Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 9 of 127
Found at i:2117389 original size:20 final size:20
Alignment explanation
Indices: 2117360--2117409 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2117350 TCTAATTTCA
* * *
2117360 TATATATATATATATAATTT
1 TATATTTATATATAAAATAT
2117380 TATATTTATATATAAAATAT
1 TATATTTATATATAAAATAT
2117400 TAT-TTTATAT
1 TATATTTATAT
2117410 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATTTATATATAAAATAT
Found at i:2117426 original size:21 final size:19
Alignment explanation
Indices: 2117384--2117428 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
2117374 TAATTTTATA
* *
2117384 TTTATATATAAAATATTAT
1 TTTATATTTAAAATAATAT
2117403 TTTATATTTTAAAATTAATAT
1 TTTATA-TTTAAAA-TAATAT
2117424 TTTAT
1 TTTAT
2117429 TAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATATTTAAAATAATAT
Found at i:2120304 original size:19 final size:17
Alignment explanation
Indices: 2120270--2120302 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2120260 AATTATAATT
2120270 AATATATTTTTATATAA
1 AATATATTTTTATATAA
*
2120287 AATATATTTTAATATA
1 AATATATTTTTATATA
2120303 TATTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATATTTTTATATAA
Found at i:2127559 original size:17 final size:16
Alignment explanation
Indices: 2127533--2127574 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2127523 TTAAATAATT
*
2127533 TTAAATTTATTTAAATA
1 TTAAAATTATTTAAA-A
2127550 TTAAAATTA-TTAAAA
1 TTAAAATTATTTAAAA
*
2127565 TTATAATTAT
1 TTAAAATTAT
2127575 AAATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 5 0.23
17 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATTATTTAAAA
Found at i:2129451 original size:7 final size:7
Alignment explanation
Indices: 2129411--2129449 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
2129401 ATTAAATAAA
2129411 AAAATTAT
1 AAAA-TAT
2129419 AAAATAT
1 AAAATAT
2129426 AAAATAT
1 AAAATAT
2129433 AAAATAT
1 AAAATAT
*
2129440 AAATTAT
1 AAAATAT
2129447 AAA
1 AAA
2129450 TTTAATCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 26 0.87
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAAATAT
Found at i:2129463 original size:18 final size:17
Alignment explanation
Indices: 2129440--2129486 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
2129430 TATAAAATAT
*
2129440 AAATTATAAATTTAATCC
1 AAATTAT-AATTTAATCA
2129458 AAATTAT-ATTTAATCA
1 AAATTATAATTTAATCA
*
2129474 AAATTATATTTTA
1 AAATTATAATTTA
2129487 TCTTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 15 0.58
17 4 0.15
18 7 0.27
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATAATTTAATCA
Found at i:2129470 original size:16 final size:16
Alignment explanation
Indices: 2129449--2129484 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2129439 TAAATTATAA
*
2129449 ATTTAATCCAAATTAT
1 ATTTAATCAAAATTAT
2129465 ATTTAATCAAAATTAT
1 ATTTAATCAAAATTAT
2129481 ATTT
1 ATTT
2129485 TATCTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAATCAAAATTAT
Found at i:2135724 original size:14 final size:15
Alignment explanation
Indices: 2135702--2135739 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2135692 TGTTTACTTA
*
2135702 TTTAAAATTAATT-T
1 TTTATAATTAATTCT
2135716 TTTATAATTTAATTCT
1 TTTATAA-TTAATTCT
2135732 TTTATAAT
1 TTTATAAT
2135740 ATTATTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 7 0.33
16 8 0.38
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTATAATTAATTCT
Found at i:2135729 original size:15 final size:16
Alignment explanation
Indices: 2135709--2135739 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2135699 TTATTTAAAA
2135709 TTAATT-TTTTATAAT
1 TTAATTCTTTTATAAT
2135724 TTAATTCTTTTATAAT
1 TTAATTCTTTTATAAT
2135740 ATTATTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTCTTTTATAAT
Found at i:2136043 original size:24 final size:24
Alignment explanation
Indices: 2135984--2136037 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
2135974 TGTAAAGTTT
2135984 AAAATAAGTATAAAAATTAATTGG
1 AAAATAAGTATAAAAATTAATTGG
2136008 AAAATAAGTATAAAAATTAATTGG
1 AAAATAAGTATAAAAATTAATTGG
2136032 ACAAAT
1 A-AAAT
2136038 CTTATAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (24 bp):
AAAATAAGTATAAAAATTAATTGG
Found at i:2136674 original size:14 final size:14
Alignment explanation
Indices: 2136646--2136689 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 14
2136636 AATTAAAATT
2136646 AATATATACTTTTAA
1 AATATATA-TTTTAA
2136661 AATATATATTTT--
1 AATATATATTTTAA
2136673 AATATATATTTATAA
1 AATATATATTT-TAA
2136688 AA
1 AA
2136690 AAAATTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
14 4 0.15
15 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:2136849 original size:39 final size:39
Alignment explanation
Indices: 2136795--2136873 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
2136785 ATCTATACAC
2136795 ATTAAATACTTGTGGGAATGAGAATGAGAATAAATTTAA
1 ATTAAATACTTGTGGGAATGAGAATGAGAATAAATTTAA
2136834 ATTAAATACTTGTGGGAATGAGAATGAGAATAAATTTAA
1 ATTAAATACTTGTGGGAATGAGAATGAGAATAAATTTAA
2136873 A
1 A
2136874 ATATCCATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (39 bp):
ATTAAATACTTGTGGGAATGAGAATGAGAATAAATTTAA
Found at i:2158812 original size:9 final size:9
Alignment explanation
Indices: 2158798--2158840 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
2158788 TCATCAAACC
*
2158798 AAAAAAAAT
1 AAAAAAAAG
*
2158807 AAAAAATA-
1 AAAAAAAAG
2158815 AAAAAAAAG
1 AAAAAAAAG
*
2158824 AAAGAAAAG
1 AAAAAAAAG
2158833 AAAAAAAA
1 AAAAAAAA
2158841 AAAGATTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.88, C:0.00, G:0.07, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2158831 original size:21 final size:21
Alignment explanation
Indices: 2158798--2158845 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2158788 TCATCAAACC
*
2158798 AAAAA-AAATAAAA-AATAAAA
1 AAAAAGAAAGAAAAGAA-AAAA
2158818 AAAAAGAAAGAAAAGAAAAAA
1 AAAAAGAAAGAAAAGAAAAAA
2158839 AAAAAGA
1 AAAAAGA
2158846 TTTCCCCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 18 0.72
22 2 0.08
ACGTcount: A:0.88, C:0.00, G:0.08, T:0.04
Consensus pattern (21 bp):
AAAAAGAAAGAAAAGAAAAAA
Found at i:2158844 original size:17 final size:18
Alignment explanation
Indices: 2158798--2158845 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
2158788 TCATCAAACC
*
2158798 AAAAAAAATAAA-AAATA
1 AAAAAAAAGAAAGAAATA
2158815 AAAAAAAAGAAAGAAA-A
1 AAAAAAAAGAAAGAAATA
2158832 GAAAAAAAA-AAAGA
1 -AAAAAAAAGAAAGA
2158846 TTTCCCCTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.88, C:0.00, G:0.08, T:0.04
Consensus pattern (18 bp):
AAAAAAAAGAAAGAAATA
Found at i:2161367 original size:66 final size:66
Alignment explanation
Indices: 2161234--2161379 Score: 172
Period size: 66 Copynumber: 2.2 Consensus size: 66
2161224 AATTTTGAAA
** *
2161234 TTTCAAAATTTTAATAAAAACTATGTTTTTAAGATAAAAAAATCGTAATACACGTTGAAATTATA
1 TTTCAAAATTTTAATAAAAACTACATTTTTAAGATAAAAAAATCGTAATACACGTTAAAATTATA
2161299 T
66 T
* * * *
2161300 TTTTAAAATTTTAATAAAAATTACATTTTTAAGATAATAAAAAT-GTAGTTA-ATGTTAAAACTT
1 TTTCAAAATTTTAATAAAAACTACATTTTTAAGATAA-AAAAATCGTA-ATACACGTTAAAA-TT
2161363 -TAT
63 ATAT
*
2161366 TTTCATAATTTTAA
1 TTTCAAAATTTTAA
2161380 AATTTTAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
66 58 0.85
67 10 0.15
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (66 bp):
TTTCAAAATTTTAATAAAAACTACATTTTTAAGATAAAAAAATCGTAATACACGTTAAAATTATA
T
Found at i:2161497 original size:71 final size:71
Alignment explanation
Indices: 2161305--2161519 Score: 184
Period size: 71 Copynumber: 3.0 Consensus size: 71
2161295 TATATTTTTA
* * * * *
2161305 AAATTTTAATAAAAATTACATTTTTAAGATAATAAAAATGTAGTTAATGTT-AAAACTTTAT-TT
1 AAATTTTAATAAAGATCACATTTTTAAAAT-A-AAAAATGTAG-AAATGTTGAAAA-TATATCTT
* * *
2161368 TCATAATTTTA
62 TGA-AATTCTG
* * *
2161379 AAATTTTAATAAAGATCATATTTTTAAAATAAAAAATGTAGATATGTTGAAAATATGTCTTTGAA
1 AAATTTTAATAAAGATCACATTTTTAAAATAAAAAATGTAGAAATGTTGAAAATATATCTTTGAA
2161444 ATTCTG
66 ATTCTG
* * * * * * * *
2161450 AAATTTTAATAAAGATTACGTTTTTGAAAT-AAAAACGTTATAAATGTTGAAATTGTATTTTTGA
1 AAATTTTAATAAAGATCACATTTTTAAAATAAAAAATG-TAGAAATGTTGAAAATATATCTTTGA
2161514 AATTCT
65 AATTCT
2161520 AACAAAAATT
Statistics
Matches: 116, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
70 6 0.05
71 65 0.56
72 18 0.16
73 1 0.01
74 26 0.22
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (71 bp):
AAATTTTAATAAAGATCACATTTTTAAAATAAAAAATGTAGAAATGTTGAAAATATATCTTTGAA
ATTCTG
Found at i:2161877 original size:2 final size:2
Alignment explanation
Indices: 2161870--2161903 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2161860 ATTATTTATT
* *
2161870 TA TA TA TA TA TA TT TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2161904 ATGATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:2161885 original size:14 final size:14
Alignment explanation
Indices: 2161866--2161912 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
2161856 ATTAATTATT
2161866 TATTTATATATATA
1 TATTTATATATATA
2161880 TATTTATATATATA
1 TATTTATATATATA
2161894 TATTTATATA-ATGA
1 TATTTATATATAT-A
2161908 TATTT
1 TATTT
2161913 TTAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 2 0.06
14 30 0.94
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:2161901 original size:8 final size:8
Alignment explanation
Indices: 2161861--2161923 Score: 53
Period size: 8 Copynumber: 8.4 Consensus size: 8
2161851 AATTAATTAA
*
2161861 TTATTTAT
1 TTATATAT
2161869 TTATATA-
1 TTATATAT
2161876 -TATATAT
1 TTATATAT
2161883 TTATATA-
1 TTATATAT
2161890 -TATATAT
1 TTATATAT
*
2161897 TTATATAA
1 TTATATAT
* *
2161905 TGATATTT
1 TTATATAT
*
2161913 TTAAATAT
1 TTATATAT
2161921 TTA
1 TTA
2161924 AAAATAATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
6 12 0.28
8 31 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TTATATAT
Found at i:2164798 original size:92 final size:93
Alignment explanation
Indices: 2164695--2164881 Score: 340
Period size: 92 Copynumber: 2.0 Consensus size: 93
2164685 GTGTAGATGA
2164695 AGCTTCGTAGAATTGTAAACAGCATAACAAGGTAGATAGTAACTATTCAAAAAATATGATTATCT
1 AGCTTCGTAGAATTGTAAACAGCATAACAAGGTAGATAGTAACTATTCAAAAAATATGATTATCT
*
2164760 CCTTAAA-CTCTTTATAAGATTCCTCTG
66 CCTTAAATCTCATTATAAGATTCCTCTG
*
2164787 AGCTTCGTAGAATTGTAAACAGCATAACAAGGTAGATGGTAACTATTCAAAAAATATGATTATCT
1 AGCTTCGTAGAATTGTAAACAGCATAACAAGGTAGATAGTAACTATTCAAAAAATATGATTATCT
*
2164852 CCTTAAATCTCATTATAAGATTTCTCTG
66 CCTTAAATCTCATTATAAGATTCCTCTG
2164880 AG
1 AG
2164882 TGATGATTTA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 71 0.78
93 20 0.22
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (93 bp):
AGCTTCGTAGAATTGTAAACAGCATAACAAGGTAGATAGTAACTATTCAAAAAATATGATTATCT
CCTTAAATCTCATTATAAGATTCCTCTG
Found at i:2168810 original size:14 final size:14
Alignment explanation
Indices: 2168775--2168809 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2168765 GAAAGAATGG
2168775 TTTTTTTTCCTTTT
1 TTTTTTTTCCTTTT
*
2168789 TCTTTTTT-CTTTT
1 TTTTTTTTCCTTTT
2168802 TTTTTTTT
1 TTTTTTTT
2168810 TTGTGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTCCTTTT
Found at i:2175735 original size:21 final size:21
Alignment explanation
Indices: 2175711--2175830 Score: 80
Period size: 21 Copynumber: 5.4 Consensus size: 21
2175701 ATAAGTAAAA
2175711 TTTGATAACTTTTGATATAAT
1 TTTGATAACTTTTGATATAAT
*
2175732 TTTGATTTTCCTAACTTTTGATAAAAT
1 TTTGA------TAACTTTTGATATAAT
* **
2175759 TTT-AGTAACATTCAATATAAT
1 TTTGA-TAACTTTTGATATAAT
* * *
2175780 TTTGATAACTTTTGACATTAG
1 TTTGATAACTTTTGATATAAT
* *
2175801 TTTGGTAACTTATGATATAAT
1 TTTGATAACTTTTGATATAAT
*
2175822 TTTGGTAAC
1 TTTGATAAC
2175831 CAATGATTAA
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
21 55 0.73
22 1 0.01
26 1 0.01
27 18 0.24
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (21 bp):
TTTGATAACTTTTGATATAAT
Found at i:2175836 original size:21 final size:21
Alignment explanation
Indices: 2175801--2175852 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2175791 TTGACATTAG
**
2175801 TTTGGTAACTTATGA-TATAAT
1 TTTGGTAACCAATGATTA-AAT
2175822 TTTGGTAACCAATGATTAAAT
1 TTTGGTAACCAATGATTAAAT
*
2175843 TTTAGTAACC
1 TTTGGTAACC
2175853 TCTTAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (21 bp):
TTTGGTAACCAATGATTAAAT
Found at i:2176160 original size:22 final size:22
Alignment explanation
Indices: 2176135--2176176 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2176125 ATGATTGATA
*
2176135 ATTATTTTATTAATAATTTACT
1 ATTATGTTATTAATAATTTACT
*
2176157 ATTATGTTATTAATGATTTA
1 ATTATGTTATTAATAATTTA
2176177 TTACTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTATGTTATTAATAATTTACT
Found at i:2176216 original size:22 final size:22
Alignment explanation
Indices: 2176191--2176306 Score: 79
Period size: 22 Copynumber: 5.3 Consensus size: 22
2176181 TAAACTATTG
* *
2176191 ATTATCAACAATTTACTAATAA
1 ATTATCAACGATTTACTACTAA
* **
2176213 ATTAGCATTGATTTACTACTAA
1 ATTATCAACGATTTACTACTAA
* * *
2176235 TTTATGAAGGATTTACTACTAA
1 ATTATCAACGATTTACTACTAA
* * **
2176257 ATTATGAATGATTTACTTTTAA
1 ATTATCAACGATTTACTACTAA
* * * *
2176279 ATTGTTAATGATTTACTATTAA
1 ATTATCAACGATTTACTACTAA
*
2176301 TTTATC
1 ATTATC
2176307 GATAATTTAC
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (22 bp):
ATTATCAACGATTTACTACTAA
Found at i:2176410 original size:22 final size:22
Alignment explanation
Indices: 2176385--2176433 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2176375 GTTATTAGTG
*
2176385 ATTTAT-TACTAACCTATCAATA
1 ATTTATAT-CTAAACTATCAATA
*
2176407 ATTTATATCTAAATTATCAATA
1 ATTTATATCTAAACTATCAATA
2176429 ATTTA
1 ATTTA
2176434 CTATTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTATATCTAAACTATCAATA
Found at i:2176571 original size:22 final size:21
Alignment explanation
Indices: 2176490--2176774 Score: 89
Period size: 22 Copynumber: 12.9 Consensus size: 21
2176480 ATCATAACAG
* *
2176490 ATTTATTATTAAATTAACCATG
1 ATTTATTATTAAATT-ATCATA
* *
2176512 ATTCATTATTAAGTTATCACTA
1 ATTTATTATTAAATTATCA-TA
*
2176534 ATTTA-TATTACATTATCTATA
1 ATTTATTATTAAATTATC-ATA
* *
2176555 ATTTATTATTAAATTATTGATG
1 ATTTATTATTAAATTA-TCATA
* * *
2176577 ATTAACTACTACTAAATT-TCATTG
1 ATT---TATTATTAAATTATCA-TA
* * *
2176601 ATTTACTT-TTAAGTTTTCAATG
1 ATTTA-TTATTAAATTATC-ATA
* *
2176623 A-TTAGCTATTAAATTATTATTA
1 ATTTA-TTATTAAATTATCA-TA
* * *
2176645 ATTTACTACTAAGTTAT-ATA
1 ATTTATTATTAAATTATCATA
*
2176665 TGATTTATTATTAAGTTTATCAATTA
1 --ATTTATTATTAA-ATTATC-A-TA
* * * *
2176691 A-TTACTATTAAACTGA-AATTT
1 ATTTATTATTAAA-TTATCA-TA
* *
2176712 ATTTACTATTAACTTATCACTA
1 ATTTATTATTAAATTATCA-TA
*
2176734 ATTTATTATTAAAATATCATTA
1 ATTTATTATTAAATTATCA-TA
*
2176756 ATTTATTATTAAGTTATCA
1 ATTTATTATTAAATTATCA
2176775 ATTATTAACT
Statistics
Matches: 197, Mismatches: 43, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
20 2 0.01
21 39 0.20
22 115 0.58
23 22 0.11
24 6 0.03
25 11 0.06
26 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTATTATTAAATTATCATA
Found at i:2176716 original size:67 final size:67
Alignment explanation
Indices: 2176583--2176745 Score: 162
Period size: 67 Copynumber: 2.5 Consensus size: 67
2176573 GATGATTAAC
* * *
2176583 TACTACTAAATT-TCAT-TGATTTACTT-TTAAGTTTTCAATGATTAGCTATTAAATTATTATTA
1 TACTACTAAATTATCATATGATTTA-TTATTAAGTTTTCAATAATTAGCTATTAAATGATAATTA
2176645 ATT
65 ATT
*
2176648 TACTACTAAGTTAT-ATATGATTTATTATTAAGTTTATCAATTAATTA-CTATTAAACTGA-AAT
1 TACTACTAAATTATCATATGATTTATTATTAAGTTT-TCAA-TAATTAGCTATTAAA-TGATAAT
*
2176710 TTATT
63 TAATT
* *
2176715 TACTATTAACTTATCACTA--ATTTATTATTAA
1 TACTACTAAATTATCA-TATGATTTATTATTAA
2176746 AATATCATTA
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
65 15 0.18
66 16 0.19
67 42 0.51
68 8 0.10
69 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (67 bp):
TACTACTAAATTATCATATGATTTATTATTAAGTTTTCAATAATTAGCTATTAAATGATAATTAA
TT
Found at i:2176766 original size:11 final size:11
Alignment explanation
Indices: 2176629--2176772 Score: 60
Period size: 11 Copynumber: 13.0 Consensus size: 11
2176619 AATGATTAGC
*
2176629 TATTAAATTAT
1 TATTAATTTAT
*
2176640 TATTAATTTAC
1 TATTAATTTAT
* *
2176651 TACTAAGTTA-
1 TATTAATTTAT
*
2176661 TATATGATTTAT
1 TAT-TAATTTAT
2176673 TATTAAGTTTAT
1 TATTAA-TTTAT
* *
2176685 CAATTAA-TTAC
1 -TATTAATTTAT
* *
2176696 TATTAAACTGA-
1 TATT-AATTTAT
* * *
2176707 AATTTATTTAC
1 TATTAATTTAT
*
2176718 TATTAACTTAT
1 TATTAATTTAT
* *
2176729 CACTAATTTAT
1 TATTAATTTAT
**
2176740 TATTAAAATAT
1 TATTAATTTAT
*
2176751 CATTAATTTAT
1 TATTAATTTAT
*
2176762 TATTAAGTTAT
1 TATTAATTTAT
2176773 CAATTATTAA
Statistics
Matches: 94, Mismatches: 32, Indels: 14
0.67 0.23 0.10
Matches are distributed among these distances:
10 8 0.09
11 71 0.76
12 10 0.11
13 5 0.05
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (11 bp):
TATTAATTTAT
Found at i:2176796 original size:44 final size:43
Alignment explanation
Indices: 2176647--2176796 Score: 106
Period size: 44 Copynumber: 3.4 Consensus size: 43
2176637 TATTATTAAT
*
2176647 TTACTACTAAGTTAT-ATATGATTTATTATTAAGTTTATCAATTAA
1 TTACTACTAAGTTATCAT-TAATTTATTATTAAG-TTATCAATT-A
* * * * * * * * *
2176692 TTACTATTAAACTGA-AATTTATTTACTATTAACTTATCACTAA
1 TTACTACT-AAGTTATCATTAATTTATTATTAAGTTATCAATTA
* * **
2176735 TTTATTATTAAAATATCATTAATTTATTATTAAGTTATCAATTA
1 -TTACTACTAAGTTATCATTAATTTATTATTAAGTTATCAATTA
2176779 TTAACTACTAAGTTATCA
1 TT-ACTACTAAGTTATCA
2176797 CATATTTTTA
Statistics
Matches: 78, Mismatches: 22, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
43 6 0.08
44 47 0.60
45 19 0.24
46 6 0.08
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.47
Consensus pattern (43 bp):
TTACTACTAAGTTATCATTAATTTATTATTAAGTTATCAATTA
Found at i:2176938 original size:22 final size:22
Alignment explanation
Indices: 2176879--2176961 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
2176869 GTATAAAAAA
* * *
2176879 AAATTATTAATGATTAATAATT
1 AAATTATCAATGATTTATAACT
* * *
2176901 AAATTATCAGTTATTTATTACT
1 AAATTATCAATGATTTATAACT
2176923 AAATTATCAATGATTTACTAA-T
1 AAATTATCAATGATTTA-TAACT
* * *
2176945 AATTTATGAATTATTTA
1 AAATTATCAATGATTTA
2176962 CCATTATGTT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
22 46 0.96
23 2 0.04
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
AAATTATCAATGATTTATAACT
Found at i:2176962 original size:22 final size:22
Alignment explanation
Indices: 2176900--2176962 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
2176890 GATTAATAAT
* * *
2176900 TAAATTATCAGTTATTTATTAC
1 TAAATTATCAATTATTTACTAA
*
2176922 TAAATTATCAATGATTTACTAA
1 TAAATTATCAATTATTTACTAA
* *
2176944 TAATTTATGAATTATTTAC
1 TAAATTATCAATTATTTAC
2176963 CATTATGTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (22 bp):
TAAATTATCAATTATTTACTAA
Found at i:2177176 original size:22 final size:21
Alignment explanation
Indices: 2177151--2177207 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 21
2177141 TTATATTATG
2177151 TTATTAGTGATTTACTGC-TAAA
1 TTATTA-TGATTTACT-CTTAAA
2177173 TTATTA--ATTTACTCTTAAA
1 TTATTATGATTTACTCTTAAA
*
2177192 TTATTAATGATATACT
1 TTATT-ATGATTTACT
2177208 ATGATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 1 0.03
19 16 0.53
20 1 0.03
22 12 0.40
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (21 bp):
TTATTATGATTTACTCTTAAA
Found at i:2177182 original size:19 final size:19
Alignment explanation
Indices: 2177160--2177199 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
2177150 GTTATTAGTG
2177160 ATTTACTGC-TAAATTATTA
1 ATTTACT-CTTAAATTATTA
2177179 ATTTACTCTTAAATTATTA
1 ATTTACTCTTAAATTATTA
2177198 AT
1 AT
2177200 GATATACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTACTCTTAAATTATTA
Found at i:2177460 original size:22 final size:22
Alignment explanation
Indices: 2177427--2177500 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
2177417 GACTTACTTT
*
2177427 TAAATT-TCCAATGATTAACTAT
1 TAAATTAT-CAATGATTAACTAC
*
2177449 TAAATTATCAATTATTTAA-TAC
1 TAAATTATCAATGA-TTAACTAC
* * * *
2177471 TAATTTATTATTGATTTACTAC
1 TAAATTATCAATGATTAACTAC
2177493 TAAATTAT
1 TAAATTAT
2177501 TTATGATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
21 3 0.07
22 33 0.80
23 5 0.12
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (22 bp):
TAAATTATCAATGATTAACTAC
Found at i:2177501 original size:22 final size:22
Alignment explanation
Indices: 2177438--2177515 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
2177428 AAATTTCCAA
* * *
2177438 TGATTAACTATTAAATTATCAAT
1 TGATTTACTACTAAATTAT-TAT
* *
2177461 T-ATTTAATACTAATTTATTAT
1 TGATTTACTACTAAATTATTAT
2177482 TGATTTACTACTAAATTATT-T
1 TGATTTACTACTAAATTATTAT
*
2177503 ATGATTTATTACT
1 -TGATTTACTACT
2177516 GTAAATTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
21 4 0.09
22 40 0.89
23 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (22 bp):
TGATTTACTACTAAATTATTAT
Found at i:2177553 original size:22 final size:22
Alignment explanation
Indices: 2177525--2177575 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2177515 TGTAAATTAA
* *
2177525 TTACTATTAAACTAAAATTGAT
1 TTACTATTAAACTAAAACTAAT
* *
2177547 TTACTATTAAATTAATACTAAT
1 TTACTATTAAACTAAAACTAAT
2177569 TTACTAT
1 TTACTAT
2177576 CAAGTTATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
TTACTATTAAACTAAAACTAAT
Found at i:2177573 original size:44 final size:44
Alignment explanation
Indices: 2177525--2177611 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
2177515 TGTAAATTAA
*
2177525 TTACTATTAAACTAAAATTGATTTACTATTAAATTAA-TACTAAT
1 TTACTATCAAACTAAAATTGATTTACTATT-AATTAACTACTAAT
** ** *
2177569 TTACTATCAAGTTATCATTGATTTATTATTAATTAACTACTAA
1 TTACTATCAAACTAAAATTGATTTACTATTAATTAACTACTAA
2177612 GTTGTCACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 6 0.17
44 30 0.83
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (44 bp):
TTACTATCAAACTAAAATTGATTTACTATTAATTAACTACTAAT
Found at i:2177592 original size:22 final size:22
Alignment explanation
Indices: 2177525--2177593 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
2177515 TGTAAATTAA
* * *
2177525 TTACTATTAAACTAAAATTGAT
1 TTACTATCAAATTAATATTGAT
* * *
2177547 TTACTATTAAATTAATACTAAT
1 TTACTATCAAATTAATATTGAT
*
2177569 TTACTATCAAGTT-ATCATTGAT
1 TTACTATCAAATTAAT-ATTGAT
2177591 TTA
1 TTA
2177594 TTATTAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 2 0.05
22 36 0.95
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (22 bp):
TTACTATCAAATTAATATTGAT
Found at i:2177689 original size:22 final size:21
Alignment explanation
Indices: 2177639--2177691 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
2177629 AAAGTTGTCT
*
2177639 TTAATTTAGTACTATATTATTA
1 TTAATTTA-TACTATATTATAA
**
2177661 TGCATTTATAACTATATTATAA
1 TTAATTTAT-ACTATATTATAA
2177683 TTAATTTAT
1 TTAATTTAT
2177692 CATTAAGGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (21 bp):
TTAATTTATACTATATTATAA
Found at i:2177748 original size:44 final size:45
Alignment explanation
Indices: 2177655--2177748 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 45
2177645 TAGTACTATA
* *
2177655 TTATTATGCATTTATAACTATATTATAATTAATTTATCATTAAGG
1 TTATTATGCATATATAACTATATTATAATTAATTTATCATAAAGG
* * * *
2177700 -TATTATGCATATATTAGTATATTATTATTGATTTA-C-TAAAAGG
1 TTATTATGCATATATAACTATATTATAATTAATTTATCAT-AAAGG
2177743 TTATTA
1 TTATTA
2177749 ATTATTTACT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
42 1 0.02
43 5 0.12
44 35 0.85
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (45 bp):
TTATTATGCATATATAACTATATTATAATTAATTTATCATAAAGG
Found at i:2177768 original size:22 final size:23
Alignment explanation
Indices: 2177743--2177812 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 23
2177733 TACTAAAAGG
2177743 TTATTAATT-ATTTACTACTAAA
1 TTATTAATTAATTTACTACTAAA
* * *
2177765 TTA-TCATTAATTTATTATTAAA
1 TTATTAATTAATTTACTACTAAA
* * * *
2177787 TTA-TCACTAATTTATTACTAAG
1 TTATTAATTAATTTACTACTAAA
2177809 TTAT
1 TTAT
2177813 CGATGATTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (23 bp):
TTATTAATTAATTTACTACTAAA
Found at i:2177806 original size:11 final size:11
Alignment explanation
Indices: 2177752--2177812 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
2177742 GTTATTAATT
*
2177752 ATTTACTACTA
1 ATTTATTACTA
* * *
2177763 AATTATCATTA
1 ATTTATTACTA
*
2177774 ATTTATTATTA
1 ATTTATTACTA
* *
2177785 AATTATCACTA
1 ATTTATTACTA
2177796 ATTTATTACTA
1 ATTTATTACTA
*
2177807 AGTTAT
1 ATTTAT
2177813 CGATGATTGC
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (11 bp):
ATTTATTACTA
Found at i:2177813 original size:22 final size:22
Alignment explanation
Indices: 2177752--2177813 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
2177742 GTTATTAATT
* *
2177752 ATTTACTACTAAATTATCATTA
1 ATTTATTACTAAATTATCACTA
*
2177774 ATTTATTATTAAATTATCACTA
1 ATTTATTACTAAATTATCACTA
*
2177796 ATTTATTACTAAGTTATC
1 ATTTATTACTAAATTATC
2177814 GATGATTGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTATTACTAAATTATCACTA
Found at i:2189113 original size:34 final size:34
Alignment explanation
Indices: 2189066--2189136 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
2189056 CTTGGTACGG
2189066 CATATCTTAATTAGAACCATTTCAATGGATAATT
1 CATATCTTAATTAGAACCATTTCAATGGATAATT
*
2189100 CATATCTTGATTAGAACCATTTCAATGGATAATT
1 CATATCTTAATTAGAACCATTTCAATGGATAATT
2189134 CAT
1 CAT
2189137 CCGTCTTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (34 bp):
CATATCTTAATTAGAACCATTTCAATGGATAATT
Found at i:2192693 original size:15 final size:15
Alignment explanation
Indices: 2192673--2192705 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
2192663 TCATTATCTT
2192673 TAAAAAAGAATTACAG
1 TAAAAAA-AATTACAG
2192689 TAAAAAAAATTACAG
1 TAAAAAAAATTACAG
2192704 TA
1 TA
2192706 TACAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (15 bp):
TAAAAAAAATTACAG
Found at i:2193681 original size:66 final size:66
Alignment explanation
Indices: 2193603--2193727 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
2193593 ATCTAATATA
* *
2193603 AATATAAGATTACA-GAATATTGGATATTTATTAGATGTAAGATAACTCATTTTAATAGACACAG
1 AATATAAGATTACATG-ATATTGGATATTTATCAGATGTAAGATAACTCACTTTAATAGACACAG
2193667 TG
65 TG
* * *
2193669 AATATAAGATTACATGATATTTGATATTTATCAGATGTGAGATATCTCACTTTAATAGA
1 AATATAAGATTACATGATATTGGATATTTATCAGATGTAAGATAACTCACTTTAATAGA
2193728 TCCTTATCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 52 0.98
67 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (66 bp):
AATATAAGATTACATGATATTGGATATTTATCAGATGTAAGATAACTCACTTTAATAGACACAGT
G
Found at i:2196078 original size:34 final size:34
Alignment explanation
Indices: 2196031--2196101 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
2196021 CTTGGTACGG
2196031 CATATCTTAATTAGAACCATTTCAATGGATAATT
1 CATATCTTAATTAGAACCATTTCAATGGATAATT
*
2196065 CATATCTTGATTAGAACCATTTCAATGGATAATT
1 CATATCTTAATTAGAACCATTTCAATGGATAATT
2196099 CAT
1 CAT
2196102 CCGTCTTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (34 bp):
CATATCTTAATTAGAACCATTTCAATGGATAATT
Found at i:2197288 original size:21 final size:21
Alignment explanation
Indices: 2197262--2197308 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2197252 GTTGATCTGC
2197262 TACTTGAATTAGTATATATTT
1 TACTTGAATTAGTATATATTT
2197283 TACTTGAATTAGTATATATTT
1 TACTTGAATTAGTATATATTT
2197304 TACTT
1 TACTT
2197309 TGCAGAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (21 bp):
TACTTGAATTAGTATATATTT
Found at i:2200732 original size:2 final size:2
Alignment explanation
Indices: 2200725--2200756 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2200715 TAAGACTAGC
*
2200725 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2200757 TATCTAGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2200935 original size:14 final size:14
Alignment explanation
Indices: 2200916--2200944 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2200906 AATTGACAGT
2200916 TAAAATTATATTAA
1 TAAAATTATATTAA
2200930 TAAAATTATATTAA
1 TAAAATTATATTAA
2200944 T
1 T
2200945 TCATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATTATATTAA
Found at i:2201775 original size:30 final size:30
Alignment explanation
Indices: 2201673--2201779 Score: 123
Period size: 30 Copynumber: 3.6 Consensus size: 30
2201663 ATTTTGTTAC
*
2201673 ATCTAAATAAA-TCTT-TAATTTTTAATTTAT
1 ATCTAAATAAATTCTTATAA--TTTAATTTGT
* *
2201703 ATTTAAATAAATTCTTA-ACTTTTAATTTGT
1 ATCTAAATAAATTCTTATA-ATTTAATTTGT
2201733 ATAC-AAATAAATTCTTATAATTTAATTTGT
1 AT-CTAAATAAATTCTTATAATTTAATTTGT
2201763 ATCTAAATAAATTCTTA
1 ATCTAAATAAATTCTTA
2201780 ACATAAAATA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
29 1 0.02
30 59 0.89
31 6 0.09
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (30 bp):
ATCTAAATAAATTCTTATAATTTAATTTGT
Found at i:2202679 original size:30 final size:30
Alignment explanation
Indices: 2202641--2202713 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
2202631 ATTAATTATT
***
2202641 TAAT-TTTTTATTTATATATATTTATTTAA
1 TAATATTTTTATTTATATATATTTAAAAAA
* ** *
2202670 TGATATTTTTAAATATTTATATTTAAAAAA
1 TAATATTTTTATTTATATATATTTAAAAAA
2202700 TAATATTTTTATTT
1 TAATATTTTTATTT
2202714 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
TAATATTTTTATTTATATATATTTAAAAAA
Found at i:2202704 original size:20 final size:19
Alignment explanation
Indices: 2202681--2202731 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
2202671 GATATTTTTA
2202681 AATATTTATATTTAAAAAAT
1 AATATTT-TATTTAAAAAAT
*
2202701 AATATTTTTATTTTAAAAAT
1 AATA-TTTTATTTAAAAAAT
2202721 AATATTTTATT
1 AATATTTTATT
2202732 AATTTTGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 7 0.24
20 19 0.66
21 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTTTATTTAAAAAAT
Found at i:2216162 original size:6 final size:7
Alignment explanation
Indices: 2216147--2216172 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2216137 ATTTGAGTGT
2216147 AAAATAA
1 AAAATAA
2216154 AAAATAA
1 AAAATAA
2216161 AAAATAA
1 AAAATAA
2216168 AAAAT
1 AAAAT
2216173 TATTTAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:2216198 original size:36 final size:37
Alignment explanation
Indices: 2216124--2216199 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
2216114 AAATTAGATG
* *
2216124 AAAATAAAAATTTATTTGAGTGTAAAATAAAAAATAA
1 AAAATAAAAAATTATTTGAGTATAAAATAAAAAATAA
*
2216161 AAAATAAAAAATTATTT-AG-ATACAATTAAAAAATAA
1 AAAATAAAAAATTATTTGAGTATA-AAATAAAAAATAA
2216197 AAA
1 AAA
2216200 TTTATTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 2 0.06
36 17 0.49
37 16 0.46
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (37 bp):
AAAATAAAAAATTATTTGAGTATAAAATAAAAAATAA
Found at i:2216321 original size:8 final size:8
Alignment explanation
Indices: 2216308--2216339 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
2216298 AAAATGGTTT
2216308 CACACTCA
1 CACACTCA
2216316 CACACTCA
1 CACACTCA
2216324 CACACTCA
1 CACACTCA
2216332 CACACTCA
1 CACACTCA
2216340 AAGTATCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (8 bp):
CACACTCA
Found at i:2220377 original size:2 final size:2
Alignment explanation
Indices: 2220370--2220406 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2220360 TGATTGGAGG
2220370 TA TA TA TA 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 TA TA TA TA T
2220407 TTCAGCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2227503 original size:48 final size:48
Alignment explanation
Indices: 2227443--2227540 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
2227433 ATCTTACGAA
*
2227443 TTTGAGTATAAATCTCTACATATATATCATAGCAGAATTTCAAATTAT
1 TTTGAGTATAAATCTCTACATATATATCATAGCAGAACTTCAAATTAT
* * * *
2227491 TTTGAGTTTAAATCTCTACATATTTATCATAGTAGAACTTCAGATTAT
1 TTTGAGTATAAATCTCTACATATATATCATAGCAGAACTTCAAATTAT
2227539 TT
1 TT
2227541 CGATGTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (48 bp):
TTTGAGTATAAATCTCTACATATATATCATAGCAGAACTTCAAATTAT
Found at i:2254063 original size:11 final size:11
Alignment explanation
Indices: 2254047--2254081 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2254037 TAATATATGG
*
2254047 CAAATCCCAAA
1 CAAATCTCAAA
*
2254058 CAAATCTCTAA
1 CAAATCTCAAA
2254069 CAAATCTCAAA
1 CAAATCTCAAA
2254080 CA
1 CA
2254082 GATATCTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (11 bp):
CAAATCTCAAA
Found at i:2260774 original size:14 final size:14
Alignment explanation
Indices: 2260745--2260783 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2260735 AATACAAATA
*
2260745 AATAAAA-AAGTTT
1 AATAAAATAAATTT
2260758 AATAAAATAAATTT
1 AATAAAATAAATTT
2260772 AATAAACATAAA
1 AATAAA-ATAAA
2260784 ATAAAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.30
14 11 0.48
15 5 0.22
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (14 bp):
AATAAAATAAATTT
Found at i:2267173 original size:46 final size:46
Alignment explanation
Indices: 2267120--2267211 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
2267110 CAAAACTAAA
2267120 TAAACTATCATTTTAATCATCTGTAAAGAAAAAATAAAAGAAGAAT
1 TAAACTATCATTTTAATCATCTGTAAAGAAAAAATAAAAGAAGAAT
2267166 TAAACTATCATTTTAATCATCTGTAAAGAAAAAATAAAAGAAGAAT
1 TAAACTATCATTTTAATCATCTGTAAAGAAAAAATAAAAGAAGAAT
2267212 GAGCAAATCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (46 bp):
TAAACTATCATTTTAATCATCTGTAAAGAAAAAATAAAAGAAGAAT
Found at i:2282761 original size:13 final size:13
Alignment explanation
Indices: 2282743--2282770 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2282733 TACTAGAAAC
2282743 TGGGCAGGTTCCA
1 TGGGCAGGTTCCA
2282756 TGGGCAGGTTCCA
1 TGGGCAGGTTCCA
2282769 TG
1 TG
2282771 TGCTACATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.39, T:0.25
Consensus pattern (13 bp):
TGGGCAGGTTCCA
Found at i:2285869 original size:26 final size:26
Alignment explanation
Indices: 2285840--2285889 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2285830 AAAACTTGTG
2285840 AAGTATTATCTAATTTTTTACTTATT
1 AAGTATTATCTAATTTTTTACTTATT
*
2285866 AAGTATTATCTGATTTTTTACTTA
1 AAGTATTATCTAATTTTTTACTTA
2285890 CTGAAGCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (26 bp):
AAGTATTATCTAATTTTTTACTTATT
Found at i:2289013 original size:118 final size:118
Alignment explanation
Indices: 2288882--2289273 Score: 312
Period size: 118 Copynumber: 3.3 Consensus size: 118
2288872 AAAAGATTAA
* * * *
2288882 TATTTATTCAAAGAAAATTGATACTTTTAAATTGTCTT-T-AAATCATATCTTTTGAAAATTTTG
1 TATTT-TT-AAAGAAAATTAATACTTTCAAATT-T-TTCTCAAA-AATATCTTTTGAAAATTTTA
* * * * * * * *
2288945 TTTTCAAGGAAAATTGATGCTTTTAACTTTT-TCTCAAAACATATCTTTTGAAAA-TTT
61 TCTACAAGAAAAATTGATACTTTCAACTTTTCTCTAAAAAAATAT-TTTTAAAAATTTT
*
2289002 TATTTTTAAAGAAAATCAATACTTTCAAATTTTTCTCAAAAATATCTTTTGAAAATTTTATCTAC
1 TATTTTTAAAGAAAATTAATACTTTCAAATTTTTCTCAAAAATATCTTTTGAAAATTTTATCTAC
* *
2289067 AAGAAAAATTTATACTTTCAACTTTTCTTTAAAAAAATATTTTTAAAAATTTT
66 AAGAAAAATTGATACTTTCAACTTTTCTCTAAAAAAATATTTTTAAAAATTTT
* * * * * * *
2289120 TATTTTCAAAGAAAATTAATACTCTCAACTTTTACTCAAAAGTACTTTTTTTTTTAAAATTTTAT
1 TATTTTTAAAGAAAATTAATACTTTCAAATTTTTCTCAAAA--A--TATCTTTTGAAAATTTTAT
* ** * ** **
2289185 TTTTAA-AAAAATTGATACTTTCAATTTTTC-CTCAAAAAAGATATTCCTCGAAATTTT
62 CTACAAGAAAAATTGATACTTTCAACTTTTCTCT-AAAAAA-ATATTTTTAAAAATTTT
* * * * *
2289242 CA-TTTAAAAAAAAATTGATACTTTCAACTTTT
1 TATTTTTAAAGAAAATTAATACTTTCAAATTTT
2289274 AAAAAATTTT
Statistics
Matches: 224, Mismatches: 38, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
116 2 0.01
117 53 0.24
118 73 0.33
119 2 0.01
120 7 0.03
121 54 0.24
122 33 0.15
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (118 bp):
TATTTTTAAAGAAAATTAATACTTTCAAATTTTTCTCAAAAATATCTTTTGAAAATTTTATCTAC
AAGAAAAATTGATACTTTCAACTTTTCTCTAAAAAAATATTTTTAAAAATTTT
Found at i:2289058 original size:117 final size:118
Alignment explanation
Indices: 2288926--2289229 Score: 310
Period size: 117 Copynumber: 2.6 Consensus size: 118
2288916 TCTTTAAATC
* * * * * * * *
2288926 ATATCTTTTGAAAATTTTGTTTTCAAGGAAAATTGATGCTTTTAACTTTT-TCTCAAAACATATC
1 ATATCTTTTGAAAATTTTATCTACAAGAAAAATTGATACTTTCAACTTTTCTCTAAAAAAATAT-
* * * *
2288990 TTTTGAAAA-TTTTATTTTTAAAGAAAATCAATACTTTCAAATTTTTCTCAAAA
65 TTTTAAAAATTTTTATTTTCAAAGAAAATCAATACTCTCAAATTTTACTCAAAA
* *
2289043 ATATCTTTTGAAAATTTTATCTACAAGAAAAATTTATACTTTCAACTTTTCTTTAAAAAAATATT
1 ATATCTTTTGAAAATTTTATCTACAAGAAAAATTGATACTTTCAACTTTTCTCTAAAAAAATATT
* *
2289108 TTTAAAAATTTTTATTTTCAAAGAAAATTAATACTCTCAACTTTTACTCAAAA
66 TTTAAAAATTTTTATTTTCAAAGAAAATCAATACTCTCAAATTTTACTCAAAA
* * * * ** *
2289161 GTACTTTTTTTTTTAAAATTTTATTTTTAA-AAAAATTGATACTTTCAATTTTTC-CTCAAAAAA
1 --A--TATCTTTTGAAAATTTTATCTACAAGAAAAATTGATACTTTCAACTTTTCTCT-AAAAAA
2289224 GATATT
61 -ATATT
2289230 CCTCGAAATT
Statistics
Matches: 154, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
117 51 0.33
118 49 0.32
120 2 0.01
121 28 0.18
122 24 0.16
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.46
Consensus pattern (118 bp):
ATATCTTTTGAAAATTTTATCTACAAGAAAAATTGATACTTTCAACTTTTCTCTAAAAAAATATT
TTTAAAAATTTTTATTTTCAAAGAAAATCAATACTCTCAAATTTTACTCAAAA
Found at i:2289135 original size:60 final size:60
Alignment explanation
Indices: 2288888--2289273 Score: 281
Period size: 59 Copynumber: 6.5 Consensus size: 60
2288878 TTAATATTTA
* * * ** *
2288888 TTCAAAGAAAATTGATACTTTTAAATTGTCTTT-AAATCATATCTTTTGAAAATTTTGTT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAAAATATCTTTTGAAAATTTTATT
* * * * * *
2288947 TTCAAGGAAAATTGATGCTTTTAACTTTT-TCTCAAAACATATCTTTTGAAAATTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAAAATATCTTTTGAAAATTTTATT
* ** * * * *
2289006 TTTAAAGAAAATCAATACTTTCAAATTTT-TCT-CAAAAATATCTTTTGAAAATTTTATC
1 TTCAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAAAATATCTTTTGAAAATTTTATT
* * *
2289064 TAC-AAGAAAAATTTATACTTTCAACTTTTCTTTAAAAAAATAT-TTTTAAAAATTTTTATT
1 TTCAAAG-AAAATTGATACTTTCAACTTTTCTTTAAAAAAATATCTTTTGAAAA-TTTTATT
* * * ** * * *
2289124 TTCAAAGAAAATTAATACTCTCAACTTTTAC-TCAAAAGTACTTTTTTTTTTAAAATTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTT-CTTTAAAA--AAATATCTTTTGAAAATTTTATT
* * * * * *
2289186 TTTAAA-AAAATTGATACTTTCAATTTTTCCTCAAAAAAGATAT-TCCTCG-AAATTTTCA-T
1 TTCAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAAA-ATATCT-TTTGAAAATTTT-ATT
* *
2289245 TTAAAAAAAAATTGATACTTTCAACTTTT
1 TTCAAAGAAAATTGATACTTTCAACTTTT
2289274 AAAAAATTTT
Statistics
Matches: 266, Mismatches: 46, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
57 3 0.01
58 45 0.17
59 99 0.37
60 67 0.25
61 29 0.11
62 15 0.06
63 8 0.03
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (60 bp):
TTCAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAAAATATCTTTTGAAAATTTTATT
Found at i:2289256 original size:121 final size:116
Alignment explanation
Indices: 2289070--2289317 Score: 275
Period size: 121 Copynumber: 2.1 Consensus size: 116
2289060 TATCTACAAG
* * * ** * * *
2289070 AAAAATTTATACTTTCAACTTTTCTTTAAAAAAATATTTTTAAAAATTTTTATTTTCAAAGAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTCCTAAAAATTTTCATTTTAAAAAAAAA
*
2289135 TTAATACTCTCAACTTTTACTCAAAAGTACTTTTTTTTTTAAAATTTTA-TTTTTAA
66 TTAATACTCTCAACTTTTA---AAAA--A-TTTTTTTTTTAAAATTTTACTTTTAAA
* **
2289191 AAAAATTGATACTTTCAATTTTTCCTCAAAAAAGATATTCCTCGAAATTTTCA-TTTAAAAAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAA-ATATTCCTAAAAATTTTCATTTTAAAAAAAA
* * * *
2289255 ATTGATACTTTCAACTTTTAAAAAATTTTTTTTTTTAATTTTTACTTTTAAA
65 ATTAATACTCTCAACTTTTAAAAAATTTTTTTTTTAAAATTTTACTTTTAAA
2289307 AAAAATTGATA
1 AAAAATTGATA
2289318 TTTTAAGCTT
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
115 17 0.16
116 18 0.17
118 4 0.04
121 56 0.51
122 14 0.13
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTCCTAAAAATTTTCATTTTAAAAAAAAA
TTAATACTCTCAACTTTTAAAAAATTTTTTTTTTAAAATTTTACTTTTAAA
Found at i:2289314 original size:56 final size:53
Alignment explanation
Indices: 2289248--2289499 Score: 181
Period size: 56 Copynumber: 4.6 Consensus size: 53
2289238 TTTTCATTTA
* * *
2289248 AAAAAAAATTGATACTTTCAACTTTTAAAAAATTTTTTTTTTTAATTTTTACTTTT
1 AAAAAAAATTGATACTTTTAACTTTTATAAAA-TTTTTTTTTTAAATTTT--TTTT
* *
2289304 AAAAAAAATTGATA-TTTTAAGCTTTTTCTTAAAGCTTTTTTTTTT-AA--TTTTTT
1 AAAAAAAATTGATACTTTTAA-C-TTTT-ATAAA-ATTTTTTTTTTAAATTTTTTTT
* * * * *
2289357 -AAAAAAATTGATACATTCAACTTTTCTTTAAATTCTTTTTTTAAAATTTCTTTTT
1 AAAAAAAATTGATACTTTTAACTTTT-ATAAAATT-TTTTTTTTAAATTT-TTTTT
* * * * * * * *
2289412 CAAAAAAATTAATACTTTTAACTTTTTCTTAAAGTATCTTTTTTAAATTTGATCTT
1 AAAAAAAATTGATACTTTTAAC-TTTT-ATAAAATTTTTTTTTTAAATTT-TTTTT
*
2289468 AAAAAAAATTGATACTTTTAACTTTTAAAAAA
1 AAAAAAAATTGATACTTTTAACTTTTATAAAA
2289500 AAAAATTTTT
Statistics
Matches: 158, Mismatches: 26, Indels: 26
0.75 0.12 0.12
Matches are distributed among these distances:
50 2 0.01
51 16 0.10
52 16 0.10
53 8 0.05
54 4 0.03
55 16 0.10
56 68 0.43
57 15 0.09
58 13 0.08
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (53 bp):
AAAAAAAATTGATACTTTTAACTTTTATAAAATTTTTTTTTTAAATTTTTTTT
Found at i:2289378 original size:108 final size:110
Alignment explanation
Indices: 2289248--2289499 Score: 300
Period size: 108 Copynumber: 2.3 Consensus size: 110
2289238 TTTTCATTTA
** *
2289248 AAAAAAAATTGATACTTTCAACTTTTAAAAAATT-TTTTTTTTTAATTTTTACTTTTAAAAAAAA
1 AAAAAAAATTGATACTTTCAACTTTTAAAAAATTCTTTTTTTAAAATTTCT--TTTTAAAAAAAA
* * *
2289312 TTGATA-TTTTAAGCTTTTTCTTAAAGCT-TTTTTTTTTAATTT-T-TT
64 TTAATACTTTTAA-CTTTTTCTTAAAG-TATCTTTTTTAAATTTATCTT
* *** *
2289357 -AAAAAAATTGATACATTCAACTTTTCTTTAAATTCTTTTTTTAAAATTTCTTTTTCAAAAAAAT
1 AAAAAAAATTGATACTTTCAACTTTT-AAAAAATTCTTTTTTTAAAATTTCTTTTTAAAAAAAAT
2289421 TAATACTTTTAACTTTTTCTTAAAGTATCTTTTTTAAATTTGATCTT
65 TAATACTTTTAACTTTTTCTTAAAGTATCTTTTTTAAATTT-ATCTT
*
2289468 AAAAAAAATTGATACTTTTAACTTTTAAAAAA
1 AAAAAAAATTGATACTTTCAACTTTTAAAAAA
2289500 AAAAATTTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
107 1 0.01
108 65 0.55
109 11 0.09
110 14 0.12
111 5 0.04
112 23 0.19
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (110 bp):
AAAAAAAATTGATACTTTCAACTTTTAAAAAATTCTTTTTTTAAAATTTCTTTTTAAAAAAAATT
AATACTTTTAACTTTTTCTTAAAGTATCTTTTTTAAATTTATCTT
Found at i:2293254 original size:16 final size:15
Alignment explanation
Indices: 2293235--2293264 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2293225 CAAATTTATC
2293235 TAATAAAAAATAAATT
1 TAATAAAAAA-AAATT
2293251 TAATAAAAAAAAAT
1 TAATAAAAAAAAAT
2293265 AAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATAAAAAAAAATT
Found at i:2293579 original size:15 final size:15
Alignment explanation
Indices: 2293561--2293603 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
2293551 TATTTTTATT
2293561 AATATAATATATATA
1 AATATAATATATATA
*
2293576 AATATAA-ATTAAATA
1 AATATAATA-TATATA
2293591 AATAATAATATAT
1 AAT-ATAATATAT
2293604 CCCAAGGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 1 0.04
15 15 0.65
16 6 0.26
17 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATAATATATATA
Found at i:2302251 original size:11 final size:11
Alignment explanation
Indices: 2302233--2302263 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2302223 AATCCCATAA
2302233 GAGATTTGTTT
1 GAGATTTGTTT
*
2302244 GGGATTTGTTT
1 GAGATTTGTTT
2302255 GAGATTTGT
1 GAGATTTGT
2302264 CAGATATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:2316653 original size:15 final size:16
Alignment explanation
Indices: 2316630--2316662 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2316620 AATGCCTTAA
*
2316630 ATGTTTATGT-TTTTC
1 ATGTATATGTCTTTTC
2316645 ATGTATATGTCTTTTC
1 ATGTATATGTCTTTTC
2316661 AT
1 AT
2316663 TACTTACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (16 bp):
ATGTATATGTCTTTTC
Found at i:2321403 original size:13 final size:15
Alignment explanation
Indices: 2321385--2321424 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
2321375 ATTAATTCCT
2321385 AAAATTT-TATT-TA
1 AAAATTTATATTCTA
2321398 AAAATTTATATTCTA
1 AAAATTTATATTCTA
*
2321413 AGAATTTATATT
1 AAAATTTATATT
2321425 ATATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 7 0.29
14 4 0.17
15 13 0.54
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
AAAATTTATATTCTA
Found at i:2322481 original size:13 final size:14
Alignment explanation
Indices: 2322422--2322484 Score: 67
Period size: 13 Copynumber: 4.5 Consensus size: 14
2322412 AGATAAAGAA
2322422 AAAATAAATAC-AT
1 AAAATAAATACAAT
*
2322435 AAGATAAATACAAT
1 AAAATAAATACAAT
* *
2322449 AAAAATAAAATATAAA
1 -AAAAT-AAATACAAT
2322465 AAAATAAA-ACAAT
1 AAAATAAATACAAT
2322478 AAAATAA
1 AAAATAA
2322485 TAATAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
13 20 0.49
14 5 0.12
15 9 0.22
16 7 0.17
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAATAAATACAAT
Found at i:2329889 original size:15 final size:16
Alignment explanation
Indices: 2329865--2329897 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2329855 AAATTTGATA
*
2329865 ATTTTTATAA-TTTTG
1 ATTTTGATAACTTTTG
2329880 ATTTTGATAACTTTTG
1 ATTTTGATAACTTTTG
2329896 AT
1 AT
2329898 GAAATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (16 bp):
ATTTTGATAACTTTTG
Found at i:2329894 original size:24 final size:26
Alignment explanation
Indices: 2329858--2329908 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
2329848 ATAAGTAAAA
*
2329858 TTTGATAA-TTTTTAT-AATTTTGAT
1 TTTGATAACTTTTGATAAATTTTGAT
2329882 TTTGATAACTTTTGATGAAATTTTGAT
1 TTTGATAACTTTTGAT-AAATTTTGAT
2329909 AACCATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 6 0.26
27 9 0.39
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (26 bp):
TTTGATAACTTTTGATAAATTTTGAT
Found at i:2330502 original size:20 final size:20
Alignment explanation
Indices: 2330479--2330621 Score: 103
Period size: 20 Copynumber: 6.8 Consensus size: 20
2330469 ATAATTATTT
*
2330479 TATTAGTAAATAATATAATA
1 TATTAATAAATAATATAATA
2330499 TATTAATAAATAATATATTATA
1 TATTAATAAATAATATA--ATA
* *
2330521 TTAGTAATATATTATTAATATGATA
1 -TATTAATA-A--A-TAATATAATA
*
2330546 TATTAATAAATAATATTATA
1 TATTAATAAATAATATAATA
*
2330566 -ATATACTAAA-AATAATAAT-
1 TAT-TAATAAATAAT-ATAATA
* * *
2330585 TTTATAATTAATATTATAATA
1 TAT-TAATAAATAATATAATA
2330606 TATTAATAAATAATAT
1 TATTAATAAATAATAT
2330622 TATTATATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
19 5 0.05
20 58 0.60
21 5 0.05
22 3 0.03
23 8 0.08
24 8 0.08
25 3 0.03
26 1 0.01
27 6 0.06
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTAATAAATAATATAATA
Found at i:2330530 original size:16 final size:16
Alignment explanation
Indices: 2330488--2330561 Score: 82
Period size: 16 Copynumber: 4.7 Consensus size: 16
2330478 TTATTAGTAA
2330488 ATAATATAATATATTA-
1 ATAA-ATAATATATTAT
2330504 ATAAATAATATATTAT
1 ATAAATAATATATTAT
* *
2330520 ATTAGTAATATATTAT
1 ATAAATAATATATTAT
*
2330536 -TAATATGATATATTA-
1 ATAA-ATAATATATTAT
2330551 ATAAATAATAT
1 ATAAATAATAT
2330562 TATAATATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
15 19 0.39
16 30 0.61
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATAAATAATATATTAT
Found at i:2330562 original size:60 final size:61
Alignment explanation
Indices: 2330489--2330651 Score: 136
Period size: 60 Copynumber: 2.7 Consensus size: 61
2330479 TATTAGTAAA
* * *
2330489 TAATATAAT-ATATTAATAAATAATATATTATATTAGTAATAT-ATTATTAATATGATATAT
1 TAATA-AATAATATTAATAAATAATATATTATATTAATAATATAATTAATAATATAATATAT
* ** * ** *
2330549 TAATAAATAATATT-ATAATATACTA-AAAATAATAATTTTATAATTAATATTATAATATAT
1 TAATAAATAATATTAATAA-ATAATATATTATATTAATAATATAATTAATAATATAATATAT
* * * *
2330609 TAATAAATAATATTATTATATTTATATTATTATATTATTAATA
1 TAATAAATAATATTAATA-AATAATA-TATTATATTAATAATA
2330652 ACAAACAAAG
Statistics
Matches: 76, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
59 17 0.22
60 44 0.58
61 5 0.07
62 1 0.01
63 9 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (61 bp):
TAATAAATAATATTAATAAATAATATATTATATTAATAATATAATTAATAATATAATATAT
Found at i:2330599 original size:37 final size:38
Alignment explanation
Indices: 2330518--2330652 Score: 125
Period size: 37 Copynumber: 3.5 Consensus size: 38
2330508 ATAATATATT
* * * *
2330518 ATATTAGTAATATATTATTAATATGATA-TATTAATAAATA
1 ATATTA-TAATATACTAATAA-ATAATATTATT-ATAATTA
2330558 ATATTATAATATACTAA-AAATAATAATT-TTATAATTA
1 ATATTATAATATACTAATAAATAAT-ATTATTATAATTA
* *
2330595 ATATTATAATATATTAATAAATAATATTATTAT-ATTT
1 ATATTATAATATACTAATAAATAATATTATTATAATTA
* *
2330632 ATATTATTATATTATTAATAA
1 ATATTATAATA-TACTAATAA
2330653 CAAACAAAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
37 42 0.51
38 25 0.30
39 10 0.12
40 6 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (38 bp):
ATATTATAATATACTAATAAATAATATTATTATAATTA
Found at i:2330641 original size:14 final size:14
Alignment explanation
Indices: 2330618--2330644 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2330608 TTAATAAATA
2330618 ATATTATTATATTT
1 ATATTATTATATTT
2330632 ATATTATTATATT
1 ATATTATTATATT
2330645 ATTAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTATTATATTT
Found at i:2330990 original size:22 final size:22
Alignment explanation
Indices: 2330965--2331013 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
2330955 ATGATAGACA
*
2330965 ATTAAGTTATAATTGATTTACT
1 ATTAAGTTATAAGTGATTTACT
*
2330987 ATTATGTTATAAGTGATTTACT
1 ATTAAGTTATAAGTGATTTACT
2331009 ATTAA
1 ATTAA
2331014 ACTGTCAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTAAGTTATAAGTGATTTACT
Found at i:2331025 original size:22 final size:22
Alignment explanation
Indices: 2330978--2331103 Score: 76
Period size: 22 Copynumber: 5.7 Consensus size: 22
2330968 AAGTTATAAT
***
2330978 TGATTTACTATTATGTTAT-AA
1 TGATTTACTATTAAACTATCAA
*
2330999 GTGATTTACTATTAAACTGTCAA
1 -TGATTTACTATTAAACTATCAA
* ** *
2331022 TGATATACTGCTAAATTATCAA
1 TGATTTACTATTAAACTATCAA
* * * * *
2331044 TAATTTATTATTAAATTAGCAT
1 TGATTTACTATTAAACTATCAA
* *
2331066 TGATTTACTACTT-ATCTATGAA
1 TGATTTACTA-TTAAACTATCAA
2331088 TGGATTTACTATTAAA
1 T-GATTTACTATTAAA
2331104 TAATGGCTGA
Statistics
Matches: 76, Mismatches: 24, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
22 62 0.82
23 14 0.18
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (22 bp):
TGATTTACTATTAAACTATCAA
Found at i:2331160 original size:22 final size:22
Alignment explanation
Indices: 2331111--2331160 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
2331101 AAATAATGGC
* *
2331111 TGATTTACTACTAAATTATTGA
1 TGATTTACTACTAAATTACTAA
* *
2331133 TAATTTACTACTAAGTTACTAA
1 TGATTTACTACTAAATTACTAA
2331155 TGATTT
1 TGATTT
2331161 GTTATAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (22 bp):
TGATTTACTACTAAATTACTAA
Found at i:2331194 original size:21 final size:22
Alignment explanation
Indices: 2331153--2331203 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2331143 CTAAGTTACT
2331153 AATGATTTGTTATAAAATTAT-
1 AATGATTTGTTATAAAATTATC
* *
2331174 AACTGATTT-TTATTAATTTATC
1 AA-TGATTTGTTATAAAATTATC
2331196 AATGATTT
1 AATGATTT
2331204 ACTACAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (22 bp):
AATGATTTGTTATAAAATTATC
Found at i:2331263 original size:22 final size:21
Alignment explanation
Indices: 2331238--2331312 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
2331228 TAATTTGTTG
2331238 CTAAATTATCACCTATTTACAA
1 CTAAATTATCA-CTATTTACAA
* * *
2331260 CTAAATTATTAGTGATTTACGA
1 CTAAATTATCACT-ATTTACAA
* * * *
2331282 TTAAGTTATCAACAATTTACAT
1 CTAAATTATC-ACTATTTACAA
2331304 CTAAATTAT
1 CTAAATTAT
2331313 TAATGATTTA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (21 bp):
CTAAATTATCACTATTTACAA
Found at i:2331321 original size:22 final size:22
Alignment explanation
Indices: 2331252--2331322 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
2331242 ATTATCACCT
* *
2331252 ATTTACAACTAAATTATTAGTG
1 ATTTACATCTAAATTATTAATG
* * **
2331274 ATTTACGAT-TAAGTTATCAACA
1 ATTTAC-ATCTAAATTATTAATG
2331296 ATTTACATCTAAATTATTAATG
1 ATTTACATCTAAATTATTAATG
2331318 ATTTA
1 ATTTA
2331323 GTATTATGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 2 0.05
22 34 0.92
23 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (22 bp):
ATTTACATCTAAATTATTAATG
Found at i:2331479 original size:22 final size:22
Alignment explanation
Indices: 2331454--2331731 Score: 131
Period size: 22 Copynumber: 12.5 Consensus size: 22
2331444 CATTCATCTA
*
2331454 TATTAAATTATTCATGATTTAC
1 TATTAAGTTATTCATGATTTAC
* *
2331476 TATTAAGTTA-TCATTAATTAAC
1 TATTAAGTTATTCA-TGATTTAC
* *
2331498 TATTAAGTTATTAATGAATAACTAC
1 TATTAAGTTATTCATG-AT--TTAC
*
2331523 TATTAAGTTA-T-ATTAATTTAC
1 TATTAAGTTATTCA-TGATTTAC
* * *
2331544 TTTTAAGTT-TCTAATGATTAAC
1 TATTAAGTTAT-TCATGATTTAC
* *
2331566 TATTAAATTA-TCATTTATTTAC
1 TATTAAGTTATTCA-TGATTTAC
* *
2331588 TATTAAGTTATTTATGATTTAT
1 TATTAAGTTATTCATGATTTAC
* * * * *
2331610 TACTAAATTCATTAATTAATTAC
1 TATTAAGTT-ATTCATGATTTAC
* ** * *
2331633 TATTAAATTGAAAC-TTATTAAC
1 TATTAAGTT-ATTCATGATTTAC
* *
2331655 TATTAAG-TAATCACTAATTTAC
1 TATTAAGTTATTCA-TGATTTAC
*
2331677 TATTAAGTTATT-ATCGATTTAT
1 TATTAAGTTATTCAT-GATTTAC
* * *
2331699 TATTAAGTTATTAATTATTAAC
1 TATTAAGTTATTCATGATTTAC
*
2331721 TACTAAGTTAT
1 TATTAAGTTAT
2331732 CACTTTTTTT
Statistics
Matches: 193, Mismatches: 45, Indels: 36
0.70 0.16 0.13
Matches are distributed among these distances:
20 3 0.02
21 18 0.09
22 125 0.65
23 33 0.17
24 2 0.01
25 12 0.06
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (22 bp):
TATTAAGTTATTCATGATTTAC
Found at i:2331532 original size:90 final size:90
Alignment explanation
Indices: 2331437--2331689 Score: 230
Period size: 90 Copynumber: 2.8 Consensus size: 90
2331427 ATTCATTATC
* * * *
2331437 AAGTTATCATTCATCTA-TATTAAATTAT-TCATGATTTACTATTAAGTTATCATTAATTAACTA
1 AAGTTAT-ATTAATCTACTATTAAATT-TCTAATGATTAACTATTAAATTATCATTAATTAACTA
2331500 TTAAGTTATTAATGAATAACTACTATT
64 TTAAGTTATTAATGAATAACTACTATT
* * * * *
2331527 AAGTTATATTAATTTACTTTTAAGTTTCTAATGATTAACTATTAAATTATCATTTATTTACTATT
1 AAGTTATATTAATCTACTATTAAATTTCTAATGATTAACTATTAAATTATCATTAATTAACTATT
* * * *
2331592 AAGTTATTTATGATTTATTACTAAATT
66 AAGTTATTAATGAATAACTACT--ATT
* ** * * * * *
2331619 CA-TTA-ATTAAT-TACTATTAAA-TTGAAACTTATTAACTATTAAGTAATCACTAATTTACTAT
1 AAGTTATATTAATCTACTATTAAATTTCTAA-TGATTAACTATTAAATTATCATTAATTAACTAT
2331680 TAAGTTATTA
65 TAAGTTATTA
2331690 TCGATTTATT
Statistics
Matches: 134, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
88 4 0.03
89 53 0.40
90 70 0.52
91 3 0.02
92 4 0.03
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (90 bp):
AAGTTATATTAATCTACTATTAAATTTCTAATGATTAACTATTAAATTATCATTAATTAACTATT
AAGTTATTAATGAATAACTACTATT
Found at i:2331605 original size:44 final size:44
Alignment explanation
Indices: 2331437--2331731 Score: 219
Period size: 44 Copynumber: 6.7 Consensus size: 44
2331427 ATTCATTATC
* * * * *
2331437 AAGTTATCATTCATCTA-TATTAAATTATTCATGATTTACTATT
1 AAGTTATCATTAATTTACTATTAAGTTATTAATGATTAACTATT
* *
2331480 AAGTTATCATTAATTAACTATTAAGTTATTAATGAATAACTACTATT
1 AAGTTATCATTAATTTACTATTAAGTTATTAATG-ATTA--ACTATT
*
2331527 AAGTTAT-ATTAATTTACTTTTAAGTT-TCTAATGATTAACTATT
1 AAGTTATCATTAATTTACTATTAAGTTAT-TAATGATTAACTATT
* * * * * *
2331570 AAATTATCATTTATTTACTATTAAGTTATTTATGATTTATTACT
1 AAGTTATCATTAATTTACTATTAAGTTATTAATGATTAACTATT
* * * *
2331614 AAATTCATTAATTAA-TTACTATTAAATTGA--AACTTATTAACTATT
1 AAGTT-A-TCATTAATTTACTATTAAGTT-ATTAA-TGATTAACTATT
* * * *
2331659 AAGTAATCACTAATTTACTATTAAGTTATT-ATCGATTTATTATT
1 AAGTTATCATTAATTTACTATTAAGTTATTAAT-GATTAACTATT
* * *
2331703 AAGTTATTAATT-ATTAACTACTAAGTTAT
1 AAGTTA-TCATTAATTTACTATTAAGTTAT
2331732 CACTTTTTTT
Statistics
Matches: 198, Mismatches: 38, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
43 33 0.17
44 90 0.45
45 34 0.17
46 28 0.14
47 13 0.07
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (44 bp):
AAGTTATCATTAATTTACTATTAAGTTATTAATGATTAACTATT
Found at i:2332065 original size:22 final size:22
Alignment explanation
Indices: 2332022--2332066 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2332012 ATGATTGATA
* * *
2332022 ATTAAGTTATCAATTATTTACT
1 ATTAAGCTATCAATGATGTACT
*
2332044 ATTAAGCTATTAATGATGTACT
1 ATTAAGCTATCAATGATGTACT
2332066 A
1 A
2332067 CTAATTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTAAGCTATCAATGATGTACT
Found at i:2332149 original size:22 final size:21
Alignment explanation
Indices: 2332078--2332151 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
2332068 TAATTTATAA
*
2332078 ATGATTTGTCATTAACTTA-TG
1 ATGATTTATCATTAA-TTATTG
* * * *
2332099 AATGATTTACCAATCATTGTTG
1 -ATGATTTATCATTAATTATTG
*
2332121 GTGATTTATCATTAAGTTATTG
1 ATGATTTATCATTAA-TTATTG
2332143 ATGATTTAT
1 ATGATTTAT
2332152 TATAAAATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
21 13 0.33
22 26 0.67
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (21 bp):
ATGATTTATCATTAATTATTG
Found at i:2332293 original size:22 final size:22
Alignment explanation
Indices: 2332240--2332285 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2332230 AATTTGCTGC
* *
2332240 TAAATTATCAATAATTTACAAT
1 TAAATTATTAGTAATTTACAAT
*
2332262 TAAATTATTAGTAATTTACTAT
1 TAAATTATTAGTAATTTACAAT
2332284 TA
1 TA
2332286 TGTTATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (22 bp):
TAAATTATTAGTAATTTACAAT
Found at i:2332376 original size:84 final size:85
Alignment explanation
Indices: 2332229--2332390 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 85
2332219 AATAATTAAC
* *
2332229 CAATTTGCTGCTAAATTATCAATAATTTACAATTAAATTATTAGTAATTTACTATTATGTTATTA
1 CAATTTGCTACTAAATTATCAATAATTTACAATTAAATTATTAGTAATTTACTATTATCTTATTA
2332294 ATGATCT-ACTACTAAGTTAT
66 ATGAT-TAACTACTAAGTTAT
* ** * * * *
2332314 CAATTTGCTATTAAATTATC-ATTGTTTACTATTATATTTTTA-TATATTTATTATTATCTTATT
1 CAATTTGCTACTAAATTATCAATAATTTACAATTAAATTATTAGTA-ATTTACTATTATCTTATT
*
2332377 ATTGATTAACTACT
65 AATGATTAACTACT
2332391 TAATTTTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
83 3 0.05
84 44 0.68
85 18 0.28
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (85 bp):
CAATTTGCTACTAAATTATCAATAATTTACAATTAAATTATTAGTAATTTACTATTATCTTATTA
ATGATTAACTACTAAGTTAT
Found at i:2332538 original size:44 final size:43
Alignment explanation
Indices: 2332434--2332550 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
2332424 AATTTACTAC
* * * * *
2332434 TAAATTATCTATAATTCACTATAAAGTTATTAATGTTTTATAT
1 TAAATTATCTATAATTTACTATTAAGTTATCAATGATTAATAT
2332477 TAAATTATGC-ATAATTTACTATTAAGTTATCAATGATTAACTAT
1 TAAATTAT-CTATAATTTACTATTAAGTTATCAATGATTAA-TAT
* * * **
2332521 TATATTATTTATGATTTACTGCTAAGTTAT
1 TAAATTATCTATAATTTACTATTAAGTTAT
2332551 ACTAATTTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 33 0.54
44 28 0.46
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (43 bp):
TAAATTATCTATAATTTACTATTAAGTTATCAATGATTAATAT
Found at i:2332557 original size:65 final size:66
Alignment explanation
Indices: 2332416--2332635 Score: 169
Period size: 65 Copynumber: 3.4 Consensus size: 66
2332406 TATCACAAAA
* * * * * * * *
2332416 TTATAACTAATTTACTACTAAATTATCTATAATTCACTA-TAAAGTTATTAATGTTTTA-TATTA
1 TTATAACTAATTTACTATTAAGTTATCAATAAATAACTACTAAA-TTATCAATGATTTACTACTA
*
2332479 AA
65 AG
* * * * * ** *
2332481 TTAT-GCATAATTTACTATTAAGTTATCAATGATTAACTATTATATTATTTATGATTTACTGCTA
1 TTATAAC-TAATTTACTATTAAGTTATCAATAAATAACTACTAAATTATCAATGATTTACTACTA
2332545 AG
65 AG
* * * *
2332547 TTAT-ACTAATTTACTTTTGAGTTTTCAATAAATAACTACTAAATTATCAATTATTTACTACTAA
1 TTATAACTAATTTACTATTAAGTTATCAATAAATAACTACTAAATTATCAATGATTTACTACTAA
*
2332611 T
66 G
* * *
2332612 TTATAATTCATTTACCATTAAGTT
1 TTATAACTAATTTACTATTAAGTT
2332636 GTTTATTATT
Statistics
Matches: 121, Mismatches: 30, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
64 1 0.01
65 94 0.78
66 26 0.21
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (66 bp):
TTATAACTAATTTACTATTAAGTTATCAATAAATAACTACTAAATTATCAATGATTTACTACTAA
G
Found at i:2332624 original size:22 final size:22
Alignment explanation
Indices: 2332385--2332653 Score: 77
Period size: 22 Copynumber: 12.3 Consensus size: 22
2332375 TTATTGATTA
* * *
2332385 ACTACTTAATTTTTAATTATTT
1 ACTACTAAATTATCAATTATTT
* *
2332407 A-TCACAAAATTAT-AACTAATTT
1 ACT-ACTAAATTATCAA-TTATTT
* * *
2332429 ACTACTAAATTATCTATAATTC
1 ACTACTAAATTATCAATTATTT
*
2332451 ACTA-TAAAGTTATTAATGT-TTT
1 ACTACTAAA-TTATCAAT-TATTT
* *
2332473 A-TATTAAATTATGC-ATAATTT
1 ACTACTAAATTAT-CAATTATTT
* * * *
2332494 ACTATTAAGTTATCAATGATTA
1 ACTACTAAATTATCAATTATTT
* * ** *
2332516 ACTATTATATTATTTATGATTT
1 ACTACTAAATTATCAATTATTT
* * * *
2332538 ACTGCTAAGTTAT-ACTAATTT
1 ACTACTAAATTATCAATTATTT
** * * * * * *
2332559 ACTTTTGAGTTTTCAATAAATA
1 ACTACTAAATTATCAATTATTT
2332581 ACTACTAAATTATCAATTATTT
1 ACTACTAAATTATCAATTATTT
*
2332603 ACTACTAATTTAT-AATTCATTT
1 ACTACTAAATTATCAATT-ATTT
* * * * **
2332625 ACCATTAAGTTGTTTATTATTT
1 ACTACTAAATTATCAATTATTT
2332647 ACTACTA
1 ACTACTA
2332654 TAAATTAATC
Statistics
Matches: 182, Mismatches: 51, Indels: 28
0.70 0.20 0.11
Matches are distributed among these distances:
21 38 0.21
22 139 0.76
23 5 0.03
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (22 bp):
ACTACTAAATTATCAATTATTT
Found at i:2332707 original size:22 final size:22
Alignment explanation
Indices: 2332682--2332730 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2332672 ACTGAAACTA
*
2332682 ATTTACTATTAAATTATTATTC
1 ATTTACTATTAAATTATCATTC
* *
2332704 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAATTATCATTC
2332726 ATTTA
1 ATTTA
2332731 TTGCTAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTC
Found at i:2332730 original size:44 final size:44
Alignment explanation
Indices: 2332244--2332939 Score: 142
Period size: 44 Copynumber: 16.1 Consensus size: 44
2332234 TGCTGCTAAA
* * * * *
2332244 TTATCAATAATTTACAATTAAATTATTAGTAATTTACTATTATG
1 TTATCATTGATTTACTATTAAATTATTATTAATTTACTATTAAG
* * * * * * * *
2332288 TTATTAATGATCTACTACT-AA--GTTATCAATTTGCTATTAAA
1 TTATCATTGATTTACTATTAAATTATTATTAATTTACTATTAAG
* * * **
2332329 TTATCATTG-TTTACTATTATATTTTTA-TATATTTATTATTATC
1 TTATCATTGATTTACTATTAAATTATTATTA-ATTTACTATTAAG
* * * ** *
2332372 TTATTATTGATTAACTACTT-AATTTTTAATT-ATTTA-TCACAAAA
1 TTATCATTGATTTACTA-TTAAATTATT-ATTAATTTACT-ATTAAG
* * * * * *
2332416 TTATAACTAATTTACTACTAAATTATCTA-TAATTCACTATAAAG
1 TTATCATTGATTTACTATTAAATTAT-TATTAATTTACTATTAAG
* * * *
2332460 TTATTAATGTTTTA-TATTAAATTATGCA-TAATTTACTATTAAG
1 TTATCATTGATTTACTATTAAATTAT-TATTAATTTACTATTAAG
* * * * **
2332503 TTATCAATGATTAACTATTATATTATT-TATGATTTACTGCTAAG
1 TTATCATTGATTTACTATTAAATTATTAT-TAATTTACTATTAAG
* * * * * * * * * *
2332547 TTAT-ACTAATTTACTTTTGAGTT-TTCAATAAATAACTACTAAA
1 TTATCATTGATTTACTATTAAATTATT-ATTAATTTACTATTAAG
* * * * *
2332590 TTATCAATT-ATTTACTACTAATTTATAATTCATTTACCATTAAG
1 TTATC-ATTGATTTACTATTAAATTATTATTAATTTACTATTAAG
* * * * * *
2332634 TTGTTTATT-ATTTACTACT--A-TA-AATTAA-TCACTATTAAAC
1 TT-ATCATTGATTTACTATTAAATTATTATTAATTTACTATT-AAG
* * * * *
2332674 TGA-AACTAATTTACTATTAAATTATTATTCATTTACTATTAAG
1 TTATCATTGATTTACTATTAAATTATTATTAATTTACTATTAAG
* ** * * * * *
2332717 TTATCATTGATTTATTGCTAAGTTATCAATAATTAACTACTAAG
1 TTATCATTGATTTACTATTAAATTATTATTAATTTACTATTAAG
* * * * * *
2332761 TTATCACTT-ATTT-TTGTTAAGTTATCT-TTGATTTAATATTATG
1 TTATCA-TTGATTTACTATTAAATTAT-TATTAATTTACTATTAAG
* * * *
2332804 TTGTTA-TGCATTTA-TAATTATATTATAATTAATTTACT-TTAAAG
1 TTATCATTG-ATTTACT-ATTAAATTATTATTAATTTACTATT-AAG
** * ** * *
2332848 TGCT-A-TGTATTTATTATTGTATTATT-CTAGATTTACTATAAAG
1 TTATCATTG-ATTTACTATTAAATTATTATTA-ATTTACTATTAAG
* * * *
2332891 TTATCAACT-ATTGACTATTAAATTATTACTAATTTACTACTAAG
1 TTATC-ATTGATTTACTATTAAATTATTATTAATTTACTATTAAG
2332935 TTATC
1 TTATC
2332940 GATAATTACT
Statistics
Matches: 465, Mismatches: 142, Indels: 90
0.67 0.20 0.13
Matches are distributed among these distances:
38 2 0.00
39 15 0.03
40 15 0.03
41 26 0.06
42 7 0.02
43 155 0.33
44 228 0.49
45 15 0.03
46 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.49
Consensus pattern (44 bp):
TTATCATTGATTTACTATTAAATTATTATTAATTTACTATTAAG
Found at i:2332738 original size:22 final size:22
Alignment explanation
Indices: 2332713--2332795 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
2332703 CATTTACTAT
2332713 TAAGTTATCATTGATTTATTGC
1 TAAGTTATCATTGATTTATTGC
* * * * *
2332735 TAAGTTATCAATAATTAACTAC
1 TAAGTTATCATTGATTTATTGC
*
2332757 TAAGTTATCACTT-ATTT-TTGT
1 TAAGTTATCA-TTGATTTATTGC
*
2332778 TAAGTTATCTTTGATTTA
1 TAAGTTATCATTGATTTA
2332796 ATATTATGTT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
20 2 0.04
21 14 0.30
22 30 0.64
23 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (22 bp):
TAAGTTATCATTGATTTATTGC
Found at i:2332929 original size:22 final size:21
Alignment explanation
Indices: 2332868--2332938 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
2332858 TTATTATTGT
2332868 ATTATT-CTAGATTTACTATAA
1 ATTATTACTA-ATTTACTATAA
* *
2332889 AGTTATCAACT-ATTGACTATTAA
1 A-TTAT-TACTAATTTACTA-TAA
2332912 ATTATTACTAATTTACTACTAA
1 ATTATTACTAATTTACTA-TAA
*
2332934 GTTAT
1 ATTAT
2332939 CGATAATTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 4 0.10
22 29 0.74
23 4 0.10
24 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (21 bp):
ATTATTACTAATTTACTATAA
Found at i:2336138 original size:25 final size:24
Alignment explanation
Indices: 2336100--2336147 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
2336090 AGAATTCTTA
*
2336100 AAAAATTTACCATTTGAAAATTTT
1 AAAAATTTACCATTGGAAAATTTT
* *
2336124 AAAAATTTCATCATTGGATAATTT
1 AAAAATTT-ACCATTGGAAAATTT
2336148 ATATTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (24 bp):
AAAAATTTACCATTGGAAAATTTT
Found at i:2336373 original size:14 final size:14
Alignment explanation
Indices: 2336356--2336392 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
2336346 TTATTCCCAA
2336356 AATTTTATTTTTTT
1 AATTTTATTTTTTT
*
2336370 AATTTTACTTTTTT
1 AATTTTATTTTTTT
2336384 -ATTTTATTT
1 AATTTTATTT
2336393 AATATCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
AATTTTATTTTTTT
Found at i:2336980 original size:16 final size:17
Alignment explanation
Indices: 2336959--2336992 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2336949 CTCAACCATC
2336959 TATTTTTTTCATT-TTT
1 TATTTTTTTCATTATTT
2336975 TATTTTTTTCATTATTT
1 TATTTTTTTCATTATTT
2336992 T
1 T
2336993 TTATTCGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTTCATTATTT
Found at i:2338907 original size:37 final size:37
Alignment explanation
Indices: 2338866--2338938 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
2338856 TGCTAGGCTT
2338866 AAATTTACCCAATTTGCAACACCAATTAAGTTAACTC
1 AAATTTACCCAATTTGCAACACCAATTAAGTTAACTC
2338903 AAATTTACCCAATTTGCAACACCAATTAAGTTAACT
1 AAATTTACCCAATTTGCAACACCAATTAAGTTAACT
2338939 TCATCAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (37 bp):
AAATTTACCCAATTTGCAACACCAATTAAGTTAACTC
Found at i:2344033 original size:35 final size:38
Alignment explanation
Indices: 2343963--2344043 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
2343953 AAATTAACAC
*
2343963 ATCACTCACTTATTTTTTCAATTAGGTTTTTTTTTTAAT
1 ATCACTCACTTATTTTTTCAATTAGG-TTCTTTTTTAAT
*
2344002 ATCACTCACTTATTTTTTCAGTTA-G-TCTTTTTTAAT
1 ATCACTCACTTATTTTTTCAATTAGGTTCTTTTTTAAT
2344038 AT-ACTC
1 ATCACTC
2344044 TGAAGCTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 4 0.10
36 12 0.30
38 1 0.03
39 23 0.57
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (38 bp):
ATCACTCACTTATTTTTTCAATTAGGTTCTTTTTTAAT
Found at i:2345394 original size:22 final size:22
Alignment explanation
Indices: 2345365--2345413 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
2345355 TACATTAGTG
2345365 ATAA-TTTAGACAAAATCAATA
1 ATAACTTTAGACAAAATCAATA
* * * *
2345386 ATAACTTTATACTAAATTAATG
1 ATAACTTTAGACAAAATCAATA
2345408 ATAACT
1 ATAACT
2345414 GTATAGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATAACTTTAGACAAAATCAATA
Found at i:2345499 original size:22 final size:21
Alignment explanation
Indices: 2345377--2345493 Score: 119
Period size: 22 Copynumber: 5.3 Consensus size: 21
2345367 AATTTAGACA
* *
2345377 AAATCAATAATAACTTTATACT
1 AAAT-AATAATAACTTAATAGT
*
2345399 AAATTAATGATAACTGT-ATAGT
1 AAA-TAATAATAACT-TAATAGT
*
2345421 AAATTATGAATAACTTAATAGT
1 AAATAAT-AATAACTTAATAGT
2345443 AAAATAATAATAACTTAATAGT
1 -AAATAATAATAACTTAATAGT
* *
2345465 AAATAAGTAATAATTTAGTAGT
1 AAATAA-TAATAACTTAATAGT
2345487 AAATAAT
1 AAATAAT
2345494 TGATAAAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.13
22 63 0.77
23 8 0.10
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATAATAATAACTTAATAGT
Found at i:2345665 original size:44 final size:44
Alignment explanation
Indices: 2345606--2345701 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
2345596 TAACACATAT
*
2345606 TAGTAAATTAATGATAACTTAATAAAAAATAAATAATAACTTAG
1 TAGTAAATTAATGATAACTTAATAAAAAATAAATAATAACTTAA
* * * * * *
2345650 TAGTTAATTATTGATAACTTAGTAATAAATCAATGATAACTTAA
1 TAGTAAATTAATGATAACTTAATAAAAAATAAATAATAACTTAA
2345694 TAGTAAAT
1 TAGTAAAT
2345702 AAGATTTAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (44 bp):
TAGTAAATTAATGATAACTTAATAAAAAATAAATAATAACTTAA
Found at i:2345666 original size:22 final size:22
Alignment explanation
Indices: 2345606--2345701 Score: 93
Period size: 22 Copynumber: 4.4 Consensus size: 22
2345596 TAACACATAT
* *
2345606 TAGTAAATTAATGATAACTTAA
1 TAGTAAATCAATGATAACTTAG
** * *
2345628 TAAAAAATAAATAATAACTTAG
1 TAGTAAATCAATGATAACTTAG
* * *
2345650 TAGTTAATTATTGATAACTTAG
1 TAGTAAATCAATGATAACTTAG
* *
2345672 TAATAAATCAATGATAACTTAA
1 TAGTAAATCAATGATAACTTAG
2345694 TAGTAAAT
1 TAGTAAAT
2345702 AAGATTTAGT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATGATAACTTAG
Found at i:2346046 original size:22 final size:22
Alignment explanation
Indices: 2346021--2346400 Score: 111
Period size: 22 Copynumber: 17.2 Consensus size: 22
2346011 AGCTTAGTAA
*
2346021 TAAATCAATGATAATTTAATAG
1 TAAATCAATGATAACTTAATAG
*
2346043 TAAAT-AATTTATAAC-TAAGTAG
1 TAAATCAA-TGATAACTTAA-TAG
* * * *
2346065 TAATTAAT-AATTAAAAATTAAAAG
1 T-A--AATCAATGATAACTTAATAG
*
2346089 TAAATCAAT-ATAACTTAATAA
1 TAAATCAATGATAACTTAATAG
* *
2346110 T-AATC-ATCAGTAAATTAATAG
1 TAAATCAATGA-TAACTTAATAG
* * * *
2346131 TTAATCAGTAATAATTTAATATAG
1 TAAATCAATGATAACTT-A-ATAG
* *
2346155 TAAATTAGA-GATATAATTTAATAG
1 TAAATCA-ATG--ATAACTTAATAG
* * * *
2346179 TATATCAATTATAATTTAGTAG
1 TAAATCAATGATAACTTAATAG
* * *
2346201 TAAATTAGTAATAA-TATAATAG
1 TAAATCAATGATAACT-TAATAG
* * *
2346223 TCAAAGC-ATAATAACTTAATAA
1 T-AAATCAATGATAACTTAATAG
* * * *
2346245 TAAATCAATTATAACATAGTTG
1 TAAATCAATGATAACTTAATAG
* * * *
2346267 TAAATGC-ATAATAACATAGTTG
1 TAAAT-CAATGATAACTTAATAG
* *
2346289 TAAATTAATGATAACTTCATA-
1 TAAATCAATGATAACTTAATAG
*
2346310 -AAA-AAATGATAACTTAATAG
1 TAAATCAATGATAACTTAATAG
* * * * *
2346330 TTAATCATTGATAATTTAGTAA
1 TAAATCAATGATAACTTAATAG
* * *
2346352 TAAATTAATGAAAACTTAGTAG
1 TAAATCAATGATAACTTAATAG
* * * *
2346374 TAAATTAGTGATAGCATAATAG
1 TAAATCAATGATAACTTAATAG
2346396 TAAAT
1 TAAAT
2346401 TTAGTTTAGT
Statistics
Matches: 269, Mismatches: 63, Indels: 52
0.70 0.16 0.14
Matches are distributed among these distances:
19 16 0.06
20 8 0.03
21 34 0.13
22 158 0.59
23 11 0.04
24 26 0.10
25 9 0.03
26 7 0.03
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
TAAATCAATGATAACTTAATAG
Found at i:2346548 original size:23 final size:23
Alignment explanation
Indices: 2346522--2346585 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
2346512 AATGATAACA
2346522 AAGTAGCAAATGCATAATAGTAT
1 AAGTAGCAAATGCATAATAGTAT
2346545 AAGTAGCAAATGCATAATAGTAT
1 AAGTAGCAAATGCATAATAGTAT
*
2346568 AA-TAGTAAAT-CATTAATA
1 AAGTAGCAAATGCA-TAATA
2346586 ATTTAGTAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 2 0.05
22 12 0.31
23 25 0.64
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (23 bp):
AAGTAGCAAATGCATAATAGTAT
Found at i:2346584 original size:22 final size:22
Alignment explanation
Indices: 2346529--2346599 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
2346519 ACAAAGTAGC
*
2346529 AAATGCATAATAGTATAAGTAGC
1 AAATGCATAATAGTATAA-TAGT
2346552 AAATGCATAATAGTATAATAGT
1 AAATGCATAATAGTATAATAGT
* * *
2346574 AAAT-CATTAATAATTTAGTAGT
1 AAATGCA-TAATAGTATAATAGT
2346596 AAAT
1 AAAT
2346600 TATTGATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 2 0.05
22 23 0.53
23 18 0.42
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (22 bp):
AAATGCATAATAGTATAATAGT
Found at i:2346608 original size:22 final size:22
Alignment explanation
Indices: 2346570--2346630 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
2346560 AATAGTATAA
*
2346570 TAGTAAATCATTAATAATTTAG
1 TAGTAAATCATTAATAAATTAG
* *
2346592 TAGTAAATTATTGATAAATTAG
1 TAGTAAATCATTAATAAATTAG
*
2346614 TAGTAAATCACTAATAA
1 TAGTAAATCATTAATAA
2346631 CGCAATAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (22 bp):
TAGTAAATCATTAATAAATTAG
Found at i:2346664 original size:22 final size:22
Alignment explanation
Indices: 2346639--2346696 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
2346629 AACGCAATAG
* *
2346639 TAAAACATTGATAACTTAGTTA
1 TAAAACAATGATAAATTAGTTA
* *
2346661 TAAATA-AGTGAAAAATTAGTTA
1 TAAA-ACAATGATAAATTAGTTA
*
2346683 TAAATCAATGATAA
1 TAAAACAATGATAA
2346697 TGTAGTTGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (22 bp):
TAAAACAATGATAAATTAGTTA
Found at i:2346702 original size:22 final size:21
Alignment explanation
Indices: 2346647--2346709 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
2346637 AGTAAAACAT
2346647 TGATAACTTAGTTATAAATAAG
1 TGATAA-TTAGTTATAAATAAG
*
2346669 TGAAAAATTAGTTATAAATCAA-
1 TG-ATAATTAGTTATAAAT-AAG
*
2346691 TGATAATGTAGTTGTAAAT
1 TGATAAT-TAGTTATAAAT
2346710 TAGTTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 4 0.11
22 26 0.74
23 5 0.14
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (21 bp):
TGATAATTAGTTATAAATAAG
Found at i:2346800 original size:11 final size:11
Alignment explanation
Indices: 2346744--2346824 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
2346734 GTAAATCATC
*
2346744 AATAACTTTAT
1 AATAACTTAAT
* *
2346755 AGTAAATTAGA-
1 AATAACTTA-AT
2346766 AATAACATT-AT
1 AATAAC-TTAAT
*
2346777 AATAA-TTATT
1 AATAACTTAAT
2346787 AATAACTTAAT
1 AATAACTTAAT
*
2346798 AATAAATT-AT
1 AATAACTTAAT
2346808 CAATAACTTAAT
1 -AATAACTTAAT
2346820 AATAA
1 AATAA
2346825 ATCATTTATA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
9 2 0.04
10 9 0.17
11 38 0.70
12 5 0.09
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.37
Consensus pattern (11 bp):
AATAACTTAAT
Done.