Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 40 of 100
Found at i:10430908 original size:23 final size:23
Alignment explanation
Indices: 10430882--10430933 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
10430872 ATTTAATATG
10430882 TATAAGA-ATATAAATTATTAAAA
1 TATAAGAGATATAAATTA-TAAAA
*
10430905 TATAAATATGATATAAATTATAAAA
1 TAT-AAGA-GATATAAATTATAAAA
10430930 TATA
1 TATA
10430934 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 4 0.16
25 8 0.32
26 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TATAAGAGATATAAATTATAAAA
Found at i:10430926 original size:18 final size:18
Alignment explanation
Indices: 10430876--10430951 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 18
10430866 TATCGAATTT
10430876 AATATG-TATAAGAATATA
1 AATATGATATAA-AATATA
10430894 AAT-T-AT-TAAAATATA
1 AATATGATATAAAATATA
*
10430909 AATATGATATAAATTATAA
1 AATATGATATAAAATAT-A
* * *
10430928 AATAT-ATTTAAATTTTA
1 AATATGATATAAAATATA
10430945 AATATGA
1 AATATGA
10430952 ATATGATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
17 10 0.20
18 20 0.41
19 6 0.12
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
AATATGATATAAAATATA
Found at i:10431099 original size:29 final size:29
Alignment explanation
Indices: 10431056--10431128 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
10431046 TGAATAATAT
* * * *
10431056 GAATATACATGAATAGATACGACTAACAC
1 GAATATATATAAATAAACACGACTAACAC
* *
10431085 GAATATATATAAATAAACACGATTAACAT
1 GAATATATATAAATAAACACGACTAACAC
*
10431114 AAATATATATAAATA
1 GAATATATATAAATA
10431129 TTATTAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (29 bp):
GAATATATATAAATAAACACGACTAACAC
Found at i:10432778 original size:26 final size:26
Alignment explanation
Indices: 10432734--10432796 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
10432724 ATATAACTAT
*
10432734 TAAAATAT-TAAAAATTATTTATTAG
1 TAAAATATATTAAAATTATTTATTAG
* *
10432759 TAAGATATATTAAAATTATTTATTAT
1 TAAAATATATTAAAATTATTTATTAG
10432785 TAAAAT-TATTAA
1 TAAAATATATTAA
10432797 TATTTAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
TAAAATATATTAAAATTATTTATTAG
Found at i:10432787 original size:16 final size:17
Alignment explanation
Indices: 10432766--10432845 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 17
10432756 TAGTAAGATA
10432766 TATTAAAATTATT-TAT
1 TATTAAAATTATTATAT
10432782 TATTAAAATTATTAATAT
1 TATTAAAATTATT-ATAT
* *
10432800 T-TAAAAATAATTATAT
1 TATTAAAATTATTATAT
* *
10432816 T-TTAATAAATATT-TAA
1 TATTAA-AATTATTATAT
10432832 TATTAAAA-TATTAT
1 TATTAAAATTATTAT
10432846 GTTAATATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.08
16 27 0.51
17 18 0.34
18 4 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAAAATTATTATAT
Found at i:10432812 original size:17 final size:17
Alignment explanation
Indices: 10432786--10432839 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
10432776 ATTTATTATT
*
10432786 AAAATTATTAATATTTA
1 AAAATAATTAATATTTA
10432803 AAAATAATT-ATATTTTA
1 AAAATAATTAATA-TTTA
*
10432820 ATAAATATTTAATA-TTA
1 A-AAATAATTAATATTTA
10432837 AAA
1 AAA
10432840 TATTATGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 5 0.16
17 17 0.53
18 7 0.22
19 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATAATTAATATTTA
Found at i:10432959 original size:17 final size:17
Alignment explanation
Indices: 10432937--10432978 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10432927 TTATATTAAT
*
10432937 ATTTATTAATTGATATA
1 ATTTATTAATTAATATA
*
10432954 ATTTATTTATTAATATA
1 ATTTATTAATTAATATA
10432971 ATATTATT
1 AT-TTATT
10432979 TATAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTATTAATTAATATA
Found at i:10432962 original size:21 final size:22
Alignment explanation
Indices: 10432912--10432981 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
10432902 ATTCTTTATA
* *
10432912 TTATTTAATAATATATTAT-AT
1 TTATTTATTAATATAATATAAT
*
10432933 TAATATTTATTAAT-TGATATAAT
1 T--TATTTATTAATATAATATAAT
*
10432956 TTATTTATTAATATAATATTAT
1 TTATTTATTAATATAATATAAT
10432978 TTAT
1 TTAT
10432982 AAGTAAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
21 12 0.30
22 15 0.38
23 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TTATTTATTAATATAATATAAT
Found at i:10433124 original size:17 final size:18
Alignment explanation
Indices: 10433098--10433131 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10433088 TTTTGATTGA
10433098 TTAATAAATT-ATTTTTG
1 TTAATAAATTAATTTTTG
*
10433115 TTAATCAATTAATTTTT
1 TTAATAAATTAATTTTT
10433132 TATTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAATAAATTAATTTTTG
Found at i:10435926 original size:17 final size:17
Alignment explanation
Indices: 10435904--10435937 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10435894 GCAAGAAGTT
*
10435904 GATGGTTTTAATGTACA
1 GATGGTTTCAATGTACA
10435921 GATGGTTTCAATGTACA
1 GATGGTTTCAATGTACA
10435938 TCACAGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (17 bp):
GATGGTTTCAATGTACA
Found at i:10438505 original size:15 final size:16
Alignment explanation
Indices: 10438468--10438497 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10438458 GGATTTTAAT
10438468 GGTTTTAGGGATTTGA
1 GGTTTTAGGGATTTGA
10438484 GGTTTTAGGG-TTTG
1 GGTTTTAGGGATTTG
10438498 GGATTTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (16 bp):
GGTTTTAGGGATTTGA
Found at i:10440733 original size:15 final size:16
Alignment explanation
Indices: 10440713--10440742 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10440703 ATTAGTTAAA
10440713 TATTTTA-TTTAATAT
1 TATTTTATTTTAATAT
10440728 TATTTTATTTTAATA
1 TATTTTATTTTAATA
10440743 AAATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTATTTTAATAT
Found at i:10443020 original size:7 final size:7
Alignment explanation
Indices: 10443008--10443075 Score: 59
Period size: 7 Copynumber: 9.4 Consensus size: 7
10442998 TTCAATTATC
10443008 TTTCTTT
1 TTTCTTT
10443015 TTTCTTT
1 TTTCTTT
10443022 TGTTCATTT
1 T-TTC-TTT
*
10443031 TTGCTTTGT
1 TTTC-TT-T
10443040 TTTCTTT
1 TTTCTTT
10443047 TTTC-TT
1 TTTCTTT
10443053 TTTCTTT
1 TTTCTTT
* *
10443060 CTACTTT
1 TTTCTTT
10443067 TTT-TTT
1 TTTCTTT
10443073 TTT
1 TTT
10443076 AACTTTTCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
6 12 0.24
7 21 0.42
8 9 0.18
9 8 0.16
ACGTcount: A:0.03, C:0.13, G:0.04, T:0.79
Consensus pattern (7 bp):
TTTCTTT
Found at i:10443047 original size:16 final size:15
Alignment explanation
Indices: 10443008--10443075 Score: 61
Period size: 16 Copynumber: 4.6 Consensus size: 15
10442998 TTCAATTATC
10443008 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
* *
10443023 GTTCATTTTTGCTTTGT
1 TTTC-TTTTTTCTTT-T
10443040 TTTCTTTTTTC--TT
1 TTTCTTTTTTCTTTT
* *
10443053 TTTCTTTCTACTTTT
1 TTTCTTTTTTCTTTT
10443068 TTT-TTTTT
1 TTTCTTTTT
10443076 AACTTTTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
13 10 0.24
14 5 0.12
15 8 0.19
16 15 0.36
17 4 0.10
ACGTcount: A:0.03, C:0.13, G:0.04, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTCTTTT
Found at i:10446316 original size:119 final size:119
Alignment explanation
Indices: 10446088--10446319 Score: 277
Period size: 119 Copynumber: 1.9 Consensus size: 119
10446078 CTTGATTCGA
* * * *
10446088 TCCTGATTGCTTTATCTCTTGACTCATAACATTGTCCTGATCATTCATCTTCAACCTTGACTCAG
1 TCCTGATTGCTTTATCTCCTGACTCACAACATCGTCCCGATCATTCATCTTCAACCTTGACTCAG
** * * **
10446153 CTTTGATCATTTTCAGACTTGCGACATCATCTTAGTTATTCGATCTCAACTTGG
66 CTTTGATCATTTTCAGACTCACGACATCATCCTAGTCAACCGATCTCAACTTGG
* * * **
10446207 TCCTGGTTGTTTTATCTCCTGACTCACGACATCGTCCCGATCATTCATCTTTGACCTTGACTC-G
1 TCCTGATTGCTTTATCTCCTGACTCACAACATCGTCCCGATCATTCATCTTCAACCTTGACTCAG
* * * *
10446271 ATCTTGATCATTTTTAGACTCACGATATCGTCCTAGTCAACCGATCTCA
66 CT-TTGATCATTTTCAGACTCACGACATCATCCTAGTCAACCGATCTCA
10446320 GCCCAGTCCA
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
118 2 0.02
119 91 0.98
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.38
Consensus pattern (119 bp):
TCCTGATTGCTTTATCTCCTGACTCACAACATCGTCCCGATCATTCATCTTCAACCTTGACTCAG
CTTTGATCATTTTCAGACTCACGACATCATCCTAGTCAACCGATCTCAACTTGG
Found at i:10447027 original size:35 final size:35
Alignment explanation
Indices: 10446969--10447035 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10446959 TTATTCCTGC
10446969 GAATCTAAAAACCCTTGCGAACTTGAAATCTTTGT
1 GAATCTAAAAACCCTTGCGAACTTGAAATCTTTGT
* *
10447004 GAATCT-AAAACCTTTGTGAAACTTGAAATCTT
1 GAATCTAAAAACCCTTGCG-AACTTGAAATCTT
10447036 ATAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 10 0.34
35 19 0.66
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (35 bp):
GAATCTAAAAACCCTTGCGAACTTGAAATCTTTGT
Found at i:10447072 original size:86 final size:86
Alignment explanation
Indices: 10446927--10447236 Score: 422
Period size: 86 Copynumber: 3.6 Consensus size: 86
10446917 TCATTTTTTG
* * **
10446927 ACCTTTGTGAAACTTGAAATCTTATGAATATTTTATTCCTGCGAATCTAAAAACCCTTGCGAACT
1 ACCTTTGTGAAACTTGAAATCTTATGAATATTTCATTCTTGCGAATCTAAAAGTCCTTGCGAACT
10446992 TGAAATCTTTGTGAATCTAAA
66 TGAAATCTTTGTGAATCTAAA
* * *
10447013 ACCTTTGTGAAACTTGAAATCTTATAAATATTTCATTCTTGTGGATCTAAAAGTCCTTGCGAACT
1 ACCTTTGTGAAACTTGAAATCTTATGAATATTTCATTCTTGCGAATCTAAAAGTCCTTGCGAACT
*
10447078 TGAAATCTTTATGAATCTAAA
66 TGAAATCTTTGTGAATCTAAA
** * * * * *
10447099 ACCTTTACGAAACTTGAAATCTTATGAATCTTTCTTTCTTGCGAATCTAAAGGTCTTTGTGAACT
1 ACCTTTGTGAAACTTGAAATCTTATGAATATTTCATTCTTGCGAATCTAAAAGTCCTTGCGAACT
* **
10447164 TAAAATCTTTGCAAATCTAAA
66 TGAAATCTTTGTGAATCTAAA
** * *
10447185 ACCTTTGTGAAACTCAAAATCTTGTGAATCTTTCATTCTTGCGAATCTAAAA
1 ACCTTTGTGAAACTTGAAATCTTATGAATATTTCATTCTTGCGAATCTAAAA
10447237 ACCTTTACGA
Statistics
Matches: 195, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 195 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (86 bp):
ACCTTTGTGAAACTTGAAATCTTATGAATATTTCATTCTTGCGAATCTAAAAGTCCTTGCGAACT
TGAAATCTTTGTGAATCTAAA
Found at i:10447172 original size:17 final size:17
Alignment explanation
Indices: 10447152--10447212 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
10447142 AATCTAAAGG
10447152 TCTTTGTGAACTTAAAA
1 TCTTTGTGAACTTAAAA
* *
10447169 TCTTTG-CAAATCTAAAA
1 TCTTTGTGAACT-TAAAA
* *
10447186 CCTTTGTGAAACTCAAAA
1 TCTTTGTG-AACTTAAAA
10447204 TC-TTGTGAA
1 TCTTTGTGAA
10447213 TCTTTCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
16 5 0.15
17 21 0.62
18 5 0.15
19 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (17 bp):
TCTTTGTGAACTTAAAA
Found at i:10447215 original size:34 final size:34
Alignment explanation
Indices: 10447135--10447215 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 34
10447125 AATCTTTCTT
* ** *
10447135 TCTTGCGAATCTAAAGGTCTTTGTGAACTTAAAA
1 TCTTGTGAATCTAAAGACCTTTGTGAACTCAAAA
10447169 TCTT-TGCAAATCTAAA-ACCTTTGTGAAACTCAAAA
1 TCTTGTG--AATCTAAAGACCTTTGTG-AACTCAAAA
10447204 TCTTGTGAATCT
1 TCTTGTGAATCT
10447216 TTCATTCTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
33 1 0.03
34 16 0.41
35 20 0.51
36 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (34 bp):
TCTTGTGAATCTAAAGACCTTTGTGAACTCAAAA
Found at i:10447482 original size:64 final size:65
Alignment explanation
Indices: 10447372--10447509 Score: 172
Period size: 64 Copynumber: 2.1 Consensus size: 65
10447362 AATTGTGAAC
* * * * *
10447372 TTTATTTTTTTGACTTGCATTTCAATCCCGATCACTCATTTCGATCTTGGTTCAGTCTAGA-CAT
1 TTTATTTTTCTGACTTGCAGTTCAATCCCGATCACTCATTTCGATCTTGATTCAGTCCAAACCAT
* * * *
10447436 TTTATTTTTCTGACTTGCAGTTCAATCCCGGTC-CCCTGTTTTGATCTTGATTCAGTCCAAACCA
1 TTTATTTTTCTGACTTGCAGTTCAATCCCGATCACTC-ATTTCGATCTTGATTCAGTCCAAACCA
10447500 T
65 T
10447501 TTTATTTTT
1 TTTATTTTT
10447510 TGTTTTGCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
63 2 0.03
64 49 0.78
65 12 0.19
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.46
Consensus pattern (65 bp):
TTTATTTTTCTGACTTGCAGTTCAATCCCGATCACTCATTTCGATCTTGATTCAGTCCAAACCAT
Found at i:10448348 original size:11 final size:11
Alignment explanation
Indices: 10448332--10448357 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10448322 CAAGTTTTTC
10448332 TTTTTTTATTT
1 TTTTTTTATTT
10448343 TTTTTTTATTT
1 TTTTTTTATTT
10448354 TTTT
1 TTTT
10448358 ATTTTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:10448390 original size:7 final size:7
Alignment explanation
Indices: 10448333--10448413 Score: 55
Period size: 7 Copynumber: 11.6 Consensus size: 7
10448323 AAGTTTTTCT
*
10448333 TTTTTTA
1 TTTTATA
*
10448340 TTTT-TT
1 TTTTATA
10448346 TTTTAT-
1 TTTTATA
*
10448352 TTTTTTA
1 TTTTATA
10448359 TTTTATCA
1 TTTTAT-A
10448367 TTTTATA
1 TTTTATA
10448374 -TTTA-A
1 TTTTATA
10448379 GTTTTATA
1 -TTTTATA
10448387 TTTTAT-
1 TTTTATA
10448393 TTTTATTA
1 TTTTA-TA
10448401 TTTATTATA
1 -TT-TTATA
10448410 TTTT
1 TTTT
10448414 GTTGATTTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
5 1 0.02
6 19 0.31
7 24 0.39
8 10 0.16
9 4 0.07
10 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTATA
Found at i:10448391 original size:20 final size:21
Alignment explanation
Indices: 10448359--10448397 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10448349 TATTTTTTTA
10448359 TTTTATCATTTTATATTTAAG
1 TTTTATCATTTTATATTTAAG
*
10448380 TTTTAT-ATTTTATTTTTA
1 TTTTATCATTTTATATTTA
10448398 TTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTTATCATTTTATATTTAAG
Found at i:10448405 original size:13 final size:13
Alignment explanation
Indices: 10448336--10448406 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
10448326 TTTTTCTTTT
10448336 TTTATTTTT-TT-
1 TTTATTTTTATTA
10448347 TTTATTTTT-TTA
1 TTTATTTTTATTA
10448359 TTTTATCATTTTA-TA
1 -TTTAT--TTTTATTA
*
10448374 TTTAAGTTTTA-TA
1 TTT-ATTTTTATTA
10448387 TTTTATTTTTATTA
1 -TTTATTTTTATTA
10448401 TTTATT
1 TTTATT
10448407 ATATTTTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
11 11 0.22
13 24 0.48
14 8 0.16
15 7 0.14
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (13 bp):
TTTATTTTTATTA
Found at i:10458558 original size:13 final size:13
Alignment explanation
Indices: 10458540--10458582 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
10458530 ACATATATAA
10458540 AAATTAAAAATAT
1 AAATTAAAAATAT
* *
10458553 AAATTATATATAT
1 AAATTAAAAATAT
10458566 AAATT-AAAATA-
1 AAATTAAAAATAT
10458577 AAATTA
1 AAATTA
10458583 TATAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 5 0.20
12 4 0.16
13 16 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATTAAAAATAT
Found at i:10458563 original size:26 final size:24
Alignment explanation
Indices: 10458532--10458597 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 24
10458522 TTTAATTTAC
10458532 ATATATAAAAATTAAAAATATAAATT
1 ATATATAAAAATTAAAAATA-AAA-T
*
10458558 ATATATATAAATT-AAAATAAAAT
1 ATATATAAAAATTAAAAATAAAAT
10458581 -TATATAAAAA-TAAAAAT
1 ATATATAAAAATTAAAAAT
10458598 TAAGTGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
21 1 0.03
22 14 0.38
23 1 0.03
24 3 0.08
25 6 0.16
26 12 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
ATATATAAAAATTAAAAATAAAAT
Found at i:10458566 original size:28 final size:27
Alignment explanation
Indices: 10458532--10458600 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
10458522 TTTAATTTAC
10458532 ATATATAAAAATTAAAAATATAAATTAT
1 ATATATAAAAATTAAAAATA-AAATTAT
10458560 ATATAT--AAATT-AAAATAAAATTAT
1 ATATATAAAAATTAAAAATAAAATTAT
*
10458584 ATAAAAATAAAAATTAA
1 AT--ATATAAAAATTAA
10458601 GTGTAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 9 0.26
25 6 0.17
26 8 0.23
28 11 0.31
29 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
ATATATAAAAATTAAAAATAAAATTAT
Found at i:10460832 original size:29 final size:28
Alignment explanation
Indices: 10460787--10460842 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
10460777 AATATAAACC
*
10460787 AAAAAATAAGAACTTATTTAGATAAAAT
1 AAAAAATAAGAACTTATTTAAATAAAAT
* *
10460815 AAAAATATCAGAATTTATTTAAATAAAA
1 AAAAA-ATAAGAACTTATTTAAATAAAA
10460843 ATGGTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAAAATAAGAACTTATTTAAATAAAAT
Found at i:10468662 original size:2 final size:2
Alignment explanation
Indices: 10468655--10468693 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
10468645 ACCCTTAGTC
* * *
10468655 AT AT AT AT AA AT AT AT AT AT AT AT AT CT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10468694 CACACACCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10477871 original size:15 final size:17
Alignment explanation
Indices: 10477835--10477873 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
10477825 ATTATACAGA
*
10477835 TGATTTTATTATTATAG
1 TGATTTTATCATTATAG
10477852 TGATTTTATCATT-T-G
1 TGATTTTATCATTATAG
10477867 TGATTTT
1 TGATTTT
10477874 GAATCATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 1 0.05
17 12 0.57
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.62
Consensus pattern (17 bp):
TGATTTTATCATTATAG
Found at i:10479067 original size:23 final size:23
Alignment explanation
Indices: 10479019--10479067 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
10479009 TTGTACTCTC
** *
10479019 ATATATATTTTTATATATTTAGT
1 ATATATATTTTTATATAAATAAT
10479042 ATATATATTTTT-TATTAAATAAT
1 ATATATATTTTTATA-TAAATAAT
10479065 ATA
1 ATA
10479068 AATTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATATATTTTTATATAAATAAT
Found at i:10480037 original size:2 final size:2
Alignment explanation
Indices: 10480030--10480058 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10480020 TATATTTGGC
10480030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10480059 GACAAGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10483159 original size:39 final size:39
Alignment explanation
Indices: 10483105--10483180 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
10483095 AAGAGTTTGT
10483105 GAGATAAGCTTGAAGGTATTTATGCTTCGAAGTCGTTAA
1 GAGATAAGCTTGAAGGTATTTATGCTTCGAAGTCGTTAA
10483144 GAGATAAGCTTGAAGGTATTTATGCTTCGAAGTCGTT
1 GAGATAAGCTTGAAGGTATTTATGCTTCGAAGTCGTT
10483181 GACTAATAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (39 bp):
GAGATAAGCTTGAAGGTATTTATGCTTCGAAGTCGTTAA
Found at i:10494150 original size:2 final size:2
Alignment explanation
Indices: 10494145--10494172 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10494135 TGTATATACT
10494145 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10494173 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10494177 original size:2 final size:2
Alignment explanation
Indices: 10494172--10494215 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10494162 ACACACACAC
10494172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10494214 AT
1 AT
10494216 GATGTTATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10494663 original size:11 final size:11
Alignment explanation
Indices: 10494636--10494664 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10494626 TTATATTAAA
10494636 ATTTTAAATAT
1 ATTTTAAATAT
10494647 -TTTTAAATAT
1 ATTTTAAATAT
10494657 ATTTTAAA
1 ATTTTAAA
10494665 GTTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTAAATAT
Found at i:10496970 original size:11 final size:11
Alignment explanation
Indices: 10496954--10496996 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
10496944 CAAATCATCA
*
10496954 TTATCATTCGT
1 TTATCATTAGT
10496965 TTATCATTAGT
1 TTATCATTAGT
* *
10496976 TCATCGTTAGT
1 TTATCATTAGT
*
10496987 TTATCGTTAG
1 TTATCATTAG
10496997 CTATGGCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (11 bp):
TTATCATTAGT
Found at i:10504357 original size:11 final size:11
Alignment explanation
Indices: 10504317--10504351 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10504307 AATTATCATT
* *
10504317 ATCATTTGTTT
1 ATCATTAGTTC
10504328 ATCATTAGTTC
1 ATCATTAGTTC
10504339 ATCATTAGTTC
1 ATCATTAGTTC
10504350 AT
1 AT
10504352 TTTTAGCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (11 bp):
ATCATTAGTTC
Found at i:10511176 original size:3 final size:3
Alignment explanation
Indices: 10511164--10511223 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
10511154 CAAAAATTTA
10511164 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10511211 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
10511224 TCCCCCTAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10511320 original size:27 final size:27
Alignment explanation
Indices: 10511290--10511346 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
10511280 CAAATATAAT
*
10511290 AATTCTTGAATATATTTATCTTTTCAC
1 AATTCATGAATATATTTATCTTTTCAC
10511317 AATTCATGAATATATTTATCTTTTCAC
1 AATTCATGAATATATTTATCTTTTCAC
10511344 AAT
1 AAT
10511347 ATGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (27 bp):
AATTCATGAATATATTTATCTTTTCAC
Found at i:10515211 original size:12 final size:11
Alignment explanation
Indices: 10515193--10515258 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
10515183 TCTTAATTGA
*
10515193 ATTTTTTTTTC
1 ATTTTTTTTTT
*
10515204 ATTTTTTTAATT
1 ATTTTTTT-TTT
*
10515216 ATTTTTTTAATT
1 ATTTTTTT-TTT
10515228 ATTTTTATTTTTT
1 A-TTTT-TTTTTT
10515241 AAATTTTTTTTTT
1 --ATTTTTTTTTT
10515254 ATTTT
1 ATTTT
10515259 CAATTATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
11 13 0.28
12 14 0.30
13 12 0.26
14 7 0.15
15 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTTTTTT
Found at i:10515213 original size:25 final size:23
Alignment explanation
Indices: 10515177--10515258 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 23
10515167 TATACATCCC
*
10515177 TTATTTTCTTAATTGAATTTTTTT
1 TTATTTTTTTAATT-AATTTTTTT
10515201 TTCATTTTTTTAATT-ATTTTTTT
1 TT-ATTTTTTTAATTAATTTTTTT
**
10515224 AATTATTTTTATTTTTTAAATTTTTTTT
1 --TTATTTTT-TTAATT-AA-TTTTTTT
10515252 TTATTTT
1 TTATTTT
10515259 CAATTATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
23 8 0.17
24 8 0.17
25 17 0.35
26 7 0.15
27 1 0.02
28 7 0.15
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.76
Consensus pattern (23 bp):
TTATTTTTTTAATTAATTTTTTT
Found at i:10515220 original size:11 final size:12
Alignment explanation
Indices: 10515177--10515233 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
10515167 TATACATCCC
*
10515177 TTATTTTCTTAA
1 TTATTTTTTTAA
10515189 TTGAATTTTTTT--
1 TT--ATTTTTTTAA
10515201 TTCATTTTTTTAA
1 TT-ATTTTTTTAA
10515214 TTATTTTTTTAA
1 TTATTTTTTTAA
10515226 TTATTTTT
1 TTATTTTT
10515234 ATTTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 8 0.21
12 22 0.56
13 2 0.05
14 7 0.18
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (12 bp):
TTATTTTTTTAA
Found at i:10515235 original size:18 final size:18
Alignment explanation
Indices: 10515214--10515266 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
10515204 ATTTTTTTAA
10515214 TTATTTTTTTAATTATTT
1 TTATTTTTTTAATTATTT
*
10515232 TTATTTTTTAAATT-TTT
1 TTATTTTTTTAATTATTT
10515249 TT-TTTATTTTCAATTATT
1 TTATTT-TTTT-AATTATT
10515267 AAACACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 3 0.10
17 8 0.27
18 17 0.57
19 2 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTTTTTTAATTATTT
Found at i:10515268 original size:26 final size:27
Alignment explanation
Indices: 10515216--10515269 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
10515206 TTTTTTAATT
* * *
10515216 ATTTTTTTAATTATTTTTATTTTTTAA
1 ATTTTTTTAATTATTTTCAATTATTAA
*
10515243 ATTTTTTT-TTTATTTTCAATTATTAA
1 ATTTTTTTAATTATTTTCAATTATTAA
10515269 A
1 A
10515270 CACATTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
ATTTTTTTAATTATTTTCAATTATTAA
Found at i:10516276 original size:23 final size:23
Alignment explanation
Indices: 10516250--10516293 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10516240 AAAAAAAATG
* *
10516250 TCATTAAAAAAATTAAAATAGGT
1 TCATCAAAAAAAATAAAATAGGT
10516273 TCATCAAAAAAAATAAAATAG
1 TCATCAAAAAAAATAAAATAG
10516294 TAAAAGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (23 bp):
TCATCAAAAAAAATAAAATAGGT
Found at i:10516793 original size:2 final size:2
Alignment explanation
Indices: 10516786--10516811 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10516776 TGGGTTTTAC
10516786 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10516812 TGATTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10521144 original size:14 final size:15
Alignment explanation
Indices: 10521127--10521166 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10521117 TGATATGATA
*
10521127 ATTTGTATA-TTTAT
1 ATTTATATATTTTAT
10521141 ATTTATATATTTTAT
1 ATTTATATATTTTAT
10521156 ATTTAATATAT
1 ATTT-ATATAT
10521167 GTAAACTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.35
15 9 0.39
16 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTATATATTTTAT
Found at i:10527396 original size:43 final size:46
Alignment explanation
Indices: 10527344--10527430 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 46
10527334 TTTGATAATT
*
10527344 TAATAATTTTATTATATT-TTATTATCAAATAA-A-TAAAATCATAC
1 TAATAATTTTA-TAAATTATTATTATCAAATAACATTAAAATCATAC
* *
10527388 TAAT-ATTTTATAAATTATTATTTTTAAATAACATTAAAATCAT
1 TAATAATTTTATAAATTATTATTATCAAATAACATTAAAATCAT
10527431 TAATTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 5 0.14
43 18 0.49
44 5 0.14
45 9 0.24
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (46 bp):
TAATAATTTTATAAATTATTATTATCAAATAACATTAAAATCATAC
Found at i:10527519 original size:32 final size:32
Alignment explanation
Indices: 10527463--10527533 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
10527453 ATGCAAGATT
10527463 ATTTTT-ATAAAATCAAACAAAATAATATATA
1 ATTTTTAATAAAATCAAACAAAATAATATATA
* * * * *
10527494 ATTTTTAATAATATCAAATACAATAATTTTTA
1 ATTTTTAATAAAATCAAACAAAATAATATATA
10527526 ATTTTTAA
1 ATTTTTAA
10527534 AAATTAATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 6 0.18
32 28 0.82
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (32 bp):
ATTTTTAATAAAATCAAACAAAATAATATATA
Found at i:10534766 original size:46 final size:44
Alignment explanation
Indices: 10534716--10534828 Score: 104
Period size: 46 Copynumber: 2.5 Consensus size: 44
10534706 TTTAATTAAA
*
10534716 TTTTTTATTTCTAAATTTTTTACTATTTAGG-TCAATTTAGAAAATT
1 TTTTTTATTT-TAAATTTTTTACCATTT-GGATCAATTTAG-AAATT
* * *
10534762 TTTTTTAATTTTTAAAATTTTCT-CCGTTTGGATCAATTTAGAATTT
1 TTTTTT-A-TTTT-AAATTTTTTACCATTTGGATCAATTTAGAAATT
* *
10534808 TTTTTTAATTTAATTTTTTTA
1 TTTTTTATTTTAAATTTTTTA
10534829 TTTTTTTATC
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
43 7 0.13
44 3 0.05
45 1 0.02
46 18 0.33
47 15 0.27
48 11 0.20
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (44 bp):
TTTTTTATTTTAAATTTTTTACCATTTGGATCAATTTAGAAATT
Found at i:10534960 original size:25 final size:25
Alignment explanation
Indices: 10534919--10534970 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
10534909 AGTTTAAAGA
*
10534919 AAATTTTCACTTAAAAATTTCTTAG
1 AAATTTTCACTTAAAAATTTCTAAG
*
10534944 AAATTTATCA-TTTAAAATTTCTAAG
1 AAATTT-TCACTTAAAAATTTCTAAG
10534969 AA
1 AA
10534971 TCTCATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (25 bp):
AAATTTTCACTTAAAAATTTCTAAG
Found at i:10535763 original size:15 final size:16
Alignment explanation
Indices: 10535723--10535769 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
10535713 TCTCCTTCCA
*
10535723 TCTTTCTCTCTTTCTC
1 TCTTTCTCCCTTTCTC
10535739 TCTTTC-CCCTTTCT-
1 TCTTTCTCCCTTTCTC
* *
10535753 TTTTTCTCCCTCTCTC
1 TCTTTCTCCCTTTCTC
10535769 T
1 T
10535770 TTAGAATCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
15 14 0.54
16 7 0.27
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (16 bp):
TCTTTCTCCCTTTCTC
Found at i:10535943 original size:31 final size:31
Alignment explanation
Indices: 10535906--10535964 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10535896 ATACTTGTTG
10535906 AAAAATTTAACTAGCATCAAAAAATTCACTA
1 AAAAATTTAACTAGCATCAAAAAATTCACTA
* * **
10535937 AAAAATTTAATTGGTGTCAAAAAATTCA
1 AAAAATTTAACTAGCATCAAAAAATTCA
10535965 TTGGAATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.29
Consensus pattern (31 bp):
AAAAATTTAACTAGCATCAAAAAATTCACTA
Found at i:10536434 original size:31 final size:28
Alignment explanation
Indices: 10536390--10536455 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
10536380 TCAAATGGGA
* *
10536390 AAAAAAACTAAAAATCAACAAAACAAATAAT
1 AAAATAACCAAAAAT-AA-AAAA-AAATAAT
* *
10536421 TAAATAACCAAAAATAATAAAAAATAAT
1 AAAATAACCAAAAATAAAAAAAAATAAT
10536449 AAAATAA
1 AAAATAA
10536456 AATATAGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 13 0.43
29 3 0.10
30 2 0.07
31 12 0.40
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (28 bp):
AAAATAACCAAAAATAAAAAAAAATAAT
Found at i:10536457 original size:23 final size:25
Alignment explanation
Indices: 10536431--10536484 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
10536421 TAAATAACCA
10536431 AAAATAATA-AA-AAATAAT-AAAAT
1 AAAATAATAGAATAAA-AATGAAAAT
10536454 AAAAT-ATAGAATAAAAATGAAAAT
1 AAAATAATAGAATAAAAATGAAAAT
10536478 -AAATAAT
1 AAAATAAT
10536485 TAGGCCTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.11
23 14 0.52
24 10 0.37
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (25 bp):
AAAATAATAGAATAAAAATGAAAAT
Found at i:10540482 original size:20 final size:17
Alignment explanation
Indices: 10540459--10540500 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
10540449 AATTATATTA
10540459 AAATATTTAATATAATATC
1 AAATATTTAA-A-AATATC
10540478 TAAAT-TTTAAAAATATC
1 -AAATATTTAAAAATATC
10540495 AAATAT
1 AAATAT
10540501 AATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 1 0.05
19 5 0.24
20 4 0.19
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATTTAAAAATATC
Found at i:10540522 original size:29 final size:29
Alignment explanation
Indices: 10540458--10540514 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10540448 GAATTATATT
** *
10540458 AAAATATTTAATATAATATCTAAATTTTA
1 AAAATATCAAATATAATATCTAAATTCTA
*
10540487 AAAATATCAAATATAATATTTAAATTCT
1 AAAATATCAAATATAATATCTAAATTCT
10540515 GAATATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (29 bp):
AAAATATCAAATATAATATCTAAATTCTA
Found at i:10541795 original size:25 final size:24
Alignment explanation
Indices: 10541743--10541800 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
10541733 AATTTTATAA
*
10541743 ATATTAAATAATTTAAAATTTTAT
1 ATATTAAATAATTTAAAATTTAAT
*
10541767 -TATTATATATAATTT-TAATTTAAT
1 ATATTA-A-ATAATTTAAAATTTAAT
*
10541791 ATATTTAATA
1 ATATTAAATA
10541801 TTTTTTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 8 0.29
24 9 0.32
25 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAAATAATTTAAAATTTAAT
Found at i:10545264 original size:3 final size:3
Alignment explanation
Indices: 10545256--10545300 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10545246 TTAAGATATA
10545256 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10545301 TTAAAAGGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10546309 original size:18 final size:18
Alignment explanation
Indices: 10546286--10546338 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
10546276 TTTAAATGAA
10546286 TTAATTCATTGAATTAAT
1 TTAATTCATTGAATTAAT
10546304 TTAATTCGATT-AATTAA-
1 TTAATTC-ATTGAATTAAT
*
10546321 TCAATT-ATTG-ATTAAT
1 TTAATTCATTGAATTAAT
10546337 TT
1 TT
10546339 TGATTGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 8 0.27
16 1 0.03
17 5 0.17
18 13 0.43
19 3 0.10
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
TTAATTCATTGAATTAAT
Found at i:10547696 original size:22 final size:22
Alignment explanation
Indices: 10547671--10547713 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10547661 ATATTAAAAT
10547671 AATTTATAAAAATAAA-AAATTA
1 AATTTA-AAAAATAAATAAATTA
10547693 AATTTAAAAAATAAATAAATT
1 AATTTAAAAAATAAATAAATT
10547714 GAACCAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTAAAAAATAAATAAATTA
Found at i:10547704 original size:21 final size:23
Alignment explanation
Indices: 10547654--10547713 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
10547644 TTGAATATAT
* *
10547654 TAAAAATATATTAAAAT-AATTTA
1 TAAAAATA-AATAAATTAAATTTA
10547677 TAAAAATAAA-AAATTAAATTTA
1 TAAAAATAAATAAATTAAATTTA
10547699 -AAAAATAAATAAATT
1 TAAAAATAAATAAATT
10547714 GAACCAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 13 0.39
22 12 0.36
23 8 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAAATAAATAAATTAAATTTA
Found at i:10561052 original size:2 final size:2
Alignment explanation
Indices: 10561045--10561084 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
10561035 ATACACAAAC
*
10561045 AT AT AT AT AT AT AT AT AT AT AT AT AC 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
10561085 TAATTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10561157 original size:24 final size:25
Alignment explanation
Indices: 10561128--10561187 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
10561118 TAACTAAATT
10561128 ATAATTATAATATAATATAAT-ATA
1 ATAATTATAATATAATATAATAATA
* **
10561152 ATAATTTTAATATTTTATAATAATA
1 ATAATTATAATATAATATAATAATA
*
10561177 A-AATTAAAATA
1 ATAATTATAATA
10561188 ATTATTATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATAATTATAATATAATATAATAATA
Found at i:10563290 original size:22 final size:21
Alignment explanation
Indices: 10563221--10563432 Score: 82
Period size: 22 Copynumber: 9.6 Consensus size: 21
10563211 ATAAAAAATC
*
10563221 TTATCATCGATTTATAATTAAG
1 TTATCAT-GATTTATTATTAAG
* * * *
10563243 TTATTATTAATTTATTACTATG
1 TTATCA-TGATTTATTATTAAG
*
10563265 TTATCAGTGATTTATTATTAAA
1 TTATCA-TGATTTATTATTAAG
* * *
10563287 TTATTAATGATTTACTGTTAAG
1 TTA-TCATGATTTATTATTAAG
* * * *
10563309 TTGTGAATGATTTACTACTAAG
1 TTAT-CATGATTTATTATTAAG
* ** * *
10563331 TTATTGATGATTTAAGACTAAC
1 TTA-TCATGATTTATTATTAAG
* * *
10563353 TTATTGATGATTTAATACTAAG
1 TTA-TCATGATTTATTATTAAG
* * *
10563375 TTATTAATAATTTATTATAAAG
1 TTA-TCATGATTTATTATTAAG
* * * *
10563397 TTATAACTAATTTACTATGAAG
1 TTATCA-TGATTTATTATTAAG
10563419 TTATCGATGATTTA
1 TTATC-ATGATTTA
10563433 CTACAAAATT
Statistics
Matches: 150, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
21 4 0.03
22 141 0.94
23 5 0.03
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (21 bp):
TTATCATGATTTATTATTAAG
Found at i:10563388 original size:66 final size:66
Alignment explanation
Indices: 10563239--10563388 Score: 149
Period size: 66 Copynumber: 2.3 Consensus size: 66
10563229 GATTTATAAT
* * * ** * * *
10563239 TAAGTTATTATTAATTTATTACTATGTTATCAGTGATTTATTATTAAATTATTAATGATTTACTG
1 TAAGTTATTAATAATTTACTACTAAGTTATCAGTGATTTAAGACTAAATTATTAATGATTTAATA
*
10563304 T
66 C
* * * * * *
10563305 TAAGTTGTGAATGATTTACTACTAAGTTAT-TGATGATTTAAGACTAACTTATTGATGATTTAAT
1 TAAGTTATTAATAATTTACTACTAAGTTATCAG-TGATTTAAGACTAAATTATTAATGATTTAAT
10563369 AC
65 AC
10563371 TAAGTTATTAATAATTTA
1 TAAGTTATTAATAATTTA
10563389 TTATAAAGTT
Statistics
Matches: 65, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
65 1 0.02
66 64 0.98
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.48
Consensus pattern (66 bp):
TAAGTTATTAATAATTTACTACTAAGTTATCAGTGATTTAAGACTAAATTATTAATGATTTAATA
C
Found at i:10563433 original size:22 final size:22
Alignment explanation
Indices: 10563272--10563436 Score: 113
Period size: 22 Copynumber: 7.5 Consensus size: 22
10563262 ATGTTATCAG
* * * *
10563272 TGATTTATTATTAAATTATTAA
1 TGATTTACTACTAAGTTATTGA
** *
10563294 TGATTTACTGTTAAGTT-GTGAA
1 TGATTTACTACTAAGTTATTG-A
10563316 TGATTTACTACTAAGTTATTGA
1 TGATTTACTACTAAGTTATTGA
** *
10563338 TGATTTAAGACTAACTTATTGA
1 TGATTTACTACTAAGTTATTGA
* *
10563360 TGATTTAATACTAAGTTATTAA
1 TGATTTACTACTAAGTTATTGA
* * *
10563382 TAATTTATTA-TAAAGTTA-TAA
1 TGATTTACTACT-AAGTTATTGA
* *
10563403 CTAATTTACTA-TGAAGTTATCGA
1 -TGATTTACTACT-AAGTTATTGA
10563426 TGATTTACTAC
1 TGATTTACTAC
10563437 AAAATTATCA
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
21 5 0.04
22 108 0.93
23 3 0.03
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (22 bp):
TGATTTACTACTAAGTTATTGA
Found at i:10563636 original size:22 final size:22
Alignment explanation
Indices: 10563563--10563636 Score: 53
Period size: 22 Copynumber: 3.4 Consensus size: 22
10563553 AGTTTATTAT
* * *
10563563 TAAGTTTTCAA-TAGTTACCTAT
1 TAAGTTATCAATTAATTA-CTAC
* * *
10563585 TAAGTTATCAATTATTTGCTAT
1 TAAGTTATCAATTAATTACTAC
*
10563607 TAAATTATC-ATTGAATTACTAC
1 TAAGTTATCAATT-AATTACTAC
10563629 TAAGTTAT
1 TAAGTTAT
10563637 TTATGATAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 3 0.07
22 35 0.83
23 4 0.10
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (22 bp):
TAAGTTATCAATTAATTACTAC
Found at i:10563906 original size:22 final size:21
Alignment explanation
Indices: 10563878--10563923 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
10563868 TACTACTCAC
**
10563878 TTACTACTACCTTATCATTGAT
1 TTACTACTAAATTATCA-TGAT
10563900 TTACTACTAAATTATCATGAT
1 TTACTACTAAATTATCATGAT
10563921 TTA
1 TTA
10563924 TCACCAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (21 bp):
TTACTACTAAATTATCATGAT
Found at i:10563960 original size:22 final size:22
Alignment explanation
Indices: 10563929--10564075 Score: 82
Period size: 22 Copynumber: 6.7 Consensus size: 22
10563919 ATTTATCACC
* *
10563929 AAGTTGTAAATTATTTACTATT
1 AAGTTATAAATAATTTACTATT
* ** * *
10563951 AAATTATAAACGATTTATTACT
1 AAGTTATAAATAATTTACTATT
**
10563973 AAGTTATTGATAATTTACTATT
1 AAGTTATAAATAATTTACTATT
*
10563995 AAGTTATTAATAATTTA-T-TGT
1 AAGTTATAAATAATTTACTAT-T
* * * *
10564016 AATGTTATTACTGATTTACTATA
1 AA-GTTATAAATAATTTACTATT
* ** * *
10564039 AAGTAATTGATGATTTACTATA
1 AAGTTATAAATAATTTACTATT
*
10564061 AAGTTATTAATAATT
1 AAGTTATAAATAATT
10564076 AACTGATTTA
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.01
21 4 0.04
22 89 0.91
23 3 0.03
24 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (22 bp):
AAGTTATAAATAATTTACTATT
Found at i:10564011 original size:44 final size:42
Alignment explanation
Indices: 10563941--10564075 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 42
10563931 GTTGTAAATT
* * *
10563941 ATTTACTATTAAATTATAAACGATTTATTACTAAGTTATTGATA
1 ATTTACTATTAAGTTATTAATGATTTATTA-TAAGTTATT-ATA
* * *
10563985 ATTTACTATTAAGTTATTAATAATTTATTGTAATGTTATTACTG
1 ATTTACTATTAAGTTATTAATGATTTATTATAA-GTTATTA-TA
* * * *
10564029 ATTTACTATAAAGTAATTGATGATTTACTATAAAGTTATTAATA
1 ATTTACTATTAAGTTATTAATGATTTATTAT-AAGTTATT-ATA
10564073 ATT
1 ATT
10564076 AACTGATTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
43 4 0.05
44 67 0.91
45 3 0.04
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (42 bp):
ATTTACTATTAAGTTATTAATGATTTATTATAAGTTATTATA
Found at i:10564126 original size:11 final size:11
Alignment explanation
Indices: 10564112--10564145 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
10564102 AATTTATAAA
10564112 AAATTATCAAT
1 AAATTATCAAT
10564123 AAATTA-CAACT
1 AAATTATCAA-T
10564134 AAATTATCAAT
1 AAATTATCAAT
10564145 A
1 A
10564146 TTTTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 3 0.14
11 15 0.71
12 3 0.14
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTATCAAT
Found at i:10564183 original size:22 final size:22
Alignment explanation
Indices: 10564158--10564332 Score: 67
Period size: 22 Copynumber: 8.0 Consensus size: 22
10564148 TTATTATTTT
10564158 GTTATTAGTGATTTACTACTAA
1 GTTATTAGTGATTTACTACTAA
* * * *
10564180 GTTA-TCGATAATTCACTATTAA
1 GTTATTAG-TGATTTACTACTAA
* *
10564202 ATTATTAGTGATTTACTA-TTA
1 GTTATTAGTGATTTACTACTAA
* * **
10564223 --TACTGTAATGCATTTGCTACTTG
1 GTTA-T-TAGTG-ATTTACTACTAA
* * *
10564246 GTTATCATTGATTTACTACTGA
1 GTTATTAGTGATTTACTACTAA
*
10564268 GTT-TTAGTGA-TTAGCTATTAA
1 GTTATTAGTGATTTA-CTACTAA
* * * * * *
10564289 ATTATCATTAATTTATTGCTAA
1 GTTATTAGTGATTTACTACTAA
10564311 GTTATTTA-TGATTTACTACTAA
1 GTTA-TTAGTGATTTACTACTAA
10564333 ATTTATAATT
Statistics
Matches: 108, Mismatches: 33, Indels: 24
0.65 0.20 0.15
Matches are distributed among these distances:
19 2 0.02
20 4 0.04
21 20 0.19
22 67 0.62
23 12 0.11
24 1 0.01
25 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (22 bp):
GTTATTAGTGATTTACTACTAA
Found at i:10564185 original size:44 final size:44
Alignment explanation
Indices: 10564126--10564219 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
10564116 TATCAATAAA
* * * * ***
10564126 TTACAACTAAATTATCAATATTTTATTATTTTGTTATTAGTGAT
1 TTACTACTAAATTATCAATAATTCACTATTAAATTATTAGTGAT
* *
10564170 TTACTACTAAGTTATCGATAATTCACTATTAAATTATTAGTGAT
1 TTACTACTAAATTATCAATAATTCACTATTAAATTATTAGTGAT
10564214 TTACTA
1 TTACTA
10564220 TTATACTGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (44 bp):
TTACTACTAAATTATCAATAATTCACTATTAAATTATTAGTGAT
Found at i:10564439 original size:22 final size:22
Alignment explanation
Indices: 10564386--10564449 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
10564376 ATGCTGTCAC
* * *
10564386 TAATTTACTACTAAATTTTCAT
1 TAATTAACTACTAAATTATCAA
*
10564408 TAATTTACTACTAAATTATCAA
1 TAATTAACTACTAAATTATCAA
* * *
10564430 TGATTAACTATTAAGTTATC
1 TAATTAACTACTAAATTATC
10564450 TTTTTTATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (22 bp):
TAATTAACTACTAAATTATCAA
Found at i:10564489 original size:22 final size:22
Alignment explanation
Indices: 10564461--10564519 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
10564451 TTTTTATGAA
*
10564461 GTTATTATTAATTTACAACTAT
1 GTTATTATTAATTTACAACTAC
** *
10564483 GTTATTATGCATTTACAATTAC
1 GTTATTATTAATTTACAACTAC
* *
10564505 GTTATAATTTATTTA
1 GTTATTATTAATTTA
10564520 TTATTAAGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (22 bp):
GTTATTATTAATTTACAACTAC
Found at i:10564733 original size:22 final size:22
Alignment explanation
Indices: 10564506--10564743 Score: 103
Period size: 22 Copynumber: 10.6 Consensus size: 22
10564496 TACAATTACG
* * *
10564506 TTATAATTTATTTATTATTAAG
1 TTATAATTGATTTACTATTAAA
* * * *
10564528 TTATTA-CGCTTTAACTATTATA
1 TTATAATTGATTT-ACTATTAAA
* * * *
10564550 TTATTACTAATTTACTACTAAA
1 TTATAATTGATTTACTATTAAA
* *
10564572 TTATAATTGATATACTATTAAG
1 TTATAATTGATTTACTATTAAA
* *
10564594 TTATATCTCTAATTTACTATACTAAA
1 TTATA-AT-TGATTTACTAT--TAAA
* * *
10564620 TTATTATTGATTAACTATTAAT
1 TTATAATTGATTTACTATTAAA
* *
10564642 TTACTGA-TGA-TTACTATTAAG
1 TTA-TAATTGATTTACTATTAAA
* *
10564663 TTAT-ATTGATTTACTTTTAAT
1 TTATAATTGATTTACTATTAAA
* *
10564684 TTTTAATT-ATTAATTACTACTT-AG
1 TTATAATTGA-T--TTACTA-TTAAA
10564708 TTATAAATT-ATTTACTATTAAA
1 TTAT-AATTGATTTACTATTAAA
*
10564730 TTATTATTGATTTA
1 TTATAATTGATTTA
10564744 TTACTAAGCT
Statistics
Matches: 161, Mismatches: 38, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
19 1 0.01
20 4 0.02
21 33 0.20
22 74 0.46
23 6 0.04
24 28 0.17
25 8 0.05
26 7 0.04
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (22 bp):
TTATAATTGATTTACTATTAAA
Found at i:10565092 original size:22 final size:22
Alignment explanation
Indices: 10565067--10565392 Score: 141
Period size: 22 Copynumber: 15.2 Consensus size: 22
10565057 ATTAAATCTT
* *
10565067 ATTTACTATTAGGCTATCATTA
1 ATTTACTATTAAGTTATCATTA
*
10565089 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * *
10565111 ATTTATTATTAAGTTATAAATA
1 ATTTACTATTAAGTTATCATTA
*
10565133 ATTAACTATTAAGTTATCACTT-
1 ATTTACTATTAAGTTATCA-TTA
** *
10565155 ATTTTTTATTAAGTTATCCTTA
1 ATTTACTATTAAGTTATCATTA
* *
10565177 ATTTACTAATATGTGT-T-A-TA
1 ATTTACTATTAAGT-TATCATTA
* * * *
10565197 CATTTA-TAATTACG-TATAAATG
1 -ATTTACT-ATTAAGTTATCATTA
* * *
10565219 ATTTACTGTTAAGTTAT-TTGTT
1 ATTTACTATTAAGTTATCAT-TA
* * *
10565241 ATTTACTACTATGTTATTATGT-
1 ATTTACTATTAAGTTATCAT-TA
* *
10565263 ATTTATTATTATGTTATCA-TA
1 ATTTACTATTAAGTTATCATTA
10565284 CA--T--TATT---TTATCAATT-
1 -ATTTACTATTAAGTTATC-ATTA
* * * * *
10565300 ATTTATTACTAAATTATTATTT
1 ATTTACTATTAAGTTATCATTA
*
10565322 ATTTACTATTAAGTTATTATTA
1 ATTTACTATTAAGTTATCATTA
*
10565344 TTTTACTATTAAGTTATTCA-TA
1 ATTTACTATTAAGTTA-TCATTA
*
10565366 ATTTACTA-TACAGTTTTCATTA
1 ATTTACTATTA-AGTTATCATTA
10565388 ATTTA
1 ATTTA
10565393 GTGTAAAGTT
Statistics
Matches: 232, Mismatches: 45, Indels: 54
0.70 0.14 0.16
Matches are distributed among these distances:
15 6 0.03
16 1 0.00
17 2 0.01
18 4 0.02
19 4 0.02
20 6 0.03
21 29 0.12
22 173 0.75
23 7 0.03
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:10565279 original size:11 final size:11
Alignment explanation
Indices: 10565250--10565361 Score: 50
Period size: 11 Copynumber: 9.8 Consensus size: 11
10565240 TATTTACTAC
10565250 TATGTTATTAT
1 TATGTTATTAT
10565261 GTAT-TTATTAT
1 -TATGTTATTAT
10565272 TATGTTATCATACAT
1 TATGTTAT--T--AT
* *
10565287 TATTTTATCAAT
1 TATGTTAT-TAT
*
10565299 TAT-TTATTAC
1 TATGTTATTAT
**
10565309 TAAATTATTATT
1 TATGTTATTA-T
*
10565321 TAT-TTACTAT
1 TATGTTATTAT
*
10565331 TAAGTTATTAT
1 TATGTTATTAT
* *
10565342 TATTTTACTAT
1 TATGTTATTAT
*
10565353 TAAGTTATT
1 TATGTTATT
10565362 CATAATTTAC
Statistics
Matches: 75, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
10 9 0.12
11 46 0.61
12 10 0.13
13 1 0.01
15 9 0.12
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (11 bp):
TATGTTATTAT
Found at i:10565402 original size:22 final size:22
Alignment explanation
Indices: 10565322--10565403 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
10565312 ATTATTATTT
*
10565322 ATTTACTATTAAGTTATT-ATTA
1 ATTTACTATAAAGTTATTCA-TA
* *
10565344 TTTTACTATTAAGTTATTCATA
1 ATTTACTATAAAGTTATTCATA
*
10565366 ATTTACTATACAGTT-TTCATTA
1 ATTTACTATAAAGTTATTCA-TA
* *
10565388 ATTTAGTGTAAAGTTA
1 ATTTACTATAAAGTTA
10565404 ATTTAGTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 4 0.08
22 45 0.90
23 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTTACTATAAAGTTATTCATA
Found at i:10565406 original size:16 final size:16
Alignment explanation
Indices: 10565385--10565419 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10565375 ACAGTTTTCA
10565385 TTAATTTAGTGTAAAG
1 TTAATTTAGTGTAAAG
10565401 TTAATTTAGTGTAAAG
1 TTAATTTAGTGTAAAG
10565417 TTA
1 TTA
10565420 TTATTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
TTAATTTAGTGTAAAG
Found at i:10568479 original size:356 final size:356
Alignment explanation
Indices: 10567749--10569163 Score: 2442
Period size: 356 Copynumber: 4.0 Consensus size: 356
10567739 TACAAATAAA
*
10567749 TTTTTAATGTAATTTAATTTGATATAAATTCTATTTATAAATTTTTAATTGATTTAAATTTAAAT
1 TTTTTAATGTAATTTAATTTGATATAAATTCTATTCATAAATTTTTAATTGATTTAAATTTAAAT
*
10567814 AACTAACAAATAAAAAGCTATATATTTAATGGCAATTAATCTTTATTAAATAAATAAATAAAT-C
66 AACTAACAAATAAAAAGCTATATATTTAATGGCAAATAATCTTTATTAAATAAATAAATAAATGC
* *
10567878 TAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGATATTTATGTTATTAACTTTT
131 TAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGGTATTTATGCTATTAACTTTT
*
10567943 AACATTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAAAAGAAAATAATCTTTA
196 AACACTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAAAAGAAAATAATCTTTA
*
10568008 ATACATAAATAAAAAATGCTAAAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTTATAAGGGT
261 ATACATAAATAAAAAATGCTAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTTATAAGGGT
*
10568073 ATTTATGTCGTTCATTTTTAATAATGTGAAC
326 ATTTATGTCGTTCACTTTTAATAATGTGAAC
* *
10568104 TTTTTAATGTAGTTTTAATTTGATTTAAATTCTATTCATAAATTTTTAATTGATTTAAATTTAAA
1 TTTTTAATGTA-ATTTAATTTGATATAAATTCTATTCATAAATTTTTAATTGATTTAAATTTAAA
10568169 TAACTAACAAATAAAAAGCTATATATTTAATGGCAAATAATCTTTATTAAATAAATAAATAAATG
65 TAACTAACAAATAAAAAGCTATATATTTAATGGCAAATAATCTTTATTAAATAAATAAATAAATG
* * *
10568234 CTAAAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTTATAAGGGTATTTGTGCTATTAACTTT
130 CTAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGGTATTTATGCTATTAACTTT
10568299 TAACACTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAAAAGAAAATAATCTTT
195 TAACACTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAAAAGAAAATAATCTTT
** * *
10568364 AATACATAAATGTAAAATGCTAGAAATTTAAAGGTAAATTTGTTATTTCTTGAAATTTGTAAGGG
260 AATACATAAATAAAAAATGCTAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTTATAAGGG
*
10568429 TATTTATGTCGTTCACTTGTAATAATGTGAAC
325 TATTTATGTCGTTCACTTTTAATAATGTGAAC
*
10568461 TTTTTAATGTAGTTTAATTTGATATAAATTCTATTCATAAATTTTTAATTGATTTAAATTTAAAT
1 TTTTTAATGTAATTTAATTTGATATAAATTCTATTCATAAATTTTTAATTGATTTAAATTTAAAT
*
10568526 AACTAACAAATAAAAAGCTATATATTTAATGGCAAATAATTTTTATTAAATAAATAAATAAATGC
66 AACTAACAAATAAAAAGCTATATATTTAATGGCAAATAATCTTTATTAAATAAATAAATAAATGC
*
10568591 TAGAAATTTAAAGGTAAATTTGTTA-TTTTTAAAATTCATAAAGGTATTTATGCTATTAACTTTT
131 TAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGGTATTTATGCTATTAACTTTT
**
10568655 AACACTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAATGGAAAATAATCTTTA
196 AACACTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAAAAGAAAATAATCTTTA
* *
10568720 ATACATAAATAAAAAATGCTAGAATTTTAAAGGTAAATTTGTTATTTCTTAAAATTTGTAAGGGT
261 ATACATAAATAAAAAATGCTAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTTATAAGGGT
*
10568785 ATTTATGTCGTTCACTTTTAATAATATGAAC
326 ATTTATGTCGTTCACTTTTAATAATGTGAAC
*
10568816 TTTTTAATGTAATTTAATTTGATATAAATTATATTCATAAATTTTTAATTGATTTAAATTTAAAT
1 TTTTTAATGTAATTTAATTTGATATAAATTCTATTCATAAATTTTTAATTGATTTAAATTTAAAT
* * *
10568881 AACAAACAAATAAAAAGCTATATATTTAATGGTAAATAATTTTTATTAAATAAATAAATAAATGC
66 AACTAACAAATAAAAAGCTATATATTTAATGGCAAATAATCTTTATTAAATAAATAAATAAATGC
10568946 TAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGGTATTTATGCTATTAACTTTT
131 TAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGGTATTTATGCTATTAACTTTT
* *
10569011 AACATTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTT-AATGAAAAATAATCTTT
196 AACACTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAAAAG-AAAATAATCTTT
* * * *
10569075 AATATATAAATAAAAAATGCTCA-AAATTTAAAGATAAATTTATTATTTCTTAAAATTTATAAAG
260 AATACATAAATAAAAAATGCT-AGAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTTATAAGG
* *
10569139 ATATTTATGTCATTCACTTTTAATA
324 GTATTTATGTCGTTCACTTTTAATA
10569164 GTTTTAGAGT
Statistics
Matches: 1007, Mismatches: 48, Indels: 9
0.95 0.05 0.01
Matches are distributed among these distances:
355 353 0.35
356 428 0.43
357 226 0.22
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (356 bp):
TTTTTAATGTAATTTAATTTGATATAAATTCTATTCATAAATTTTTAATTGATTTAAATTTAAAT
AACTAACAAATAAAAAGCTATATATTTAATGGCAAATAATCTTTATTAAATAAATAAATAAATGC
TAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCATAAGGGTATTTATGCTATTAACTTTT
AACACTTTTGGATTAATTTAAATAATTAAATAATAAATGCTATATTTAAAAGAAAATAATCTTTA
ATACATAAATAAAAAATGCTAGAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTTATAAGGGT
ATTTATGTCGTTCACTTTTAATAATGTGAAC
Found at i:10570610 original size:2 final size:2
Alignment explanation
Indices: 10570603--10570634 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10570593 TTTCTACATC
*
10570603 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10570635 ATGAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10576151 original size:14 final size:14
Alignment explanation
Indices: 10576132--10576158 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10576122 TAAGAAATTT
10576132 TATTTTTATTTTTG
1 TATTTTTATTTTTG
10576146 TATTTTTATTTTT
1 TATTTTTATTTTT
10576159 AATTCCCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (14 bp):
TATTTTTATTTTTG
Found at i:10576846 original size:18 final size:17
Alignment explanation
Indices: 10576823--10576868 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
10576813 TTCTTTTATT
10576823 TTTTTCTCTTTTTCTTTC
1 TTTTTCTCTTTTT-TTTC
10576841 TTTTTCTCTTTTTTTTC
1 TTTTTCTCTTTTTTTTC
**
10576858 TACTTCTCTTT
1 TTTTTCTCTTT
10576869 GTCGACATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTC
Found at i:10577045 original size:19 final size:18
Alignment explanation
Indices: 10577003--10577045 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
10576993 AAACCAAACC
*
10577003 TACTTTCTTTTTCTATTT
1 TACTTTCTTTTTCTATCT
* *
10577021 TTCTTTCCTTTTTCTCTCT
1 TACTTT-CTTTTTCTATCT
10577040 TACTTT
1 TACTTT
10577046 TTTCCTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (18 bp):
TACTTTCTTTTTCTATCT
Found at i:10578152 original size:20 final size:20
Alignment explanation
Indices: 10578127--10578168 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10578117 AAACTGAAAG
10578127 TCGGATTTTGAGCCTTCAAA
1 TCGGATTTTGAGCCTTCAAA
10578147 TCGGATTTTGAGCCTTCAAA
1 TCGGATTTTGAGCCTTCAAA
10578167 TC
1 TC
10578169 AAATTGGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
TCGGATTTTGAGCCTTCAAA
Found at i:10581272 original size:22 final size:21
Alignment explanation
Indices: 10581245--10581298 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
10581235 AGTATCTTCG
* *
10581245 AAAATAGTTAAAAATATTATTA
1 AAAATAATTAAAAAGA-TATTA
*
10581267 AAAATAATTATAAAGATATTA
1 AAAATAATTAAAAAGATATTA
*
10581288 AAAAAAATTAA
1 AAAATAATTAA
10581299 CATAAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAATAATTAAAAAGATATTA
Found at i:10581293 original size:24 final size:22
Alignment explanation
Indices: 10581245--10581295 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
10581235 AGTATCTTCG
* **
10581245 AAAATAGTTAAAAATATTATTA
1 AAAATAATTAAAAATATTAAAA
10581267 AAAATAATTATAAAGATATTAAAA
1 AAAATAATTA-AAA-ATATTAAAA
10581291 AAAAT
1 AAAAT
10581296 TAACATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 3 0.12
24 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAATAATTAAAAATATTAAAA
Found at i:10582818 original size:232 final size:230
Alignment explanation
Indices: 10582421--10584412 Score: 809
Period size: 232 Copynumber: 8.6 Consensus size: 230
10582411 TGTAATACAT
* * * * * * ** * * ** * *
10582421 TAAGAAAGAACTATTATAATTCTAAACATAATTAAATGTAAAAACAATCATAAAACCAAATTACT
1 TAAGAAAGAATTATGACAATTATAAACGTAATGAAAAATAAGAACAACCATAAAAATATATTATT
* * *
10582486 ATAACATAAATAATTA-AGCTGTA-AACATAAAATTTTAATT-A-ATTATTTT-TAAATATATAA
66 ATAATATAAATAATTATA-TTG-ACAACATAAAATTTTAATTAATATTGTTTTGTAAATATATAA
* ** * * *
10582546 GAAAAATAGCTAAAAATTAAAATATTTATTGGTAAATTAAACATGTAAGAAAAAAATAAAATTAG
129 GAAAAATAG-TAAAAATTAAAAAATAAATTGATTAATTAAACA-GTAAGAAAAAAGTAAAATTAG
* * *
10582611 TATCATTTAGCTAAAAT-AGTATGAATTATCGTAATATCC
192 TATCATTTA-CTAAAATAAGTAAGAAGTATCATAATATCC
* * * * * *
10582650 T-ACAAAGCATTATGACTATTATAAATGTAATGAAAAATAAGAACAACCCTAATAATATATTATT
1 TAAGAAAGAATTATGACAATTATAAACGTAATGAAAAATAAGAACAACCATAAAAATATATTATT
* * *
10582714 GTAATATAAATAATTATATTGGCAACATAAAATTTTAATTAAGTATTGTTTTGTAAATATTTAAG
66 ATAATATAAATAATTATATTGACAACATAAAATTTTAATTAA-TATTGTTTTGTAAATATATAAG
* ** * * *
10582779 GAAAATAGATGGAAATTAAAAAATAAATTGATTAATTAAATAAGTGAGAACAAATGTAAAATTAG
130 AAAAATAG-TAAAAATTAAAAAATAAATTGATTAATTAAA-CAGTAAGAA-AAAAGTAAAATTAG
* * *
10582844 TATCATTGACATAAAATAAATAAGAAGTGTCATGACATAT--
192 TATCATTTAC-TAAAATAAGTAAGAAGTATCAT-A-ATATCC
* * * * *
10582884 TGAGAAA-AAGTTATGACAATTATAAACGTAATG-AAAA-AA-AATAACTATAAGAAGATATTAT
1 TAAGAAAGAA-TTATGACAATTATAAACGTAATGAAAAATAAGAACAACCATAAAAATATATTAT
* * * * * * *
10582945 TATAAAAAAAATAATTATATTGATAACGTAAAATTTTAATTAATTATTGTTCCTGTGAATATAAA
65 TATAATATAAATAATTATATTGACAACATAAAATTTTAATTAA-TATTGTT-TTGTAAATATATA
* *
10583010 AGAAAAATAGTAAAAAATTAAAAAATAAATT-AATAATGTAAACA--AATGAAAAACGTAAAATT
128 AGAAAAATAGT-AAAAATTAAAAAATAAATTGATTAAT-TAAACAGTAA-GAAAAAAGTAAAATT
* * ** *
10583072 AGTACCATTTAATATAAAATGGGTAAGAAGTATCATAA-AACAC
190 AGTATCATTT-A-CTAAAATAAGTAAGAAGTATCATAATATC-C
* * * *
10583115 TAAGAAAGAATTATGACAATTTTAAACGTGATGAAAAGTAAGAACAATCATAAAAATATATTATT
1 TAAGAAAGAATTATGACAATTATAAACGTAATGAAAAATAAGAACAACCATAAAAATATATTATT
* ** * * * * *
10583180 ATAATATAAATAATTATGA-TGATAATGTAAAATTTTAGCTTATTATTGTTTCTCT--CTATGT-
66 ATAATATAAATAATTAT-ATTGACAACATAAAATTTTA-ATTAATATTGTTT-TGTAAATATATA
*** * * * * *
10583241 -G-AGTGTAGTTAAAAATTAAAAAATAAATCG-GTAATGTAAATAAGTGAGAAGAACTA-TAAAA
128 AGAAAAATAG-TAAAAATTAAAAAATAAATTGATTAAT-TAAA-CAGTAAGAA-AA-AAGTAAAA
* ** * * * *
10583302 TTAGTATTATTTTGTGTAAAAT-GGATAAAAAGTGT--TCAATATAC
188 TTAGTATCA-TTT-ACTAAAATAAG-TAAGAAGTATCAT-AATATCC
** * * * * * * * *
10583346 TAAGAAAGAGCTATGCCAATTCTAAACGTAAT-AGAAAGTGAGAATAATCGTAAGAATATATTAT
1 TAAGAAAGAATTATGACAATTATAAACGTAATGA-AAAATAAGAACAACCATAAAAATATATTAT
* * * ** * * * *
10583410 TGT-ATAATAAATAATTATGTTGGCAATTTAAAATTTTAACTAGTTATTATTTTTTAAATATATA
65 TATAAT-ATAAATAATTATATTGACAACATAAAATTTTAATTA-ATATTGTTTTGTAAATATATA
* * * * * * * *
10583474 TG-AAAATAGGTAAAATTTGAAAAAA-AGAA--GGTAACATAAAAAAG--CGAAAAAATTTTAAA
128 AGAAAAATA-GTAAAAATT-AAAAAATA-AATTGATTA-ATTAAACAGTAAGAAAAAA--GTAAA
* * * * * * *
10583533 ATTAGTATAATTTGACATAATATGAGTAAAAAATATCGTAACA-CAC
187 ATTAGTATCATTT-AC-TAAAATAAGTAAGAAGTATCATAATATC-C
* * * * * * * *
10583579 TAAGAAAAAAGTAATGACAATTCTAAACATAATTAAAAATAAGAATAATCATAAAAAAAT-TTAT
1 TAAGAAAGAA-TTATGACAATTATAAACGTAATGAAAAATAAGAACAACCATAAAAATATATTAT
* * * * *
10583643 TGTAATGTAAATAATTA-AGTTGTCAATATAAAATTTTAATTATTTATT-TTTTGTAAATATAT-
65 TATAATATAAATAATTATA-TTGACAACATAAAATTTTAATTA-ATATTGTTTTGTAAATATATA
* * * *
10583705 --AAAAATAGTTAAGAATTAAAAAACAAATTG-GTAATGTAAACAAGTGAGAAAAAAGT-AAATG
128 AGAAAAATAG-TAAAAATTAAAAAATAAATTGATTAAT-TAAAC-AGTAAGAAAAAAGTAAAAT-
* * * * ** * *
10583766 TAGTATCATTTGACATAAAATAGGTATGAATTGTTGTAGTA-CAT
189 TAGTATCATTT-AC-TAAAATAAGTAAGAAGTATCATAATATC-C
* * * * * * *
10583810 TAA-AAA-AGTTATGATAATTTTAAATGTAATGAAAATTAAGAACAACTATAATAATATATTATT
1 TAAGAAAGAATTATGACAATTATAAACGTAATGAAAAATAAGAACAACCATAAAAATATATTATT
* ** ** * * *
10583873 ATAATGTAAATAATTATATTGGTAATGTAAAACTTTAATTAATTATTG-TTTATAAATATCTAAG
66 ATAATATAAATAATTATATTGACAACATAAAATTTTAATTAA-TATTGTTTTGTAAATATATAAG
* * * * *
10583937 AAAAATAACTAAAAATTAAAAAATAAATTG-GTAATGTAAACAAGTGAGAACAAATGT-AAGTTA
130 AAAAAT-AGTAAAAATTAAAAAATAAATTGATTAAT-TAAAC-AGTAAGAA-AAAAGTAAAATTA
** * ** * * *
10584000 GTGCCATTTAATGTAAAATGGGTAAAAAGTATCATAACA-CGT
191 GTATCATTT-A-CTAAAATAAGTAAGAAGTATCATAATATC-C
* * * * * * * * *
10584042 TAA-AAATGAGTTTTGACAATTGTAAATAG-AATGAAAAGTAAAAATAA-AAGTAAAAAGATATT
1 TAAGAAA-GAATTATGACAATTATAAA-CGTAATGAAAAATAAGAACAACCA-TAAAAATATATT
* * * * * *
10584104 GTTGTAA-AGGT-AATAATTATGTTAACAACATAAAATTTTAATTATTTATTATTCTTGTAAATA
63 ATTATAATA--TAAATAATTATATTGACAACATAAAATTTTAATTA-ATATTGTT-TTGTAAATA
* * * * * ** *
10584167 TATAAAAAAAAATATTTAAAATTAAAAAATAAATTCA-TAACATAAACAAGTGCGAAGTAATA-T
124 TAT-AAGAAAAATAGTAAAAATTAAAAAATAAATTGATTAA-TTAAAC-AGTAAGAA--AAAAGT
* * * *
10584230 AAAATTAATATCATTTGAAATAAAATAGGTTAA-AAGTATCGTAATA-CAC
184 AAAATTAGTATCATTT--ACTAAAATAAG-TAAGAAGTATCATAATATC-C
** ** * * * * *
10584279 TAAGAAAGAACAACAACAATTCTAAACATGATGAAAAGTAAGAACAA-TAGTAAAAATATATTAT
1 TAAGAAAGAATTATGACAATTATAAACGTAATGAAAAATAAGAACAACCA-TAAAAATATATTAT
* ** * * * *
10584343 TATAATATAAATATTTA-AGTAAACAACGTAAAATTTTAATTAATTATTATTTTTATAAATATGT
65 TATAATATAAATAATTATA-TTGACAACATAAAATTTTAATTAA-TATT-GTTTTGTAAATATAT
10584407 AA-AAAA
127 AAGAAAA
10584413 GCTGATAATT
Statistics
Matches: 1354, Mismatches: 300, Indels: 212
0.73 0.16 0.11
Matches are distributed among these distances:
228 114 0.08
229 102 0.08
230 59 0.04
231 200 0.15
232 278 0.21
233 149 0.11
234 207 0.15
235 49 0.04
236 54 0.04
237 131 0.10
238 11 0.01
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.33
Consensus pattern (230 bp):
TAAGAAAGAATTATGACAATTATAAACGTAATGAAAAATAAGAACAACCATAAAAATATATTATT
ATAATATAAATAATTATATTGACAACATAAAATTTTAATTAATATTGTTTTGTAAATATATAAGA
AAAATAGTAAAAATTAAAAAATAAATTGATTAATTAAACAGTAAGAAAAAAGTAAAATTAGTATC
ATTTACTAAAATAAGTAAGAAGTATCATAATATCC
Found at i:10583188 original size:21 final size:20
Alignment explanation
Indices: 10583164--10583211 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
10583154 AAGAACAATC
* *
10583164 ATAAAAATATATTATTATAAT
1 ATAAAAAT-TATGATGATAAT
10583185 ATAAATAATTATGATGATAAT
1 ATAAA-AATTATGATGATAAT
*
10583206 GTAAAA
1 ATAAAA
10583212 TTTTAGCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATAAAAATTATGATGATAAT
Found at i:10590412 original size:11 final size:12
Alignment explanation
Indices: 10590390--10590414 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10590380 GCATGATTTC
10590390 TTTCCTTTTTTT
1 TTTCCTTTTTTT
10590402 TTTCCTTTTTTT
1 TTTCCTTTTTTT
10590414 T
1 T
10590415 GTTTATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTCCTTTTTTT
Found at i:10594213 original size:12 final size:12
Alignment explanation
Indices: 10594196--10594222 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10594186 TCATTTAGTA
10594196 ATACACACACAC
1 ATACACACACAC
10594208 ATACACACACAC
1 ATACACACACAC
10594220 ATA
1 ATA
10594223 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.37, G:0.00, T:0.11
Consensus pattern (12 bp):
ATACACACACAC
Found at i:10601295 original size:81 final size:81
Alignment explanation
Indices: 10601185--10601333 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
10601175 AATCTTTTTC
* * *
10601185 ATTCACATTCACTTCATCTACATTCAATCCCTCAACAGACCTTAAACCCTTAATCGTAACTTCAT
1 ATTCACATTCACTTCATCTACATTAAATCCCTCAACAGACCTTAAACCCTCAATAGTAACTTCAT
10601250 TAGCATCATTAACTTG
66 TAGCATCATTAACTTG
* * * *
10601266 ATTCACATTGATTTC-TCCTACATTAAATCCCTCAATAGACCTTAAACCCTCAATAGTGACTTCA
1 ATTCACATTCACTTCAT-CTACATTAAATCCCTCAACAGACCTTAAACCCTCAATAGTAACTTCA
10601330 TTAG
65 TTAG
10601334 TGTTATTAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (81 bp):
ATTCACATTCACTTCATCTACATTAAATCCCTCAACAGACCTTAAACCCTCAATAGTAACTTCAT
TAGCATCATTAACTTG
Found at i:10603190 original size:27 final size:26
Alignment explanation
Indices: 10603151--10603217 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
10603141 AAAAAATCTC
10603151 TAAA-CTTTA-TTTTCTTAT-TTAAA
1 TAAATCTTTATTTTTCTTATATTAAA
*
10603174 TAAATTCTTATATTTTTGTTATACTTAAA
1 TAAA-TCTT-TATTTTTCTTATA-TTAAA
10603203 TAAATCTTTATTTTT
1 TAAATCTTTATTTTT
10603218 TGATTGATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 4 0.11
25 3 0.08
26 2 0.05
27 15 0.41
28 4 0.11
29 9 0.24
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (26 bp):
TAAATCTTTATTTTTCTTATATTAAA
Found at i:10603354 original size:30 final size:29
Alignment explanation
Indices: 10603266--10603339 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 29
10603256 ATTAATTTAT
10603266 ATTAAGAGTTTATTTATATACAAATTAAA
1 ATTAAGAGTTTATTTATATACAAATTAAA
*
10603295 GATTAA-AGTTTATTTAGATACAAATTAAA
1 -ATTAAGAGTTTATTTATATACAAATTAAA
10603324 ATTTAAGAGTTTATTT
1 A-TTAAGAGTTTATTT
10603340 GAGTGTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 26 0.63
30 14 0.34
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (29 bp):
ATTAAGAGTTTATTTATATACAAATTAAA
Found at i:10604223 original size:13 final size:12
Alignment explanation
Indices: 10604196--10604220 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10604186 TATATATATA
10604196 TAAATAATTTTT
1 TAAATAATTTTT
10604208 TAAATAATTTTT
1 TAAATAATTTTT
10604220 T
1 T
10604221 TAATTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATAATTTTT
Found at i:10604977 original size:23 final size:22
Alignment explanation
Indices: 10604931--10605008 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
10604921 TAGAATGATG
* * *
10604931 TAAAATTATTTTTTTTAATATT
1 TAAAATTTTTTTTTTTATTTTT
10604953 TAAAATTTTTATTTTTTATTTTT
1 TAAAATTTTT-TTTTTTATTTTT
* *
10604976 TAAAATTATTTTTTATGATTTTT
1 TAAAATT-TTTTTTTTTATTTTT
*
10604999 AAAAATTTTT
1 TAAAATTTTT
10605009 GATATTAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.25
23 33 0.69
24 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (22 bp):
TAAAATTTTTTTTTTTATTTTT
Found at i:10604997 original size:22 final size:21
Alignment explanation
Indices: 10604931--10605014 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 21
10604921 TAGAATGATG
* *
10604931 TAAAATTATTTTTTTTAATATT
1 TAAAATTATTTTTTAT-ATTTT
10604953 TAAAATTTTTATTTTTTAT-TTTT
1 TAAAA---TTATTTTTTATATTTT
10604976 TAAAATTATTTTTTATGATTTT
1 TAAAATTATTTTTTAT-ATTTT
*
10604998 TAAAA--ATTTTTGATATT
1 TAAAATTATTTTTTATATT
10605015 AAGACTCATA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
19 3 0.06
20 19 0.35
22 14 0.26
23 8 0.15
25 10 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TAAAATTATTTTTTATATTTT
Found at i:10615635 original size:73 final size:73
Alignment explanation
Indices: 10615433--10615656 Score: 189
Period size: 73 Copynumber: 3.0 Consensus size: 73
10615423 ATTTTATTTG
* *** * * * *
10615433 ATTCTGATCAAATTAATTGCATTTATATTTAATAACTTAAATTTCTCTCTCAATTAATTTTAAAT
1 ATTCTAATCAAATTAATCAAATTTATTTTTAATAGCTT--ATATCTCTCTTAATTAATTTT-AAT
*
10615498 TTTAATTAATTTG
63 TTTAATT--TTTA
* * * * * * *
10615511 ATTCTAATCAAATTAATTATATTT-CTTTTAATAGATTAAATTTCTTTTAATTAATTTTAATTTT
1 ATTCTAATCAAATTAATCAAATTTATTTTTAATAGCTTATATCTCTCTTAATTAATTTTAATTTT
10615575 AATTTTTA
66 AATTTTTA
* ** * *
10615583 ATTTTTCTTAAATTAATCAAATTTATTTTTAATAGCTTATATCTCTCTTAATTAATTTTATTTTC
1 ATTCTAATCAAATTAATCAAATTTATTTTTAATAGCTTATATCTCTCTTAATTAATTTTAATTT-
*
10615648 TATTTTTTA
65 TAATTTTTA
10615657 TTTGACCTTT
Statistics
Matches: 118, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
72 21 0.18
73 33 0.28
74 18 0.15
75 16 0.14
77 9 0.08
78 21 0.18
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.55
Consensus pattern (73 bp):
ATTCTAATCAAATTAATCAAATTTATTTTTAATAGCTTATATCTCTCTTAATTAATTTTAATTTT
AATTTTTA
Found at i:10617397 original size:30 final size:30
Alignment explanation
Indices: 10617333--10617398 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
10617323 TTGAATATTC
* *
10617333 AATTAAATAAAAATAAATATTTAAAAATTT
1 AATTAAACAAAAATAAATATTTAAAAATTG
10617363 AATTAAACAAAAATAAATATTTAAAGAA-TG
1 AATTAAACAAAAATAAATATTTAAA-AATTG
10617393 AATTAA
1 AATTAA
10617399 TTATAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTAAACAAAAATAAATATTTAAAAATTG
Found at i:10617410 original size:34 final size:29
Alignment explanation
Indices: 10617333--10617410 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 29
10617323 TTGAATATTC
10617333 AATTAAATAAAAATAAATATTTAAAAATTT
1 AATTAAAT-AAAATAAATATTTAAAAATTT
*
10617363 AATTAAACAAAAATAAATATTTAAAGAATGAATT
1 AATTAAA-TAAAATAAATATTTAAA-AAT---TT
10617397 AATTATAATAAAAT
1 AATTA-AATAAAAT
10617411 GATAAATTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 23 0.57
31 3 0.08
34 12 0.30
35 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (29 bp):
AATTAAATAAAATAAATATTTAAAAATTT
Found at i:10617463 original size:13 final size:12
Alignment explanation
Indices: 10617428--10617469 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
10617418 TCTCAGATAA
10617428 TTATTT-AATTT
1 TTATTTAAATTT
10617439 TTATTTAAATTT
1 TTATTTAAATTT
* *
10617451 TT-TTTATATAT
1 TTATTTAAATTT
10617462 TTATTTAA
1 TTATTTAA
10617470 GCCTTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTAAATTT
Found at i:10620233 original size:24 final size:25
Alignment explanation
Indices: 10620190--10620239 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
10620180 AAGAATAAGG
10620190 AAATACTATGGTGAAAAGG-AAGAA
1 AAATACTATGGTGAAAAGGAAAGAA
*
10620214 AAATACTAT-GTCGAACAGGAAAGAA
1 AAATACTATGGT-GAAAAGGAAAGAA
10620239 A
1 A
10620240 GAACAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 15 0.65
25 6 0.26
ACGTcount: A:0.54, C:0.08, G:0.22, T:0.16
Consensus pattern (25 bp):
AAATACTATGGTGAAAAGGAAAGAA
Found at i:10622087 original size:11 final size:10
Alignment explanation
Indices: 10622066--10622210 Score: 81
Period size: 10 Copynumber: 14.6 Consensus size: 10
10622056 GTCATATATT
*
10622066 AAAAAAATTC
1 AAAAAATTTC
10622076 ATAAAAATTTC
1 A-AAAAATTTC
10622087 AAAAAATTTC
1 AAAAAATTTC
10622097 AAAAAATTTC
1 AAAAAATTTC
* **
10622107 AAAAAGTTAAA
1 AAAAAATT-TC
10622118 AAAAAATTATTC
1 AAAAAA-T-TTC
* *
10622130 CAAAAAGTT-
1 AAAAAATTTC
10622139 --AAAATTAT-
1 AAAAAATT-TC
10622147 AAAAAATTT-
1 AAAAAATTTC
*
10622156 -AAAAATTTAA
1 AAAAAATTT-C
10622166 AAAAAATTT-
1 AAAAAATTTC
*
10622175 AAAAAAATTC
1 AAAAAATTTC
*
10622185 TAAAAATATTC
1 AAAAAAT-TTC
*
10622196 AAAATA-TTC
1 AAAAAATTTC
10622205 AAAAAA
1 AAAAAA
10622211 GTTTTTAAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
7 5 0.05
8 9 0.08
9 17 0.16
10 40 0.37
11 29 0.27
12 6 0.06
13 1 0.01
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.28
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:10622151 original size:17 final size:17
Alignment explanation
Indices: 10622131--10622169 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10622121 AAATTATTCC
10622131 AAAAAGTT-AAAATTATA
1 AAAAAGTTAAAAATT-TA
*
10622148 AAAAATTTAAAAATTTA
1 AAAAAGTTAAAAATTTA
10622165 AAAAA
1 AAAAA
10622170 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAAGTTAAAAATTTA
Found at i:10622158 original size:9 final size:9
Alignment explanation
Indices: 10622139--10622228 Score: 58
Period size: 10 Copynumber: 9.4 Consensus size: 9
10622129 CCAAAAAGTT
10622139 AAAATTATAA
1 AAAATT-TAA
10622149 AAAATTT-A
1 AAAATTTAA
10622157 AAAATTTAAAA
1 AAAATTT--AA
10622168 AAAATTTAAA
1 AAAATTT-AA
10622178 AAAATTCTAA
1 AAAATT-TAA
*
10622188 AAATATTCAA
1 AAA-ATTTAA
* *
10622198 AATATTCAA
1 AAAATTTAA
**
10622207 AAAAGTTTTT
1 AAAA-TTTAA
10622217 AAAA-TTAA
1 AAAATTTAA
10622225 AAAA
1 AAAA
10622229 AAATCTATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
8 14 0.21
9 10 0.15
10 30 0.45
11 12 0.18
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAATTTAA
Found at i:10622199 original size:21 final size:21
Alignment explanation
Indices: 10622156--10622199 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10622146 TAAAAAATTT
*
10622156 AAAAATTTAAAAAAAATTTAA
1 AAAAATTTAAAAAAAATTCAA
*
10622177 AAAAATTCT-AAAAATATTCAA
1 AAAAATT-TAAAAAAAATTCAA
10622198 AA
1 AA
10622200 TATTCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATTTAAAAAAAATTCAA
Found at i:10627077 original size:30 final size:29
Alignment explanation
Indices: 10627014--10627077 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
10627004 TTAAAAGTTC
*
10627014 AATTA-AATAAAAAATTAAAAATTTAATT
1 AATTATAATAAAAAATTAAAAATTTAAAT
*
10627042 CATTATAATAAAAATATTAAAAATTTAAAT
1 AATTATAATAAAAA-ATTAAAAATTTAAAT
10627072 AATTAT
1 AATTAT
10627078 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 4 0.13
29 8 0.26
30 19 0.61
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AATTATAATAAAAAATTAAAAATTTAAAT
Found at i:10627105 original size:17 final size:17
Alignment explanation
Indices: 10627083--10627124 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
10627073 ATTATTAAAA
10627083 TTTTATTCGAAAACTTC
1 TTTTATTCGAAAACTTC
* *
10627100 TTTTATTCGAAAGCTTT
1 TTTTATTCGAAAACTTC
10627117 TTTTATTC
1 TTTTATTC
10627125 TTATCCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (17 bp):
TTTTATTCGAAAACTTC
Found at i:10631725 original size:30 final size:31
Alignment explanation
Indices: 10631668--10631728 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
10631658 TTGTATTTAC
10631668 CTGGAAGTTATCTAGGAGTACTAATGGTTTCTG
1 CTGGAAGTTATCTAGGAG-A-TAATGGTTTCTG
*
10631701 CTGGGAGTTATCTAGGAG-TAATGGTTTC
1 CTGGAAGTTATCTAGGAGATAATGGTTTC
10631729 CGCCTCTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.37
33 17 0.63
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (31 bp):
CTGGAAGTTATCTAGGAGATAATGGTTTCTG
Found at i:10634688 original size:15 final size:16
Alignment explanation
Indices: 10634654--10634690 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10634644 TAAATCGATT
*
10634654 TATTTTGAGTTTAGAA
1 TATTTTGAATTTAGAA
10634670 TATTTTGAATTTA-AA
1 TATTTTGAATTTAGAA
10634685 TATTTT
1 TATTTT
10634691 ATTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (16 bp):
TATTTTGAATTTAGAA
Found at i:10637101 original size:27 final size:28
Alignment explanation
Indices: 10637055--10637111 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
10637045 TTTATTTTGA
10637055 TTTTTTTTGGATTTTAGCTT-CGGGTTT
1 TTTTTTTTGGATTTTAGCTTGCGGGTTT
*
10637082 TTTTTTTTGGTATTTT-GCTTGTGGGTTT
1 TTTTTTTTGG-ATTTTAGCTTGCGGGTTT
10637110 TT
1 TT
10637112 CTTGTGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.05, C:0.05, G:0.23, T:0.67
Consensus pattern (28 bp):
TTTTTTTTGGATTTTAGCTTGCGGGTTT
Found at i:10637123 original size:13 final size:13
Alignment explanation
Indices: 10637077--10637124 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
10637067 TTTAGCTTCG
* *
10637077 GGTTTTTTTTTTT
1 GGTTTTTTCTTGT
*
10637090 GGTATTTTGCTTGT
1 GGT-TTTTTCTTGT
*
10637104 GGGTTTTTCTTGT
1 GGTTTTTTCTTGT
10637117 GGTTTTTT
1 GGTTTTTT
10637125 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.02, C:0.04, G:0.25, T:0.69
Consensus pattern (13 bp):
GGTTTTTTCTTGT
Found at i:10638054 original size:6 final size:6
Alignment explanation
Indices: 10638043--10638076 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
10638033 ATTAATTTTG
*
10638043 AAAAAT AAAAAT AAAAAT AAAGAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
10638077 CTATACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:10638845 original size:82 final size:82
Alignment explanation
Indices: 10638757--10638911 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 82
10638747 CCTGGAGGTC
* *
10638757 TTACAAATCTCAACATATTTGAATGCTTC-TCTCAATAA-AGGTATTGAAACTTTAAAAATTTAA
1 TTACAAATCTCAACATATTTGAAT-ATTCAT-TCAATAAGAGGCATTGAAACTTTAAAAATTTAA
10638820 AATATTTTGCCCAAAGATT
64 AATATTTTGCCCAAAGATT
* * ** *
10638839 TTACAAATTTCAACATCTTTGAATATTCATTGTATAAGAGGCATTGAAACTTTGAAAATTTAAAA
1 TTACAAATCTCAACATATTTGAATATTCATTCAATAAGAGGCATTGAAACTTTAAAAATTTAAAA
10638904 TATTTTGC
66 TATTTTGC
10638912 TTAGAGGCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
81 8 0.12
82 56 0.88
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (82 bp):
TTACAAATCTCAACATATTTGAATATTCATTCAATAAGAGGCATTGAAACTTTAAAAATTTAAAA
TATTTTGCCCAAAGATT
Found at i:10639010 original size:23 final size:23
Alignment explanation
Indices: 10638984--10639079 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 23
10638974 ATTAGACTGG
10638984 GCTTAATGTGCCAACTAAACTAA
1 GCTTAATGTGCCAACTAAACTAA
** ** *
10639007 GCTTGGT-TGCCAGTTAATCTAA
1 GCTTAATGTGCCAACTAAACTAA
* *
10639029 G-TTTAGGTGCCAACTAAACTAA
1 GCTTAATGTGCCAACTAAACTAA
* * * *
10639051 GCTTAAAGTGCCAGCTAATCTGA
1 GCTTAATGTGCCAACTAAACTAA
10639074 GCTTAA
1 GCTTAA
10639080 AATGTCAGCC
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
21 2 0.04
22 26 0.47
23 27 0.49
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (23 bp):
GCTTAATGTGCCAACTAAACTAA
Found at i:10639050 original size:22 final size:21
Alignment explanation
Indices: 10638991--10639054 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
10638981 TGGGCTTAAT
10638991 GTGCCAACTAAACTAAGCTTG
1 GTGCCAACTAAACTAAGCTTG
** * *
10639012 GTTGCCAGTTAATCTAAGTTTAG
1 G-TGCCAACTAAACTAAGCTT-G
10639035 GTGCCAACTAAACTAAGCTT
1 GTGCCAACTAAACTAAGCTT
10639055 AAAGTGCCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (21 bp):
GTGCCAACTAAACTAAGCTTG
Found at i:10639080 original size:23 final size:23
Alignment explanation
Indices: 10639035--10639112 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
10639025 CTAAGTTTAG
* * *
10639035 GTGCCAACTAAACTAAGCTTAAA
1 GTGCCAGCTAATCTGAGCTTAAA
10639058 GTGCCAGCTAATCTGAGCTTAAA
1 GTGCCAGCTAATCTGAGCTTAAA
* * * * *
10639081 ATGTCAGCCAATTTG-GAATTAAA
1 GTGCCAGCTAATCTGAG-CTTAAA
10639104 GTGCCAGCT
1 GTGCCAGCT
10639113 TATCAGGGCT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (23 bp):
GTGCCAGCTAATCTGAGCTTAAA
Done.