTTAACATC
* * * *
7714457 ATTTT-TGACTTGCGATTTAATCC-CAGTCTCTTTATTCTCTAATTCGCAGTTCAATCCCGATCT
1 ATTTTCTGACTCGCGGTTTAATCCTGA-TCTCTTTATTCTCTAATTCGTAGTTCAATCCCGATCT
* * * *
7714520 TTTTAATTCAAAATCGCAGTTTAATCTCAATTGTTATT
65 CTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTT
*
7714558 ATTTTCTGACTCGCGGTTTAATCCTGATCTCTTTATGCTCTAATTC--ACGATTCAATCCCGATC
1 ATTTTCTGACTCGCGGTTTAATCCTGATCTCTTTATTCTCTAATTCGTA-G-TTCAATCCCGATC
7714621 TCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTT
64 TCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTT
* *** * * ** * *
7714660 ATTTTCTGATTTATGGTTTAATCCTGGTCTCTTTATTCTCTGATTTATGGTTTAATCCCGATCTC
1 ATTTTCTGACTCGCGGTTTAATCCTGATCTCTTTATTCTCTAATTCGTAGTTCAATCCCGATCTC
**
7714725 TTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTT
66 TTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTT
* * * * ** * *
7714762 ATTTTTTGACTCGCGATTTAATCCCGATCTCTTTATTCT-TCATTTCGTTCTTCAATCTCAATCT
1 ATTTTCTGACTCGCGGTTTAATCCTGATCTCTTTATTCTCT-AATTCGTAGTTCAATCCCGATCT
**
7714826 CTTTAATTCAAAATTATAGTTTAATCTCGATTGTTGTT
65 CTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTT
* * **
7714864 ATTTTCTGACTCGTGGTTTAAT-CTCGGTCT-TCTTATTCTCTAATTCGTAGTTCAATGTCGATC
1 ATTTTCTGACTCGCGGTTTAATCCT-GATCTCT-TTATTCTCTAATTCGTAGTTCAATCCCGATC
* *
7714927 TCTTTAATTTAAAATCGTAATTTAATCTCGATTGTTGTT
64 TCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTT
7714966 GTTAACCCCT
Statistics
Matches: 345, Mismatches: 53, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
100 1 0.00
101 9 0.03
102 332 0.96
103 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.47
Consensus pattern (102 bp):
ATTTTCTGACTCGCGGTTTAATCCTGATCTCTTTATTCTCTAATTCGTAGTTCAATCCCGATCTC
TTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTT
Found at i:7714702 original size:34 final size:34
Alignment explanation
Indices: 7714658--7714728 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
7714648 TCGATTGTTG
* * *
7714658 TTATTTTCTGATTTATGGTTTAATCCTGGTCTCT
1 TTATTCTCTGATTTATGGTTTAATCCCGATCTCT
7714692 TTATTCTCTGATTTATGGTTTAATCCCGATCTCT
1 TTATTCTCTGATTTATGGTTTAATCCCGATCTCT
7714726 TTA
1 TTA
7714729 ATTCAAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.54
Consensus pattern (34 bp):
TTATTCTCTGATTTATGGTTTAATCCCGATCTCT
Found at i:7714828 original size:204 final size:204
Alignment explanation
Indices: 7714472--7714965 Score: 645
Period size: 204 Copynumber: 2.4 Consensus size: 204
7714462 TGACTTGCGA
** * *
7714472 TTTAATCCCAGTCTCTTTATTCTCTAATTCGCAGTTCAATCCCGATCTTTTTAATTCAAAATCGC
1 TTTAATCCTGGTCTCTTTATTCTCTAATTCGTAGTTCAATCCCGATCTCTTTAATTCAAAATCGC
* * * *
7714537 AGTTTAATCTCAATTGTTATTATTTTCTGACTCGCGGTTTAATCCTGATCTCTTTATGCTCTAAT
66 AGTTTAATCTCGATTGTTGTTATTTTCTGACTCGCGATTTAATCCCGATCTCTTTATGCTCTAAT
* *
7714602 TCACGATTCAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTCT
131 TCACGATTCAATCCCAATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTCT
* *
7714667 GATTTATGG
196 GACTCATGG
* ** * * *
7714676 TTTAATCCTGGTCTCTTTATTCTCTGATTTATGGTTTAATCCCGATCTCTTTAATTCAAAATCAC
1 TTTAATCCTGGTCTCTTTATTCTCTAATTCGTAGTTCAATCCCGATCTCTTTAATTCAAAATCGC
* * *
7714741 AGTTTAATCTCGATTGTTGTTATTTTTTGACTCGCGATTTAATCCCGATCTCTTTATTCT-TCAT
66 AGTTTAATCTCGATTGTTGTTATTTTCTGACTCGCGATTTAATCCCGATCTCTTTATGCTCTAAT
* * * *
7714805 T-TCGTTCTTCAATCTCAATCTCTTTAATTCAAAATTATAGTTTAATCTCGATTGTTGTTATTTT
131 TCACG--ATTCAATCCCAATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTT
*
7714869 CTGACTCGTGG
194 CTGACTCATGG
** *
7714880 TTTAAT-CTCGGTCT-TCTTATTCTCTAATTCGTAGTTCAATGTCGATCTCTTTAATTTAAAATC
1 TTTAATCCT-GGTCTCT-TTATTCTCTAATTCGTAGTTCAATCCCGATCTCTTTAATTCAAAATC
* *
7714943 GTAATTTAATCTCGATTGTTGTT
64 GCAGTTTAATCTCGATTGTTGTT
7714966 GTTAACCCCT
Statistics
Matches: 249, Mismatches: 37, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
202 2 0.01
203 7 0.03
204 240 0.96
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (204 bp):
TTTAATCCTGGTCTCTTTATTCTCTAATTCGTAGTTCAATCCCGATCTCTTTAATTCAAAATCGC
AGTTTAATCTCGATTGTTGTTATTTTCTGACTCGCGATTTAATCCCGATCTCTTTATGCTCTAAT
TCACGATTCAATCCCAATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTCT
GACTCATGG
Found at i:7715162 original size:174 final size:174
Alignment explanation
Indices: 7714864--7715260 Score: 562
Period size: 174 Copynumber: 2.3 Consensus size: 174
7714854 GATTGTTGTT
* * * * *
7714864 ATTTTCTGACTCGTGGTTTAATCTCGGTCTTC-TTATTCTCTAATTCGTAGTTCAATGTCGATCT
1 ATTTTCTGACTCGCGGTTTAATCTCGGT-TTCTTTATTCTCTGATTCATGGTTCAATCTCGATCT
** * * * *
7714928 CTTTAATTTAAAATCGTAATTTAATCTCGATTGTTGTTGTTAACCCCTGACTTATGGTTTATTCT
65 CTTTAATTTAAAATCACAATTTAATCTCAATTATTGTTGTTAACCCCTAACTTATGGTTTATTCC
* * *
7714993 CGGTCTTCTTATTTTTTGACTTGTGATTCAATCTAAGTTAACGTC
130 CAGTCTTCTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTC
*
7715038 ATTTTCTGACTCGCGGTTTAATCTCGGTTTCTTTATTCTCTGATTCATGGTTCAATCTCGATCTT
1 ATTTTCTGACTCGCGGTTTAATCTCGGTTTCTTTATTCTCTGATTCATGGTTCAATCTCGATCTC
* * *
7715103 TTTAATTTAAAATCACAGTTTAATCTCAATTATTGTTGTTAACCTCTAACTTGTGGTTTATTCCC
66 TTTAATTTAAAATCACAATTTAATCTCAATTATTGTTGTTAACCCCTAACTTATGGTTTATTCCC
7715168 AGTCTTCTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTC
131 AGTCTTCTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTC
* * * * * *
7715212 ATTTTTTGATTCACGGTTTAATCCCGATCTCTTTATTCTCTGATTCATG
1 ATTTTCTGACTCGCGGTTTAATCTCGGTTTCTTTATTCTCTGATTCATG
7715261 ATTTAATCAT
Statistics
Matches: 198, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
173 3 0.02
174 195 0.98
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (174 bp):
ATTTTCTGACTCGCGGTTTAATCTCGGTTTCTTTATTCTCTGATTCATGGTTCAATCTCGATCTC
TTTAATTTAAAATCACAATTTAATCTCAATTATTGTTGTTAACCCCTAACTTATGGTTTATTCCC
AGTCTTCTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTC
Found at i:7715299 original size:34 final size:33
Alignment explanation
Indices: 7715218--7715308 Score: 103
Period size: 34 Copynumber: 2.7 Consensus size: 33
7715208 CGTCATTTTT
* * *
7715218 TGATTCACGGTTTAATCCCGATCTCTTTATTCTC
1 TGATTCA-GATTTAATCCTGATCTCGTTATTCTC
*
7715252 TGATTCATGATTTAATCATGATCTCGTTATTCTC
1 TGATTCA-GATTTAATCCTGATCTCGTTATTCTC
7715286 TGATTTGCA-ATTTAATCCTGATC
1 TGA-TT-CAGATTTAATCCTGATC
7715309 CTTAGTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 45 0.92
35 2 0.04
36 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (33 bp):
TGATTCAGATTTAATCCTGATCTCGTTATTCTC
Found at i:7715670 original size:15 final size:15
Alignment explanation
Indices: 7715650--7715679 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7715640 TTCATTTCAA
*
7715650 TTTAATATTAATAAT
1 TTTAATAATAATAAT
7715665 TTTAATAATAATAAT
1 TTTAATAATAATAAT
7715680 AATAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:7717139 original size:16 final size:16
Alignment explanation
Indices: 7717118--7717201 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
7717108 GTTTGAGTTT
7717118 TCTAAAACCCTTAAAA
1 TCTAAAACCCTTAAAA
* *
7717134 TCTAAAATCCTTTAAA
1 TCTAAAACCCTTAAAA
*
7717150 TC-CAAACCC--AAAA
1 TCTAAAACCCTTAAAA
* *
7717163 TCCAAAATTCC-TAAAA
1 TCTAAAA-CCCTTAAAA
*
7717179 T-TCAAACCCTT-AAA
1 TCTAAAACCCTTAAAA
7717193 T-TAAAACCC
1 TCTAAAACCC
7717202 CAAACCTCAA
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
13 5 0.09
14 16 0.30
15 11 0.21
16 21 0.40
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (16 bp):
TCTAAAACCCTTAAAA
Found at i:7717198 original size:29 final size:30
Alignment explanation
Indices: 7717122--7717198 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
7717112 GAGTTTTCTA
*
7717122 AAACCCTTAAAATCTAAAATCCTTTAAATCC
1 AAACCCTT-AAATCTAAAATCCTTAAAATCC
* * *
7717153 AAACCC-AAAATCCAAAATTCC-TAAAATTC
1 AAACCCTTAAATCTAAAA-TCCTTAAAATCC
7717182 AAACCCTTAAAT-TAAAA
1 AAACCCTTAAATCTAAAA
7717199 CCCCAAACCT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 25 0.66
30 7 0.18
31 6 0.16
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (30 bp):
AAACCCTTAAATCTAAAATCCTTAAAATCC
Found at i:7719348 original size:15 final size:15
Alignment explanation
Indices: 7719325--7719358 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
7719315 GTAGAAAGAT
7719325 GAAAGTAAGA-AAAA
1 GAAAGTAAGATAAAA
7719339 GAAAGATAAGATAAAA
1 GAAAG-TAAGATAAAA
7719355 GAAA
1 GAAA
7719359 TTGTCCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 5 0.28
16 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (15 bp):
GAAAGTAAGATAAAA
Found at i:7719542 original size:12 final size:12
Alignment explanation
Indices: 7719525--7719549 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7719515 TTGTCTTTTT
7719525 CTGCTACAGTGA
1 CTGCTACAGTGA
7719537 CTGCTACAGTGA
1 CTGCTACAGTGA
7719549 C
1 C
7719550 ATTTTATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (12 bp):
CTGCTACAGTGA
Found at i:7731480 original size:19 final size:19
Alignment explanation
Indices: 7731458--7731496 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7731448 ATTAAAAAAA
7731458 GAAAAGAAAA-AGAAAATAG
1 GAAAA-AAAATAGAAAATAG
*
7731477 GAAAAAAAATAGAAAGTAG
1 GAAAAAAAATAGAAAATAG
7731496 G
1 G
7731497 GTGGCTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (19 bp):
GAAAAAAAATAGAAAATAG
Found at i:7732984 original size:15 final size:15
Alignment explanation
Indices: 7732929--7733048 Score: 91
Period size: 16 Copynumber: 7.9 Consensus size: 15
7732919 CTAGGATTCT
7732929 AAAACCCATAAAATCC
1 AAAACCC-TAAAATCC
* *
7732945 AAAATCCCTTAAATTC
1 AAAA-CCCTAAAATCC
*
7732961 AAACCCCCTAAAATCC
1 AAA-ACCCTAAAATCC
7732977 AAAACCCTAAAATCC
1 AAAACCCTAAAATCC
* * *
7732992 -CAACCTTTAAAT-C
1 AAAACCCTAAAATCC
* * * *
7733005 TAGACCCCAAAATTC
1 AAAACCCTAAAATCC
*
7733020 AAAACCCCTAAAATCT
1 AAAA-CCCTAAAATCC
7733036 AAAACCCTAAAAT
1 AAAACCCTAAAAT
7733049 TCGAATCTTC
Statistics
Matches: 80, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
13 1 0.01
14 16 0.20
15 23 0.29
16 37 0.46
17 3 0.04
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (15 bp):
AAAACCCTAAAATCC
Found at i:7733495 original size:15 final size:15
Alignment explanation
Indices: 7733471--7733500 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7733461 TTTTATTTAC
7733471 TATTTGATAATAAAA
1 TATTTGATAATAAAA
*
7733486 TATTTTATAATAAAA
1 TATTTGATAATAAAA
7733501 AAGAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
TATTTGATAATAAAA
Found at i:7740330 original size:22 final size:21
Alignment explanation
Indices: 7740294--7740379 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 21
7740284 TTGAGATTTG
*
7740294 TAAGACCTCCAGGCATAATCTC
1 TAAGACCTCCGGGCATAA-CTC
* * *
7740316 TAAGACTTCCGGGCACAACTT
1 TAAGACCTCCGGGCATAACTC
7740337 TCAAGACCTCCGGGCATAACCTC
1 T-AAGACCTCCGGGCATAA-CTC
* *
7740360 TAA-AGCCTTCGGGCACAACT
1 TAAGA-CCTCCGGGCATAACT
7740380 TTCAAGATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
21 6 0.12
22 43 0.83
23 3 0.06
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (21 bp):
TAAGACCTCCGGGCATAACTC
Found at i:7740361 original size:44 final size:44
Alignment explanation
Indices: 7740295--7740386 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
7740285 TGAGATTTGT
*
7740295 AAGACCTCCAGGCATAATCTCT-AAGACTTCCGGGCACAACTTTC
1 AAGACCTCCAGGCATAACCTCTAAAGACTT-CGGGCACAACTTTC
* *
7740339 AAGACCTCCGGGCATAACCTCTAAAGCCTTCGGGCACAACTTTC
1 AAGACCTCCAGGCATAACCTCTAAAGACTTCGGGCACAACTTTC
7740383 AAGA
1 AAGA
7740387 TTTTTGGGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 38 0.86
45 6 0.14
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (44 bp):
AAGACCTCCAGGCATAACCTCTAAAGACTTCGGGCACAACTTTC
Found at i:7740620 original size:89 final size:89
Alignment explanation
Indices: 7740467--7740635 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
7740457 TTGATATTTG
*
7740467 TAAGACCTCCAGGCATAATTTTGATTCACAGTGTTATCCCGATCGATTCTTGAGTTTTATACTTG
1 TAAGACCTCCAGGCATAATTTTGATTCACAGTGTTATCCCGATCAATTCTTGAGTTTTATACTTG
*
7740532 CGGTGTTGTCCCAATCAATTTTTT
66 CGGTGTTATCCCAATCAATTTTTT
*** * *
7740556 TAAGACCTCCAGGCATAATTTTGATTCGTGGTGTTATCCCGATCAATTCTTTA-TTTTTTGACTT
1 TAAGACCTCCAGGCATAATTTTGATTCACAGTGTTATCCCGATCAATTCTTGAGTTTTAT-ACTT
7740620 GCGGTGTTATCCCAAT
65 GCGGTGTTATCCCAAT
7740636 TGATTCTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 5 0.07
89 67 0.93
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (89 bp):
TAAGACCTCCAGGCATAATTTTGATTCACAGTGTTATCCCGATCAATTCTTGAGTTTTATACTTG
CGGTGTTATCCCAATCAATTTTTT
Found at i:7740670 original size:22 final size:22
Alignment explanation
Indices: 7740644--7740687 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7740634 ATTGATTCTA
* *
7740644 TAAGACCTTCGGGCATGATTTC
1 TAAGACCTCCGGGCATAATTTC
7740666 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGGGCATAATTTC
7740688 GATTCACAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATTTC
Found at i:7740749 original size:110 final size:110
Alignment explanation
Indices: 7740556--7741196 Score: 677
Period size: 110 Copynumber: 5.9 Consensus size: 110
7740546 TCAATTTTTT
* * * *
7740556 TAAGACCTCCAGGCATAATTTTGATTCGTGGTGTTATCCCGATCAATTCTTTATTTTTTGACTTG
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTA
* * * * *
7740621 CGGTGTTATCCCAATTGATTCTATAAGACCTTCGGGCATGATTTC
66 CGGTGTTATCCTAGTCGATTCTGTAAGACCTTCGAGCATGATTTC
* * * *
7740666 TAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTAC-TTATTTTTTGACTT
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATT-CTTTATTTTTTGACTT
* * * *
7740730 ACGGTGTGATCCTAGTTGATTCTGTAAGACCTCCAAGCATGATTTC
65 ACGGTGTTATCCTAGTCGATTCTGTAAGACCTTCGAGCATGATTTC
*** * *
7740776 TAAGACCTCTATGCATAATTTTGATTCGCGGTTTTATTCCGATCGATTCTTTATTTTTTGACTTA
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTA
* *
7740841 CGATGTTAT-CTCAATCGATTCTGTAAG----T-----A--ATTTC
66 CGGTGTTATCCT-AGTCGATTCTGTAAGACCTTCGAGCATGATTTC
* * * * * * *
7740875 GAAGACCTCCGGGCATAATTTTGATTTGCGGTGTTATCCTGATCGATTCCTTATCTTTTAACTTG
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTA
* * * *
7740940 TGGTGTTATCCCAGTCGATTCTGTAAGACCTCCG-GACATGATTTT
66 CGGTGTTATCCTAGTCGATTCTGTAAGACCTTCGAG-CATGATTTC
* * * *
7740985 TAAGACCTCCGAGCACAATTTTGATTCGCGATGTTATCCCGATCGATTCTTGATTTTTTGACTTA
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTA
* *
7741050 CGGTGTTGTCCTAGTCGATTTTGTAAGA-CTTCTGAGCATGATTTC
66 CGGTGTTATCCTAGTCGATTCTGTAAGACCTTC-GAGCATGATTTC
* * * * *
7741095 TAAGACCTCCGAGCATAAATTCGATT-ACGGTGTTATCCCGATCGATTCTTTATTTTTTGATTTA
1 TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTA
* * * *
7741159 CGATGTTGTCC-CGTCGATTCTGTAAGACCTCCGAGCAT
66 CGGTGTTATCCTAGTCGATTCTGTAAGACCTTCGAGCAT
7741197 AAATTTGATT
Statistics
Matches: 438, Mismatches: 75, Indels: 38
0.79 0.14 0.07
Matches are distributed among these distances:
99 79 0.18
100 1 0.00
101 1 0.00
108 21 0.05
109 53 0.12
110 281 0.64
111 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (110 bp):
TAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTTGACTTA
CGGTGTTATCCTAGTCGATTCTGTAAGACCTTCGAGCATGATTTC
Found at i:7740791 original size:22 final size:22
Alignment explanation
Indices: 7740754--7740796 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7740744 GTTGATTCTG
*
7740754 TAAGACCTCCAAGCATGATTTC
1 TAAGACCTCCAAGCATAATTTC
* *
7740776 TAAGACCTCTATGCATAATTT
1 TAAGACCTCCAAGCATAATTT
7740797 TGATTCGCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (22 bp):
TAAGACCTCCAAGCATAATTTC
Found at i:7740947 original size:99 final size:99
Alignment explanation
Indices: 7740788--7740966 Score: 252
Period size: 99 Copynumber: 1.8 Consensus size: 99
7740778 AGACCTCTAT
* * * * *
7740788 GCATAATTTTGATTCGCGGTTTTATTCCGATCGATTCTTTATTTTTTGACTTACGATGTTATCTC
1 GCATAATTTTGATTCGCGGTGTTATTCCGATCGATTCCTTATCTTTTAACTTACGATGTTATCCC
7740853 AATCGATTCTGTAAGTAATTTCGAAGACCTCCGG
66 AATCGATTCTGTAAGTAATTTCGAAGACCTCCGG
* ** *
7740887 GCATAATTTTGATTTGCGGTGTTA-TCCTGATCGATTCCTTATCTTTTAACTTGTGGTGTTATCC
1 GCATAATTTTGATTCGCGGTGTTATTCC-GATCGATTCCTTATCTTTTAACTTACGATGTTATCC
*
7740951 CAGTCGATTCTGTAAG
65 CAATCGATTCTGTAAG
7740967 ACCTCCGGAC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
98 3 0.04
99 66 0.96
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (99 bp):
GCATAATTTTGATTCGCGGTGTTATTCCGATCGATTCCTTATCTTTTAACTTACGATGTTATCCC
AATCGATTCTGTAAGTAATTTCGAAGACCTCCGG
Found at i:7741029 original size:209 final size:209
Alignment explanation
Indices: 7740661--7741196 Score: 564
Period size: 209 Copynumber: 2.5 Consensus size: 209
7740651 TTCGGGCATG
* * *
7740661 ATTTCTAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTACTTATTTTTTG
1 ATTTCGAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTACTTATCTTTTA
* * *
7740726 ACTTACGGTGTGATCCTAGTTGATTCTGTAAGACCTCCAAGCATGATTTCTAAGACCTCTATGCA
66 ACTTACGGTGTGATCCCAGTCGATTCTGTAAGACCTCCAAGCATGATTTCTAAGACCTCGATGCA
* * * * *
7740791 TAATTTTGATTCGCGGTTTTATTCCGATCGATTCTTTATTTTTTGACTTACGATGTTATCTCAAT
131 CAATTTTGATTCGCGATGTTATCCCGATCGATTCTTGATTTTTTGACTTACGATGTTATCTCAAT
7740856 CGATTCTGTAAGTA
196 CGATTCTGTAAGTA
* ** * *
7740870 ATTTCGAAGACCTCCGGGCATAATTTTGATTTGCGGTGTTATCCTGATCGATTCCTTATCTTTTA
1 ATTTCGAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTACTTATCTTTTA
** * * *
7740935 ACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTCC-GGACATGATTTTTAAGACCTCCGA-G
66 ACTTACGGTGTGATCCCAGTCGATTCTGTAAGACCTCCAAG-CATGATTTCTAAGACCT-CGATG
* *
7740998 CACAATTTTGATTCGCGATGTTATCCCGATCGATTCTTGATTTTTTGACTTACGGTGTTGTC-CT
129 CACAATTTTGATTCGCGATGTTATCCCGATCGATTCTTGATTTTTTGACTTACGATGTTATCTC-
* *
7741062 AGTCGATTTTGTAAGACTTCTGAGCA
193 AATCGATTCTGTAAG-----T----A
* * * * * *
7741088 TGATTTCTAAGACCTCCGAGCATAAATTCGATT-ACGGTGTTATCCCGATCGATT-CTTTATTTT
1 --ATTTCGAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTAC-TTATCTT
* * * *
7741151 TTGATTTACGATGTTG-TCCC-GTCGATTCTGTAAGACCTCCGAGCAT
63 TTAACTTACGGTG-TGATCCCAGTCGATTCTGTAAGACCTCCAAGCAT
7741197 AAATTTGATT
Statistics
Matches: 271, Mismatches: 39, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
208 2 0.01
209 175 0.65
210 2 0.01
214 1 0.00
218 25 0.09
219 38 0.14
220 28 0.10
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (209 bp):
ATTTCGAAGACCTCCGGGCATAATTTCGATTCACAGTGTTATCCTGATCGATTACTTATCTTTTA
ACTTACGGTGTGATCCCAGTCGATTCTGTAAGACCTCCAAGCATGATTTCTAAGACCTCGATGCA
CAATTTTGATTCGCGATGTTATCCCGATCGATTCTTGATTTTTTGACTTACGATGTTATCTCAAT
CGATTCTGTAAGTA
Found at i:7741043 original size:319 final size:302
Alignment explanation
Indices: 7740462--7741394 Score: 951
Period size: 319 Copynumber: 3.0 Consensus size: 302
7740452 AGATTTTGAT
* * * * * *
7740462 ATTTGTAAGACCTCC-AGGCATAATTTTGATTCACAGTGTTATCCCGATCGATTCTTGAGTTTTA
1 ATTTCTAAGACCTCCGA-GCATAAATTCGATT-ACGGTGTTATCCCGATCGATTCTTTA-TTTTT
* * * * * * *
7740526 T-ACTTGCGGTGTTGTCCCAATCAATTTTTTTAAGACCTCCAGGCATAATTTTGATTCGTGGTGT
63 TGACTTACGATGTTAT-CCAATCGA-TTCTGTAAGACCTCCGGGCATAATTTTGATTCGTGGTGT
* * * * * * *
7740590 TATCCCGATCAATTCTTTATTTTTTGACTTGCGGTGTTATCCCAATTGATTCTATAAGACCTTCG
126 TATCCAGATCGATTCCTTA-TTTTTAACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACC-TCG
* * * * *
7740655 GGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCAC-AGTGTTATCCTGATCGATTACTTA
189 GACATGATTTTTAAGACCTCCGAGCATAATTTTGATTCACGA-TGTTATCCCGATCGATT-CTTA
*
7740719 TTTTTTGACTTACGGTGTGATCCTAGTTGATTCTGTAAGACCTCCAAGCATG
252 TTTTTTGACTTACGGTGTG-TCCTAGTCGATTCTGTAAGACCTCCAAGCATG
* * * * * *
7740771 ATTTCTAAGACCT-CTATGCATAATTTTGATTCGCGGTTTTATTCCGATCGATTCTTTATTTTTT
1 ATTTCTAAGACCTCCGA-GCATAAATTCGATT-ACGGTGTTATCCCGATCGATTCTTTATTTTTT
7740835 GACTTACGATGTTATCTCAATCGATTCTGTAAGTAATTTCGAAGACCTCCGGGCATAATTTTGAT
64 GACTTACGATGTTATC-CAATCGATTC--T--G-----T--AAGACCTCCGGGCATAATTTTGAT
* * * *
7740900 TTGCGGTGTTATCCTGATCGATTCCTTATCTTTTAACTTGTGGTGTTATCCCAGTCGATTCTGTA
117 TCGTGGTGTTATCCAGATCGATTCCTTAT-TTTTAACTTGCGGTGTTATCCCAGTCGATTCTGTA
* *
7740965 AGACCTCCGGACATGATTTTTAAGACCTCCGAGCACAATTTTGATTCGCGATGTTATCCCGATCG
181 AGACCT-CGGACATGATTTTTAAGACCTCCGAGCATAATTTTGATTCACGATGTTATCCCGATCG
* * **
7741030 ATTCTTGATTTTTTGACTTACGGTGTTGTCCTAGTCGATTTTGTAAGACTTCTGAGCATG
245 ATTCTT-ATTTTTTGACTTACGGTG-TGTCCTAGTCGATTCTGTAAGACCTCCAAGCATG
7741090 ATTTCTAAGACCTCCGAGCATAAATTCGATTACGGTGTTATCCCGATCGATTCTTTATTTTTTGA
1 ATTTCTAAGACCTCCGAGCATAAATTCGATTACGGTGTTATCCCGATCGATTCTTTATTTTTTGA
* * ** * *
7741155 TTTACGATGTTGTCCCGTCGATTCTGTAAGACCTCCGAGCATAAATTTGATTCGTGGTGTTATCC
66 CTTACGATGTTATCCAATCGATTCTGTAAGACCTCCGGGCATAATTTTGATTCGTGGTGTTATCC
* * * *
7741220 AGATCGATTCCTTAGTTTTTCAACTTGCGATGTTGTCTCAGTCGATTCTGTAAGACCTCAGAGCA
131 AGATCGATTCCTTA-TTTTT-AACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTCGGA-CA
* * * * * *
7741285 TGATTTTTAAGACCTCC-AGACATAAATTTGATTTACGGTGTTGTTCCGATCAATTCTTTATTTT
193 TGATTTTTAAGACCTCCGAG-CATAATTTTGATTCACGATGTTATCCCGATCGATTC-TTATTTT
* * ** *
7741349 TTGACTTATGGTGTTGTCCCAACCGATTCTGTAAGA-CTCCAGGCAT
256 TTGACTTACGGTG-TGTCCTAGTCGATTCTGTAAGACCTCCAAGCAT
7741395 AAATTCGATT
Statistics
Matches: 525, Mismatches: 74, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
306 62 0.12
307 117 0.22
308 12 0.02
309 66 0.13
310 1 0.00
313 1 0.00
315 1 0.00
317 9 0.02
318 48 0.09
319 203 0.39
320 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (302 bp):
ATTTCTAAGACCTCCGAGCATAAATTCGATTACGGTGTTATCCCGATCGATTCTTTATTTTTTGA
CTTACGATGTTATCCAATCGATTCTGTAAGACCTCCGGGCATAATTTTGATTCGTGGTGTTATCC
AGATCGATTCCTTATTTTTAACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTCGGACATGA
TTTTTAAGACCTCCGAGCATAATTTTGATTCACGATGTTATCCCGATCGATTCTTATTTTTTGAC
TTACGGTGTGTCCTAGTCGATTCTGTAAGACCTCCAAGCATG
Found at i:7741226 original size:87 final size:88
Alignment explanation
Indices: 7741095--7741285 Score: 262
Period size: 89 Copynumber: 2.2 Consensus size: 88
7741085 GCATGATTTC
* * ** *
7741095 TAAGACCTCCGAGCATAAATTCGATTACGGTGTTATCCCGATCGATTCTTTA-TTTTTTGATTTA
1 TAAGACCTCCGAGCATAAATTCGATTACGGTGTTATCCAGATCGATTCCTTAGTTTTTCAACTTA
*
7741159 CGATGTTGTC-CCGTCGATTCTG
66 CGATGTTGTCTCAGTCGATTCTG
*
7741181 TAAGACCTCCGAGCATAAATTTGATT-CGTGGTGTTATCCAGATCGATTCCTTAGTTTTTCAACT
1 TAAGACCTCCGAGCATAAATTCGATTAC--GGTGTTATCCAGATCGATTCCTTAGTTTTTCAACT
*
7741245 TGCGATGTTGTCTCAGTCGATTCTG
64 TACGATGTTGTCTCAGTCGATTCTG
*
7741270 TAAGACCTCAGAGCAT
1 TAAGACCTCCGAGCAT
7741286 GATTTTTAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
85 1 0.01
86 25 0.27
87 22 0.24
88 18 0.20
89 26 0.28
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (88 bp):
TAAGACCTCCGAGCATAAATTCGATTACGGTGTTATCCAGATCGATTCCTTAGTTTTTCAACTTA
CGATGTTGTCTCAGTCGATTCTG
Found at i:7741507 original size:196 final size:196
Alignment explanation
Indices: 7740985--7741558 Score: 617
Period size: 196 Copynumber: 2.9 Consensus size: 196
7740975 ACATGATTTT
* * * * * * *
7740985 TAAGACCTCCGAGCACAATTTTGATTCGCGATGTTATCCCGATCGATTC-TTGATTTTTTGACTT
1 TAAGACCTCCGAGCATAAATTCGATTCGCGGTGTTATCCAGATCGATTCAAT-AGTTTTTGACTT
* * * * *
7741049 ACGGTGTTGTCCTAGTCGATTTTGTAAGACTTCTGAGCATGATTTCTAAGACCTCCGAGCATAAA
65 ACGATGTTGTCCTAGTCGATTCTGTAAGACCTCAGAGCATGATTTCTAAGACCTCCGGGCATAAA
* * * **
7741114 TTCGA-TTACGGTGTTATCCCGATCGATTCTTTATTTTTTGATTTACGATGTTGTCCCGTCGATT
130 TTCGATTTACGGTGTT-TTCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCACCGATT
7741178 CTG
194 CTG
* * ** *
7741181 TAAGACCTCCGAGCATAAATTTGATTCGTGGTGTTATCCAGATCGATTCCTTAGTTTTTCAACTT
1 TAAGACCTCCGAGCATAAATTCGATTCGCGGTGTTATCCAGATCGATTCAATAGTTTTT-GACTT
* * * *
7741246 GCGATGTTGT-CTCAGTCGATTCTGTAAGACCTCAGAGCATGATTTTTAAGACCTCCAGACATAA
65 ACGATGTTGTCCT-AGTCGATTCTGTAAGACCTCAGAGCATGATTTCTAAGACCTCCGGGCATAA
* * *
7741310 ATTTGATTTACGGTGTTGTTCCGATCAATTCTTTATTTTTTGACTTATGGTGTTGTCCCAACCGA
129 ATTCGATTTACGGTGTT-TTCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCC-ACCGA
7741375 TTCTG
192 TTCTG
* * *
7741380 TAAGA-CTCC-AGGCATAAATTCGATTCGCGGTGTTGTCCCGATC-AGTTCAATA-TTTTTGACC
1 TAAGACCTCCGA-GCATAAATTCGATTCGCGGTGTTATCCAGATCGA-TTCAATAGTTTTTGACT
* * *
7741441 TACGATGTTATCCT-GATCGATTCTGTAAGACCTCCG-GACATGATTTCTAAGACCTTCGGGCAT
64 TACGATGTTGTCCTAG-TCGATTCTGTAAGACCTCAGAG-CATGATTTCTAAGACCTCCGGGCAT
** ** * *
7741504 AAATTCGATTCGCAATGTTATCTCGATCGATTCATTATTTTTTGACTTACGGTGT
127 AAATTCGATTTACGGTGTTTTC-CGATCGATTCTTTATTTTTTGACTTACGGTGT
7741559 CATCCCAATC
Statistics
Matches: 318, Mismatches: 49, Indels: 22
0.82 0.13 0.06
Matches are distributed among these distances:
195 4 0.01
196 146 0.46
197 72 0.23
198 83 0.26
199 13 0.04
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (196 bp):
TAAGACCTCCGAGCATAAATTCGATTCGCGGTGTTATCCAGATCGATTCAATAGTTTTTGACTTA
CGATGTTGTCCTAGTCGATTCTGTAAGACCTCAGAGCATGATTTCTAAGACCTCCGGGCATAAAT
TCGATTTACGGTGTTTTCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCACCGATTCT
G
Found at i:7743332 original size:15 final size:15
Alignment explanation
Indices: 7743230--7743401 Score: 100
Period size: 16 Copynumber: 11.2 Consensus size: 15
7743220 CTAGGATTCT
7743230 AAAACCCTTAAAATCC
1 AAAACCC-TAAAATCC
*
7743246 AAAATCCCTTAAATCC
1 AAAA-CCCTAAAATCC
* **
7743262 AAACCCCCTAAAATTT
1 AAA-ACCCTAAAATCC
*
7743278 GAAACCCTAAAA-CC
1 AAAACCCTAAAATCC
* * *
7743292 TTTAAACTCTTAAATCC
1 --AAAACCCTAAAATCC
*
7743309 AAACCCCCTAAAATCC
1 AAA-ACCCTAAAATCC
7743325 AAAACCCTAAAATTCC
1 AAAACCCTAAAA-TCC
* *
7743341 --AACCTTTAAAT-C
1 AAAACCCTAAAATCC
* * * *
7743353 TAGACCCCAAAATTC
1 AAAACCCTAAAATCC
*
7743368 AAAACCCCTAAAATCT
1 AAAA-CCCTAAAATCC
7743384 AAAACCCTAAAATCC
1 AAAACCCTAAAATCC
7743399 AAA
1 AAA
7743402 TCTTCAAAAT
Statistics
Matches: 116, Mismatches: 29, Indels: 23
0.69 0.17 0.14
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 15 0.13
15 34 0.29
16 60 0.52
17 5 0.04
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (15 bp):
AAAACCCTAAAATCC
Found at i:7744072 original size:12 final size:12
Alignment explanation
Indices: 7744055--7744085 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
7744045 TGTTATAGAA
7744055 TTTTAAAATAAT
1 TTTTAAAATAAT
7744067 TTTTAAAATAAT
1 TTTTAAAATAAT
7744079 TCTTTAA
1 T-TTTAA
7744086 CTTTAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:7747296 original size:31 final size:32
Alignment explanation
Indices: 7747261--7747338 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 32
7747251 TTACAAATGA
* *
7747261 TATCAAATGAAATC-CACATGCGTTAATATTT
1 TATCAAATGAAATCAAACATGCATTAATATTT
* * * *
7747292 TATCAAATAAAAACAAACGTGTATTAATATTT
1 TATCAAATGAAATCAAACATGCATTAATATTT
*
7747324 TACCAAATGAAATCA
1 TATCAAATGAAATCA
7747339 TATTTAATTA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 12 0.32
32 25 0.68
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (32 bp):
TATCAAATGAAATCAAACATGCATTAATATTT
Found at i:7749002 original size:25 final size:23
Alignment explanation
Indices: 7748957--7749002 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
7748947 ATATCACAAA
*
7748957 TTTTTTTTTAAAATGTATTATTC
1 TTTTTTTTTAAAATATATTATTC
*
7748980 TTTTTTATTATAAAATATTTTAT
1 TTTTTT-TT-TAAAATATATTAT
7749003 CATCAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 2 0.11
25 11 0.58
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTTTTTAAAATATATTATTC
Found at i:7749448 original size:15 final size:15
Alignment explanation
Indices: 7749430--7749621 Score: 131
Period size: 16 Copynumber: 12.5 Consensus size: 15
7749420 TTGAAGATTC
7749430 GGATTTTAGGGTTTT
1 GGATTTTAGGGTTTT
7749445 GGATTTTAGGGGTTTT
1 GGATTTTA-GGGTTTT
* * *
7749461 GAATTTT-GGGGTCT
1 GGATTTTAGGGTTTT
* * * *
7749475 AGATTTAAAGG-TTG
1 GGATTTTAGGGTTTT
7749489 GGATTTTAGGGTTTT
1 GGATTTTAGGGTTTT
* *
7749504 GGATTTTTGGGGGTTT
1 GGA-TTTTAGGGTTTT
* *
7749520 GGATTTAAGGGTTTAAA
1 GGATTTTAGGGTTT--T
*
7749537 GG-TTTTAGGGTTTC
1 GGATTTTAGGGTTTT
*
7749551 GGATTTTAGGGGGTTT
1 GGATTTTA-GGGTTTT
*
7749567 GGATTTAAGGGATTTT
1 GGATTTTAGGG-TTTT
7749583 GGATTTTAGGGGTTTT
1 GGATTTTA-GGGTTTT
* **
7749599 AGAATCCTAGGGTTTT
1 -GGATTTTAGGGTTTT
7749615 GG-TTTTA
1 GGATTTTA
7749622 AAAAAAGAGG
Statistics
Matches: 134, Mismatches: 32, Indels: 23
0.71 0.17 0.12
Matches are distributed among these distances:
14 23 0.17
15 32 0.24
16 69 0.51
17 10 0.07
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.46
Consensus pattern (15 bp):
GGATTTTAGGGTTTT
Found at i:7749467 original size:31 final size:31
Alignment explanation
Indices: 7749430--7749598 Score: 132
Period size: 31 Copynumber: 5.5 Consensus size: 31
7749420 TTGAAGATTC
7749430 GGATTTTAGGGTTTTGGATTTTAGGGGTTTT
1 GGATTTTAGGGTTTTGGATTTTAGGGGTTTT
* * * * ** *
7749461 GAATTTT-GGGGTCTAGA-TTTAAAGG-TTG
1 GGATTTTAGGGTTTTGGATTTTAGGGGTTTT
* *
7749489 GGATTTTAGGGTTTTGGATTTTTGGGGGTTT
1 GGATTTTAGGGTTTTGGATTTTAGGGGTTTT
* * *
7749520 GGATTTAAGGGTTTAAAGG-TTTTA-GGGTTTC
1 GGATTTTAGGGTTT--TGGATTTTAGGGGTTTT
* * *
7749551 GGATTTTAGGGGGTTTGGATTTAAGGGATTTT
1 GGATTTTA-GGGTTTTGGATTTTAGGGGTTTT
7749583 GGATTTTAGGGGTTTT
1 GGATTTTA-GGGTTTT
7749599 AGAATCCTAG
Statistics
Matches: 103, Mismatches: 27, Indels: 15
0.71 0.19 0.10
Matches are distributed among these distances:
28 8 0.08
29 13 0.13
30 14 0.14
31 37 0.36
32 29 0.28
33 2 0.02
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (31 bp):
GGATTTTAGGGTTTTGGATTTTAGGGGTTTT
Found at i:7749635 original size:21 final size:21
Alignment explanation
Indices: 7749609--7749648 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7749599 AGAATCCTAG
7749609 GGTTTTGGTTTTAAAAAAAGA
1 GGTTTTGGTTTTAAAAAAAGA
* *
7749630 GGTTTTGTTTTTAAGAAAA
1 GGTTTTGGTTTTAAAAAAA
7749649 TGCAAACATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (21 bp):
GGTTTTGGTTTTAAAAAAAGA
Found at i:7759602 original size:17 final size:17
Alignment explanation
Indices: 7759580--7759613 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7759570 CACGCTAAGC
7759580 GCCTCGAGGGAGGTAGG
1 GCCTCGAGGGAGGTAGG
7759597 GCCTCGAGGGAGGTAGG
1 GCCTCGAGGGAGGTAGG
7759614 CAGGGTGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.53, T:0.12
Consensus pattern (17 bp):
GCCTCGAGGGAGGTAGG
Found at i:7761772 original size:7 final size:7
Alignment explanation
Indices: 7761762--7761794 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
7761752 TGATTTTTTT
7761762 ATTTTCA
1 ATTTTCA
7761769 ATTTTCA
1 ATTTTCA
7761776 ATTTTCA
1 ATTTTCA
7761783 ATTTTCA
1 ATTTTCA
7761790 ATTTT
1 ATTTT
7761795 TGATTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTTCA
Found at i:7761827 original size:20 final size:20
Alignment explanation
Indices: 7761757--7761826 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
7761747 TGGTTTGATT
* **
7761757 TTTTTATTTTCAATTTTCAA
1 TTTTGATTTTCAATTTTTGA
*
7761777 TTTTCAATTTTCAATTTTTGA
1 TTTT-GATTTTCAATTTTTGA
*
7761798 TTTTGATTTTCTATTTTTG-
1 TTTTGATTTTCAATTTTTGA
7761817 TTTTGATTTT
1 TTTTGATTTT
7761827 TTGGTTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
19 10 0.23
20 17 0.39
21 17 0.39
ACGTcount: A:0.19, C:0.07, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTGATTTTCAATTTTTGA
Found at i:7761967 original size:16 final size:19
Alignment explanation
Indices: 7761929--7761965 Score: 51
Period size: 17 Copynumber: 2.0 Consensus size: 19
7761919 ATTTGCATGA
7761929 TATTTCCTATGGATTTTATT
1 TATTTCCTATGGA-TTTATT
7761949 TATTT-CTATGG-TTTATT
1 TATTTCCTATGGATTTATT
7761966 ATGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (19 bp):
TATTTCCTATGGATTTATT
Found at i:7761994 original size:24 final size:21
Alignment explanation
Indices: 7761963--7762020 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 21
7761953 TCTATGGTTT
7761963 ATTATGATTTTTTGGCATGATTTA
1 ATTATGATTTTTT-GCATGA--TA
*
7761987 ATTATGATATTGTTGCATGATA
1 ATTATGAT-TTTTTGCATGATA
*
7762009 TTTATGATTTTT
1 ATTATGATTTTT
7762021 CTATGATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 9 0.30
24 14 0.47
25 4 0.13
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTATGATTTTTTGCATGATA
Found at i:7762016 original size:22 final size:21
Alignment explanation
Indices: 7761988--7762036 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7761978 CATGATTTAA
7761988 TTATGATATTGTTGC-ATGATAT
1 TTATGATATT-TT-CTATGATAT
7762010 TTATGAT-TTTTCTATGATAT
1 TTATGATATTTTCTATGATAT
7762030 TT-TGATA
1 TTATGATA
7762037 ATACCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 2 0.08
22 7 0.28
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (21 bp):
TTATGATATTTTCTATGATAT
Found at i:7767827 original size:25 final size:25
Alignment explanation
Indices: 7767799--7767848 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7767789 ATAAGAGAGT
* * *
7767799 CTAATTATAATAATATTAATATTCA
1 CTAATAATAAAAACATTAATATTCA
7767824 CTAATAATAAAAACATTAATATTCA
1 CTAATAATAAAAACATTAATATTCA
7767849 AATATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (25 bp):
CTAATAATAAAAACATTAATATTCA
Found at i:7767857 original size:23 final size:24
Alignment explanation
Indices: 7767813--7767859 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
7767803 TTATAATAAT
7767813 ATTAATATTCACTAATAATAAAAAC
1 ATTAATATTCAC-AATAATAAAAAC
*
7767838 ATTAATATTCA-AATATTAAAAA
1 ATTAATATTCACAATAATAAAAA
7767860 GATGAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (24 bp):
ATTAATATTCACAATAATAAAAAC
Found at i:7770487 original size:16 final size:16
Alignment explanation
Indices: 7770451--7770488 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7770441 ATTTTGGATT
*
7770451 TTTATTTTTATTTTTTA
1 TTTA-TTTTATTTTTCA
7770468 -TTATTTTATTTTTCA
1 TTTATTTTATTTTTCA
7770483 TTTATT
1 TTTATT
7770489 GAATTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTTATTTTTCA
Found at i:7776328 original size:22 final size:22
Alignment explanation
Indices: 7776302--7776367 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
7776292 TGTATATTTA
*
7776302 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7776324 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7776346 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7776368 GAAGATTTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7782206 original size:42 final size:43
Alignment explanation
Indices: 7782154--7782249 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
7782144 CGGATAATTA
*
7782154 ATAATTTAGTAATTAATCATTGAAAACATAAAT-GT-AATTAGT-
1 ATAACTTAGTAA-TAATCATTGAAAAC-TAAATAGTAAATTAGTG
* * *
7782196 ATAACTTAGTAATAATCATTGATAACTTAGTAGTAAATTAGTG
1 ATAACTTAGTAATAATCATTGAAAACTAAATAGTAAATTAGTG
7782239 ATAACTTAGTA
1 ATAACTTAGTA
7782250 GTAAATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 3 0.06
41 15 0.32
42 18 0.38
43 11 0.23
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (43 bp):
ATAACTTAGTAATAATCATTGAAAACTAAATAGTAAATTAGTG
Found at i:7782243 original size:22 final size:22
Alignment explanation
Indices: 7782189--7782303 Score: 117
Period size: 22 Copynumber: 5.3 Consensus size: 22
7782179 ACATAAATGT
*
7782189 AATTAGT-ATAACTTAGTAAT-
1 AATTAGTGATAACTTAGTAGTA
* *
7782209 AATCATTGATAACTTAGTAGTA
1 AATTAGTGATAACTTAGTAGTA
7782231 AATTAGTGATAACTTAGTAGTA
1 AATTAGTGATAACTTAGTAGTA
* * *
7782253 AATAAATGATAATTTAGTAGTA
1 AATTAGTGATAACTTAGTAGTA
* * * **
7782275 AATAATTAATAACTTTTTAGTA
1 AATTAGTGATAACTTAGTAGTA
7782297 AATTAGT
1 AATTAGT
7782304 AACAAATAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 5 0.06
21 12 0.15
22 61 0.78
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.39
Consensus pattern (22 bp):
AATTAGTGATAACTTAGTAGTA
Found at i:7782247 original size:11 final size:10
Alignment explanation
Indices: 7782191--7782249 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 10
7782181 ATAAATGTAA
7782191 TTAGTATAAC
1 TTAGTATAAC
7782201 TTAGTAATAATC
1 TTAGT-ATAA-C
7782213 ATT-G-ATAAC
1 -TTAGTATAAC
*
7782222 TTAGTAGTAAA
1 TTAGTA-TAAC
7782233 TTAGTGATAAC
1 TTAGT-ATAAC
7782244 TTAGTA
1 TTAGTA
7782250 GTAAATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
8 2 0.05
9 2 0.05
10 11 0.28
11 20 0.50
12 3 0.08
13 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (10 bp):
TTAGTATAAC
Found at i:7786354 original size:39 final size:39
Alignment explanation
Indices: 7786300--7786377 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
7786290 CTAAGAGCAC
7786300 TAGGATGATACTTCTTAATGATCCACTTACAGAAAGAAG
1 TAGGATGATACTTCTTAATGATCCACTTACAGAAAGAAG
7786339 TAGGATGATACTTCTTAATGATCCACTTACAGAAAGAAG
1 TAGGATGATACTTCTTAATGATCCACTTACAGAAAGAAG
7786378 GATAATACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (39 bp):
TAGGATGATACTTCTTAATGATCCACTTACAGAAAGAAG
Found at i:7787568 original size:18 final size:18
Alignment explanation
Indices: 7787527--7787569 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7787517 TTTTTTACTC
* *
7787527 TTTTTTTGGTTATTGTGT
1 TTTTTTTGCTTATTGTAT
* *
7787545 TGTTTTTGCTTTTTGTAT
1 TTTTTTTGCTTATTGTAT
7787563 TTTTTTT
1 TTTTTTT
7787570 TTATAATTAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.02, G:0.16, T:0.77
Consensus pattern (18 bp):
TTTTTTTGCTTATTGTAT
Found at i:7793230 original size:15 final size:15
Alignment explanation
Indices: 7793212--7793354 Score: 96
Period size: 16 Copynumber: 9.5 Consensus size: 15
7793202 TGAAGATTCA
7793212 GATTTTAGGGTTTTG
1 GATTTTAGGGTTTTG
7793227 GATTTTAGGGGTTTTG
1 GATTTTA-GGGTTTTG
* * * *
7793243 AATTTT-GGGGTCTA
1 GATTTTAGGGTTTTG
* * *
7793257 GATTTAAAGG-TTGG
1 GATTTTAGGGTTTTG
7793271 GATTTTAGGGTTTTG
1 GATTTTAGGGTTTTG
*
7793286 GATTTTAGGGAGTTTG
1 GATTTTAGGG-TTTTG
* *
7793302 GATTTAAGGGTTTAAAG
1 GATTTTAGGGTTT--TG
*
7793319 G-TTTTAGGGTTTCG
1 GATTTTAGGGTTTTG
* *
7793333 AATTTTAAGGGGTTTG
1 GATTTT-AGGGTTTTG
7793349 G-TTTTA
1 GATTTTA
7793355 AAAAAAAGAG
Statistics
Matches: 97, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
14 20 0.21
15 32 0.33
16 43 0.44
17 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (15 bp):
GATTTTAGGGTTTTG
Found at i:7793240 original size:16 final size:15
Alignment explanation
Indices: 7793212--7793354 Score: 91
Period size: 15 Copynumber: 9.5 Consensus size: 15
7793202 TGAAGATTCA
*
7793212 GATTTTAGGGTTTTG
1 GATTTTAGGGGTTTG
7793227 GATTTTAGGGGTTTTG
1 GATTTTAGGGG-TTTG
* * *
7793243 AATTTT-GGGGTCTA
1 GATTTTAGGGGTTTG
** *
7793257 GA-TTTAAAGGTTGG
1 GATTTTAGGGGTTTG
*
7793271 GATTTTAGGGTTTTG
1 GATTTTAGGGGTTTG
7793286 GATTTTAGGGAGTTTG
1 GATTTTAGGG-GTTTG
*
7793302 GA-TTTAAGGGTTTAAAG
1 GATTTTAGGGGTTT---G
7793319 G-TTTTA-GGGTTTCG
1 GATTTTAGGGGTTT-G
*
7793333 AATTTTAAGGGGTTTG
1 GATTTT-AGGGGTTTG
7793349 G-TTTTA
1 GATTTTA
7793355 AAAAAAAGAG
Statistics
Matches: 98, Mismatches: 19, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
13 3 0.03
14 14 0.14
15 46 0.47
16 23 0.23
17 12 0.12
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (15 bp):
GATTTTAGGGGTTTG
Found at i:7793784 original size:9 final size:9
Alignment explanation
Indices: 7793742--7793784 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
7793732 AAATAATATA
7793742 TAAAAAAATT
1 TAAAAAAA-T
7793752 TAAAAAAAT
1 TAAAAAAAT
*
7793761 TCAAAAAAT
1 TAAAAAAAT
7793770 T--AAAAAT
1 TAAAAAAAT
7793777 TAAAAAAA
1 TAAAAAAA
7793785 ACCTGAACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 7 0.23
9 15 0.50
10 8 0.27
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:7794845 original size:23 final size:24
Alignment explanation
Indices: 7794801--7794849 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
7794791 TTTCTTTTCT
* *
7794801 TTTTTTAATAATTAATAATTATTA
1 TTTTTTAAAAAATAATAATTATTA
*
7794825 TTTTTTAAAAAAT-ATATTTATTA
1 TTTTTTAAAAAATAATAATTATTA
7794848 TT
1 TT
7794850 ATTATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTTTAAAAAATAATAATTATTA
Found at i:7794850 original size:3 final size:3
Alignment explanation
Indices: 7794842--7794868 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7794832 AAAAATATAT
7794842 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
7794869 ATTTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7799643 original size:22 final size:24
Alignment explanation
Indices: 7799593--7799643 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7799583 ATTAGAGTCT
*
7799593 AATATTAATAATATTAATATTCAC
1 AATAATAATAATATTAATATTCAC
7799617 TAATAATAA-AATATTAATATTCA-
1 -AATAATAATAATATTAATATTCAC
7799640 AATA
1 AATA
7799644 TTTAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (24 bp):
AATAATAATAATATTAATATTCAC
Found at i:7799651 original size:24 final size:24
Alignment explanation
Indices: 7799593--7799651 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
7799583 ATTAGAGTCT
*
7799593 AATATTAATAATATTAATATTCAC
1 AATATTAAAAATATTAATATTCAC
*
7799617 TAATAAT-AAAATATTAATATTCA-
1 -AATATTAAAAATATTAATATTCAC
7799640 AATATTTAAAAA
1 AATA-TTAAAAA
7799652 GATGCAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.14
23 1 0.03
24 19 0.66
25 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (24 bp):
AATATTAAAAATATTAATATTCAC
Found at i:7808155 original size:14 final size:15
Alignment explanation
Indices: 7808132--7808162 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7808122 TTTATATAAT
7808132 AATAATAAATAAATA
1 AATAATAAATAAATA
7808147 AATAA-AAATAAATA
1 AATAATAAATAAATA
7808161 AA
1 AA
7808163 ATTGAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:7811690 original size:7 final size:7
Alignment explanation
Indices: 7811678--7811711 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
7811668 TTTTTAAACA
7811678 AAAAAAT
1 AAAAAAT
7811685 AAAAAAT
1 AAAAAAT
7811692 AAAAAAAT
1 -AAAAAAT
*
7811700 AAAAGAT
1 AAAAAAT
7811707 AAAAA
1 AAAAA
7811712 TATTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:7811697 original size:15 final size:15
Alignment explanation
Indices: 7811677--7811711 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7811667 ATTTTTAAAC
7811677 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
*
7811692 AAAAAAATAAAAGAT
1 AAAAAAATAAAAAAT
7811707 AAAAA
1 AAAAA
7811712 TATTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:7811946 original size:12 final size:12
Alignment explanation
Indices: 7811929--7811953 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7811919 AAGGATGATA
7811929 TTCTTAGAAATT
1 TTCTTAGAAATT
7811941 TTCTTAGAAATT
1 TTCTTAGAAATT
7811953 T
1 T
7811954 CAAATGGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTCTTAGAAATT
Found at i:7812421 original size:15 final size:15
Alignment explanation
Indices: 7812401--7812430 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7812391 CCCAAAAAGA
7812401 CATATATTGGTTAAG
1 CATATATTGGTTAAG
7812416 CATATATTGGTTAAG
1 CATATATTGGTTAAG
7812431 TATCTTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
CATATATTGGTTAAG
Found at i:7815821 original size:22 final size:22
Alignment explanation
Indices: 7815763--7815882 Score: 102
Period size: 22 Copynumber: 5.5 Consensus size: 22
7815753 ACATAAATGT
* *
7815763 AATTAGT-ATAACTTAGTAAT-
1 AATTAGTGATAATTTAGTAGTA
* * *
7815783 AATCATTGATAACTTAGTAGTA
1 AATTAGTGATAATTTAGTAGTA
7815805 AATTAGTGATAATTTAGTAGTA
1 AATTAGTGATAATTTAGTAGTA
* *
7815827 AATAAATGATAATTTAGTAGTA
1 AATTAGTGATAATTTAGTAGTA
* * * *
7815849 AATAATTAATAACTTT-TTAGTA
1 AATTAGTGATAA-TTTAGTAGTA
*
7815871 AATTAGTAATAA
1 AATTAGTGATAA
7815883 ATAATAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.06
21 12 0.14
22 64 0.76
23 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (22 bp):
AATTAGTGATAATTTAGTAGTA
Found at i:7815844 original size:44 final size:42
Alignment explanation
Indices: 7815763--7815851 Score: 115
Period size: 44 Copynumber: 2.1 Consensus size: 42
7815753 ACATAAATGT
* *
7815763 AATTAGTATAACTTAGTAATAATCATTGATAACTTAGTAGTA
1 AATTAGTATAACTTAGTAATAATAAATGATAACTTAGTAGTA
* * *
7815805 AATTAGTGATAATTTAGTAGTAAATAAATGATAATTTAGTAGTA
1 AATTAGT-ATAACTTAGTAAT-AATAAATGATAACTTAGTAGTA
7815849 AAT
1 AAT
7815852 AATTAATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 7 0.17
43 11 0.28
44 22 0.55
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.38
Consensus pattern (42 bp):
AATTAGTATAACTTAGTAATAATAAATGATAACTTAGTAGTA
Found at i:7816504 original size:13 final size:14
Alignment explanation
Indices: 7816486--7816523 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7816476 TTATTTTGTT
7816486 TTATTT-TATTTTC
1 TTATTTATATTTTC
*
7816499 TTATTTATCTTTTC
1 TTATTTATATTTTC
*
7816513 TTATATATATT
1 TTATTTATATT
7816524 CATTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTATATTTTC
Found at i:7817547 original size:18 final size:18
Alignment explanation
Indices: 7817506--7817548 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7817496 TTTTTTACTC
* *
7817506 TTTTTTTGGTTATTGTGT
1 TTTTTTTGCTTATTGTAT
* *
7817524 TGTTTTTGCTTTTTGTAT
1 TTTTTTTGCTTATTGTAT
7817542 TTTTTTT
1 TTTTTTT
7817549 ATAATTAGAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.02, G:0.16, T:0.77
Consensus pattern (18 bp):
TTTTTTTGCTTATTGTAT
Found at i:7823209 original size:15 final size:15
Alignment explanation
Indices: 7823191--7823332 Score: 94
Period size: 15 Copynumber: 9.5 Consensus size: 15
7823181 TGAAGATTCA
7823191 GATTTTAGGGTTTTG
1 GATTTTAGGGTTTTG
7823206 GATTTTAGGGGTTTTG
1 GATTTTA-GGGTTTTG
* * * *
7823222 AATTTT-GGGGTCTA
1 GATTTTAGGGTTTTG
* * *
7823236 GATTTAAAGG-TTGG
1 GATTTTAGGGTTTTG
7823250 GATTTTAGGGTTTTG
1 GATTTTAGGGTTTTG
*
7823265 GATTTTAGGGAGTTTG
1 GATTTTAGGG-TTTTG
* **
7823281 GATTTAAGGGTTAAAG
1 GATTTTAGGGTT-TTG
*
7823297 G-TTTTAGGGTTTCG
1 GATTTTAGGGTTTTG
* *
7823311 AATTTTAAGGGGTTTG
1 GATTTT-AGGGTTTTG
7823327 G-TTTTA
1 GATTTTA
7823333 AAAAAAAGAG
Statistics
Matches: 95, Mismatches: 25, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
14 20 0.21
15 40 0.42
16 35 0.37
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (15 bp):
GATTTTAGGGTTTTG
Found at i:7823756 original size:9 final size:9
Alignment explanation
Indices: 7823715--7823756 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
7823705 AAATAATATA
*
7823715 TAAAAAATT
1 TAAAAAAAT
7823724 TAAAAAAAT
1 TAAAAAAAT
*
7823733 TCAAAAAAT
1 TAAAAAAAT
7823742 T--AAAAAT
1 TAAAAAAAT
7823749 TAAAAAAA
1 TAAAAAAA
7823757 AACCTGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 7 0.24
9 22 0.76
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:7824830 original size:3 final size:3
Alignment explanation
Indices: 7824822--7824848 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7824812 AAAAATATAT
7824822 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
7824849 ATTTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7828201 original size:11 final size:11
Alignment explanation
Indices: 7828185--7828216 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7828175 AAATCCCATA
7828185 AGAGATTTGTT
1 AGAGATTTGTT
7828196 AGAGATTTGTT
1 AGAGATTTGTT
*
7828207 TGAGATTTGT
1 AGAGATTTGT
7828217 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:7828328 original size:52 final size:51
Alignment explanation
Indices: 7828241--7828385 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 51
7828231 TGGACAAGAA
* *
7828241 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAG-GGATTCTTAATAGGTAAGTTT
*
7828293 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGA-GAAAGGGATTCTTAATAGGTAAGTTT
* * * *
7828345 GACTTACAGGAGAAGAATTCTAAGAGAGAGAGATTCTTAAT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGGGATTCTTAAT
7828386 GAGCAAGTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
51 14 0.17
52 65 0.77
53 5 0.06
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:7829015 original size:24 final size:23
Alignment explanation
Indices: 7828928--7829019 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 23
7828918 AAGTGGTATC
* * *
7828928 AGAGCTGAAGGTTCGAAACGTAAGA
1 AGAGTTGAA-GTTCGAGACGTGA-A
* *
7828953 AGAGTTGAAGATTCAAGATGTGGAA
1 AGAGTTGAAG-TTCGAGACGT-GAA
*
7828978 AGAGCTGAAGGTTCGAGACGTGAA
1 AGAGTTGAA-GTTCGAGACGTGAA
7829002 AGAGTTGACAGTTCGAGA
1 AGAGTTGA-AGTTCGAGA
7829020 TATGGGAAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
24 19 0.35
25 33 0.61
26 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.20
Consensus pattern (23 bp):
AGAGTTGAAGTTCGAGACGTGAA
Found at i:7829030 original size:49 final size:50
Alignment explanation
Indices: 7828928--7829032 Score: 142
Period size: 49 Copynumber: 2.1 Consensus size: 50
7828918 AAGTGGTATC
*
7828928 AGAGCTGAAGGTTCGAAACGTAAGAAGAGTTGAAGATTCAAGATGTGGAA
1 AGAGCTGAAGGTTCGAAACGTAAGAAGAGTTGAAGATTCAAGATATGGAA
* * * *
7828978 AGAGCTGAAGGTTCGAGACGTGA-AAGAGTTGACAG-TTCGAGATATGGGA
1 AGAGCTGAAGGTTCGAAACGTAAGAAGAGTTGA-AGATTCAAGATATGGAA
7829027 AGAGCT
1 AGAGCT
7829033 TGGTTTGAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 26 0.53
50 23 0.47
ACGTcount: A:0.36, C:0.10, G:0.34, T:0.20
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAACGTAAGAAGAGTTGAAGATTCAAGATATGGAA
Found at i:7829285 original size:11 final size:11
Alignment explanation
Indices: 7829269--7829300 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7829259 AAATCCCATA
7829269 AGAGATTTGTT
1 AGAGATTTGTT
7829280 AGAGATTTGTT
1 AGAGATTTGTT
*
7829291 TGAGATTTGT
1 AGAGATTTGT
7829301 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:7829412 original size:52 final size:51
Alignment explanation
Indices: 7829325--7829469 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 51
7829315 TGGACAAGAA
* *
7829325 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAG-GGATTCTTAATAGGTAAGTTT
*
7829377 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGA-GAAAGGGATTCTTAATAGGTAAGTTT
* * * *
7829429 GACTTACAGGAGAAGAATTCTAAGAGAGAGAGATTCTTAAT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGGGATTCTTAAT
7829470 GAGCAAGTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
51 14 0.17
52 65 0.77
53 5 0.06
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGGGATTCTTAATAGGTAAGTTT
Found at i:7836696 original size:19 final size:20
Alignment explanation
Indices: 7836646--7836689 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
7836636 TTTATTTTCA
*
7836646 ATTTTCAATTTTTGATTTTG
1 ATTTTCTATTTTTGATTTTG
7836666 ATTTTCTATTTTTG-TTTTG
1 ATTTTCTATTTTTGATTTTG
7836685 ATTTT
1 ATTTT
7836690 TTGTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (20 bp):
ATTTTCTATTTTTGATTTTG
Found at i:7836709 original size:4 final size:4
Alignment explanation
Indices: 7836694--7836724 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
7836684 GATTTTTTGT
*
7836694 TTTA TATA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
7836725 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:7836836 original size:16 final size:19
Alignment explanation
Indices: 7836798--7836834 Score: 51
Period size: 17 Copynumber: 2.0 Consensus size: 19
7836788 ATTTGCATGA
7836798 TATTTCCTATGGATTTTATT
1 TATTTCCTATGGA-TTTATT
7836818 TATTT-CTATGG-TTTATT
1 TATTTCCTATGGATTTATT
7836835 ATGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (19 bp):
TATTTCCTATGGATTTATT
Found at i:7836863 original size:24 final size:21
Alignment explanation
Indices: 7836832--7836889 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 21
7836822 TCTATGGTTT
7836832 ATTATGATTTTTTGGCATGATTTA
1 ATTATGATTTTTT-GCATGA--TA
*
7836856 ATTATGATATTGTTGCATGATA
1 ATTATGAT-TTTTTGCATGATA
*
7836878 TTTATGATTTTT
1 ATTATGATTTTT
7836890 CTATGATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 9 0.30
24 14 0.47
25 4 0.13
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTATGATTTTTTGCATGATA
Done.