Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 27 of 193
Found at i:8808520 original size:3 final size:3
Alignment explanation
Indices: 8808512--8808540 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8808502 TGTAGCACCC
8808512 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
8808541 GAATAGAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:8810761 original size:15 final size:14
Alignment explanation
Indices: 8810739--8810778 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
8810729 ATTTTTAATT
8810739 AAAATAATATAAAA
1 AAAATAATATAAAA
*
8810753 AAGAATAATTTTAAAA
1 AA-AATAA-TATAAAA
8810769 AAAATAATAT
1 AAAATAATAT
8810779 TATACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAATAATATAAAA
Found at i:8810984 original size:16 final size:16
Alignment explanation
Indices: 8810963--8811018 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 16
8810953 GTTTTGATGA
8810963 TATTTTTAATTATTTT
1 TATTTTTAATTATTTT
8810979 TATTTTTAATTAATGTATTTT
1 TA--TTT--TTAAT-TATTTT
8811000 TATTTTTAATTATTTT
1 TATTTTTAATTATTTT
8811016 TAT
1 TAT
8811019 AAGCTCATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 11 0.31
17 5 0.14
18 3 0.09
19 3 0.09
20 5 0.14
21 8 0.23
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TATTTTTAATTATTTT
Found at i:8810985 original size:40 final size:37
Alignment explanation
Indices: 8810930--8811018 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 37
8810920 TATTGTTTCA
*
8810930 AATTTTTTTTATTTTTAATTAATGT-TTTGATGATATTTTT
1 AATTATTTTTATTTTTAATTAATGTATTT--T--TATTTTT
8810970 AATTATTTTTATTTTTAATTAATGTATTTTTATTTTT
1 AATTATTTTTATTTTTAATTAATGTATTTTTATTTTT
8811007 AATTATTTTTAT
1 AATTATTTTTAT
8811019 AAGCTCATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
37 19 0.40
39 1 0.02
40 24 0.51
41 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (37 bp):
AATTATTTTTATTTTTAATTAATGTATTTTTATTTTT
Found at i:8810997 original size:21 final size:21
Alignment explanation
Indices: 8810935--8811011 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
8810925 TTTCAAATTT
8810935 TTTTTATTTTTAATTAATGT-
1 TTTTTATTTTTAATTAATGTA
* *
8810955 TTTGATGATATTT--TTAAT-TA
1 TTT--TTATTTTTAATTAATGTA
8810975 TTTTTATTTTTAATTAATGTA
1 TTTTTATTTTTAATTAATGTA
8810996 TTTTTATTTTTAATTA
1 TTTTTATTTTTAATTA
8811012 TTTTTATAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 6 0.13
19 1 0.02
20 16 0.34
21 18 0.38
22 6 0.13
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTATTTTTAATTAATGTA
Found at i:8811106 original size:16 final size:16
Alignment explanation
Indices: 8811087--8811125 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8811077 GAGTTAAAAA
* *
8811087 TAAAAATTACAATAAT
1 TAAAAATAAAAATAAT
8811103 TAAAAATAAAAATAAT
1 TAAAAATAAAAATAAT
*
8811119 TTAAAAT
1 TAAAAAT
8811126 GTCATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAATAAAAATAAT
Found at i:8812844 original size:22 final size:22
Alignment explanation
Indices: 8812816--8812869 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
8812806 GATAAGTCTG
8812816 TCTCGAGACAATTGTGTATTTA
1 TCTCGAGACAATTGTGTATTTA
8812838 TCTCGAGACAATTGTGTATTTA
1 TCTCGAGACAATTGTGTATTTA
*
8812860 TCTTGAGACA
1 TCTCGAGACA
8812870 TTATGTTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (22 bp):
TCTCGAGACAATTGTGTATTTA
Found at i:8814927 original size:15 final size:14
Alignment explanation
Indices: 8814907--8814950 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
8814897 GATAGTATTT
8814907 ATTAATTTAATTTTA
1 ATTAA-TTAATTTTA
8814922 ATTAATTAATTTTCTA
1 ATTAATTAA-TTT-TA
*
8814938 ATTAAATAATTTT
1 ATTAATTAATTTT
8814951 CTCAACTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.19
15 11 0.42
16 10 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTAATTAATTTTA
Found at i:8814941 original size:16 final size:16
Alignment explanation
Indices: 8814907--8814952 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
8814897 GATAGTATTT
8814907 ATTAATTTAA-TTT-TA
1 ATTAA-TTAATTTTCTA
8814922 ATTAATTAATTTTCTA
1 ATTAATTAATTTTCTA
*
8814938 ATTAAATAATTTTCT
1 ATTAATTAATTTTCT
8814953 CAACTCGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 4 0.14
15 8 0.29
16 16 0.57
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATTAATTTTCTA
Found at i:8823456 original size:104 final size:104
Alignment explanation
Indices: 8823271--8823917 Score: 810
Period size: 104 Copynumber: 6.2 Consensus size: 104
8823261 TAAAGCTAGC
* *
8823271 TGATTTAAGATCACAGCCTCCGATTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCT
1 TGATTTAAGATCGCAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTAACAGCT
* * * * * *
8823336 CGTTGACTTACGTTCACAGTTGATTTTACAAAGGCTTGC
66 CGCTGACCTACGTTCACAGCTGATTTTACTAAGGCTCGT
* * * *
8823375 TGATTTAAGATCGTAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAAATCTTAACAACT
1 TGATTTAAGATCGCAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTAACAGCT
* * * *
8823440 CGCTGACCTACTTTCACAACTGATTTTACTTAGGCTTGT
66 CGCTGACCTACGTTCACAGCTGATTTTACTAAGGCTCGT
* * *
8823479 TGATTTAAGATCGCAGCCTCTGATTATTTGATTTAGTTGATTTAAGATCGCAACTCCTAACAGCT
1 TGATTTAAGATCGCAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTAACAGCT
** * * * *
8823544 TACTAACCTACTTTCACAGCTGATTTTACTAAGACTCGC
66 CGCTGACCTACGTTCACAGCTGATTTTACTAAGGCTCGT
* ** * * *
8823583 TAATTTAAGATCATAACCTCCGATTATTTGAGTTAGCTGATTTAAGATTGCAACTTCTAACAGCT
1 TGATTTAAGATCGCAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTAACAGCT
* *
8823648 CGCTGACCTACGTTCATAGTTGATTTTACTAAGGCTCGT
66 CGCTGACCTACGTTCACAGCTGATTTTACTAAGGCTCGT
* * * * * **
8823687 TGATATAAGATCACAACCTTCGATTATTTGAGTTAGTTGATTTAAGATTACAACTCCTAACAGCT
1 TGATTTAAGATCGCAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTAACAGCT
* * * *
8823752 CACTGACCTATGTTCATAACTGATTTTACTAAGGCTCGT
66 CGCTGACCTACGTTCACAGCTGATTTTACTAAGGCTCGT
* * * * *
8823791 TGATTTAAGATCGCAACTTCCAATTACTTGAGTTAGCTGATTTAAGATCGCAACTCCTAATAGCT
1 TGATTTAAGATCGCAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTAACAGCT
* * *
8823856 CGCTGACCTACGTTCACAGCTGATATTACTAAGGTTAGT
66 CGCTGACCTACGTTCACAGCTGATTTTACTAAGGCTCGT
*
8823895 TGATTTAA-ATAGCAGCCTCCGAT
1 TGATTTAAGATCGCAGCCTCCGAT
8823918 GAGCTCGCTG
Statistics
Matches: 465, Mismatches: 78, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
103 11 0.02
104 454 0.98
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (104 bp):
TGATTTAAGATCGCAGCCTCCGATTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTAACAGCT
CGCTGACCTACGTTCACAGCTGATTTTACTAAGGCTCGT
Found at i:8824750 original size:19 final size:19
Alignment explanation
Indices: 8824728--8824769 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8824718 TGAATTTGAA
**
8824728 TTTTTG-AATTTTTTTAAT
1 TTTTTGAAATTTTAATAAT
8824746 TTTTTGAAATTTTAATAAT
1 TTTTTGAAATTTTAATAAT
8824765 TTTTT
1 TTTTT
8824770 AATTGAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTTGAAATTTTAATAAT
Found at i:8832670 original size:17 final size:16
Alignment explanation
Indices: 8832648--8832706 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
8832638 TTCTTGACTT
8832648 TTAACCTTCCATCTTCC
1 TTAACCTTCC-TCTTCC
*
8832665 TTAACCTTCCT-TGACC
1 TTAACCTTCCTCT-TCC
*
8832681 TTTAACCTTTCGTCTTCC
1 -TTAACC-TTCCTCTTCC
8832699 TTAACCTT
1 TTAACCTT
8832707 TCATATTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 22 0.63
18 6 0.17
19 1 0.03
ACGTcount: A:0.17, C:0.36, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAACCTTCCTCTTCC
Found at i:8832685 original size:34 final size:34
Alignment explanation
Indices: 8832640--8832706 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
8832630 TTTCATCTTT
*
8832640 CTTGACTTTTAACCTTCCATCTTCCTTAACCTTC
1 CTTGACCTTTAACCTTCCATCTTCCTTAACCTTC
* *
8832674 CTTGACCTTTAACCTTTCGTCTTCCTTAACCTT
1 CTTGACCTTTAACCTTCCATCTTCCTTAACCTT
8832707 TCATATTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.16, C:0.34, G:0.04, T:0.45
Consensus pattern (34 bp):
CTTGACCTTTAACCTTCCATCTTCCTTAACCTTC
Found at i:8833232 original size:33 final size:34
Alignment explanation
Indices: 8833171--8833234 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
8833161 TATAATATTA
* * *
8833171 TGCTTGCAAGTTTTGTTAAGGGATTACTTATGTT
1 TGCTTGAAAGTTTTGTTAAAGGACTACTTATGTT
8833205 TGCTTGAAAG-TTTGTTAAAGGACTACTTAT
1 TGCTTGAAAGTTTTGTTAAAGGACTACTTAT
8833235 ATTTATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (34 bp):
TGCTTGAAAGTTTTGTTAAAGGACTACTTATGTT
Found at i:8834356 original size:9 final size:9
Alignment explanation
Indices: 8834330--8834370 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
8834320 TTATATTATG
8834330 TTTTAAACTA
1 TTTTAAA-TA
8834340 TTTATAAATA
1 TTT-TAAATA
8834350 TTTTAAATA
1 TTTTAAATA
*
8834359 TTTTAAAAA
1 TTTTAAATA
8834368 TTT
1 TTT
8834371 ATGTGATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 17 0.59
10 8 0.28
11 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTTAAATA
Found at i:8838148 original size:34 final size:34
Alignment explanation
Indices: 8838110--8838175 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
8838100 TTTCATCTCC
*
8838110 CTTGACTTTTAACCTTCCATCTTTCTTAACCTCT
1 CTTGACCTTTAACCTTCCATCTTTCTTAACCTCT
* * *
8838144 CTTGACCTTTAACTTTCCATTTTTTTTAACCT
1 CTTGACCTTTAACCTTCCATCTTTCTTAACCT
8838176 TTCATATTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.03, T:0.50
Consensus pattern (34 bp):
CTTGACCTTTAACCTTCCATCTTTCTTAACCTCT
Found at i:8841177 original size:2 final size:2
Alignment explanation
Indices: 8841170--8841239 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
8841160 AGATACCAGA
8841170 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8841212 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8841240 GGCAAACACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8841934 original size:18 final size:18
Alignment explanation
Indices: 8841911--8841953 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8841901 AAAATATGTT
8841911 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTCAA
*
8841929 TTAATTAAAAATTTTCAA
1 TTAATTAAAAAATTTCAA
8841947 TTAATTA
1 TTAATTA
8841954 CACATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTCAA
Found at i:8854885 original size:3 final size:3
Alignment explanation
Indices: 8854877--8854904 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8854867 GACTATTTGT
8854877 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8854905 AGAACATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8857291 original size:19 final size:19
Alignment explanation
Indices: 8857267--8857304 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8857257 GATGAATATA
8857267 ACTTTTTGAAGACTAATTC
1 ACTTTTTGAAGACTAATTC
8857286 ACTTTTTGAAGACTAATTC
1 ACTTTTTGAAGACTAATTC
8857305 CTATCACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (19 bp):
ACTTTTTGAAGACTAATTC
Found at i:8862935 original size:40 final size:40
Alignment explanation
Indices: 8862868--8863069 Score: 206
Period size: 40 Copynumber: 5.0 Consensus size: 40
8862858 GATGTTGAAT
* *
8862868 CAATACTAATATACTGAACTGACAGTGACACTGTAAACATTG
1 CAATACT-AT-TACTGAACTGGCAGTGACACTGTAAACACTG
* * *
8862910 CAATACTATTACTAAACTGGTAGTGACACTATAAACACTG
1 CAATACTATTACTGAACTGGCAGTGACACTGTAAACACTG
*
8862950 CAATACTATCACTGAACTGGCAGTGACACTGTAAACACTG
1 CAATACTATTACTGAACTGGCAGTGACACTGTAAACACTG
** * * * * * * * *
8862990 TGATATTGTGACTGAACTGACAATGACATTGTAAATACCG
1 CAATACTATTACTGAACTGGCAGTGACACTGTAAACACTG
* * * *
8863030 AAACACTATAACTGAACTAGCAGTGACACTGTAAACACTG
1 CAATACTATTACTGAACTGGCAGTGACACTGTAAACACTG
8863070 TTAGGTTACC
Statistics
Matches: 129, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
40 120 0.93
41 2 0.02
42 7 0.05
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (40 bp):
CAATACTATTACTGAACTGGCAGTGACACTGTAAACACTG
Found at i:8866902 original size:24 final size:24
Alignment explanation
Indices: 8866875--8866931 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
8866865 TGTCTGTATC
* *
8866875 TGTATTTGAACCTATGTATGCATT
1 TGTATTTGAACCTATATATGCATA
* * * *
8866899 TGTATCTAAATCTGTATATGCATA
1 TGTATTTGAACCTATATATGCATA
8866923 TGTATTTGA
1 TGTATTTGA
8866932 TTATGAGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.46
Consensus pattern (24 bp):
TGTATTTGAACCTATATATGCATA
Found at i:8868121 original size:32 final size:32
Alignment explanation
Indices: 8868055--8868127 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
8868045 CATTTGGGTC
*
8868055 AAGACTAAAATTTCAAAAATTTAAAAAATAAA
1 AAGACTAAAATTTCAAAAATTCAAAAAATAAA
* *
8868087 AAGACTAAAA-TT-AATCAATTCAAAAACTATAA
1 AAGACTAAAATTTCAA-AAATTCAAAAAATA-AA
8868119 AAG-CTAAAA
1 AAGACTAAAA
8868128 ATGATCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 2 0.06
31 19 0.53
32 15 0.42
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.23
Consensus pattern (32 bp):
AAGACTAAAATTTCAAAAATTCAAAAAATAAA
Found at i:8868135 original size:31 final size:31
Alignment explanation
Indices: 8868072--8868151 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
8868062 AAATTTCAAA
* *
8868072 AATTTAAAAAATAAAAAGACTAAAATTAATC
1 AATTCAAAAAATAAAAAGACTAAAAATAATC
* *
8868103 AATTCAAAAACTATAAAAG-CTAAAAATGATC
1 AATTCAAAAAATA-AAAAGACTAAAAATAATC
* *
8868134 AAAT-AAAAATTAAAAAGA
1 AATTCAAAAAATAAAAAGA
8868152 ACCAAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 5 0.12
30 7 0.17
31 24 0.59
32 5 0.12
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (31 bp):
AATTCAAAAAATAAAAAGACTAAAAATAATC
Found at i:8871619 original size:58 final size:58
Alignment explanation
Indices: 8871531--8871676 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 58
8871521 ATATATTATA
* *
8871531 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
8871588 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
8871648 ATTTTTATTAAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
8871677 CATTAAAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 1 0.01
58 48 0.62
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:8871815 original size:39 final size:44
Alignment explanation
Indices: 8871760--8871864 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 44
8871750 TTTCTTATGC
*
8871760 TATTACAGCATC-ATTCCATT-CAACCAA-ACACAA-GAA-TA-T
1 TATTACAGC-TCTATTCCATTCCAACCAACAAACAATGAATTACT
*
8871799 TATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAATTACT
1 TATTACAGCTCTATTCCATTCCAACCAA-CAAACAA-TGAATTACT
*
8871845 GATTACAGCTCTATTCCATT
1 TATTACAGCTCTATTCCATT
8871865 ATAGCTCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 6 0.11
42 5 0.09
44 3 0.05
45 2 0.04
46 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (44 bp):
TATTACAGCTCTATTCCATTCCAACCAACAAACAATGAATTACT
Found at i:8871863 original size:46 final size:44
Alignment explanation
Indices: 8871771--8871864 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
8871761 ATTACAGCAT
* *
8871771 CATTCCATTCAACCAAACACAAGAATATTATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
*
8871815 CATTCCAATCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACA-AGAA-TA-TGATTACAGCTCTATTC
8871861 CATT
1 CATT
8871865 ATAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 2 0.05
46 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
Found at i:8871870 original size:16 final size:16
Alignment explanation
Indices: 8871846--8871917 Score: 117
Period size: 16 Copynumber: 4.5 Consensus size: 16
8871836 TGAATTACTG
8871846 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
8871862 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
8871878 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
8871894 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
8871910 ATTACAGC
1 ATTACAGC
8871918 GAACCAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:8878088 original size:30 final size:30
Alignment explanation
Indices: 8878054--8878113 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
8878044 CTAAAAATCG
8878054 AGTTAGAAAAAATTGAGTTCATGAAATAAA
1 AGTTAGAAAAAATTGAGTTCATGAAATAAA
* *
8878084 AGTTAGAAGAAATTGAGTTCGTGAAATAAA
1 AGTTAGAAAAAATTGAGTTCATGAAATAAA
8878114 GGGTGGTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.27
Consensus pattern (30 bp):
AGTTAGAAAAAATTGAGTTCATGAAATAAA
Found at i:8884111 original size:32 final size:33
Alignment explanation
Indices: 8884067--8884130 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
8884057 TATCTTAATT
8884067 TAAAATTCAAATTAATC-CTTTAAAATCCTAAC
1 TAAAATTCAAATTAATCGCTTTAAAATCCTAAC
* * * *
8884099 TAAAATTTAAATTACTCGTTTTCAAATCCTAA
1 TAAAATTCAAATTAATCGCTTTAAAATCCTAA
8884131 TTGAATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (33 bp):
TAAAATTCAAATTAATCGCTTTAAAATCCTAAC
Found at i:8884215 original size:2 final size:2
Alignment explanation
Indices: 8884208--8884233 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8884198 ACCCTAACTC
8884208 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
8884234 ATATATATAT
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:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8884238 original size:2 final size:2
Alignment explanation
Indices: 8884233--8884261 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8884223 TCTCTCTCTC
8884233 TA TA TA TA 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 T
8884262 TAATTTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8884591 original size:29 final size:29
Alignment explanation
Indices: 8884559--8884649 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
8884549 TGTACCCTTG
*
8884559 TTTTACATATTTTATAGTTTTGCCACTAT
1 TTTTACAAATTTTATAGTTTTGCCACTAT
* * * *
8884588 TTTTTCAGATTTTATAATTTTGCCACTAG
1 TTTTACAAATTTTATAGTTTTGCCACTAT
* * **
8884617 TTTTCCAAATTTTACAGTACTGCCACTAT
1 TTTTACAAATTTTATAGTTTTGCCACTAT
8884646 TTTT
1 TTTT
8884650 TTAGATTTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (29 bp):
TTTTACAAATTTTATAGTTTTGCCACTAT
Found at i:8884677 original size:29 final size:28
Alignment explanation
Indices: 8884577--8884671 Score: 109
Period size: 29 Copynumber: 3.3 Consensus size: 28
8884567 ATTTTATAGT
*
8884577 TTTGCCACTATTTTTTCAGATTTTATAA
1 TTTGCCACTATTTTTTCAGATTTTACAA
* * * *
8884605 TTTTGCCACTAGTTTTCCAAATTTTACAG
1 -TTTGCCACTATTTTTTCAGATTTTACAA
* *
8884634 TACTGCCACTATTTTTTTAGATTTTACAA
1 T-TTGCCACTATTTTTTCAGATTTTACAA
8884663 TTTGCCACT
1 TTTGCCACT
8884672 GGTTTTCCAA
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
28 8 0.15
29 45 0.85
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.48
Consensus pattern (28 bp):
TTTGCCACTATTTTTTCAGATTTTACAA
Found at i:8884677 original size:57 final size:58
Alignment explanation
Indices: 8884579--8884691 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 58
8884569 TTTATAGTTT
*
8884579 TGCCACTATTTTTTCAGATTTTATAATTTTGCCACTAGTTTTCCAAATTTTACAGTAC
1 TGCCACTATTTTTTCAGATTTTACAATTTTGCCACTAGTTTTCCAAATTTTACAGTAC
* * *
8884637 TGCCACTATTTTTTTAGATTTTACAA-TTTGCCACTGGTTTTCCAAATTTTTCAGT
1 TGCCACTATTTTTTCAGATTTTACAATTTTGCCACTAGTTTTCCAAATTTTACAGT
8884692 TCTATCACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 27 0.53
58 24 0.47
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.48
Consensus pattern (58 bp):
TGCCACTATTTTTTCAGATTTTACAATTTTGCCACTAGTTTTCCAAATTTTACAGTAC
Found at i:8884687 original size:29 final size:28
Alignment explanation
Indices: 8884577--8884686 Score: 103
Period size: 29 Copynumber: 3.9 Consensus size: 28
8884567 ATTTTATAGT
* * * *
8884577 TTTGCCACTATTTTTTCAGATTTTATAA
1 TTTGCCACTAGTTTTCCAAATTTTACAA
*
8884605 TTTTGCCACTAGTTTTCCAAATTTTACAG
1 -TTTGCCACTAGTTTTCCAAATTTTACAA
* * ** *
8884634 TACTGCCACTATTTTTTTAGATTTTACAA
1 T-TTGCCACTAGTTTTCCAAATTTTACAA
*
8884663 TTTGCCACTGGTTTTCCAAATTTT
1 TTTGCCACTAGTTTTCCAAATTTT
8884687 TCAGTTCTAT
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
28 18 0.29
29 45 0.71
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTGCCACTAGTTTTCCAAATTTTACAA
Found at i:8886630 original size:24 final size:24
Alignment explanation
Indices: 8886550--8886618 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
8886540 AATCTTTCTG
8886550 TTAAACTCTGTTTAATTGTTTCAA
1 TTAAACTCTGTTTAATTGTTTCAA
8886574 TTAAACTCTGTTTAATTGTTTCAA
1 TTAAACTCTGTTTAATTGTTTCAA
* *
8886598 TTAAACTCTATTTATTTGTTT
1 TTAAACTCTGTTTAATTGTTT
8886619 GAGTCAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAACTCTGTTTAATTGTTTCAA
Found at i:8887655 original size:27 final size:27
Alignment explanation
Indices: 8887617--8887684 Score: 118
Period size: 27 Copynumber: 2.4 Consensus size: 27
8887607 TAATTTTTTT
8887617 TGAAGAATAGTGGTAAAATTGTAAAATC
1 TGAA-AATAGTGGTAAAATTGTAAAATC
8887645 TGAAAATAGTGGTAAAATTGTAAAATC
1 TGAAAATAGTGGTAAAATTGTAAAATC
8887672 TGAAAAATAGTGG
1 TG-AAAATAGTGG
8887685 CAGAACTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 25 0.64
28 14 0.36
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.28
Consensus pattern (27 bp):
TGAAAATAGTGGTAAAATTGTAAAATC
Found at i:8887734 original size:29 final size:28
Alignment explanation
Indices: 8887617--8887765 Score: 140
Period size: 29 Copynumber: 5.3 Consensus size: 28
8887607 TAATTTTTTT
* * *
8887617 TGAAGAATAGTGGTAAAATTGTAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
* *
8887645 TG-AAAATAGTGGTAAAATTGTAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
* *
8887672 TGAAAAATAGTGGCAGAACTGAAAAATC
1 TGAAAAATAGTGGCAAAACTGTAAAATC
* *
8887700 AAGAAAACCTA-TGGCAAAACTGTAAAATC
1 -TGAAAA-ATAGTGGCAAAACTGTAAAATC
* * *
8887729 TGGAAAAATAATGGCAAAACTATAAAATT
1 T-GAAAAATAGTGGCAAAACTGTAAAATC
*
8887758 TGTAAAAT
1 TGAAAAAT
8887766 GGGGGTACAC
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
27 26 0.25
28 31 0.30
29 43 0.42
30 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.24
Consensus pattern (28 bp):
TGAAAAATAGTGGCAAAACTGTAAAATC
Found at i:8888212 original size:33 final size:33
Alignment explanation
Indices: 8888157--8888219 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
8888147 ATAAATTCTA
*
8888157 TTAGGATTTGAAAATAAGTAATTTGAATTTTAG
1 TTAGGATTTGAAAAGAAGTAATTTGAATTTTAG
* * * *
8888190 TTAGGATTTTAAAAGGATTAATTTTAATTT
1 TTAGGATTTGAAAAGAAGTAATTTGAATTT
8888220 CAAATTAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (33 bp):
TTAGGATTTGAAAAGAAGTAATTTGAATTTTAG
Found at i:8892988 original size:59 final size:59
Alignment explanation
Indices: 8892803--8893238 Score: 585
Period size: 59 Copynumber: 7.4 Consensus size: 59
8892793 TTTGGATACC
* * *
8892803 CGAGGGCAAAATGGTAA-TTTTGGTGAAATCGAGGTTTAAAATGGAATTTTGGAAAGTT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
* * *
8892861 CGGGGGTATAATGGTAATTTTTGGTGAAAT-TAGGGTTAAAAAATGGAATTTTAGAAAGTT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTT-AAAAATGGAATTTTAGAAAGTT
* * *
8892921 CGAGGGTAAAGTGGTAATTTTTGGTGATATCGGGGTTAAAAATGGAATTTTAGAAAGTT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
* *
8892980 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGAATTTTGGAAAGTT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
* * *
8893039 TG-GGAGTAAAACGGTAATTTTTGGTGAAACCGAGGTT-AAAATGGAATTTTAGAAAGTT
1 CGAGG-GTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
* * * *
8893097 -TAGGGGTAAAATAGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATGTTAGAAAGTT
1 CGA-GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
* * ** *
8893156 CGGGGGTAAAACGGTAATTTTTGGTGAAATTTAGGTTAAAAATGGAATTTTAGATAGTT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
*
8893215 CGGGGGTAAAATGGTAATTTTTGG
1 CGAGGGTAAAATGGTAATTTTTGG
8893239 ACTGTTTGGG
Statistics
Matches: 332, Mismatches: 37, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
58 65 0.20
59 217 0.65
60 50 0.15
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
Found at i:8893086 original size:29 final size:30
Alignment explanation
Indices: 8892803--8893238 Score: 176
Period size: 30 Copynumber: 14.8 Consensus size: 30
8892793 TTTGGATACC
*
8892803 CGAGGGCAAAATGGTAA-TTTTGGTGAAAT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAAT
*
8892832 CGAGGTTTAAAATGG-AA-TTTT-G-GAAAGTT
1 CGAGG-GTAAAATGGTAATTTTTGGTGAAA--T
* *
8892861 CGGGGGTATAATGGTAATTTTTGGTGAAAT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAAT
* *
8892891 -TAGGGTTAAAAAATGG-AA-TTTT--AGAAAGTT
1 CGAGGG-T--AAAATGGTAATTTTTGGTGAAA--T
* *
8892921 CGAGGGTAAAGTGGTAATTTTTGGTGATAT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAAT
*
8892951 CG-GGGTTAAAAATGG-AA-TTTT--AGAAAGTT
1 CGAGGG-T-AAAATGGTAATTTTTGGTGAAA--T
8892980 CGAGGGTAAAATGGTAATTTTTGGTGAAAT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAAT
*
8893010 CGAGGTTGAAAATGG-AA-TTTT-G-GAAAGTT
1 CGAGGGT-AAAATGGTAATTTTTGGTGAAA--T
* * *
8893039 TG-GGAGTAAAACGGTAATTTTTGGTGAAAC
1 CGAGG-GTAAAATGGTAATTTTTGGTGAAAT
* *
8893069 CGAGGTTAAAATGG-AA-TTTT--AGAAAGT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAA-T
** * *
8893096 TTAGGGGTAAAATAGTAATTTTTGGTAAAAT
1 CGA-GGGTAAAATGGTAATTTTTGGTGAAAT
* * *
8893127 CGAGGTTAAAAATGG-AA-TGTT--AGAAAGTT
1 CGAGGGT-AAAATGGTAATTTTTGGTGAAA--T
* *
8893156 CGGGGGTAAAACGGTAATTTTTGGTGAAAT
1 CGAGGGTAAAATGGTAATTTTTGGTGAAAT
** * * * **
8893186 TTAGGTTAAAAATGG-AATTTTAGAT-AGTT
1 CGAGGGT-AAAATGGTAATTTTTGGTGAAAT
*
8893215 CGGGGGTAAAATGGTAATTTTTGG
1 CGAGGGTAAAATGGTAATTTTTGG
8893239 ACTGTTTGGG
Statistics
Matches: 297, Mismatches: 60, Indels: 100
0.65 0.13 0.22
Matches are distributed among these distances:
26 4 0.01
27 15 0.05
28 60 0.20
29 72 0.24
30 81 0.27
31 37 0.12
32 28 0.09
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (30 bp):
CGAGGGTAAAATGGTAATTTTTGGTGAAAT
Found at i:8893128 original size:117 final size:117
Alignment explanation
Indices: 8892810--8893238 Score: 594
Period size: 117 Copynumber: 3.6 Consensus size: 117
8892800 ACCCGAGGGC
* * * *
8892810 AAAATGGTAA-TTTTGGTGAAATCGAGGTTTAAAATGGAATTTTGGAAAGTTCGGGGGTATAATG
1 AAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATG
*
8892874 GTAATTTTTGGTGAAAT-TAGGGTTAAAAAATGGAATTTTAGAAAGTTCGAGGGT
66 GTAATTTTTGGTGAAATCGA-GGTT-AAAAATGGAATTTTAGAAAGTTCG-GGGT
** * * *
8892928 AAAGTGGTAATTTTTGGTGATATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATG
1 AAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATG
* * *
8892993 GTAATTTTTGGTGAAATCGAGGTTGAAAATGGAATTTTGGAAAGTTTGGGAGT
66 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGG-GT
* ** *
8893046 AAAACGGTAATTTTTGGTGAAACCGAGGTT-AAAATGGAATTTTAGAAAGTTTAGGGGTAAAATA
1 AAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATG
* *
8893110 GTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATGTTAGAAAGTTCGGGGGT
66 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTC-GGGGT
** *
8893163 AAAACGGTAATTTTTGGTGAAATTTAGGTTAAAAATGGAATTTTAGATAGTTCGGGGGTAAAATG
1 AAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATG
8893228 GTAATTTTTGG
66 GTAATTTTTGG
8893239 ACTGTTTGGG
Statistics
Matches: 274, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
117 103 0.38
118 101 0.37
119 69 0.25
120 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (117 bp):
AAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATG
GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTCGGGGT
Found at i:8893155 original size:176 final size:177
Alignment explanation
Indices: 8892803--8893238 Score: 619
Period size: 176 Copynumber: 2.5 Consensus size: 177
8892793 TTTGGATACC
* *
8892803 CGAGGGCAAAATGGTAA-TTTTGGTGAAATCGAGGTTTAAAATGGAATTTTGGAAAGTTCGGGGG
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
* ** * *
8892867 TATAATGGTAATTTTTGGTGAAATTAGGGTTAAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAG
66 TAAAATGGTAATTTTTGGTGAAACGAGGGTT-AAAAATGGAATTTTAGAAAGTTAGAGGGTAAAA
* * * * *
8892932 TGGTAATTTTTGGTGATATCGGGGTTAAAAATGGAATTTTAGAAAGTT
130 TAGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATGTTAGAAAGTT
* * *
8892980 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGAATTTTGGAAAGTTTGGGAG
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
*
8893045 TAAAACGGTAATTTTTGGTGAAACCGA-GGTT-AAAATGGAATTTTAGAAAGTTTAG-GGGTAAA
66 TAAAATGGTAATTTTTGGTGAAA-CGAGGGTTAAAAATGGAATTTTAGAAAG-TTAGAGGGTAAA
8893107 ATAGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATGTTAGAAAGTT
129 ATAGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATGTTAGAAAGTT
* * ** * *
8893156 CGGGGGTAAAACGGTAATTTTTGGTGAAATTTAGGTTAAAAATGGAATTTTAGATAGTTCGGGGG
1 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
8893221 TAAAATGGTAATTTTTGG
66 TAAAATGGTAATTTTTGG
8893239 ACTGTTTGGG
Statistics
Matches: 231, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
176 142 0.61
177 19 0.08
178 69 0.30
179 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (177 bp):
CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
TAAAATGGTAATTTTTGGTGAAACGAGGGTTAAAAATGGAATTTTAGAAAGTTAGAGGGTAAAAT
AGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATGTTAGAAAGTT
Found at i:8894378 original size:21 final size:21
Alignment explanation
Indices: 8894354--8894393 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8894344 TAATAATATT
*
8894354 ATTATTAT-TATTATTAACACC
1 ATTAATATCTATTA-TAACACC
8894375 ATTAATATCTATTATAACA
1 ATTAATATCTATTATAACA
8894394 TATTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAATATCTATTATAACACC
Found at i:8895111 original size:17 final size:17
Alignment explanation
Indices: 8895084--8895167 Score: 78
Period size: 17 Copynumber: 4.8 Consensus size: 17
8895074 TTAAATTTTC
8895084 ATTTCAAAATAAATTTAA
1 ATTT-AAAATAAATTTAA
8895102 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
* ** * *
8895119 ACTCCAAACAAGTTTTAA
1 ATTTAAAATAA-ATTTAA
* *
8895137 ATTTATAACAAATTTAA
1 ATTTAAAATAAATTTAA
*
8895154 ATTTAAAATGAATT
1 ATTTAAAATAAATT
8895168 AAGAATATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
17 36 0.69
18 16 0.31
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:8895626 original size:76 final size:76
Alignment explanation
Indices: 8895498--8896263 Score: 1153
Period size: 76 Copynumber: 10.1 Consensus size: 76
8895488 TCGGGGTTTT
* * *
8895498 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTACTTCAAATTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAG
8895563 AGGATAGGAAAAG
64 AGGATAGGAAAAG
*
8895576 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
*
8895641 GATAGGAAATG
66 GATAGGAAAAG
* * *
8895652 ATCTTGCTCTTGCTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCGATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
8895717 GATAGGAAAAG
66 GATAGGAAAAG
* * * *
8895728 ATCTTGCTCTGACCTCAATTTTAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
8895793 GATAGGAAAAG
66 GATAGGAAAAG
* * *
8895804 ATCTTGCTCTTACTTCAATTTCAGAGATAAATACTTGTTATCCAACTCTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
8895869 GATAGGAAAAG
66 GATAGGAAAAG
*
8895880 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
*
8895945 GATAGGAAATG
66 GATAGGAAAAG
* * * * * *
8895956 ATCTTGTTCTTACTTCAATTTCAAAGATAAAGTCGTGTTATCC-ACTCTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
8896020 GATAGGAAAAG
66 GATAGGAAAAG
* * *
8896031 ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTTTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
*
8896095 GACAGGAAAAG
66 GATAGGAAAAG
* * * * *
8896106 GTCTTGCTCCTACTTCCATTTCAGAGATAAAGACGTGTTATCC-ACTTTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
*
8896170 GACAGGAAAAG
66 GATAGGAAAAG
* * *
8896181 ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTTTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
*
8896245 GACAGGAAAAG
66 GATAGGAAAAG
8896256 ATCTTGCT
1 ATCTTGCT
8896264 GCGGTCTGAT
Statistics
Matches: 647, Mismatches: 41, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
75 253 0.39
76 372 0.57
78 22 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
GATAGGAAAAG
Found at i:8908549 original size:59 final size:59
Alignment explanation
Indices: 8908389--8908990 Score: 678
Period size: 59 Copynumber: 10.3 Consensus size: 59
8908379 TTTGGATACC
* * *
8908389 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTTTAAAAGTGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATC-AGGGTTAAAAATGGAATTTTAGAAAGTT
* * *
8908448 TGGGGGTTATAATGGTAATTTTTGGTAAAATC-GTGGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGG-TAAAATGGTAATTTTTGGTGAAATCAG-GGTTAAAAATGGAATTTTAGAAAGTT
* * * *
8908508 CGGGGGTAAAGTGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGATTTTTTGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAAGTT
* * *
8908567 CGGGGGTAAAATAGTAATTTTTGGTAAAAT-TGAGGTTAAAAATGGAATGTTT----A---
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAG-GGTTAAAAATGGAAT-TTTAGAAAGTT
* *
8908620 --GGGGTAAAACGATAATTTTTGGTGAAA-CTAGGGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATC-AGGGTTAAAAATGGAATTTTAGAAAGTT
* * * * *
8908677 CAGGGGTAAAATGGTAATTTTCGGTGAAATTAGGGTTTAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAAGTT
* * * * *
8908736 TGGGAGTAAAACGGTAA-TTTTGGTGAAA-CCGGGCTTAAAAATAGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGG-TTAAAAATGGAATTTTAGAAAGTT
** * * * *
8908794 TAGGAGTAAAACGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAAGTT
* * *
8908853 TGGAGGTAAAATAGTAATTTTTGGTGAAATC-GGAGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGG-GTTAAAAATGGAATTTTAGAAAGTT
** * *
8908912 CAAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGAAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAAGTT
8908971 CGGGGGTAAAATGGTAATTT
1 CGGGGGTAAAATGGTAATTT
8908991 CTGGACTGTT
Statistics
Matches: 462, Mismatches: 58, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.01
51 38 0.08
52 1 0.00
54 1 0.00
56 1 0.00
57 3 0.01
58 49 0.11
59 307 0.66
60 47 0.10
61 12 0.03
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAAGTT
Found at i:8908667 original size:30 final size:29
Alignment explanation
Indices: 8908633--8908962 Score: 97
Period size: 29 Copynumber: 11.2 Consensus size: 29
8908623 GTAAAACGAT
*
8908633 AATTTTTGGTGAAACTAGGGTTAAAAATGG
1 AATTTTTGGTGAAATTAGGGTT-AAAATGG
* *
8908663 AA-TTTT--AGAAAGTTCAGGGGTAAAATGG
1 AATTTTTGGTGAAA-TT-AGGGTTAAAATGG
*
8908691 TAATTTTCGGTGAAATTAGGGTTTAAAATGG
1 -AATTTTTGGTGAAATTAGGG-TTAAAATGG
* * *
8908722 AA-TTTT-G-GAAAGTTTGGGAGTAAAACGG
1 AATTTTTGGTGAAA-TTAGGG-TTAAAATGG
** *
8908750 TAA-TTTTGGTGAAA-CCGGGCTTAAAAATAG
1 -AATTTTTGGTGAAATTAGGG-TT-AAAATGG
* *
8908780 AA-TTTT--AGAAAGTTTAGGAG-TAAAACGG
1 AATTTTTGGTGAAA--TTAGG-GTTAAAATGG
***
8908808 TAATTTTTGGTGAAACCGGGGTTAAAAATGG
1 -AATTTTTGGTGAAATTAGGGTT-AAAATGG
* * * *
8908839 AA-TTTT--AGAAAGTTTGGAGGTAAAATAGT
1 AATTTTTGGTGAAA-TTAGG-GTTAAAAT-GG
*
8908868 AATTTTTGGTGAAA-TCGGAGTTAAAAATGG
1 AATTTTTGGTGAAATTAGG-GTT-AAAATGG
*
8908898 AA-TTTT--AGAAAGTTCAAGGG-TAAAATGG
1 AATTTTTGGTGAAA-TT--AGGGTTAAAATGG
*
8908926 TAATTTTTGGTGAAATTAGGGTTAAAAATGA
1 -AATTTTTGGTGAAATTAGGGTT-AAAATGG
8908957 AATTTT
1 AATTTT
8908963 AGAAAGTTCG
Statistics
Matches: 220, Mismatches: 41, Indels: 78
0.65 0.12 0.23
Matches are distributed among these distances:
27 20 0.09
28 40 0.18
29 55 0.25
30 53 0.24
31 36 0.16
32 16 0.07
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.33
Consensus pattern (29 bp):
AATTTTTGGTGAAATTAGGGTTAAAATGG
Found at i:8908846 original size:176 final size:177
Alignment explanation
Indices: 8908615--8908990 Score: 503
Period size: 176 Copynumber: 2.1 Consensus size: 177
8908605 AAAATGGAAT
* *
8908615 GTTTAGGGGTAAAACGATAATTTTTGGTGAAACTAGGGTTAAAAATGGAATTTTAGAAAGTTCAG
1 GTTTAGGGGTAAAACGGTAATTTTTGGTGAAACCAGGGTTAAAAATGGAATTTTAGAAAGTT-AG
* * * **
8908680 G-GGTAAAATGGTAATTTTCGGTGAAATTAGG-GTTTAAAATGGAATTTTGGAAAGTT-TGGGAG
65 GAGGTAAAATAGTAATTTTCGGTGAAA-TAGGAGTTAAAAATGGAATTTTAGAAAGTTCAAGG-G
*
8908742 TAAAACGGTAA-TTTTGGTGAAA-CCGGGCTTAAAAAT-AGAATTTTAGAAA
128 TAAAACGGTAATTTTTGGTGAAATCAGGG-TTAAAAATGA-AATTTTAGAAA
* * *
8908791 GTTTAGGAGTAAAACGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTTTGG
1 GTTTAGGGGTAAAACGGTAATTTTTGGTGAAACCAGGGTTAAAAATGGAATTTTAGAAAGTTAGG
* *
8908856 AGGTAAAATAGTAATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTAGAAAGTTCAAGGGTAA
66 AGGTAAAATAGTAATTTTCGGTGAAATAGGAGTTAAAAATGGAATTTTAGAAAGTTCAAGGGTAA
* *
8908921 AATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGAAATTTTAGAAA
131 AACGGTAATTTTTGGTGAAATCAGGGTTAAAAATGAAATTTTAGAAA
** *
8908968 GTTCGGGGGTAAAATGGTAATTT
1 GTTTAGGGGTAAAACGGTAATTT
8908991 CTGGACTGTT
Statistics
Matches: 175, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
175 5 0.03
176 115 0.66
177 51 0.29
178 4 0.02
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (177 bp):
GTTTAGGGGTAAAACGGTAATTTTTGGTGAAACCAGGGTTAAAAATGGAATTTTAGAAAGTTAGG
AGGTAAAATAGTAATTTTCGGTGAAATAGGAGTTAAAAATGGAATTTTAGAAAGTTCAAGGGTAA
AACGGTAATTTTTGGTGAAATCAGGGTTAAAAATGAAATTTTAGAAA
Found at i:8910882 original size:17 final size:17
Alignment explanation
Indices: 8910855--8910938 Score: 78
Period size: 17 Copynumber: 4.8 Consensus size: 17
8910845 TTAAATTTTC
8910855 ATTTAAAAATAAATTTAA
1 ATTT-AAAATAAATTTAA
8910873 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
* ** * *
8910890 ACTCCAAACAAGTTTTAA
1 ATTTAAAATAA-ATTTAA
* *
8910908 ATTTATAACAAATTTAA
1 ATTTAAAATAAATTTAA
*
8910925 ATTTAAAATGAATT
1 ATTTAAAATAAATT
8910939 AAGAATCTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
17 36 0.69
18 16 0.31
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:8911372 original size:17 final size:17
Alignment explanation
Indices: 8911350--8911388 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8911340 AGGTGGAGAA
* *
8911350 CTTGTTCATTGAGAGTT
1 CTTGTTCATAGAGAATT
8911367 CTTGTTCATAGAGAATT
1 CTTGTTCATAGAGAATT
8911384 CTTGT
1 CTTGT
8911389 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.46
Consensus pattern (17 bp):
CTTGTTCATAGAGAATT
Found at i:8911435 original size:41 final size:40
Alignment explanation
Indices: 8911378--8911472 Score: 145
Period size: 41 Copynumber: 2.4 Consensus size: 40
8911368 TTGTTCATAG
* * *
8911378 AGAATTCTTGTCAAGGTGGAGATTATTAGAATTGGGTGAGT
1 AGAATTCTTGTTAAGGTGGAGATTATTAGAATTAGGTG-CT
*
8911419 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTAGGTGCT
1 AGAATTCTTGTTAAGGTGGAGATTATTAGAATTAGGTGCT
8911459 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
8911473 AATAAAATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 15 0.30
41 35 0.70
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.37
Consensus pattern (40 bp):
AGAATTCTTGTTAAGGTGGAGATTATTAGAATTAGGTGCT
Found at i:8912223 original size:6 final size:6
Alignment explanation
Indices: 8912214--8912239 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8912204 TTATTTTTAT
8912214 TATTAC TATTAC TATTAC TATTAC TA
1 TATTAC TATTAC TATTAC TATTAC TA
8912240 GTGTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAC
Found at i:8925334 original size:40 final size:41
Alignment explanation
Indices: 8925289--8925384 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
8925279 GAGCAATTCC
*
8925289 AACTTGTTTGAAAATCATTTTGA--TGTGTTAAAATGATTTT
1 AACTTGTTTGAAAATCATTTTGACTTGT-TTAAAATCATTTT
* * *
8925329 GACTTGGTTG-AAATTATTTTGACTTGTTTAAAATCATTTT
1 AACTTGTTTGAAAATCATTTTGACTTGTTTAAAATCATTTT
*
8925369 AACTTGGTTTTAAAAT
1 AACTT-GTTTGAAAAT
8925385 TGTTACAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
39 11 0.24
40 24 0.53
41 6 0.13
42 4 0.09
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (41 bp):
AACTTGTTTGAAAATCATTTTGACTTGTTTAAAATCATTTT
Found at i:8925347 original size:20 final size:20
Alignment explanation
Indices: 8925299--8925377 Score: 90
Period size: 20 Copynumber: 4.0 Consensus size: 20
8925289 AACTTGTTTG
8925299 AAAATCATTTTGA--TGTGTT
1 AAAATCATTTTGACTTG-GTT
*
8925318 AAAATGATTTTGACTTGGTT
1 AAAATCATTTTGACTTGGTT
* * *
8925338 GAAATTATTTTGACTTGTTT
1 AAAATCATTTTGACTTGGTT
*
8925358 AAAATCATTTTAACTTGGTT
1 AAAATCATTTTGACTTGGTT
8925378 TTAAAATTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 12 0.24
20 36 0.72
21 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (20 bp):
AAAATCATTTTGACTTGGTT
Found at i:8929484 original size:30 final size:30
Alignment explanation
Indices: 8929428--8929513 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
8929418 CCCTAGAGGT
* *
8929428 CCCTAAACTGTCCAAAAATCATATTTTGAC
1 CCCTAAACTGTCCAAAAATCACATTTTAAC
* *
8929458 CCCTAAACTTTTCCAAAATTC-CATTTTAAC
1 CCCTAAAC-TGTCCAAAAATCACATTTTAAC
* *
8929488 CCC-AAACCT-CCCAAAAATTACATTTT
1 CCCTAAA-CTGTCCAAAAATCACATTTT
8929514 TATCTCCGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
28 7 0.15
29 10 0.22
30 19 0.41
31 10 0.22
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.31
Consensus pattern (30 bp):
CCCTAAACTGTCCAAAAATCACATTTTAAC
Found at i:8929618 original size:29 final size:28
Alignment explanation
Indices: 8929530--8929722 Score: 117
Period size: 29 Copynumber: 6.6 Consensus size: 28
8929520 CGATTTCTCT
**
8929530 AAAAATTACCATTTTACCCCGAACTTCC
1 AAAAATTACCATTTTACCTTGAACTTCC
* * *
8929558 AAAAATT-TCTTTATTGACCTT-AATTTCTCC
1 AAAAATTACCATT-TT-ACCTTGAA-CT-TCC
8929588 AAAAATTACCATTTTACCATTGAACTTCC
1 AAAAATTACCATTTTACC-TTGAACTTCC
**
8929617 AAAAATT-CCATTTTTAACCTTGATTTTTCC
1 AAAAATTACCA-TTTT-ACCTTGA-ACTTCC
* ***
8929647 AAAAATTACCATCTTACCCCCAAACTTCC
1 AAAAATTACCATTTTA-CCTTGAACTTCC
* **
8929676 AAAAATT-CTATTTTTGACCTTGATTTTTCC
1 AAAAATTACCA-TTTT-ACCTTGA-ACTTCC
8929706 -AAAATTACCATTTTACC
1 AAAAATTACCATTTTACC
8929723 CCTGAATGTC
Statistics
Matches: 125, Mismatches: 24, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
27 3 0.02
28 19 0.15
29 53 0.42
30 42 0.34
31 8 0.06
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAAATTACCATTTTACCTTGAACTTCC
Found at i:8929648 original size:59 final size:59
Alignment explanation
Indices: 8929466--8929841 Score: 311
Period size: 59 Copynumber: 6.4 Consensus size: 59
8929456 ACCCCTAAAC
* * * * * **
8929466 TTTTCC-AAAATT-CCATTTTAACCCCAAACCTCCCAAAAATTACATTTTT-ATCTCCGAT
1 TTTTCCAAAAATTACCATTTTACCCCCGAA-CTTCCAAAAATTCCATTTTTGACCT-TAAT
* * *
8929524 TTCTCTAAAAATTACCATTTTA-CCCCGAACTTCCAAAAATTTC-TTTATTGACCTTAAT
1 TTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTT-TTGACCTTAAT
* *** * *
8929582 TTCTCCAAAAATTACCATTTTACCATTGAACTTCCAAAAATTCCATTTTTAACCTTGAT
1 TTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTTAAT
* * * *
8929641 TTTTCCAAAAATTACCATCTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCTTGAT
1 TTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTTAAT
* * * *** **
8929700 TTTTCC-AAAATTACCATTTTACCCCTGAA-TGTCTAAAAATTCTATTTCAAACCCCAAAT
1 TTTTCCAAAAATTACCATTTTACCCCCGAACT-TCCAAAAATTCCATTTTTGA-CCTTAAT
*** * * * * *
8929759 TTTTTTGAAAATTACCATTTTACCCTCGAACATCCAAAAATTCTA-TTTTGACCCTAAA
1 TTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTTAAT
*
8929817 ATTTCC-AAAATTACCATTTTACCCC
1 TTTTCCAAAAATTACCATTTTACCCC
8929842 TAAAATGTCA
Statistics
Matches: 260, Mismatches: 48, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
57 22 0.08
58 85 0.33
59 109 0.42
60 44 0.17
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (59 bp):
TTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTTAAT
Found at i:8929649 original size:30 final size:30
Alignment explanation
Indices: 8929498--8929719 Score: 124
Period size: 30 Copynumber: 7.6 Consensus size: 30
8929488 CCCAAACCTC
* * *
8929498 CCAAAAATTA-CATTTTTATCTCCGATTTCT
1 CCAAAAATTACCATTTTTACCT-TGATTTTT
* ** **
8929528 CTAAAAATTACCA-TTTTACCCCGA-ACTT
1 CCAAAAATTACCATTTTTACCTTGATTTTT
* * *
8929556 CCAAAAATT-TC-TTTATTGACCTTAATTTCT
1 CCAAAAATTACCATTT-TT-ACCTTGATTTTT
**
8929586 CCAAAAATTACCA-TTTTACCATTGA-ACTT
1 CCAAAAATTACCATTTTTACC-TTGATTTTT
8929615 CCAAAAATT-CCATTTTTAACCTTGATTTTT
1 CCAAAAATTACCATTTTT-ACCTTGATTTTT
* *** ***
8929645 CCAAAAATTACCA-TCTTACCCCCAAACTT
1 CCAAAAATTACCATTTTTACCTTGATTTTT
*
8929674 CCAAAAATT-CTATTTTTGACCTTGATTTTT
1 CCAAAAATTACCATTTTT-ACCTTGATTTTT
8929704 CC-AAAATTACCATTTT
1 CCAAAAATTACCATTTT
8929720 ACCCCTGAAT
Statistics
Matches: 140, Mismatches: 37, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
27 3 0.02
28 16 0.11
29 52 0.37
30 61 0.44
31 8 0.06
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (30 bp):
CCAAAAATTACCATTTTTACCTTGATTTTT
Found at i:8929841 original size:117 final size:115
Alignment explanation
Indices: 8929433--8929842 Score: 366
Period size: 117 Copynumber: 3.5 Consensus size: 115
8929423 GAGGTCCCTA
*
8929433 AACTGTCCAAAAA-TCATATTTTGACCCCTAAACTTTTCCAAAATT-CCATTTTAACCCC-AAAC
1 AACT-TCCAAAAATTC-TATTTTGA-CCCTAAA-TTTTCCAAAATTACCATTTT-ACCCCTGAA-
* * ** * * * *
8929495 CTCCCAAAAATTACATTTTTATCTCC-GATTTCTCTAAAAATTACCATTTTACCCCG
60 CTTCCAAAAATTCCATTTCAAAC-CCAAATTTTTCCAAAAATTACCATTTTACCCCG
* **
8929551 AACTTCCAAAAATTTCT-TTATTGA-CCTTAATTTCTCCAAAAATTACCATTTTACCATTGAACT
1 AACTTCCAAAAA-TTCTATT-TTGACCCTAAATTT-TCC-AAAATTACCATTTTACCCCTGAACT
** *** * *
8929614 TCCAAAAATTCCATTTTTAACCTTGATTTTTCCAAAAATTACCATCTTACCCCCA
62 TCCAAAAATTCCATTTCAAACCCAAATTTTTCCAAAAATTACCATTTTA-CCCCG
* * *
8929669 AACTTCCAAAAATTCTATTTTTGACCTTGATTTTTCCAAAATTACCATTTTACCCCTGAA-TGTC
1 AACTTCCAAAAATTCTA-TTTTGACCCTAAATTTTCCAAAATTACCATTTTACCCCTGAACT-TC
* * ***
8929733 TAAAAATTCTATTTCAAACCCCAAATTTTTTTGAAAATTACCATTTTACCCTCG
64 CAAAAATTCCATTTCAAA-CCCAAATTTTTCCAAAAATTACCATTTTACCC-CG
* *
8929787 AACATCCAAAAATTCTATTTTGACCCTAAAATTTCCAAAATTACCATTTTACCCCT
1 AACTTCCAAAAATTCTATTTTGACCCTAAATTTTCCAAAATTACCATTTTACCCCT
8929843 AAAATGTCAA
Statistics
Matches: 243, Mismatches: 34, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
115 3 0.01
116 10 0.04
117 140 0.58
118 80 0.33
119 10 0.04
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (115 bp):
AACTTCCAAAAATTCTATTTTGACCCTAAATTTTCCAAAATTACCATTTTACCCCTGAACTTCCA
AAAATTCCATTTCAAACCCAAATTTTTCCAAAAATTACCATTTTACCCCG
Found at i:8929870 original size:28 final size:28
Alignment explanation
Indices: 8929766--8929870 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 28
8929756 AATTTTTTTG
** **
8929766 AAAATTACCATTTTACCCTCGAACATCC
1 AAAATTACCATTTTACCCTAAAATGTCC
* *
8929794 AAAAATT-CTATTTTGACCCTAAAATTTCC
1 -AAAATTACCATTTT-ACCCTAAAATGTCC
8929823 AAAATTACCATTTTACCCCTAAAATGT-C
1 AAAATTACCATTTTA-CCCTAAAATGTCC
**
8929851 AAAATTTACTGTTTTACCCT
1 AAAA-TTACCATTTTACCCT
8929871 TCGAGAATCC
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
28 22 0.35
29 41 0.65
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTAAAATGTCC
Found at i:8930216 original size:97 final size:97
Alignment explanation
Indices: 8930109--8930297 Score: 274
Period size: 97 Copynumber: 1.9 Consensus size: 97
8930099 GAAAACATTA
* *
8930109 AAATCAAGGCAATA-TTCTTTTATTTC-GAATTTTGAAAATTTGTGCCTTAACTTACTAGGCGCG
1 AAATCAAGGCAATATTTC-TTTATCTCTG-ATTCTGAAAATTTGTGCCTTAACTTACTAGGCGCG
* *
8930172 ATTTTTCTTCAAATCGAAATAATTGAATACCTTT
64 ACTTTTCTTCAAATCGAAATAATCGAATACCTTT
* * *
8930206 AAATCGAGGCAATGTTTCTTTATCTCTGATTCTGAAAATTTGTGCCTTAACTTACTAGGTGCGAC
1 AAATCAAGGCAATATTTCTTTATCTCTGATTCTGAAAATTTGTGCCTTAACTTACTAGGCGCGAC
*
8930271 TTTTCTTCAAATCGAGATAATCGAATA
66 TTTTCTTCAAATCGAAATAATCGAATA
8930298 TCCTCTTCCC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
97 78 0.95
98 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (97 bp):
AAATCAAGGCAATATTTCTTTATCTCTGATTCTGAAAATTTGTGCCTTAACTTACTAGGCGCGAC
TTTTCTTCAAATCGAAATAATCGAATACCTTT
Found at i:8935155 original size:49 final size:49
Alignment explanation
Indices: 8935045--8935318 Score: 184
Period size: 49 Copynumber: 5.6 Consensus size: 49
8935035 TATACCTCAG
* *
8935045 AGACATGAAGGGAAAGATTCAAGCCGCAATGGCGAATCCAGTACCATGA
1 AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGA
8935094 AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGA
1 AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGA
* * * * * * * * * ** *
8935143 ATATATGGAGGGATAGGTTTAAGTCGTAACGGTGAA-CTTGGTACCTC-A
1 AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATC-CAGTACCACGA
* * * * * * *
8935191 AAAGCACGAAGGGAAAGATTTAAGCCACAATAGCCAATCTAGTACCGCGA
1 AGA-CATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGA
* * * * *
8935241 AGGCACA-AAAGGGAAAGGTTTAAGTCGTAATGGCGAA-CCTTA-TACCTCAGA
1 A-G-ACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCC--AGTACCAC-GA
* *
8935292 AG-CATGAAAGGAAA-ATTTAAGCTGCAA
1 AGACATGAAGGGAAAGATTTAAGCCGCAA
8935319 CGACGAATTT
Statistics
Matches: 170, Mismatches: 45, Indels: 21
0.72 0.19 0.09
Matches are distributed among these distances:
48 15 0.09
49 116 0.68
50 32 0.19
51 6 0.04
52 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (49 bp):
AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGA
Found at i:8935787 original size:6 final size:6
Alignment explanation
Indices: 8935766--8935837 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
8935756 TGAAATTGGT
** * *
8935766 TTTAAA TTTATT TTTAAC TTTAAA TTTAAA TTTAAA TTT--G TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
*
8935813 TTTAAA TTT-AG TTTAAA TTTGAAA T
1 TTTAAA TTTAAA TTTAAA TTT-AAA T
8935838 GGTTTTAAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
4 1 0.02
5 6 0.12
6 40 0.77
7 5 0.10
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:8935813 original size:17 final size:17
Alignment explanation
Indices: 8935790--8935837 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
8935780 TAACTTTAAA
8935790 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAG
8935806 TCTTAAATTTAAATTTAG
1 T-TTAAATTTAAATTTAG
8935824 TTTAAATTTGAAAT
1 TTTAAATTT-AAAT
8935838 GGTTTTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.03
17 22 0.76
18 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTAG
Found at i:8935846 original size:34 final size:34
Alignment explanation
Indices: 8935790--8935856 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
8935780 TAACTTTAAA
* *
8935790 TTTAAATTTAAATTTGTCTTAAATTTAAATTTAG
1 TTTAAATTTAAATTGGTCTTAAACTTAAATTTAG
* *
8935824 TTTAAATTTGAAA-TGGTTTTAAACTTAATTTTA
1 TTTAAATTT-AAATTGGTCTTAAACTTAAATTTA
8935857 ATTTTAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.89
35 3 0.11
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.52
Consensus pattern (34 bp):
TTTAAATTTAAATTGGTCTTAAACTTAAATTTAG
Found at i:8936676 original size:97 final size:97
Alignment explanation
Indices: 8936575--8936763 Score: 240
Period size: 97 Copynumber: 1.9 Consensus size: 97
8936565 GAATACTTTA
* * *
8936575 AAATCAAGGCAATA-TTCTTTTATTTCA-AGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGCG
1 AAATCAAGACAATATTTC-TTTATCTCAGA-TTCTGAAAATTTGTGCCTTAACTTACTAAGCGCG
*
8936638 ATTTTTCTTCAAATCG-GAATAATCGAATACCCTT
64 ACTTTTCTTCAAATCGAG-ATAATCGAATACCCTT
* * * * * *
8936672 AAATCGAGACAATGTTTCTTTATCTCTGATTCTGAAAATTTGTGCCTTAACTTACTAGGTGTGAC
1 AAATCAAGACAATATTTCTTTATCTCAGATTCTGAAAATTTGTGCCTTAACTTACTAAGCGCGAC
8936737 TTTTCTTCAAATCGAGATAATCGAATA
66 TTTTCTTCAAATCGAGATAATCGAATA
8936764 TCCTCTTCCC
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
97 74 0.94
98 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (97 bp):
AAATCAAGACAATATTTCTTTATCTCAGATTCTGAAAATTTGTGCCTTAACTTACTAAGCGCGAC
TTTTCTTCAAATCGAGATAATCGAATACCCTT
Found at i:8943742 original size:19 final size:19
Alignment explanation
Indices: 8943718--8943760 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8943708 AAACATAAAT
8943718 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
8943737 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
8943756 TAAAT
1 TAAAT
8943761 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:8945325 original size:22 final size:21
Alignment explanation
Indices: 8945287--8945341 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
8945277 TTTCCTAGAC
*
8945287 AAAAATAAATAAATAAATAAAT
1 AAAAATAAA-AAATAAAAAAAT
*
8945309 AAAGATAGAAAAATAAAAAAAT
1 AAAAATA-AAAAATAAAAAAAT
8945331 AAAAATAAAAA
1 AAAAATAAAAA
8945342 TAATTGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 23 0.79
23 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAAATAAAAAAAT
Found at i:8945334 original size:8 final size:8
Alignment explanation
Indices: 8945288--8945335 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
8945278 TTCCTAGACA
8945288 AAAATAAAT
1 AAAA-AAAT
*
8945297 AAATAAAT
1 AAAAAAAT
8945305 AAATAAAGAT
1 AAA-AAA-AT
*
8945315 AGAAAAAT
1 AAAAAAAT
8945323 AAAAAAAT
1 AAAAAAAT
8945331 AAAAA
1 AAAAA
8945336 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 21 0.64
9 8 0.24
10 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8954948 original size:49 final size:49
Alignment explanation
Indices: 8954830--8955236 Score: 247
Period size: 49 Copynumber: 8.3 Consensus size: 49
8954820 TACCATGAAG
* * * * *
8954830 ACATGAATGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAC-GAA
1 ACATGAAGGGAAAGGTTTAAGCCGCAACGGTGAA-CCTTGTACCTCAGAA
* * ** * *
8954878 GATAATGGAGGGAAAGGTTTAAGTTGCATCGGTGAACCTTTTACCTCAGAA
1 -A-CATGAAGGGAAAGGTTTAAGCCGCAACGGTGAACCTTGTACCTCAGAA
* * * *
8954929 ACATGAAGGGAAAGATTTAAGCCGCAACGACT-AATCC-AGTACCAC-GAA
1 ACATGAAGGGAAAGGTTTAAGCCGCAACG-GTGAA-CCTTGTACCTCAGAA
* * *
8954977 GATAATGGAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTGTACCTCAGAA
1 -A-CATGAAGGGAAAGGTTTAAGCCGCAACGGTGAACCTTGTACCTCAGAA
** * * * *
8955028 ACATGAATTGAAAGGTTTAAGTCGCAACGTTGAACCTTTTACCTTAGAA
1 ACATGAAGGGAAAGGTTTAAGCCGCAACGGTGAACCTTGTACCTCAGAA
* * * * * * * *
8955077 GCATGAAGGGAAAGATTTAAGCCGCGACGGCGAATCTAGTACCACGAAGAT
1 ACATGAAGGGAAAGGTTTAAGCCGCAACGGTGAACCTTGTACCTC--AGAA
* * * *
8955128 ACA--AAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTATACCTCA-AA
1 ACATGAAGGGAAAGGTTTAAGCCGCAACGGTGAACCTTGTACCTCAGAA
* * * * ** * * *
8955174 ATCATGAAGAGG-AAGATTTAAACCGCAACGGCGAATCAGGTACCACGGAG
1 A-CATGAAG-GGAAAGGTTTAAGCCGCAACGGTGAACCTTGTACCTCAGAA
8955224 ACATGAAGGGAAA
1 ACATGAAGGGAAA
8955237 TATTGAAGTC
Statistics
Matches: 268, Mismatches: 72, Indels: 36
0.71 0.19 0.10
Matches are distributed among these distances:
46 2 0.01
47 3 0.01
48 5 0.02
49 175 0.65
50 72 0.27
51 11 0.04
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (49 bp):
ACATGAAGGGAAAGGTTTAAGCCGCAACGGTGAACCTTGTACCTCAGAA
Found at i:8954990 original size:99 final size:99
Alignment explanation
Indices: 8954830--8955056 Score: 355
Period size: 99 Copynumber: 2.3 Consensus size: 99
8954820 TACCATGAAG
*
8954830 ACATGAATGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATAATGGAGGGAAAGG
1 ACATGAATGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATAATGGAGGGAAAGG
** * * *
8954895 TTTAAGTTGCATCGGTGAACCTTTTACCTCAGAA
66 TTTAAGCCGCAACGGCGAACCTTGTACCTCAGAA
* *
8954929 ACATGAAGGGAAAGATTTAAGCCGCAACGACTAATCCAGTACCACGAAGATAATGGAGGGAAAGG
1 ACATGAATGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATAATGGAGGGAAAGG
8954994 TTTAAGCCGCAACGGCGAACCTTGTACCTCAGAA
66 TTTAAGCCGCAACGGCGAACCTTGTACCTCAGAA
* * *
8955028 ACATGAATTGAAAGGTTTAAGTCGCAACG
1 ACATGAATGGAAAGATTTAAGCCGCAACG
8955057 TTGAACCTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 116 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (99 bp):
ACATGAATGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATAATGGAGGGAAAGG
TTTAAGCCGCAACGGCGAACCTTGTACCTCAGAA
Found at i:8955088 original size:148 final size:147
Alignment explanation
Indices: 8954889--8955181 Score: 428
Period size: 148 Copynumber: 2.0 Consensus size: 147
8954879 ATAATGGAGG
* *
8954889 GAAAGGTTTAAGTTGCATCGGTGAACCTTTTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGC
1 GAAAGGTTTAAGTCGCAACGGTGAACCTTTTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGC
* * *
8954954 AACGACTAATCCAGTACCACGAAGATA-ATGGAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTG
66 AACGACGAATCCAGTACCACGAAGATACA--AAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTA
8955018 TACCTCAGAAA-CATGAATT
129 TACCTCA-AAATCATGAATT
* * *
8955037 GAAAGGTTTAAGTCGCAACGTTGAACCTTTTACCTTAGAAGCATGAAGGGAAAGATTTAAGCCGC
1 GAAAGGTTTAAGTCGCAACGGTGAACCTTTTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGC
* * * * *
8955102 GACGGCGAATCTAGTACCACGAAGATACAAAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTATA
66 AACGACGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTATA
8955167 CCTCAAAATCATGAA
131 CCTCAAAATCATGAA
8955182 GAGGAAGATT
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
146 3 0.02
147 43 0.33
148 83 0.64
149 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (147 bp):
GAAAGGTTTAAGTCGCAACGGTGAACCTTTTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGC
AACGACGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTATA
CCTCAAAATCATGAATT
Found at i:8955229 original size:147 final size:147
Alignment explanation
Indices: 8954919--8955236 Score: 358
Period size: 147 Copynumber: 2.2 Consensus size: 147
8954909 GTGAACCTTT
*
8954919 TACCTCAGAA-ACATGAAGGGAAAGATTTAAGCCGCAACGACTAATCCAGTACCACGAAGATAAT
1 TACCT-AGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATAA-
* * ** *
8954983 GGAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAACATGAATTGAAAGGTTTAA
64 GAAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTATACCTCAGAAACATGAAGAGAAAGATTTAA
** ** ***
8955048 GTCGCAACGTTGAACCTTT
129 ACCGCAACGGCGAACCAGG
* * *
8955067 TACCTTAGAAG-CATGAAGGGAAAGATTTAAGCCGCGACGGCGAATCTAGTACCACGAAGATACA
1 TACC-TAGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATA-A
* * *
8955131 -AAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTATACCTCA-AAATCATGAAGAGGAAGATTTA
64 GAAGGGAAAGGTTTAAGCCGCAACGGCGAACCTTATACCTCAGAAA-CATGAAGAGAAAGATTTA
*
8955194 AACCGCAACGGCGAATCAGG
128 AACCGCAACGGCGAACCAGG
*
8955214 TACC-ACGGAGACATGAAGGGAAA
1 TACCTA-GAAGACATGAAGGGAAA
8955237 TATTGAAGTC
Statistics
Matches: 143, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
145 1 0.01
146 6 0.04
147 79 0.55
148 55 0.38
149 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (147 bp):
TACCTAGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATAAGA
AGGGAAAGGTTTAAGCCGCAACGGCGAACCTTATACCTCAGAAACATGAAGAGAAAGATTTAAAC
CGCAACGGCGAACCAGG
Found at i:8958358 original size:23 final size:23
Alignment explanation
Indices: 8958328--8958436 Score: 130
Period size: 23 Copynumber: 4.7 Consensus size: 23
8958318 ATAGGAAATG
*
8958328 AATCTGAATCTGTTATGCATCTA
1 AATCTGTATCTGTTATGCATCTA
*
8958351 AATCTGAATCTGTTATGCATCTA
1 AATCTGTATCTGTTATGCATCTA
* *
8958374 AATCTGTATTTGTTATGCATCTG
1 AATCTGTATCTGTTATGCATCTA
* * *
8958397 ACTTTGTAT-TCGTTATGCATCTG
1 AATCTGTATCT-GTTATGCATCTA
*
8958420 AATCTGTTTCTGTTATG
1 AATCTGTATCTGTTATG
8958437 TGTCTGCTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
22 1 0.01
23 74 0.97
24 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (23 bp):
AATCTGTATCTGTTATGCATCTA
Found at i:8959758 original size:45 final size:45
Alignment explanation
Indices: 8959709--8959839 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
8959699 CATATTTTCT
8959709 CAAATACTAACTATCTTATCGTTCATATCATATAGCATGCTCAAC
1 CAAATACTAACTATCTTATCGTTCATATCATATAGCATGCTCAAC
* * **
8959754 CAAATACTAA-TCATCTTA----TAATATCATATAGCATAG-TTATT
1 CAAATACTAACT-ATCTTATCGTTCATATCATATAGCAT-GCTCAAC
* *
8959795 CAAATACTAACTATATTTTCGTTCATATCATATAGCATGCTCAAC
1 CAAATACTAACTATCTTATCGTTCATATCATATAGCATGCTCAAC
8959840 AAAAAATAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
41 31 0.46
42 2 0.03
44 2 0.03
45 33 0.49
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (45 bp):
CAAATACTAACTATCTTATCGTTCATATCATATAGCATGCTCAAC
Found at i:8959839 original size:86 final size:85
Alignment explanation
Indices: 8959694--8959856 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 85
8959684 AAGCACATCT
* * *
8959694 TATAGCATATTTTCTCAAATACTAACTATCTTATCGTTCATATCATATAGCATGCTCAACCAAAT
1 TATAGCATATTATCTCAAATACTAACTATATTATCGTTCATATCATATAGCATGCTCAA-CAAAA
* *
8959759 ACTAATCATCTTATAATATCA
65 AATAATCAGCTTATAATATCA
*
8959780 TATAGCATAGTTAT-TCAAATACTAACTATATTTTCGTTCATATCATATAGCATGCTCAACAAAA
1 TATAGCATA-TTATCTCAAATACTAACTATATTATCGTTCATATCATATAGCATGCTCAACAAAA
8959844 AATAATCAGCTTA
65 AATAATCAGCTTA
8959857 CCATTCATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
85 15 0.21
86 52 0.74
87 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (85 bp):
TATAGCATATTATCTCAAATACTAACTATATTATCGTTCATATCATATAGCATGCTCAACAAAAA
ATAATCAGCTTATAATATCA
Found at i:8963263 original size:73 final size:73
Alignment explanation
Indices: 8963144--8963289 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
8963134 GTTTACTTGA
*
8963144 TATAATTAGTAATATAAAAGTATCTTTCCAAGCAATGTGGCTTTCATTCCGAATGAAACCAAGCT
1 TATAATTAGTAATATAAAAGTATCTTTCCAAGCAATGTGGCTTTCATTCCAAATGAAACCAAGCT
8963209 ATAATGAG
66 ATAATGAG
8963217 TATAATTAGTAATATAAAAGTATCTTTCCAAGCAATGTGGCTTTCATTCCAAATGAAACCAAGCT
1 TATAATTAGTAATATAAAAGTATCTTTCCAAGCAATGTGGCTTTCATTCCAAATGAAACCAAGCT
8963282 ATAATGAG
66 ATAATGAG
8963290 AGGAACTATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (73 bp):
TATAATTAGTAATATAAAAGTATCTTTCCAAGCAATGTGGCTTTCATTCCAAATGAAACCAAGCT
ATAATGAG
Found at i:8964572 original size:24 final size:24
Alignment explanation
Indices: 8964540--8964588 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8964530 CAAGAACGAA
8964540 AACAATGTTGCAAGCCTAAATTTC
1 AACAATGTTGCAAGCCTAAATTTC
8964564 AACAATGTTGCAAGCCTAAATTTC
1 AACAATGTTGCAAGCCTAAATTTC
8964588 A
1 A
8964589 TTTTATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (24 bp):
AACAATGTTGCAAGCCTAAATTTC
Found at i:8968003 original size:43 final size:41
Alignment explanation
Indices: 8967955--8968042 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 41
8967945 ATTATATTGT
* * *
8967955 TGTTTTAGTGCTGTTCTTTTACTGTTTTGATTGCTTTTTTTGC
1 TGTTTTAGTACTGTTCTTTTACTGTTTTG-GTG-TTGTTTTGC
* * *
8967998 TGTTTTGGTATTGTTTTTTTACTGTTTTGGTGTTGTTTTGC
1 TGTTTTAGTACTGTTCTTTTACTGTTTTGGTGTTGTTTTGC
8968039 TGTT
1 TGTT
8968043 ATTTTTATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 12 0.31
42 2 0.05
43 25 0.64
ACGTcount: A:0.06, C:0.08, G:0.22, T:0.65
Consensus pattern (41 bp):
TGTTTTAGTACTGTTCTTTTACTGTTTTGGTGTTGTTTTGC
Found at i:8968017 original size:22 final size:22
Alignment explanation
Indices: 8967966--8968036 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
8967956 GTTTTAGTGC
*
8967966 TGTTCTTTTACTGTTTT-G-AT
1 TGTTTTTTTACTGTTTTGGTAT
*
8967986 TGCTTTTTTTGCTGTTTTGGTAT
1 TG-TTTTTTTACTGTTTTGGTAT
*
8968009 TGTTTTTTTACTGTTTTGGTGT
1 TGTTTTTTTACTGTTTTGGTAT
8968031 TGTTTT
1 TGTTTT
8968037 GCTGTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.05
21 13 0.30
22 25 0.57
23 4 0.09
ACGTcount: A:0.06, C:0.07, G:0.20, T:0.68
Consensus pattern (22 bp):
TGTTTTTTTACTGTTTTGGTAT
Found at i:8968060 original size:43 final size:43
Alignment explanation
Indices: 8967966--8968060 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
8967956 GTTTTAGTGC
* * *
8967966 TGTTCTTTTACTGTTTTGATTGCTTTTTTTGCTGTTTTGGTAT
1 TGTTTTTTTACTGTTTTGAGTGCTTGTTTTGCTGTTTTGGTAT
**
8968009 TGTTTTTTTACTGTTTTG-GTG-TTGTTTTGCTGTTATTTTTAT
1 TGTTTTTTTACTGTTTTGAGTGCTTGTTTTGCTGTT-TTGGTAT
8968051 TGTTATTTTT
1 TGTT-TTTTT
8968061 TTGTTTTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 12 0.27
42 11 0.24
43 22 0.49
ACGTcount: A:0.07, C:0.06, G:0.18, T:0.68
Consensus pattern (43 bp):
TGTTTTTTTACTGTTTTGAGTGCTTGTTTTGCTGTTTTGGTAT
Found at i:8968098 original size:43 final size:41
Alignment explanation
Indices: 8968045--8968132 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 41
8968035 TTGCTGTTAT
* *
8968045 TTTTATTGTTATTTTT-TTGTTTTA-CTGTTATTTTTACTGCTG
1 TTTTATTGTTATTTTTGTT-ATTTAGATGTTATTTTTA-TGC-G
8968087 TTTTAGTTGTTATTTTTGTTATTTAGATGTTATTTTTATGCG
1 TTTTA-TTGTTATTTTTGTTATTTAGATGTTATTTTTATGCG
8968129 TTTT
1 TTTT
8968133 TACTATTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 10 0.24
43 18 0.44
44 13 0.32
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.68
Consensus pattern (41 bp):
TTTTATTGTTATTTTTGTTATTTAGATGTTATTTTTATGCG
Found at i:8969275 original size:13 final size:14
Alignment explanation
Indices: 8969248--8969277 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
8969238 AAAATCCTTA
8969248 AAAATAAGCAAAAT
1 AAAATAAGCAAAAT
8969262 AAAATAAG-AAAAT
1 AAAATAAGCAAAAT
8969275 AAA
1 AAA
8969278 TATTAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (14 bp):
AAAATAAGCAAAAT
Found at i:8969698 original size:22 final size:23
Alignment explanation
Indices: 8969657--8969718 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
8969647 GCGATCTGAG
*
8969657 GAAAAATAAAAG-AAACAGAATT
1 GAAAAATAAAAGAAAATAGAATT
8969679 -AAAAATAAAAGAAAATAGAATT
1 GAAAAATAAAAGAAAATAGAATT
* *
8969701 GAAAGA-AATAGAAAATAG
1 GAAAAATAAAAGAAAATAG
8969719 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.31
22 20 0.57
23 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.15, T:0.15
Consensus pattern (23 bp):
GAAAAATAAAAGAAAATAGAATT
Found at i:8972082 original size:4 final size:4
Alignment explanation
Indices: 8972073--8972121 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
8972063 TCCTGGACAA
*
8972073 AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGAA- AAAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AAA
8972122 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 2 0.05
4 28 0.72
5 8 0.21
6 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:8972122 original size:8 final size:8
Alignment explanation
Indices: 8972071--8972132 Score: 70
Period size: 8 Copynumber: 7.4 Consensus size: 8
8972061 TTTCCTGGAC
8972071 AAAAATAA
1 AAAAATAA
*
8972079 ATAAATAA
1 AAAAATAA
*
8972087 ATAAATAA
1 AAAAATAA
*
8972095 AATAAGATAG
1 AA-AA-ATAA
8972105 AAAAATAA
1 AAAAATAA
8972113 AAAAATAAA
1 AAAAAT-AA
8972122 AAAAATAA
1 AAAAATAA
8972130 AAA
1 AAA
8972133 TTGATTAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
8 30 0.64
9 12 0.26
10 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (8 bp):
AAAAATAA
Found at i:8973671 original size:2 final size:2
Alignment explanation
Indices: 8973664--8973732 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
8973654 TTTACATACG
8973664 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
8973706 TA TA TA 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 T
8973733 TCTTTTTGTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8973751 original size:11 final size:11
Alignment explanation
Indices: 8973735--8973759 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8973725 ATATATATTC
8973735 TTTTTGTTTTT
1 TTTTTGTTTTT
8973746 TTTTTGTTTTT
1 TTTTTGTTTTT
8973757 TTT
1 TTT
8973760 AAGACACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:8974504 original size:6 final size:6
Alignment explanation
Indices: 8974495--8974567 Score: 80
Period size: 6 Copynumber: 12.2 Consensus size: 6
8974485 TTTGAATTTT
*
8974495 TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A TTTAAA TTTAAA
*
8974543 TTTAAA TTTAAA TTTAAA TTAAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
8974568 ACTAAAGTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 42 0.72
7 2 0.03
8 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:8974516 original size:17 final size:16
Alignment explanation
Indices: 8974496--8974558 Score: 85
Period size: 17 Copynumber: 3.9 Consensus size: 16
8974486 TTGAATTTTT
8974496 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTA-C
*
8974513 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAC
8974529 TT--ATTTAAATTTAC
1 TTAAATTTAAATTTAC
8974543 TTTAAATTTAAATTTA
1 -TTAAATTTAAATTTA
8974559 AATTAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 11 0.27
15 2 0.05
16 2 0.05
17 26 0.63
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTTAC
Found at i:8974536 original size:31 final size:31
Alignment explanation
Indices: 8974500--8974559 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
8974490 ATTTTTTTAA
8974500 ATTTAAATTTA-TCTTAAATTTAAATTTAATT
1 ATTTAAATTTACT-TTAAATTTAAATTTAATT
8974531 ATTTAAATTTACTTTAAATTTAAATTTAA
1 ATTTAAATTTACTTTAAATTTAAATTTAA
8974560 ATTAAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTAATT
Found at i:8976508 original size:30 final size:30
Alignment explanation
Indices: 8976472--8976738 Score: 403
Period size: 30 Copynumber: 8.9 Consensus size: 30
8976462 AAATTATCCA
8976472 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
8976502 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* *
8976532 AAAATTATACTTTGACCCCAAAAC-TTTCT
1 AAAATTATATTTTGACCCCAAAACTTTTCC
*
8976561 ACAAATTACATTTTGACCCCAAAACTTTTCC
1 A-AAATTATATTTTGACCCCAAAACTTTTCC
*
8976592 AAAATTATATTTTGACCCTAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
*
8976622 AAAATTATATTTTGACCCTAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* *
8976652 AAAATTATATTTTGACCCTAAAAC-TTTCT
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* *
8976681 GAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCC
* * *
8976711 AAAATCATATTTTAACCCCAAAATTTTT
1 AAAATTATATTTTGACCCCAAAACTTTT
8976739 GAAAATTGCA
Statistics
Matches: 217, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
29 30 0.14
30 182 0.84
31 5 0.02
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTATATTTTGACCCCAAAACTTTTCC
Found at i:8988678 original size:39 final size:39
Alignment explanation
Indices: 8988571--8988680 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 39
8988561 CAGACCAAAC
* *
8988571 AAGATCATTTCCAATCCGCTTGAAATTGAAGTA-GAGTA
1 AAGATCATCTCCAATCCGCTTGAAATTGAAGTAGGAGCA
* * * * *
8988609 GATAACAAGTCTTC-AT-CTC-TGAAATTGAAGTAGGAGCA
1 AAGATC-A-TCTCCAATCCGCTTGAAATTGAAGTAGGAGCA
8988647 AAGATCATCTCCAATCCGCTTGAAATTGAAGTAG
1 AAGATCATCTCCAATCCGCTTGAAATTGAAGTAG
8988681 AGTGGATAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
36 4 0.07
37 16 0.30
38 14 0.26
39 17 0.31
40 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (39 bp):
AAGATCATCTCCAATCCGCTTGAAATTGAAGTAGGAGCA
Found at i:8988697 original size:76 final size:70
Alignment explanation
Indices: 8988589--8989271 Score: 893
Period size: 68 Copynumber: 9.8 Consensus size: 70
8988579 TTCCAATCCG
* * * * *
8988589 CTTGAAATTGAAGTAGAGTAGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAAGATCA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TCA
8988654 TCTCCAATCC
65 --TCC--TCC
* * *
8988664 GCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAGGAGCAAAGATC
1 -CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TC
* **
8988729 TTTTCCTGATTG
64 --ATCC---TCC
* *
8988741 CTTGAAATTGAAGTAGAGTGGATAACACGCCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
8988806 CCT--
66 CCTCC
*
8988809 CTTGAAATTGAGGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
8988874 CCT--
66 CCTCC
* *
8988877 CTTGAAATTGAGGTAGAGTGGATAACACGTCTTTATCTCCGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
8988942 -C-CC
66 CCTCC
*
8988945 CTTGAAACTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
8989010 -C-CC
66 CCTCC
8989013 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
8989078 CCT--
66 CCTCC
*
8989081 CTTGAAA-T----T-GAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
8989140 CCT--
66 CCTCC
* * * *
8989143 CTTGAAATTGAAGTAAAGATTGGACAACACGTCTTTATCTCTAAAATTAAAGTAAGAGCAACGTC
1 CTTGAAATTGAAGT--AGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
8989208 AT-C-CC
64 ATCCTCC
*
8989213 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
8989272 GATCATTTCC
Statistics
Matches: 559, Mismatches: 31, Indels: 42
0.88 0.05 0.07
Matches are distributed among these distances:
62 59 0.11
63 2 0.00
67 3 0.01
68 305 0.55
69 2 0.00
70 60 0.11
73 3 0.01
75 2 0.00
76 121 0.22
77 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (70 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CCTCC
Found at i:8989717 original size:6 final size:6
Alignment explanation
Indices: 8989708--8989780 Score: 80
Period size: 6 Copynumber: 12.2 Consensus size: 6
8989698 TTTGAATTTT
*
8989708 TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A TTTAAA TTTAAA
*
8989756 TTTAAA TTTAAA TTTAAA TTAAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
8989781 ACTAAAGTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 42 0.72
7 2 0.03
8 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:8989729 original size:17 final size:16
Alignment explanation
Indices: 8989709--8989771 Score: 85
Period size: 17 Copynumber: 3.9 Consensus size: 16
8989699 TTGAATTTTT
8989709 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTA-C
*
8989726 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAC
8989742 TT--ATTTAAATTTAC
1 TTAAATTTAAATTTAC
8989756 TTTAAATTTAAATTTA
1 -TTAAATTTAAATTTA
8989772 AATTAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 11 0.27
15 2 0.05
16 2 0.05
17 26 0.63
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTTAC
Found at i:8989749 original size:31 final size:31
Alignment explanation
Indices: 8989713--8989772 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
8989703 ATTTTTTTAA
8989713 ATTTAAATTTA-TCTTAAATTTAAATTTAATT
1 ATTTAAATTTACT-TTAAATTTAAATTTAATT
8989744 ATTTAAATTTACTTTAAATTTAAATTTAA
1 ATTTAAATTTACTTTAAATTTAAATTTAA
8989773 ATTAAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTAATT
Found at i:8990860 original size:24 final size:23
Alignment explanation
Indices: 8990815--8990861 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8990805 ATAAAAATAT
*
8990815 AATAAAAAGGTTCGTTTTAAAAA
1 AATAAAAAGGATCGTTTTAAAAA
*
8990838 AATAAAAAGGGAT-GTTTTGAAAA
1 AATAAAAA-GGATCGTTTTAAAAA
8990861 A
1 A
8990862 TCCCAGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.17, T:0.28
Consensus pattern (23 bp):
AATAAAAAGGATCGTTTTAAAAA
Found at i:8991736 original size:30 final size:30
Alignment explanation
Indices: 8991700--8992079 Score: 423
Period size: 30 Copynumber: 12.8 Consensus size: 30
8991690 AAATTGTCCA
*
8991700 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCTAAAACTTTTCC
*
8991730 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCTAAAACTTTTCC
* * *
8991760 AAAATTATACTTTAACCCTAAAAC-TTTCTA
1 AAAATTATATTTTGACCCTAAAACTTTTC-C
* *
8991790 AAAATTACA-TTTGACCCTAAAACTTTTCA
1 AAAATTATATTTTGACCCTAAAACTTTTCC
* * *
8991819 AAAATTATAGTTTAACCCTAAAAC-TTTCTA
1 AAAATTATATTTTGACCCTAAAACTTTTC-C
* *
8991849 AAAATTACATTTTGA-CCTCAAAACTTTTTC
1 AAAATTATATTTTGACCCT-AAAACTTTTCC
* *
8991879 AAAATTATATTTTAACCCTAAAAC-TTTCTA
1 AAAATTATATTTTGACCCTAAAACTTTTC-C
* * *
8991909 AAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAATTATATTTTGACCCTAAAACTTTTCC
*
8991939 AAAATTATATTTTGACCCTAAAACTTTT-T
1 AAAATTATATTTTGACCCTAAAACTTTTCC
* * *
8991968 GAAATTACATTTTGACCCTAAAACTTTT-T
1 AAAATTATATTTTGACCCTAAAACTTTTCC
* * *
8991997 AAAATTACATTTTAACCTTAAAACTTTTCC
1 AAAATTATATTTTGACCCTAAAACTTTTCC
* *
8992027 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTGACCCTAAAACTTTTCC
* *
8992057 AAAATCATATTTTGACCCCAAAA
1 AAAATTATATTTTGACCCTAAAA
8992080 TTTCTGAAAA
Statistics
Matches: 308, Mismatches: 32, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
29 89 0.29
30 209 0.68
31 10 0.03
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATTATATTTTGACCCTAAAACTTTTCC
Found at i:8991783 original size:60 final size:60
Alignment explanation
Indices: 8991700--8992098 Score: 504
Period size: 60 Copynumber: 6.7 Consensus size: 60
8991690 AAATTGTCCA
* * * *
8991700 AAAATTATATTTTGACCCCAAAACTTT-TCCAAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTAACCCTAAAACTTTCT-AAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
8991760 AAAATTATACTTTAACCCTAAAACTTTCTAAAAATTACA-TTTGACCCTAAAACTTTTCA
1 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
8991819 AAAATTATAGTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCTCAAAACTTTTTC
1 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
8991879 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTCT
1 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
* ** * *
8991939 AAAATTATATTTTGACCCTAAAACTTT-TTGAAATTACATTTTGACCCTAAAACTTTT-T
1 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
8991997 AAAATTACATTTTAACCTTAAAACTTT-TCCAAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTATATTTTAACCCTAAAACTTTCT-AAAAATTACATTTTGACCCCAAAACTTTTCC
* * * * *
8992057 AAAATCATATTTTGACCCCAAAA-TTTCTGAAAATTGCATTTT
1 AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTT
8992099 TACTCTGAAA
Statistics
Matches: 298, Mismatches: 36, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
58 26 0.09
59 124 0.42
60 147 0.49
61 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (60 bp):
AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:8991824 original size:59 final size:60
Alignment explanation
Indices: 8991698--8992118 Score: 500
Period size: 59 Copynumber: 7.1 Consensus size: 60
8991688 CTAAATTGTC
* * * * *
8991698 CAAAAATTATATTTTGACCCCAAAACTTT-TCCAAAATTATATTTTGACCCCAAAACTTTT
1 CAAAAATTATATTTTAACCCTAAAACTTTCT-AAAAATTACATTTTGACCCTAAAACTTTT
* *
8991758 CCAAAATTATACTTTAACCCTAAAACTTTCTAAAAATTACA-TTTGACCCTAAAACTTTT
1 CAAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTT
*
8991817 CAAAAATTATAGTTTAACCCTAAAACTTTCTAAAAATTACATTTTGA-CCTCAAAACTTTTT
1 CAAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCT-AAAAC-TTTT
*
8991878 C-AAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTT
1 CAAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTT
* * **
8991937 CTAAAATTATATTTTGACCCTAAAACTTT-TTGAAATTACATTTTGACCCTAAAACTTTT
1 CAAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTT
* * * * *
8991996 -TAAAATTACATTTTAACCTTAAAACTTT-TCCAAAATTACATTTTGACCCCAAAACTTTT
1 CAAAAATTATATTTTAACCCTAAAACTTTCT-AAAAATTACATTTTGACCCTAAAACTTTT
* * * * * * * * *
8992055 CCAAAATCATATTTTGACCCCAAAA-TTTCTGAAAATTGCATTTTTACTCTGAAAC-TTT
1 CAAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTT
8992113 CAAAAA
1 CAAAAA
8992119 AATACCATTT
Statistics
Matches: 318, Mismatches: 34, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
58 34 0.11
59 139 0.44
60 136 0.43
61 9 0.03
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (60 bp):
CAAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTT
Found at i:8992189 original size:58 final size:59
Alignment explanation
Indices: 8992116--8992252 Score: 170
Period size: 58 Copynumber: 2.3 Consensus size: 59
8992106 AAACTTTCAA
* * *
8992116 AAAAATACCATTTTTACCCCT-AAACTTCCCTAAATCCCATTTTAAACCTCGATTTCACT
1 AAAATTACCA-TTTTACCCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* * * *
8992175 AAAATTACCATTTTA-CCCTCAAACTTCCTTAAATCTCATTTTTAACCCCGATTTCCCC
1 AAAATTACCATTTTACCCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
*
8992233 AAAATCTACCATTTTGCCCC
1 AAAAT-TACCATTTTACCCC
8992253 CGAGTATCCA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 4 0.06
58 42 0.63
59 18 0.27
60 3 0.04
ACGTcount: A:0.31, C:0.32, G:0.02, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:8998678 original size:30 final size:30
Alignment explanation
Indices: 8998594--8998678 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 30
8998584 AACCATGCAT
* * *
8998594 TACAAACA-AAATTGAACCATCCATCAAAT
1 TACAAACATCAATTAAACCATCCATCAAAA
***
8998623 TACAAACATCAA-TAAAGTGTCCATCAAAA
1 TACAAACATCAATTAAACCATCCATCAAAA
*
8998652 TACAACCATCAATTAAACCATCCATCA
1 TACAAACATCAATTAAACCATCCATCA
8998679 TCAAAATACA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 31 0.70
30 13 0.30
ACGTcount: A:0.49, C:0.26, G:0.04, T:0.21
Consensus pattern (30 bp):
TACAAACATCAATTAAACCATCCATCAAAA
Found at i:8999208 original size:24 final size:24
Alignment explanation
Indices: 8999176--8999221 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8999166 CAACAGTTTG
8999176 AGAAAGAGCTAGTGGAGCAGGATC
1 AGAAAGAGCTAGTGGAGCAGGATC
* *
8999200 AGAAGGAGCTGGTGGAGCAGGA
1 AGAAAGAGCTAGTGGAGCAGGA
8999222 GTTGCTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.11, G:0.43, T:0.11
Consensus pattern (24 bp):
AGAAAGAGCTAGTGGAGCAGGATC
Found at i:8999336 original size:24 final size:24
Alignment explanation
Indices: 8999301--8999347 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8999291 TGGTTGAGAT
8999301 GTAGTCTACAAATTAAAAATGTTA
1 GTAGTCTACAAATTAAAAATGTTA
*
8999325 GTAGTTCT-CAAATTAAACATGTT
1 GTAG-TCTACAAATTAAAAATGTT
8999348 TTGCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (24 bp):
GTAGTCTACAAATTAAAAATGTTA
Found at i:9000523 original size:36 final size:34
Alignment explanation
Indices: 9000459--9000584 Score: 112
Period size: 36 Copynumber: 3.5 Consensus size: 34
9000449 CATACATAAT
*
9000459 ATACAAATATA-ATAATAATATAACACATAACAAAC
1 ATACAAATATACATAAT-ATA-AATACATAACAAAC
* *
9000494 ATACAAATATACATAATAGTAAATAACATAGCATAC
1 ATACAAATATACATAATA-TAAAT-ACATAACAAAC
*
9000530 ATACAAATATACA-AACATAACATACATACATCACATAC
1 ATACAAATATACATAATATAA-ATACATA-A-CA-A-AC
9000568 ATACATAATATACATAA
1 ATACA-AATATACATAA
9000585 CAGTTTAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
34 8 0.11
35 19 0.25
36 31 0.41
38 7 0.09
39 8 0.11
40 2 0.03
ACGTcount: A:0.58, C:0.17, G:0.02, T:0.24
Consensus pattern (34 bp):
ATACAAATATACATAATATAAATACATAACAAAC
Found at i:9000534 original size:4 final size:4
Alignment explanation
Indices: 9000519--9000574 Score: 58
Period size: 4 Copynumber: 13.2 Consensus size: 4
9000509 ATAGTAAATA
* * *
9000519 ACAT AGCAT ACAT ACAA ATAT ACAA ACAT AACAT ACAT ACAT CACAT ACAT
1 ACAT A-CAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT -ACAT ACAT
9000570 ACAT A
1 ACAT A
9000575 ATATACATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 31 0.72
5 12 0.28
ACGTcount: A:0.54, C:0.23, G:0.02, T:0.21
Consensus pattern (4 bp):
ACAT
Found at i:9000560 original size:13 final size:13
Alignment explanation
Indices: 9000519--9000583 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
9000509 ATAGTAAATA
*
9000519 ACATAGCATACAT
1 ACATAACATACAT
* *
9000532 ACA-AATATACAA
1 ACATAACATACAT
9000544 ACATAACATACAT
1 ACATAACATACAT
*
9000557 ACATCACATACAT
1 ACATAACATACAT
*
9000570 ACATAATATACAT
1 ACATAACATACAT
9000583 A
1 A
9000584 ACAGTTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
12 9 0.21
13 34 0.79
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.23
Consensus pattern (13 bp):
ACATAACATACAT
Found at i:9001577 original size:41 final size:40
Alignment explanation
Indices: 9001512--9001653 Score: 176
Period size: 41 Copynumber: 3.5 Consensus size: 40
9001502 GCTAAAGATG
* * * * * * *
9001512 AAAGCGCTGCTAAAGATCAGAGCATTAACAACGATTTTGGA
1 AAAGCGCCGCTAAAGGTCA-AGCATTAGCGACGCTTATGGT
9001553 AAAGCGCCGCTAAAGGTCGAAGCATTAGCGACGCTTATGGT
1 AAAGCGCCGCTAAAGGTC-AAGCATTAGCGACGCTTATGGT
9001594 AAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTATGGT
1 AAAGCGCCGCTAAAGGTC-AAGCATTAGCGACGCTTATGGT
* *
9001635 AAAGCGTCACTAAAGGTCA
1 AAAGCGCCGCTAAAGGTCA
9001654 GAGTAATAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 88 0.98
42 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (40 bp):
AAAGCGCCGCTAAAGGTCAAGCATTAGCGACGCTTATGGT
Found at i:9003261 original size:42 final size:41
Alignment explanation
Indices: 9003187--9003345 Score: 137
Period size: 41 Copynumber: 3.8 Consensus size: 41
9003177 TTTTTCCCAT
* *
9003187 AAACACCGCTAAAGGT-AAAGCATTAGCGGCGTTTATGGGGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGC-GCGTTTATGGGGA
****
9003228 AAACGCCGCTAAAGGTCAGAGCATTAGCTGCGTTT-TCTCAA
1 AAACGCCGCTAAAGGTCAGAGCATTAGC-GCGTTTATGGGGA
* *
9003269 AAACGTCG-TAAAAGATCTAGAGCATTAGCGTCGTTTATGGGGA
1 AAACGCCGCT-AAAGGTC-AGAGCATTAGCG-CGTTTATGGGGA
* * *
9003312 AAACGTCGCTAAAGGTTA-AGCAATAGCGACGTTT
1 AAACGCCGCTAAAGGTCAGAGCATTAGCG-CGTTT
9003346 TCCCATAAAC
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 45 0.47
42 33 0.35
43 15 0.16
44 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (41 bp):
AAACGCCGCTAAAGGTCAGAGCATTAGCGCGTTTATGGGGA
Found at i:9003519 original size:47 final size:47
Alignment explanation
Indices: 9003450--9003547 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 47
9003440 CCCGAACTCT
9003450 AAATTTCTTCAATCCTTAATTCTTAATTTCTCCTCTCTCAAAACCTC
1 AAATTTCTTCAATCCTTAATTCTTAATTTCTCCTCTCTCAAAACCTC
*
9003497 AAATTTC-TCTAAT-CTCTAATTCTTAATTTCTCCTCTCTCAAAACCTT
1 AAATTTCTTC-AATCCT-TAATTCTTAATTTCTCCTCTCTCAAAACCTC
9003544 AAAT
1 AAAT
9003548 CCTAGATTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
46 4 0.08
47 44 0.92
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.43
Consensus pattern (47 bp):
AAATTTCTTCAATCCTTAATTCTTAATTTCTCCTCTCTCAAAACCTC
Found at i:9003544 original size:23 final size:23
Alignment explanation
Indices: 9003471--9003545 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
9003461 ATCCTTAATT
9003471 CTTAATTTCTCCTCTCTCAAAAC
1 CTTAATTTCTCCTCTCTCAAAAC
* * * **
9003494 CTCAAATTTCT-CTAATCTCTAATT
1 CT-TAATTTCTCCT-CTCTCAAAAC
9003518 CTTAATTTCTCCTCTCTCAAAAC
1 CTTAATTTCTCCTCTCTCAAAAC
9003541 CTTAA
1 CTTAA
9003546 ATCCTAGATT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
23 22 0.56
24 17 0.44
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (23 bp):
CTTAATTTCTCCTCTCTCAAAAC
Found at i:9009669 original size:21 final size:21
Alignment explanation
Indices: 9009645--9009685 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9009635 AACTTAAAGC
9009645 GGAGGCAGCAGCAAGGGAAGT
1 GGAGGCAGCAGCAAGGGAAGT
* *
9009666 GGAGGTAGCAGCGAGGGAAG
1 GGAGGCAGCAGCAAGGGAAG
9009686 CGAGGGAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.51, T:0.05
Consensus pattern (21 bp):
GGAGGCAGCAGCAAGGGAAGT
Found at i:9010053 original size:43 final size:43
Alignment explanation
Indices: 9009990--9010125 Score: 166
Period size: 43 Copynumber: 3.2 Consensus size: 43
9009980 ATCTGTTAAT
* * * * * *
9009990 TTTAGCTGCGTTTATAGGAAAAGCGTCGCTAAAGACCATATTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
9010033 TTTAGCGGCGTTTGTGGG-AAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
** * *
9010075 TTTAGCGATGTTTGTGGGAAAAATGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
*
9010118 TATAGCGG
1 TTTAGCGG
9010126 TATTTTTCCA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 37 0.46
43 43 0.54
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
Found at i:9010076 original size:42 final size:43
Alignment explanation
Indices: 9010016--9010125 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 43
9010006 GGAAAAGCGT
* *
9010016 CGCTAAAGACCATATTCTTTAGCGGCGTTTGTGGG-AAAGTGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAATGC
**
9010058 CGCTAAAGACCATGTTCTTTAGCGATGTTTGTGGGAAAAATGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAATGC
* *
9010101 CGCTAAAGATCATGTTCTATAGCGG
1 CGCTAAAGACCATGTTCTTTAGCGG
9010126 TATTTTTCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 32 0.53
43 28 0.47
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAATGC
Found at i:9020224 original size:29 final size:31
Alignment explanation
Indices: 9020182--9020277 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 31
9020172 TAATATGTAC
* *
9020182 TTTTATAATTTTTAAAAAATTAAATTA-AAT
1 TTTTATTATTTTTAAAAAATTAAAATATAAT
*
9020212 TTTTATTA-TTTTAATAAATTAAAATATAAT
1 TTTTATTATTTTTAAAAAATTAAAATATAAT
*
9020242 TTTATATTTATTAATTTAAAAATTTACAAATTATAA
1 TTT-TA-TTATT--TTTAAAAAATTA-AAA-TATAA
9020278 CATACATCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
29 16 0.30
30 13 0.25
31 2 0.04
32 3 0.06
33 1 0.02
35 10 0.19
36 3 0.06
37 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTTATTATTTTTAAAAAATTAAAATATAAT
Found at i:9021021 original size:20 final size:19
Alignment explanation
Indices: 9020996--9021045 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
9020986 ATATAGAGAG
9020996 AATTATTAGAAACATATAAA
1 AATTATTAGAAA-ATATAAA
*
9021016 AATTATTATAAAATATAAA
1 AATTATTAGAAAATATAAA
9021035 AA-TA-TAGAAAA
1 AATTATTAGAAAA
9021046 AAATATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 9 0.32
20 11 0.39
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTATTAGAAAATATAAA
Found at i:9021036 original size:50 final size:47
Alignment explanation
Indices: 9020982--9021084 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 47
9020972 AAAATGTAAA
* * *
9020982 AAAAATATAGAGAGAATTATTAGAAACATATAAAAATTATTATAAAA-TAT
1 AAAAATATAGAAAAAAATATTAGAAAC-TAT---AATTATTATAAAAGTAT
*
9021032 AAAAATATAGAAAAAAATATTATAAACTATAATTATTATAAAATGTAT
1 AAAAATATAGAAAAAAATATTAGAAACTATAATTATTATAAAA-GTAT
9021080 AAAAA
1 AAAAA
9021085 AAATTTGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
46 13 0.28
48 8 0.17
49 3 0.06
50 23 0.49
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (47 bp):
AAAAATATAGAAAAAAATATTAGAAACTATAATTATTATAAAAGTAT
Done.