Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 53 of 131
Found at i:10940738 original size:16 final size:14
Alignment explanation
Indices: 10940717--10940750 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10940707 ATTTTCACAA
* *
10940717 TTTTCTCTTTGTTT
1 TTTTTTCTTTTTTT
10940731 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
10940745 TTTTTT
1 TTTTTT
10940751 AAATGAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:10940750 original size:14 final size:14
Alignment explanation
Indices: 10940717--10940749 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
10940707 ATTTTCACAA
*
10940717 TTTTCTCTTTGTTT
1 TTTTTTCTTTGTTT
10940731 TTTTTTCTTT-TTT
1 TTTTTTCTTTGTTT
10940744 TTTTTT
1 TTTTTT
10940750 TAAATGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTGTTT
Found at i:10942867 original size:21 final size:22
Alignment explanation
Indices: 10942842--10942884 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10942832 CCTACTAATA
*
10942842 TTTAATAATTTTA-AATTATTT
1 TTTAATAATTTTATAAATATTT
*
10942863 TTTAATATTTTTATAAATATTT
1 TTTAATAATTTTATAAATATTT
10942885 AGCCATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTAATAATTTTATAAATATTT
Found at i:10943996 original size:21 final size:21
Alignment explanation
Indices: 10943966--10944010 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
10943956 GTTAAAAAGG
* *
10943966 AAAAAATTTT-GGGTTTTAAA
1 AAAAAATTTTAGGATATTAAA
10943986 AAAATAATTTTAGGATATTAAA
1 AAAA-AATTTTAGGATATTAAA
10944008 AAA
1 AAA
10944011 GATGAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (21 bp):
AAAAAATTTTAGGATATTAAA
Found at i:10944648 original size:12 final size:13
Alignment explanation
Indices: 10944615--10944648 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10944605 TATTAATTTT
10944615 AAATTATTTATAA
1 AAATTATTTATAA
10944628 AAATATATTT-TAA
1 AAAT-TATTTATAA
10944641 AAATTATT
1 AAATTATT
10944649 AAATTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTATAA
Found at i:10946240 original size:18 final size:18
Alignment explanation
Indices: 10946204--10946254 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
10946194 ATCGAATTCC
*
10946204 ATGA-ATAAAAATGAAAT
1 ATGATATAAAAATTAAAT
* *
10946221 ATTATATAAAAATTACAT
1 ATGATATAAAAATTAAAT
*
10946239 ATGATAAAAACAATTA
1 ATGATATAAA-AATTA
10946255 TTAATTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (18 bp):
ATGATATAAAAATTAAAT
Found at i:10949256 original size:32 final size:31
Alignment explanation
Indices: 10949216--10949275 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
10949206 AGGCCATCAC
10949216 TAAAGTAGACATTGCTATTAGTAGGGTTTAT
1 TAAAGTAGACATTGCTATTAGTAGGGTTTAT
*
10949247 TAAAGGTAGACATTGTTATTAGTAGGGTT
1 TAAA-GTAGACATTGCTATTAGTAGGGTT
10949276 CGTTAGAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (31 bp):
TAAAGTAGACATTGCTATTAGTAGGGTTTAT
Found at i:10949286 original size:32 final size:32
Alignment explanation
Indices: 10949216--10949286 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
10949206 AGGCCATCAC
*
10949216 TAAA-GTAGACATTGCTATTAGTAGGGTTTAT
1 TAAAGGTAGACATTGCTATTAGTAGGGTTCAT
* *
10949247 TAAAGGTAGACATTGTTATTAGTAGGGTTCGT
1 TAAAGGTAGACATTGCTATTAGTAGGGTTCAT
*
10949279 TAGAGGTA
1 TAAAGGTA
10949287 TTTGATTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (32 bp):
TAAAGGTAGACATTGCTATTAGTAGGGTTCAT
Found at i:10955168 original size:13 final size:13
Alignment explanation
Indices: 10955138--10955180 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10955128 CATTTATTTT
*
10955138 ATATAATATATAAC
1 ATATAA-ATATAAA
* *
10955152 ATATTAGTATAAA
1 ATATAAATATAAA
10955165 ATATAAATATAAA
1 ATATAAATATAAA
10955178 ATA
1 ATA
10955181 ACTGCTACAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (13 bp):
ATATAAATATAAA
Found at i:10956517 original size:5 final size:5
Alignment explanation
Indices: 10956507--10956548 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
10956497 TCAAAAATTG
10956507 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
10956549 GAAAAAAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:10966751 original size:59 final size:60
Alignment explanation
Indices: 10966688--10967090 Score: 466
Period size: 59 Copynumber: 6.7 Consensus size: 60
10966678 TCTTGTGTAG
** *
10966688 GGAAAATTGATACTTTCAACTTTT-TTCAAAAATTATTTTTTTTTGAAATTT-CTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTTGAAATTTGATTTTTAA
* * *
10966747 GGAAAATTGATACTTTTAACTTTTTCCCAAAAATATTTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTTGATTTTTAA
* * *
10966808 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTAAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTTT-GAAATTTGATTTTTAA
* * * *
10966870 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTCGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTG-AAA-TTTGATTTTTAA
10966929 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGAAAATTT-ATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTG-AAATTTGA-TTTTTAA
* * * * **
10966987 GAAAAATTGATACTTCCAACTTTTCCTCAAAAATTTTTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTTGAAA-TTTGATTTTTAA
10967049 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
10967091 GATTTTTATT
Statistics
Matches: 296, Mismatches: 32, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
57 9 0.03
58 42 0.14
59 89 0.30
60 10 0.03
61 47 0.16
62 82 0.28
63 14 0.05
64 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.47
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTGATTTTTAA
Found at i:10966831 original size:120 final size:119
Alignment explanation
Indices: 10966688--10967090 Score: 541
Period size: 120 Copynumber: 3.4 Consensus size: 119
10966678 TCTTGTGTAG
** * *
10966688 GGAAAATTGATACTTTCAACTTTT-TTCAAAAATTATTTTTTTTTGAAATTTCTTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTTGAAATTTATTTTTAAGAAAA
*
10966752 ATTGATACTTTTAACTTTTTCCCAAAAATATTTTTTTTTGAAACTTTGATTTTCAA
65 ATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTTGAAACTTTGATTTTCAA
* * *
10966808 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTAAAAATTTATTTTTAAGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTTT-GAAATTTATTTTTAAGAA
* *
10966873 AAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTCGAAAATTTTGATTTTCAA
63 AAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTTG-AAACTTTGATTTTCAA
10966929 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGAAAATTTATTTTTTAAGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTG-AAATTTA-TTTTTAAGAAA
* * *
10966991 AATTGATACTTCCAACTTTTCCTCAAAAATTTTTTTTTTTTGAAACTTTGATTTCCAA
64 AATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTTTTGAAACTTTGATTTTCAA
10967049 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
10967091 GATTTTTATT
Statistics
Matches: 251, Mismatches: 17, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
116 13 0.05
117 37 0.15
118 2 0.01
119 1 0.00
120 79 0.31
121 60 0.24
122 17 0.07
123 42 0.17
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.47
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTTTAAGAAAAA
TTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAACTTTGATTTTCAA
Found at i:10967221 original size:22 final size:22
Alignment explanation
Indices: 10967209--10967253 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10967199 AATCTAATCT
10967209 AATAAAA-AAATAAATAAAACA
1 AATAAAACAAATAAATAAAACA
10967230 AATAAAACAAATAAATAAAA-A
1 AATAAAACAAATAAATAAAACA
10967251 AAT
1 AAT
10967254 TCCAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (22 bp):
AATAAAACAAATAAATAAAACA
Found at i:10967232 original size:9 final size:9
Alignment explanation
Indices: 10967215--10967244 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10967205 ATCTAATAAA
*
10967215 AAAATAAAT
1 AAAACAAAT
10967224 AAAACAAAT
1 AAAACAAAT
10967233 AAAACAAAT
1 AAAACAAAT
10967242 AAA
1 AAA
10967245 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAACAAAT
Found at i:10968601 original size:43 final size:42
Alignment explanation
Indices: 10968533--10968799 Score: 259
Period size: 43 Copynumber: 6.1 Consensus size: 42
10968523 TTTTACCAAA
* * *
10968533 GCTCCTCTAAATAGAGGCTCAACGACTTTAAACAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTAAA-AAAATAAATT
* ** *
10968576 GCTCCTCTAAACAAAGGCACCACGACTTTTGGGAAAGA-AAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-AAAAAAATAAATT
*
10968619 GCTCCTCTAAACAGAGGCACCATGACTTTTGGAAAGTAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT---AA--AAAAA-TAAATT
* * ** *
10968668 GCTCCTCTAAATAGAGGCACCATGACTTT-TGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAAATAAATT
** *
10968709 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAAATAAATT
*
10968751 GCTCCTCTAAACAGAGGCACCATGACTTTTAAAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTAAAAAAA-TAAATT
10968795 GCTCC
1 GCTCC
10968800 CTGACAATCA
Statistics
Matches: 188, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
41 33 0.18
42 38 0.20
43 62 0.33
44 17 0.09
45 1 0.01
47 4 0.02
48 3 0.02
49 30 0.16
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAAATAAATT
Found at i:10968758 original size:42 final size:42
Alignment explanation
Indices: 10968657--10968799 Score: 216
Period size: 41 Copynumber: 3.4 Consensus size: 42
10968647 TTGGAAAGTA
* *
10968657 AAAAGTAAATTGCTCCTCTAAATAGAGGCACCATGACTTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTAG
* *
10968699 -AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTAG
*
10968740 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTAAA
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGAC-TTT-AG
10968784 AAAAGTAAATTGCTCC
1 AAAAGTAAATTGCTCC
10968800 CTGACAATCA
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
41 38 0.41
42 35 0.38
43 3 0.03
44 16 0.17
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (42 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTAG
Found at i:10968774 original size:132 final size:129
Alignment explanation
Indices: 10968533--10968799 Score: 385
Period size: 132 Copynumber: 2.0 Consensus size: 129
10968523 TTTTACCAAA
*
10968533 GCTCCTCTAAATAGAGGCTCAACGACTTTAAACAAAATAAATTGCTCCTCTAAACAAAGGCACCA
1 GCTCCTCTAAATAGAGGCACAACGACTTT-AACAAAATAAATTGCTCCTCTAAACAAAGGCACCA
*
10968598 CGACTTTTGGGAAAGAAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGGAAAGTAAAAAGT
65 CGACTTTTGGAAAAGAAAATTGCTCCTCTAAACAGAGGCACCATGACTTTT---AA--AAAAAGT
10968663 AAATT
125 AAATT
* * ** * *
10968668 GCTCCTCTAAATAGAGGCACCATGACTTT-TGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAATAGAGGCACAACGACTTTAACAAAATAAATTGCTCCTCTAAACAAAGGCACCAC
*
10968732 GAC-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTAAAAAAAGTAAATT
66 GACTTTTGGAAAAGAAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTAAAAAAAGTAAATT
10968795 GCTCC
1 GCTCC
10968800 CTGACAATCA
Statistics
Matches: 123, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
127 17 0.14
129 2 0.02
132 44 0.36
133 34 0.28
135 26 0.21
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (129 bp):
GCTCCTCTAAATAGAGGCACAACGACTTTAACAAAATAAATTGCTCCTCTAAACAAAGGCACCAC
GACTTTTGGAAAAGAAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTAAAAAAAGTAAATT
Found at i:10969379 original size:22 final size:23
Alignment explanation
Indices: 10969331--10969388 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
10969321 GGTTTCACTC
10969331 CTCAAAGATTCTCACTTTGAAAT
1 CTCAAAGATTCTCACTTTGAAAT
* **
10969354 -TCAAAGATTCTTA-TTTGAGTT
1 CTCAAAGATTCTCACTTTGAAAT
*
10969375 CTCAAAAATTCTCA
1 CTCAAAGATTCTCA
10969389 TCAAAACATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (23 bp):
CTCAAAGATTCTCACTTTGAAAT
Found at i:10970481 original size:20 final size:21
Alignment explanation
Indices: 10970458--10970513 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
10970448 CTTTTTTCCA
*
10970458 TTTTCTCATTCTTTCTTTTTTT
1 TTTTCTCATT-TTTCTTTTCTT
10970480 TTTTCATCA-TTTT-TTTTCTT
1 TTTTC-TCATTTTTCTTTTCTT
10970500 TTTTCTCATTTTTC
1 TTTTCTCATTTTTC
10970514 ATCTATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.10
20 15 0.50
21 3 0.10
22 6 0.20
23 3 0.10
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCTCATTTTTCTTTTCTT
Found at i:10974560 original size:59 final size:58
Alignment explanation
Indices: 10974439--10974834 Score: 331
Period size: 58 Copynumber: 6.7 Consensus size: 58
10974429 TTATACAGGG
* *
10974439 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTGGAAACTTT-ATTTTCAAGA
*
10974497 AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTGTGGAAACTTTGATTTTCAAGAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTGGAAACTTT-ATTTTCAAG-A
* * * *
10974557 AAATTGATACTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAACTTTAATTTCGAG
1 AAA---AT--TGATACTTTCAACTTTTCCTCAAAAA-A--ATTTTTTGGAAACTTTATTTTCAAG
*
10974622 G
58 A
* * ** * * * *
10974623 GAAATTGATACTTTCAACTTTCCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTGGAAACTTTATTTTCAAGA
* * * * *
10974681 AAAATTGCTACTTTTAACTTTTCC-CTAAAAATATTTTTTTTAGAAACTTTAATTTT-GAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAA-A-ATTTTTTGGAAACTTT-ATTTTCAAGA
* ** * *
10974741 GAAATTGATACTTTCAAC-TTTCCTTCAAAAACCGTTTTTT---TA-TTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-TCAAAAA-AATTTTTTGGAAACTTTATTTTCAAGA
* *
10974796 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTT
10974835 TTCTTGAAAT
Statistics
Matches: 277, Mismatches: 43, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
54 11 0.04
55 29 0.10
56 6 0.02
57 1 0.00
58 75 0.27
59 34 0.12
60 38 0.14
61 30 0.11
63 4 0.01
65 25 0.09
66 3 0.01
67 7 0.03
68 14 0.05
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTGGAAACTTTATTTTCAAGA
Found at i:10979922 original size:26 final size:27
Alignment explanation
Indices: 10979876--10979933 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
10979866 TCGTGAACAT
* *
10979876 TAAATGAACATGTTCACAAAT-ATATA
1 TAAATGAACATATTCACAAATAATAAA
* *
10979902 TAAATGAACATATTTATAAATAATAAA
1 TAAATGAACATATTCACAAATAATAAA
10979929 TAAAT
1 TAAAT
10979934 CATAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (27 bp):
TAAATGAACATATTCACAAATAATAAA
Found at i:10979988 original size:20 final size:20
Alignment explanation
Indices: 10979963--10980005 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10979953 ACAAACAAAC
*
10979963 CCTAAACGAAT-ATAAATTAA
1 CCTAAAC-AATCATAAATGAA
10979983 CCTAAACAATCATAAATGAA
1 CCTAAACAATCATAAATGAA
10980003 CCT
1 CCT
10980006 TAAAATAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (20 bp):
CCTAAACAATCATAAATGAA
Found at i:10982433 original size:17 final size:18
Alignment explanation
Indices: 10982411--10982449 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
10982401 TAGTCTCTCA
10982411 TTAAACTTCATT-TTTTT
1 TTAAACTTCATTCTTTTT
10982428 TTAAACTTCATTCTTTTT
1 TTAAACTTCATTCTTTTT
10982446 TTAA
1 TTAA
10982450 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAAACTTCATTCTTTTT
Found at i:10983875 original size:20 final size:20
Alignment explanation
Indices: 10983847--10983919 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
10983837 TGCATGGTAT
*
10983847 TTATTTTTGCATGATTAATA
1 TTATATTTGCATGATTAATA
10983867 TTATATTTGCATGA-T-A-A
1 TTATATTTGCATGATTAATA
*
10983884 TT-TATTTGC----CTAATA
1 TTATATTTGCATGATTAATA
*
10983899 TTTTATTTGCATGATTAATA
1 TTATATTTGCATGATTAATA
10983919 T
1 T
10983920 ATTTATATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 3 0.07
16 14 0.33
17 3 0.07
18 1 0.02
19 1 0.02
20 19 0.44
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (20 bp):
TTATATTTGCATGATTAATA
Found at i:10983898 original size:32 final size:33
Alignment explanation
Indices: 10983862--10983923 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
10983852 TTTGCATGAT
*
10983862 TAATATTATATTTGCATGA-TAATTTATTTGCC
1 TAATATTATATTTGCATGATTAATATATTTGCC
*
10983894 TAATATTTTATTTGCATGATTAATATATTT
1 TAATATTATATTTGCATGATTAATATATTT
10983924 ATATGAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.53
Consensus pattern (33 bp):
TAATATTATATTTGCATGATTAATATATTTGCC
Found at i:10983978 original size:21 final size:20
Alignment explanation
Indices: 10983952--10983994 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
10983942 TGCATGATTT
10983952 ATTTAATTACATGATTTATTA
1 ATTTAATTACATGA-TTATTA
*
10983973 ATTTAATTGCATGATTATTA
1 ATTTAATTACATGATTATTA
10983993 AT
1 AT
10983995 ATATTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTTAATTACATGATTATTA
Found at i:10983989 original size:17 final size:17
Alignment explanation
Indices: 10983853--10983989 Score: 62
Period size: 17 Copynumber: 7.6 Consensus size: 17
10983843 GTATTTATTT
10983853 TTGCATGATTAATATTATA
1 TTGCATGATTAAT-TTA-A
*
10983872 TTTGCATGA-TAATTTAT
1 -TTGCATGATTAATTTAA
* * * *
10983889 TTGCCT-AATATTTTAT
1 TTGCATGATTAATTTAA
* *
10983905 TTGCATGATTAATATAT
1 TTGCATGATTAATTTAA
** **
10983922 TTATATGAATTTAATTTGC
1 TTGCATG-A-TTAATTTAA
*
10983941 TTGCATGATTTATTTAA
1 TTGCATGATTAATTTAA
*
10983958 TTACATGATTTATTAATTTAA
1 TTGCATG----ATTAATTTAA
10983979 TTGCATGATTA
1 TTGCATGATTA
10983990 TTAATATATT
Statistics
Matches: 89, Mismatches: 20, Indels: 19
0.70 0.16 0.15
Matches are distributed among these distances:
15 1 0.01
16 17 0.19
17 28 0.31
18 5 0.06
19 15 0.17
20 8 0.09
21 15 0.17
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (17 bp):
TTGCATGATTAATTTAA
Found at i:10984011 original size:24 final size:24
Alignment explanation
Indices: 10983984--10984055 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
10983974 TTTAATTGCA
10983984 TGATTATTAATATATTTATTTGTG
1 TGATTATTAATATATTTATTTGTG
**
10984008 TGATTA-T-A-ATA--TATTTGCA
1 TGATTATTAATATATTTATTTGTG
* *
10984027 TGATTATTAATATATTTGTCTGTG
1 TGATTATTAATATATTTATTTGTG
10984051 TGATT
1 TGATT
10984056 TATTTGTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 12 0.32
20 1 0.03
21 4 0.11
22 4 0.11
23 1 0.03
24 15 0.41
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (24 bp):
TGATTATTAATATATTTATTTGTG
Found at i:10984039 original size:20 final size:20
Alignment explanation
Indices: 10983961--10984044 Score: 80
Period size: 20 Copynumber: 4.0 Consensus size: 20
10983951 TATTTAATTA
* *
10983961 CATGATTTATTAATTTAATTG
1 CATGA-TTATTAATATATTTG
10983982 CATGATTATTAATATATTTATTTG
1 CATGATTATT-A-ATA--TATTTG
**
10984006 TGTGATTA-TAATATATTTG
1 CATGATTATTAATATATTTG
10984025 CATGATTATTAATATATTTG
1 CATGATTATTAATATATTTG
10984045 TCTGTGTGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 12 0.23
20 16 0.31
21 9 0.17
22 3 0.06
23 1 0.02
24 11 0.21
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (20 bp):
CATGATTATTAATATATTTG
Found at i:10984067 original size:37 final size:38
Alignment explanation
Indices: 10983973--10984072 Score: 103
Period size: 43 Copynumber: 2.5 Consensus size: 38
10983963 TGATTTATTA
* *
10983973 ATTTAATTGCATGATTATTAATATATTTATTTGTGTGATT
1 ATTTATTTGCATGATTATTAATATATTTATCTGTGTG--T
*
10984013 ATAATATATTTGCATGATTATTAATATATTTGTCTGTGTG-
1 AT--T-TATTTGCATGATTATTAATATATTTATCTGTGTGT
* *
10984053 ATTTATTTGTATGATAATTA
1 ATTTATTTGCATGATTATTA
10984073 TATTATTGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
37 15 0.29
38 1 0.02
40 4 0.08
42 1 0.02
43 31 0.60
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (38 bp):
ATTTATTTGCATGATTATTAATATATTTATCTGTGTGT
Found at i:10985675 original size:60 final size:60
Alignment explanation
Indices: 10985582--10986038 Score: 619
Period size: 59 Copynumber: 7.7 Consensus size: 60
10985572 TCTTGTGTAG
** * * *
10985582 GGAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTTTAA
* *
10985642 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTTGAAAATTTGATTTTTAA
* * *
10985703 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTCGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTTGATTTTTAA
*
10985762 GGAAAATTGATACTTTCAATTTTTCCCCAAAAATA--TTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTTTAA
*
10985819 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTT-ATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGA-TTTTTAA
* * *
10985878 GGAAAATCGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTTTAA
* * ** *
10985938 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--CTTTTCAAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTTGATTTTTAA
10985997 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
10986039 AATTTTTATT
Statistics
Matches: 354, Mismatches: 32, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
57 51 0.14
58 27 0.08
59 136 0.38
60 81 0.23
61 43 0.12
62 16 0.05
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTTTAA
Found at i:10986049 original size:235 final size:236
Alignment explanation
Indices: 10985582--10986037 Score: 765
Period size: 235 Copynumber: 1.9 Consensus size: 236
10985572 TCTTGTGTAG
** * *
10985582 GGAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTTTTGAAACTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAAA
* *
10985647 ATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
66 ATCGATACTTTCAACTTTTCCTCAAAAA-CTATTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
* *
10985712 ATACTTTCAACTTTTCCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAGGAAAATTGATACTT
130 ATACTTTCAACTTTTCCCTAAAAATACTTTTCAAAAATTTTGATTTTCAAGGAAAATTGATACTT
*
10985777 TCAATTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
195 TCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
*
10985819 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTT-ATTTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTGA-TTTTCAAGGAA
*
10985882 AATCGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTTGAAACTTTGATTTTTAAGGAAAATT
65 AATCGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTTGAAAATTT-ATTTTTAAGGAAAATT
10985946 GATACTTTCAACTTTTCCCTAAAAATACTTTTCAAAAATTTTGATTTTCAAGGAAAATTGATACT
129 GATACTTTCAACTTTTCCCTAAAAATACTTTTCAAAAATTTTGATTTTCAAGGAAAATTGATACT
10986011 TTCAACTTTTCCCCAAAAATATTTTTT
194 TTCAACTTTTCCCCAAAAATATTTTTT
10986038 TAATTTTTAT
Statistics
Matches: 206, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
234 16 0.08
235 106 0.51
236 41 0.20
237 43 0.21
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (236 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAAA
ATCGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTTGAAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATACTTTTCAAAAATTTTGATTTTCAAGGAAAATTGATACTTT
CAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
Found at i:10986086 original size:4 final size:4
Alignment explanation
Indices: 10986077--10986188 Score: 51
Period size: 4 Copynumber: 28.0 Consensus size: 4
10986067 ATAAAAGTGA
*
10986077 AAAT AAAT -AA- AAAT AAAG AAAGT AAA- ACAA- AAAT -AA- AAAT AAGAT
1 AAAT AAAT AAAT AAAT AAAT AAA-T AAAT A-AAT AAAT AAAT AAAT AA-AT
* *
10986122 AAAGAT AAA- AAAT -ATT AAAT AAAT ATAAT CTAAT AAAT AAAT AAAT
1 -AA-AT AAAT AAAT AAAT AAAT AAAT A-AAT -AAAT AAAT AAAT AAAT
* *
10986168 AAAAC AAAT AAAT AAAA AAAT
1 -AAAT AAAT AAAT AAAT AAAT
10986189 TTCCAAAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
3 16 0.19
4 47 0.56
5 16 0.19
6 5 0.06
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:10986142 original size:31 final size:27
Alignment explanation
Indices: 10986076--10986188 Score: 81
Period size: 26 Copynumber: 4.2 Consensus size: 27
10986066 AATAAAAGTG
10986076 AAAATAAATAAAAATAAAGAAAGTAAA
1 AAAATAAATAAAAATAAAGAAAGTAAA
* *
10986103 ACAA-AAATAAAAATAAGATAAAGATAAA
1 AAAATAAATAAAAATAA-AGAAAG-TAAA
* ***
10986131 AAATATTAAATAAATATAATCTAA-TAAA
1 AAA-A-TAAATAAAAATAAAGAAAGTAAA
* * *
10986159 TAAATAAAT-AAAACAAATAAA-TAAA
1 AAAATAAATAAAAATAAAGAAAGTAAA
10986184 AAAAT
1 AAAAT
10986189 TTCCAAAAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
25 15 0.22
26 17 0.25
27 9 0.13
28 12 0.18
29 1 0.01
30 2 0.03
31 11 0.16
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (27 bp):
AAAATAAATAAAAATAAAGAAAGTAAA
Found at i:10986178 original size:13 final size:12
Alignment explanation
Indices: 10986076--10986188 Score: 57
Period size: 14 Copynumber: 8.4 Consensus size: 12
10986066 AATAAAAGTG
10986076 AAAATAAATAAAA
1 AAAATAAAT-AAA
*
10986089 ATAAAGAAAGTAAA
1 A-AAATAAA-TAAA
*
10986103 ACAA-AAATAAAA
1 AAAATAAAT-AAA
10986115 ATAAGATAAAGATAAA
1 A-AA-AT-AA-ATAAA
10986131 AAATATTAAATAAA
1 AAA-A-TAAATAAA
* *
10986145 TATAATCTAATAAA
1 -AAAAT-AAATAAA
*
10986159 TAAATAAATAAA
1 AAAATAAATAAA
10986171 ACAAATAAATAAA
1 A-AAATAAATAAA
10986184 AAAAT
1 AAAAT
10986189 TTCCAAAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
11 1 0.01
12 17 0.22
13 20 0.26
14 23 0.29
15 8 0.10
16 7 0.09
17 2 0.03
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:10986178 original size:17 final size:16
Alignment explanation
Indices: 10986156--10986187 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10986146 ATAATCTAAT
10986156 AAATAAATAAATAAAAC
1 AAATAAATAAA-AAAAC
10986173 AAATAAATAAAAAAA
1 AAATAAATAAAAAAA
10986188 TTTCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAATAAATAAAAAAAC
Found at i:10986281 original size:10 final size:10
Alignment explanation
Indices: 10986266--10986291 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10986256 CGGCTTGAGA
10986266 AGCTCGGCTC
1 AGCTCGGCTC
10986276 AGCTCGGCTC
1 AGCTCGGCTC
10986286 AGCTCG
1 AGCTCG
10986292 AAGAGGGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.31, T:0.19
Consensus pattern (10 bp):
AGCTCGGCTC
Found at i:10987144 original size:19 final size:18
Alignment explanation
Indices: 10987122--10987204 Score: 56
Period size: 19 Copynumber: 4.8 Consensus size: 18
10987112 AATACCAAAA
10987122 AAATATTATAATAATACAT
1 AAATATTATAATAATA-AT
*
10987141 AAATTATAAT-ATAATAAT
1 AAA-TATTATAATAATAAT
10987159 AAATA-TATAACT-AT-AT
1 AAATATTATAA-TAATAAT
10987175 AAATA--A-AATACAT-AT
1 AAATATTATAATA-ATAAT
10987190 AAATATTAATAATAA
1 AAATATT-ATAATAA
10987205 ATAAATTAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 10 0.19
16 9 0.17
17 5 0.09
18 8 0.15
19 13 0.25
20 5 0.09
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATTATAATAATAAT
Found at i:10987148 original size:17 final size:17
Alignment explanation
Indices: 10987126--10987212 Score: 53
Period size: 18 Copynumber: 5.2 Consensus size: 17
10987116 CCAAAAAAAT
10987126 ATTATAATAATACATAA
1 ATTATAATAATACATAA
10987143 ATTATAATATAATA-ATAA
1 ATTAT-A-ATAATACATAA
*
10987161 A-TAT-ATAACTATAT-A
1 ATTATAATAA-TACATAA
10987176 A--ATAA-AATACATATA
1 ATTATAATAATACATA-A
* *
10987191 AATATTAATAATAAATAA
1 ATTA-TAATAATACATAA
10987209 ATTA
1 ATTA
10987213 ATTAATTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 21
0.70 0.04 0.26
Matches are distributed among these distances:
13 4 0.07
14 8 0.14
15 7 0.12
16 2 0.04
17 9 0.16
18 13 0.23
19 13 0.23
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTATAATAATACATAA
Found at i:10987173 original size:25 final size:25
Alignment explanation
Indices: 10987123--10987259 Score: 69
Period size: 25 Copynumber: 5.6 Consensus size: 25
10987113 ATACCAAAAA
* *
10987123 AATATTATAAT-AATACATAAATTAT
1 AATATAATAATAAATATATAAA-TAT
*
10987148 AATATAATAATAAATATATAACTAT
1 AATATAATAATAAATATATAAATAT
*
10987173 -ATA-AATAA-AATACATATAAATAT
1 AATATAATAATAA-ATATATAAATAT
* *
10987196 TA-ATAATAAATAAAT-TAATTAAT-T
1 AATATAAT-AATAAATAT-ATAAATAT
10987220 AAT-TAATACATAGTAATA-ATAAATA-
1 AATATAATA-ATA--AATATATAAATAT
*
10987245 AATAAAATACATAAA
1 AATATAATA-ATAAA
10987260 ATACAAAAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
22 2 0.02
23 17 0.19
24 19 0.22
25 29 0.33
26 21 0.24
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (25 bp):
AATATAATAATAAATATATAAATAT
Found at i:10988853 original size:26 final size:25
Alignment explanation
Indices: 10988818--10988891 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 25
10988808 TTTTTTTATT
*
10988818 TAAATAAAAATTTAATTAGATGTA-AA
1 TAAATTAAAATTTAATTA-AT-TATAA
*
10988844 TAAATTAAAAAATTAATTAATTATAA
1 TAAATT-AAAATTTAATTAATTATAA
* *
10988870 TAAAAATAAAATTTAAATAATT
1 T-AAATTAAAATTTAATTAATT
10988892 TTTTAATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 23 0.57
27 15 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (25 bp):
TAAATTAAAATTTAATTAATTATAA
Found at i:10988879 original size:27 final size:27
Alignment explanation
Indices: 10988819--10988880 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
10988809 TTTTTTATTT
*
10988819 AAATAAAAATTTAATTAGATGTAAATA
1 AAATAAAAAATTAATTAGATGTAAATA
*
10988846 AATTAAAAAATTAATTA-AT-TATAATAA
1 AAATAAAAAATTAATTAGATGTA-AAT-A
10988873 AAATAAAA
1 AAATAAAA
10988881 TTTAAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 5 0.17
27 23 0.77
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (27 bp):
AAATAAAAAATTAATTAGATGTAAATA
Found at i:10996703 original size:16 final size:16
Alignment explanation
Indices: 10996678--10996719 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
10996668 AACTTTTTCC
10996678 CAAAA-AAAAAAACTAA
1 CAAAATAAAAAAA-TAA
*
10996694 TAAAATAAAAAAATAA
1 CAAAATAAAAAAATAA
10996710 CAAAATAAAA
1 CAAAATAAAA
10996720 CAAAACACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (16 bp):
CAAAATAAAAAAATAA
Found at i:10997240 original size:21 final size:21
Alignment explanation
Indices: 10997214--10997266 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
10997204 ACAGAACCGG
* *
10997214 ACTAGGTTTGACCGCTACTGA
1 ACTAGGTTGGACCGCTACTAA
10997235 ACTAGGTTGGACCGCTACTAA
1 ACTAGGTTGGACCGCTACTAA
*
10997256 ACTAGGCTGGA
1 ACTAGGTTGGA
10997267 TCATTTCTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (21 bp):
ACTAGGTTGGACCGCTACTAA
Found at i:10997486 original size:14 final size:13
Alignment explanation
Indices: 10997463--10997492 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
10997453 AATAAAGAAT
10997463 TAATAAAAATAAA
1 TAATAAAAATAAA
10997476 TAATGAAAAATAAA
1 TAAT-AAAAATAAA
10997490 TAA
1 TAA
10997493 AATATGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAATAAAAATAAA
Found at i:10997492 original size:18 final size:19
Alignment explanation
Indices: 10997469--10997507 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10997459 GAATTAATAA
10997469 AAAT-AAATAATGA-AAAAT
1 AAATAAAAT-ATGATAAAAT
10997487 AAATAAAATATGATAAAAT
1 AAATAAAATATGATAAAAT
10997506 AA
1 AA
10997508 CAACAAAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAATAAAATATGATAAAAT
Found at i:11009433 original size:80 final size:80
Alignment explanation
Indices: 11009272--11009469 Score: 220
Period size: 80 Copynumber: 2.5 Consensus size: 80
11009262 TAGAAAAGCT
* * * * *
11009272 TTTTAAAATTTTTAAAGTTGTTGAA-CTTCTACTTAGAAGAGTATTTATTATCAAGATTCATAAG
1 TTTTAAATTTTTTAAAGTTATT-AAGCCTCTACTTAGAAGAGCATTTATTATCAAGATTCATAAA
* * **
11009336 TCCTTCGGATAGGATA
65 TCCTTCGAACAAAATA
* **
11009352 TTTTAAATTTTTTAAAGTTATTAAGCCTCTACTTATAAGAGCATTTATTATCAAGATTTGTAAAT
1 TTTTAAATTTTTTAAAGTTATTAAGCCTCTACTTAGAAGAGCATTTATTATCAAGATTCATAAAT
*
11009417 -CTTCTAAGCAAAATA
66 CCTTCGAA-CAAAATA
* * *
11009432 TTTTAAATTTTTAAAATTTATTGAGCCTCTACTTAGAA
1 TTTTAAATTTTTTAAAGTTATTAAGCCTCTACTTAGAA
11009470 AAACTTTTTA
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
79 7 0.07
80 92 0.93
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (80 bp):
TTTTAAATTTTTTAAAGTTATTAAGCCTCTACTTAGAAGAGCATTTATTATCAAGATTCATAAAT
CCTTCGAACAAAATA
Found at i:11009677 original size:43 final size:43
Alignment explanation
Indices: 11009517--11009790 Score: 196
Period size: 43 Copynumber: 6.4 Consensus size: 43
11009507 CTATGGGAGA
* * * * * * *
11009517 TTAAATTTTAAAAAGTTGTCAAG-CTTCTAGTTACATGAGCCTT
1 TTAAATTTTCAAAAGTTATTAAGCCTT-TACTTAGAGGAGTCTT
* * ** *
11009560 TTAAA-TTTC-AAAGTTGTTGAGCCTCAACTTAGA-GAATCTT
1 TTAAATTTTCAAAAGTTATTAAGCCTTTACTTAGAGGAGTCTT
** * * ** **
11009600 TTAAATTTTCAAAAGTTATCGAGCATCTGTTTAGAGGAACCTT
1 TTAAATTTTCAAAAGTTATTAAGCCTTTACTTAGAGGAGTCTT
* * * * *
11009643 TTAAATTTTTAAAAGTTGTTAAGTCTTTGCTTAGAAGAGTCTT
1 TTAAATTTTCAAAAGTTATTAAGCCTTTACTTAGAGGAGTCTT
* * *
11009686 TTAAATTTTTAAAAGTTATTGAGCCTTTACTTAGATGAGTCTT
1 TTAAATTTTCAAAAGTTATTAAGCCTTTACTTAGAGGAGTCTT
* * * * *
11009729 TTAAATTTTAAAAAGTTGTTAAGCCTTTAATGAGAGGAGCCTT
1 TTAAATTTTCAAAAGTTATTAAGCCTTTACTTAGAGGAGTCTT
* *
11009772 CTAAATTTTCAAAAATTAT
1 TTAAATTTTCAAAAGTTAT
11009791 AAATTTTTAA
Statistics
Matches: 184, Mismatches: 43, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
40 10 0.05
41 19 0.10
42 23 0.12
43 132 0.72
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (43 bp):
TTAAATTTTCAAAAGTTATTAAGCCTTTACTTAGAGGAGTCTT
Found at i:11009700 original size:86 final size:85
Alignment explanation
Indices: 11009432--11009756 Score: 232
Period size: 83 Copynumber: 3.9 Consensus size: 85
11009422 AAGCAAAATA
* * * * ** * *
11009432 TTTTAAATTTTTAAAATTTATTGAGCCTCTACTTAGAAAAACTTTTTAAATTTTAAAAAGTTGTC
1 TTTTAAATTTTCAAAAGTTATCGAGCATCTACTTAGAGGAACCTTTTAAATTTTAAAAAGTTGTT
* * * *
11009497 GAGTCC-CTGCCTATGGGAGA--
66 AAG-CCTTTGCTTA-GAGA-ATC
* * * * * * * * *
11009517 --TTAAATTTTAAAAAGTTGTCAAGCTTCTAGTTACATGAGCCTTTTAAA-TTT-CAAAGTTGTT
1 TTTTAAATTTTCAAAAGTTATCGAGCATCTACTTAGAGGAACCTTTTAAATTTTAAAAAGTTGTT
* ***
11009578 GAGCCTCAACTTAGAGAATC
66 AAGCCTTTGCTTAGAGAATC
** *
11009598 TTTTAAATTTTCAAAAGTTATCGAGCATCTGTTTAGAGGAACCTTTTAAATTTTTAAAAGTTGTT
1 TTTTAAATTTTCAAAAGTTATCGAGCATCTACTTAGAGGAACCTTTTAAATTTTAAAAAGTTGTT
* *
11009663 AAGTCTTTGCTTAGAAGAGTC
66 AAGCCTTTGCTTAG-AGAATC
* * * * * **
11009684 TTTTAAATTTTTAAAAGTTATTGAGCCTTTACTTAGATGAGTCTTTTAAATTTTAAAAAGTTGTT
1 TTTTAAATTTTCAAAAGTTATCGAGCATCTACTTAGAGGAACCTTTTAAATTTTAAAAAGTTGTT
11009749 AAGCCTTT
66 AAGCCTTT
11009757 AATGAGAGGA
Statistics
Matches: 187, Mismatches: 45, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
79 1 0.01
80 5 0.03
81 15 0.08
82 3 0.02
83 75 0.40
84 3 0.02
85 18 0.10
86 67 0.36
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (85 bp):
TTTTAAATTTTCAAAAGTTATCGAGCATCTACTTAGAGGAACCTTTTAAATTTTAAAAAGTTGTT
AAGCCTTTGCTTAGAGAATC
Found at i:11009777 original size:129 final size:126
Alignment explanation
Indices: 11009518--11009786 Score: 281
Period size: 129 Copynumber: 2.1 Consensus size: 126
11009508 TATGGGAGAT
* * *
11009518 TAAATTTTAAAAAGTTGTCAAGCTTCTAGTTACATGAGCCTTTTAAATTTCAAAGTTGTTGAGCC
1 TAAATTTTAAAAAGTTGTCAAGCTTCTAGTTACAAGAGCCTTTTAAATTTAAAAGTTATTGAGCC
* * ** * *
11009583 TCAACTTAGAGAATCTTTTAAATTTTCAAAAGTTATCGAGCATCTGTTTAGAGGAACCTTT
66 TCAACTTAGAGAATCTTTTAAATTTTAAAAAGTTATCAAGCATCTAATGAGAGGAACCTTC
* * * *
11009644 TAAATTTTTAAAAGTTGTTAAGTCTT-T-GCTTAGAAGAGTCTTTTAAATTTTTAAAAGTTATTG
1 TAAATTTTAAAAAGTTGTCAAG-CTTCTAG-TTACAAGAGCCTTTTAAA--TTTAAAAGTTATTG
** * * * * * *
11009707 AGCCTTTACTTAGATGAGTCTTTTAAATTTTAAAAAGTTGTTAAGCCTTTAATGAGAGGAGCCTT
62 AGCCTCAACTTAGA-GAATCTTTTAAATTTTAAAAAGTTATCAAGCATCTAATGAGAGGAACCTT
11009772 C
126 C
11009773 TAAATTTTCAAAAA
1 TAAATTTT-AAAAA
11009787 TTATAAATTT
Statistics
Matches: 115, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
125 1 0.01
126 36 0.31
127 3 0.03
128 24 0.21
129 47 0.41
130 4 0.03
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (126 bp):
TAAATTTTAAAAAGTTGTCAAGCTTCTAGTTACAAGAGCCTTTTAAATTTAAAAGTTATTGAGCC
TCAACTTAGAGAATCTTTTAAATTTTAAAAAGTTATCAAGCATCTAATGAGAGGAACCTTC
Found at i:11009795 original size:17 final size:17
Alignment explanation
Indices: 11009773--11009807 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11009763 AGGAGCCTTC
11009773 TAAATTTTCAAAAATTA
1 TAAATTTTCAAAAATTA
*
11009790 TAAATTTTTAAAAATTA
1 TAAATTTTCAAAAATTA
11009807 T
1 T
11009808 CGAGCCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTTTCAAAAATTA
Found at i:11011389 original size:14 final size:14
Alignment explanation
Indices: 11011355--11011396 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
11011345 GATATCTTAA
11011355 AATAAATATAATAAT
1 AATAAATATAA-AAT
*
11011370 ACTAAATATAAAAT
1 AATAAATATAAAAT
11011384 AATAAATATAAAA
1 AATAAATATAAAA
11011397 ATTTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAAATATAAAAT
Found at i:11011448 original size:18 final size:19
Alignment explanation
Indices: 11011406--11011453 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
11011396 AATTTGGAAT
*
11011406 AATAATGA-ATAA-AAATA
1 AATAATGATAAAATAAATA
11011423 AATAATGA-AAAATAAATA
1 AATAATGATAAAATAAATA
11011441 AA-ATATGATAAAA
1 AATA-ATGATAAAA
11011454 CAACAATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 12 0.44
18 11 0.41
19 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (19 bp):
AATAATGATAAAATAAATA
Found at i:11013680 original size:14 final size:15
Alignment explanation
Indices: 11013656--11013685 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11013646 AATCAAAGAT
11013656 GAAATTAAGATAAAA
1 GAAATTAAGATAAAA
11013671 GAAA-TAAGATAAAA
1 GAAATTAAGATAAAA
11013685 G
1 G
11013686 GTGTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
GAAATTAAGATAAAA
Found at i:11014325 original size:32 final size:32
Alignment explanation
Indices: 11014270--11014416 Score: 113
Period size: 32 Copynumber: 4.6 Consensus size: 32
11014260 CGGTAAATTT
* *
11014270 TGAAAATGATC-GAATAGAACCAAGGTTGAAAA
1 TGAAAATGATCAG-ATTGAACCAAGGTTAAAAA
* *
11014302 TGAAAATGATCAGATTGAGCCAAGGTCAAAAA
1 TGAAAATGATCAGATTGAACCAAGGTTAAAAA
* *
11014334 T-AAAGATGA-CATAATTGAGCCAAGG-TACAAAA
1 TGAAA-ATGATCA-GATTGAACCAAGGTTA-AAAA
* * ** *
11014366 TGAAGATAATTGGTTTGAACCAAGGTTAAAAA
1 TGAAAATGATCAGATTGAACCAAGGTTAAAAA
* *
11014398 TGAAGATGATCAAATTGAA
1 TGAAAATGATCAGATTGAA
11014417 AGATAAATGT
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
31 6 0.07
32 79 0.88
33 5 0.06
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.22
Consensus pattern (32 bp):
TGAAAATGATCAGATTGAACCAAGGTTAAAAA
Found at i:11014366 original size:64 final size:64
Alignment explanation
Indices: 11014275--11014415 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 64
11014265 AATTTTGAAA
* * * ** * *
11014275 ATGATCGAATAGAACCAAGGTTGAAAATGAAAATGATCAGATTGAGCCAAGGTCAAAAATAAAG
1 ATGATCAAATTGAGCCAAGGTACAAAATGAAAATAATCAGATTGAACCAAGGTCAAAAATAAAG
* ** * * *
11014339 ATGA-CATAATTGAGCCAAGGTACAAAATGAAGATAATTGGTTTGAACCAAGGTTAAAAATGAAG
1 ATGATCA-AATTGAGCCAAGGTACAAAATGAAAATAATCAGATTGAACCAAGGTCAAAAATAAAG
11014403 ATGATCAAATTGA
1 ATGATCAAATTGA
11014416 AAGATAAATG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
63 1 0.02
64 59 0.95
65 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (64 bp):
ATGATCAAATTGAGCCAAGGTACAAAATGAAAATAATCAGATTGAACCAAGGTCAAAAATAAAG
Found at i:11014562 original size:32 final size:32
Alignment explanation
Indices: 11014507--11014576 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
11014497 TTGAGTCAAA
* * **
11014507 GTAAAAAATGAAGATGACCGAACTAAGTTAAG
1 GTAAAAAATAAAGATAACCGAACTAAGCCAAG
* * *
11014539 GTAAAAAATAAAGGTAACTGAACTTAGCCAAG
1 GTAAAAAATAAAGATAACCGAACTAAGCCAAG
11014571 GTAAAA
1 GTAAAA
11014577 GGTGAAAGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.19
Consensus pattern (32 bp):
GTAAAAAATAAAGATAACCGAACTAAGCCAAG
Found at i:11014575 original size:64 final size:64
Alignment explanation
Indices: 11014507--11014711 Score: 157
Period size: 64 Copynumber: 3.2 Consensus size: 64
11014497 TTGAGTCAAA
* * *
11014507 GTAAAAAATGAAGATGACCGAACTAAGTTAAGGTAAAAAATAAAGGTAACTGAACTTAGCCAAG
1 GTAAAAAATGAAGATGACCGAACTAAGTCAAGGTTAAAAATAAAGGTAACTGAACTAAGCCAAG
** * * * * *
11014571 GTAAAAGGTGAA-AGTGACCGAACTGAG-CGAAGCTTAAAAGTGATGGTAACT-AGACTAAGCCA
1 GTAAAAAATGAAGA-TGACCGAACTAAGTC-AAGGTTAAAAATAAAGGTAACTGA-ACTAAGCCA
11014633 AG
63 AG
* * * * * * * * * * *
11014635 GGAAAAAATGAAGTTGAACGGACTAGGTCGAGGTTGAGAATAAAGGTGA-TCGAACTGAGCTAAG
1 GTAAAAAATGAAGATGACCGAACTAAGTCAAGGTTAAAAATAAAGGTAACT-GAACTAAGCCAAG
11014699 GTAAAAAATGAAG
1 GTAAAAAATGAAG
11014712 GTGATCAAAC
Statistics
Matches: 105, Mismatches: 29, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
63 3 0.03
64 100 0.95
65 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (64 bp):
GTAAAAAATGAAGATGACCGAACTAAGTCAAGGTTAAAAATAAAGGTAACTGAACTAAGCCAAG
Found at i:11014723 original size:32 final size:32
Alignment explanation
Indices: 11014677--11014741 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
11014667 GTTGAGAATA
* *
11014677 AAGGTGATCGAACTGAGCTAAGGTAAAAAATG
1 AAGGTGATCAAACTGAACTAAGGTAAAAAATG
*
11014709 AAGGTGATCAAACTGAACTAAGGTAAAACATG
1 AAGGTGATCAAACTGAACTAAGGTAAAAAATG
11014741 A
1 A
11014742 CTTAGTCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.25, T:0.18
Consensus pattern (32 bp):
AAGGTGATCAAACTGAACTAAGGTAAAAAATG
Found at i:11016000 original size:7 final size:7
Alignment explanation
Indices: 11015985--11016055 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
11015975 TTTTTCTCTC
*
11015985 TTTTCAT
1 TTTTTAT
11015992 TTTTTAT
1 TTTTTAT
11015999 TTTTTAT
1 TTTTTAT
*
11016006 TTTTCAT
1 TTTTTAT
* *
11016013 CTTTCATT
1 TTTTTA-T
11016021 TTTCATTAT
1 TTT--TTAT
11016030 TTTTTAT
1 TTTTTAT
*
11016037 TTTTCAT
1 TTTTTAT
11016044 TATTTT-T
1 T-TTTTAT
11016051 TTTTT
1 TTTTT
11016056 TTGCTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
6 4 0.08
7 37 0.70
8 6 0.11
9 4 0.08
10 2 0.04
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:11016003 original size:28 final size:27
Alignment explanation
Indices: 11015972--11016034 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
11015962 AATTTAAGTC
* *
11015972 TTTTTTTTCTC-TCTTTTCATTTTTTAT
1 TTTTTTTTTTCATC-TTTCATTTTTCAT
11015999 TTTTTATTTTTCATCTTTCATTTTTCAT
1 TTTTT-TTTTTCATCTTTCATTTTTCAT
*
11016027 TATTTTTT
1 TTTTTTTT
11016035 ATTTTTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 8 0.26
28 21 0.68
29 2 0.06
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTTTTTTTCATCTTTCATTTTTCAT
Found at i:11016065 original size:18 final size:17
Alignment explanation
Indices: 11015995--11016056 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
11015985 TTTTCATTTT
11015995 TTATTTTTTATTTTTC-
1 TTATTTTTTATTTTTCA
* *
11016011 --ATCTTTCATTTTTCA
1 TTATTTTTTATTTTTCA
11016026 TTATTTTTTATTTTTCA
1 TTATTTTTTATTTTTCA
11016043 TTATTTTTT-TTTTT
1 TTATTTTTTATTTTT
11016057 TGCTTTATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 12 0.31
16 5 0.13
17 22 0.56
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTTTATTTTTCA
Found at i:11016406 original size:19 final size:19
Alignment explanation
Indices: 11016364--11016405 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
11016354 CTCTATATTC
*
11016364 TTTTT-TTTTCTTTTTTCA
1 TTTTTCTTTTCTTTTCTCA
11016382 TTTTTCTTTTCTTGTTCTCA
1 TTTTTCTTTTCTT-TTCTCA
11016402 TTTT
1 TTTT
11016406 CATCTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTCTCA
Found at i:11018739 original size:3 final size:3
Alignment explanation
Indices: 11018733--11018782 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
11018723 TTTTCTCAAA
*
11018733 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11018781 AT
1 AT
11018783 ATTTTTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11020628 original size:6 final size:6
Alignment explanation
Indices: 11020617--11020657 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
11020607 TTGGCTTGTG
11020617 GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTGGC
1 GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTGGC
11020658 CCACTTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.17, G:0.51, T:0.32
Consensus pattern (6 bp):
GTGGCT
Found at i:11020733 original size:16 final size:16
Alignment explanation
Indices: 11020708--11020748 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
11020698 TGTGTAATTT
11020708 TAATTTTTA-TA-AT-
1 TAATTTTTATTATATA
11020721 TAATTTTTATTATATA
1 TAATTTTTATTATATA
*
11020737 TATTTTTTATTA
1 TAATTTTTATTA
11020749 ATTGTAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 2 0.08
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATTTTTATTATATA
Found at i:11021342 original size:22 final size:23
Alignment explanation
Indices: 11021312--11021358 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
11021302 AAAAGGACTT
11021312 AAAGATTATGCTTAGAGGTCGTA
1 AAAGATTATGCTTAGAGGTCGTA
* *
11021335 AAAG-TTATGCTTGGAGGTCTTA
1 AAAGATTATGCTTAGAGGTCGTA
11021357 AA
1 AA
11021359 GATCTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (23 bp):
AAAGATTATGCTTAGAGGTCGTA
Found at i:11021538 original size:128 final size:127
Alignment explanation
Indices: 11021339--11021701 Score: 358
Period size: 128 Copynumber: 2.8 Consensus size: 127
11021329 GTCGTAAAAG
* * * * * *
11021339 TTATGCTTGGAGGTCTTAAAGATCTC-AAATCCTTTGAATGTTCCTAATACATTAAAGGTATTAA
1 TTATGCATGGAAGACTTAAAGATCTCAAAAT-CTTTAAATGCTCCTAATACATTAAA-GCATTAA
* * * * *
11021403 AATTTTAAAATTTTAAAATATTTTG-TCTGAAAATCTTAAAGATTGTACTTGAAAGTTTTAGAGA
64 AACTTTAAAATTTTAAAATATTTTGCT-TGAAAATCTTAAAAATTGTACATAAAAGTCTTAGAGA
* * * *
11021467 TTATGCATGGAAGCCTTAAAGATCTCAAAATCTTTAAATGCACCTCATACATCAAAGCAATTAAA
1 TTATGCATGGAAGACTTAAAGATCTCAAAATCTTTAAATGCTCCTAATACATTAAAGC-ATTAAA
* * * * *
11021532 ACTTTAAAAATTTAAAATGTTTTGCTTGGAGATCTTAAAAATTGTGCATAAAAGTCTTAGAGA
65 ACTTTAAAATTTTAAAATATTTTGCTTGAAAATCTTAAAAATTGTACATAAAAGTCTTAGAGA
* * * * * *
11021595 TTAT--ATTCGAAAGATTTAAAGATTTCAAAATCTTTAAATGCTCTTTATACATTAGAGGCATTA
1 TTATGCA-T-GGAAGACTTAAAGATCTCAAAATCTTTAAATGCTCCTAATACATTA-AAGCATTA
** *
11021658 AAACTTTAAAATTTTAAAATGCTTTGC-TCAAAAGTCTTAAAAAT
63 AAACTTTAAAATTTTAAAATATTTTGCTTGAAAA-TCTTAAAAAT
11021702 AATGTTTAGA
Statistics
Matches: 195, Mismatches: 33, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
126 1 0.01
127 5 0.03
128 181 0.93
129 8 0.04
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (127 bp):
TTATGCATGGAAGACTTAAAGATCTCAAAATCTTTAAATGCTCCTAATACATTAAAGCATTAAAA
CTTTAAAATTTTAAAATATTTTGCTTGAAAATCTTAAAAATTGTACATAAAAGTCTTAGAGA
Found at i:11021785 original size:50 final size:50
Alignment explanation
Indices: 11021722--11021822 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
11021712 GGTTTTAAGG
* * *
11021722 ATTTCAAACTCTTTGAATGCTCCTCATACATTTGGGGTATTGAAATTTTA
1 ATTTCAAAATCTTTGAATACTCCTCATACATTTGGGGTATTGAAACTTTA
*
11021772 ATTTCAAAATCTTTGAATACTCCTTATACATTTGGGGTATTGAAACTTTA
1 ATTTCAAAATCTTTGAATACTCCTCATACATTTGGGGTATTGAAACTTTA
11021822 A
1 A
11021823 AAATTTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (50 bp):
ATTTCAAAATCTTTGAATACTCCTCATACATTTGGGGTATTGAAACTTTA
Found at i:11021830 original size:156 final size:156
Alignment explanation
Indices: 11021616--11021928 Score: 380
Period size: 156 Copynumber: 2.0 Consensus size: 156
11021606 AGATTTAAAG
* * * *
11021616 ATTTCAAAATCTTTAAATGCTCTTTATACATTAGAGGCATTAAAACTTTAAAATTTTAAAATGCT
1 ATTTCAAAATCTTTAAATACTCCTTATACATTAGAGGCATTAAAACTTTAAAAATTTAAAATACT
* * * *
11021681 TTGC-TCAAAAGTCTTAAAAATAATG-TTT-AGAGGTTTTAAGGATTTCAAACTCTTTGAATGCT
66 TTGCTTC-AAAGTCTTAAAAAT--TGTTTTCAGAGATCTTAAGGATTTCAAAATCTTTAAATGCT
* * *
11021743 CCTCATACATTTGGGGTATTGAAATTTTA
128 CCTCATACATTAGAGGTATTGAAACTTTA
* * * * * *
11021772 ATTTCAAAATCTTTGAATACTCCTTATACATTTGGGGTATTGAAACTTTAAAAATTTAAAATATT
1 ATTTCAAAATCTTTAAATACTCCTTATACATTAGAGGCATTAAAACTTTAAAAATTTAAAATACT
* * *
11021837 TTGCTTCAAAGTCTTAAAAATTGTTTTCGGAGATCTTAAGGATTTTAAAATCTTTAAATGCTTCT
66 TTGCTTCAAAGTCTTAAAAATTGTTTTCAGAGATCTTAAGGATTTCAAAATCTTTAAATGCTCCT
* *
11021902 CATATATTAGAGGTGTTGAAACTTTA
131 CATACATTAGAGGTATTGAAACTTTA
11021928 A
1 A
11021929 AATTTTAAAA
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
154 2 0.02
155 3 0.02
156 125 0.95
157 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (156 bp):
ATTTCAAAATCTTTAAATACTCCTTATACATTAGAGGCATTAAAACTTTAAAAATTTAAAATACT
TTGCTTCAAAGTCTTAAAAATTGTTTTCAGAGATCTTAAGGATTTCAAAATCTTTAAATGCTCCT
CATACATTAGAGGTATTGAAACTTTA
Found at i:11022083 original size:22 final size:22
Alignment explanation
Indices: 11022058--11022112 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11022048 TTGCCTATAG
* *
11022058 GTCTTAGAAATTATGCCCGAAA
1 GTCTTAGAAATTATACCCAAAA
* *
11022080 GTCTTAGATATTATACCTAAAA
1 GTCTTAGAAATTATACCCAAAA
*
11022102 GTCTTACAAAT
1 GTCTTAGAAAT
11022113 CTTAAAATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (22 bp):
GTCTTAGAAATTATACCCAAAA
Found at i:11026791 original size:20 final size:20
Alignment explanation
Indices: 11026753--11026791 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11026743 TACATGTCAA
*
11026753 AAGAAAATTTATTTTTTTTC
1 AAGAAAATTTATTTCTTTTC
11026773 AAGAAAATGTT-TTTCTTTT
1 AAGAAAAT-TTATTTCTTTT
11026792 ATTATCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
AAGAAAATTTATTTCTTTTC
Found at i:11027293 original size:21 final size:22
Alignment explanation
Indices: 11027263--11027314 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11027253 GATATTTTTA
11027263 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11027283 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11027305 AATATTTTAT
1 AATATTTTAT
11027315 TAATTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:11028595 original size:15 final size:16
Alignment explanation
Indices: 11028567--11028596 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11028557 TCTCATCCTA
11028567 TTATTTTTATTATTTT
1 TTATTTTTATTATTTT
11028583 TTATTTTTA-TATTT
1 TTATTTTTATTATTT
11028597 GTTGTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTTTTATTATTTT
Found at i:11028604 original size:15 final size:16
Alignment explanation
Indices: 11028567--11028604 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11028557 TCTCATCCTA
*
11028567 TTATTTTTATTATTTT
1 TTATTTTTATTATTTG
11028583 TTATTTTTA-TATTTG
1 TTATTTTTATTATTTG
*
11028598 TTGTTTT
1 TTATTTT
11028605 AACTAAACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (16 bp):
TTATTTTTATTATTTG
Found at i:11030839 original size:13 final size:14
Alignment explanation
Indices: 11030823--11030867 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
11030813 TTTTCTTTCC
11030823 TTTTTTGTAATTT-
1 TTTTTTGTAATTTA
*
11030836 TTTTGTGTAATTTA
1 TTTTTTGTAATTTA
* *
11030850 ATTTTTGTAATTAA
1 TTTTTTGTAATTTA
11030864 TTTT
1 TTTT
11030868 GATTATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (14 bp):
TTTTTTGTAATTTA
Found at i:11032086 original size:5 final size:5
Alignment explanation
Indices: 11032076--11032146 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
11032066 TAAAAATCAG
**
11032076 TAAAA TAAAA TAAAA TAAAA TAAAAA CTTTTAA -AAAA TAAAA T-AAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA --TAAAA TAAAA TAAAA TAAAA
11032122 -AAAA TGAAAA TAAAA TGAAAA -AAAA
1 TAAAA T-AAAA TAAAA T-AAAA TAAAA
11032147 GAACATCTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
4 12 0.22
5 26 0.48
6 13 0.24
7 2 0.04
8 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:11032145 original size:14 final size:14
Alignment explanation
Indices: 11032107--11032136 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11032097 AAAAACTTTT
11032107 AAAAAAT-AAAATA
1 AAAAAATGAAAATA
11032120 AAAAAATGAAAATA
1 AAAAAATGAAAATA
11032134 AAA
1 AAA
11032137 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAAATGAAAATA
Found at i:11032507 original size:41 final size:42
Alignment explanation
Indices: 11032460--11032555 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 42
11032450 CATTCAACCC
* * * *
11032460 AAACCCAAATTTTTTCAGAAATTTTTC-AAAAATTTAAACTT
1 AAACCCAAATTTTTTCAAAAAATTTCCTAAAAACTTAAACTT
*
11032501 AAACCCAAATTTTTTCAAAAAATTTCCTAGAAACTTAAACTT
1 AAACCCAAATTTTTTCAAAAAATTTCCTAAAAACTTAAACTT
*
11032543 AAACCCAGATTTT
1 AAACCCAAATTTT
11032556 CAAACTTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 24 0.50
42 24 0.50
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (42 bp):
AAACCCAAATTTTTTCAAAAAATTTCCTAAAAACTTAAACTT
Found at i:11032698 original size:23 final size:23
Alignment explanation
Indices: 11032672--11032754 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
11032662 GTCTTTTCTT
11032672 CAAAAATTAACTCATCCTTTTTC
1 CAAAAATTAACTCATCCTTTTTC
11032695 CAAAAATTAACTCAT-CTTTTCTC
1 CAAAAATTAACTCATCCTTTT-TC
* * * * *
11032718 TATAAATTCACTCCA-CTTTTTTTT
1 CAAAAATTAACT-CATC-CTTTTTC
11032742 CAAAAATTAACTC
1 CAAAAATTAACTC
11032755 GTGAATTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.10
23 27 0.56
24 12 0.25
25 4 0.08
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (23 bp):
CAAAAATTAACTCATCCTTTTTC
Found at i:11032725 original size:46 final size:47
Alignment explanation
Indices: 11032648--11032754 Score: 112
Period size: 46 Copynumber: 2.3 Consensus size: 47
11032638 ATATTTTCTC
* **
11032648 CCAAAAATTACCTTGTCTTTTCTTCAAAAATTAACT-CA-TCCTTTTT
1 CCAAAAATTAACTCATCTTTTCTTCAAAAATTAACTCCACT-CTTTTT
* * *
11032694 CCAAAAATTAACTCATCTTTTC-TCTATAAATTCACTCCACTTTTTTT
1 CCAAAAATTAACTCATCTTTTCTTC-AAAAATTAACTCCACTCTTTTT
*
11032741 TCAAAAATTAACTC
1 CCAAAAATTAACTC
11032755 GTGAATTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.04
46 28 0.55
47 20 0.39
48 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.01, T:0.42
Consensus pattern (47 bp):
CCAAAAATTAACTCATCTTTTCTTCAAAAATTAACTCCACTCTTTTT
Found at i:11033019 original size:3 final size:3
Alignment explanation
Indices: 11033013--11033070 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
11033003 AAAAAAAGAA
* *
11033013 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11033061 AAT AAT AAT A
1 AAT AAT AAT A
11033071 CACATTATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11034496 original size:48 final size:46
Alignment explanation
Indices: 11034391--11034515 Score: 110
Period size: 48 Copynumber: 2.6 Consensus size: 46
11034381 AAGCCCCCCA
* * *
11034391 TTCAGGTTTTCAACTTGAACTCTCATTTTTTTTTTGCTCAAGCCAACTT
1 TTCAAGTTTTCAATTTGAACT-T--TTTTTTTTTTGCTCAAGCCAACCT
* ***
11034440 TTCGAGTTTTCAATTTGAACTTTTTTTTTTCTTGGCTCAAGCTGCCCT
1 TTCAAGTTTTCAATTTGAACTTTTTTTTTT-TT-GCTCAAGCCAACCT
11034488 TTCAAGTTTTC--TTCTAGAACTTTTTTTT
1 TTCAAGTTTTCAATT-T-GAACTTTTTTTT
11034516 AAACAAAGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
46 10 0.16
47 3 0.05
48 33 0.52
49 18 0.28
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (46 bp):
TTCAAGTTTTCAATTTGAACTTTTTTTTTTTTGCTCAAGCCAACCT
Found at i:11036669 original size:6 final size:6
Alignment explanation
Indices: 11036658--11036690 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
11036648 AAAAATCAAT
11036658 AAAATA AAAATA AAAATAA AAAATA AAAA-A AAA
1 AAAATA AAAATA AAAAT-A AAAATA AAAATA AAA
11036691 CCAGCAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 16 0.62
7 6 0.23
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:11036673 original size:12 final size:12
Alignment explanation
Indices: 11036658--11036690 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
11036648 AAAAATCAAT
11036658 AAAATAAAAATA
1 AAAATAAAAATA
11036670 AAAATAAAAAATA
1 AAAAT-AAAAATA
11036683 AAAA-AAAA
1 AAAATAAAA
11036691 CCAGCAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 5 0.25
13 11 0.55
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:11037044 original size:41 final size:41
Alignment explanation
Indices: 11036992--11037081 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
11036982 TCATACATTC
** *
11036992 AACCTAAATTTTTCCA-AAATTTTTTTAGAAATTTAAACCTA
1 AACCTAAATTTTTCCATAAA-TTTCCTAGAAACTTAAACCTA
* *
11037033 AACCTATATTTTTTCATAAATTTCCTAGAAACTTAAACCTA
1 AACCTAAATTTTTCCATAAATTTCCTAGAAACTTAAACCTA
*
11037074 AATCTAAA
1 AACCTAAA
11037082 ATTTGAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 38 0.93
42 3 0.07
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (41 bp):
AACCTAAATTTTTCCATAAATTTCCTAGAAACTTAAACCTA
Found at i:11037098 original size:21 final size:20
Alignment explanation
Indices: 11037073--11037120 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
11037063 ACTTAAACCT
* *
11037073 AAATCTAAAATTTGAAACTTC
1 AAATCTAAAACTTCAAA-TTC
* *
11037094 AAATCCAAAACTTCAAATTG
1 AAATCTAAAACTTCAAATTC
11037114 AAATCTA
1 AAATCTA
11037121 GGAATTCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATCTAAAACTTCAAATTC
Found at i:11037222 original size:23 final size:23
Alignment explanation
Indices: 11037186--11037320 Score: 132
Period size: 23 Copynumber: 6.0 Consensus size: 23
11037176 CCATAAATAT
*
11037186 TCCTTTC-C-AAAAATTAACTCG
1 TCCTTTCTCTAAAAATTAACTCA
* * *
11037207 TCTTTTCTCTAGAAATTCACT-A
1 TCCTTTCTCTAAAAATTAACTCA
* *
11037229 TTCCTTTCTATAGAAATTAACTCA
1 -TCCTTTCTCTAAAAATTAACTCA
11037253 TCCTTTCTCTAAAAATTAACTCA
1 TCCTTTCTCTAAAAATTAACTCA
* * * *
11037276 TCTTTTCTCCAAAAATTCACTCC
1 TCCTTTCTCTAAAAATTAACTCA
* *
11037299 CCCTTTCTCCAAAAATTAACTC
1 TCCTTTCTCTAAAAATTAACTC
11037321 GTGAATTATT
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
21 6 0.06
22 1 0.01
23 86 0.91
24 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.02, T:0.39
Consensus pattern (23 bp):
TCCTTTCTCTAAAAATTAACTCA
Found at i:11037305 original size:69 final size:67
Alignment explanation
Indices: 11037186--11037320 Score: 171
Period size: 69 Copynumber: 2.0 Consensus size: 67
11037176 CCATAAATAT
* * * ** * *
11037186 TCCTTTCCAAAAATTAACTCGTCTTTTCTCTAGAAATTCACTATTCCTTTCTATAGAAATTAACT
1 TCCTTTCCAAAAATTAACTCATCTTTTCTCCAAAAATTCACTACCCCTTTCTACAAAAATTAACT
11037251 CA
66 CA
* *
11037253 TCCTTTCTCTAAAAATTAACTCATCTTTTCTCCAAAAATTCACTCCCCCTTTCTCCAAAAATTAA
1 TCCTTTC-C-AAAAATTAACTCATCTTTTCTCCAAAAATTCACTACCCCTTTCTACAAAAATTAA
11037318 CTC
64 CTC
11037321 GTGAATTATT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 7 0.12
68 1 0.02
69 49 0.86
ACGTcount: A:0.31, C:0.28, G:0.02, T:0.39
Consensus pattern (67 bp):
TCCTTTCCAAAAATTAACTCATCTTTTCTCCAAAAATTCACTACCCCTTTCTACAAAAATTAACT
CA
Found at i:11040805 original size:14 final size:14
Alignment explanation
Indices: 11040783--11040832 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
11040773 TAGGATCCTA
*
11040783 AAATGGTCTTGTTT
1 AAATAGTCTTGTTT
11040797 AAATAGTC-T-TTT
1 AAATAGTCTTGTTT
* *
11040809 AAATGGTCCTGTTT
1 AAATAGTCTTGTTT
11040823 AAATAGTCTT
1 AAATAGTCTT
11040833 TTACTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 10 0.33
13 2 0.07
14 18 0.60
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (14 bp):
AAATAGTCTTGTTT
Found at i:11040811 original size:12 final size:12
Alignment explanation
Indices: 11040794--11040835 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
11040784 AATGGTCTTG
11040794 TTTAAATAGTCT
1 TTTAAATAGTCT
*
11040806 TTTAAATGGTCCT
1 TTTAAATAGT-CT
11040819 GTTTAAATAGTCT
1 -TTTAAATAGTCT
11040832 TTTA
1 TTTA
11040836 CTTATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 13 0.50
13 4 0.15
14 9 0.35
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (12 bp):
TTTAAATAGTCT
Found at i:11040816 original size:26 final size:26
Alignment explanation
Indices: 11040783--11040835 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
11040773 TAGGATCCTA
*
11040783 AAATGGTCTTGTTTAAATAGTCTTTT
1 AAATGGTCCTGTTTAAATAGTCTTTT
11040809 AAATGGTCCTGTTTAAATAGTCTTTT
1 AAATGGTCCTGTTTAAATAGTCTTTT
11040835 A
1 A
11040836 CTTATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (26 bp):
AAATGGTCCTGTTTAAATAGTCTTTT
Found at i:11042011 original size:30 final size:31
Alignment explanation
Indices: 11041954--11042012 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
11041944 TAACTAAAAA
* ***
11041954 TATTTTATTTTTCCTTAATATTTTTCACACT
1 TATTTTATTTTTCCTTAACAAAATTCACACT
11041985 TATTTTATTTTT-CTTAACAAAATTCACA
1 TATTTTATTTTTCCTTAACAAAATTCACA
11042013 TAATAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (31 bp):
TATTTTATTTTTCCTTAACAAAATTCACACT
Found at i:11042044 original size:23 final size:23
Alignment explanation
Indices: 11042018--11042062 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11042008 TCACATAATA
11042018 AAAT-AAAATAAATAAAAATATAG
1 AAATAAAAAT-AATAAAAATATAG
11042041 AAATAAAAATAATAAAAATATA
1 AAATAAAAATAATAAAAATATA
11042063 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (23 bp):
AAATAAAAATAATAAAAATATAG
Found at i:11046520 original size:42 final size:42
Alignment explanation
Indices: 11046456--11046538 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
11046446 TTATTATCTT
* * * * *
11046456 AAAAATAAATACATTTATACTTGTATATATATTCTTGTATGC
1 AAAAATAAATACACTTACACTTGAAAATATATTCTTATATGC
11046498 AAAAATAAATACACTTACACTTGAAAATATATTCTTATATG
1 AAAAATAAATACACTTACACTTGAAAATATATTCTTATATG
11046539 AAACAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.39
Consensus pattern (42 bp):
AAAAATAAATACACTTACACTTGAAAATATATTCTTATATGC
Found at i:11047557 original size:20 final size:19
Alignment explanation
Indices: 11047534--11047572 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
11047524 TTAATAAAAA
*
11047534 TATAAATATAATAATTTTTT
1 TATAAAAATAA-AATTTTTT
11047554 TATAAAAATAAAATTTTTT
1 TATAAAAATAAAATTTTTT
11047573 CAATTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATAAAAATAAAATTTTTT
Found at i:11048542 original size:21 final size:21
Alignment explanation
Indices: 11048512--11048558 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11048502 ACTAATGATT
*
11048512 TTAATCTCATAATTACAATAA
1 TTAATATCATAATTACAATAA
* *
11048533 TTAATATCATTATTATAATAA
1 TTAATATCATAATTACAATAA
11048554 TTAAT
1 TTAAT
11048559 CTCACCACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAATATCATAATTACAATAA
Found at i:11049034 original size:11 final size:10
Alignment explanation
Indices: 11049012--11049061 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
11049002 ATTACGTGTG
*
11049012 AATTTAATTT
1 AATTTTATTT
11049022 AATTTTATGTT
1 AATTTTAT-TT
*
11049033 AAATTTATTT
1 AATTTTATTT
*
11049043 AATTTTATTC
1 AATTTTATTT
*
11049053 AAGTTTATT
1 AATTTTATT
11049062 AGCTGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (10 bp):
AATTTTATTT
Found at i:11054143 original size:19 final size:17
Alignment explanation
Indices: 11054121--11054159 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11054111 AAAAAAAAAA
11054121 AAACTAAGAGGAAAACTAG
1 AAACTAAGA-G-AAACTAG
*
11054140 AAACTTAGAGAAACTAG
1 AAACTAAGAGAAACTAG
11054157 AAA
1 AAA
11054160 GTAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.59, C:0.10, G:0.18, T:0.13
Consensus pattern (17 bp):
AAACTAAGAGAAACTAG
Found at i:11061940 original size:32 final size:32
Alignment explanation
Indices: 11061899--11061969 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
11061889 TTTGAAATAA
11061899 ATATTTGATTTATGCCTTTTAGCTTCTTTGGT
1 ATATTTGATTTATGCCTTTTAGCTTCTTTGGT
**
11061931 ATATTTGATTTATGGTTTTTAGCTTCTTTGGT
1 ATATTTGATTTATGCCTTTTAGCTTCTTTGGT
11061963 AT-TTTGA
1 ATATTTGA
11061970 AACATAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 5 0.14
32 32 0.86
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (32 bp):
ATATTTGATTTATGCCTTTTAGCTTCTTTGGT
Found at i:11066958 original size:145 final size:145
Alignment explanation
Indices: 11066718--11066983 Score: 505
Period size: 145 Copynumber: 1.8 Consensus size: 145
11066708 TAGATTGGAT
11066718 TTCGGGTTTGGGTAGATTTAGGATTAGGGGTTAGATTTTAGGTTTTAAGGTTTTATTTAGGGTTT
1 TTCGGGTTTGGGTAGATTTAGGATTAGGGGTTAGATTTTAGGTTTTAAGGTTTTATTTAGGGTTT
11066783 AGGGTAGGTTTTATGGTTTAGCGTTTTGTTTAGGGATTGATTTAGGGTTTAAGGTTAGATTTAAG
66 AGGGTAGGTTTTATGGTTTAGCGTTTTGTTTAGGGATTGATTTAGGGTTTAAGGTTAGATTTAAG
11066848 ATTTAGAGTTTAAGG
131 ATTTAGAGTTTAAGG
*
11066863 TTCGGTTTTGGGTAGATTTAGGATTAGGGGTTAGATTTTAGGTTTTAAGGTTTTATTTAGGGTTT
1 TTCGGGTTTGGGTAGATTTAGGATTAGGGGTTAGATTTTAGGTTTTAAGGTTTTATTTAGGGTTT
* *
11066928 AGGGTAGGTTTTATGGTTTAGCGTTTTGTTTAGGGCTTGTTTTAGGGTTTAAGGTT
66 AGGGTAGGTTTTATGGTTTAGCGTTTTGTTTAGGGATTGATTTAGGGTTTAAGGTT
11066984 TTAGGGTTTA
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 118 1.00
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (145 bp):
TTCGGGTTTGGGTAGATTTAGGATTAGGGGTTAGATTTTAGGTTTTAAGGTTTTATTTAGGGTTT
AGGGTAGGTTTTATGGTTTAGCGTTTTGTTTAGGGATTGATTTAGGGTTTAAGGTTAGATTTAAG
ATTTAGAGTTTAAGG
Found at i:11068539 original size:141 final size:142
Alignment explanation
Indices: 11068273--11068636 Score: 391
Period size: 142 Copynumber: 2.5 Consensus size: 142
11068263 ATTGACCTTG
* * *
11068273 AAAAGGTCAAATTACAAAAATGCCCTATAAAAGGTATTTTGGTAATTTCATT-TCTTTTGAGGTG
1 AAAAGGTCAAATTA-TAAAATACCCT-TAAAGGGTATTTTGGTAATTTCATTCT-TTTTGAGGTG
* *
11068337 CAACCAAGATTTT-AATGCAACAAAATTCATGAAATAATTTTTAAACATGATCTGAAGC-TTTTC
63 CAACCAAGATTTTCAATGC-ACAAAATTCATGAAATAATTATTAAACATGATCTGAAGCTTTTTA
** *
11068400 GTGAAAACTAACCTCA
127 GAAAAAACCAACCTCA
* *
11068416 AAAAAGTCAAATTATGAAAATACCCTTAAAGGGTATTTTAGTAATTTCATTCTTTTTGAGGTGCA
1 AAAAGGTCAAATTAT-AAAATACCCTTAAAGGGTATTTTGGTAATTTCATTCTTTTTGAGGTGCA
* * *
11068481 ATCAAGATTTTCAATTC-CAAAATTCATGAAATAA-TATTAAAGCATGATTTGGAA-CTTTTTAG
65 ACCAAGATTTTCAATGCACAAAATTCATGAAATAATTATTAAA-CATGATCT-GAAGCTTTTTAG
* * *
11068543 AAAAAACCGATCTTA
128 AAAAAACCAACCTCA
** * * * * *
11068558 GGAAGGTCAAATTATAAAAGTACCCTTAAGGGGGCATTTTGGTTATATCATTC-TTATGAGGTGC
1 AAAAGGTCAAATTATAAAA-TACCCTTAA-AGGGTATTTTGGTAATTTCATTCTTTTTGAGGTGC
11068622 AACCAAGATTTTCAA
64 AACCAAGATTTTCAA
11068637 GAATCCAAAT
Statistics
Matches: 187, Mismatches: 26, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
140 6 0.03
141 29 0.16
142 107 0.57
143 45 0.24
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (142 bp):
AAAAGGTCAAATTATAAAATACCCTTAAAGGGTATTTTGGTAATTTCATTCTTTTTGAGGTGCAA
CCAAGATTTTCAATGCACAAAATTCATGAAATAATTATTAAACATGATCTGAAGCTTTTTAGAAA
AAACCAACCTCA
Found at i:11069171 original size:35 final size:34
Alignment explanation
Indices: 11069116--11069336 Score: 97
Period size: 35 Copynumber: 6.3 Consensus size: 34
11069106 TGTGAGATAA
11069116 AAAAAT-AAAATGACCAAGATTAAACCATAAGTC
1 AAAAATAAAAATGACCAAGATTAAACCATAAGTC
** * * *
11069149 AGAAAATAAAAATGACTGAGATTGAATCGTAAGTC
1 A-AAAATAAAAATGACCAAGATTAAACCATAAGTC
* ****
11069184 AATAAATAAAAATGA--ATGGAATTAAATTGCAAGTCC
1 AA-AAATAAAAATGACCA-AG-ATTAAACCATAAGT-C
* * * * * *
11069220 AAAAATAAAGATGACTAAGATTGAACCTTGAGTT
1 AAAAATAAAAATGACCAAGATTAAACCATAAGTC
* * * * * * *
11069254 AGGAAATAAAAAATAACCAGGACTAAACTACAATTC
1 A-AAAAT-AAAAATGACCAAGATTAAACCATAAGTC
* * * *
11069290 AAAAAATAAAAATGATCAAAATTGAACCACAAGTC
1 -AAAAATAAAAATGACCAAGATTAAACCATAAGTC
11069325 AAAAAATAAAAA
1 -AAAAATAAAAA
11069337 AGATTGAGTA
Statistics
Matches: 136, Mismatches: 41, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
33 1 0.01
34 8 0.06
35 101 0.74
36 24 0.18
37 2 0.01
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (34 bp):
AAAAATAAAAATGACCAAGATTAAACCATAAGTC
Found at i:11069710 original size:11 final size:12
Alignment explanation
Indices: 11069688--11069721 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
11069678 TAAATCTATC
11069688 TTATTATTTTTGT
1 TTATT-TTTTTGT
11069701 TT-TTTTTTTGT
1 TTATTTTTTTGT
11069712 TTATTTTTTT
1 TTATTTTTTT
11069722 CTTTCTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 9 0.45
13 2 0.10
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (12 bp):
TTATTTTTTTGT
Found at i:11079102 original size:17 final size:16
Alignment explanation
Indices: 11079063--11079095 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11079053 AGCTTTTTTT
11079063 TTTTCTATTTCCTTTCC
1 TTTTCTATTT-CTTTCC
11079080 TTTTCTATTT-TTTCC
1 TTTTCTATTTCTTTCC
11079095 T
1 T
11079096 CCTTTCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTATTTCTTTCC
Found at i:11084655 original size:20 final size:19
Alignment explanation
Indices: 11084630--11084676 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
11084620 GTTTCATGAC
11084630 TAATATTATATTTGCACGA
1 TAATATTATATTTGCACGA
*
11084649 TTAATATTATATTTGCATGA
1 -TAATATTATATTTGCACGA
11084669 TAAT-TTAT
1 TAATATTAT
11084677 TTGCCTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 18 0.69
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (19 bp):
TAATATTATATTTGCACGA
Found at i:11084679 original size:16 final size:16
Alignment explanation
Indices: 11084658--11084717 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
11084648 ATTAATATTA
11084658 TATTTGCATGATAATT
1 TATTTGCATGATAATT
* * *
11084674 TATTTGCCTAATATTT
1 TATTTGCATGATAATT
*
11084690 TATTTGCATGATTAATA
1 TATTTGCATGA-TAATT
11084707 TATTTGCATGA
1 TATTTGCATGA
11084718 ATTTAATTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
16 22 0.61
17 14 0.39
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (16 bp):
TATTTGCATGATAATT
Found at i:11084688 original size:32 final size:33
Alignment explanation
Indices: 11084650--11084713 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
11084640 TTTGCACGAT
*
11084650 TAATATTATATTTGCATGA-TAATTTATTTGCC
1 TAATATTATATTTGCATGATTAATATATTTGCC
*
11084682 TAATATTTTATTTGCATGATTAATATATTTGC
1 TAATATTATATTTGCATGATTAATATATTTGC
11084714 ATGAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (33 bp):
TAATATTATATTTGCATGATTAATATATTTGCC
Found at i:11084727 original size:32 final size:32
Alignment explanation
Indices: 11084650--11084728 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
11084640 TTTGCACGAT
* *
11084650 TAATA-TTATATTTGCATGATAATTTATTTGCC
1 TAATATTTA-ATTTGCATGATAATATATTTGCA
*
11084682 TAATATTTTATTTGCATGATTAATATATTTGCA
1 TAATATTTAATTTGCATGA-TAATATATTTGCA
*
11084715 TGA-ATTTAATTTGC
1 TAATATTTAATTTGC
11084729 TTTCAATGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 25 0.62
33 15 0.38
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (32 bp):
TAATATTTAATTTGCATGATAATATATTTGCA
Found at i:11084767 original size:17 final size:17
Alignment explanation
Indices: 11084742--11084790 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
11084732 CAATGATTAT
*
11084742 TAATATATTTATTTGCA
1 TAATTTATTTATTTGCA
* *
11084759 TAATTTATTTAATTGCT
1 TAATTTATTTATTTGCA
* *
11084776 TGATTTATTAATTTG
1 TAATTTATTTATTTG
11084791 ATTGCATGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (17 bp):
TAATTTATTTATTTGCA
Found at i:11084794 original size:21 final size:20
Alignment explanation
Indices: 11084765--11084807 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
11084755 TGCATAATTT
*
11084765 ATTTAATTGCTTGATTTATTA
1 ATTTAATTGCATGA-TTATTA
*
11084786 ATTTGATTGCATGATTATTA
1 ATTTAATTGCATGATTATTA
11084806 AT
1 AT
11084808 ATATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (20 bp):
ATTTAATTGCATGATTATTA
Found at i:11084800 original size:62 final size:61
Alignment explanation
Indices: 11084682--11084818 Score: 170
Period size: 61 Copynumber: 2.2 Consensus size: 61
11084672 TTTATTTGCC
* * * *
11084682 TAATAT-TTTATTTGCATGATTAATATATTTGCATGAATTTAATTTGCTTTCAATGATTAT
1 TAATATATTTATTTGCATAATTAATATAATTGCATGAATTTAATTTGATTGCAATGATTAT
* * * *
11084742 TAATATATTTATTTGCATAATTTATTTAATTGCTTGATTTATTAATTTGATTGC-ATGATTAT
1 TAATATATTTATTTGCATAATTAATATAATTGCATGA-AT-TTAATTTGATTGCAATGATTAT
11084804 TAATATATTTATTTG
1 TAATATATTTATTTG
11084819 TATGATTACC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 6 0.09
61 25 0.38
62 24 0.36
63 11 0.17
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.54
Consensus pattern (61 bp):
TAATATATTTATTTGCATAATTAATATAATTGCATGAATTTAATTTGATTGCAATGATTAT
Found at i:11084823 original size:24 final size:24
Alignment explanation
Indices: 11084796--11085019 Score: 162
Period size: 24 Copynumber: 9.3 Consensus size: 24
11084786 ATTTGATTGC
11084796 ATGATTATTAATATATTTATTTGT
1 ATGATTATTAATATATTTATTTGT
*
11084820 ATGATTACCTAATATATTTATGTGTGT
1 ATGATTA-TTAATATATTTAT-T-TGT
* * *
11084847 GATTTCAGTTATTAATAGATATATTTGT
1 -A--TGA-TTATTAATATATTTATTTGT
* *
11084875 ATAATTA-T-ATTTAATTTGA-TTGT
1 ATGATTATTAATAT-ATTT-ATTTGT
* *
11084898 ATGATTATTAATATATTAAATTGCT
1 ATGATTATTAATATATTTATTTG-T
11084923 -TGATTATTAATATATTTATTT-T
1 ATGATTATTAATATATTTATTTGT
* *
11084945 -T-ATGATT-ATAT-TTTA-TTGC
1 ATGATTATTAATATATTTATTTGT
* * *
11084964 ATGTTTATTAATATATTTAGTTGG
1 ATGATTATTAATATATTTATTTGT
11084988 ATGATTATTAATATATTTATTTGT
1 ATGATTATTAATATATTTATTTGT
*
11085012 GTGATTAT
1 ATGATTAT
11085020 AATTGATTGC
Statistics
Matches: 158, Mismatches: 23, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
18 2 0.01
19 4 0.03
20 5 0.03
21 9 0.06
22 8 0.05
23 19 0.12
24 68 0.43
25 18 0.11
26 1 0.01
27 4 0.03
28 4 0.03
29 1 0.01
30 12 0.08
31 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.54
Consensus pattern (24 bp):
ATGATTATTAATATATTTATTTGT
Found at i:11084837 original size:25 final size:24
Alignment explanation
Indices: 11084796--11084850 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
11084786 ATTTGATTGC
* *
11084796 ATGATTATTAATATATTTATTTGT
1 ATGATTACTAATATATTTATGTGT
11084820 ATGATTACCTAATATATTTATGTGT
1 ATGATTA-CTAATATATTTATGTGT
*
11084845 GTGATT
1 ATGATT
11084851 TCAGTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.53
Consensus pattern (24 bp):
ATGATTACTAATATATTTATGTGT
Found at i:11084998 original size:66 final size:66
Alignment explanation
Indices: 11084888--11085045 Score: 212
Period size: 66 Copynumber: 2.4 Consensus size: 66
11084878 ATTATATTTA
* * * *
11084888 ATTTGATTGTATGATTATTAATATATTAAATTGCTTGATTATTAATATATTTATTTTTATGATTA
1 ATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTA
11084953 T
66 T
* * * * *
11084954 ATTTTATTGCATGTTTATTAATATATTTAGTTGGATGATTATTAATATATTTATTTGTGTGATTA
1 ATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTA
11085019 T
66 T
*
11085020 AATTGATTGCATGATTA-T-ATATATTT
1 ATTTGATTGCATGATTATTAATATATTT
11085046 GCATGAATCA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 8 0.10
65 1 0.01
66 71 0.89
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (66 bp):
ATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATTAATATATTTATTTGTATGATTA
T
Found at i:11085079 original size:31 final size:31
Alignment explanation
Indices: 11085033--11085108 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
11085023 TGATTGCATG
*
11085033 ATTATATATATTTGCATGAATCATTTTT-ATGGT
1 ATTATAT-TA-TTGCATG-ATAATTTTTCATGGT
11085066 ATTATATTATTGCATGATAATTTTTGCATGGT
1 ATTATATTATTGCATGATAATTTTT-CATGGT
* *
11085098 ATGATTTTATT
1 ATTATATTATT
11085109 TTATTGCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 8 0.21
31 7 0.18
32 16 0.42
33 7 0.18
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (31 bp):
ATTATATTATTGCATGATAATTTTTCATGGT
Found at i:11085132 original size:35 final size:35
Alignment explanation
Indices: 11085082--11085188 Score: 144
Period size: 35 Copynumber: 3.1 Consensus size: 35
11085072 TTATTGCATG
11085082 ATAATTT-TTGCATGGTATGATTTTATTTTATTGC
1 ATAATTTATTGCATGGTATGATTTTATTTTATTGC
* * *
11085116 ATAATTTATTGCATGGTGTGATTTTATATTATTAC
1 ATAATTTATTGCATGGTATGATTTTATTTTATTGC
** *
11085151 ACGATTTATTGCATGGTATGATTTAATATTTATTGC
1 ATAATTTATTGCATGGTATGATTTTAT-TTTATTGC
11085187 AT
1 AT
11085189 GTTTGCTTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
34 7 0.11
35 47 0.77
36 7 0.11
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (35 bp):
ATAATTTATTGCATGGTATGATTTTATTTTATTGC
Found at i:11086846 original size:261 final size:260
Alignment explanation
Indices: 11086420--11087091 Score: 906
Period size: 261 Copynumber: 2.6 Consensus size: 260
11086410 CATACATGTA
*
11086420 TTGTATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTATGTTATTGGCTTGGAAAAA
1 TTGTATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTATCTT-TTGGCTTGGAAAAA
* * * *
11086485 TCTTTGCC--TT--TTTTGTACATACTTTTGGATATAAATGATTGTTTTTCACTATGTATTGCAT
65 TCTTTGCCTTTTCATTTTGTACATA-GTTTGGATATGAATTATTATTTTTCACTATGTATTGCAT
* * * * * *
11086546 AAATGTAATCGTATGTATATTTTTATCCATTTTTGTATGTACATTATTTTGTTGGCTTGGGAGAA
129 ACATGTATTTGTATATATATTTTTATCCATTTTTGTATGTACATTATTTTATTGGCTTAGGAGAA
* * *
11086611 TCTTTGCATTTTTAGTTTTGTACATAGTTGTGAATATGAATAATTATTGTTATTATGCATTATAT
194 TCTTTGCATTTTCAGTTTTATACATAGTTGTGAATATGAATAATTATTGTTATTATGCATTACAT
11086676 AC
259 AC
*
11086678 TTGTATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTGTCTTTTGGCTTGGAAAAAT
1 TTGTATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTATCTTTTGGCTTGGAAAAAT
*
11086743 CTTTGCCTTTTCAATTTTGTATATAGTTTGGATATGAATTATTATTTTTCACTATGTATTGCATA
66 CTTTGCCTTTTC-ATTTTGTACATAGTTTGGATATGAATTATTATTTTTCACTATGTATTGCATA
* * *
11086808 CATGTATTTGTATATACATTTTTGTCCATTTTTGTATGTACATTATTTTATTGGTTTAGGAGAAT
130 CATGTATTTGTATATATATTTTTATCCATTTTTGTATGTACATTATTTTATTGGCTTAGGAGAAT
**
11086873 CTTTGCATTTTCAGTTTTATACATAGTTGTGAATATGAATTCTTATTGTTATTATGCATTACATA
195 CTTTGCATTTTCAGTTTTATACATAGTTGTGAATATGAATAATTATTGTTATTATGCATTACATA
11086938 C
260 C
* ** * * * * **
11086939 TTGTACATACATTTTTATCCACATAAATATTTTTGTATGTACATTATATCATTT-GTTTAGAGCA
1 TTGTATATACATTTTTATCCATGTAAACATTTTTGTATGTACA-T-TATCTTTTGGCTTGGAAAA
* * * * * *
11087003 ATTTTTGCCTTTTCAGTTTTGTACGTAGTTTTGAATACGAATTATTATTGTT-ATTATGTATTGC
64 ATCTTTGCCTTTTCA-TTTTGTACATAG-TTTGGATATGAATTATTATTTTTCACTATGTATTGC
*
11087067 ATACATGTATTTGCATATATATTTT
127 ATACATGTATTTGTATATATATTTT
11087092 AAAACTTTTT
Statistics
Matches: 365, Mismatches: 40, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
257 22 0.06
258 48 0.13
259 2 0.01
261 193 0.53
262 74 0.20
263 26 0.07
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.50
Consensus pattern (260 bp):
TTGTATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTATCTTTTGGCTTGGAAAAAT
CTTTGCCTTTTCATTTTGTACATAGTTTGGATATGAATTATTATTTTTCACTATGTATTGCATAC
ATGTATTTGTATATATATTTTTATCCATTTTTGTATGTACATTATTTTATTGGCTTAGGAGAATC
TTTGCATTTTCAGTTTTATACATAGTTGTGAATATGAATAATTATTGTTATTATGCATTACATAC
Found at i:11087010 original size:132 final size:129
Alignment explanation
Indices: 11086574--11087076 Score: 459
Period size: 132 Copynumber: 3.8 Consensus size: 129
11086564 ATTTTTATCC
* ** * ** *
11086574 ATTTTTGTATGTACATTATTTTGTTGGCTTGGGAGAATCTTTGCATTTTTAGTTTTGTACATAGT
1 ATTTTTGTATGTACATTATATCATTTG-TTTAGAGAATCTTTGCATTTTCAGTTTTGTACATAGT
* * *
11086639 TGTGAATATGAATAATTATTGTTATTATGCATTATATACTTGTATATACATTTTTATCCATGTAA
65 TGTGAATATGAATTATTATTGTTATTATGCATTACATACTTGTATATACATTTTTATCCA-CTAA
11086704 A
129 A
* * * * * * * *
11086705 CATTTTTGTATGTACA-T-TGTCTTTTGGCTTGGAAAAATCTTTGCCTTTTCAATTTTGTATATA
1 -ATTTTTGTATGTACATTATATCATTT-GTTTAG-AGAATCTTTGCATTTTCAGTTTTGTACATA
* * *
11086768 GTT-TGGATATGAATTATTATTTTTCACTATGTATTGCA-TACATGTATTTGTATATACATTTTT
63 GTTGTGAATATGAATTATTA-TTGT---TAT-TA-TGCATTACA--TACTTGTATATACATTTTT
*
11086831 GT-C-C----
120 ATCCACTAAA
* * * *
11086835 ATTTTTGTATGTACATTATTTTATTGGTTTAGGAGAATCTTTGCATTTTCAGTTTTATACATAGT
1 ATTTTTGTATGTACATTATATCATTTGTTTA-GAGAATCTTTGCATTTTCAGTTTTGTACATAGT
* *
11086900 TGTGAATATGAATTCTTATTGTTATTATGCATTACATACTTGTACATACATTTTTATCCACATAA
65 TGTGAATATGAATTATTATTGTTATTATGCATTACATACTTGTATATACATTTTTATCCAC-TAA
11086965 A
129 A
* * *
11086966 TATTTTTGTATGTACATTATATCATTTGTTTAGAGCAATTTTTGCCTTTTCAGTTTTGTACGTAG
1 -ATTTTTGTATGTACATTATATCATTTGTTTAGAG-AATCTTTGCATTTTCAGTTTTGTACATAG
* * * * *
11087031 TTTTGAATACGAATTATTATTGTTATTATGTATTGCATACATGTAT
64 TTGTGAATATGAATTATTATTGTTATTATGCATTACATACTTGTAT
11087077 TTGCATATAT
Statistics
Matches: 298, Mismatches: 49, Indels: 48
0.75 0.12 0.12
Matches are distributed among these distances:
124 18 0.06
125 5 0.02
126 7 0.02
127 3 0.01
129 15 0.05
130 56 0.19
131 55 0.18
132 107 0.36
134 3 0.01
135 5 0.02
136 5 0.02
137 19 0.06
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (129 bp):
ATTTTTGTATGTACATTATATCATTTGTTTAGAGAATCTTTGCATTTTCAGTTTTGTACATAGTT
GTGAATATGAATTATTATTGTTATTATGCATTACATACTTGTATATACATTTTTATCCACTAAA
Found at i:11088318 original size:9 final size:9
Alignment explanation
Indices: 11088300--11088358 Score: 77
Period size: 8 Copynumber: 6.4 Consensus size: 9
11088290 AATCTTAAAG
11088300 AAAAAA-GA
1 AAAAAATGA
11088308 AAAAAATGAAA
1 AAAAAATG--A
11088319 AAAAAATGA
1 AAAAAATGA
11088328 AAAAAATG-
1 AAAAAATGA
11088336 AAAAAATGA
1 AAAAAATGA
11088345 GAAAAAATGA
1 -AAAAAATGA
11088355 AAAA
1 AAAA
11088359 TGAAAGATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
8 14 0.30
9 14 0.30
10 9 0.20
11 9 0.20
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
AAAAAATGA
Done.