Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 55 of 117
Found at i:10254384 original size:17 final size:17
Alignment explanation
Indices: 10254338--10254388 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
10254328 ATTTTTAGGA
*
10254338 ATTATCTT-TTACTTTTT
1 ATTATCTTATTA-TTATT
*
10254355 TTTATCATTATTATTATT
1 ATTATC-TTATTATTATT
10254373 ATTATCTTATTATTAT
1 ATTATCTTATTATTAT
10254389 CTAACACCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 15 0.52
18 11 0.38
19 3 0.10
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATCTTATTATTATT
Found at i:10254432 original size:24 final size:26
Alignment explanation
Indices: 10254404--10254451 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10254394 ACCTAATTTG
*
10254404 ATAAT-AAAAACT-AAAGATAAATCA
1 ATAATAAAAAAATCAAAGATAAATCA
10254428 ATAATAAAAAAATCAAAGATAAAT
1 ATAATAAAAAAATCAAAGATAAAT
10254452 AAAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 6 0.29
26 10 0.48
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (26 bp):
ATAATAAAAAAATCAAAGATAAATCA
Found at i:10254445 original size:26 final size:24
Alignment explanation
Indices: 10254404--10254469 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
10254394 ACCTAATTTG
*
10254404 ATAATAAAAACTAAAGATAAATCA
1 ATAATAAAAAATAAAGATAAATCA
*
10254428 ATAATAAAAAAATCAAAGATAAATAAA
1 ATAAT-AAAAAAT-AAAGATAAAT-CA
* *
10254455 AAAATAACAAATAAA
1 ATAATAAAAAATAAA
10254470 TGAATAATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.14
25 9 0.26
26 16 0.46
27 5 0.14
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (24 bp):
ATAATAAAAAATAAAGATAAATCA
Found at i:10254468 original size:19 final size:19
Alignment explanation
Indices: 10254430--10254470 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10254420 ATAAATCAAT
*
10254430 AATAAAAAAATCAAAGATA
1 AATAAAAAAATCAAAAATA
10254449 AATAAAAAAAT-AACAAATA
1 AATAAAAAAATCAA-AAATA
10254468 AAT
1 AAT
10254471 GAATAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (19 bp):
AATAAAAAAATCAAAAATA
Found at i:10254961 original size:45 final size:44
Alignment explanation
Indices: 10254912--10255037 Score: 146
Period size: 44 Copynumber: 2.8 Consensus size: 44
10254902 AATACTTCTC
* *
10254912 TAAACAGATGCTCAATTAATTTTTAAAAAATATAA-AAGGCTAATT
1 TAAACAGAAGCTCAA-CAATTTTTAAAAAATA-AAGAAGGCTAATT
* * * **
10254957 TAAACAGAAGCTCAACAACTTTTGAAAAATAAAGAAGGTTCCTT
1 TAAACAGAAGCTCAACAATTTTTAAAAAATAAAGAAGGCTAATT
* *
10255001 TAAACAGAGGCTCAACAATTTTTAAAAAATAAGGAAG
1 TAAACAGAAGCTCAACAATTTTTAAAAAATAAAGAAG
10255038 CCTCTTCTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 2 0.03
44 53 0.77
45 14 0.20
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (44 bp):
TAAACAGAAGCTCAACAATTTTTAAAAAATAAAGAAGGCTAATT
Found at i:10255003 original size:44 final size:43
Alignment explanation
Indices: 10254843--10255037 Score: 141
Period size: 44 Copynumber: 4.5 Consensus size: 43
10254833 GAGGTTTAAG
* *
10254843 AACTTTTGAAAAATATAGAAGGCTTCTCTAAATAGAAG--C-AC
1 AACTTTTGAAAAATAAAGAAGG-TTCTCTAAACAGAAGCTCAAC
* * *
10254884 AACTTTTGAAAAATATGAA-ATA-CTTCTCTAAACAGATGCTCAATT
1 AACTTTTGAAAAATA--AAGA-AGGTTCTCTAAACAGAAGCTCAA-C
* * ** *
10254929 AATTTTTAAAAAATATAA-AAGGCTAATTTAAACAGAAGCTCAAC
1 AACTTTTGAAAAATA-AAGAAGG-TTCTCTAAACAGAAGCTCAAC
* *
10254973 AACTTTTGAAAAATAAAGAAGGTTCCTTTAAACAGAGGCTCAAC
1 AACTTTTGAAAAATAAAGAAGGTT-CTCTAAACAGAAGCTCAAC
* * *
10255017 AATTTTTAAAAAATAAGGAAG
1 AACTTTTGAAAAATAAAGAAG
10255038 CCTCTTCTAA
Statistics
Matches: 121, Mismatches: 22, Indels: 19
0.75 0.14 0.12
Matches are distributed among these distances:
41 28 0.23
42 1 0.01
43 7 0.06
44 56 0.46
45 29 0.24
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (43 bp):
AACTTTTGAAAAATAAAGAAGGTTCTCTAAACAGAAGCTCAAC
Found at i:10255111 original size:28 final size:27
Alignment explanation
Indices: 10255056--10255111 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
10255046 AAAGAGATGT
* * *
10255056 TCAATTACTTTTCAAAAAAATAGAAGC
1 TCAATAACTTTTCAAAAAAAAAAAAGC
*
10255083 TCAATAACTTTTGAAAAATAAAAAAAGC
1 TCAATAACTTTTCAAAAA-AAAAAAAGC
10255111 T
1 T
10255112 ATTCTAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (27 bp):
TCAATAACTTTTCAAAAAAAAAAAAGC
Found at i:10261804 original size:144 final size:145
Alignment explanation
Indices: 10261578--10261856 Score: 402
Period size: 144 Copynumber: 1.9 Consensus size: 145
10261568 TATTACCCCG
*
10261578 AAAGTGCAAAATTATCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCTCAAGCTCAA
1 AAAGTGCAAAATTACCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCTCAAGCTCAA
* ** *
10261643 ATTTTTATGAAAATTTTTAGATTTTAATTTCA-TACTATTTTGTGATTTTTGGTGCATTTGAAAT
66 ATGTTTATGAAAATTTTTAGATTTTAATTTCATTA-TATTTCATGATTTTTGATGCATTTGAAAT
10261707 CATAGCCGTGTCCTGA
130 CATAGCCGTGTCCTGA
* * * *
10261723 AAAGTGTAAAATTACCAAAATACCTTTTAAG-GGTATTTTTGTAATTTGACATT-TCCATGCTCA
1 AAAGTGCAAAATTACCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCT-CAAGCTCA
* * *
10261786 GATGTTTATGGAACTTTTTAGATTTTAATTTCATTATATTTCATGATTTTTGATGCATTTGAAAT
65 AATGTTTATGAAAATTTTTAGATTTTAATTTCATTATATTTCATGATTTTTGATGCATTTGAAAT
*
10261851 TATAGC
130 CATAGC
10261857 AGTACCTCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
143 1 0.01
144 87 0.73
145 31 0.26
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (145 bp):
AAAGTGCAAAATTACCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCTCAAGCTCAA
ATGTTTATGAAAATTTTTAGATTTTAATTTCATTATATTTCATGATTTTTGATGCATTTGAAATC
ATAGCCGTGTCCTGA
Found at i:10261879 original size:144 final size:145
Alignment explanation
Indices: 10261585--10261890 Score: 395
Period size: 144 Copynumber: 2.1 Consensus size: 145
10261575 CCGAAAGTGC
*
10261585 AAAATTATCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCTCAAGCTCAAATTTTTA
1 AAAATTATCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCTCAAGCTCAAATGTTTA
** * *
10261650 TGAAAATTTTTAGATTTTAATTTCATACTATTTTGTGATTTTTGGTGCATTTGAAATCATAGCCG
66 TGAAAATTTTTAGATTTTAATTTCATACTATTTCATGATTTTTGATGCATTTGAAATCATAGCAG
* * * *
10261715 TGTCCTGAAAAGTGT
131 TGACCTAAAAAATAT
* * * * *
10261730 AAAATTACCAAAATACCTTTTAAG-GGTATTTTTGTAATTTGACATT-TCCATGCTCAGATGTTT
1 AAAATTATCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCT-CAAGCTCAAATGTTT
* * *
10261793 ATGGAACTTTTTAGATTTTAATTTCATTA-TATTTCATGATTTTTGATGCATTTGAAATTATAGC
65 ATGAAAATTTTTAGATTTTAATTTCA-TACTATTTCATGATTTTTGATGCATTTGAAATCATAGC
10261857 AGT-ACCTCAAAAAATAT
129 AGTGACCT-AAAAAATAT
*
10261874 GAAATTATCAAAATACC
1 AAAATTATCAAAATACC
10261891 CTTATATGCA
Statistics
Matches: 139, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
143 4 0.03
144 110 0.79
145 25 0.18
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (145 bp):
AAAATTATCAAAATACCTTTTAAGAAGTATTTTCGTAATTTGACATTCTCAAGCTCAAATGTTTA
TGAAAATTTTTAGATTTTAATTTCATACTATTTCATGATTTTTGATGCATTTGAAATCATAGCAG
TGACCTAAAAAATAT
Found at i:10269470 original size:24 final size:24
Alignment explanation
Indices: 10269443--10269519 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
10269433 AAAAATTAGT
10269443 AAAATAAACTAAAATAAAAAAATA
1 AAAATAAACTAAAATAAAAAAATA
10269467 AAAAT-AAC-AAAA-AAATAAAATTGA
1 AAAATAAACTAAAATAAA-AAAA-T-A
* * *
10269491 AAAATGAAAATAAAATGAAAAAAGA
1 AAAAT-AAACTAAAATAAAAAAATA
10269516 AAAA
1 AAAA
10269520 CCTATGTTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
21 3 0.07
22 8 0.19
23 4 0.09
24 11 0.26
25 5 0.12
26 2 0.05
27 8 0.19
28 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (24 bp):
AAAATAAACTAAAATAAAAAAATA
Found at i:10269472 original size:14 final size:14
Alignment explanation
Indices: 10269453--10269505 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
10269443 AAAATAAACT
10269453 AAAATAAAAAAATA
1 AAAATAAAAAAATA
*
10269467 AAAATAACAAAAAAA
1 AAAATAA-AAAAATA
** *
10269482 TAAAATTGAAAAATG
1 -AAAATAAAAAAATA
10269497 AAAATAAAA
1 AAAATAAAA
10269506 TGAAAAAAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 14 0.47
15 11 0.37
16 5 0.17
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:10269500 original size:19 final size:18
Alignment explanation
Indices: 10269443--10269518 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 18
10269433 AAAAATTAGT
* *
10269443 AAAATAAACT-AAAATAAA
1 AAAATAAAATGAAAA-AAG
*
10269461 AAAATAAAAAT-AACAAA-
1 AAAAT-AAAATGAAAAAAG
*
10269478 AAAATAAAATTGAAAAATG
1 AAAATAAAA-TGAAAAAAG
10269497 AAAATAAAATGAAAAAAG
1 AAAATAAAATGAAAAAAG
10269515 AAAA
1 AAAA
10269519 ACCTATGTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
18 23 0.47
19 16 0.33
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAATAAAATGAAAAAAG
Found at i:10269519 original size:19 final size:20
Alignment explanation
Indices: 10269477--10269519 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10269467 AAAATAACAA
*
10269477 AAAAATAAAATTGAAAAATG
1 AAAAATAAAATTGAAAAAAG
10269497 -AAAATAAAA-TGAAAAAAG
1 AAAAATAAAATTGAAAAAAG
10269515 AAAAA
1 AAAAA
10269520 CCTATGTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (20 bp):
AAAAATAAAATTGAAAAAAG
Found at i:10270223 original size:3 final size:3
Alignment explanation
Indices: 10270217--10270303 Score: 117
Period size: 3 Copynumber: 29.7 Consensus size: 3
10270207 AGGAAAGAAA
* * *
10270217 AAT AAT AAT AAT AAA AAA AAT AAT AA- AAA AAT AAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10270263 AAT AAT AAT GAA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10270304 AAACATTATT
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
2 6 0.08
3 69 0.90
4 2 0.03
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:10270467 original size:91 final size:89
Alignment explanation
Indices: 10270353--10270575 Score: 216
Period size: 91 Copynumber: 2.5 Consensus size: 89
10270343 CGTAATGTTT
* ** **
10270353 TAAATTCATTAAAT-TATACATATTCACAAAAATAAAATTAAATATGTTAGTATATGATGTTTAT
1 TAAATTCATTAAATAT-TACATATTCACAAAAATAAAAATAAATATGCCAACATATGATGTTTAT
*
10270417 TCATTACGATTTACA-ATCATAACATTC
65 TCATTACAATTTACAGA-C--AACATTC
* * * * *
10270444 TAAATTCATTAAATATTATATATTTATAAATATAAAAATAAATGTGCCAACATATGATGTTTATT
1 TAAATTCATTAAATATTACATATTCACAAAAATAAAAATAAATATGCCAACATATGATGTTTATT
* * * *
10270509 CGTTGCAATTTATAGACAACATTT
66 CATTACAATTTACAGACAACATTC
* * * * *
10270533 TGAATTCATTAAATATTGCATATTCACATATATGAAAATAAAT
1 TAAATTCATTAAATATTACATATTCACAAAAATAAAAATAAAT
10270576 GTGTAAACAA
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
89 42 0.39
91 64 0.59
92 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (89 bp):
TAAATTCATTAAATATTACATATTCACAAAAATAAAAATAAATATGCCAACATATGATGTTTATT
CATTACAATTTACAGACAACATTC
Found at i:10273941 original size:118 final size:120
Alignment explanation
Indices: 10273660--10273942 Score: 367
Period size: 118 Copynumber: 2.3 Consensus size: 120
10273650 TTGTGCAGAA
* * * *
10273660 AAAATTGATACTTTCAACTTTTTCTCAAAATAATTTTTTTTGTGGAAAGCTTATTTTCAAGAAAA
1 AAAATTGATACTTTCAAC-TTTTCCCCAAA-AACTTTTTTT-TGGAAAACTTATTTTCAAGAAAA
* *
10273725 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTCTTTTTGAAAACTTTAATTTCGAGG
63 ATTGATACTTTCAACTTTTCCCTAAAAATA--TTTCTTTTGGAAAACTTTAATTTCGAAG
* * * *
10273785 AAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTT-GAAAATTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTTGGAAAACTTATTTTCAAGAAAAATT
* *
10273849 GATACTTTCAACTTTT-TCTCGAAAATA-TT-TTTTGGAAAACTTTTAATTTCGAAG
66 GATACTTTCAACTTTTCCCT-AAAAATATTTCTTTTGGAAAAC-TTTAATTTCGAAG
10273903 AAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTT
10273943 TTTGGATTTT
Statistics
Matches: 142, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
117 10 0.07
118 52 0.37
120 2 0.01
121 43 0.30
122 1 0.01
123 8 0.06
124 8 0.06
125 18 0.13
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.45
Consensus pattern (120 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTTGGAAAACTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTCTTTTGGAAAACTTTAATTTCGAAG
Found at i:10273965 original size:118 final size:119
Alignment explanation
Indices: 10273660--10273964 Score: 359
Period size: 121 Copynumber: 2.5 Consensus size: 119
10273650 TTGTGCAGAA
* * * *
10273660 AAAATTGATACTTTCAACTTTTTCTCAAAATAATTTTTTTTGTGGAAAGCTTATTTTCAAGAAAA
1 AAAATTGATACTTTCAACTTTTCCTC-AAA-AATTTTTTTTTTGG-AA-TTTATTTTAAAGAAAA
* *
10273725 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTCTTTTTGAAAACTTTAATTTCGAGG
62 ATTGATACTTTCAACTTTTCCCTAAAAATA--TTTCTTTTGGAAAACTTTAATTTCGAAG
* * *
10273785 AAAATTGATACTTTCAACTTTTCCTC-AAAATCTTTTTTTTGAAAATTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTG-GAATTTATTTTAAAGAAAAATT
* *
10273849 GATACTTTCAACTTTT-TCTCGAAAATA-TT-TTTTGGAAAACTTTTAATTTCGAAG
65 GATACTTTCAACTTTTCCCT-AAAAATATTTCTTTTGGAAAAC-TTTAATTTCGAAG
* *
10273903 AAAATTGATACTTTCAACTTTTCCCCAAAAACTTTTTTTTTTTGGATTTTA-TTTAAAGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TTTTTTTTTTGGAATTTATTTTAAAGAAAA
10273965 TAAAATAATA
Statistics
Matches: 159, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
117 10 0.06
118 39 0.25
119 14 0.09
120 7 0.04
121 49 0.31
122 13 0.08
123 2 0.01
125 25 0.16
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGGAATTTATTTTAAAGAAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATTTCTTTTGGAAAACTTTAATTTCGAAG
Found at i:10273969 original size:5 final size:5
Alignment explanation
Indices: 10273961--10274097 Score: 61
Period size: 5 Copynumber: 26.6 Consensus size: 5
10273951 TTATTTAAAG
*
10273961 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AATAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AA-AAT
* * *
10274005 AAAAT AAAGA- AAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAAG
1 AAAAT AAA-AT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT
* * * **
10274053 AATAT TAAAT AAACCT AATCT AATAAT AAAA- ATAAAT AAAAT AAA
1 AAAAT AAAAT AAA-AT AAAAT AA-AAT AAAAT A-AAAT AAAAT AAA
10274098 TAATTAATTA
Statistics
Matches: 101, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
3 3 0.03
4 5 0.05
5 65 0.64
6 24 0.24
7 4 0.04
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:10273994 original size:30 final size:29
Alignment explanation
Indices: 10273960--10274044 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 29
10273950 TTTATTTAAA
*
10273960 GAAAATAAAATAATAAAACAAAATAAAAGT
1 GAAAATAAAA-AATAAAAAAAAATAAAAGT
*
10273990 GAAAATAAAAAATAAAAAATAAAGAAAAGT
1 GAAAATAAAAAATAAAAAA-AAATAAAAGT
*
10274020 -AAAA-CAAAAATAAAAATAAAATAAA
1 GAAAATAAAAAATAAAAA-AAAATAAA
10274045 GATAAAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 17 0.35
29 13 0.27
30 19 0.39
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (29 bp):
GAAAATAAAAAATAAAAAAAAATAAAAGT
Found at i:10274006 original size:6 final size:6
Alignment explanation
Indices: 10273961--10274051 Score: 57
Period size: 6 Copynumber: 15.5 Consensus size: 6
10273951 TTATTTAAAG
* *
10273961 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTG AAAATAA AAAATA AAAA-A
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAAT-A AAAATA AAAATA
* * * * *
10274009 TAAAGA AAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
10274052 GAATATTAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
5 17 0.26
6 38 0.58
7 10 0.15
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:10274016 original size:53 final size:53
Alignment explanation
Indices: 10273956--10274065 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 53
10273946 GGATTTTATT
*
10273956 TAAAGAAAA-TAAAATAATAAA-ACAAAATAAAAGTGAAA-ATAAAA-AATAAAAAA
1 TAAAGAAAAGTAAAACAA-AAATA-AAAATAAAA-T-AAAGATAAAAGAATAAAAAA
**
10274009 TAAAGAAAAGTAAAACAAAAATAAAAATAAAATAAAGATAAAAGAATATTAAA
1 TAAAGAAAAGTAAAACAAAAATAAAAATAAAATAAAGATAAAAGAATAAAAAA
10274062 TAAA
1 TAAA
10274066 CCTAATCTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
51 3 0.06
52 7 0.14
53 32 0.64
54 8 0.16
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.16
Consensus pattern (53 bp):
TAAAGAAAAGTAAAACAAAAATAAAAATAAAATAAAGATAAAAGAATAAAAAA
Found at i:10274049 original size:17 final size:16
Alignment explanation
Indices: 10273961--10274097 Score: 71
Period size: 17 Copynumber: 8.1 Consensus size: 16
10273951 TTATTTAAAG
*
10273961 AAAATAAAATAATAAAA
1 AAAATAAAATAA-AATA
10273978 CAAAATAAAAGTGAAAATAA
1 -AAAATAAAA-T-AAAAT-A
* *
10273998 AAAATAAAAAATAAAGA
1 AAAATAAAATA-AAATA
* *
10274015 AAAGTAAAACAAAAATA
1 AAAATAAAA-TAAAATA
10274032 AAAATAAAATAAAGAT-
1 AAAATAAAATAAA-ATA
* * *
10274048 AAAAGAATATTAAATA
1 AAAATAAAATAAAATA
** **
10274064 AACCTAATCTAATAATA
1 AAAATAAAATAA-AATA
10274081 AAAAT-AAATAAAATA
1 AAAATAAAATAAAATA
10274096 AA
1 AA
10274098 TAATTAATTA
Statistics
Matches: 92, Mismatches: 19, Indels: 19
0.71 0.15 0.15
Matches are distributed among these distances:
15 8 0.09
16 24 0.26
17 31 0.34
18 14 0.15
19 12 0.13
20 3 0.03
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:10275145 original size:37 final size:34
Alignment explanation
Indices: 10275103--10275188 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 34
10275093 AATACCTAAG
*
10275103 ATAAAAATAAAAGAAAAAATATATATAAAAAACAATA
1 ATAAAAATAAAAGAAAAAA-A-ATACAAAAAA-AATA
***
10275140 ATAAAAATAAAA-ATGTAAAATACAAAAAAAATA
1 ATAAAAATAAAAGAAAAAAAATACAAAAAAAATA
10275173 ATAAAAA-AAAAGAAAA
1 ATAAAAATAAAAGAAAA
10275189 TAGACTTACC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
32 4 0.10
33 12 0.29
34 9 0.22
35 1 0.02
36 3 0.07
37 12 0.29
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.16
Consensus pattern (34 bp):
ATAAAAATAAAAGAAAAAAAATACAAAAAAAATA
Found at i:10275146 original size:14 final size:14
Alignment explanation
Indices: 10275108--10275183 Score: 62
Period size: 14 Copynumber: 4.9 Consensus size: 14
10275098 CTAAGATAAA
10275108 AATAAAAGAAAAAAT
1 AATAAAA-AAAAAAT
*
10275123 ATATATAAAAAACAAT
1 A-ATA-AAAAAAAAAT
10275139 AATAAAAATAAAAATGT
1 AATAAAAA-AAAAA--T
*
10275156 AAAATACAAAAAAAAT
1 --AATAAAAAAAAAAT
10275172 AATAAAAAAAAA
1 AATAAAAAAAAA
10275184 GAAAATAGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.30
15 8 0.16
16 11 0.22
17 4 0.08
18 5 0.10
19 7 0.14
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (14 bp):
AATAAAAAAAAAAT
Found at i:10275158 original size:27 final size:27
Alignment explanation
Indices: 10275128--10275179 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10275118 AAAATATATA
*
10275128 TAAAAAACAATAATAAA-AATAAAAATG
1 TAAAAAACAA-AAAAAATAATAAAAATG
*
10275155 TAAAATACAAAAAAAATAATAAAAA
1 TAAAAAACAAAAAAAATAATAAAAA
10275180 AAAAGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (27 bp):
TAAAAAACAAAAAAAATAATAAAAATG
Found at i:10275180 original size:12 final size:12
Alignment explanation
Indices: 10275105--10275182 Score: 54
Period size: 12 Copynumber: 6.4 Consensus size: 12
10275095 TACCTAAGAT
10275105 AAAAATAA-AAGA
1 AAAAATAATAA-A
*
10275117 AAAAATATATATA
1 AAAAATA-ATAAA
* *
10275130 AAAAACAATAAT
1 AAAAATAATAAA
10275142 AAAAATAA-AAA
1 AAAAATAATAAA
* *
10275153 TGTAAAAT-ACAAA
1 --AAAAATAATAAA
10275166 AAAAATAATAAA
1 AAAAATAATAAA
10275178 AAAAA
1 AAAAA
10275183 AGAAAATAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
11 7 0.14
12 27 0.53
13 16 0.31
14 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAATAATAAA
Found at i:10275466 original size:41 final size:41
Alignment explanation
Indices: 10275397--10275508 Score: 154
Period size: 41 Copynumber: 2.7 Consensus size: 41
10275387 AGTCTCAATG
10275397 ACTTTGAGAAACATAAATGGCTCCTCTAAT-TAAAGGCTCAACA
1 ACTTTGA-AAA-ATAAATGGCTCCTCTAATCT-AAGGCTCAACA
*
10275440 ACTTTGAAAAATAAATGGCTCCTCTAATCTGAGGCTCAACA
1 ACTTTGAAAAATAAATGGCTCCTCTAATCTAAGGCTCAACA
* *
10275481 ACTTTGAAAAAATAAATTGCTCATCTAA
1 ACTTTG-AAAAATAAATGGCTCCTCTAA
10275509 ACAGAGGCAC
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
41 34 0.53
42 23 0.36
43 7 0.11
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (41 bp):
ACTTTGAAAAATAAATGGCTCCTCTAATCTAAGGCTCAACA
Found at i:10275538 original size:83 final size:82
Alignment explanation
Indices: 10275373--10275712 Score: 358
Period size: 83 Copynumber: 4.1 Consensus size: 82
10275363 TTTTATCAAA
* * ** * * ** * * *
10275373 GCTCCTCTAAGCAGAGTCTCAATGACTTTGAGAAACATAAATGGCTCCTCTAATTAAAGGCTCAA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACCA
* * * *
10275438 CAACTTTGAAAAATAAATG
64 CGACTTTGGAAAGTAAATT
* * * *
10275457 GCTCCTCTAATCTGAGGCTCAACAACTTTGAAAAAATAAATTGCTCATCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
10275522 GACTTTGGAAAGTAAATT
65 GACTTTGGAAAGTAAATT
* * *
10275540 GCTCTTCTAAACAGAGG-TAAAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCT-CAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
10275604 GACTTTTGGAAAGTAAATT
65 GAC-TTTGGAAAGTAAATT
* * * * *
10275623 GCTCATCTAAACAGAGGCACCACAACTTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGACACCA
1 GCTCCTCTAAACAGAGGCTCAACAAC--TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
10275688 TGACTTTGGAAAGTAAATT
64 CGACTTTGGAAAGTAAATT
10275707 GCTCCT
1 GCTCCT
10275713 TGACAATCAT
Statistics
Matches: 218, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
82 36 0.17
83 95 0.44
84 48 0.22
85 39 0.18
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGGAAAGTAAATT
Found at i:10275711 original size:41 final size:41
Alignment explanation
Indices: 10275440--10275712 Score: 330
Period size: 41 Copynumber: 6.6 Consensus size: 41
10275430 AGGCTCAACA
* * * * * * * *
10275440 ACTTTGAAAAATAAATGGCTCCTCTAATCTGAGGCTCAACA
1 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* * *
10275481 ACTTTGAAAAAATAAATTGCTCATCTAAACAGAGGCACCACG
1 ACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* * **
10275523 ACTTTGGAAAGTAAATTGCTCTTCTAAACAGAGGTAAAACG
1 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
10275564 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
10275605 ACTTTTGGAAAGTAAATTGCTCATCTAAACAGAGGCACCACA
1 AC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
10275647 ACTTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGACACCATG
1 AC--TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
10275690 ACTTTGGAAAGTAAATTGCTCCT
1 ACTTTGGAAAGTAAATTGCTCCT
10275713 TGACAATCAT
Statistics
Matches: 204, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
41 94 0.46
42 72 0.35
43 38 0.19
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (41 bp):
ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
Found at i:10276737 original size:23 final size:24
Alignment explanation
Indices: 10276708--10276761 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
10276698 TGAGTCCTCC
10276708 TTTTTTATTCACTT-TTTTTTCTT
1 TTTTTTATTCACTTATTTTTTCTT
***
10276731 TTTTTTATTTTTTTATTTTTTCTT
1 TTTTTTATTCACTTATTTTTTCTT
10276755 TTTTTTA
1 TTTTTTA
10276762 AGCGTAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTTATTCACTTATTTTTTCTT
Found at i:10279796 original size:7 final size:6
Alignment explanation
Indices: 10279775--10279844 Score: 61
Period size: 6 Copynumber: 11.0 Consensus size: 6
10279765 TTTTTCTTCA
* *
10279775 TTTTAT TTTTAT TTTTAT TTTTATTT TTTGTAT TTTACAT TTTTA- TTTTAA
1 TTTTAT TTTTAT TTTTAT TTTTA--T TTT-TAT TTT-TAT TTTTAT TTTTAT
*
10279826 TTTTAT TATTAT TATTTAT
1 TTTTAT TTTTAT T-TTTAT
10279845 ATATGTATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
5 5 0.09
6 29 0.55
7 13 0.25
8 4 0.08
9 2 0.04
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:10279842 original size:33 final size:34
Alignment explanation
Indices: 10279779--10279842 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
10279769 TCTTCATTTT
* *
10279779 ATTTTTATTTTTATTTTTATTTTTTGTATTTTAC
1 ATTTTTATTTTTAATTTTATTTTATGTATTTTAC
10279813 ATTTTTA-TTTTAATTTTATTATTAT-TATTT
1 ATTTTTATTTTTAATTTTATT-TTATGTATTT
10279843 ATATATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (34 bp):
ATTTTTATTTTTAATTTTATTTTATGTATTTTAC
Found at i:10280015 original size:21 final size:21
Alignment explanation
Indices: 10279958--10280035 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
10279948 CTTTTTTTTC
*
10279958 CTGTTAATATTTATGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
10279980 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
*
10280002 CTGTTAATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
*
10280023 CTGATTTATTTTT
1 CTG-TTAATTTTT
10280036 GTTTGATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 23 0.48
23 4 0.08
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:10280981 original size:13 final size:13
Alignment explanation
Indices: 10280963--10281018 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
10280953 TCTTTTTACC
10280963 TTTATTTTATTTT
1 TTTATTTTATTTT
*
10280976 TTTATTTTCA--CT
1 TTTATTTT-ATTTT
*
10280988 TTTATTTTGTTTT
1 TTTATTTTATTTT
*
10281001 ATTATTTTATTTT
1 TTTATTTTATTTT
10281014 CTTTA
1 -TTTA
10281019 AATAAAAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
12 9 0.27
13 20 0.61
14 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:10281148 original size:57 final size:58
Alignment explanation
Indices: 10281030--10281300 Score: 379
Period size: 58 Copynumber: 4.7 Consensus size: 58
10281020 ATAAAAATCA
* *
10281030 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* * * *
10281088 AAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTTAAAAAT-AAAATTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* *
10281145 AAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTCC
1 -AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* *
10281205 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCT--AAATTAAAGTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCAAAGTTTC
*
10281262 AAAAGAATATTTTT-AGGAAAAGTTAAAAGTATCAATTTT
1 AAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
10281301 TCCTGCACAA
Statistics
Matches: 190, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
57 45 0.24
58 93 0.49
59 46 0.24
60 6 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
Found at i:10281168 original size:117 final size:116
Alignment explanation
Indices: 10281018--10281300 Score: 419
Period size: 117 Copynumber: 2.4 Consensus size: 116
10281008 TATTTTCTTT
* * *
10281018 AAATAAAA-ATCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAA
1 AAATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
*
10281082 AGTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCT-TAA
66 AGTTCCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTCT-A
*
10281133 AAATAAAATTTCAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCA
1 AAATAAAATTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCA
* * *
10281198 AAGTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCTA
65 AAGTTCCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTCTA
* * * *
10281250 AATTAAAGTTTCAAAAGAATATTTTT-AGGAAAAGTTAAAAGTATCAATTTT
1 AAATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
10281301 TCCTGCACAA
Statistics
Matches: 152, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
115 32 0.21
116 15 0.10
117 104 0.68
118 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (116 bp):
AAATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
AGTTCCAAAAAATATTTTTGAGAAAAAGTTGAAAGCATCAATTTTCCTCTA
Found at i:10285198 original size:26 final size:26
Alignment explanation
Indices: 10285169--10285219 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10285159 TCAACAATTG
10285169 ATGAAAAATAAGAAAAAA-GAAAAAAA
1 ATGAAAAA-AAGAAAAAATGAAAAAAA
* *
10285195 ATGAAAGAAGGAAAAAATGAAAAAA
1 ATGAAAAAAAGAAAAAATGAAAAAA
10285220 GAGATTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (26 bp):
ATGAAAAAAAGAAAAAATGAAAAAAA
Found at i:10286548 original size:42 final size:41
Alignment explanation
Indices: 10286475--10286777 Score: 417
Period size: 42 Copynumber: 7.3 Consensus size: 41
10286465 ATGATTGTCA
*
10286475 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
10286516 AGGAGCAATTTACTTTCTCAAAGTCATGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
*
10286558 AAGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * *
10286600 AGGAGCAATTTACTTTCCAAAAGTCGTGGTACCTCTATTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
10286642 AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* *
10286684 AGGAGCAATTTACTTTTCAAATTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
10286725 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCTTTTGATTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
10286766 AGGAGCCATTTA
1 AGGAGCAATTTA
10286778 TGTTTCTTAA
Statistics
Matches: 238, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
41 83 0.35
42 155 0.65
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:10286596 original size:84 final size:83
Alignment explanation
Indices: 10286477--10286814 Score: 439
Period size: 84 Copynumber: 4.0 Consensus size: 83
10286467 GATTGTCAAG
* *
10286477 GAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCA
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCG
*
10286542 TGGTGCCTCTATTTAGAA
66 TGGTACCTCTATTTAGAA
10286560 GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTC-CAAAAGT
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTC-AAAGT
*
10286624 CGTGGTACCTCTATTTAGAG
64 CGTGGTACCTCTATTTAGAA
* *
10286644 GAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAATTC
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTC
* *
10286708 GTGGTACCTCTGTTTAGAG
65 GTGGTACCTCTATTTAGAA
* * * * * * * * *
10286727 GAGCAATTTATTTTTCAAAGTCGTTGAGCTTTTGATTAGAGGAGCCATTTATGTTTCTTAAAGTC
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCTCAAAGTC
* *
10286792 GTTG-AGCCTCTACTTAGAA
65 GTGGTA-CCTCTATTTAGAA
10286811 GAGC
1 GAGC
10286815 TTTGGTAAAA
Statistics
Matches: 227, Mismatches: 22, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
82 29 0.13
83 58 0.26
84 140 0.62
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (83 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCG
TGGTACCTCTATTTAGAA
Found at i:10286839 original size:9 final size:9
Alignment explanation
Indices: 10286821--10286849 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10286811 GAGCTTTGGT
10286821 AAAA-AAAA
1 AAAACAAAA
10286829 AAAACAAAA
1 AAAACAAAA
10286838 AAAACAAAA
1 AAAACAAAA
10286847 AAA
1 AAA
10286850 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAACAAAA
Found at i:10287028 original size:6 final size:6
Alignment explanation
Indices: 10287017--10287047 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10287007 TTTTTCTTCA
*
10287017 TTTTAT TTTTAT TTTTAT TTTTAT TATTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T
10287048 ATTTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:10287208 original size:22 final size:21
Alignment explanation
Indices: 10287164--10287277 Score: 72
Period size: 22 Copynumber: 5.2 Consensus size: 21
10287154 TCTTTTTTTT
*
10287164 TCTGTTAATATTTATGTAA-TTA
1 TCTGTTAAT-TTT-TTTAATTTA
10287186 TCTGTT-ATTTAATTTTAATTTA
1 TCTGTTAATTT--TTTTAATTTA
*
10287208 TCTGTTAATTTTTTTTATTTA
1 TCTGTTAATTTTTTTAATTTA
* * *
10287229 TCTGGTTTATTTTCGTTTGATTTTT
1 TCT-GTTAATTTT--TTT-AATTTA
* *
10287254 TCT-TTTATTTTTTTGATTTA
1 TCTGTTAATTTTTTTAATTTA
10287274 TCTG
1 TCTG
10287278 GCTGGAAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
20 8 0.11
21 21 0.28
22 24 0.32
23 12 0.16
24 3 0.04
25 6 0.08
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (21 bp):
TCTGTTAATTTTTTTAATTTA
Found at i:10288099 original size:5 final size:5
Alignment explanation
Indices: 10288091--10288256 Score: 77
Period size: 5 Copynumber: 33.6 Consensus size: 5
10288081 TTTTTTTGAA
*
10288091 TTTAT TTTAT TTTATT TATTAT TTGTTT TTTA- TTTAT TTT-T TTTA-
1 TTTAT TTTAT TTTA-T T-TTAT TT-TAT TTTAT TTTAT TTTAT TTTAT
** * * *
10288136 TTTAT TAGA- TTAAG TTTAT TTAGTAT TCT-T TTTACT TTTAT TTTA-
1 TTTAT TTTAT TTTAT TTTAT TT--TAT TTTAT TTTA-T TTTAT TTTAT
* *
10288181 TTT-T TTTATT TTTGT TTTACT TTT-C TTTAT TTTA- TTT-T TTTAT TTTCACT
1 TTTAT TTTA-T TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT-A-T
*
10288231 TTTAT TTT-T TTT-T ATTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10288257 CTTTAAATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 42
0.68 0.09 0.23
Matches are distributed among these distances:
4 39 0.31
5 51 0.41
6 23 0.19
7 11 0.09
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:10288115 original size:27 final size:27
Alignment explanation
Indices: 10288085--10288146 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
10288075 AGATTTTTTT
10288085 TTTGAATTTAT-TTTATTTTATTTATTA
1 TTTG-ATTTATATTTATTTTATTTATTA
* * *
10288112 TTTGTTTTTTATTTATTTTTTTTATTTA
1 TTTGATTTATATTTATTTTATTTA-TTA
*
10288140 TTAGATT
1 TTTGATT
10288147 AAGTTTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.14
27 16 0.57
28 8 0.29
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTGATTTATATTTATTTTATTTATTA
Found at i:10288121 original size:18 final size:16
Alignment explanation
Indices: 10288077--10288261 Score: 67
Period size: 17 Copynumber: 11.1 Consensus size: 16
10288067 GCAGCTCCAG
*
10288077 ATTTTTTTTTTGAATTT
1 ATTTTTTTTTT-TATTT
10288094 ATTTTATTTTATTTA-TT
1 ATTTT-TTTT-TTTATTT
*
10288111 A-TTTGTTTTTTATTT
1 ATTTTTTTTTTTATTT
10288126 ATTTTTTTTATTTA-TT
1 ATTTTTTTT-TTTATTT
** ***
10288142 A-GATTAAGTTTATTT
1 ATTTTTTTTTTTATTT
* * *
10288157 AGTATTCTTTTTACTTTT
1 ATTTTTTTTTTTA--TTT
10288175 ATTTTATTTTTTTATTT
1 ATTTT-TTTTTTTATTT
* *
10288192 -TTGTTTTACTTTTCTTT
1 ATT-TTTT-TTTTTATTT
10288209 ATTTTATTTTTTTATTTT
1 ATTTT-TTTTTTTA-TTT
*
10288227 CACTTTTATTTTTT-TTT
1 -A-TTTTTTTTTTTATTT
* *
10288244 ATTATTTTATTTTCTTT
1 ATT-TTTTTTTTTATTT
10288261 A
1 A
10288262 AATAAAAATC
Statistics
Matches: 127, Mismatches: 22, Indels: 38
0.68 0.12 0.20
Matches are distributed among these distances:
14 8 0.06
15 13 0.10
16 31 0.24
17 37 0.29
18 18 0.14
19 16 0.13
20 4 0.03
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (16 bp):
ATTTTTTTTTTTATTT
Found at i:10288125 original size:11 final size:10
Alignment explanation
Indices: 10288091--10288251 Score: 60
Period size: 11 Copynumber: 15.0 Consensus size: 10
10288081 TTTTTTTGAA
*
10288091 TTTATTTTAT
1 TTTATTTTTT
*
10288101 TTTATTTATTA
1 TTTATTT-TTT
*
10288112 TTTGTTTTTT
1 TTTATTTTTT
10288122 ATTTA-TTTTT
1 -TTTATTTTTT
*
10288132 TTTATTTATTAG
1 TTTATTT-TT-T
* ** *
10288144 ATTAAGTTTA
1 TTTATTTTTT
*
10288154 TTTAGTATTCTT
1 TTTA-T-TTTTT
*
10288166 TTTACTTTTAT
1 TTTA-TTTTTT
10288177 TTTA--TTTT
1 TTTATTTTTT
10288185 TTTATTTTTGT
1 TTTATTTTT-T
10288196 TTTACTTTTCTT
1 TTTA-TTTT-TT
10288208 TATT-TTATTTT
1 T-TTATT-TTTT
*
10288219 TTTATTTTCACT
1 TTTATTTT--TT
10288231 TTTATTTTTT
1 TTTATTTTTT
10288241 TTTATTATTTT
1 TTTATT-TTTT
10288252 ATTTTCTTTA
Statistics
Matches: 112, Mismatches: 21, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
8 7 0.06
9 4 0.04
10 33 0.29
11 37 0.33
12 28 0.25
13 3 0.03
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:10288189 original size:35 final size:33
Alignment explanation
Indices: 10288150--10288225 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 33
10288140 TTAGATTAAG
10288150 TTTATTTAGTATT-CTTTTTACTTTTATTTTATTTT
1 TTTATTTAGTATTAC-TTTT-C-TTTATTTTATTTT
* *
10288185 TTTATTTTTGTTTTACTTTTCTTTATTTTATTTT
1 TTTA-TTTAGTATTACTTTTCTTTATTTTATTTT
10288219 TTTATTT
1 TTTATTT
10288226 TCACTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 3 0.08
34 17 0.46
35 5 0.14
36 11 0.30
37 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (33 bp):
TTTATTTAGTATTACTTTTCTTTATTTTATTTT
Found at i:10288252 original size:30 final size:30
Alignment explanation
Indices: 10288164--10288257 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
10288154 TTTAGTATTC
*
10288164 TTTTTACTTTTATTTTATTTTT-TTATTTT-
1 TTTTCACTTTTATTTT-TTTTTATTATTTTA
* * * *
10288193 TGTTTTACTTTT-CTTTATTTTATTTTTTTA
1 T-TTTCACTTTTATTTTTTTTTATTATTTTA
10288223 TTTTCACTTTTATTTTTTTTTATTATTTTA
1 TTTTCACTTTTATTTTTTTTTATTATTTTA
10288253 TTTTC
1 TTTTC
10288258 TTTAAATAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
28 4 0.07
29 19 0.35
30 31 0.57
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (30 bp):
TTTTCACTTTTATTTTTTTTTATTATTTTA
Found at i:10288334 original size:59 final size:59
Alignment explanation
Indices: 10288270--10288612 Score: 401
Period size: 58 Copynumber: 5.8 Consensus size: 59
10288260 TAAATAAAAA
* * * *
10288270 TCAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
** * *
10288329 TC-AAAAAATATTTTTGAAAAAAAGTTGAAAGCATCAATTTTTCTTAAAAAT-AAAATT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
** ** * *
10288386 AAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTCAAAATCAAAGTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
* * *
10288445 TC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAACT-AAAATT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
*
10288502 TCAAAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAATTT
1 TCAAAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAAATT
*
10288562 TAAAAAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTT
1 T--CAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTT
10288613 CACAAGAACA
Statistics
Matches: 240, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
57 13 0.05
58 133 0.55
59 40 0.17
60 11 0.05
62 7 0.03
63 27 0.11
64 8 0.03
65 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (59 bp):
TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
Found at i:10288425 original size:116 final size:117
Alignment explanation
Indices: 10288272--10288609 Score: 482
Period size: 116 Copynumber: 2.9 Consensus size: 117
10288262 AATAAAAATC
** * * *
10288272 AAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAA
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAAAAAA
** *
10288337 TATTTTTGAAAAAAAGTTGAAAGCATCAATTTTTCTTAAAAATAAAA-TTAA
66 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAA
*
10288388 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTCAAAATCAAAGTTTCAAAAAA
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAAAAAA
* * *
10288453 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAACTAAAATTTCA
66 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAA
* *
10288505 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAATTTTAAAAAA
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAAGTTT---CAA
10288569 AAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
62 AAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
10288610 CTTCACAAGA
Statistics
Matches: 200, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
116 102 0.51
117 53 0.26
118 5 0.03
120 7 0.04
122 33 0.17
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (117 bp):
AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAAAAAA
TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAA
Found at i:10296651 original size:26 final size:26
Alignment explanation
Indices: 10296622--10296702 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
10296612 GAAAATTTAA
10296622 TTTTAAGGAAAATTGATACTTTCAAC
1 TTTTAAGGAAAATTGATACTTTCAAC
**** * *
10296648 TTTTCCTCAAAAATTTGAAAATTT--A-
1 TTTT-AAGGAAAA-TTGATACTTTCAAC
10296673 TTTTAAGGAAAATTGATACTTTCAAC
1 TTTTAAGGAAAATTGATACTTTCAAC
10296699 TTTT
1 TTTT
10296703 TCAAAAATAT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
23 8 0.21
24 4 0.11
25 5 0.13
26 9 0.24
27 4 0.11
28 8 0.21
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (26 bp):
TTTTAAGGAAAATTGATACTTTCAAC
Found at i:10296710 original size:25 final size:25
Alignment explanation
Indices: 10296630--10296710 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 25
10296620 AATTTTAAGG
10296630 AAAATTGATACTTTCAACTTTTCCTCA
1 AAAATTGATACTTTCAACTTTT--TCA
* * *
10296657 AAAATTTGAAAATTT--A--TTTTAA
1 AAAA-TTGATACTTTCAACTTTTTCA
10296679 GGAAAATTGATACTTTCAACTTTTTCA
1 --AAAATTGATACTTTCAACTTTTTCA
10296706 AAAAT
1 AAAAT
10296711 ATTTTTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
22 2 0.05
23 8 0.20
24 7 0.17
25 6 0.15
26 1 0.02
27 9 0.22
28 8 0.20
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (25 bp):
AAAATTGATACTTTCAACTTTTTCA
Found at i:10296825 original size:54 final size:55
Alignment explanation
Indices: 10296518--10296827 Score: 435
Period size: 54 Copynumber: 5.7 Consensus size: 55
10296508 TTGTGCAGAA
*
10296518 AAAATTGATACTTTCAACTTTTTCCTAAAAA-TTTTTTTG-AAATTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATTTTTTTTGAAAATTTATTTT-AAGG
*
10296573 AAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTGAAAATTTAATTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAT-TTTTTTTGAAAATTT-ATTTTAAGG
10296630 AAAATTGATACTTTCAACTTTTCCTCAAAAA-----TTTGAAAATTTATTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATTTTTTTTGAAAATTTATTTTAAGG
* * *
10296681 AAAATTGATACTTTCAACTTTT-TCAAAAATATTTTTTG-AAATTTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTGAAAATTTATTTTAAGG
10296734 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTA-TTTAA-G
1 AAAATTGATACTTTCAACTTTTCCCAAAAAT-TTTTTTTGAAAATTTATTTTAAGG
*
10296788 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGA
1 AAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTGA
10296828 TTTTATTTAA
Statistics
Matches: 235, Mismatches: 7, Indels: 28
0.87 0.03 0.10
Matches are distributed among these distances:
49 6 0.03
51 31 0.13
52 11 0.05
53 45 0.19
54 54 0.23
55 30 0.13
56 14 0.06
57 34 0.14
58 10 0.04
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (55 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATTTTTTTTGAAAATTTATTTTAAGG
Found at i:10296873 original size:17 final size:16
Alignment explanation
Indices: 10296852--10296929 Score: 67
Period size: 17 Copynumber: 5.0 Consensus size: 16
10296842 AATAAAATAA
10296852 TAAAACAAAATAAAAG
1 TAAAACAAAATAAAAG
*
10296868 TGAAAATAAAA-AAAA-
1 T-AAAACAAAATAAAAG
10296883 -AAAA-AAAA-AAAAG
1 TAAAACAAAATAAAAG
*
10296896 TAAAACAAAAATAAAAA
1 TAAAAC-AAAATAAAAG
*
10296913 TAAAATAAAGATAAAAG
1 TAAAACAAA-ATAAAAG
10296930 AATATTAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
12 8 0.16
13 4 0.08
14 4 0.08
16 12 0.24
17 23 0.45
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (16 bp):
TAAAACAAAATAAAAG
Found at i:10296878 original size:22 final size:21
Alignment explanation
Indices: 10296850--10296921 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
10296840 AAAATAAAAT
*
10296850 AATAAAACAAAATAAAAGTGAA
1 AATAAAACAAAATAAAAAT-AA
* * *
10296872 AATAAAAAAAAAAAAAAAAAA
1 AATAAAACAAAATAAAAATAA
10296893 AAGTAAAACAAAAATAAAAATAA
1 AA-TAAAAC-AAAATAAAAATAA
10296916 AATAAA
1 AATAAA
10296922 GATAAAAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.10
22 24 0.59
23 13 0.32
ACGTcount: A:0.82, C:0.03, G:0.04, T:0.11
Consensus pattern (21 bp):
AATAAAACAAAATAAAAATAA
Found at i:10296926 original size:6 final size:5
Alignment explanation
Indices: 10296840--10296986 Score: 71
Period size: 5 Copynumber: 29.8 Consensus size: 5
10296830 TTATTTAAAG
*
10296840 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AAAA- AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
* * *
10296887 AAAA- AAAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAAG AATAT
1 AAAAT AAAA-T AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT
* * ** *
10296935 TAAAT AAACCT AATCT AATAAT AAAA- AAAAT -AAAT AAAA- ATAAT AAAA-
1 AAAAT AAA-AT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
10296983 AAAA
1 AAAA
10296987 AACCTGAAGG
Statistics
Matches: 112, Mismatches: 17, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
3 3 0.03
4 31 0.28
5 48 0.43
6 26 0.23
7 4 0.04
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:10296972 original size:13 final size:13
Alignment explanation
Indices: 10296954--10296988 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
10296944 CTAATCTAAT
10296954 AATAAAAAAAATA
1 AATAAAAAAAATA
*
10296967 AATAAAAATAATA
1 AATAAAAAAAATA
10296980 AA-AAAAAAA
1 AATAAAAAAA
10296989 CCTGAAGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AATAAAAAAAATA
Found at i:10297770 original size:9 final size:9
Alignment explanation
Indices: 10297756--10297808 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
10297746 ATTTCAGTCG
10297756 AATAAATCA
1 AATAAATCA
*
10297765 AATAAATAATA
1 AATAAAT--CA
*
10297776 AATAAATTA
1 AATAAATCA
10297785 AATAAATCA
1 AATAAATCA
*
10297794 GATAAATCA
1 AATAAATCA
10297803 AA-AAAT
1 AATAAAT
10297809 TAACAGATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
8 4 0.11
9 26 0.68
11 8 0.21
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.25
Consensus pattern (9 bp):
AATAAATCA
Found at i:10297777 original size:16 final size:16
Alignment explanation
Indices: 10297756--10297789 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10297746 ATTTCAGTCG
10297756 AATAAATCAAA-TAAAT
1 AATAAAT-AAATTAAAT
10297772 AATAAATAAATTAAAT
1 AATAAATAAATTAAAT
10297788 AA
1 AA
10297790 ATCAGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAATAAATTAAAT
Found at i:10297827 original size:18 final size:19
Alignment explanation
Indices: 10297777--10297829 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
10297767 TAAATAATAA
*
10297777 ATAAATT-AAATAAATCAG
1 ATAAATTAAAATTAATCAG
*
10297795 ATAAATCAAAAAATTAA-CAG
1 ATAAAT--TAAAATTAATCAG
10297815 ATAAATTAAAATTAA
1 ATAAATTAAAATTAA
10297830 ATAACATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 14 0.48
20 9 0.31
21 6 0.21
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (19 bp):
ATAAATTAAAATTAATCAG
Found at i:10299007 original size:175 final size:176
Alignment explanation
Indices: 10298717--10299099 Score: 418
Period size: 179 Copynumber: 2.2 Consensus size: 176
10298707 GTTATTTACA
* * * ***
10298717 TGCATATTCACATATATGAAAATAAATGTGTAAGTGTATGATGTGTGTTACGATTTAGTGTCATA
1 TGCATATTCACATATATGAAAATAAATGTGCAAGTATATGATGTATGTTACGATTTACAATCATA
** * * *
10298782 ATGTTTTGAATTCATTAAATATTATATATTCGTAAATCTGAAAATAAATGTGCCAACATAT-GA-
66 ACATTTTGAATTCATTAAATATTACATATTCATAAATCAGAAAATAAATGTGCCAACATATAGAT
* * * * * * * *
10298845 TGTGCATTGTGATTTACAATTGTAATGTTTTAAATTCATTAAATAT
131 TATGCACTATGAATTACAATCGGAAGGTTTTAAATACATTAAATAT
*
10298891 TGCATATTCACAAATATGAAAATAAATG-GCAA-TATATGATGTTTATGCTTTAC-ATTTACAAT
1 TGCATATTCACATATATGAAAATAAATGTGCAAGTATATGATG--TATG--TTACGATTTACAAT
** *
10298953 CATAACATTTTGAATTCATTAAATATTACATATTCATTGAT-AGAAAACTAAATGTGTCAACATA
62 CATAACATTTTGAATTCATTAAATATTACATATTCATAAATCAGAAAA-TAAATGTGCCAACATA
* * * *
10299017 TAATATTTATGCACTATTAATTACAGTCGGAAGGTTTTGAATACATTAAATAT
126 T-AGA-TTATGCACTATGAATTACAATCGGAAGGTTTTAAATACATTAAATAT
10299070 TGCATATTCACATATATGAAAATAAATGTG
1 TGCATATTCACATATATGAAAATAAATGTG
10299100 TAAACATAAG
Statistics
Matches: 171, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
172 8 0.05
173 3 0.02
174 35 0.20
175 57 0.33
176 4 0.02
177 1 0.01
179 62 0.36
180 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (176 bp):
TGCATATTCACATATATGAAAATAAATGTGCAAGTATATGATGTATGTTACGATTTACAATCATA
ACATTTTGAATTCATTAAATATTACATATTCATAAATCAGAAAATAAATGTGCCAACATATAGAT
TATGCACTATGAATTACAATCGGAAGGTTTTAAATACATTAAATAT
Found at i:10299250 original size:91 final size:91
Alignment explanation
Indices: 10298785--10300182 Score: 872
Period size: 91 Copynumber: 15.5 Consensus size: 91
10298775 TGTCATAATG
* ** * * * *
10298785 TTTTGAATTCATTAAATATTATATATTCGTAAATCTGAAAATAAATGTGCCAACATATGATG---
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
* * ** **
10298847 -TGCATTGTGATTTACAATTGTAATG
66 ATGCGTTATGATTTACAATCATAACA
* * * * *
10298872 TTTTAAATTCATTAAATATTGCATATTCACAAATATGAAAAT-AA-ATGGCAATATATGATGTTT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
* *
10298935 ATGCTTTA-CATTTACAATCATAACA
66 ATGCGTTATGATTTACAATCATAACA
*** * *
10298960 TTTTGAATTCATTAAATATTACATATTCATTGATA-GAAAACTAAATGTGTCAACATATAATATT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAA-TAAATATGTCAACATATAATGTT
** * * * ** **
10299024 TATGCACTATTAATTACAGTCGGAAGG
65 TATGCGTTATGATTTACAATCATAACA
* * * * * * *
10299051 TTTTGAATACATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATA-AGAAGTG
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATA-ATGTT
* *** * * ** *
10299115 AATTAATTA-GATTTATAGTTGTAATA
65 TATGCGTTATGATTTACAATCATAACA
* * * * *
10299141 TTGTAAATTCATTAAATATTAAATATTCACAAAAATGAAAATAAATATGTCAACTTATAATGTTT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
* * *
10299206 ATACGTTACGATTTATAATCATAACA
66 ATGCGTTATGATTTACAATCATAACA
* * * * *
10299232 TTTTGAATTCATTAAATATTGCATATTCATATATATGAAAATAAATGTGTAAACATACT-A---T
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATA-TAATGTT
* * ** **
10299293 T-TGTGTTATGATTTATAATTGTAATG
65 TATGCGTTATGATTTACAATCATAACA
* * * *
10299319 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
* * * * *
10299384 GTGTGTTATGATTTATAATCATGACG
66 ATGCGTTATGATTTACAATCATAACA
* ** * * * *
10299410 TTTTGAATTCATTAATTATTGTATAATCACAAATATGGAAATAAATATGCCAACATATGATGTTT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
* * * *
10299475 ATTCATTATAATTTACAGTCATAACA
66 ATGCGTTATGATTTACAATCATAACA
* * * * *
10299501 TTTTGAATTCATTAAATATTGCATATTTACATACCTACGCATATATATATATATGT-AA-ATATA
1 TTTTGAATTCATTAAATATTACATATTCACA-A-ATATG-A-A-A-ATAAATATGTCAACATATA
* * * *** * *
10299564 CTATGTAT--GTTATGATTTATTGTCGTAATA
60 ATGTTTATGCGTTATGATTTACAATCATAACA
* * ** *
10299594 TTTTAAATTCATT-AATATTACATATTCACAAATATAAAAATAAATATGTCAGTATATGATGTTT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
* * * * *
10299658 ATACATTACGATGTACAATCTTAACA
66 ATGCGTTATGATTTACAATCATAACA
* * * * * *
10299684 TTTTAAATTCATTAAATATTATATTTTCAC-AATAATGAAAATAAATGTGTCAGCATATGATGTT
1 TTTTGAATTCATTAAATATTACATATTCACAAAT-ATGAAAATAAATATGTCAACATATAATGTT
* * * *
10299748 TATGTGTTACGATTTATATTCATAACA
65 TATGCGTTATGATTTACAATCATAACA
* * * * * *
10299775 TTTTGAATTCATCAAATATTACATATTTACATATATAAAAATAAAATGTGTC-ACGATATGATGT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAAT-AAATATGTCAAC-ATATAATGT
* * * * * ** **
10299839 TTATGCATTATGACTGATAGTTTTAAGG
64 TTATGCGTTATGATTTACAATCATAACA
* * ** * * * * *
10299867 TTTTGTATTTATTAAATATCGCACAATCACAGATATGAAAATAAATATATCAGCATATAA----T
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
** * ** **
10299928 ATGTATTACGATTTACAATTGTAATG
66 ATGCGTTATGATTTACAATCATAACA
* * * * * * * *
10299954 TTTT-AATTCATTAAATATTACATATTCGCATATAAGAAAATAAATATATAAAAATATTATTTTT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
* *
10300018 ATACGTTATAATTTACAATCATAACA
66 ATGCGTTATGATTTACAATCATAACA
* * * * *
10300044 TTTTGAATTCACTAAATATTGCATATTCACAAATAT-AAAAGTAAATGTGCCACCATATAATGTT
1 TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAA-TAAATATGTCAACATATAATGTT
** ** *
10300108 TATGCGTTACAATTTACAATTGTAACG
65 TATGCGTTATGATTTACAATCATAACA
* * **
10300135 TTTTGAATTCATTAAATGTTATATATTCATACAGGTATGAAAATAAAT
1 TTTTGAATTCATTAAATATTACATATTC--ACAAATATGAAAATAAAT
10300183 GATAAAATCT
Statistics
Matches: 1008, Mismatches: 260, Indels: 80
0.75 0.19 0.06
Matches are distributed among these distances:
85 13 0.01
86 54 0.05
87 133 0.13
88 55 0.05
89 8 0.01
90 146 0.14
91 439 0.44
92 93 0.09
93 42 0.04
94 4 0.00
95 10 0.01
96 3 0.00
97 8 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (91 bp):
TTTTGAATTCATTAAATATTACATATTCACAAATATGAAAATAAATATGTCAACATATAATGTTT
ATGCGTTATGATTTACAATCATAACA
Found at i:10299369 original size:178 final size:181
Alignment explanation
Indices: 10299051--10299825 Score: 616
Period size: 178 Copynumber: 4.3 Consensus size: 181
10299041 AGTCGGAAGG
*
10299051 TTTTGAATACATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATAAGAAGTGA
1 TTTTGAATTCATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATAAGAAGTGA
*
10299116 ATTAATTAGATTTATAGTTGTAATATTGTAAATTCATTAAATATTAAATATTCACAAAAATGAAA
66 ATTAATTAGATTTATAATTGTAATATTGTAAATTCATTAAATATTAAATATTCACAAAAATGAAA
*
10299181 ATAAATATGTCAACTTATAATGTTTATACGTTACGATTTATAATCATAACA
131 ATAAATATGTCAACATATAATGTTTATACGTTACGATTTATAATCATAACA
* ** ** *
10299232 TTTTGAATTCATTAAATATTGCATATTCATATATATGAAAATAAATGTGTAAACATACTATTTGT
1 TTTTGAATTCATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATAAGAAGTGA
* * * *
10299297 GTT-A-T-GATTTATAATTGTAATGTTTTAAATTCATTAAATATTATATATTCACAAAAATGAAA
66 ATTAATTAGATTTATAATTGTAATATTGTAAATTCATTAAATATTAAATATTCACAAAAATGAAA
* * ** * * *
10299359 ATAAATATGTCAGCATATAATGTTTGTGTGTTATGATTTATAATCATGACG
131 ATAAATATGTCAACATATAATGTTTATACGTTACGATTTATAATCATAACA
* * * * * * ** * * **
10299410 TTTTGAATTCATTAATTATTGTATAATCACAAATATGGAAATAAATATGCCAACATATGATGTTT
1 TTTTGAATTCATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATAAGAAGTGA
* * * * ** * * * ** * ** *
10299475 ATTCATTATAATTTACAGTCATAACATTTTGAATTCATTAAATATTGCATATTTACATACCTACG
66 ATTAATTA-GATTTATAATTGTAATATTGTAAATTCATTAAATATTAAATATTCACA-A-AAATG
* * * * * ** * *
10299540 CATATATATATATATGT-AA-ATATACTATGTAT--GTTATGATTTATTGTCGTAATA
128 -A-A-A-ATAAATATGTCAACATATAATGTTTATACGTTACGATTTATAATCATAACA
* * * * * * ** * * **
10299594 TTTTAAATTCATT-AATATTACATATTCACAAATATAAAAATAAATATGTCAGTATATGATGTTT
1 TTTTGAATTCATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATAAGAAGTGA
* * * * * * *
10299658 A-TACATTACGATGTACAATCT-TAACATTTTAAATTCATTAAATATTATATTTTCACAATAATG
66 ATTA-ATTA-GATTTATAAT-TGTAATATTGTAAATTCATTAAATATTAAATATTCACAAAAATG
* * * ** *
10299721 AAAATAAATGTGTCAGCATATGATGTTTATGTGTTACGATTTATATTCATAACA
128 AAAATAAATATGTCAACATATAATGTTTATACGTTACGATTTATAATCATAACA
* * * *
10299775 TTTTGAATTCATCAAATATTACATATTTACATATATAAAAATAAAATGTGT
1 TTTTGAATTCATTAAATATTGCATATTCACATATATGAAAAT-AAATGTGT
10299826 CACGATATGA
Statistics
Matches: 475, Mismatches: 101, Indels: 34
0.78 0.17 0.06
Matches are distributed among these distances:
177 8 0.02
178 152 0.32
179 12 0.03
180 3 0.01
181 90 0.19
182 65 0.14
183 93 0.20
184 30 0.06
185 1 0.00
186 10 0.02
187 2 0.00
188 9 0.02
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (181 bp):
TTTTGAATTCATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATAAGAAGTGA
ATTAATTAGATTTATAATTGTAATATTGTAAATTCATTAAATATTAAATATTCACAAAAATGAAA
ATAAATATGTCAACATATAATGTTTATACGTTACGATTTATAATCATAACA
Found at i:10299728 original size:274 final size:270
Alignment explanation
Indices: 10298872--10300070 Score: 857
Period size: 269 Copynumber: 4.4 Consensus size: 270
10298862 AATTGTAATG
** * *
10298872 TTTTAAATTCATTAAATATTGCATATTCACAAATATGAAAAT-AA-ATGGCAATATATGATGTTT
1 TTTTAAATTCATTAAATATTATATATTCACAAA-ATGAAAATAAATATGTCAACATATGATGTTT
* * * * **
10298935 ATGCTTTAC-ATTTACAATCATAACATTTTGAATTCATTAAATATTACATA-TT-CATTGATA-G
65 ATTCGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATATTTACATACATACG
* * * * ** *
10298996 AAAACTAAATGTGTCAACATA-TA-ATAT-TTATGCACTATTAATTACAGTCGGAAGGTTTTGAA
130 AAAA-TAAATATGTAAACATACTATGTATGTTATG-A-T-TT-A-TA-A-TCGTAATATTTTAAA
* * * * * * * * * **
10299058 TACATTAAATATTGCATATTCACATATATGAAAATAAATGTGTAAACATA-AGAAGTGAATTA-A
187 TTCATTAAATATTACATATTCACAAAAATAAAAATAAATATGTCAGCATATA-ATGTTTA-TACA
* * * ** *
10299121 TTA-GATTTATAGTTGTAATA
250 TTACGATGTACAATCATAACA
* * * *
10299141 TTGTAAATTCATTAAATATTAAATATTCACAAAAATGAAAATAAATATGTCAACTTATAATGTTT
1 TTTTAAATTCATTAAATATTATATATTCAC-AAAATGAAAATAAATATGTCAACATATGATGTTT
* * *
10299206 ATACGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATA-TT-CATATATATG
65 ATTCGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATATTTACATACATACG
* * * * *
10299269 AAAATAAATGTGTAAACATACTATTTGTGTTATGATTTATAATTGTAATGTTTTAAATTCATTAA
130 AAAATAAATATGTAAACATACTATGTATGTTATGATTTATAATCGTAATATTTTAAATTCATTAA
* * * *** * *
10299334 ATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTTGTGTGTTATGATTTA
195 ATATTACATATTCACAAAAATAAAAATAAATATGTCAGCATATAATGTTTATACATTACGATGTA
* * *
10299399 TAATCATGACG
260 CAATCATAACA
* * * * * *
10299410 TTTTGAATTCATTAATTATTGTATAATCACAAATATGGAAATAAATATGCCAACATATGATGTTT
1 TTTTAAATTCATTAAATATTATATATTCACAAA-ATGAAAATAAATATGTCAACATATGATGTTT
* ** * * *
10299475 ATTCATTATAATTTACAGTCATAACATTTTGAATTCATTAAATATTGCATATTTACATACCTACG
65 ATTCGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATATTTACATACATACG
* * **
10299540 CATATATATATATATGTAAATATACTATGTATGTTATGATTTATTGTCGTAATATTTTAAATTCA
130 -A-A-A-ATAAATATGTAAACATACTATGTATGTTATGATTTATAATCGTAATATTTTAAATTCA
* * *
10299605 TT-AATATTACATATTCACAAATATAAAAATAAATATGTCAGTATATGATGTTTATACATTACGA
191 TTAAATATTACATATTCACAAAAATAAAAATAAATATGTCAGCATATAATGTTTATACATTACGA
*
10299669 TGTACAATCTTAACA
256 TGTACAATCATAACA
* * *
10299684 TTTTAAATTCATTAAATATTATATTTTCACAATAATGAAAATAAATGTGTCAGCATATGATGTTT
1 TTTTAAATTCATTAAATATTATATATTCACAA-AATGAAAATAAATATGTCAACATATGATGTTT
* * * *
10299749 ATGT-GTTACGATTTATATTCATAACATTTTGAATTCATCAAATATTACATATTTACATATATA-
65 AT-TCGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATATTTACATACATAC
** * * * ** ** **
10299812 -AAAATAAA-ATGTGTCACGATA-TGATGTTTATGCATTATGACTGATAGTTTTAAGGTTTTGTA
129 GAAAATAAATATGT-AAAC-ATACT-ATG--TATG--TTATGATTTATAATCGTAATATTTTAAA
* ** * * * * * * **
10299874 TTTATTAAATATCGCACAATCACAGATATGAAAATAAATATATCAGCATATAA----TATGTATT
187 TTCATTAAATATTACATATTCACAAAAATAAAAATAAATATGTCAGCATATAATGTTTATACATT
* ** **
10299935 ACGATTTACAATTGTAATG
252 ACGATGTACAATCATAACA
* * * * * * *
10299954 TTTT-AATTCATTAAATATTACATATTCGCATATAA-GAAAATAAATATATAAAAATATTATTTT
1 TTTTAAATTCATTAAATATTATATATTCACA-A-AATGAAAATAAATATGTCAACATATGATGTT
* ** * *
10300017 TATACGTTATAATTTACAATCATAACATTTTGAATTCACTAAATATTGCATATT
64 TATTCGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATATT
10300071 CACAAATATA
Statistics
Matches: 751, Mismatches: 149, Indels: 60
0.78 0.16 0.06
Matches are distributed among these distances:
267 5 0.01
268 68 0.09
269 240 0.32
270 38 0.05
271 35 0.05
272 65 0.09
273 33 0.04
274 209 0.28
275 58 0.08
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Consensus pattern (270 bp):
TTTTAAATTCATTAAATATTATATATTCACAAAATGAAAATAAATATGTCAACATATGATGTTTA
TTCGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATATTTACATACATACGA
AAATAAATATGTAAACATACTATGTATGTTATGATTTATAATCGTAATATTTTAAATTCATTAAA
TATTACATATTCACAAAAATAAAAATAAATATGTCAGCATATAATGTTTATACATTACGATGTAC
AATCATAACA
Found at i:10299883 original size:183 final size:181
Alignment explanation
Indices: 10298785--10300163 Score: 782
Period size: 181 Copynumber: 7.7 Consensus size: 181
10298775 TGTCATAATG
* ** ** * * * * **
10298785 TTTTGAATTCATTAAATATTATATATTCGTAAATCTGAAAATAAATGTGCCAACATATGATGTGC
1 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
* ** ** * * *
10298850 AT-TG-T--GATTTACAATTGTAATGTTTTAAATTCATTAAATATTGCATATTCACAAATATGAA
66 ATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAATATAAA
* * * * * *
10298911 AAT-AA-ATGGCAATATATGATGTTTATGCTTTA-CATTTACAATCATAACA
131 AATAAATATGTC-ACATATGATGTTTATGCATTATGATTGACAATCTTAACA
* * *** * * * *
10298960 TTTTGAATTCATTAAATATTACATATTCATTGATA-GAAAACTAAATGTGTCAACATATAATATT
1 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAA-TAAATATGTCAGCATATAATGTT
*** ** * * * ** ** * * * *
10299024 TATGCACTATTAATTACAGTCGGAAGGTTTTGAATACATTAAATATTGCATATTCACATATATGA
65 TATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAATATAA
* * * * ** ** * * * *
10299089 AAATAAATGTGTAAACATAAGAAGTGAATTAATTA-GATTTATAGT-TGTAATA
130 AAATAAATATGT-CACATATGATGTTTATGCATTATGATTGACAATCT-TAACA
* * * *
10299141 TTGTAAATTCATTAAATATTAAATATTCACAAAAATGAAAATAAATATGTCAACTTATAATGTTT
1 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
** * * * *
10299206 ATACGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTGCATATTCATATATATGAA
66 ATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAATATAAA
* * * * * **
10299271 AATAAATGTGTAAACATACT-A--TTTGTG--TTATGATTTATAAT-TGTAATG
131 AATAAATATGT-CACATA-TGATGTTTATGCATTATGATTGACAATCT-TAACA
10299319 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
1 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
* * * * * ** * **
10299384 GTGTGTTATGATTTATAATCATGACGTTTTGAATTCATTAATTATTGTATAATCACAAATATGGA
66 ATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAATATAAA
* * * * * *
10299449 AATAAATATGCCAACATATGATGTTTATTCATTATAATTTACAGTCATAACA
131 AATAAATATGTC-ACATATGATGTTTATGCATTATGATTGACAATCTTAACA
* ** * ** * * *
10299501 TTTTGAATTCATTAAATATTGCATATTTACATACCTACGCATATATATATATATGT-A-AATATA
1 TTTTAAATTCATTAAATATTATATATTCACA-A-AAATG-A-A-A-ATAAATATGTCAGCATATA
* * * * ** * * *
10299564 CTATGTA--TGTTATGATTTATTGTCGTAATATTTTAAATTCATT-AATATTACATATTCACAAA
60 ATGTTTATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAA
* * *
10299626 TATAAAAATAAATATGTCAGTATATGATGTTTATACATTACGA-TGTACAATCTTAACA
125 TATAAAAATAAATATGTCA-CATATGATGTTTATGCATTATGATTG-ACAATCTTAACA
* * * *
10299684 TTTTAAATTCATTAAATATTATATTTTCACAATAATGAAAATAAATGTGTCAGCATATGATGTTT
1 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
* * * *
10299749 ATGTGTTACGATTTATATTCATAACATTTTGAATTCATCAAATATTACATATTTACATATATAAA
66 ATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAATATAAA
* * * * * **
10299814 AATAAAATGTGTCACGATATGATGTTTATGCATTATGACTGATAGTTTTAAGG
131 AAT-AAATATGTCAC-ATATGATGTTTATGCATTATGATTGACAATCTTAACA
** * *** * * * * *
10299867 TTTTGTATTTATTAAATATCGCACAATCACAGATATGAAAATAAATATATCAGCATATAA----T
1 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
* * ** ** * *
10299928 ATGTATTACGATTTACAATTGTAATGTTTT-AATTCATTAAATATTACATATTCGCATATA-AGA
66 ATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAATATA-A
* * * * * * * * * *
10299991 AAATAAATATATAAAAATATTATTTTTATACGTTATAATTTACAATCATAACA
130 AAATAAATATGT-CACATATGATGTTTATGCATTATGATTGACAATCTTAACA
* * ** * * * *
10300044 TTTTGAATTCACTAAATATTGCATATTCACAAATAT-AAAAGTAAATGTGCCACCATATAATGTT
1 TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAA-TAAATATGTCAGCATATAATGTT
* * * ** * * *
10300108 TATGCGTTACAATTTACAATTGTAACGTTTTGAATTCATTAAATGTTATATATTCA
65 TATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCA
10300164 TACAGGTATG
Statistics
Matches: 939, Mismatches: 222, Indels: 79
0.76 0.18 0.06
Matches are distributed among these distances:
174 5 0.01
175 51 0.05
176 4 0.00
177 88 0.09
178 179 0.19
179 85 0.09
180 7 0.01
181 203 0.22
182 96 0.10
183 167 0.18
184 33 0.04
185 1 0.00
186 9 0.01
187 2 0.00
188 9 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (181 bp):
TTTTAAATTCATTAAATATTATATATTCACAAAAATGAAAATAAATATGTCAGCATATAATGTTT
ATGTGTTACGATTTATAATCATAACATTTTGAATTCATTAAATATTACATATTCACAAATATAAA
AATAAATATGTCACATATGATGTTTATGCATTATGATTGACAATCTTAACA
Found at i:10300420 original size:16 final size:16
Alignment explanation
Indices: 10300399--10300429 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10300389 AGAATGTTTA
*
10300399 AATATATATTTATTTC
1 AATATATATATATTTC
10300415 AATATATATATATTT
1 AATATATATATATTT
10300430 GAAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATATATATATTTC
Found at i:10303547 original size:41 final size:41
Alignment explanation
Indices: 10303490--10303572 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
10303480 TCCAACGTAG
10303490 TCCTAAACCTGGTAATTCATGTTTTCGTGTGTATATATATA
1 TCCTAAACCTGGTAATTCATGTTTTCGTGTGTATATATATA
10303531 TCCTAAACCTGGTAATTCATGTTTTCGTGTGTATATATATA
1 TCCTAAACCTGGTAATTCATGTTTTCGTGTGTATATATATA
10303572 T
1 T
10303573 GTATATAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (41 bp):
TCCTAAACCTGGTAATTCATGTTTTCGTGTGTATATATATA
Found at i:10308920 original size:20 final size:19
Alignment explanation
Indices: 10308892--10308930 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
10308882 GCAATATGAG
10308892 ACAAAT-AAATGATGCAAAT
1 ACAAATAAAAT-ATGCAAAT
10308911 ACAAATTAAAATATGCAAAT
1 ACAAA-TAAAATATGCAAAT
10308931 GACCAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (19 bp):
ACAAATAAAATATGCAAAT
Found at i:10310732 original size:719 final size:719
Alignment explanation
Indices: 10309355--10310791 Score: 2831
Period size: 719 Copynumber: 2.0 Consensus size: 719
10309345 TTTTTTGCAT
10309355 TAGAAATATTTATTTATTATTTTAATTTACCAAATGTAGGTAGAAATAAAAATATTAAACTTTCA
1 TAGAAATATTTATTTATTATTTTAATTTACCAAATGTAGGTAGAAATAAAAATATTAAACTTTCA
10309420 CTTAAAAAATTCACATCAAATTTCTTTTAAAATAATTATTTGAATTCCCTATTTATATAGGATCT
66 CTTAAAAAATTCACATCAAATTTCTTTTAAAATAATTATTTGAATTCCCTATTTATATAGGATCT
10309485 CTAAAATTATTTTTCATTCAGAGATATCATCTTATATTCTTATTGTAAAATGATAATGATTCAAT
131 CTAAAATTATTTTTCATTCAGAGATATCATCTTATATTCTTATTGTAAAATGATAATGATTCAAT
10309550 TTGCAAATAATTTGTAATAAAAAGAAAAAACATCAACAGAAGTATTAATAACTTTATTTCAAAAA
196 TTGCAAATAATTTGTAATAAAAAGAAAAAACATCAACAGAAGTATTAATAACTTTATTTCAAAAA
10309615 GATCATGTGATTCCTAAAAAAAAAAAAAATTCTAAACTCTGTATATATGCATAAAAATAAAATAT
261 GATCATGTGATTCCTAAAAAAAAAAAAAATTCTAAACTCTGTATATATGCATAAAAATAAAATAT
10309680 GGGCATAAGTTATAATAAATTAAAATTAAGAAATTATACCCAATGCACTTTAAATATTGGAGCCC
326 GGGCATAAGTTATAATAAATTAAAATTAAGAAATTATACCCAATGCACTTTAAATATTGGAGCCC
10309745 AAAATGGAGAATCAACTAAGCTTAGGAAAAGGAAAGCTATTGGCCCAAAGAAATGATTTGGGCTA
391 AAAATGGAGAATCAACTAAGCTTAGGAAAAGGAAAGCTATTGGCCCAAAGAAATGATTTGGGCTA
*
10309810 GATCTAACAACAATCTAGCCATATTGCCAATTTAGGTCGATCCCTTTTTCTCACCTATAAAACAC
456 GATCTAACAACAATCTAGCCATACTGCCAATTTAGGTCGATCCCTTTTTCTCACCTATAAAACAC
10309875 AACTCTTTTTTTTTTCACTTCATTTCATCTCCTAACCAGAGAAAAAATCTTCTCTCTCCAAAAAA
521 AACTCTTTTTTTTTTCACTTCATTTCATCTCCTAACCAGAGAAAAAATCTTCTCTCTCCAAAAAA
10309940 ATAAAAAATATGCTGGCCACCTCCATAAACCTAAACCCATATTCCAACAACAACCTCTGTCCATG
586 ATAAAAAATATGCTGGCCACCTCCATAAACCTAAACCCATATTCCAACAACAACCTCTGTCCATG
10310005 CTGTCGTTGCCATTACCAATTGACTTTCAGAACTCATCCAAATAAAGCTTTTATCCTCTTTCCAT
651 CTGTCGTTGCCATTACCAATTGACTTTCAGAACTCATCCAAATAAAGCTTTTATCCTCTTTCCAT
10310070 TTTA
716 TTTA
10310074 TAGAAATATTTATTTATTATTTTAATTTACCAAATGTAGGTAGAAATAAAAATATTAAACTTTCA
1 TAGAAATATTTATTTATTATTTTAATTTACCAAATGTAGGTAGAAATAAAAATATTAAACTTTCA
10310139 CTTAAAAAATTCACATCAAATTTCTTTTAAAATAATTATTTGAATTCCCTATTTATATAGGATCT
66 CTTAAAAAATTCACATCAAATTTCTTTTAAAATAATTATTTGAATTCCCTATTTATATAGGATCT
10310204 CTAAAATTATTTTTCATTCAGAGATATCATCTTATATTCTTATTGTAAAATGATAATGATTCAAT
131 CTAAAATTATTTTTCATTCAGAGATATCATCTTATATTCTTATTGTAAAATGATAATGATTCAAT
10310269 TTGCAAATAATTTGTAATAAAAAGAAAAAACATCAACAGAAGTATTAATAACTTTATTTCAAAAA
196 TTGCAAATAATTTGTAATAAAAAGAAAAAACATCAACAGAAGTATTAATAACTTTATTTCAAAAA
10310334 GATCATGTGATTCCTAAAAAAAAAAAAAATTCTAAACTCTGTATATATGCATAAAAATAAAATAT
261 GATCATGTGATTCCTAAAAAAAAAAAAAATTCTAAACTCTGTATATATGCATAAAAATAAAATAT
10310399 GGGCATAAGTTATAATAAATTAAAATTAAGAAATTATACCCAATGCACTTTAAATATTGGAGCCC
326 GGGCATAAGTTATAATAAATTAAAATTAAGAAATTATACCCAATGCACTTTAAATATTGGAGCCC
*
10310464 AAAATGGAGAATCAACTAAGCTTGGGAAAAGGAAAGCTATTGGCCCAAAGAAATGATTTGGGCTA
391 AAAATGGAGAATCAACTAAGCTTAGGAAAAGGAAAGCTATTGGCCCAAAGAAATGATTTGGGCTA
*
10310529 -ATCTAACAACACTCTAGCCATACTGCCAATTTAGGTCGATCCCTTTTTCTCAACCTATAAAACA
456 GATCTAACAACAATCTAGCCATACTGCCAATTTAGGTCGATCCCTTTTTCTC-ACCTATAAAACA
10310593 CAACTCTTTTTTTTTTCACTTCATTTCATCTCCTAACCAGAGAAAAAATCTTCTCTCTCCAAAAA
520 CAACTCTTTTTTTTTTCACTTCATTTCATCTCCTAACCAGAGAAAAAATCTTCTCTCTCCAAAAA
10310658 AATAAAAAATATGCTGGCCACCTCCATAAACCTAAACCCATATTCCAACAACAACCTCTGTCCAT
585 AATAAAAAATATGCTGGCCACCTCCATAAACCTAAACCCATATTCCAACAACAACCTCTGTCCAT
10310723 GCTGTCGTTGCCATTACCAATTGACTTTCAGAACTCATCCAAATAAAGCTTTTATCCTCTTTCCA
650 GCTGTCGTTGCCATTACCAATTGACTTTCAGAACTCATCCAAATAAAGCTTTTATCCTCTTTCCA
10310788 TTTT
715 TTTT
10310792 TCTAGCTAGT
Statistics
Matches: 714, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
718 49 0.07
719 665 0.93
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (719 bp):
TAGAAATATTTATTTATTATTTTAATTTACCAAATGTAGGTAGAAATAAAAATATTAAACTTTCA
CTTAAAAAATTCACATCAAATTTCTTTTAAAATAATTATTTGAATTCCCTATTTATATAGGATCT
CTAAAATTATTTTTCATTCAGAGATATCATCTTATATTCTTATTGTAAAATGATAATGATTCAAT
TTGCAAATAATTTGTAATAAAAAGAAAAAACATCAACAGAAGTATTAATAACTTTATTTCAAAAA
GATCATGTGATTCCTAAAAAAAAAAAAAATTCTAAACTCTGTATATATGCATAAAAATAAAATAT
GGGCATAAGTTATAATAAATTAAAATTAAGAAATTATACCCAATGCACTTTAAATATTGGAGCCC
AAAATGGAGAATCAACTAAGCTTAGGAAAAGGAAAGCTATTGGCCCAAAGAAATGATTTGGGCTA
GATCTAACAACAATCTAGCCATACTGCCAATTTAGGTCGATCCCTTTTTCTCACCTATAAAACAC
AACTCTTTTTTTTTTCACTTCATTTCATCTCCTAACCAGAGAAAAAATCTTCTCTCTCCAAAAAA
ATAAAAAATATGCTGGCCACCTCCATAAACCTAAACCCATATTCCAACAACAACCTCTGTCCATG
CTGTCGTTGCCATTACCAATTGACTTTCAGAACTCATCCAAATAAAGCTTTTATCCTCTTTCCAT
TTTA
Found at i:10311760 original size:87 final size:87
Alignment explanation
Indices: 10311652--10312112 Score: 356
Period size: 87 Copynumber: 5.2 Consensus size: 87
10311642 CACATGTATG
* * * * * *
10311652 AAATAAATGTGTTAGTGTATGATGTGCATTATGATTTATAGTCATAATGTTTTGAATCCATTAGA
1 AAATAAATGTGTCAATATATGATGTGCATTATGATTTATAGTCATAATGTTTTAAATTCATTAAA
*
10311717 TATTACATATTCACAAATATGA
66 TATTACATATTCACAAATATAA
* ** * *
10311739 AAATAAATGTGCCAATATATGATGTGCAGGATGATTTACAGTCGTAATGTTTTAAATTCATTAAA
1 AAATAAATGTGTCAATATATGATGTGCATTATGATTTATAGTCATAATGTTTTAAATTCATTAAA
*
10311804 TATTATATACTT-ACAAATATAA
66 TATTACATA-TTCACAAATATAA
* * * * * * **
10311826 AAATAAATATGTTAATATATGATGTTTATGCTTTA-CATTTACAATCATAACATTTTAAATTCAT
1 AAATAAATGTGTCAATATATGATG----TGCATTATGATTTATAGTCATAATGTTTTAAATTCAT
* * * *
10311890 TAAATATTATATATTCATAGATGTAA
62 TAAATATTACATATTCACAAATATAA
* * * * *
10311916 AAATAAATGTGTCAGCATATGAT-ATTTATACGTTATGATTTATAGTCA-AAAGCTTTTGAATAT
1 AAATAAATGTGTCA--ATAT-ATGA--TGTGCATTATGATTTATAGTCATAATG-TTTTAAAT-T
* * * *
10311979 -ATTAAATATTGCATACTCACATATATGA
59 CATTAAATATTACATATTCACAAATATAA
* * * * * *
10312007 AAATAAATGTGTAAACATAAGATGTGTATTAATTAGATTTATAGTCGTAATATATTTTAAATTCA
1 AAATAAATGTGTCAATATATGATGTGCATT-A-T-GATTTATAGTCAT-A-ATGTTTTAAATTCA
*
10312072 TTAAATATTACATATTCACAAAAATAA
61 TTAAATATTACATATTCACAAATATAA
*
10312099 AAATAAATATGTCA
1 AAATAAATGTGTCA
10312113 GCTTATAATG
Statistics
Matches: 289, Mismatches: 63, Indels: 39
0.74 0.16 0.10
Matches are distributed among these distances:
87 96 0.33
88 4 0.01
89 7 0.02
90 74 0.26
91 55 0.19
92 49 0.17
93 3 0.01
94 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (87 bp):
AAATAAATGTGTCAATATATGATGTGCATTATGATTTATAGTCATAATGTTTTAAATTCATTAAA
TATTACATATTCACAAATATAA
Found at i:10311899 original size:90 final size:89
Alignment explanation
Indices: 10311701--10312171 Score: 299
Period size: 91 Copynumber: 5.2 Consensus size: 89
10311691 AGTCATAATG
* * * * * * * **
10311701 TTTTGAATCCATTAGATATTACATATTCACAAATATGAAAATAAATGTGCCAATATATGATGTGC
1 TTTTAAATTCATTAAATATTACATATT-ACAAATATAAAAATAAATATGTCAACATATGATGTTT
** * * * **
10311766 A-GGA-T-GATTTACAGTCGTAATG
65 ATACATTACATTTACAATCATAACA
* * *
10311788 TTTTAAATTCATTAAATATTATATACTTACAAATATAAAAATAAATATGTTAATATATGATGTTT
1 TTTTAAATTCATTAAATATTACATA-TTACAAATATAAAAATAAATATGTCAACATATGATGTTT
* *
10311853 ATGCTTTACATTTACAATCATAACA
65 ATACATTACATTTACAATCATAACA
* * * * *
10311878 TTTTAAATTCATTAAATATTATATATT-CATAGATGTAAAAATAAATGTGTCAGCATATGATATT
1 TTTTAAATTCATTAAATATTACATATTACA-A-ATATAAAAATAAATATGTCAACATATGATGTT
* * * * *
10311942 TATACGTTATGATTTATAGTCAAAAGC-
64 TATACATTA-CATTTACAATCATAA-CA
* * * * * * * * *
10311969 TTTTGAATAT-ATTAAATATTGCATACTCACATATATGAAAATAAATGTGTAAACATAAGATGTG
1 TTTTAAAT-TCATTAAATATTACATA-TTACAAATATAAAAATAAATATGTCAACATATGATGTT
* * * * *
10312033 TATTA-ATTAGATTTATAGTCGTAATATA
64 TA-TACATTACATTTACAATCAT-A-ACA
* * * *
10312061 TTTTAAATTCATTAAATATTACATATTCACAAAAATAAAAATAAATATGTCAGCTTATAATGTTT
1 TTTTAAATTCATTAAATATTACATATT-ACAAATATAAAAATAAATATGTCAACATATGATGTTT
*
10312126 ATACATTACAATTTACAATCATAACG
65 ATACATTAC-ATTTACAATCATAACA
** *
10312152 TTTGGAATCCATTAAATATT
1 TTTTAAATTCATTAAATATT
10312172 GAATATTCAT
Statistics
Matches: 298, Mismatches: 67, Indels: 34
0.75 0.17 0.09
Matches are distributed among these distances:
87 53 0.18
88 5 0.02
89 4 0.01
90 81 0.27
91 84 0.28
92 60 0.20
93 11 0.04
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (89 bp):
TTTTAAATTCATTAAATATTACATATTACAAATATAAAAATAAATATGTCAACATATGATGTTTA
TACATTACATTTACAATCATAACA
Found at i:10312182 original size:34 final size:34
Alignment explanation
Indices: 10312144--10312213 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
10312134 CAATTTACAA
*
10312144 TCATAACGTTTGGAATCCATTAAATATTGAATAT
1 TCATAACATTTGGAATCCATTAAATATTGAATAT
* * * *
10312178 TCATAATATTTTGAATTCATTAAATATTGCATAT
1 TCATAACATTTGGAATCCATTAAATATTGAATAT
10312212 TC
1 TC
10312214 GCAAATATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (34 bp):
TCATAACATTTGGAATCCATTAAATATTGAATAT
Found at i:10312213 original size:18 final size:17
Alignment explanation
Indices: 10312161--10312213 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
10312151 GTTTGGAATC
10312161 CATTAAATATTGAATATT
1 CATTAAATATTG-ATATT
*
10312179 CA-TAATATTTTGA-ATT
1 CATTAA-ATATTGATATT
10312195 CATTAAATATTGCATATT
1 CATTAAATATTG-ATATT
10312213 C
1 C
10312214 GCAAATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 10 0.34
17 8 0.28
18 11 0.38
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (17 bp):
CATTAAATATTGATATT
Found at i:10312464 original size:91 final size:91
Alignment explanation
Indices: 10312178--10313028 Score: 599
Period size: 91 Copynumber: 9.4 Consensus size: 91
10312168 TATTGAATAT
* * * * *
10312178 TCATAATATTTTGAATTCATTAAATATTGCATATTCGCAAATATGAAAATAAATTTGTCATCACA
1 TCATAATATTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACATA
*
10312243 TGATGTTTATGCATTAAGATTTATAG
66 TGATGTTTATGCATTACGATTTATAG
* *** * * *
10312269 TC------TTTTAAATTCATTAAATATTGCATATTCATGTATATGAAAATAAATGTGTAAACATA
1 TCATAATATTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACATA
* * * *
10312328 T--T-ATT-TGTATTATGATTTATAA
66 TGATGTTTATGCATTACGATTTATAG
** * * *
10312350 TTGTAATGTTTTAAATTCATTAAATATTGCATAATCACAAAAATGAAAATAAATATGTCAACATA
1 TCATAATATTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACATA
** * * *
10312415 AAATGTTTATGCCTTAGGATTTATAA
66 TGATGTTTATGCATTACGATTTATAG
* * * * * * * *
10312441 TCATAATGTTTTGAATTCATTAAATATTGTATAATCACATATATGAAAATAAATGTGCCAGCATA
1 TCATAATATTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACATA
***
10312506 TGATGTTTATTTGTTACGATTTATAG
66 TGATGTTTATGCATTACGATTTATAG
* * * * * * *
10312532 TCCTAACATTTTGAATTCATTAAATATTGCATATTCACATTATAT-ATATATATATATAT-ATA-
1 TCATAATATTTTGAATTCATTAAATATTGCATATTCACA-AAAATGA-AAATAAATATGTCA-AC
* * *
10312594 ATATGTAAGTATACTATACATGTTACAATTTATAG
63 ATATG-ATGT-T--TATGCA--TTACGATTTATAG
* * *
10312629 TCATAATATTTTAAATTCATTAAATATTGCATATTCACAAAAATAAAAATAAATATGTCAATATA
1 TCATAATATTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACATA
* ** * *
10312694 TGATATTTATGTGTTATGATTTACAG
66 TGATGTTTATGCATTACGATTTATAG
* * * * * * * ** * * *
10312720 TCTTGAACATTTTAAATTTATTAAATATTACATTTTCATAACTATAAAAATAAATGTGTCAGCAT
1 TCAT-AATATTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACAT
* *
10312785 ATGATGTTTATGCGTTACGATTTATAT
65 ATGATGTTTATGCATTACGATTTATAG
** * * * * * ***
10312812 TTGTAACATTTTGAATTCATTAAATATTACATATTTACATAGA-GAAAAATAAATATGTTGCCAT
1 TCATAATATTTTGAATTCATTAAATATTGCATATTCACAAAAATG-AAAATAAATATGTCAACAT
* *
10312876 ATGATGTTTATGCATTATGATTTACAG
65 ATGATGTTTATGCATTACGATTTATAG
* * ** * * * *
10312903 TCATAA-AGTTTTGTATTTATTAAATATCACATATTCACATAAATGAAAATAAATGTTTCGACAT
1 TCATAATA-TTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACAT
* *
10312967 ATGA----TATGCGTTACGATTTACAG
65 ATGATGTTTATGCATTACGATTTATAG
* *
10312990 TTGA-AATATTTTAAATTCATTAAATATTGCATATTCACA
1 -TCATAATATTTTGAATTCATTAAATATTGCATATTCACA
10313029 TATGTTATAA
Statistics
Matches: 604, Mismatches: 128, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
81 15 0.02
82 2 0.00
83 1 0.00
85 49 0.08
87 95 0.16
88 3 0.00
89 1 0.00
90 3 0.00
91 267 0.44
92 90 0.15
93 4 0.01
95 4 0.01
96 15 0.02
97 55 0.09
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (91 bp):
TCATAATATTTTGAATTCATTAAATATTGCATATTCACAAAAATGAAAATAAATATGTCAACATA
TGATGTTTATGCATTACGATTTATAG
Found at i:10312862 original size:183 final size:178
Alignment explanation
Indices: 10312636--10313030 Score: 465
Period size: 183 Copynumber: 2.2 Consensus size: 178
10312626 TAGTCATAAT
* * *
10312636 ATTTTAAATTCATTAAATATTGCATATTCACAAAAATAAAAATAAATATGTCAATATATGATATT
1 ATTTTAAATTCATTAAATATTGCATATTCACATAAAGAAAAATAAATATGTCAACATATGATATT
** * * *
10312701 TATGTGTTATGATTTACAGTCTTGAACA-TTTTAAATTTATTAAATATTACAT-TT-TCATAACT
66 TATGCATTATGATTTACAGTCAT-AA-AGTTTTAAATTTATTAAATATCACATATTCACATAA--
* * *
10312763 ATAAAAATAAATGTGTC-AGCATATGATGTTTATGCGTTACGATTTATATTTGTAAC
127 ATAAAAATAAATGTGTCGA-CATATGA----TATGCGTTACGATTTACAGTTGAAAC
* * * * *** *
10312819 ATTTTGAATTCATTAAATATTACATATTTACATAGAGAAAAATAAATATGTTGCCATATGATGTT
1 ATTTTAAATTCATTAAATATTGCATATTCACATAAAGAAAAATAAATATGTCAACATATGATATT
** *
10312884 TATGCATTATGATTTACAGTCATAAAGTTTTGTATTTATTAAATATCACATATTCACATAAATGA
66 TATGCATTATGATTTACAGTCATAAAGTTTTAAATTTATTAAATATCACATATTCACATAAATAA
* *
10312949 AAATAAATGTTTCGACATATGATATGCGTTACGATTTACAGTTGAAAT
131 AAATAAATGTGTCGACATATGATATGCGTTACGATTTACAGTTGAAAC
10312997 ATTTTAAATTCATTAAATATTGCATATTCACATA
1 ATTTTAAATTCATTAAATATTGCATATTCACATA
10313031 TGTTATAATA
Statistics
Matches: 181, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
178 53 0.29
181 1 0.01
182 45 0.25
183 77 0.43
184 5 0.03
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (178 bp):
ATTTTAAATTCATTAAATATTGCATATTCACATAAAGAAAAATAAATATGTCAACATATGATATT
TATGCATTATGATTTACAGTCATAAAGTTTTAAATTTATTAAATATCACATATTCACATAAATAA
AAATAAATGTGTCGACATATGATATGCGTTACGATTTACAGTTGAAAC
Found at i:10314651 original size:17 final size:18
Alignment explanation
Indices: 10314620--10314666 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
10314610 ATTGATAATA
10314620 TATTAAATTAATTATTTTT
1 TATT-AATTAATTATTTTT
*
10314639 T-TTAATTAGTTATTTTT
1 TATTAATTAATTATTTTT
10314656 TATTAAATTAA
1 TATT-AATTAA
10314667 AATATTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 14 0.58
18 4 0.17
19 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TATTAATTAATTATTTTT
Found at i:10315000 original size:32 final size:29
Alignment explanation
Indices: 10314921--10315038 Score: 114
Period size: 32 Copynumber: 3.8 Consensus size: 29
10314911 TAATAACATG
*
10314921 TTTTTATAAATGATAAGAAAATTTTTATTTAA
1 TTTTT-TAAATGATA--TAAATTTTTATTTAA
*
10314953 TATTTTAAAATGATATGGAAATTTTTATTTAA
1 T-TTTTTAAATGATAT--AAATTTTTATTTAA
*
10314985 TTTTTTAAATAGATAT-AATTTTTACTTAA
1 TTTTTTAAAT-GATATAAATTTTTATTTAA
10315014 -TTTTTAGAATGATATCAAATTTTTA
1 TTTTTTA-AATGATAT-AAATTTTTA
10315039 AAAGGATTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
28 11 0.15
29 15 0.20
30 8 0.11
31 8 0.11
32 29 0.39
33 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (29 bp):
TTTTTTAAATGATATAAATTTTTATTTAA
Found at i:10316647 original size:2 final size:2
Alignment explanation
Indices: 10316642--10316666 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10316632 ATTTACTTTA
10316642 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 A
10316667 AAAGCTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10326783 original size:57 final size:57
Alignment explanation
Indices: 10326661--10326871 Score: 157
Period size: 57 Copynumber: 3.7 Consensus size: 57
10326651 TTTAAAGAAT
* * * * * ** *
10326661 GATATAATTTTATAGAAACTCATAAACAATTTTTTATT-AAATGCTTATAAAA-GAGA
1 GATAAAATTTTATAAAAATTCATATACAATATTTTATTGAAATTTTTA-AAAATTAGA
* * * *
10326717 GATACAATTTTATAGAATTTTATATTTA-AAT-TTTTATTGAAATTTTTAAAAATTAGA
1 GATAAAATTTTATAAAAATTCATA--TACAATATTTTATTGAAATTTTTAAAAATTAGA
* * *
10326774 GATAAAATTTTATAAAAATTCATATACAATATTTTATTGAACTTTTTAGGAAA-GAGA
1 GATAAAATTTTATAAAAATTCATATACAATATTTTATTGAAATTTTTA-AAAATTAGA
* *
10326831 GA-AATAATTTTATAAAAAAGTT-ATATATAATTTTTTATTGA
1 GATAA-AATTTTAT-AAAAA-TTCATATACAATATTTTATTGA
10326872 CTGAGAGATA
Statistics
Matches: 128, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
55 2 0.02
56 36 0.28
57 62 0.48
58 26 0.20
59 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (57 bp):
GATAAAATTTTATAAAAATTCATATACAATATTTTATTGAAATTTTTAAAAATTAGA
Found at i:10333407 original size:133 final size:133
Alignment explanation
Indices: 10333248--10333510 Score: 427
Period size: 133 Copynumber: 2.0 Consensus size: 133
10333238 TATAAAATGG
10333248 TGTCATCTTAAAATGGAGTCCACTAAAATGACACCATTTGGTGTTGCATAATGCTTGTCATAAAG
1 TGTCATCTTAAAATGGAGTCCACTAAAATGACACCATTTGGTGTTGCATAATGCTTGTCATAAAG
* * * * *
10333313 GATTAACCTAAAATGGTTAATGATAAACTCTTGGTTAAAGACCAGGTCATAAGGCAAAGGCATGT
66 GATGAACCTAAAATGGTTAATGAGAAACTCTTGGCTAAAGACAAGGTCATAAGACAAAGGCATGT
10333378 GTA
131 GTA
* * * *
10333381 TGTCATTTTAAAATGGAGTCTACTAAAATGGCACCATTTGGTGTTGGATAATGCTTGTCATAAAG
1 TGTCATCTTAAAATGGAGTCCACTAAAATGACACCATTTGGTGTTGCATAATGCTTGTCATAAAG
* *
10333446 GATGAACTTAAAATGGTTAATGAGAAACTCTTGGCTAAAGACAAGGTCATGAGACAAAGGCATGT
66 GATGAACCTAAAATGGTTAATGAGAAACTCTTGGCTAAAGACAAGGTCATAAGACAAAGGCATGT
10333511 ATGACATTAT
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 119 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (133 bp):
TGTCATCTTAAAATGGAGTCCACTAAAATGACACCATTTGGTGTTGCATAATGCTTGTCATAAAG
GATGAACCTAAAATGGTTAATGAGAAACTCTTGGCTAAAGACAAGGTCATAAGACAAAGGCATGT
GTA
Found at i:10335095 original size:99 final size:100
Alignment explanation
Indices: 10334909--10335105 Score: 279
Period size: 99 Copynumber: 2.0 Consensus size: 100
10334899 TTGCTTTCCT
* *
10334909 TTAAATTAAAAATTTATCCAAACAAAAGAAAGATTTTTTTCTATTTTCATTGCTTTCTTTTATTT
1 TTAAATTAAAAATTTATCCAAACAAAAGAAAGA-TTTTTTCTATTTTCACTACTTTCTTTTATTT
* *
10334974 TCCTTTCCTCCCCCTCATCTCAATCGAAACATAGTG
65 TCCTTTCCTCCCCCTCACCTCAATCCAAACATAGTG
* *
10335010 TTAAATTAAAAGTTTATCCAAACAAAGGAAAGA-TTTTTCTATTTTCACTACTTTCTTTTATTTT
1 TTAAATTAAAAATTTATCCAAACAAAAGAAAGATTTTTTCTATTTTCACTACTTTCTTTTATTTT
* * ** *
10335074 CTTTTCCTTCTTCTCCCCTCAATCCAAACATA
66 CCTTTCCTCCCCCTCACCTCAATCCAAACATA
10335106 ATGTAAGTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 54 0.64
101 31 0.36
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.43
Consensus pattern (100 bp):
TTAAATTAAAAATTTATCCAAACAAAAGAAAGATTTTTTCTATTTTCACTACTTTCTTTTATTTT
CCTTTCCTCCCCCTCACCTCAATCCAAACATAGTG
Found at i:10340372 original size:21 final size:21
Alignment explanation
Indices: 10340346--10340386 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10340336 ATGCATTAGA
*
10340346 AGCCAAGGCTTGGACACCAAT
1 AGCCAAGGCTTGCACACCAAT
10340367 AGCCAAGGCTTGCACACCAA
1 AGCCAAGGCTTGCACACCAA
10340387 CAACAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.32, G:0.22, T:0.12
Consensus pattern (21 bp):
AGCCAAGGCTTGCACACCAAT
Found at i:10342833 original size:49 final size:52
Alignment explanation
Indices: 10342758--10342873 Score: 141
Period size: 49 Copynumber: 2.3 Consensus size: 52
10342748 TACAACTGCC
* * *
10342758 TTAAGAATCCCTCTCCTGTTAGAATTCTTCTCCTGTAAGTC-AA-TT-GCCTA
1 TTAAGAATCTCTTTCCTGTTAGAATTCTTCTCCTG-AAGTCAAACTTAACCTA
* * *
10342808 TTAAGAATCT-TTTCCTTTTAGAATTCTTCTCTTGCAGTCAAACTTAACCTA
1 TTAAGAATCTCTTTCCTGTTAGAATTCTTCTCCTGAAGTCAAACTTAACCTA
10342859 TTAAGAATCTCTTTC
1 TTAAGAATCTCTTTC
10342874 TCTTGAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
48 4 0.07
49 23 0.41
50 11 0.20
51 14 0.25
52 4 0.07
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.41
Consensus pattern (52 bp):
TTAAGAATCTCTTTCCTGTTAGAATTCTTCTCCTGAAGTCAAACTTAACCTA
Found at i:10343275 original size:23 final size:23
Alignment explanation
Indices: 10343225--10343282 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
10343215 TAACTCGTCC
10343225 CATCTCGAACTTTCAGCTCTTTCAA
1 CATCTCGAA--TTCAGCTCTTTCAA
*
10343250 CATCTCGAATTCGGCTCTTTTC-A
1 CATCTCGAATTCAGCTC-TTTCAA
*
10343273 CATCTTGAAT
1 CATCTCGAAT
10343283 CTTCAACTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 17 0.57
24 4 0.13
25 9 0.30
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.38
Consensus pattern (23 bp):
CATCTCGAATTCAGCTCTTTCAA
Found at i:10343927 original size:48 final size:50
Alignment explanation
Indices: 10343838--10343977 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 50
10343828 TACAATTGCC
* * * *
10343838 ATTAAGAATCC-CTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTGCCT
1 ATTAAGAATCCTCT-TTCT-TTAGAATTCTTCTCTTGCAAGTCAAACTACCT
* *
10343889 ATTAAGAATTCT-TTTCTTTAGAATT-TTCTCTTGCAAGTCAAATTACCT
1 ATTAAGAATCCTCTTTCTTTAGAATTCTTCTCTTGCAAGTCAAACTACCT
* *
10343937 ATTAAGAATCCTCTTTCTCT-GAAATTCTTCTTTTGCAAGTC
1 ATTAAGAATCCTCTTTCTTTAG-AATTCTTCTCTTGCAAGTC
10343978 TTCTTGTCCA
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
48 31 0.41
49 18 0.24
50 16 0.21
51 11 0.14
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.41
Consensus pattern (50 bp):
ATTAAGAATCCTCTTTCTTTAGAATTCTTCTCTTGCAAGTCAAACTACCT
Found at i:10344027 original size:22 final size:22
Alignment explanation
Indices: 10344002--10344044 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10343992 GCAATATCTG
*
10344002 ACAAATCCCAAATAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
10344024 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
10344045 TATGGGATTT
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:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:10345482 original size:14 final size:16
Alignment explanation
Indices: 10345465--10345498 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
10345455 TTATTTTTTT
10345465 TTTTCAAAAA-AAA-A
1 TTTTCAAAAAGAAATA
10345479 TTTTCAAAAAGAAATA
1 TTTTCAAAAAGAAATA
10345495 TTTT
1 TTTT
10345499 TGAGAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 3 0.17
16 5 0.28
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
TTTTCAAAAAGAAATA
Found at i:10345565 original size:61 final size:59
Alignment explanation
Indices: 10345483--10345770 Score: 393
Period size: 61 Copynumber: 4.8 Consensus size: 59
10345473 AAAAAATTTT
10345483 CAAAAAGAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 CAAAAA-AAATATTTTTGAG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
*
10345544 CAAAAAAAATACTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 CAAAAAAAATA-TTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
*
10345604 TAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 -CAAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
* * * * *
10345665 TAAAAAAAATATTTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-TTT-
1 CAAAAAAAATA-TTTTT-GAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTC
* *
10345725 C-TAAAAAATATTTTGGAGAAAAGTTGAAAGTATCAATTTTTCCTTG
1 CAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAA-TTTTCCTTG
10345771 TATAAAAGCA
Statistics
Matches: 206, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
57 20 0.10
58 11 0.05
59 8 0.04
60 61 0.30
61 101 0.49
62 5 0.02
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.35
Consensus pattern (59 bp):
CAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
Found at i:10345616 original size:121 final size:121
Alignment explanation
Indices: 10345471--10345770 Score: 423
Period size: 121 Copynumber: 2.5 Consensus size: 121
10345461 TTTTTTTTCA
* * *
10345471 AAAAAAAATTTTC-AAAAAGAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
1 AAAATAAAGTTTCTAAAAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAA
* *
10345535 TAAGCTTTCCAAAAAAAATA-CTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTG
65 TAAGCTTTCCAAAAAAAATATCTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTCG
10345591 AAAAT-AAGCTTTCTAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
1 AAAATAAAG-TTTCTAAAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTGAAA
* * * *
10345655 ATAAGCTTTCTAAAAAAAATATTTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTCG
64 ATAAGCTTTCCAAAAAAAATATCTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTCG
* *
10345713 AAATTAAAGTTTCT---AAAAAATATTTTGGAGAAAAGTTGAAAGTATCAATTTTTCCTTG
1 AAAATAAAGTTTCTAAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAA-TTTTCCTTG
10345771 TATAAAAGCA
Statistics
Matches: 163, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
118 19 0.12
119 25 0.15
120 8 0.05
121 67 0.41
122 41 0.25
123 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (121 bp):
AAAATAAAGTTTCTAAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
AAGCTTTCCAAAAAAAATATCTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTCG
Found at i:10350514 original size:15 final size:15
Alignment explanation
Indices: 10350453--10350507 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
10350443 TCAACAATGG
10350453 ATGAAAAATAAGAAAAA
1 ATGAAAAAT-A-AAAAA
* **
10350470 ATGAAAAA-AAGATG
1 ATGAAAAATAAAAAA
10350484 ATGAAAAATAAAAAA
1 ATGAAAAATAAAAAA
10350499 ATGAAAAAT
1 ATGAAAAAT
10350508 GGAAAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 10 0.32
15 13 0.42
17 8 0.26
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.15
Consensus pattern (15 bp):
ATGAAAAATAAAAAA
Found at i:10351932 original size:43 final size:42
Alignment explanation
Indices: 10351867--10351948 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
10351857 GCCTTTGAAC
* *
10351867 TCAAATGAGAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTGAATTTTTGGATATGAAT-TCCAAAAT
10351910 TCAAATGAAAAGCTTT-AGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTGA-ATTTTTGGATATGAATTCCAA
10351949 GTTTGCGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 6 0.17
43 30 0.83
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTGAATTTTTGGATATGAATTCCAAAAT
Found at i:10352313 original size:42 final size:42
Alignment explanation
Indices: 10352252--10352584 Score: 384
Period size: 42 Copynumber: 7.8 Consensus size: 42
10352242 AGCAATTTGC
**
10352252 TTTTC-AAAGTCACTGAGCCTCTGATTAGAGGAGCCATTTAT
1 TTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* * *
10352293 TTTTCTAAAGTCGTTAAGCCTCTTATTAGAGAAGCCATTTAT
1 TTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* ** *
10352335 TTTTCAAAAGTTATTGAGCCTCTGATTAGAGGAGCAATTTAT
1 TTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* *
10352377 TTTTCTAAAGTCATTGAGCCTCTGATTA-ACGGAGCTATTTAT
1 TTTTCTAAAGTCGTTGAGCCTCTGATTAGA-GGAGCCATTTAT
* **
10352419 TTTTCTAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGTTTAT
1 TTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGC--CATTTAT
*
10352463 TTTTCTAAAGTCGTTGAGCCTCTGATTAGATGAGCCATTTAT
1 TTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
* **
10352505 TTTTCAAAAGTCGTTGAGCCTCTGATTAGA-GACGCTTTGTTTAT
1 TTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGA-GC--CATTTAT
* * * *
10352549 GTTTCTCAAAGTCGTTAAGCCTGTGCTTAGAGGAGC
1 TTTTCT-AAAGTCGTTGAGCCTCTGATTAGAGGAGC
10352585 TTTGATCAAA
Statistics
Matches: 254, Mismatches: 28, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
41 8 0.03
42 172 0.68
43 1 0.00
44 48 0.19
45 23 0.09
46 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (42 bp):
TTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
Found at i:10354649 original size:60 final size:59
Alignment explanation
Indices: 10354577--10354855 Score: 316
Period size: 60 Copynumber: 4.7 Consensus size: 59
10354567 TAAAAATTTT
* *
10354577 CAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 CAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTC
* *
10354637 CAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
1 CAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTC
** * *
10354696 CAAAAATGGAT-TTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 CAAAAA-AAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTC
* * * *
10354755 TAAAAAAAATATTTTT-ATGAAAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAGTTTT
1 CAAAAAAAATATTTTTGA-G-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTC
*** * *
10354815 C-AAAAATGGATTTTTGA-AGAAAAGTTGAGAGTATTAATTTT
1 CAAAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTT
10354856 TCTCGAAATT
Statistics
Matches: 187, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
57 1 0.01
58 56 0.30
59 39 0.21
60 59 0.32
61 32 0.17
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (59 bp):
CAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTC
Found at i:10354728 original size:118 final size:119
Alignment explanation
Indices: 10354573--10354855 Score: 435
Period size: 119 Copynumber: 2.4 Consensus size: 119
10354563 AAAATAAAAA
* *
10354573 TTTTCAAAAA-GAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 TTTTCAAAAATGGAT-TTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
* *
10354637 CAAAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG
64 CAAAAAAAATATTTTTAGGAAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAG
*
10354692 TTTTCAAAAATGGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTA
1 TTTTCAAAAATGGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCA
* *
10354757 AAAAAAATATTTTTATGAAAAAAATTGAAAGTATCAATTTTCTTTAAAAATAAG
66 AAAAAAATATTTTTAGGAAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAG
* * * *
10354811 TTTTCAAAAATGGATTTTTGAAGAAAAGTTGAGAGTATTAATTTT
1 TTTTCAAAAATGGATTTTTTAGGAAAAGTTGAAAGTATCAATTTT
10354856 TCTCGAAATT
Statistics
Matches: 151, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
118 57 0.38
119 91 0.60
120 3 0.02
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (119 bp):
TTTTCAAAAATGGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCA
AAAAAAATATTTTTAGGAAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAG
Found at i:10356298 original size:20 final size:20
Alignment explanation
Indices: 10356273--10356330 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
10356263 CAGGTCCGGG
10356273 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
10356293 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
10356313 CCCAGATCATTTGGGCCT
1 CCCGGATCAATTGGGCCT
10356331 AGCCCAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.19, C:0.31, G:0.28, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:10356505 original size:3 final size:3
Alignment explanation
Indices: 10356497--10356525 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10356487 AGTTATATAT
10356497 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10356526 TTTGTAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10357087 original size:31 final size:31
Alignment explanation
Indices: 10357018--10357088 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
10357008 AGAAATTTCC
* *
10357018 AGATTCCGGCGAAAATTCCGGCGACATTTGA
1 AGATTCCGGCGAAAATTCCGGCGAAACTTGA
**
10357049 ATTTTCCGGC-ACAAATTCCGGCGAAACTTGA
1 AGATTCCGGCGA-AAATTCCGGCGAAACTTGA
10357080 AGATTCCGG
1 AGATTCCGG
10357089 TGACCAACCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (31 bp):
AGATTCCGGCGAAAATTCCGGCGAAACTTGA
Found at i:10357167 original size:19 final size:19
Alignment explanation
Indices: 10357143--10357188 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10357133 TTCCGGCCAT
*
10357143 ATTCCGGCTAAAATTCCAG
1 ATTCCGGCGAAAATTCCAG
* *
10357162 ATTCCGGCGACATTTCCAG
1 ATTCCGGCGAAAATTCCAG
*
10357181 AATCCGGC
1 ATTCCGGC
10357189 ACCGGTGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (19 bp):
ATTCCGGCGAAAATTCCAG
Found at i:10357880 original size:157 final size:158
Alignment explanation
Indices: 10357589--10358372 Score: 691
Period size: 157 Copynumber: 4.8 Consensus size: 158
10357579 TTTTTTTTTC
10357589 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
10357654 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
66 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
*
10357719 CGATAATTAATTAATTGGTTGATCTTGA
131 CGATAATTAATTAATTGGCTGATCTTGA
*
10357747 -TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
*
10357811 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
66 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
10357876 CGATAATTAATTACTTGGCTGATTTTGA
131 CGATAATTAATTAATTGGCTGATCTTGA
* ** **** *** * * * * *
10357904 TTTTTTTTTTTTTTCTTT-TTTTTTCTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAA-
1 --------TTTTTTCTTTAATTAATC-CGACGACGGAGCC-TCTAC-AAG----T--AA--AAAC
* * * * * ** * * * *
10357967 A-CAGTAGTTT-TT-CTTGCATACT--CCTGAGGTGAGGGAATTT-TCTCAATTT-T-CTGCTAA
47 AGTAGT-TTTTCTTGCATAC-TCCTGAGGTGAGG-GA---ATTTTCTC-AATTTTCTGCT--AAA
* * *** * * * * *
10358024 A--AGTATTAGAGTCAATTGAGAATAATTTCCGATAATTAATTACTTGGCTGATTTTGA
103 AGTATTA-GAG-TCAATTG-AGAATAATTTTCGATAATTAATTAATTGGCTGATCTTGA
* *
10358081 TTTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTG
1 -----TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTG
10358145 CATACTCCTGAGGTGAGGGAATTTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAAT
61 CATACTCCTGAGGTGAGGGAA-TTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAAT
*
10358210 AATTTTCGATAATTAATTAATTGGTTGATCTTGA
125 AATTTTCGATAATTAATTAATTGGCTGATCTTGA
* * *
10358244 -TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
*
10358307 TCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
66 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
10358372 C
131 C
10358373 AACAACTAAC
Statistics
Matches: 501, Mismatches: 80, Indels: 92
0.74 0.12 0.14
Matches are distributed among these distances:
156 50 0.10
157 229 0.46
163 38 0.08
164 16 0.03
165 16 0.03
166 24 0.05
167 8 0.02
168 3 0.01
172 8 0.02
173 7 0.01
174 35 0.07
175 13 0.03
176 15 0.03
177 39 0.08
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (158 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
CGATAATTAATTAATTGGCTGATCTTGA
Found at i:10358048 original size:177 final size:167
Alignment explanation
Indices: 10357747--10358370 Score: 947
Period size: 177 Copynumber: 3.8 Consensus size: 167
10357737 TTGATCTTGA
* * *
10357747 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACT
10357812 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
65 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
10357877 GATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTTTTTCTTTTT
130 GATAATTAATTACTTGGCTGATTTTGA--------TTTTTT-TTTTT
10357924 TTTTCTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTT-TCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
10357989 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
65 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
10358054 GATAATTAATTACTTGGCTGATTTTGA-----TTTTTT
130 GATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTT
10358087 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
*
10358152 CTGAGGTGAGGGAATTTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CTGAGGTGAGGGAA-TTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* * *
10358217 GATAATTAATTAATTGGTTGATCTTGA-----------
130 GATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTT
*
10358244 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
*
10358309 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
10358371 TCAACAACTA
Statistics
Matches: 436, Mismatches: 9, Indels: 25
0.93 0.02 0.05
Matches are distributed among these distances:
156 48 0.11
157 77 0.18
162 75 0.17
163 82 0.19
164 1 0.00
177 120 0.28
178 33 0.08
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (167 bp):
TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCG
ATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTT
Found at i:10366311 original size:30 final size:28
Alignment explanation
Indices: 10366252--10366311 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
10366242 ATCAATGCTC
*
10366252 CATTAAAAAAAAAAAAAAAAAACTTAAT
1 CATTAAAAAAAAAAAAAAAAAACTAAAT
* *
10366280 CATTTAAAAAATAAAAAAAAAACATGAAAT
1 CATTAAAAAAAAAAAAAAAAAAC-T-AAAT
10366310 CA
1 CA
10366312 ATGCGTTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 21 0.78
29 1 0.04
30 5 0.19
ACGTcount: A:0.72, C:0.08, G:0.02, T:0.18
Consensus pattern (28 bp):
CATTAAAAAAAAAAAAAAAAAACTAAAT
Found at i:10366642 original size:27 final size:29
Alignment explanation
Indices: 10366599--10366658 Score: 106
Period size: 27 Copynumber: 2.1 Consensus size: 29
10366589 CTTACCACTA
10366599 AACCTTTTTTTTTTCAAACTGAAACAA-C
1 AACCTTTTTTTTTTCAAACTGAAACAACC
10366627 AACC-TTTTTTTTTCAAACTGAAACAACC
1 AACCTTTTTTTTTTCAAACTGAAACAACC
10366655 AACC
1 AACC
10366659 CATCTCACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
AACCTTTTTTTTTTCAAACTGAAACAACC
Found at i:10366792 original size:2 final size:2
Alignment explanation
Indices: 10366785--10366819 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10366775 GTATCTGTGC
10366785 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10366820 TGGAAATGGA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10372345 original size:95 final size:95
Alignment explanation
Indices: 10372246--10372492 Score: 244
Period size: 95 Copynumber: 2.7 Consensus size: 95
10372236 TTTTTTAAAC
** *
10372246 ATAATATAAATTTTAATATATTTAAAAATATTATAA-TTCGAAT-AAATAAGTTTTAAATTTTTA
1 ATAATATAAATTTTAATATATTTAAAAATATTATAATTTAAAATAAAAT-A-TTTTAAAATTTTA
*
10372309 TTTTTTAATAAGTTTTTTATAATTTTCACATT
64 TTTTTGAATAAGTTTTTTATAATTTTCACATT
* * **
10372341 ATAATATATATTTTAATATTTTTTCAAATATTATAATTTAAAATAAAATATTTTAAAATTTTATT
1 ATAATATAAATTTTAATATATTTAAAAATATTATAATTTAAAATAAAATATTTTAAAATTTTATT
* *
10372406 TTTGAATAA-TTTTTT-T-ATTTTTATA-T
66 TTTGAATAAGTTTTTTATAATTTTCACATT
* * * **
10372432 ATAATAT--AGTTTAATATATTTTATTAAAAT-TTATAGTTCAAAATAAAA-ATTCAAAAATTTT
1 ATAATATAAATTTTAATATA-TTTA--AAAATATTATAATTTAAAATAAAATATTTTAAAATTTT
10372493 CCAATTTTAA
Statistics
Matches: 129, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
89 9 0.07
90 14 0.11
91 24 0.19
92 11 0.09
93 1 0.01
94 6 0.05
95 54 0.42
96 6 0.05
97 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (95 bp):
ATAATATAAATTTTAATATATTTAAAAATATTATAATTTAAAATAAAATATTTTAAAATTTTATT
TTTGAATAAGTTTTTTATAATTTTCACATT
Found at i:10373441 original size:21 final size:21
Alignment explanation
Indices: 10373416--10373464 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
10373406 AATTACTTTA
10373416 AAAATAATTTTAAAATATAAT
1 AAAATAATTTTAAAATATAAT
* *
10373437 AAAATAA-TTTAAAATTTTAT
1 AAAATAATTTTAAAATATAAT
10373457 AAAATAAT
1 AAAATAAT
10373465 AGTTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATAATTTTAAAATATAAT
Found at i:10373907 original size:15 final size:17
Alignment explanation
Indices: 10373887--10373921 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
10373877 ATGTGTCGTT
10373887 TTTTTA-TTATAT-TAA
1 TTTTTATTTATATATAA
10373902 TTTTTATTTATATATAA
1 TTTTTATTTATATATAA
10373919 TTT
1 TTT
10373922 AGGGAGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATTTATATATAA
Found at i:10375683 original size:19 final size:18
Alignment explanation
Indices: 10375659--10375704 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
10375649 AGCTCGTTAG
10375659 TTTAATTGAGTTTTTA-TAT
1 TTTAATT-A-TTTTTATTAT
10375678 TTTAATATATTTTTATTAT
1 TTTAAT-TATTTTTATTAT
10375697 TTTAATTA
1 TTTAATTA
10375705 ATAAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.32
19 16 0.64
20 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTAATTATTTTTATTAT
Found at i:10378968 original size:135 final size:134
Alignment explanation
Indices: 10378817--10379085 Score: 450
Period size: 135 Copynumber: 2.0 Consensus size: 134
10378807 TAGCTTCACC
* * *
10378817 GTTACTGCATGCCTACAAATATATGGAGTGACCTATAAAGGTGATTTAAAAGTTTTCTCCGATAA
1 GTTACTGCATACCTACAAATATATGGAGTGACCTATAAAGGTGATTTAAAAATTTTCTCCCATAA
*
10378882 GACAACCAAAAA-ATGTGCAAGAATGCATGTGCATGCATCTTGTTCATGTTAAATTATTAGCAAC
66 GAC-ACCAAAAATATGTGC-AGAATGCATGTGCATGCATCTTGATCATGTTAAATTATTAGCAAC
10378946 ATCATT
129 ATCATT
*
10378952 GTTACTGGATACCTACAAATATATGGAGTGACCTATAAAGGTGATTTAAAAATTTTCTCCCATAA
1 GTTACTGCATACCTACAAATATATGGAGTGACCTATAAAGGTGATTTAAAAATTTTCTCCCATAA
* *
10379017 GACATCAAAAATATGTGCGGAATGCATGTGCATGCATCTTGATCATGTTAAATTATTAGCAACAT
66 GACACCAAAAATATGTGCAGAATGCATGTGCATGCATCTTGATCATGTTAAATTATTAGCAACAT
10379082 CATT
131 CATT
10379086 TTATTTTCAA
Statistics
Matches: 126, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
134 56 0.44
135 70 0.56
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (134 bp):
GTTACTGCATACCTACAAATATATGGAGTGACCTATAAAGGTGATTTAAAAATTTTCTCCCATAA
GACACCAAAAATATGTGCAGAATGCATGTGCATGCATCTTGATCATGTTAAATTATTAGCAACAT
CATT
Found at i:10390179 original size:2 final size:2
Alignment explanation
Indices: 10390167--10390213 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
10390157 ATGAGTAAGC
* * *
10390167 AT AT A- AT AT AT AT AT GT GT AA 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 AT AT AT AT
10390208 AT AT AT
1 AT AT AT
10390214 TATGCGCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10395709 original size:17 final size:17
Alignment explanation
Indices: 10395662--10395711 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
10395652 AAACTTATGC
*
10395662 ATTAAATAAAACAGAAAA
1 ATTAAGTAAAACA-AAAA
*
10395680 ACTTAAG-AAAACAACAA
1 A-TTAAGTAAAACAAAAA
10395697 ATTAAGTAAAACAAA
1 ATTAAGTAAAACAAA
10395712 GATAATATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 7 0.26
19 4 0.15
ACGTcount: A:0.68, C:0.10, G:0.06, T:0.16
Consensus pattern (17 bp):
ATTAAGTAAAACAAAAA
Found at i:10395869 original size:24 final size:23
Alignment explanation
Indices: 10395840--10395899 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
10395830 TGCAAGGAAC
*
10395840 AAATGAAAGGAAACCCAAAAAACA
1 AAATGAAAGGAAAACCAAAAAA-A
*
10395864 AAATGAAA-GAAAAGCAAAAAAA
1 AAATGAAAGGAAAACCAAAAAAA
* *
10395886 AAATAAAAGCAAAA
1 AAATGAAAGGAAAA
10395900 GCAATCCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 8 0.26
23 15 0.48
24 8 0.26
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.05
Consensus pattern (23 bp):
AAATGAAAGGAAAACCAAAAAAA
Found at i:10395900 original size:23 final size:23
Alignment explanation
Indices: 10395855--10395903 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
10395845 AAAGGAAACC
*
10395855 CAAAAAACAAAATGAAAGAAAAG
1 CAAAAAACAAAATAAAAGAAAAG
10395878 CAAAAAA-AAAATAAAAGCAAAAG
1 CAAAAAACAAAATAAAAG-AAAAG
10395901 CAA
1 CAA
10395904 TCCAATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.04
Consensus pattern (23 bp):
CAAAAAACAAAATAAAAGAAAAG
Found at i:10405108 original size:20 final size:21
Alignment explanation
Indices: 10405066--10405106 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10405056 AGTTAAAATT
* *
10405066 TTCAAAATCTTTTTTAAAAAA
1 TTCAATATCATTTTTAAAAAA
10405087 TTCAATATCATTTTTAAAAA
1 TTCAATATCATTTTTAAAAA
10405107 TTAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
TTCAATATCATTTTTAAAAAA
Found at i:10405167 original size:32 final size:31
Alignment explanation
Indices: 10405080--10405180 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 31
10405070 AAATCTTTTT
10405080 TAAAAAATTCAATATCATTTTT-AAAAATTAAA
1 TAAAAAATTC-ATATC-TTTTTAAAAAATTAAA
* *
10405112 T-AAAAATTTATAT-TGGTTATAAAAAATTAAA
1 TAAAAAATTCATATCT--TTTTAAAAAATTAAA
* *
10405143 TAAAAAACTTCATATCTTTTTAAAATATTAAG
1 TAAAAAA-TTCATATCTTTTTAAAAAATTAAA
10405175 TAAAAA
1 TAAAAA
10405181 TTTTTAAATC
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
28 1 0.02
30 7 0.12
31 18 0.32
32 24 0.42
33 6 0.11
34 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (31 bp):
TAAAAAATTCATATCTTTTTAAAAAATTAAA
Found at i:10405409 original size:17 final size:17
Alignment explanation
Indices: 10405359--10405409 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
10405349 AGTTATTGAA
10405359 AATAATATATATATTTTTT
1 AATAA-ATATATA-TTTTT
* *
10405378 TATAAATATAAATTTTT
1 AATAAATATATATTTTT
10405395 AATAGAA-ATATATTT
1 AATA-AATATATATTT
10405410 AAAATAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 15 0.56
18 8 0.30
19 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AATAAATATATATTTTT
Found at i:10405566 original size:20 final size:20
Alignment explanation
Indices: 10405529--10405566 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10405519 ATTTTTATTT
*
10405529 AATTTTTTGAAATGATATAG
1 AATTTTTTGAAATAATATAG
10405549 AATTCTTTTGAAA-AATAT
1 AATT-TTTTGAAATAATAT
10405567 TTTCAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
AATTTTTTGAAATAATATAG
Found at i:10405615 original size:16 final size:17
Alignment explanation
Indices: 10405572--10405616 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
10405562 AATATTTTCA
* *
10405572 AATTTTAACTAAATTTT
1 AATTTTTACTAAAATTT
10405589 AATTTTT--TAAAATTT
1 AATTTTTACTAAAATTT
10405604 -ATTTTTACTAAAA
1 AATTTTTACTAAAA
10405617 ATAGTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 5 0.21
17 6 0.25
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTTACTAAAATTT
Found at i:10405785 original size:18 final size:17
Alignment explanation
Indices: 10405763--10405802 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10405753 AAAATATATT
*
10405763 AGAAAACGAAAAGGAAAA
1 AGAAAA-GAAAAAGAAAA
*
10405781 GGAAAAGAAAAAGAAAA
1 AGAAAAGAAAAAGAAAA
10405798 AGAAA
1 AGAAA
10405803 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.75, C:0.03, G:0.23, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAAAAGAAAA
Found at i:10413218 original size:48 final size:48
Alignment explanation
Indices: 10413141--10413236 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
10413131 TTTCTTTGAC
10413141 ACTTTATGTTAAAAAGATCTCCCCACTGGTTGTGAGCCATTACATTAA
1 ACTTTATGTTAAAAAGATCTCCCCACTGGTTGTGAGCCATTACATTAA
**
10413189 ACTTTATGTTAAAAAGATCTCCCTGCTGGTTGTGAGCCATTACATTAA
1 ACTTTATGTTAAAAAGATCTCCCCACTGGTTGTGAGCCATTACATTAA
10413237 GATTTTAGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (48 bp):
ACTTTATGTTAAAAAGATCTCCCCACTGGTTGTGAGCCATTACATTAA
Found at i:10415188 original size:19 final size:20
Alignment explanation
Indices: 10415166--10415203 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10415156 TTCAACATCT
*
10415166 AAATTTTTTTTAT-ATTTTA
1 AAATTGTTTTTATAATTTTA
10415185 AAATTGTTTTTATAATTTT
1 AAATTGTTTTTATAATTTT
10415204 TTCCTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
AAATTGTTTTTATAATTTTA
Done.