Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000073.1 Hibiscus syriacus cultivar Beakdansim tig00000132_pilon, 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: 1402814
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 7
Found at i:1905 original size:17 final size:17
Alignment explanation
Indices: 1883--1915 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1873 ACAATGATTT
*
1883 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
1900 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
1916 AATATTTAGT
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:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:1932 original size:24 final size:22
Alignment explanation
Indices: 1900--1968 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
1890 AAATCATTAC
1900 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
1922 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
1947 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
1969 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:2256 original size:11 final size:11
Alignment explanation
Indices: 2120--2501 Score: 97
Period size: 11 Copynumber: 32.1 Consensus size: 11
2110 TTAGTAATAA
2120 TATTAAATCATT
1 TATTAAATCA-T
2132 AGTATTAAATCA-
1 --TATTAAATCAT
*
2144 TATTAAATAAT
1 TATTAAATCAT
* *
2155 TACTAAATAAT
1 TATTAAATCAT
* * *
2166 AACTAAATAAT
1 TATTAAATCAT
2177 TATATAAAATCAT
1 TAT-T-AAATCAT
*
2190 TATTTAATTATTAT
1 TA-TTAA--ATCAT
*
2204 TATCAAATCAT
1 TATTAAATCAT
*
2215 TACTAAATCAT
1 TATTAAATCAT
2226 CAATCATTAAAT-A-
1 ---T-ATTAAATCAT
2239 T-TTAAATCAT
1 TATTAAATCAT
2249 TATTAAATCAT
1 TATTAAATCAT
* *
2260 TTTTATAATGAT
1 TATTA-AATCAT
2272 TATTACTAAATCAT
1 TA-T--TAAATCAT
*
2286 TATTATAATGA-
1 TATTA-AATCAT
2297 TATTCAAATCAT
1 TATT-AAATCAT
* *
2309 TACTATAATGAT
1 TATTA-AATCAT
2321 TATATCAAATCAT
1 TAT-T-AAATCAT
*
2334 TACTAAATCAT
1 TATTAAATCAT
2345 CAAATCATTAAAT-A-
1 ----T-ATTAAATCAT
2359 T-TTAAATC-T
1 TATTAAATCAT
*
2368 TATTAAATTAT
1 TATTAAATCAT
* *
2379 TTTTATAATGAT
1 TATTA-AATCAT
2391 TATTACTAAATCAT
1 TA-T--TAAATCAT
*
2405 TATTATAATGAT
1 TATTA-AATCAT
2417 TATTATCAAATCAT
1 TA-T-T-AAATCAT
2431 TACTATAATGAT-AT
1 TA-T-TAA--ATCAT
*
2445 TATCAAATCAT
1 TATTAAATCAT
*
2456 TACTAAATC--
1 TATTAAATCAT
*
2465 -ATCAAATCAT
1 TATTAAATCAT
2475 AAATATTTAAATCAT
1 ---TA-TTAAATCAT
2490 TATTAAATCAT
1 TATTAAATCAT
2501 T
1 T
2502 TTTATAATGA
Statistics
Matches: 280, Mismatches: 38, Indels: 103
0.67 0.09 0.24
Matches are distributed among these distances:
8 18 0.06
9 2 0.01
10 20 0.07
11 91 0.32
12 42 0.15
13 28 0.10
14 50 0.18
15 23 0.08
16 6 0.02
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:2281 original size:26 final size:25
Alignment explanation
Indices: 2247--2457 Score: 158
Period size: 26 Copynumber: 8.6 Consensus size: 25
2237 TATTTAAATC
*
2247 ATTATTAAATCATTTTTATAATGATT
1 ATTA-TAAATCATTATTATAATGATT
2273 ATTACTAAATCATTATTATAATGA-T
1 ATTA-TAAATCATTATTATAATGATT
* *
2298 ATT-CAAATCATTACTATAATGATT
1 ATTATAAATCATTATTATAATGATT
* * *
2322 A-TATCAAATCATTACTA-AATCATCAA
1 ATTAT-AAATCATTATTATAATGAT--T
* *
2348 ATCATTAAAT-A-T-TTA-AAT-CTT
1 ATTA-TAAATCATTATTATAATGATT
* *
2369 A-T-TAAATTATTTTTATAATGATT
1 ATTATAAATCATTATTATAATGATT
2392 ATTACTAAATCATTATTATAATGATT
1 ATTA-TAAATCATTATTATAATGATT
*
2418 ATTATCAAATCATTACTATAATGA-T
1 ATTAT-AAATCATTATTATAATGATT
2443 ATTATCAAATCATTA
1 ATTAT-AAATCATTA
2458 CTAAATCATC
Statistics
Matches: 153, Mismatches: 16, Indels: 33
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.03
19 1 0.01
20 1 0.01
21 4 0.03
22 3 0.02
23 22 0.14
24 13 0.08
25 34 0.22
26 64 0.42
27 5 0.03
28 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (25 bp):
ATTATAAATCATTATTATAATGATT
Found at i:2327 original size:20 final size:22
Alignment explanation
Indices: 2279--2354 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
2269 GATTATTACT
*
2279 AAATCATTATTATAATGATATTC
1 AAATCATTACTATAATGA-ATTC
2302 AAATCATTACTATAATGATTATATC
1 AAATCATTACTATAATGA--AT-TC
*
2327 AAATCATTACTA-AAT-CA-TC
1 AAATCATTACTATAATGAATTC
2346 AAATCATTA
1 AAATCATTA
2355 AATATTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.22
21 1 0.02
23 17 0.35
24 6 0.12
25 14 0.29
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (22 bp):
AAATCATTACTATAATGAATTC
Found at i:2330 original size:119 final size:124
Alignment explanation
Indices: 2153--2512 Score: 571
Period size: 119 Copynumber: 3.0 Consensus size: 124
2143 ATATTAAATA
* * * * * * *
2153 ATTACTAAATAATAACTA-AATAATTA-TATAAAATCATTA-TTTAATTATTATTATCAAATCAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
2215 TACTAAATCATC-AATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
2273 ATTACTAAATCATTATTATAATGA-TA-T-TCAAATCATTACTATAATGATTA-TATCAAATCAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
*
2334 TACTAAATCATCAAATCATTAAATATTTAAATC-TTATTAAATTATTTTTATAATGATT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
2392 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGA-TATTATCAAATCAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
2456 TACTAAATCATCAAATCA-TAAATATTTAAATCATTATTAAATCATTTTTATAATGAT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGAT
2513 AATAAATACA
Statistics
Matches: 223, Mismatches: 9, Indels: 14
0.91 0.04 0.06
Matches are distributed among these distances:
119 81 0.36
120 49 0.22
121 21 0.09
122 72 0.32
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (124 bp):
ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATT
Found at i:2408 original size:14 final size:13
Alignment explanation
Indices: 2371--2457 Score: 65
Period size: 12 Copynumber: 6.8 Consensus size: 13
2361 TAAATCTTAT
* *
2371 TAAATTATTTTTA
1 TAAATCATTATTA
*
2384 T-AATGATTATTA
1 TAAATCATTATTA
2396 CTAAATCATTATTA
1 -TAAATCATTATTA
*
2410 T-AATGATTATTA
1 TAAATCATTATTA
*
2422 TCAAATCATTACTA
1 T-AAATCATTATTA
*
2436 T-AATGA-TATTA
1 TAAATCATTATTA
2447 TCAAATCATTA
1 T-AAATCATTA
2458 CTAAATCATC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
11 5 0.09
12 24 0.41
13 7 0.12
14 22 0.38
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (13 bp):
TAAATCATTATTA
Found at i:5686 original size:22 final size:21
Alignment explanation
Indices: 5635--5694 Score: 111
Period size: 21 Copynumber: 2.8 Consensus size: 21
5625 AAATTAAACA
5635 AAATATTTTTAAAACAACACT
1 AAATATTTTTAAAACAACACT
5656 AAATATTTTTAAAACAACACT
1 AAATATTTTTAAAACAACACT
5677 AAATATTTTTAAACACAA
1 AAATATTTTTAAA-ACAA
5695 TATTTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 34 0.89
22 4 0.11
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATATTTTTAAAACAACACT
Found at i:6241 original size:21 final size:21
Alignment explanation
Indices: 6199--6265 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
6189 ATAATATAAT
*
6199 ATAACTTAAACT-A-ATA-TA
1 ATAACTTAAACTAACAAACTA
6217 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
6238 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
6259 ATTAACT
1 A-TAACT
6266 AGATTTTAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.29
19 1 0.02
20 2 0.05
21 22 0.54
22 4 0.10
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:6835 original size:25 final size:25
Alignment explanation
Indices: 6807--6884 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
6797 CATGCACAGT
6807 TCCCACGTTCCATGCACAGCATGCA
1 TCCCACGTTCCATGCACAGCATGCA
** *
6832 TCCCACAACTCC---C-C-CCATGCA
1 TCCCAC-GTTCCATGCACAGCATGCA
*
6853 TTCCCACGTCCCATGCACAGCATGCA
1 -TCCCACGTTCCATGCACAGCATGCA
6879 TCCCAC
1 TCCCAC
6885 AACTCCCCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
21 8 0.21
22 7 0.18
23 1 0.03
24 1 0.03
25 13 0.33
26 9 0.23
ACGTcount: A:0.23, C:0.47, G:0.12, T:0.18
Consensus pattern (25 bp):
TCCCACGTTCCATGCACAGCATGCA
Found at i:6867 original size:47 final size:46
Alignment explanation
Indices: 6806--6899 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 46
6796 CCATGCACAG
*
6806 TTCCCACGTTCCATGCACAGCATGCATCCCACAACTCCCCCCATGCA
1 TTCCCACGTCCCATGCACAGCATGCATCCCACAACT-CCCCCATGCA
6853 TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
1 TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
6899 T
1 T
6900 GCTCCAATAC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 11 0.24
47 35 0.76
ACGTcount: A:0.23, C:0.47, G:0.11, T:0.19
Consensus pattern (46 bp):
TTCCCACGTCCCATGCACAGCATGCATCCCACAACTCCCCCATGCA
Found at i:7001 original size:29 final size:29
Alignment explanation
Indices: 6959--7016 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
6949 AACACCACAC
**
6959 AGGTCGCTTGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
6988 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
7017 CCATCACTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.17
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:10746 original size:21 final size:21
Alignment explanation
Indices: 10722--10764 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10712 ATTTTTCTCC
10722 TCTCCTATATCAACCATTCTT
1 TCTCCTATATCAACCATTCTT
10743 TCTCCTATATCAACCATTCTT
1 TCTCCTATATCAACCATTCTT
10764 T
1 T
10765 TTTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTCCTATATCAACCATTCTT
Found at i:23392 original size:52 final size:55
Alignment explanation
Indices: 23323--23433 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 55
23313 ATCGAATAAT
* * *
23323 AAAAGCAGCAACGTTTAGCAA-AATT-GAAG-AAAAAATTAACAATTATTTTGTA
1 AAAAGCAGCAACATTTAGCAATAATTAAAAGAAAAAAACTAACAATTATTTTGTA
* *
23375 AAAAGCAGCATCATTTAGCAATATTTAAAAGAAAAAAACTAACAATTATTTTGTA
1 AAAAGCAGCAACATTTAGCAATAATTAAAAGAAAAAAACTAACAATTATTTTGTA
23430 AAAA
1 AAAA
23434 ACATCAGCGT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
52 19 0.37
53 3 0.06
54 3 0.06
55 26 0.51
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (55 bp):
AAAAGCAGCAACATTTAGCAATAATTAAAAGAAAAAAACTAACAATTATTTTGTA
Found at i:25951 original size:19 final size:19
Alignment explanation
Indices: 25927--25965 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25917 TCGAATGCAT
25927 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
25946 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
25965 T
1 T
25966 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:25982 original size:65 final size:64
Alignment explanation
Indices: 25864--26072 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
25854 TATTCAAAGG
* *
25864 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
25925 ATTC
61 ATTT
25929 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * **
25994 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
26058 CATGCATCGATGCAC
1 CATGCACCGATGCAC
26073 ACTTGGTGCA
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.41
65 65 0.52
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:26090 original size:64 final size:65
Alignment explanation
Indices: 25913--26075 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
25903 GAATTAATTG
* * * *
25913 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
25978 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
26041 A
65 A
26042 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
26076 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:33059 original size:30 final size:31
Alignment explanation
Indices: 32989--33067 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
32979 ATTTAACAAA
* * **
32989 AAGGGGGAGAAAATTTAAGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
33020 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
33051 AA-GGGGAGTAAGTTTTT
1 AAGGGGGAGTAAGTTTTT
33068 CAAAATCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 15 0.34
31 29 0.66
ACGTcount: A:0.32, C:0.03, G:0.34, T:0.32
Consensus pattern (31 bp):
AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
Found at i:33483 original size:19 final size:19
Alignment explanation
Indices: 33459--33497 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
33449 TCGAATGCAT
33459 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
33478 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
33497 T
1 T
33498 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:33514 original size:65 final size:64
Alignment explanation
Indices: 33396--33603 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
33386 TATTCAAAGG
* *
33396 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
33457 ATTC
61 ATTT
33461 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * **
33526 GATGCATCGATGCAC-AAGCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
33589 CATGCATCGATGCAC
1 CATGCACCGATGCAC
33604 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
63 42 0.34
64 37 0.30
65 44 0.35
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:33594 original size:63 final size:64
Alignment explanation
Indices: 33445--33604 Score: 207
Period size: 63 Copynumber: 2.5 Consensus size: 64
33435 GAATTAATTG
* * ** *
33445 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCAC-AACCATGCATCGATGCACTCAGAATATTTTCAA
* * **
33510 AACATCGAATGCATTTGATGCATCGATGCACAAGCATGCATCGATGCAC-CAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACAACCATGCATCGATGCACTCAGAATA-TTTTCAA
33573 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
33605 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 36 0.43
64 20 0.24
65 28 0.33
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:38678 original size:19 final size:19
Alignment explanation
Indices: 38650--38686 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38640 CCTGTACAAC
*
38650 AAATAAATAATGAATATAT
1 AAATAAATAATCAATATAT
*
38669 AAATATATAATCAATATA
1 AAATAAATAATCAATATA
38687 ATATATGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATAAATAATCAATATAT
Found at i:42891 original size:22 final size:19
Alignment explanation
Indices: 42864--42932 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 19
42854 ATTCAGTATT
42864 CGTCCCGAAGGACTGCTATATA
1 CGTCCCGAAGGACT-C-AT-TA
* *
42886 TGTCCCGTAGGAC-CATTA
1 CGTCCCGAAGGACTCATTA
42904 CGTCCCGAAGGA--C--TA
1 CGTCCCGAAGGACTCATTA
42919 CGTCCCGAAGGACT
1 CGTCCCGAAGGACT
42933 ACAGAACCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 14 0.34
17 1 0.02
18 12 0.29
19 2 0.05
20 1 0.02
22 11 0.27
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (19 bp):
CGTCCCGAAGGACTCATTA
Found at i:42922 original size:15 final size:15
Alignment explanation
Indices: 42902--42934 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
42892 GTAGGACCAT
42902 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
42917 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
42932 TAC
1 TAC
42935 AGAACCCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.15
Consensus pattern (15 bp):
TACGTCCCGAAGGAC
Found at i:46706 original size:150 final size:149
Alignment explanation
Indices: 46510--46816 Score: 524
Period size: 150 Copynumber: 2.1 Consensus size: 149
46500 ACCGAAGTGT
*
46510 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAATTCCTTAAGA
1 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGA
* *
46575 ATCATATACATACACTAGGGATCAAGTATGTGTCTTTCCGAGACTTCACACATGTTCCACAGAAT
66 ATCATATACATACACTAGGGATCAAGTATGTGTCTTT-CAAGACTTCACACATGTTCCAAAGAAT
*
46640 ATATATATATCCCAAAGGAC
130 ATACATATATCCCAAAGGAC
46660 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGA
1 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGA
*
46725 ATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATA
66 ATCATATACATACACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATA
* * *
46790 TACATATGTCCCGAATGAC
131 TACATATATCCCAAAGGAC
*
46809 CACGTAGA
1 CGCGTAGA
46817 CCCTCTACCC
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
149 48 0.32
150 100 0.68
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGA
ATCATATACATACACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATA
TACATATATCCCAAAGGAC
Found at i:47404 original size:64 final size:63
Alignment explanation
Indices: 47271--47427 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
47261 TAATGAGGGT
* * * ** *
47271 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
47335 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
47397 G
63 G
*
47398 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
47428 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:47977 original size:17 final size:19
Alignment explanation
Indices: 47957--47991 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47947 ACGTTTGGAG
47957 AAGGAAG-A-GAAGAAGAT
1 AAGGAAGAATGAAGAAGAT
47974 AAGGAAGAATGAAGAAGA
1 AAGGAAGAATGAAGAAGA
47992 AATGAGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (19 bp):
AAGGAAGAATGAAGAAGAT
Found at i:53559 original size:23 final size:23
Alignment explanation
Indices: 53533--53577 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
53523 CACCACAGCT
*
53533 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
53556 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
53578 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:53743 original size:150 final size:149
Alignment explanation
Indices: 53545--53860 Score: 553
Period size: 150 Copynumber: 2.1 Consensus size: 149
53535 TATAAATGCA
*
53545 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
*
53609 TTCCTTAAGAATCATATACATATACTAGGGATAAAGTATGTGTCTTTCCGAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAGGGATAAAGTATGTGTCTTT-CAAGACTTCACACATGT
* *
53674 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
53695 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
*
53760 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATAAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
53825 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
53844 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
53861 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
149 52 0.33
150 107 0.67
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATAAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:54448 original size:64 final size:63
Alignment explanation
Indices: 54315--54471 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
54305 TAATGAGGGT
* * * ** *
54315 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
54379 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
54441 G
63 G
*
54442 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
54472 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:55034 original size:19 final size:17
Alignment explanation
Indices: 55002--55036 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
54992 ACGTTTGGAG
55002 AAGGAAAAGAAGAAGAT
1 AAGGAAAAGAAGAAGAT
55019 AAGGAAGAAGGAAGAAGA
1 AAGGAA-AA-GAAGAAGA
55037 AATGAGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (17 bp):
AAGGAAAAGAAGAAGAT
Found at i:61828 original size:19 final size:19
Alignment explanation
Indices: 61804--61841 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
61794 CTACCAAGAG
61804 TTCT-AATAAAATAACTAAT
1 TTCTAAATAAAATAA-TAAT
61823 TTCTAAATAAAATAATAAT
1 TTCTAAATAAAATAATAAT
61842 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
TTCTAAATAAAATAATAAT
Found at i:61873 original size:31 final size:31
Alignment explanation
Indices: 61838--61897 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
61828 AATAAAATAA
61838 TAATAATAAAATAATCAAACAAAAAATCCAG
1 TAATAATAAAATAATCAAACAAAAAATCCAG
*
61869 TAATAATAAAATAATCAAACTAAAAATCC
1 TAATAATAAAATAATCAAACAAAAAATCC
61898 TAAAACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.22
Consensus pattern (31 bp):
TAATAATAAAATAATCAAACAAAAAATCCAG
Found at i:63248 original size:27 final size:27
Alignment explanation
Indices: 63217--63307 Score: 155
Period size: 27 Copynumber: 3.4 Consensus size: 27
63207 ACAAGCTGAG
63217 TCGAACTCGAGTATTGTTGAGCTCGAC
1 TCGAACTCGAGTATTGTTGAGCTCGAC
63244 TCGAACTCGAGTATTGTTGAGCTCGAC
1 TCGAACTCGAGTATTGTTGAGCTCGAC
* * *
63271 TCGAACTTGAGTATTATTGAGCTCTAC
1 TCGAACTCGAGTATTGTTGAGCTCGAC
63298 TCGAACTCGA
1 TCGAACTCGA
63308 AAACTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (27 bp):
TCGAACTCGAGTATTGTTGAGCTCGAC
Found at i:63913 original size:23 final size:21
Alignment explanation
Indices: 63879--63922 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
63869 ATATAAAAAA
63879 TTATTTTTTATTAAATGTTTTT
1 TTATTTTTTATTAAAT-TTTTT
*
63901 TTATATTTTTATTTAATTTTTT
1 TTAT-TTTTTATTAAATTTTTT
63923 AAATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (21 bp):
TTATTTTTTATTAAATTTTTT
Found at i:64126 original size:27 final size:27
Alignment explanation
Indices: 64086--64143 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
64076 TCTACTCTTG
64086 TTTTCGTGGCTTTCAGCTTGTTCCTTC
1 TTTTCGTGGCTTTCAGCTTGTTCCTTC
*
64113 TTTTCGTGGTTTTCAGCTTGTTCCTTC
1 TTTTCGTGGCTTTCAGCTTGTTCCTTC
64140 TTTT
1 TTTT
64144 TTTTCTTCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.03, C:0.22, G:0.17, T:0.57
Consensus pattern (27 bp):
TTTTCGTGGCTTTCAGCTTGTTCCTTC
Found at i:69015 original size:30 final size:30
Alignment explanation
Indices: 68959--69018 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68949 ATCAGGAAAC
**
68959 ACAGCCACTGAACTAGGTGGAACTTCATCA
1 ACAGCCACTGAACTAGAAGGAACTTCATCA
*
68989 ACAGCCACTGAA-TGAGAAGGACCTTCATCA
1 ACAGCCACTGAACT-AGAAGGAACTTCATCA
69019 GGCGTGCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (30 bp):
ACAGCCACTGAACTAGAAGGAACTTCATCA
Found at i:70469 original size:36 final size:36
Alignment explanation
Indices: 70422--70528 Score: 180
Period size: 35 Copynumber: 3.0 Consensus size: 36
70412 CAAAATCGTC
*
70422 ATTTCCAATACTAGTGGGATAACCTAATTTGAGCAT
1 ATTTCTAATACTAGTGGGATAACCTAATTTGAGCAT
* *
70458 ATTTCTAATACTAATGGGATAACCTAATTT-AGAAT
1 ATTTCTAATACTAGTGGGATAACCTAATTTGAGCAT
70493 ATTTCTAATACTAGTGGGATAACCTAATTTGAGCAT
1 ATTTCTAATACTAGTGGGATAACCTAATTTGAGCAT
70529 TATCAACATT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 33 0.51
36 32 0.49
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (36 bp):
ATTTCTAATACTAGTGGGATAACCTAATTTGAGCAT
Found at i:71140 original size:28 final size:30
Alignment explanation
Indices: 71086--71142 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
71076 AATTCGGTGA
71086 ATTCAATATGTACTTCTCACTAGGAACTCTC
1 ATTCAATATGTAC-TCTCACTAGGAACTCTC
*
71117 ATTCAATATGT-C-CTCACTTGGAACTC
1 ATTCAATATGTACTCTCACTAGGAACTC
71143 CCAAACTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
30 1 0.04
31 11 0.44
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (30 bp):
ATTCAATATGTACTCTCACTAGGAACTCTC
Found at i:75970 original size:36 final size:36
Alignment explanation
Indices: 75923--75994 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
75913 TAAAATCGTC
75923 ATTTCCAATACTAGTGAGATAA-TCTAATTTGAGCAT
1 ATTTCCAATACTAGTGAGATAACT-TAATTTGAGCAT
* *
75959 ATTTCTAATACTAGTGGGATAACTTAATTTGAGCAT
1 ATTTCCAATACTAGTGAGATAACTTAATTTGAGCAT
75995 TATCAACAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (36 bp):
ATTTCCAATACTAGTGAGATAACTTAATTTGAGCAT
Found at i:79092 original size:54 final size:53
Alignment explanation
Indices: 78990--79095 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
78980 TCATACTACA
* * * * *
78990 AAAAAGTGTAGCACTTAATACATACTTAATTGGTGTAAGTACGTACATCTCCT
1 AAAAAGTGTAACACTTAACACATACTTAACTGGTGGAAGTACATACATCTCCT
* **
79043 AAAAAGTGTAACACTTAACACATACTTATACTGGTGGAATTTTATACATCTCC
1 AAAAAGTGTAACACTTAACACATACTTA-ACTGGTGGAAGTACATACATCTCC
79096 CAATATAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 26 0.59
54 18 0.41
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (53 bp):
AAAAAGTGTAACACTTAACACATACTTAACTGGTGGAAGTACATACATCTCCT
Found at i:79869 original size:41 final size:41
Alignment explanation
Indices: 79824--79975 Score: 107
Period size: 42 Copynumber: 3.7 Consensus size: 41
79814 AATATATAAT
*
79824 GGCGTTTTTCA-ACAAATGCCGCAATAGAGTAGTACTTTAGC
1 GGCGTTTTT-ATACAAATGCCACAATAGAGTAGTACTTTAGC
* ** * *
79865 GGCGTTTTTATACAAAATTCCGTAATATG-GT--TCATCTATAGT
1 GGCGTTTTTATAC-AAATGCCACAATA-GAGTAGT-A-CTTTAGC
* * * *
79907 AGCATTTTCTCA-ACAAATGCCATAATAGAGTAGTATTTTAGC
1 GGCGTTTT-T-ATACAAATGCCACAATAGAGTAGTACTTTAGC
*
79949 GGCGTTTTTATACAAACGCCACAATAG
1 GGCGTTTTTATACAAATGCCACAATAG
79976 GGTTTATATA
Statistics
Matches: 85, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
40 3 0.04
41 28 0.33
42 47 0.55
43 5 0.06
44 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (41 bp):
GGCGTTTTTATACAAATGCCACAATAGAGTAGTACTTTAGC
Found at i:79998 original size:41 final size:41
Alignment explanation
Indices: 79750--79998 Score: 116
Period size: 41 Copynumber: 6.0 Consensus size: 41
79740 GCGACGTTTA
* * * * **
79750 TATACAAATGTCGCAATAGGGTTCATCTATAGTGATATTTT
1 TATACAAATGCCACAATAGGGTTTATATATAGTGGCATTTT
* * *
79791 T-TAACAAACGCCACAATA-GGTTTAATATATAATGGCGTTTT
1 TAT-ACAAATGCCACAATAGGGTTT-ATATATAGTGGCATTTT
* * * * *
79832 TCA-ACAAATGCCGCAATAGAG--TAGTACTTTAGCGGCGTTTT
1 T-ATACAAATGCCACAATAGGGTTTA-TA-TATAGTGGCATTTT
* ** * * * *
79873 TATACAAAATTCCGTAATATGGTTCATCTATAGTAGCATTTT
1 TATAC-AAATGCCACAATAGGGTTTATATATAGTGGCATTTT
* * * * * *
79915 CTCA-ACAAATGCCATAATAGAGTAGTAT-TTTAGCGGCGTTTT
1 -T-ATACAAATGCCACAATAGGGT-TTATATATAGTGGCATTTT
*
79957 TATACAAACGCCACAATAGGGTTTATATATAGTGGCATTTT
1 TATACAAATGCCACAATAGGGTTTATATATAGTGGCATTTT
79998 T
1 T
79999 TTAAAAAACG
Statistics
Matches: 150, Mismatches: 42, Indels: 32
0.67 0.19 0.14
Matches are distributed among these distances:
39 1 0.01
40 13 0.09
41 82 0.55
42 46 0.31
43 6 0.04
44 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (41 bp):
TATACAAATGCCACAATAGGGTTTATATATAGTGGCATTTT
Found at i:80030 original size:83 final size:82
Alignment explanation
Indices: 79788--80047 Score: 290
Period size: 83 Copynumber: 3.1 Consensus size: 82
79778 ATAGTGATAT
* *
79788 TTTTTA-ACAAACGCCACAATAGGTTTAATATATAATGGC-GTTTTTCAACAAATGCCGCAATAG
1 TTTTTATACAAACGCCACAATAGGTTT-ATATATAGTGGCATTTTTTCAACAAATGCCGCAATAG
79851 AGTAGTACTTTAGCGGCG
65 AGTAGTACTTTAGCGGCG
** ** * * * * **
79869 TTTTTATACAAAATTCCGTAATATGGTTCATCTATAGTAGCATTTTCTCAACAAATGCCATAATA
1 TTTTTATAC-AAACGCCACAATA-GGTTTATATATAGTGGCATTTTTTCAACAAATGCCGCAATA
*
79934 GAGTAGTATTTTAGCGGCG
64 GAGTAGTACTTTAGCGGCG
* * * *
79953 TTTTTATACAAACGCCACAATAGGGTTTATATATAGTGGCATTTTTTTAAAAAACGTCGCAATAG
1 TTTTTATACAAACGCCACAATA-GGTTTATATATAGTGGCATTTTTTCAACAAATGCCGCAATAG
* * *
80018 AGTTGTACTTTAGCAGCA
65 AGTAGTACTTTAGCGGCG
80036 TTTTTATACAAA
1 TTTTTATACAAA
80048 TGTCGCGATG
Statistics
Matches: 143, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
81 6 0.04
82 2 0.01
83 85 0.59
84 50 0.35
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (82 bp):
TTTTTATACAAACGCCACAATAGGTTTATATATAGTGGCATTTTTTCAACAAATGCCGCAATAGA
GTAGTACTTTAGCGGCG
Found at i:84553 original size:20 final size:21
Alignment explanation
Indices: 84530--84570 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
84520 TGTTATAATA
*
84530 TAGGAATTAGGGTTC-AATTT
1 TAGGAACTAGGGTTCTAATTT
*
84550 TAGGAACTGGGGTTCTAATTT
1 TAGGAACTAGGGTTCTAATTT
84571 GGGAACGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.39
Consensus pattern (21 bp):
TAGGAACTAGGGTTCTAATTT
Found at i:86183 original size:2 final size:2
Alignment explanation
Indices: 86176--86202 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
86166 TAATATTCTT
86176 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
86203 GGGTTAGGAT
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:86304 original size:93 final size:91
Alignment explanation
Indices: 86194--86466 Score: 244
Period size: 93 Copynumber: 3.0 Consensus size: 91
86184 TATATATATA
* * * * * *
86194 TATATATATGGGTTAGGATCCAGTTAC-TCAATGTAAAATTCTTTAATTTTATATAGATTTAAGA
1 TATATACATGGATTAGGATCCAGTTACAT-AATGTAAAACTCTTTAATTTTACACAGATTTAAAA
* * *
86258 TTGTTGGACGAGTGAAAATAGATGACTT
65 TCGTCGAACGAGTGAAAATAGATGAC-T
* *
86286 GTATATACATGGATTAGGATTCAGTTACATAATGTAAAACTCTTTAGTTTTACACAGATTTAAAA
1 -TATATACATGGATTAGGATCCAGTTACATAATGTAAAACTCTTTAATTTTACACAGATTTAAAA
*
86351 TCGTCGAATGAGTGAAAATAGATGACT
65 TCGTCGAACGAGTGAAAATAGATGACT
* * * * *** * * *
86378 TATATACATATAGGA-TAAGATCTACTTTCACGGTGTAAAACTCTTTAGTTTTACATAGATTTAG
1 TATATAC--AT-GGATTAGGATCCAGTTACATAATGTAAAACTCTTTAATTTTACACAGATTTAA
* * * *
86442 AATCGTTGGATGAGTGGAAATAGAT
63 AATCGTCGAACGAGTGAAAATAGAT
86467 ATATGAGATT
Statistics
Matches: 151, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
91 7 0.05
92 1 0.01
93 139 0.92
94 4 0.03
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (91 bp):
TATATACATGGATTAGGATCCAGTTACATAATGTAAAACTCTTTAATTTTACACAGATTTAAAAT
CGTCGAACGAGTGAAAATAGATGACT
Found at i:93450 original size:2 final size:2
Alignment explanation
Indices: 93443--93479 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
93433 ATCAGAAGTT
93443 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
93480 TTTTTGTAAT
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:96333 original size:2 final size:2
Alignment explanation
Indices: 96326--96360 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
96316 CATTGGTATG
96326 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 T
96361 GATAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97072 original size:18 final size:18
Alignment explanation
Indices: 97049--97083 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
97039 GTTCTTAAGG
*
97049 AGTGGTCCTTCAGGACAT
1 AGTGGTCATTCAGGACAT
97067 AGTGGTCATTCAGGACA
1 AGTGGTCATTCAGGACA
97084 AATTCTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCAGGACAT
Found at i:101832 original size:59 final size:59
Alignment explanation
Indices: 101769--101990 Score: 259
Period size: 59 Copynumber: 3.8 Consensus size: 59
101759 TGACACTATC
* * * *
101769 TGTGCTAAAATTATAAGGAAGTCATATTGAATGTATGAATTTCCATATGGAGCACTGCG
1 TGTGCTAAAATGATAAGAAAATCATATTGAATGTATGAATTTCCATATGGAGCACTGAG
* * * *
101828 TGTGCTAAAATGATAAGAAAATCAGACTGAGTGTATGGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGAAAATCATATTGAATGTATGAATTTCCATATGGAGCACTGAG
* * * * *
101887 TGTGCTAAAATGATAAGAAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGAAAATCATATTGAATGTATGAATTTCCATAT-GGAGCACTGA-G
* ** *
101946 TGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGAATTTCCA
1 TGTGCTAAAATGATAAGAAAATCATATTGAATGTATGAATTTCCA
101991 GAAAAAGCAC
Statistics
Matches: 140, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
58 2 0.01
59 136 0.97
60 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGAAAATCATATTGAATGTATGAATTTCCATATGGAGCACTGAG
Found at i:101950 original size:118 final size:117
Alignment explanation
Indices: 101769--102073 Score: 310
Period size: 118 Copynumber: 2.6 Consensus size: 117
101759 TGACACTATC
* * * * ***
101769 TGTGCTAAAATTATAAGGAAGTCATATTGAATGTATGAATTTCCATAT-GGAGCACTGCGTGTGC
1 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAGG-GCA-TTTATGTGC
* * *** *
101833 TAAAATGATAAGAAAATCAGACTGAGTGTATGGATTTCCATATGGAGCACTGAG
64 TAAAATGATAAGAAAATCAGACTGAGTGTATGAATTTCCAGAAAAAGCACTAAG
* *
101887 TGTGCTAAAATGATAAGAAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATATGTGCT
1 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAGGGCATT-TATGTGCT
* ** * *
101952 AAAATGGTAAGGGAATCATATTGAGTGTATGAATTTCCAGAAAAAGCACTAAG
65 AAAATGATAAGAAAATCAGACTGAGTGTATGAATTTCCAGAAAAAGCACTAAG
* * * * *
102005 GGTGCTACAA-GTATAAGGATATCATACT-AATAGTATGGATTTTCATATAGGGCATTTCATGTG
1 TGTGCTAAAATG-ATAAGGAAATCATATTGAATA-TATGGATTTCCATATAGGGCATTT-ATGTG
102068 CTAAAA
63 CTAAAA
102074 ATGGTAAAGG
Statistics
Matches: 155, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
117 7 0.05
118 146 0.94
119 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (117 bp):
TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAGGGCATTTATGTGCTA
AAATGATAAGAAAATCAGACTGAGTGTATGAATTTCCAGAAAAAGCACTAAG
Found at i:102095 original size:60 final size:60
Alignment explanation
Indices: 102019--102209 Score: 271
Period size: 60 Copynumber: 3.2 Consensus size: 60
102009 CTACAAGTAT
* * *
102019 AAGGATATCATACTAATAGTATGGATTTTC-ATATAGGGCATTTCATGTGCTAAAAATGGTA
1 AAGGA-ATCATACTAATGGTATGGATTCTCGA-ATAGGGCACTTCATGTGCTAAAAATGGTA
*
102080 AAGGGATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
* *
102140 AATGAATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCGTGTGCT-AAAATGAG-A
1 AAGGAATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATG-GTA
*
102199 AAGAAATCATA
1 AAGGAATCATA
102210 TTAAGTATAT
Statistics
Matches: 119, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
59 16 0.13
60 98 0.82
61 5 0.04
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (60 bp):
AAGGAATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
Found at i:102825 original size:24 final size:24
Alignment explanation
Indices: 102790--102851 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
102780 GTTAGCAGCT
*
102790 GATCAATTGCCTGCGCAAATAGGC
1 GATCAATGGCCTGCGCAAATAGGC
102814 GATCAATGGCCTGCGCAAATAGGC
1 GATCAATGGCCTGCGCAAATAGGC
*
102838 GATCAATGGTCTGC
1 GATCAATGGCCTGC
102852 TGATATGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (24 bp):
GATCAATGGCCTGCGCAAATAGGC
Found at i:103162 original size:25 final size:26
Alignment explanation
Indices: 103112--103170 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
103102 AGAGGGATTC
103112 ATTTTAAATTTTGGCAAAAATGTTTT
1 ATTTTAAATTTTGGCAAAAATGTTTT
103138 ATTTTAAATTTTGGCAAAAA-GTTTT
1 ATTTTAAATTTTGGCAAAAATGTTTT
*
103163 GTTTTAAA
1 ATTTTAAA
103171 AAGAACCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 12 0.38
26 20 0.62
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (26 bp):
ATTTTAAATTTTGGCAAAAATGTTTT
Found at i:103939 original size:2 final size:2
Alignment explanation
Indices: 103927--103992 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
103917 AAAAATGATG
*
103927 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103969 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
103993 GGAAGATGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:104455 original size:23 final size:23
Alignment explanation
Indices: 104420--104482 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
104410 AACCTTATAT
104420 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
104443 GGCACTACAGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
104466 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
104483 ATATGAGTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:107963 original size:19 final size:19
Alignment explanation
Indices: 107939--107991 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
107929 GAATGTAATT
107939 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
107958 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
107977 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
107992 CCCCTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:108031 original size:83 final size:83
Alignment explanation
Indices: 107880--108055 Score: 205
Period size: 83 Copynumber: 2.1 Consensus size: 83
107870 TTCAGTGTGT
* * * *
107880 ATCGATGCACAAGAAGTGCATACATGCACCCATTAAAAATGGAAATATCGAATGTAATTAGTGCA
1 ATCGATGCACAAGAAGTGCATACATGCACCCATTAAAAATGAAAACATCAAAGGTAATTAGTGCA
107945 TCGATGCATAAGG-AGTGC
66 TCGATGCAT-AGGTAGTGC
* * * * *
107963 ATCGATGCATAAGGAGTGCAT-CGATGCATCCCCTT-AAAATGAAAACATCAAAGGTGATTTGTG
1 ATCGATGCACAAGAAGTGCATAC-ATGCA-CCCATTAAAAATGAAAACATCAAAGGTAATTAGTG
* *
108026 TATCGATGCATGGGTAGTGC
64 CATCGATGCATAGGTAGTGC
108046 ATCGATGCAC
1 ATCGATGCAC
108056 TTCAAGGGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
82 3 0.04
83 70 0.90
84 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (83 bp):
ATCGATGCACAAGAAGTGCATACATGCACCCATTAAAAATGAAAACATCAAAGGTAATTAGTGCA
TCGATGCATAGGTAGTGC
Found at i:109279 original size:2 final size:2
Alignment explanation
Indices: 109272--109305 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
109262 GAACATGGGA
109272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109306 GATAAGACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109425 original size:22 final size:21
Alignment explanation
Indices: 109376--109436 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
109366 TGGATATGAG
* *
109376 CTACGTGATATGTGACATAAT
1 CTACGTGCTATGTGAAATAAT
109397 CTACGTGCTATGTGAAAGTGAA-
1 CTACGTGCTATGTGAAA-T-AAT
109419 CTACGTGCTTATGTGAAA
1 CTACGTGC-TATGTGAAA
109437 ATATGAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.43
22 9 0.26
23 11 0.31
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (21 bp):
CTACGTGCTATGTGAAATAAT
Found at i:109679 original size:23 final size:23
Alignment explanation
Indices: 109653--109720 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
109643 AACCTTATAT
109653 GGCACTTAGGTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
* * *
109676 GGCAC-TACGGTACAATTCTACGT
1 GGCACTTA-GGTGCATTTCTACGC
* * *
109699 GACACTTCGGTGCATTTATACG
1 GGCACTTAGGTGCATTTCTACG
109721 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 2 0.06
23 32 0.91
24 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:116675 original size:20 final size:18
Alignment explanation
Indices: 116631--116666 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
116621 GAAAATAAAC
116631 AAATATTGACGGTCAACA
1 AAATATTGACGGTCAACA
116649 AAATATTGACGGTCAACA
1 AAATATTGACGGTCAACA
116667 GCTAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
AAATATTGACGGTCAACA
Found at i:135088 original size:11 final size:11
Alignment explanation
Indices: 135074--135124 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
135064 ATTAATATTT
*
135074 TATTAAAATAG
1 TATTAAAATAA
135085 TATTAAAATAA
1 TATTAAAATAA
*
135096 TATT-AAGTAAA
1 TATTAAAAT-AA
*
135107 TATATAAAACAA
1 TAT-TAAAATAA
135119 TATTAA
1 TATTAA
135125 TTTAAACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 3 0.09
11 22 0.67
12 6 0.18
13 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (11 bp):
TATTAAAATAA
Found at i:135120 original size:23 final size:25
Alignment explanation
Indices: 135079--135124 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
135069 TATTTTATTA
*
135079 AAATAGTATTAAAATAATATTAAGT
1 AAATAGTATTAAAACAATATTAAGT
135104 AAATA-TA-TAAAACAATATTAA
1 AAATAGTATTAAAACAATATTAA
135125 TTTAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 2 0.10
25 5 0.25
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
AAATAGTATTAAAACAATATTAAGT
Found at i:136458 original size:22 final size:22
Alignment explanation
Indices: 136407--136495 Score: 67
Period size: 22 Copynumber: 4.2 Consensus size: 22
136397 AATTTGGAAA
* *
136407 ATCGCAACGACAATTGTAGACT
1 ATCGCAACAACAACTGTAGACT
* * *
136429 TTCACAACAACAACTGTCGACT
1 ATCGCAACAACAACTGTAGACT
* * **
136451 ATCGCAAC--TAA-TTTAGAAA
1 ATCGCAACAACAACTGTAGACT
*
136470 ATCGCAACGACAACTGTAGACT
1 ATCGCAACAACAACTGTAGACT
136492 ATCG
1 ATCG
136496 AATTTGGAAA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
19 12 0.25
20 2 0.04
21 2 0.04
22 32 0.67
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (22 bp):
ATCGCAACAACAACTGTAGACT
Found at i:137406 original size:22 final size:22
Alignment explanation
Indices: 137381--137543 Score: 216
Period size: 22 Copynumber: 7.7 Consensus size: 22
137371 ACAACAATAA
137381 ATATTTTAAAATAAATCAATTC
1 ATATTTTAAAATAAATCAATTC
*
137403 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATTC
*
137425 ATA-TTT-AAATAAAT--TTGTC
1 ATATTTTAAAATAAATCAAT-TC
137444 ATATTTT-AAATAAATCAA-TC
1 ATATTTTAAAATAAATCAATTC
**
137464 ATATTTTAAAATAAAT-TTTTC
1 ATATTTTAAAATAAATCAATTC
137485 TATATTTTAAAATAAATCAA-TC
1 -ATATTTTAAAATAAATCAATTC
137507 ATATTTTAAAATAAATCAATTC
1 ATATTTTAAAATAAATCAATTC
137529 ATATTTTAAAATAAA
1 ATATTTTAAAATAAA
137544 ATTTTAAAAT
Statistics
Matches: 124, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.01
19 4 0.03
20 28 0.23
21 32 0.26
22 59 0.48
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATTTTAAAATAAATCAATTC
Found at i:137505 original size:43 final size:43
Alignment explanation
Indices: 137381--137543 Score: 230
Period size: 43 Copynumber: 3.9 Consensus size: 43
137371 ACAACAATAA
137381 ATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAAT-C
*
137425 ATA-TTT-AAATAAAT--TTGTCATATTTT-AAATAAATCAATC
1 ATATTTTAAAATAAATCAAT-TCATATTTTAAAATAAATCAATC
**
137464 ATATTTTAAAATAAAT-TTTTCTATATTTTAAAATAAATCAATC
1 ATATTTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATC
137507 ATATTTTAAAATAAATCAATTCATATTTTAAAATAAA
1 ATATTTTAAAATAAATCAATTCATATTTTAAAATAAA
137544 ATTTTAAAAT
Statistics
Matches: 109, Mismatches: 3, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
39 4 0.04
40 16 0.15
41 19 0.17
42 17 0.16
43 47 0.43
44 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (43 bp):
ATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATC
Found at i:137549 original size:13 final size:13
Alignment explanation
Indices: 137531--137555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137521 ATCAATTCAT
137531 ATTTTAAAATAAA
1 ATTTTAAAATAAA
137544 ATTTTAAAATAA
1 ATTTTAAAATAA
137556 TTTAAATAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTTTAAAATAAA
Found at i:142680 original size:20 final size:21
Alignment explanation
Indices: 142655--142708 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
142645 TTGCGATTTT
142655 TCAAATTCGCAACAC-AAAAG
1 TCAAATTCGCAACACTAAAAG
* **
142675 TCAAATTCGCAACACTGAATT
1 TCAAATTCGCAACACTAAAAG
142696 TCAAATTCGCAAC
1 TCAAATTCGCAAC
142709 TCGATTTCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (21 bp):
TCAAATTCGCAACACTAAAAG
Found at i:142724 original size:20 final size:19
Alignment explanation
Indices: 142699--142767 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 19
142689 CTGAATTTCA
142699 AATTCGCAACTCGATTTCTG
1 AATTCGCAACTCGATTT-TG
*
142719 AATTCGCAACGCGAATTTTG
1 AATTCGCAACTCG-ATTTTG
**
142739 TTTTCGCAACTCGATTTTG
1 AATTCGCAACTCGATTTTG
142758 AATTCGCAAC
1 AATTCGCAAC
142768 ATGAATTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.33
20 24 0.57
21 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (19 bp):
AATTCGCAACTCGATTTTG
Found at i:142774 original size:39 final size:40
Alignment explanation
Indices: 142678--142787 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 40
142668 ACAAAAGTCA
* *
142678 AATTCGCAACACTGAATTTCAAATTCGCAACTCGATTTCTG
1 AATTCGCAACA-TGAATTTTAATTTCGCAACTCGATTTCTG
** **
142719 AATTCGCAACGCGAATTTTGTTTTCGCAACTCGATTT-TG
1 AATTCGCAACATGAATTTTAATTTCGCAACTCGATTTCTG
142758 AATTCGCAACATGAATTTTAATTTCGCAAC
1 AATTCGCAACATGAATTTTAATTTCGCAAC
142788 AGGTTAGTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 28 0.47
40 21 0.36
41 10 0.17
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (40 bp):
AATTCGCAACATGAATTTTAATTTCGCAACTCGATTTCTG
Found at i:142783 original size:20 final size:19
Alignment explanation
Indices: 142678--142788 Score: 68
Period size: 20 Copynumber: 5.6 Consensus size: 19
142668 ACAAAAGTCA
*
142678 AATTCGCAACACTGAATTTCA
1 AATTCGCAACA-TGAATTT-T
142699 AATTCGCAAC-TCG-ATTTCT
1 AATTCGCAACAT-GAATTT-T
**
142718 GAATTCGCAACGCGAATTTT
1 -AATTCGCAACATGAATTTT
**
142738 GTTTTCGCAAC-TCG-ATTTT
1 -AATTCGCAACAT-GAATTTT
142757 GAATTCGCAACATGAATTTT
1 -AATTCGCAACATGAATTTT
142777 AATTTCGCAACA
1 AA-TTCGCAACA
142789 GGTTAGTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
19 23 0.31
20 38 0.51
21 14 0.19
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (19 bp):
AATTCGCAACATGAATTTT
Found at i:143582 original size:12 final size:12
Alignment explanation
Indices: 143561--143594 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
143551 CCCACATTTC
*
143561 CAATACCAAACA
1 CAATATCAAACA
143573 CAATATCAAACA
1 CAATATCAAACA
*
143585 CAATCTCAAA
1 CAATATCAAA
143595 ACCCACAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:143746 original size:23 final size:24
Alignment explanation
Indices: 143719--143771 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
143709 GTATTCGAAA
143719 TTTGATCTTGGTC-ATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
143742 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
143766 TTTGAT
1 TTTGAT
143772 GATGTTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:145032 original size:21 final size:21
Alignment explanation
Indices: 145008--145051 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
144998 AAGACAATCA
145008 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
145029 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
145050 AG
1 AG
145052 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:145138 original size:32 final size:33
Alignment explanation
Indices: 145084--145148 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
145074 AAATAGATGG
*
145084 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
145117 AGTGGTG-AAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
145149 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.28, C:0.00, G:0.49, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:146946 original size:19 final size:19
Alignment explanation
Indices: 146922--146966 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
146912 TGTAGGGTAA
146922 TTTGTATAAGATTTATAAT
1 TTTGTATAAGATTTATAAT
* *
146941 TTTGTATACGATTTATATT
1 TTTGTATAAGATTTATAAT
146960 TTTGTAT
1 TTTGTAT
146967 GTGAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTGTATAAGATTTATAAT
Found at i:147713 original size:197 final size:198
Alignment explanation
Indices: 147084--148048 Score: 1687
Period size: 196 Copynumber: 4.9 Consensus size: 198
147074 CAATATGGCC
*
147084 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
147149 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
147213 GAATATGTCTAAATAATATGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
147278 TGGAA
194 TGGAA
* *
147283 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC-GAAC
147348 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
147413 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
147477 TGGAA
194 TGGAA
147482 AACAGGGTGCAACCATAAAGTG-CGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
147546 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTA-AAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
147610 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
147675 GAA
196 GAA
147678 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
147743 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCAGTACAAGTATACCAG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
147806 -A-ATGTCTAAATAATGTGTCGACAC-TTTTGGTTGGTGTCGATATTTTTGTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
147868 GAA
196 GAA
*
147871 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGTCGATCCCAAAAACATCGA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAA--GT-GTCGATCCCAAAAACATCGA
*
147936 ACCCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
63 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
148001 GAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
128 GAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
148049 GTAATTTAAA
Statistics
Matches: 734, Mismatches: 19, Indels: 24
0.94 0.02 0.03
Matches are distributed among these distances:
193 76 0.10
194 23 0.03
195 21 0.03
196 163 0.22
197 148 0.20
198 47 0.06
199 132 0.18
200 108 0.15
201 16 0.02
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
GAA
Found at i:149563 original size:3 final size:3
Alignment explanation
Indices: 149508--149586 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
149498 TGAAGCTGAC
* * * * * *
149508 GAT GA- GAT GAC GAT GA- GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
149554 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
149587 CCAAACAAGT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:149563 original size:12 final size:12
Alignment explanation
Indices: 149504--149586 Score: 89
Period size: 12 Copynumber: 7.1 Consensus size: 12
149494 AAGATGAAGC
149504 TGACGATGA-GA
1 TGACGATGATGA
149515 TGACGATGA-GA
1 TGACGATGATGA
* *
149526 TGACGATGAAGC
1 TGACGATGATGA
*
149538 TGACGATGAAGA
1 TGACGATGATGA
* *
149550 TGATGACGATGA
1 TGACGATGATGA
*
149562 TGATGATGATGA
1 TGACGATGATGA
*
149574 TGAAGATGATGA
1 TGACGATGATGA
149586 T
1 T
149587 CCAAACAAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
11 20 0.31
12 44 0.69
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.23
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:150793 original size:16 final size:16
Alignment explanation
Indices: 150761--150794 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
150751 TATCCACAAC
* *
150761 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
150777 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
150793 AA
1 AA
150795 TGTAATAGAC
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:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:151180 original size:23 final size:23
Alignment explanation
Indices: 151149--151212 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
151139 AAAGGTAAAA
*
151149 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
151172 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
151195 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
151213 TGGTTATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:152020 original size:179 final size:177
Alignment explanation
Indices: 151592--152068 Score: 763
Period size: 176 Copynumber: 2.7 Consensus size: 177
151582 AATGCTATCG
151592 GTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACC--TATCGACACTTTTTAATATTGT
1 GTAT-AATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGT
* *
151655 GTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCCATACATTGTCAAAAA-TGTCGACATT
65 GTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCAATACATT-TAAAAAAGTGTCGACATT
*
151719 TACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATACC
129 TACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATACC
151768 GTATAATATA-CGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 GTATAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
151832 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCAATAC-ATTTAAAAAAGTGTCGACATTT
*
151897 ACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACC
130 --ACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT-ACC
* *
151948 GGTAT-ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAAT-TT-T
1 -GTATAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGT
152010 GTCGGTACTTTATGTCCAGATTGGAAG-AAAATGTGTCAATACCATTTAAAAAAGTGTCG
65 GTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCAATA-CATTTAAAAAAGTGTCG
152069 GTAATTTTAA
Statistics
Matches: 284, Mismatches: 7, Indels: 18
0.92 0.02 0.06
Matches are distributed among these distances:
174 29 0.10
175 6 0.02
176 74 0.26
177 14 0.05
178 29 0.10
179 72 0.25
180 10 0.04
181 50 0.18
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (177 bp):
GTATAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCAATACATTTAAAAAAGTGTCGACATTTA
CATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATACC
Found at i:154857 original size:19 final size:19
Alignment explanation
Indices: 154819--154885 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
154809 TAAAAATATG
* *
154819 ATGTAATAGGTAGCGCTAT
1 ATGTAATAGGTATCGTTAT
154838 ATGTAATAGGTATCGTTATAT
1 ATGTAATAGGTATCG-T-TAT
*
154859 AATGTAATAGGTATGGTTAT
1 -ATGTAATAGGTATCGTTAT
154879 ATTGTAA
1 A-TGTAA
154886 AGTTCTATCC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 15 0.37
20 8 0.20
21 4 0.10
22 14 0.34
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (19 bp):
ATGTAATAGGTATCGTTAT
Found at i:154866 original size:22 final size:21
Alignment explanation
Indices: 154814--154885 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 21
154804 ATAGGTAAAA
*
154814 ATATGATGTAATAGGTAGCG--
1 ATAT-ATGTAATAGGTATCGTT
*
154834 CTATATGTAATAGGTATCGTT
1 ATATATGTAATAGGTATCGTT
*
154855 ATATAATGTAATAGGTATGGTT
1 ATAT-ATGTAATAGGTATCGTT
154877 ATAT-TGTAA
1 ATATATGTAA
154886 AGTTCTATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 14 0.31
20 8 0.18
21 3 0.07
22 20 0.44
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (21 bp):
ATATATGTAATAGGTATCGTT
Found at i:155171 original size:23 final size:25
Alignment explanation
Indices: 155141--155188 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
155131 AAATCAATTA
*
155141 AACATTGTTGTGGG-ACATT-TTTG
1 AACATTGTTATGGGTACATTATTTG
155164 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
155189 GAAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 5 0.23
25 4 0.18
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:155594 original size:18 final size:18
Alignment explanation
Indices: 155563--155599 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
155553 TGTAATGGAG
155563 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
155581 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
155599 T
1 T
155600 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:155905 original size:38 final size:38
Alignment explanation
Indices: 155863--155947 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
155853 TCCGATGCTC
*
155863 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAGGAA
**
155901 ATCAAAATCCAAATTTCATATGATGCCAAGCAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAGGAA
155939 ATCAAAATC
1 ATCAAAATC
155948 TACAACTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.19
Consensus pattern (38 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAGGAA
Found at i:156773 original size:22 final size:23
Alignment explanation
Indices: 156735--156799 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 23
156725 ATAGGTAAAA
*
156735 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
156758 ATATAATGT-ATAGGTAGCG--T
1 ATATAATGTAATAGGTAGCGCTT
*
156778 -T-T-ATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
156798 AT
1 AT
156800 TGTAAAGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 4 0.11
18 10 0.28
19 1 0.03
20 2 0.06
21 1 0.03
22 10 0.28
23 8 0.22
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:156790 original size:18 final size:22
Alignment explanation
Indices: 156735--156792 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
156725 ATAGGTAAAA
*
156735 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGC-T
156758 ATATAATGT-ATAGGTAGCG-T
1 ATATAATGTAATAGGTAGCGCT
156778 -T-T-ATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
156793 TGCTTATTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 4 0.12
18 9 0.27
19 1 0.03
20 1 0.03
22 10 0.30
23 8 0.24
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGCT
Found at i:156865 original size:393 final size:390
Alignment explanation
Indices: 156155--157087 Score: 1341
Period size: 393 Copynumber: 2.4 Consensus size: 390
156145 GTTAATGTTG
*
156155 TTAAATT-TAAATTCTAAATATATTTATAAATATCAAAACAATCAAATAATTTTTTGTGCAAATG
1 TTAAATTAAAAATTCTAAATATATTTATAAATATCAAAACAAT-AAATAATTTTTTGTGCAAATG
*
156219 AAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAAATTA
65 -AATTATTAAATTAATATTGTAGGT-GAAAACATGAAACACTATTAAAAAAATTGAAACAAATTA
* *
156284 CAT-ACTTTAAAAGAGTATCGATCCTTTTAAAAAGTATGGACACTTCAATATAATAGTAAAAATA
128 CATAAC-TTAAAAAAGTATCGAACCTTTTAAAAAGTATGGACACTTCAATATAATAGTAAAAATA
* * *
156348 TGATGTAATAGGTAGCGCTTATATATGTTATGTATGTTTATATAATATATAGGTAGTGGTTAAAT
192 TGATGTAATAGGTAGCGCTTATATATGTTAGGTACGTTTATATAATAGATAGGTAGTGGTTAAAT
156413 ATCTTCCTTTTTTAAAAGTGTCCATACTTTTTCACTGTAGAAAACATTAATTTAAGGTTATC-TT
257 ATCTTCCTTTTTTAAAAGTGTCCATACTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTT
156477 TGAGTGAGTTTT-AGATATTAATTAGTAATTATA-GCGTCTAATGATTTATTTTTTACGTTACGA
322 TGAGTGAGTTTTAAGATATTAATT--TAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGA
156540 TATATTA
385 TATA-TA
*
156547 TTAAATTAAAAATTCTAAAT-TATTTTATAAATATCAAAAC-ATGAATAATTTTTTGTGCAAATG
1 TTAAATTAAAAATTCTAAATATA-TTTATAAATATCAAAACAATAAATAATTTTTTGTGCAAATG
156610 AA-TATTAAATTAATATTGTAGGTGAAAACATGAAACACTATTAAAAAAA-TGAAAC-AATTACA
65 AATTATTAAATTAATATTGTAGGTGAAAACATGAAACACTATTAAAAAAATTGAAACAAATTACA
156672 TAACTTAAAATAAG-ATCGAACCTTTTTATAAAAAGTATGGACACTTTCAATAT-ATAGGTAAAA
130 TAACTTAAAA-AAGTATCGAACC--TTT-TAAAAAGTATGGACAC-TTCAATATAATA-GTAAAA
* *
156735 ATATGATGTAATAGGTAGCGCTTATATAATGTATAGGTAGCGTTTATGTAATAGGTAGTGCTTA-
189 ATATGATGTAATAGGTAGCGCTTATAT-ATGT-TAGGTA-CGTTTATATAATAGATAG-G--TAG
* *
156799 TTG-TAAAGTATCTATCC-TTTTTAAAAGTGTCCATAC-TTTTCACTGTGGAAAAC-TTAATTTA
248 TGGTTAAA-TATCT-TCCTTTTTTAAAAGTGTCCATACTTTTTCACTGTAGAAAACATTAATTTA
156860 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAATTATAGGCGTCTAATGATTTATTTTTT
311 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAATTATAGGCGTCTAATGATTTATTTTTT
156925 ACGTTACGATATATA
376 ACGTTACGATATATA
* *
156940 TTATTATTAAAAATTCT-AATATATTTATAAA-ATCAAAACAATCAATAATTTTTTGTGCAAATG
1 TTA-AATTAAAAATTCTAAATATATTTATAAATATCAAAACAATAAATAATTTTTTGTGCAAATG
*
157003 AATTATT-AATTAATATTGTAGGTGGAAACATGAAACACTATTAAAAAAAATTGAAACATAATTA
65 AATTATTAAATTAATATTGTAGGTGAAAACATGAAACACTATT-AAAAAAATTGAAACA-AATTA
*
157067 CATAACTTTAAAGAA-TATCGA
128 CATAAC-TTAAAAAAGTATCGA
157088 TCATTTATAA
Statistics
Matches: 495, Mismatches: 16, Indels: 55
0.87 0.03 0.10
Matches are distributed among these distances:
386 21 0.04
387 10 0.02
388 28 0.06
389 40 0.08
390 43 0.09
391 24 0.05
392 24 0.05
393 140 0.28
394 94 0.19
395 43 0.09
396 5 0.01
397 18 0.04
398 5 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.38
Consensus pattern (390 bp):
TTAAATTAAAAATTCTAAATATATTTATAAATATCAAAACAATAAATAATTTTTTGTGCAAATGA
ATTATTAAATTAATATTGTAGGTGAAAACATGAAACACTATTAAAAAAATTGAAACAAATTACAT
AACTTAAAAAAGTATCGAACCTTTTAAAAAGTATGGACACTTCAATATAATAGTAAAAATATGAT
GTAATAGGTAGCGCTTATATATGTTAGGTACGTTTATATAATAGATAGGTAGTGGTTAAATATCT
TCCTTTTTTAAAAGTGTCCATACTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAG
TGAGTTTTAAGATATTAATTTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
Found at i:157245 original size:23 final size:23
Alignment explanation
Indices: 157175--157236 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
157165 AAATAGGTAA
157175 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
157198 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
157221 ATATAAGCGCTACCTA
1 ATATAAGCGCTACCTA
157237 GTATGTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:157403 original size:15 final size:15
Alignment explanation
Indices: 157383--157420 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
157373 AGAAGTGACT
157383 GTTGGTTGTCTGCTG
1 GTTGGTTGTCTGCTG
157398 GTTGGTTGTCTGCTG
1 GTTGGTTGTCTGCTG
157413 GTTGGTTG
1 GTTGGTTG
157421 ATGATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.00, C:0.11, G:0.42, T:0.47
Consensus pattern (15 bp):
GTTGGTTGTCTGCTG
Found at i:164241 original size:20 final size:20
Alignment explanation
Indices: 164218--164269 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
164208 TGTGATTTTC
164218 CAAATTCGCAACACAAAAAT
1 CAAATTCGCAACACAAAAAT
* * *
164238 CAAATTTGCAACACATAAGT
1 CAAATTCGCAACACAAAAAT
*
164258 CAAATTCACAAC
1 CAAATTCGCAAC
164270 GCGATTTCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACACAAAAAT
Found at i:164281 original size:20 final size:20
Alignment explanation
Indices: 164258--164334 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
164248 ACACATAAGT
164258 CAAATTCACAACGCGATTTC
1 CAAATTCACAACGCGATTTC
* *
164278 CAAATTTACAACACTGAATTT-
1 CAAATTCACAACGC-G-ATTTC
* *
164299 CAAATTCGCAACTCGATTTC
1 CAAATTCACAACGCGATTTC
** *
164319 TGAATTCGCAACGCGA
1 CAAATTCACAACGCGA
164335 ATTTTATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.09
20 26 0.57
21 12 0.26
22 4 0.09
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (20 bp):
CAAATTCACAACGCGATTTC
Found at i:164282 original size:40 final size:41
Alignment explanation
Indices: 164238--164318 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
164228 ACACAAAAAT
*
164238 CAAATTTGCAACACAT-AA-GTCAAATTCACAACGCGATTTC
1 CAAATTTACAACAC-TGAATGTCAAATTCACAACGCGATTTC
* * *
164278 CAAATTTACAACACTGAATTTCAAATTCGCAACTCGATTTC
1 CAAATTTACAACACTGAATGTCAAATTCACAACGCGATTTC
164319 TGAATTCGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.03
40 15 0.43
41 19 0.54
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (41 bp):
CAAATTTACAACACTGAATGTCAAATTCACAACGCGATTTC
Found at i:164346 original size:20 final size:19
Alignment explanation
Indices: 164323--164410 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 19
164313 GATTTCTGAA
*
164323 TTCGCAACGCGAATTTTATT
1 TTCGCAACACGAATTTTA-T
* * *
164343 TTCGTAACTCG-ATTTTCGAA
1 TTCGCAACACGAATTTT--AT
164363 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTT-AT
*
164383 TTCGCAACA-G-GTTTTAGT
1 TTCGCAACACGAATTTTA-T
164401 TTCGCAACAC
1 TTCGCAACAC
164411 AAATGTTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
17 1 0.02
18 14 0.25
19 6 0.11
20 28 0.51
21 6 0.11
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (19 bp):
TTCGCAACACGAATTTTAT
Found at i:164352 original size:40 final size:40
Alignment explanation
Indices: 164286--164390 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
164276 TCCAAATTTA
* *
164286 CAACACTGAATTTCAAATTCGCAACTCGA-TTTCTGAATTCG
1 CAACAC-GAATTTTAATTTCGCAACTCGATTTTC-GAATTCG
* * *
164327 CAACGCGAATTTTATTTTCGTAACTCGATTTTCGAATTCG
1 CAACACGAATTTTAATTTCGCAACTCGATTTTCGAATTCG
164367 CAACACGAATTTTAATTTCGCAAC
1 CAACACGAATTTTAATTTCGCAAC
164391 AGGTTTTAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 46 0.84
41 9 0.16
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (40 bp):
CAACACGAATTTTAATTTCGCAACTCGATTTTCGAATTCG
Found at i:164562 original size:14 final size:15
Alignment explanation
Indices: 164543--164580 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
164533 TCCTCATCTC
164543 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
164557 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
164573 TAATTTTT
1 TAATTTTT
164581 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:165199 original size:12 final size:12
Alignment explanation
Indices: 165178--165211 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
165168 ACCACATTTC
*
165178 CAATACCAAACA
1 CAATATCAAACA
165190 CAATATCAAACA
1 CAATATCAAACA
*
165202 CAATCTCAAA
1 CAATATCAAA
165212 ACCCACAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:167871 original size:14 final size:14
Alignment explanation
Indices: 167852--167914 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 14
167842 GTCAAATTCG
167852 CAAATCAACTTTTA
1 CAAATCAACTTTTA
167866 CAAATCAACTTTTA
1 CAAATCAACTTTTA
* * **
167880 CACATTAA-TTAAA
1 CAAATCAACTTTTA
*
167893 CAAATGAACTTTTA
1 CAAATCAACTTTTA
167907 CAAATCAA
1 CAAATCAA
167915 TTAAACAAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
13 9 0.23
14 30 0.77
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.32
Consensus pattern (14 bp):
CAAATCAACTTTTA
Found at i:167895 original size:27 final size:27
Alignment explanation
Indices: 167865--167923 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
167855 ATCAACTTTT
* *
167865 ACAAATCAACTTTTACACATTAATTAA
1 ACAAATCAACTTTTACAAATCAATTAA
*
167892 ACAAATGAACTTTTACAAATCAATTAA
1 ACAAATCAACTTTTACAAATCAATTAA
167919 ACAAA
1 ACAAA
167924 CAAAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.29
Consensus pattern (27 bp):
ACAAATCAACTTTTACAAATCAATTAA
Found at i:171156 original size:22 final size:22
Alignment explanation
Indices: 171103--171157 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
171093 TATGAGAAAT
* *
171103 GGAGAT-A-GACGGATTTTGTC
1 GGAGATGAGGACGAATTTCGTC
* *
171123 GGAGAAGGGGACGAATTTCGTC
1 GGAGATGAGGACGAATTTCGTC
171145 GGAGATGAGGACG
1 GGAGATGAGGACG
171158 GATGTCGCCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 5 0.19
22 22 0.81
ACGTcount: A:0.27, C:0.11, G:0.42, T:0.20
Consensus pattern (22 bp):
GGAGATGAGGACGAATTTCGTC
Found at i:171336 original size:20 final size:20
Alignment explanation
Indices: 171293--171339 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
171283 TAAACACACT
*
171293 TTGCGAATTTGACTTATGTA
1 TTGCGAATTTGACTTATATA
* *
171313 TTGCGAATTTGACTTCTATG
1 TTGCGAATTTGACTTATATA
171333 TTGCGAA
1 TTGCGAA
171340 ACTGAGTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTATATA
Found at i:179495 original size:15 final size:15
Alignment explanation
Indices: 179471--179509 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
179461 AAACACATAT
179471 AAATATTAAATACAAA
1 AAATATTAAATA-AAA
179487 AAA-ATTAAATAAAA
1 AAATATTAAATAAAA
179501 AAATATTAA
1 AAATATTAA
179510 TTTACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 13 0.59
16 3 0.14
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATATTAAATAAAA
Found at i:180205 original size:2 final size:2
Alignment explanation
Indices: 180198--180234 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
180188 TACAAACATC
180198 AT AT 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 AT AT A
180235 CACCCATATC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:181381 original size:21 final size:23
Alignment explanation
Indices: 181355--181407 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
181345 TGTTCCCCAT
181355 GTATCGATACCCTCCA-CATA-G
1 GTATCGATACCCTCCACCATAGG
*
181376 GTATCGATA-CCTCTACCATAGG
1 GTATCGATACCCTCCACCATAGG
181398 GTATCGATAC
1 GTATCGATAC
181408 TGTTCATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (23 bp):
GTATCGATACCCTCCACCATAGG
Found at i:188770 original size:21 final size:21
Alignment explanation
Indices: 188745--188802 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
188735 AGGGTTTCAT
188745 TGGTCATTCGGGACAATACAG
1 TGGTCATTCGGGACAATACAG
*
188766 TGGTCATTCGGGATAATACAG
1 TGGTCATTCGGGACAATACAG
*
188787 TGGTCCTTCGGGACAA
1 TGGTCATTCGGGACAA
188803 ATTTCATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (21 bp):
TGGTCATTCGGGACAATACAG
Found at i:189838 original size:21 final size:21
Alignment explanation
Indices: 189809--189875 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
189799 AATATGTAAA
* *
189809 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCAATTTTCCAAAT
189830 TCGCGTTGCAATTTTCCAAAT
1 TCGCGTTGCAATTTTCCAAAT
189851 TCGCGTTGCAATTTTCCAAAT
1 TCGCGTTGCAATTTTCCAAAT
189872 TCGC
1 TCGC
189876 AACGCGAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCAATTTTCCAAAT
Found at i:189958 original size:20 final size:20
Alignment explanation
Indices: 189899--189952 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
189889 AAATCGCAAT
189899 GCGATAGTCAAATTCACAAC
1 GCGATAGTCAAATTCACAAC
* * *
189919 ACAAAAGTCAAATTCACAAC
1 GCGATAGTCAAATTCACAAC
189939 GCGATAGTCAAATT
1 GCGATAGTCAAATT
189953 TGCAACTAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (20 bp):
GCGATAGTCAAATTCACAAC
Found at i:189995 original size:19 final size:19
Alignment explanation
Indices: 189971--190021 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
189961 GATTTTTGAA
189971 TTCGCAACACAAATTTAAT
1 TTCGCAACACAAATTTAAT
*** *
189990 TTCGCAACA-GGTTTTAGT
1 TTCGCAACACAAATTTAAT
190008 TTCGCAACACAAAT
1 TTCGCAACACAAAT
190022 CTTTTGGGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (19 bp):
TTCGCAACACAAATTTAAT
Found at i:190918 original size:24 final size:24
Alignment explanation
Indices: 190886--190939 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
190876 GTATTCGAAA
190886 TTTGATCTTGATCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* * *
190910 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
190934 TTTGAT
1 TTTGAT
190940 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:193223 original size:18 final size:18
Alignment explanation
Indices: 193200--193235 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
193190 AAGCAAAAGG
*
193200 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
193218 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
193236 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:193579 original size:20 final size:20
Alignment explanation
Indices: 193556--193640 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
193546 AATCGCAAAC
193556 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTTTCGCGTTG
* **
193576 CGAATTTGACTAT--CGTAA
1 CGAATTTGACTTTCGCGTTG
*
193594 CG--CTT-A-TTTCGCGTTG
1 CGAATTTGACTTTCGCGTTG
193610 CGAATTT-ACCTTTCGCGTTG
1 CGAATTTGA-CTTTCGCGTTG
193630 CGAATTTGACT
1 CGAATTTGACT
193641 ATCACGTTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
14 2 0.04
15 1 0.02
16 7 0.14
18 8 0.16
20 31 0.62
21 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (20 bp):
CGAATTTGACTTTCGCGTTG
Found at i:193648 original size:20 final size:20
Alignment explanation
Indices: 193605--193649 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
193595 GCTTATTTCG
* *
193605 CGTTGCGAATTTACCTTTCG
1 CGTTGCGAATTTACCTATCA
193625 CGTTGCGAATTTGA-CTATCA
1 CGTTGCGAATTT-ACCTATCA
193645 CGTTG
1 CGTTG
193650 TATATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
CGTTGCGAATTTACCTATCA
Found at i:194113 original size:24 final size:24
Alignment explanation
Indices: 194062--194114 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
194052 TTTCATATGT
* * *
194062 AATTGGAGTTTGAATTTAAATTTT
1 AATTTGAGTTTGAATTTAAATATA
*
194086 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
194110 AATTT
1 AATTT
194115 CAGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:194461 original size:39 final size:39
Alignment explanation
Indices: 194418--194504 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
194408 TCCGATGCTC
194418 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
194457 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
194496 ATCAAAATC
1 ATCAAAATC
194505 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:194961 original size:13 final size:14
Alignment explanation
Indices: 194943--194981 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
194933 ATAATTTTTA
*
194943 TTTACACATCAAC-
1 TTTACAAATCAACT
194956 TTTACAAATCAACT
1 TTTACAAATCAACT
194970 TTTACAAATCAA
1 TTTACAAATCAA
194982 TTAATCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (14 bp):
TTTACAAATCAACT
Found at i:196481 original size:21 final size:21
Alignment explanation
Indices: 196407--196505 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
196397 GCAGACGGGA
* *
196407 CCTCTTGAATGATGACAGAGG
1 CCTCTTGAATGATGAGAGGGG
* * * *
196428 CCTTTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGAGAGGGG
* *
196449 CTTCTCCG-ATGATGAGAGGGG
1 CCTCT-TGAATGATGAGAGGGG
**
196470 CCTCTTGAATGAT-AGGAGGCA
1 CCTCTTGAATGATGA-GAGGGG
196491 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
196506 TAGGTGCATC
Statistics
Matches: 58, Mismatches: 16, Indels: 7
0.72 0.20 0.09
Matches are distributed among these distances:
20 2 0.03
21 54 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGGG
Done.