Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 8 of 130
Found at i:2133817 original size:21 final size:21
Alignment explanation
Indices: 2133792--2133831 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2133782 AATAATATGT
2133792 TATGAAAACGATAAAAAAATA
1 TATGAAAACGATAAAAAAATA
* *
2133813 TATGAAGATGATAAAAAAA
1 TATGAAAACGATAAAAAAA
2133832 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.20
Consensus pattern (21 bp):
TATGAAAACGATAAAAAAATA
Found at i:2134810 original size:18 final size:18
Alignment explanation
Indices: 2134770--2134811 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2134760 ATTATGTTTC
*
2134770 ATTTTATTTTTAATTAAT
1 ATTTTATTTTTAATAAAT
*
2134788 TTTTTATTTTTTAA-AAAT
1 ATTTTA-TTTTTAATAAAT
2134806 ATTTTA
1 ATTTTA
2134812 AAAAAATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTATTTTTAATAAAT
Found at i:2136501 original size:6 final size:6
Alignment explanation
Indices: 2136490--2136516 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2136480 TGATAATAGA
2136490 CTTCGC CTTCGC CTTCGC CTTCGC CTT
1 CTTCGC CTTCGC CTTCGC CTTCGC CTT
2136517 TATGATGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.48, G:0.15, T:0.37
Consensus pattern (6 bp):
CTTCGC
Found at i:2138768 original size:70 final size:67
Alignment explanation
Indices: 2138640--2138771 Score: 192
Period size: 70 Copynumber: 1.9 Consensus size: 67
2138630 AGTTTTAATT
* *
2138640 TTGCTGGTTAGCTCAAACTAGTGGTATTATTTTTAATTTTGACCTCAAATTCTGTCCATATTTAC
1 TTGCTGGTTAGCTCAAACTAGTGGTATTATTTTTAATTTTGACCACAAACTCTGTCCATATTTAC
2138705 CA
66 CA
* * *
2138707 TTGCTGGTTAAGCTCAAATTAATTGGTATTATTTTTAATGTTTGACCACTAACTCTGTCCATATT
1 TTGCTGGTT-AGCTCAAACT-AGTGGTATTATTTTTAAT-TTTGACCACAAACTCTGTCCATATT
2138772 AGGTTCTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
67 9 0.16
68 9 0.16
69 17 0.30
70 22 0.39
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (67 bp):
TTGCTGGTTAGCTCAAACTAGTGGTATTATTTTTAATTTTGACCACAAACTCTGTCCATATTTAC
CA
Found at i:2143183 original size:24 final size:25
Alignment explanation
Indices: 2143121--2143183 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
2143111 AAATAATAAA
**
2143121 AATAAAAGATATAAAAATATTATAG
1 AATAAAATTTATAAAAATATTATAG
**
2143146 TTTAAAATTT-TAAAAATATTATA-
1 AATAAAATTTATAAAAATATTATAG
2143169 AAT-AAATTTAATAAA
1 AATAAAATTT-ATAAA
2143184 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 6 0.20
23 1 0.03
24 17 0.57
25 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (25 bp):
AATAAAATTTATAAAAATATTATAG
Found at i:2148250 original size:2 final size:2
Alignment explanation
Indices: 2148230--2148268 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2148220 GTTCTTCAGC
* * *
2148230 TA TA TA CA TA CA TA CA 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 TA T
2148269 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:2161567 original size:20 final size:21
Alignment explanation
Indices: 2161542--2161582 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2161532 ATAACGTTTA
*
2161542 TAAATTT-TTAATTCTTATTT
1 TAAATTTATTAATTATTATTT
*
2161562 TAAATTTATTATTTATTATTT
1 TAAATTTATTAATTATTATTT
2161583 AATTAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TAAATTTATTAATTATTATTT
Found at i:2162071 original size:33 final size:33
Alignment explanation
Indices: 2162034--2162117 Score: 109
Period size: 32 Copynumber: 2.5 Consensus size: 33
2162024 ATTTTGAGTT
* *
2162034 TTATCTTATTATAAGAAATAAAGTAAATGTA-CC
1 TTATCTTATTATAAAAAATAAAGTAAAT-AAGCC
2162067 TTATC-TATTATAAAAAATAAAGTAAATAAGCC
1 TTATCTTATTATAAAAAATAAAGTAAATAAGCC
*
2162099 TTATCTCATTATAATAAAA
1 TTATCTTATTATAA-AAAA
2162118 ATATTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 1 0.02
32 28 0.62
33 12 0.27
34 4 0.09
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (33 bp):
TTATCTTATTATAAAAAATAAAGTAAATAAGCC
Found at i:2164980 original size:6 final size:6
Alignment explanation
Indices: 2164971--2165002 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
2164961 TGAGACTCAA
2164971 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TC
2165003 ATCATCCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTCT
Found at i:2167176 original size:14 final size:15
Alignment explanation
Indices: 2167150--2167179 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2167140 ATTTAATTTA
2167150 TATTTATATTAAATT
1 TATTTATATTAAATT
2167165 TATTTA-ATTAAATT
1 TATTTATATTAAATT
2167179 T
1 T
2167180 TAATTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTATATTAAATT
Found at i:2172217 original size:21 final size:22
Alignment explanation
Indices: 2172182--2172224 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2172172 AATGACATAT
2172182 TTGAATACAAATAAAAGAATAA
1 TTGAATACAAATAAAAGAATAA
* *
2172204 TTGACTAC-AATAAAAGTATAA
1 TTGAATACAAATAAAAGAATAA
2172225 AAATTTATTT
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:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (22 bp):
TTGAATACAAATAAAAGAATAA
Found at i:2172376 original size:17 final size:17
Alignment explanation
Indices: 2172354--2172388 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2172344 ACATTAAAAA
*
2172354 TTATAAAACTTCAATTT
1 TTATAAAAATTCAATTT
*
2172371 TTATAAAAATTTAATTT
1 TTATAAAAATTCAATTT
2172388 T
1 T
2172389 AACATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATAAAAATTCAATTT
Found at i:2176652 original size:17 final size:17
Alignment explanation
Indices: 2176627--2176685 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
2176617 TATTCGTGCT
*
2176627 TGATTTAATCTAATACA
1 TGATCTAATCTAATACA
*** *
2176644 TGATCTAAT-TTGCACT
1 TGATCTAATCTAATACA
*
2176660 TGATTTAATCTAATACA
1 TGATCTAATCTAATACA
2176677 TGATCTAAT
1 TGATCTAAT
2176686 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (17 bp):
TGATCTAATCTAATACA
Found at i:2177819 original size:22 final size:22
Alignment explanation
Indices: 2177794--2177839 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2177784 CACAATTGTC
2177794 CAACTTTCTCATTATCACATTT
1 CAACTTTCTCATTATCACATTT
2177816 CAACTTTCTCATTATCACATTT
1 CAACTTTCTCATTATCACATTT
2177838 CA
1 CA
2177840 TTTCTCTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.43
Consensus pattern (22 bp):
CAACTTTCTCATTATCACATTT
Found at i:2180508 original size:4 final size:4
Alignment explanation
Indices: 2180478--2180535 Score: 50
Period size: 4 Copynumber: 14.2 Consensus size: 4
2180468 TAATTCGATT
*
2180478 TTAA TTAAA TTAAA TCAA TTGAA TTAA TTAA TT-A TTAAA TTAA TT--
1 TTAA TT-AA TT-AA TTAA TT-AA TTAA TTAA TTAA TT-AA TTAA TTAA
2180523 TTAA TTAA TTAA T
1 TTAA TTAA TTAA T
2180536 AAAAATAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 2 0.04
3 3 0.07
4 26 0.57
5 15 0.33
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (4 bp):
TTAA
Found at i:2180530 original size:10 final size:11
Alignment explanation
Indices: 2180500--2180533 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
2180490 AATCAATTGA
2180500 ATTAATTAATT
1 ATTAATTAATT
2180511 ATTAAATTAATT
1 ATT-AATTAATT
2180523 -TTAATTAATT
1 ATTAATTAATT
2180533 A
1 A
2180534 ATAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTAATTAATT
Found at i:2180548 original size:23 final size:22
Alignment explanation
Indices: 2180501--2180549 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
2180491 ATCAATTGAA
* *
2180501 TTAATTAATTATTAAATTAATT
1 TTAATTAATTATAAAAATAATT
2180523 TTAATTAATTAATAAAAATAATT
1 TTAATTAATT-ATAAAAATAATT
2180546 TTAA
1 TTAA
2180550 AAAATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATTAATTATAAAAATAATT
Found at i:2181154 original size:39 final size:39
Alignment explanation
Indices: 2181100--2181179 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
2181090 CTCTTTCAAG
**
2181100 CAATAATTATCGCGCGAACAGACTTCGCTGCTTGATTCT
1 CAATAATTATCGCGCGAACAGACTTCGAAGCTTGATTCT
*
2181139 CAATAATTATCGCGCGAACAGAGTTCGAAGCTTGATTCT
1 CAATAATTATCGCGCGAACAGACTTCGAAGCTTGATTCT
2181178 CA
1 CA
2181180 GCTACTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (39 bp):
CAATAATTATCGCGCGAACAGACTTCGAAGCTTGATTCT
Found at i:2184423 original size:61 final size:61
Alignment explanation
Indices: 2184328--2184445 Score: 227
Period size: 61 Copynumber: 1.9 Consensus size: 61
2184318 CCATTAATGT
2184328 TGGCATAACCTTTTTTAGTGATTTGTCTTTATCTTTAGTTTATTGAGTTTACAGTGTTAAC
1 TGGCATAACCTTTTTTAGTGATTTGTCTTTATCTTTAGTTTATTGAGTTTACAGTGTTAAC
*
2184389 TGGCATAACCTTTTTTAGTGATTTGTCTTTATCTTTGGTTTATTGAGTTTACAGTGT
1 TGGCATAACCTTTTTTAGTGATTTGTCTTTATCTTTAGTTTATTGAGTTTACAGTGT
2184446 CAATGCAGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.52
Consensus pattern (61 bp):
TGGCATAACCTTTTTTAGTGATTTGTCTTTATCTTTAGTTTATTGAGTTTACAGTGTTAAC
Found at i:2185223 original size:196 final size:194
Alignment explanation
Indices: 2184891--2185283 Score: 651
Period size: 196 Copynumber: 2.0 Consensus size: 194
2184881 ATTATATCTT
*
2184891 TCACAAACTATACAGTATTCTTCAAGATTCATATCTTTCTGATATGGAATTTTCTTTAATTCATT
1 TCACAAACCATACAGTATTCTTCAAGATTCATATCTTTCTGATATGGAATTTTCTTTAATTCATT
* *
2184956 GTGTATTACATGTTAAGATCATACTATCCTGCTTCGGTGCTTTCAAATTTCATGTACCTCATTTC
66 GTGTATTACATGTCAAGATCATACCATCCTGCTTCGGTGCTTTCAAATTTCATGTACCTCATTTC
* *
2185021 TATTGAAACTTAAGGCTGAAATCTCTGTTTTTCTTATAAAAAGAGAGAAATAATTTTTGAAAAC
131 TATTGAAACTTAAGGCTGAAAACTCAGTTTTTCTTATAAAAAGAGAGAAATAATTTTTGAAAAC
* ** * *
2185085 TCACAAACCATGCAGTATTCTTCAAGATTCATATCTTTCTTTTCTGGAATTTTCTTTCATTCATT
1 TCACAAACCATACAGTATTCTTCAAGATTCATATCTTTCTGATATGGAATTTTCTTTAATTCATT
*
2185150 GTGTATTTTACATGTCAAGATCATACCATCCTGCTTCGGTGCTTTCAAATTTTATGTACCTCATT
66 GTGTA--TTACATGTCAAGATCATACCATCCTGCTTCGGTGCTTTCAAATTTCATGTACCTCATT
* *
2185215 TCTATTGAAACTTAAGGCTGAAAACTCAGTTTTTCTTATACAAAGAGAGAAATAATTTTTGAAGA
129 TCTATTGAAACTTAAGGCTGAAAACTCAGTTTTTCTTATAAAAAGAGAGAAATAATTTTTGAAAA
2185280 C
194 C
2185281 TCA
1 TCA
2185284 TAAGCTTCTT
Statistics
Matches: 184, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
194 64 0.35
196 120 0.65
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (194 bp):
TCACAAACCATACAGTATTCTTCAAGATTCATATCTTTCTGATATGGAATTTTCTTTAATTCATT
GTGTATTACATGTCAAGATCATACCATCCTGCTTCGGTGCTTTCAAATTTCATGTACCTCATTTC
TATTGAAACTTAAGGCTGAAAACTCAGTTTTTCTTATAAAAAGAGAGAAATAATTTTTGAAAAC
Found at i:2186817 original size:21 final size:21
Alignment explanation
Indices: 2186793--2186837 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2186783 AGAGGTTATT
* * *
2186793 AGAAGAGATCAATAGCTACGA
1 AGAAAAGAGCAATAGCTACAA
2186814 AGAAAAGAGCAATAGCTACAA
1 AGAAAAGAGCAATAGCTACAA
2186835 AGA
1 AGA
2186838 TATGGCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.22, T:0.11
Consensus pattern (21 bp):
AGAAAAGAGCAATAGCTACAA
Found at i:2189193 original size:24 final size:24
Alignment explanation
Indices: 2189161--2189241 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
2189151 AAAAATTTAT
*
2189161 ATTTAATATATTATTAATATATAA
1 ATTTAATATATTATTAATAAATAA
*
2189185 ATTTTATATATTATTAATAAATAA
1 ATTTAATATATTATTAATAAATAA
** * *
2189209 GGTGATATCATTTTATTAATAAATAA
1 ATTTA-AT-ATATTATTAATAAATAA
2189235 ATATTAA
1 AT-TTAA
2189242 ATTTTAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
24 23 0.52
25 2 0.05
26 17 0.39
27 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTTAATATATTATTAATAAATAA
Found at i:2192174 original size:23 final size:23
Alignment explanation
Indices: 2192148--2192197 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2192138 GTTAGGTGTC
* *
2192148 ATGAGCTAATTTTGTATAGGGTT
1 ATGAGCCAATTTTGTATAGGATT
*
2192171 ATGATCCAATTTTGTATAGGATT
1 ATGAGCCAATTTTGTATAGGATT
2192194 ATGA
1 ATGA
2192198 TTGAGACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (23 bp):
ATGAGCCAATTTTGTATAGGATT
Found at i:2192198 original size:23 final size:23
Alignment explanation
Indices: 2192155--2192198 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2192145 GTCATGAGCT
*
2192155 AATTTTGTATAGGGTTATGATCC
1 AATTTTGTATAGGATTATGATCC
2192178 AATTTTGTATAGGATTATGAT
1 AATTTTGTATAGGATTATGAT
2192199 TGAGACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (23 bp):
AATTTTGTATAGGATTATGATCC
Found at i:2201016 original size:13 final size:13
Alignment explanation
Indices: 2200998--2201048 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
2200988 ATATTAAAAT
2200998 TAATATATTTATA
1 TAATATATTTATA
2201011 TAATAT-TTTATA
1 TAATATATTTATA
*
2201023 TAA-AAATTATATA
1 TAATATATT-TATA
*
2201036 TCATA-ATTTATA
1 TAATATATTTATA
2201048 T
1 T
2201049 TATTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
11 1 0.03
12 16 0.48
13 15 0.45
14 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATATATTTATA
Found at i:2201074 original size:28 final size:29
Alignment explanation
Indices: 2200999--2201077 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 29
2200989 TATTAAAATT
* * *
2200999 AATAT-ATTTATATAATATTTTATATAAA
1 AATATAATTAATATTATATTATATATAAA
2201027 AATTATATATCATAAT-TTATATTAT-TATAAA
1 AA-TATA-AT--TAATATTATATTATATATAAA
2201058 AATATAATTAATATTATATT
1 AATATAATTAATATTATATT
2201078 CATGTATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
27 4 0.10
28 9 0.21
29 5 0.12
30 4 0.10
31 10 0.24
32 7 0.17
33 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
AATATAATTAATATTATATTATATATAAA
Found at i:2203154 original size:35 final size:35
Alignment explanation
Indices: 2203103--2203171 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
2203093 CTAGAAGTGT
*
2203103 CAAAAGTTAATAAAATGGAGAAACTACTTTACTAC
1 CAAAAGTTAATAAAATGGAGAAACCACTTTACTAC
*
2203138 CAAAAGTTAAGT-AAATGGAGAAGCCACTTTACTA
1 CAAAAGTTAA-TAAAATGGAGAAACCACTTTACTA
2203172 TCAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (35 bp):
CAAAAGTTAATAAAATGGAGAAACCACTTTACTAC
Found at i:2203657 original size:17 final size:17
Alignment explanation
Indices: 2203618--2203651 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2203608 AGTCTGAGCA
2203618 CTTCATGATCCCAGAAT
1 CTTCATGATCCCAGAAT
*
2203635 CTTCATGATCCCGGAAT
1 CTTCATGATCCCAGAAT
2203652 TGTCATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (17 bp):
CTTCATGATCCCAGAAT
Found at i:2213496 original size:39 final size:39
Alignment explanation
Indices: 2213452--2213528 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
2213442 ATGCTTTATG
2213452 TTTTTTAATTTACTAATTATATTACTCCAGTAAAAGCTA
1 TTTTTTAATTTACTAATTATATTACTCCAGTAAAAGCTA
* *
2213491 TTTTTTCATTTACTAATTATATTACTCCTGTAAAAGCT
1 TTTTTTAATTTACTAATTATATTACTCCAGTAAAAGCT
2213529 TCATCAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.48
Consensus pattern (39 bp):
TTTTTTAATTTACTAATTATATTACTCCAGTAAAAGCTA
Found at i:2213897 original size:17 final size:18
Alignment explanation
Indices: 2213866--2213899 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2213856 ATAATACGAT
*
2213866 ATTTTAATTTATTTATTG
1 ATTTAAATTTATTTATTG
2213884 ATTTAAATTT-TTTATT
1 ATTTAAATTTATTTATT
2213900 TTAATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTAAATTTATTTATTG
Found at i:2218437 original size:21 final size:23
Alignment explanation
Indices: 2218394--2218457 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 23
2218384 TATATGAATT
* *
2218394 TTAA-TTTAATATTTT-TAATAA
1 TTAATTTTATTATTTTATTATAA
2218415 TT-ATTTT-TTATTTTATTATAA
1 TTAATTTTATTATTTTATTATAA
*
2218436 TTAATTTTATCATTATTATTAT
1 TTAATTTTATTATT-TTATTAT
2218458 GTTTGCATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 7 0.20
21 12 0.34
22 5 0.14
23 4 0.11
24 7 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTAATTTTATTATTTTATTATAA
Found at i:2236403 original size:15 final size:16
Alignment explanation
Indices: 2236383--2236412 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2236373 TTAATTTGAA
2236383 AATATAAAA-AATTAC
1 AATATAAAATAATTAC
2236398 AATATAAAATAATTA
1 AATATAAAATAATTA
2236413 TAATTTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AATATAAAATAATTAC
Found at i:2241242 original size:2 final size:2
Alignment explanation
Indices: 2241235--2241289 Score: 94
Period size: 2 Copynumber: 27.5 Consensus size: 2
2241225 AATGCAACAA
2241235 AT AT AT AT AT AT AT AT AT AT AT AT AT -T CAT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
2241277 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2241290 CAGAATTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 49 0.96
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2243325 original size:2 final size:2
Alignment explanation
Indices: 2243318--2243347 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2243308 TTTACAATTT
2243318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2243348 GATAGATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2243826 original size:20 final size:20
Alignment explanation
Indices: 2243803--2243841 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2243793 AAAAAAAACT
2243803 AATAAAAAAATTACAAATAA
1 AATAAAAAAATTACAAATAA
*
2243823 AATAAAAAAATTATAAATA
1 AATAAAAAAATTACAAATA
2243842 TTGAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (20 bp):
AATAAAAAAATTACAAATAA
Found at i:2262158 original size:12 final size:12
Alignment explanation
Indices: 2262132--2262181 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
2262122 TGTATATATA
2262132 TAATTATTT-TT
1 TAATTATTTATT
2262143 TAATTATTTATT
1 TAATTATTTATT
*
2262155 TAATTATATATT
1 TAATTATTTATT
2262167 T-A-TATTTATT
1 TAATTATTTATT
2262177 TAATT
1 TAATT
2262182 TTATATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 8 0.24
11 11 0.32
12 15 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:2262175 original size:22 final size:22
Alignment explanation
Indices: 2262147--2262189 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2262137 ATTTTTTAAT
2262147 TATTTATTTAATTATATATTTA
1 TATTTATTTAATTATATATTTA
*
2262169 TATTTATTTAATTTTATATTT
1 TATTTATTTAATTATATATTT
2262190 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTATTTAATTATATATTTA
Found at i:2263487 original size:27 final size:27
Alignment explanation
Indices: 2263449--2263507 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
2263439 TTATTAATAA
*
2263449 ATTAATAATTAATATTATTAAATAAAT
1 ATTAATAATTAATAATATTAAATAAAT
* * *
2263476 ATTAATATTTAATAATATTAATTTAAT
1 ATTAATAATTAATAATATTAAATAAAT
2263503 ATTAA
1 ATTAA
2263508 AATATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTAATAATTAATAATATTAAATAAAT
Found at i:2263501 original size:14 final size:14
Alignment explanation
Indices: 2263442--2263503 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
2263432 TAGCGTTTTA
2263442 TTAATAA-ATTAA-
1 TTAATAATATTAAT
2263454 -TAATTAATATT-AT
1 TTAA-TAATATTAAT
*
2263467 TAAATAAATATTAATAT
1 TTAAT-AATATT-A-AT
2263484 TTAATAATATTAAT
1 TTAATAATATTAAT
2263498 TTAATA
1 TTAATA
2263504 TTAAAATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
11 3 0.08
12 4 0.10
13 4 0.10
14 16 0.40
15 1 0.03
16 6 0.15
17 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAATAATATTAAT
Found at i:2263507 original size:20 final size:20
Alignment explanation
Indices: 2263440--2263507 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 20
2263430 TTTAGCGTTT
2263440 TATTAATAAATTAATAATTAA
1 TATTAATAAATTAAT-ATTAA
* *
2263461 TATTATTAAATAAATATTAA
1 TATTAATAAATTAATATTAA
2263481 TATTTAATAATATTAAT-TTAA
1 TA-TTAATAA-ATTAATATTAA
2263502 TATTAA
1 TATTAA
2263508 AATATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.27
21 25 0.61
22 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTAATAAATTAATATTAA
Found at i:2263513 original size:19 final size:21
Alignment explanation
Indices: 2263442--2263518 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
2263432 TAGCGTTTTA
2263442 TTAATAA-ATTAATAATTAATA-
1 TTAATAATATTAAT--TTAATAT
* *
2263463 TTATTAA-ATAAATATTAATAT
1 TTAATAATATTAAT-TTAATAT
2263484 TTAATAATATTAATTTAATA-
1 TTAATAATATTAATTTAATAT
*
2263504 TTAA-AATATTTATTT
1 TTAATAATATTAATTT
2263519 TTATATTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 10 0.20
20 11 0.22
21 23 0.47
22 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATAATATTAATTTAATAT
Found at i:2263543 original size:18 final size:19
Alignment explanation
Indices: 2263513--2263548 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2263503 ATTAAAATAT
2263513 TTATTTTTATATTAATTTA
1 TTATTTTTATATTAATTTA
*
2263532 TTATTTTT-TATTCATTT
1 TTATTTTTATATTAATTT
2263549 CAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTTTTATATTAATTTA
Found at i:2265663 original size:5 final size:5
Alignment explanation
Indices: 2265653--2265692 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
2265643 ATTCATAATA
*
2265653 TTATC TTATC TTATC TTATC TTATC TTATC ATAATC TTAT
1 TTATC TTATC TTATC TTATC TTATC TTATC -TTATC TTAT
2265693 ACACACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.57
Consensus pattern (5 bp):
TTATC
Found at i:2272457 original size:24 final size:24
Alignment explanation
Indices: 2272425--2272481 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
2272415 AAATTGACTT
2272425 CTGCAGCTGTTGCAATA-GCTGCAG
1 CTGCAGCTGTTGCAA-AGGCTGCAG
*
2272449 CTGCTGCTGTTGCAAAGGCTGCAG
1 CTGCAGCTGTTGCAAAGGCTGCAG
2272473 CTGCAGCTG
1 CTGCAGCTG
2272482 CCAATGTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.25
Consensus pattern (24 bp):
CTGCAGCTGTTGCAAAGGCTGCAG
Found at i:2280489 original size:2 final size:2
Alignment explanation
Indices: 2280482--2280509 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2280472 GTAAAACCAG
2280482 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2280510 AATTGTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2283983 original size:16 final size:16
Alignment explanation
Indices: 2283959--2283992 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2283949 TATTTATTTG
2283959 TTTTCTTTTTTTCAAT
1 TTTTCTTTTTTTCAAT
* *
2283975 TTTTTTTTTTTTTAAT
1 TTTTCTTTTTTTCAAT
2283991 TT
1 TT
2283993 CATCAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTTTCAAT
Found at i:2286485 original size:8 final size:8
Alignment explanation
Indices: 2286474--2286530 Score: 78
Period size: 8 Copynumber: 7.1 Consensus size: 8
2286464 ATTAATTAAT
2286474 TATTTATA
1 TATTTATA
2286482 TATTTATA
1 TATTTATA
2286490 TATTTATA
1 TATTTATA
2286498 TATTTATA
1 TATTTATA
* *
2286506 TAATGATA
1 TATTTATA
* *
2286514 TTTTTAAA
1 TATTTATA
2286522 TATTTATA
1 TATTTATA
2286530 T
1 T
2286531 TTAAAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:2286573 original size:22 final size:22
Alignment explanation
Indices: 2286520--2286569 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
2286510 GATATTTTTA
2286520 AATA-TTTATATTTAAAAAAAT
1 AATATTTTATATTTAAAAAAAT
*
2286541 AATATTTTATATTT-TAAAAAT
1 AATATTTTATATTTAAAAAAAT
2286562 AATATTTT
1 AATATTTT
2286570 TATAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTAAAAAAAT
Found at i:2296901 original size:15 final size:15
Alignment explanation
Indices: 2296883--2296915 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2296873 ATTAAAAAAA
2296883 TTTTT-TTAACTTTT
1 TTTTTCTTAACTTTT
2296897 TTTTTCTTAACTTTT
1 TTTTTCTTAACTTTT
2296912 TTTT
1 TTTT
2296916 ATTGAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTTAACTTTT
Found at i:2297056 original size:15 final size:15
Alignment explanation
Indices: 2297013--2297056 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2297003 AGGAGACAAA
*
2297013 TTTTATTTTTTTTAC
1 TTTTATTTCTTTTAC
*
2297028 TTTTCTTTAC-TTTAC
1 TTTTATTT-CTTTTAC
2297043 TTTTATTTCTTTTA
1 TTTTATTTCTTTTA
2297057 TCTCTCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTTCTTTTAC
Found at i:2297517 original size:26 final size:24
Alignment explanation
Indices: 2297469--2297524 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
2297459 TATTTGTTTC
*
2297469 AAATTTAATTTGATTTGTATTTAT
1 AAATTTAATTTGATTTATATTTAT
2297493 AATATTTGAATTTGATTTA-ATTTTAT
1 AA-ATTT-AATTTGATTTATA-TTTAT
2297519 AAATTT
1 AAATTT
2297525 TTTATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 2 0.07
25 9 0.32
26 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (24 bp):
AAATTTAATTTGATTTATATTTAT
Found at i:2297593 original size:46 final size:45
Alignment explanation
Indices: 2297524--2297622 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 45
2297514 TTTATAAATT
* *
2297524 TTTTAT-ATTTAAATTAAATTTAATT-TTAAATTAATAAAATA-TTA
1 TTTTATAATATAAATTAAAATTAATTATT-AATTAA-AAAATATTTA
2297568 TTTTATAATATAAATATAAAATTAATTAATTAATTAAAAAATATTTTA
1 TTTTATAATATAAAT-TAAAATTAATT-ATTAATTAAAAAATA-TTTA
2297616 TTTTATA
1 TTTTATA
2297623 TCAAATTGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
44 6 0.13
45 7 0.15
46 16 0.34
47 6 0.13
48 12 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (45 bp):
TTTTATAATATAAATTAAAATTAATTATTAATTAAAAAATATTTA
Found at i:2298924 original size:18 final size:18
Alignment explanation
Indices: 2298879--2298924 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
2298869 ATTTTATTTT
* *
2298879 TTAAATATAAATATATAA
1 TTAAATATAAATAAAAAA
*
2298897 TTATATATAAATAAAAAA
1 TTAAATATAAATAAAAAA
*
2298915 TTAAAAATAA
1 TTAAATATAA
2298925 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATATAAATAAAAAA
Found at i:2306990 original size:15 final size:14
Alignment explanation
Indices: 2306965--2307004 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
2306955 ATATCAATTT
2306965 TAATTATTATAATA
1 TAATTATTATAATA
*
2306979 TAATTAATTATAATT
1 TAATT-ATTATAATA
2306994 TAA-TATTATAA
1 TAATTATTATAA
2307005 ATGATTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 6 0.25
15 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTATTATAATA
Found at i:2309140 original size:30 final size:31
Alignment explanation
Indices: 2309081--2309141 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
2309071 TGATGATATG
2309081 TAAAATTTATATATTAATAATATTTTAAATA
1 TAAAATTTATATATTAATAATATTTTAAATA
* *
2309112 TAAAATTT-TATTTTAATTAT-TTTATAAATA
1 TAAAATTTATATATTAATAATATTT-TAAATA
2309142 ACTAGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 16 0.59
31 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TAAAATTTATATATTAATAATATTTTAAATA
Found at i:2311748 original size:20 final size:20
Alignment explanation
Indices: 2311707--2311749 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2311697 TTTATCGATA
* *
2311707 AATATTAAAATTTTAATTTT
1 AATAATAAAATTTTAATATT
2311727 AATAATAAATATTTT-ATATT
1 AATAATAAA-ATTTTAATATT
2311747 AAT
1 AAT
2311750 TTATGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATAAAATTTTAATATT
Found at i:2314459 original size:2 final size:2
Alignment explanation
Indices: 2314452--2314484 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2314442 CATGGATAAA
2314452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2314485 GAAATGGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2347663 original size:13 final size:13
Alignment explanation
Indices: 2347645--2347669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2347635 TTAATATAAC
2347645 AAAAAATTCTTTT
1 AAAAAATTCTTTT
2347658 AAAAAATTCTTT
1 AAAAAATTCTTT
2347670 GTTAAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAAATTCTTTT
Found at i:2347751 original size:22 final size:23
Alignment explanation
Indices: 2347725--2347776 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
2347715 TTTAATTTTA
*
2347725 AATTTTAAATTAAT-TAGATATT
1 AATTTTAAATTAATATAGATATC
* *
2347747 AATTTTAAATTTATATATATATC
1 AATTTTAAATTAATATAGATATC
2347770 AATTTTA
1 AATTTTA
2347777 TTAAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTTTAAATTAATATAGATATC
Found at i:2351285 original size:15 final size:16
Alignment explanation
Indices: 2351261--2351295 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2351251 AGATAATAAT
*
2351261 ATTTTATTAATAAATA
1 ATTTTATTAAAAAATA
2351277 ATTTT-TTAAAAAATA
1 ATTTTATTAAAAAATA
2351292 ATTT
1 ATTT
2351296 ATATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTATTAAAAAATA
Found at i:2358266 original size:9 final size:9
Alignment explanation
Indices: 2358252--2358277 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2358242 TTTTGTCCTC
2358252 TTTATTACT
1 TTTATTACT
2358261 TTTATTACT
1 TTTATTACT
2358270 TTTATTAC
1 TTTATTAC
2358278 GATGCTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTATTACT
Found at i:2374399 original size:37 final size:36
Alignment explanation
Indices: 2374350--2374424 Score: 114
Period size: 37 Copynumber: 2.1 Consensus size: 36
2374340 TTTTTTACAT
* * *
2374350 TTTAATTTTAAATTTGATCTAAATTTAATATAAATA
1 TTTAATTTTAAATTTAATCTAAATTGAATAAAAATA
2374386 TTTAATATTTAAATTTAATCTAAATTGAATAAAAATA
1 TTTAAT-TTTAAATTTAATCTAAATTGAATAAAAATA
2374423 TT
1 TT
2374425 CGATTCAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 6 0.17
37 29 0.83
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (36 bp):
TTTAATTTTAAATTTAATCTAAATTGAATAAAAATA
Found at i:2374474 original size:7 final size:8
Alignment explanation
Indices: 2374459--2374484 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2374449 TAATTTCAAA
2374459 TTAATTTT
1 TTAATTTT
2374467 TTAATTTT
1 TTAATTTT
2374475 TTAATTTT
1 TTAATTTT
2374483 TT
1 TT
2374485 TTCTCACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTAATTTT
Found at i:2374920 original size:31 final size:30
Alignment explanation
Indices: 2374863--2374920 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
2374853 TAATTTTTTA
* * *
2374863 TAAAAATTAAAATTTCATAATTTTTAATAT
1 TAAAAAATAAAATTTCACAATATTTAATAT
*
2374893 TAAAAAATAAAATATTTACAATATTTAA
1 TAAAAAATAAAAT-TTCACAATATTTAA
2374921 AAAATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 12 0.52
31 11 0.48
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAAAATAAAATTTCACAATATTTAATAT
Found at i:2374934 original size:25 final size:23
Alignment explanation
Indices: 2374879--2374934 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
2374869 TTAAAATTTC
**
2374879 ATAATTTTTAATATTAAAAAATA
1 ATAATTTACAATATTAAAAAATA
*
2374902 AAATATTTACAATATTTAAAAAATA
1 ATA-ATTTACAATA-TTAAAAAATA
2374927 TATAATTT
1 -ATAATTT
2374935 GGAGATATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.08
24 8 0.31
25 14 0.54
26 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAATTTACAATATTAAAAAATA
Found at i:2382643 original size:16 final size:16
Alignment explanation
Indices: 2382614--2382647 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2382604 TTTGTTAAAA
2382614 TTTTAAATTATATTAT
1 TTTTAAATTATATTAT
* *
2382630 TTTTATATTGTATTAT
1 TTTTAAATTATATTAT
2382646 TT
1 TT
2382648 AAGTTATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTAAATTATATTAT
Found at i:2383338 original size:21 final size:20
Alignment explanation
Indices: 2383314--2383354 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2383304 TGTATTATTT
* *
2383314 TTTTAAATATTTTAAAATTAA
1 TTTTAAAAAATTT-AAATTAA
2383335 TTTTAAAAAATTTAAATTAA
1 TTTTAAAAAATTTAAATTAA
2383355 AAATAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTAAAAAATTTAAATTAA
Found at i:2396022 original size:3 final size:3
Alignment explanation
Indices: 2395980--2396005 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2395970 TTTTTTAATT
2395980 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2396006 TATTTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2398080 original size:17 final size:17
Alignment explanation
Indices: 2398058--2398102 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
2398048 ATCGGTTGTT
2398058 GAAAATCAAAACGAAAA
1 GAAAATCAAAACGAAAA
* *
2398075 GAAAATCAAAAGGAGAA
1 GAAAATCAAAACGAAAA
2398092 GAAAATCAAAA
1 GAAAATCAAAA
2398103 TTCTTCGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.69, C:0.09, G:0.16, T:0.07
Consensus pattern (17 bp):
GAAAATCAAAACGAAAA
Found at i:2401355 original size:8 final size:8
Alignment explanation
Indices: 2401340--2401372 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
2401330 CAGTCAAAGA
2401340 TGGGCACT
1 TGGGCACT
*
2401348 TAGGCACT
1 TGGGCACT
2401356 TGGGCACT
1 TGGGCACT
2401364 TGGGCACT
1 TGGGCACT
2401372 T
1 T
2401373 TGGCTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.15, C:0.24, G:0.33, T:0.27
Consensus pattern (8 bp):
TGGGCACT
Found at i:2401587 original size:286 final size:288
Alignment explanation
Indices: 2401091--2401615 Score: 849
Period size: 286 Copynumber: 1.8 Consensus size: 288
2401081 CTTAGGTTTA
2401091 TTTGGCAAATAGATTTAATTTTTTTAAATTATTATTATTATTATTATTTATTTCGAAATATTACT
1 TTTGGCAAATAGATTTAATTTTTTTAAA-TATTATTATTATTATTATTTATTTCGAAATATTACT
* *
2401156 GATTCTGAATAAATATTTTTGAACAATGAAGAACATGACTGTTTAAATAAAATTTATTTAAACAA
65 GATTCTGAATAAATATTTTTGAACAATAAAAAACATGACTGTTTAAATAAAATTTATTTAAACAA
* *
2401221 TAAAACATGACTATATAAAATGTCATGACGTTTTGAATTGGCTTGATTGATGATTGTTCATTTAG
130 TAAAACATGACTATATAAAATATCATGACGTTTTGAATTGACTTGATTGATGATTGTTCATTTAG
* *
2401286 TATAAATAGATCTTTCTACCTAACCAATTTCACTACTTCTGATTCAGTCAAAGATGGGCACTTAG
195 TATAAATAAATCTTTCTACCTAACCAATCTCACTACTTCTGATTCAGTCAAAGATGGGCACTTAG
2401351 GCACTTGGGCACTTGGGCACTTTGGCTTG
260 GCACTTGGGCACTTGGGCACTTTGGCTTG
* *
2401380 TTTGGTAAATATATTTAA-TTTTTTAAA-ATCT-TTATTATTATTATTTATTTCGAAATATTACT
1 TTTGGCAAATAGATTTAATTTTTTTAAATAT-TATTATTATTATTATTTATTTCGAAATATTACT
* * * *
2401442 GATTCTGAATAAATATTTTTGAACAGTAAAAAATATGACTGTTTAAATAAAGTTTATTTAAATAA
65 GATTCTGAATAAATATTTTTGAACAATAAAAAACATGACTGTTTAAATAAAATTTATTTAAACAA
* * * *
2401507 TAAAATATGACTATATAAAATATCATGACTTTTTGAATTGACTTGATTGATGATTGTTTATTTAT
130 TAAAACATGACTATATAAAATATCATGACGTTTTGAATTGACTTGATTGATGATTGTTCATTTAG
* *
2401572 TATAAATAAATCTTTCTACTTGACCAATCTCACTACTTCTGATT
195 TATAAATAAATCTTTCTACCTAACCAATCTCACTACTTCTGATT
2401616 TAAAGAGTTT
Statistics
Matches: 217, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
286 191 0.88
287 1 0.00
288 9 0.04
289 16 0.07
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (288 bp):
TTTGGCAAATAGATTTAATTTTTTTAAATATTATTATTATTATTATTTATTTCGAAATATTACTG
ATTCTGAATAAATATTTTTGAACAATAAAAAACATGACTGTTTAAATAAAATTTATTTAAACAAT
AAAACATGACTATATAAAATATCATGACGTTTTGAATTGACTTGATTGATGATTGTTCATTTAGT
ATAAATAAATCTTTCTACCTAACCAATCTCACTACTTCTGATTCAGTCAAAGATGGGCACTTAGG
CACTTGGGCACTTGGGCACTTTGGCTTG
Found at i:2417648 original size:3 final size:3
Alignment explanation
Indices: 2417588--2417631 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2417578 TTTTAATCTT
2417588 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2417632 TATTTCGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2423106 original size:312 final size:312
Alignment explanation
Indices: 2422541--2423168 Score: 1112
Period size: 312 Copynumber: 2.0 Consensus size: 312
2422531 TTGGAGTGGG
2422541 CCAAGTCATTTAAGCTTGCTAGGAGTTTTCCTAATGGGTCAGACAATTTTAAAATGTCAAAGATG
1 CCAAGTCATTTAAGCTTGCTAGGAGTTTTCCTAATGGGTCAGACAATTTTAAAATGTCAAAGATG
* *
2422606 GGCACTTGGACACTTGGATTTGTTTGGCAAATAGATTTAATTTTTTTAAATTTATTAGTATTATT
66 GGCACTTGGACACTTGGATTTGTTTGACAAATAGATTTAATTTTTTAAAATTTATTAGTATTATT
*
2422671 ATTATTATTATTTATTTCAAAATATTATTGATTTTGAATAAATATTTTTGAATAGTGAAAAACAT
131 ATTATTATTATTTATTTCAAAATATTATTGATTTTGAATAAATATTTTTGAATAGTAAAAAACAT
* *
2422736 AATTGTTTAAATAAAGTTTATTTAAACAATTAAATATGACTATATAAAATGTCATGACTTTTTGA
196 AACTGTTTAAATAAAGTTTATTTAAACAATAAAATATGACTATATAAAATGTCATGACTTTTTGA
* * *
2422801 ATTGGCTTGATTGATGATTGTTCATTTATTATAAATAAATCTTTTTACCTGA
261 ATTGACTTGATTGATGACTGTTCATTTATTATAAATAAATATTTTTACCTGA
2422853 CCAAGTCATTTAAGCTTGCTAGGAGTTTTCCTAATGGGTCAGACAATTTTAAAATGTCAAAGATG
1 CCAAGTCATTTAAGCTTGCTAGGAGTTTTCCTAATGGGTCAGACAATTTTAAAATGTCAAAGATG
* * * *
2422918 GGCACTTGGATACTTGGGTTTGTTTGACAAATAGATTTAATTTTTTAAAATTTGTTATTATTATT
66 GGCACTTGGACACTTGGATTTGTTTGACAAATAGATTTAATTTTTTAAAATTTATTAGTATTATT
*
2422983 ATTATTATTATTTATTTCAGAATATTATTGATTTTGAATAAATATTTTTGAATAGTAAAAAACAT
131 ATTATTATTATTTATTTCAAAATATTATTGATTTTGAATAAATATTTTTGAATAGTAAAAAACAT
* *
2423048 AACTGTTTAAATAAAGTTTATTTAAATAATAAAATATGATTATATAAAATGTCATGACTTTTTGA
196 AACTGTTTAAATAAAGTTTATTTAAACAATAAAATATGACTATATAAAATGTCATGACTTTTTGA
*
2423113 ATTGACTTGATTGATGACTGTTCATTTATTATATATAAATATTTTTACCTGA
261 ATTGACTTGATTGATGACTGTTCATTTATTATAAATAAATATTTTTACCTGA
2423165 CCAA
1 CCAA
2423169 TTTTACTATT
Statistics
Matches: 300, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
312 300 1.00
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (312 bp):
CCAAGTCATTTAAGCTTGCTAGGAGTTTTCCTAATGGGTCAGACAATTTTAAAATGTCAAAGATG
GGCACTTGGACACTTGGATTTGTTTGACAAATAGATTTAATTTTTTAAAATTTATTAGTATTATT
ATTATTATTATTTATTTCAAAATATTATTGATTTTGAATAAATATTTTTGAATAGTAAAAAACAT
AACTGTTTAAATAAAGTTTATTTAAACAATAAAATATGACTATATAAAATGTCATGACTTTTTGA
ATTGACTTGATTGATGACTGTTCATTTATTATAAATAAATATTTTTACCTGA
Found at i:2427286 original size:2 final size:2
Alignment explanation
Indices: 2427279--2427311 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2427269 CTCCATCAAA
2427279 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2427312 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2433311 original size:15 final size:15
Alignment explanation
Indices: 2433274--2433317 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
2433264 TATTACTTTG
2433274 TTTGTTTATTTAGAA
1 TTTGTTTATTTAGAA
*
2433289 --T-TTT-TTTAAAA
1 TTTGTTTATTTAGAA
2433300 TTTGTTTATTTAGAA
1 TTTGTTTATTTAGAA
2433315 TTT
1 TTT
2433318 TAGATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 6 0.26
12 3 0.13
13 2 0.09
14 3 0.13
15 9 0.39
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTGTTTATTTAGAA
Found at i:2433561 original size:20 final size:18
Alignment explanation
Indices: 2433532--2433582 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
2433522 AAAAATTTTG
* *
2433532 AAAAATAAAAAGAACCCA
1 AAAAAAAAAAAAAACCCA
*
2433550 AAAAAAGAAAAACAAATCCA
1 AAAAAA-AAAAA-AAACCCA
2433570 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
2433583 TGAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 7 0.25
19 10 0.36
20 11 0.39
ACGTcount: A:0.80, C:0.12, G:0.04, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAAAAAACCCA
Found at i:2434449 original size:38 final size:38
Alignment explanation
Indices: 2434387--2434459 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
2434377 ACTTACGCCA
* *
2434387 TTGAGAACATCAGCCCCCACCTAATGAGCTGTCATAAT
1 TTGAGAACATCAGCCACCACCTAATGAGCTATCATAAT
* * * *
2434425 TTGAGAACGTCAGCCATCAGCTAATGTGCTATCAT
1 TTGAGAACATCAGCCACCACCTAATGAGCTATCAT
2434460 TATTACATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (38 bp):
TTGAGAACATCAGCCACCACCTAATGAGCTATCATAAT
Found at i:2449686 original size:23 final size:21
Alignment explanation
Indices: 2449636--2449694 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
2449626 ATTAATACTT
*
2449636 AAAATAATATTTAATATTTAT
1 AAAATAATATTTAATATTTAA
**
2449657 ATTATAATATTATATATATTTAA
1 AAAATAATATT-TA-ATATTTAA
*
2449680 AAAATAATATATAAT
1 AAAATAATATTTAAT
2449695 TCGAGTCAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 11 0.37
22 4 0.13
23 15 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATAATATTTAATATTTAA
Found at i:2450084 original size:19 final size:20
Alignment explanation
Indices: 2450029--2450107 Score: 69
Period size: 19 Copynumber: 4.1 Consensus size: 20
2450019 ATCAAATTCA
* *
2450029 AATATTTTAATATTTTATTT
1 AATATTTTATTATTTTAATT
*
2450049 GAATAATTTA--A-TTTAATT
1 -AATATTTTATTATTTTAATT
*
2450067 AATTTTTTA-TATTTTAA-T
1 AATATTTTATTATTTTAATT
2450085 ATATATTTTATTATTTTAATT
1 A-ATATTTTATTATTTTAATT
2450106 AA
1 AA
2450108 AAATTATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.15
18 9 0.19
19 13 0.27
20 9 0.19
21 10 0.21
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (20 bp):
AATATTTTATTATTTTAATT
Found at i:2451773 original size:2 final size:2
Alignment explanation
Indices: 2451766--2451792 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2451756 ATAATGAAGT
2451766 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2451793 CAGTCAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2459661 original size:14 final size:14
Alignment explanation
Indices: 2459642--2459669 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2459632 ATTTCTGTCT
2459642 CAATTTACAAATTA
1 CAATTTACAAATTA
2459656 CAATTTACAAATTA
1 CAATTTACAAATTA
2459670 TTGATAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
CAATTTACAAATTA
Found at i:2467008 original size:3 final size:3
Alignment explanation
Indices: 2467002--2467031 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2466992 TACCACTATC
2467002 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2467032 GATCGACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2467197 original size:16 final size:16
Alignment explanation
Indices: 2467178--2467222 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2467168 ATTCAATTAG
2467178 TTAAAATTTAAATTTT
1 TTAAAATTTAAATTTT
**
2467194 TTAAAAAATAAA-TTT
1 TTAAAATTTAAATTTT
2467209 TTAAAATTTGAAAT
1 TTAAAATTT-AAAT
2467223 CTGTTGATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAAAATTTAAATTTT
Found at i:2469464 original size:18 final size:18
Alignment explanation
Indices: 2469443--2469493 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
2469433 TATATTTTAA
2469443 TTTATATTTAAATAAAT-T
1 TTTAT-TTTAAATAAATCT
* *
2469461 TTTATTATAAATTAATCT
1 TTTATTTTAAATAAATCT
*
2469479 TTTATTTAAAATAAA
1 TTTATTTTAAATAAA
2469494 ATTATACTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATTTTAAATAAATCT
Found at i:2469464 original size:30 final size:30
Alignment explanation
Indices: 2469302--2469465 Score: 115
Period size: 30 Copynumber: 5.5 Consensus size: 30
2469292 GATAAAATAA
* *
2469302 TAAA-AAATTTATAAATTTTATTATTT-TATT
1 TAAATAAATTTTTATATTTTA--ATTTATATT
* * *
2469332 TAAATAAATTCTTATATTTGT-A-TTACACT
1 TAAATAAATTTTTATATTT-TAATTTATATT
** * * * *
2469361 CGAATAAATTATTAGT-TTTTACTTTACATG
1 TAAATAAATTTTTA-TATTTTAATTTATATT
* *
2469391 TAAATAAATTTTT-TAAATTTAATTTATATC
1 TAAATAAATTTTTAT-ATTTTAATTTATATT
*
2469421 AAAATAAATTTTTATATTTTAATTTATATT
1 TAAATAAATTTTTATATTTTAATTTATATT
2469451 TAAATAAATTTTTAT
1 TAAATAAATTTTTAT
2469466 TATAAATTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
28 4 0.04
29 17 0.17
30 69 0.67
31 12 0.12
32 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (30 bp):
TAAATAAATTTTTATATTTTAATTTATATT
Found at i:2469488 original size:17 final size:16
Alignment explanation
Indices: 2469441--2469507 Score: 62
Period size: 17 Copynumber: 4.0 Consensus size: 16
2469431 TTTATATTTT
*
2469441 AATTTATATTTAAATA
1 AATTTTTATTTAAATA
*
2469457 AATTTTTATTATAAATT
1 AATTTTTATT-TAAATA
2469474 AATCTTTTATTTAAAATA
1 AAT-TTTTATTT-AAATA
* * *
2469492 AAATTATACTTAAATA
1 AATTTTTATTTAAATA
2469508 CAAAATAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
16 14 0.33
17 15 0.36
18 13 0.31
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTTTATTTAAATA
Found at i:2469518 original size:29 final size:26
Alignment explanation
Indices: 2469486--2469547 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 26
2469476 TCTTTTATTT
2469486 AAAATAAAA-TTATACTTAAATACAAAATA
1 AAAATAAAACTTAT--TTAAAT--AAAATA
2469515 AAAATAAAAACTTATTTAAATAAAATA
1 AAAAT-AAAACTTATTTAAATAAAATA
2469542 AAAATA
1 AAAATA
2469548 TAAAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 11 0.35
29 11 0.35
30 4 0.13
31 4 0.13
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAATAAAACTTATTTAAATAAAATA
Found at i:2469566 original size:27 final size:27
Alignment explanation
Indices: 2469486--2469565 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 27
2469476 TCTTTTATTT
** *
2469486 AAAATAAAATTATACTTAAATACAAAATA
1 AAAATAAAAACATATTTAAAT--AAAATA
*
2469515 AAAATAAAAACTTATTTAAATAAAATA
1 AAAATAAAAACATATTTAAATAAAATA
*
2469542 AAAATATAAAA-AT-TTTAATTAAAA
1 AAAATA-AAAACATATTTAAATAAAA
2469566 AAATATTTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 10 0.23
27 13 0.30
28 4 0.09
29 17 0.39
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAATAAAAACATATTTAAATAAAATA
Found at i:2474516 original size:33 final size:33
Alignment explanation
Indices: 2474474--2474536 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
2474464 CAGAGTATGG
* *
2474474 AACTTCATTAGTGTGTGTATATATATATATATA
1 AACTTCATTAGCGTGTATATATATATATATATA
2474507 AACTTCATTAGCGTGTATATATATATATAT
1 AACTTCATTAGCGTGTATATATATATATAT
2474537 TTATATGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (33 bp):
AACTTCATTAGCGTGTATATATATATATATATA
Found at i:2475359 original size:487 final size:487
Alignment explanation
Indices: 2474063--2475481 Score: 2431
Period size: 487 Copynumber: 2.9 Consensus size: 487
2474053 AGATCAAGTA
*
2474063 TATAATATGTATAAAGTACTAACGGACAAATGTTTACATAAAAGATTCGATCTACAATATAAATT
1 TATAATATGTATAAAGTACTAACGGACAAATGTTTACATAAAAGATTTGATCTACAATATAAATT
2474128 TATAACGACATTTTAATCGATCGCTAAAATAGTTATTTAAATTTAT-A----A----GTTCAACC
66 TATAACGACATTTTAATCGATCGCTAAAATAGTTATTTAAATTTATAATGTTATTTTGTTCAACC
*
2474184 GTTAAAACAATTATTTTTATATATCAATCATGAAAATTAATACTATGATAGATTGCTAAAAGATA
131 GTTAAAACAGTTATTTTTATATATCAATCATGAAAATTAATACTATGATAGATTGCTAAAAGATA
*
2474249 CTAACTTTTATTTATCATTAAAAAGGACATTTTGATCGATCGTTAAAATTAAAAATGGTATTTTG
196 CTAACTTTTATTTATCATTAAAAAGGACATTTTGATCGATCGTTAAAATTAAAAATGATATTTTG
2474314 ATCGATTACTTTAAAACTAGAGAGCAATTAGATTGATTTCAAATATTCAAACATCTGTAAAAAAG
261 ATCGATTACTTTAAAACTAGAGAGCAATTAGATTGATTTCAAATATTCAAACATCTGTAAAAAAG
2474379 AGAAAAAGGAAAAAAATCCAAACTTAAATCTTTTTTTTTTAAAAAAAAATCAAATCCTATTACTT
326 AGAAAAAGGAAAAAAATCCAAACTTAAATCTTTTTTTTTTAAAAAAAAATCAAATCCTATTACTT
*
2474444 ACATTTGATCTATTCATACGCAGAGTATGGAACTTCATTAGTGTGTGTATATATATATATATAAA
391 ACATTTGATCTATTCATACCCAGAGTATGGAACTTCATTAGTGTGTG-ATATATATATATATAAA
2474509 CTTCATTAGCGTGTATATATATATATATTTATATGCTTAATT
455 CTTCATTA-CGTG-------ATATATA-TTATATGCTTAATT
*
2474551 TATAATATGTATAAAGTACTAACGGACAAATGTTTACACAAAAGATTTGATCTACAATATAAATT
1 TATAATATGTATAAAGTACTAACGGACAAATGTTTACATAAAAGATTTGATCTACAATATAAATT
*
2474616 TATAACGACATTTTAATCGATCACTAAAATAGTTATTTAAATTTATAATGTTATTTTGTTCAACC
66 TATAACGACATTTTAATCGATCGCTAAAATAGTTATTTAAATTTATAATGTTATTTTGTTCAACC
2474681 GTTAAAACAGTTATTTTTATATATCAATCATGAAAATTAATACTATGATAGATTGCTAAAAGATA
131 GTTAAAACAGTTATTTTTATATATCAATCATGAAAATTAATACTATGATAGATTGCTAAAAGATA
* *
2474746 CTAACTTTTATTTATCATTAAAAAAGACATTTTGATCGATCGTTAAAATTATAAATGATATTTTG
196 CTAACTTTTATTTATCATTAAAAAGGACATTTTGATCGATCGTTAAAATTAAAAATGATATTTTG
2474811 ATCGATTACTTTAAAACTAGAGAGCAATTAGATTGATTTCAAATATTCAAACATCTGTAAAAAAG
261 ATCGATTACTTTAAAACTAGAGAGCAATTAGATTGATTTCAAATATTCAAACATCTGTAAAAAAG
****
2474876 AGAAAAAGGAAAAAAAATCCAAACTTAAATCTTTTTTAAAAAAAAATAATAAATCAAATCCTATT
326 AGAAAAAGG-AAAAAAATCCAAACTTAAATCTTTTTT-TTTTAAAA-AA-AAATCAAATCCTATT
*
2474941 ACTTACATTTGATCTATTCATACCCAGAGTATGGAACTTCATTAGTGTGTG-TGTATATATATAT
387 ACTTACATTTGATCTATTCATACCCAGAGTATGGAACTTCATTAGTGTGTGATATATATATATAT
2475005 AAACTTCATTA-GTG-TATATA-TATATGCTTAATT
452 AAACTTCATTACGTGATATATATTATATGCTTAATT
*
2475038 TATAATATGTATAAAGTATTAACGGACAAATGTTTACATAAAAGATTTGATCTACAATATAAATT
1 TATAATATGTATAAAGTACTAACGGACAAATGTTTACATAAAAGATTTGATCTACAATATAAATT
2475103 TATAACGACATTTTAATCGATCGCTAAAATAGTTATTTAAATTTATAATGTTATTTTGTTCAACC
66 TATAACGACATTTTAATCGATCGCTAAAATAGTTATTTAAATTTATAATGTTATTTTGTTCAACC
2475168 GTTAAAACAGTTATTTTTATATATCAATCATGAAAATTAATACTATGATAGATTGCTAAAAGATA
131 GTTAAAACAGTTATTTTTATATATCAATCATGAAAATTAATACTATGATAGATTGCTAAAAGATA
2475233 CTAAC-TTTATTTATCATTAAAAAGGACATTTTGATCGATCGTTAAAATTAAAAATGATATTTTG
196 CTAACTTTTATTTATCATTAAAAAGGACATTTTGATCGATCGTTAAAATTAAAAATGATATTTTG
2475297 ATCGATTACTTTAAAACTAGAGAGCAATTAGATTGATTTCAAATATTCAAACATCTTGTAAAAAA
261 ATCGATTACTTTAAAACTAGAGAGCAATTAGATTGATTTCAAATATTCAAACATC-TGTAAAAAA
2475362 GAGAAAAAGG-AAAAAATCCAAACTT-AATCTTTTTTTTTTTTAAAAAAAAATCAAATCCTATTA
325 GAGAAAAAGGAAAAAAATCCAAACTTAAATC--TTTTTTTTTTAAAAAAAAATCAAATCCTATTA
*
2475425 CTTACATTTGATCTATTCATACCCAGAGTATGGAACTTCATTAGTGTAT-ATATATAT
388 CTTACATTTGATCTATTCATACCCAGAGTATGGAACTTCATTAGTGTGTGATATATAT
2475482 GCTTAATTTG
Statistics
Matches: 890, Mismatches: 24, Indels: 39
0.93 0.03 0.04
Matches are distributed among these distances:
483 70 0.08
484 6 0.01
485 19 0.02
486 118 0.13
487 229 0.26
488 108 0.12
489 7 0.01
493 1 0.00
497 211 0.24
498 27 0.03
499 27 0.03
500 2 0.00
501 65 0.07
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (487 bp):
TATAATATGTATAAAGTACTAACGGACAAATGTTTACATAAAAGATTTGATCTACAATATAAATT
TATAACGACATTTTAATCGATCGCTAAAATAGTTATTTAAATTTATAATGTTATTTTGTTCAACC
GTTAAAACAGTTATTTTTATATATCAATCATGAAAATTAATACTATGATAGATTGCTAAAAGATA
CTAACTTTTATTTATCATTAAAAAGGACATTTTGATCGATCGTTAAAATTAAAAATGATATTTTG
ATCGATTACTTTAAAACTAGAGAGCAATTAGATTGATTTCAAATATTCAAACATCTGTAAAAAAG
AGAAAAAGGAAAAAAATCCAAACTTAAATCTTTTTTTTTTAAAAAAAAATCAAATCCTATTACTT
ACATTTGATCTATTCATACCCAGAGTATGGAACTTCATTAGTGTGTGATATATATATATATAAAC
TTCATTACGTGATATATATTATATGCTTAATT
Found at i:2475576 original size:2 final size:2
Alignment explanation
Indices: 2475569--2475605 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2475559 TTTACTGACT
* *
2475569 TA TA TA TA TA TA TT TA TA TA CA 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
2475606 GCTTAATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2475682 original size:119 final size:120
Alignment explanation
Indices: 2475471--2475690 Score: 361
Period size: 119 Copynumber: 1.8 Consensus size: 120
2475461 TTCATTAGTG
* *
2475471 TATATATATATGCTTAATTTGAAAAAAAAAAAAAAAGATAAAAGATTTCCAAGAACTAGAGCTGT
1 TATATATATATGCTTAATTTG----AAAAAAAAAAAGACAAAAGATTTCCAAGAACTAGAGCTAT
*
2475536 TGAGGCAGTACAGTTGGCATAGTTTTACTGACTTATATATATATATTTATATACATATA
62 TGAGGCAGTACACTTGGCATAGTTTTACTGACTTATATATATATATTTATATACATATA
*
2475595 TATATATATATGCTTAATTTG-AAGAAAAAAAGACAAAAGATTTCCAAGAACTAGAGCTATTGAG
1 TATATATATATGCTTAATTTGAAAAAAAAAAAGACAAAAGATTTCCAAGAACTAGAGCTATTGAG
2475659 GCAGTACACTTGGCATAGTTTTACTGACTTAT
66 GCAGTACACTTGGCATAGTTTTACTGACTTAT
2475691 TGGCTGCAAT
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
119 71 0.77
124 21 0.23
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (120 bp):
TATATATATATGCTTAATTTGAAAAAAAAAAAGACAAAAGATTTCCAAGAACTAGAGCTATTGAG
GCAGTACACTTGGCATAGTTTTACTGACTTATATATATATATTTATATACATATA
Found at i:2482136 original size:24 final size:24
Alignment explanation
Indices: 2482108--2482154 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2482098 TATAAGATAA
2482108 TTTAGAATTTAAATCAATTGAATT
1 TTTAGAATTTAAATCAATTGAATT
2482132 TTTAGAATTTAAATCAATTGAAT
1 TTTAGAATTTAAATCAATTGAAT
2482155 CATGTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (24 bp):
TTTAGAATTTAAATCAATTGAATT
Found at i:2484091 original size:118 final size:116
Alignment explanation
Indices: 2483963--2484426 Score: 555
Period size: 117 Copynumber: 4.0 Consensus size: 116
2483953 CTTTAATAAA
*
2483963 AAAAATAAA-TTTCAAAAAAAAGGTTTTTGACGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAAAATAAATTTTCAAAAAAAA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
2484027 CAAGGTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAATATTAATTTTCCTT
64 CAAAGTTTC-AAAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTT
*
2484081 AAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTTGAAAAT
1 AAAAATAAATTTTCAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
* * * * * * *
2484145 CAAAATTTTC-GAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
64 C-AAAGTTTCAAAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTT
* ** * * *
2484198 AGAAATAAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCTTTGGAAATC
1 AAAAATAAATTTTCAAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATC
2484263 AAAGTTTCAAAAAAAATATTTTTGAGGAAAAA-TTAAAAATATCAATTTTCCTT
65 AAAGTTTC-AAAAAAATATTTTTGA-GAAAAAGTTAAAAATATCAATTTTCCTT
* * * * *
2484316 AAAAATAAATTTTCAAAAAATATTTTTG-GAAAAAAGTTAAAAGTATCAATTTTACTTAAAAAT-
1 AAAAATAAATTTTCAAAAAAAATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATC
* *
2484379 AAA-TTTCCAAAAAATATTTTTGAAAAAAAAGTTAAAAATATCAATTTT
65 AAAGTTTCAAAAAAATATTTTTG-AGAAAAAGTTAAAAATATCAATTTT
2484427 TCCTGCACAA
Statistics
Matches: 299, Mismatches: 35, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
114 19 0.06
115 22 0.07
116 11 0.04
117 128 0.43
118 96 0.32
119 22 0.07
120 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.36
Consensus pattern (116 bp):
AAAAATAAATTTTCAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCA
AAGTTTCAAAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTT
Found at i:2484123 original size:58 final size:58
Alignment explanation
Indices: 2483963--2484426 Score: 492
Period size: 58 Copynumber: 7.9 Consensus size: 58
2483953 CTTTAATAAA
* *
2483963 AAAAATAAA-TTTCAAAAAAA-AGGTTTTTGACGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAATA--TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTT
* ** * *
2484021 AGAAATCAAGGTTTCAAAAAAAATATTTTTGAGAAAAAGTTGAAAATATTAATTTTCCTT
1 AAAAAT-AAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTT
* *
2484081 AAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTT
1 AAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTT
* * * * *
2484139 GAAAATCAAAATTTTC-GAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAT--AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTT
* *** * * *
2484198 AGAAATAAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCTTT
1 AAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTT
** * * *
2484256 GGAAATCAAAGTTTCAAAAAAAATATTTTTGAGGAAAAATTAAAAATATCAATTTTCCTT
1 AAAAAT-AAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTT
* *
2484316 AAAAATAAATTTTC-AAAAAATATTTTTG-GAAAAAAGTT-AAAAGTATCAATTTTACTT
1 AAAAATAAATTTTCAAAAAAATATTTTTGAG-GAAAAGTTGAAAA-TATCAATTTTCCTT
* ** *
2484373 AAAAATAAA-TTTCCAAAAAATATTTTTGAAAAAAAAGTTAAAAATATCAATTTT
1 AAAAATAAATTTTCAAAAAAATATTTTTG-AGGAAAAGTTGAAAATATCAATTTT
2484427 TCCTGCACAA
Statistics
Matches: 346, Mismatches: 45, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
56 9 0.03
57 64 0.18
58 108 0.31
59 69 0.20
60 88 0.25
61 7 0.02
62 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTT
Found at i:2484328 original size:17 final size:18
Alignment explanation
Indices: 2484295--2484329 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2484285 TGAGGAAAAA
2484295 TTAAAAATATCAATTTTCC
1 TTAAAAATA-CAATTTTCC
2484314 TTAAAAATA-AATTTTC
1 TTAAAAATACAATTTTC
2484330 AAAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAAATACAATTTTCC
Found at i:2493835 original size:21 final size:21
Alignment explanation
Indices: 2493811--2493853 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2493801 TCTTAATTCA
*
2493811 TTTTCAATAATTTTATTAATT
1 TTTTCAATAAATTTATTAATT
* * *
2493832 TTTTTATTAAATTTATTTATT
1 TTTTCAATAAATTTATTAATT
2493853 T
1 T
2493854 ATTTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCAATAAATTTATTAATT
Found at i:2493854 original size:17 final size:18
Alignment explanation
Indices: 2493829--2493864 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2493819 AATTTTATTA
*
2493829 ATTTTTTTA-TTAAATTT
1 ATTTATTTATTTAAATTT
2493846 ATTTATTTATTTAAATTT
1 ATTTATTTATTTAAATTT
2493864 A
1 A
2493865 AAAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATTTATTTAAATTT
Found at i:2494058 original size:22 final size:25
Alignment explanation
Indices: 2494011--2494059 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
2494001 ATAATTATTA
2494011 TTTATTCTCAATATCTTATTAAAAT
1 TTTATTCTCAATATCTTATTAAAAT
*
2494036 TTTATT-TC-ATAT-TTATTATAAT
1 TTTATTCTCAATATCTTATTAAAAT
2494058 TT
1 TT
2494060 AAAATTAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 4 0.17
24 2 0.09
25 6 0.26
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTATTCTCAATATCTTATTAAAAT
Found at i:2495110 original size:4 final size:4
Alignment explanation
Indices: 2495101--2495199 Score: 50
Period size: 4 Copynumber: 25.0 Consensus size: 4
2495091 GTAAAAAGTT
* *
2495101 TAAA TAAA TACAA TTAA -AGA TAAA T-AA TAAA TAAGA TAAAA TAAA T-AA
1 TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA TAA-A T-AAA TAAA TAAA
* * *
2495149 TAAAA TAAA -AAA CAAA -AGA TAAA TAAA -AAA TATAT TAAA -AAA TAAAA
1 T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA T-AAA
2495196 TAAA
1 TAAA
2495200 AACATAATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
3 18 0.24
4 37 0.50
5 17 0.23
6 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:2495144 original size:17 final size:17
Alignment explanation
Indices: 2495117--2495158 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2495107 AATACAATTA
2495117 AAGAT-AAAT-AATAAAT
1 AAGATAAAATAAAT-AAT
2495133 AAGATAAAATAAATAAT
1 AAGATAAAATAAATAAT
*
2495150 AAAATAAAA
1 AAGATAAAA
2495159 AACAAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 15 0.65
18 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAGATAAAATAAATAAT
Found at i:2495175 original size:30 final size:31
Alignment explanation
Indices: 2495133--2495195 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
2495123 AATAATAAAT
*
2495133 AAGATAAAATAAATAATAAAATAAAAAACAA
1 AAGATAAAATAAAAAATAAAATAAAAAACAA
* * *
2495164 AAGAT-AAATAAAAAATATATTAAAAAATAA
1 AAGATAAAATAAAAAATAAAATAAAAAACAA
2495194 AA
1 AA
2495196 TAAAAACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (31 bp):
AAGATAAAATAAAAAATAAAATAAAAAACAA
Found at i:2495199 original size:12 final size:12
Alignment explanation
Indices: 2495138--2495206 Score: 61
Period size: 12 Copynumber: 5.6 Consensus size: 12
2495128 TAAATAAGAT
2495138 AAAAT-AAATAA
1 AAAATAAAATAA
2495149 TAAAATAAAA-AA
1 -AAAATAAAATAA
*
2495161 CAAAAGATAAATAA
1 -AAAATA-AAATAA
* *
2495175 AAAATATATTAA
1 AAAATAAAATAA
2495187 AAAATAAAATAA
1 AAAATAAAATAA
2495199 AAACATAA
1 AAA-ATAA
2495207 TTTTGATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
12 29 0.63
13 15 0.33
14 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:2497779 original size:49 final size:49
Alignment explanation
Indices: 2497725--2497826 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 49
2497715 AAGGCCTTAG
*
2497725 TTTAGTGACAAAAAAGAAATTCTAAAATATTAAACTTTTATATTCAAGT
1 TTTAGTAACAAAAAAGAAATTCTAAAATATTAAACTTTTATATTCAAGT
* * *
2497774 TTTAGTAACAAAAAAGAAATTCTAAAATCTTAAAGTTTTATGTTCAAGT
1 TTTAGTAACAAAAAAGAAATTCTAAAATATTAAACTTTTATATTCAAGT
2497823 TTTA
1 TTTA
2497827 CAGTATATGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (49 bp):
TTTAGTAACAAAAAAGAAATTCTAAAATATTAAACTTTTATATTCAAGT
Found at i:2498688 original size:18 final size:18
Alignment explanation
Indices: 2498661--2498696 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2498651 TGAACAATTT
*
2498661 TTATTCGTAATTTTTGTA
1 TTATTCGTAATTTATGTA
*
2498679 TTATTTGTAATTTATGTA
1 TTATTCGTAATTTATGTA
2498697 CGTTTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATTCGTAATTTATGTA
Found at i:2515577 original size:86 final size:87
Alignment explanation
Indices: 2515440--2515600 Score: 229
Period size: 86 Copynumber: 1.9 Consensus size: 87
2515430 ACTAGAAAGG
* * * *
2515440 AAAATGAGTCTTTTGTTTAAATTTTAAATACGTGGATACAAATGTTAGCTTCTTGTATATTAGGT
1 AAAATAAGCCTTTTGTTGAAATTTTAAATACGTGGATACAAATGTTAGCTTCTTGTATATTAAGT
2515505 CTTTC-TTTTGTGTTAGAACGA
66 CTTTCATTTTGTGTTAGAACGA
* *
2515526 AAAATAAGCCTTTTGTTGAAATTTTACATATGTCGG-TATC-AATGTTAGCTTCTTGTATATTAA
1 AAAATAAGCCTTTTGTTGAAATTTTAAATACGT-GGATA-CAAATGTTAGCTTCTTGTATATTAA
2515589 GTCTTTCATTTT
64 GTCTTTCATTTT
2515601 TATTATATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
86 59 0.89
87 7 0.11
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (87 bp):
AAAATAAGCCTTTTGTTGAAATTTTAAATACGTGGATACAAATGTTAGCTTCTTGTATATTAAGT
CTTTCATTTTGTGTTAGAACGA
Found at i:2515924 original size:2 final size:2
Alignment explanation
Indices: 2515917--2515945 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2515907 ACTTCTGGCA
2515917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2515946 AATTTGGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2516300 original size:11 final size:12
Alignment explanation
Indices: 2516265--2516307 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
2516255 AGTTTATGAA
*
2516265 TTTAAAAAAAAT
1 TTTAATAAAAAT
2516277 GATTTAATAAAAAT
1 --TTTAATAAAAAT
*
2516291 TTTAATAAAAAA
1 TTTAATAAAAAT
2516303 TTTAA
1 TTTAA
2516308 ATTGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
14 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:2516880 original size:15 final size:16
Alignment explanation
Indices: 2516853--2516887 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
2516843 CTACTAATTT
2516853 TAATTTTTGTTAATAA
1 TAATTTTTGTTAATAA
2516869 TAATTTTT-TTAATAA
1 TAATTTTTGTTAATAA
2516884 TAAT
1 TAAT
2516888 AATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TAATTTTTGTTAATAA
Found at i:2516889 original size:21 final size:20
Alignment explanation
Indices: 2516863--2516901 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
2516853 TAATTTTTGT
2516863 TAATAATAAT-TTT-TTTAA
1 TAATAATAATATTTATTTAA
2516881 TAATAATAATATTTATTTAA
1 TAATAATAATATTTATTTAA
2516901 T
1 T
2516902 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATAATAATATTTATTTAA
Found at i:2516929 original size:17 final size:17
Alignment explanation
Indices: 2516897--2516930 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2516887 TAATATTTAT
**
2516897 TTAATTAAAATTAAAAA
1 TTAATTAAAACAAAAAA
2516914 TTAATTAAAACAAAAAA
1 TTAATTAAAACAAAAAA
2516931 AAGAGAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAATTAAAACAAAAAA
Found at i:2517932 original size:17 final size:16
Alignment explanation
Indices: 2517906--2517962 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
2517896 AAAAAATTAT
*
2517906 TATTTTTTATTTTTTA
1 TATTTATTATTTTTTA
2517922 TATATTATTATTTTTT-
1 TAT-TTATTATTTTTTA
*
2517938 TATTTTGAGTATTTTTTA
1 TA-TTT-ATTATTTTTTA
2517956 TATTTAT
1 TATTTAT
2517963 GCATGATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 8 0.24
17 24 0.71
18 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TATTTATTATTTTTTA
Found at i:2518333 original size:16 final size:16
Alignment explanation
Indices: 2518314--2518405 Score: 66
Period size: 16 Copynumber: 5.9 Consensus size: 16
2518304 CTAGGATTCT
*
2518314 AAAACTCCTAAAATTC
1 AAAACTCCTAAAATCC
*
2518330 AAAA-TCTCTTAAATCC
1 AAAACTC-CTAAAATCC
* *
2518346 AAATCCCCTAAAATCC
1 AAAACTCCTAAAATCC
* *
2518362 AGAA-TCCTTTAAATCC
1 AAAACTCC-TAAAATCC
*
2518378 TAAACT-CTAAAATCC
1 AAAACTCCTAAAATCC
*
2518393 AAAA-TCTTAAAAT
1 AAAACTCCTAAAAT
2518406 TTAAATTTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
14 1 0.02
15 20 0.35
16 34 0.60
17 2 0.04
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (16 bp):
AAAACTCCTAAAATCC
Found at i:2518356 original size:32 final size:32
Alignment explanation
Indices: 2518315--2518399 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
2518305 TAGGATTCTA
*
2518315 AAACTCCTAAAATTCAAAATCTC-TTAAATCC-
1 AAAC-CCTAAAATCCAAAATCTCTTTAAATCCT
*
2518346 AAATCCCCTAAAATCCAGAATC-CTTTAAATCCT
1 AAA--CCCTAAAATCCAAAATCTCTTTAAATCCT
*
2518379 AAACTCTAAAATCCAAAATCT
1 AAACCCTAAAATCCAAAATCT
2518400 TAAAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
31 19 0.42
32 22 0.49
33 4 0.09
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (32 bp):
AAACCCTAAAATCCAAAATCTCTTTAAATCCT
Found at i:2519965 original size:3 final size:3
Alignment explanation
Indices: 2519957--2519982 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2519947 GGTATACTAT
2519957 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2519983 TATATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2529012 original size:23 final size:24
Alignment explanation
Indices: 2528979--2529048 Score: 99
Period size: 23 Copynumber: 3.0 Consensus size: 24
2528969 TCCCAGTCGA
2528979 TTCTGTAAGACTTCTGAGCATAAT
1 TTCTGTAAGACTTCTGAGCATAAT
*
2529003 TT-TGTAAGACTT-TCGAGCATGAT
1 TTCTGTAAGACTTCT-GAGCATAAT
*
2529026 TTCTGTAAGACTTCTGGGCATAA
1 TTCTGTAAGACTTCTGAGCATAA
2529049 ATTCGATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.03
23 20 0.50
24 18 0.45
25 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (24 bp):
TTCTGTAAGACTTCTGAGCATAAT
Found at i:2529136 original size:135 final size:131
Alignment explanation
Indices: 2528896--2529345 Score: 578
Period size: 133 Copynumber: 3.4 Consensus size: 131
2528886 TGAGATTCTG
* *
2528896 TAAGACTTCCGGGTATAATTTTAATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTTG
1 TAAGACTTCCGGGCATAATTTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTTG
* * * *
2528961 TGGTGTTATCCCAGTCGATTCTGTAAGACTTCTGAGCATAATTTTGTAAGACTTTCGAGCATGAT
66 TGATGTTATCCCAGTCGATTCTGTAAGACCT-TGA-CATAATTCTGTAAGACCTTCGAGCATGAT
2529026 TTC
129 TTC
* * * * * * *
2529029 TGTAAGACTTCTGGGCATAAATTCGATTCATGGTGTTATCCCGATCAATTTTTTATCTTTTGACT
1 --TAAGACTTCCGGGCATAATTTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACT
* *
2529094 TGCGATGTTATCCCAGTCGATTCTGTAAGACCTATGGACATAATTCTGTAAGACCTTCGGGCATG
64 TGTGATGTTATCCCAGTCGATTCTGTAAGACCT-T-GACATAATTCTGTAAGACCTTCGAGCATG
2529159 ATTTC
127 ATTTC
* **
2529164 TAAGACCTT-CGGGTATAATTTTGATTCGCAGTGTTATCCCGATCGATTCTTTATCTTTCGACTT
1 TAAGA-CTTCCGGGCATAATTTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTT
* * * *
2529228 GTGATGTTATCCTAGTCGATTCTGTAAGACCTTCAGACATGATTCTATAAGACCTTCGAGTATGA
65 GTGATGTTATCCCAGTCGATTCTGTAAGACCTT--GACATAATTCTGTAAGACCTTCGAGCATGA
2529293 TTTC
128 TTTC
* * * *
2529297 TAAAACGTCCAGGCATAATTTTGATTCGTGATGTTATCCCGATCGATTC
1 TAAGACTTCCGGGCATAATTTTGATTCGTGGTGTTATCCCGATCGATTC
2529346 ATTAATTTTT
Statistics
Matches: 271, Mismatches: 40, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
132 3 0.01
133 149 0.55
134 3 0.01
135 114 0.42
136 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (131 bp):
TAAGACTTCCGGGCATAATTTTGATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTTG
TGATGTTATCCCAGTCGATTCTGTAAGACCTTGACATAATTCTGTAAGACCTTCGAGCATGATTT
C
Found at i:2529184 original size:22 final size:22
Alignment explanation
Indices: 2529119--2529184 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
2529109 GTCGATTCTG
* *
2529119 TAAGACCTAT-GGACATAATTCTG
1 TAAGACCT-TCGGGCATAATT-TC
*
2529142 TAAGACCTTCGGGCATGATTTC
1 TAAGACCTTCGGGCATAATTTC
*
2529164 TAAGACCTTCGGGTATAATTT
1 TAAGACCTTCGGGCATAATTT
2529185 TGATTCGCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.57
23 16 0.43
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGGGCATAATTTC
Found at i:2529404 original size:268 final size:267
Alignment explanation
Indices: 2528896--2529404 Score: 641
Period size: 268 Copynumber: 1.9 Consensus size: 267
2528886 TGAGATTCTG
**
2528896 TAAGACTTCCGGGTATAATTTTAATTCGTGGTGTTATCCCGATCGATTCTTTATCTTTCGACTTG
1 TAAGACTTCCGGGTATAATTTTAATTCGCAGTGTTATCCCGATCGATTCTTTATCTTTCGACTTG
* * * * *
2528961 TGGTGTTATCCCAGTCGATTCTGTAAGACTTCTGAGCATAATTTTGTAAGACTTTCGAGCATGAT
66 TGATGTTATCCCAGTCGATTCTGTAAGACTTCAGAGCATAATTCTATAAGACCTTCGAGCATGAT
* * ** * * *
2529026 TTCTGTAAGACTTCTGGGCATAAATTCGATTCATGGTGTTATCCCGATCAATTTTTTATCTTTTG
131 TTC-GTAAAACGTCCAGGCATAAATTCGATTCATGATGTTATCCCGATCAATTATTAATCTTTTG
* **
2529091 ACTTGCGATGTTATCCCAGTCGATTCTGTAAGACCTATGGACATAATTCTGTAAGACCTTCGGGC
195 ACTTGCGATGTTATCCCAGTCGATTCTATAAGACCTACAGACATAATTCTGTAAGACCTTCGGGC
2529156 ATGATTTC
260 ATGATTTC
*
2529164 TAAGACCTT-CGGGTATAATTTTGATTCGCAGTGTTATCCCGATCGATTCTTTATCTTTCGACTT
1 TAAGA-CTTCCGGGTATAATTTTAATTCGCAGTGTTATCCCGATCGATTCTTTATCTTTCGACTT
* * *
2529228 GTGATGTTATCCTAGTCGATTCTGTAAGACCTTCAGA-CATGATTCTATAAGACCTTCGAGTATG
65 GTGATGTTATCCCAGTCGATTCTGTAAGA-CTTCAGAGCATAATTCTATAAGACCTTCGAGCATG
* * * * *
2529292 ATTTC-TAAAACGTCCAGGCATAATTTTGATTCGTGATGTTATCCCGATCGATTCATTAATTTTT
129 ATTTCGTAAAACGTCCAGGCATAAATTCGATTCATGATGTTATCCCGATCAATT-ATTAA-TCTT
* * * * *
2529356 TTTA-TTG-GTAGTGTTATCTCAGTTGATTTTATAAGACCTCCAGACATAA
192 TTGACTTGCG-A-TGTTATCCCAGTCGATTCTATAAGACCTACAGACATAA
2529405 CTTTCAAGAC
Statistics
Matches: 204, Mismatches: 31, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
266 40 0.20
267 7 0.03
268 148 0.73
269 9 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (267 bp):
TAAGACTTCCGGGTATAATTTTAATTCGCAGTGTTATCCCGATCGATTCTTTATCTTTCGACTTG
TGATGTTATCCCAGTCGATTCTGTAAGACTTCAGAGCATAATTCTATAAGACCTTCGAGCATGAT
TTCGTAAAACGTCCAGGCATAAATTCGATTCATGATGTTATCCCGATCAATTATTAATCTTTTGA
CTTGCGATGTTATCCCAGTCGATTCTATAAGACCTACAGACATAATTCTGTAAGACCTTCGGGCA
TGATTTC
Found at i:2529642 original size:23 final size:23
Alignment explanation
Indices: 2529616--2529667 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
2529606 TATCCCAATC
2529616 GATTTTGTAAGACCTCCAGGCAT
1 GATTTTGTAAGACCTCCAGGCAT
* *
2529639 GA-TTTCTAAGACCTCCAGGCCT
1 GATTTTGTAAGACCTCCAGGCAT
*
2529661 AATTTTG
1 GATTTTG
2529668 ATTCACGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (23 bp):
GATTTTGTAAGACCTCCAGGCAT
Done.