Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 119 of 135
Found at i:35771090 original size:88 final size:89
Alignment explanation
Indices: 35770992--35771195 Score: 277
Period size: 90 Copynumber: 2.3 Consensus size: 89
35770982 TAATAAGAGC
* *
35770992 AAGGGCTTAATTGCTTTTTTGAAAAAATTTGAGTGT-CTTTTTTATGCATTTTGAAAGTTCAAGT
1 AAGGGCTTAATTACTTTTTTGAAAAAATTTGAGGGTACTTTTTTATGCATTTTGAAAGTTCAAGT
35771056 ACCCAATTGAGTG-AAAAAAAAAG
66 ACCCAATTGAGTGAAAAAAAAAAG
* * *
35771079 TAAGGGCTTAATTACTTTTTTTGAAGAAGTTTGAGGGTATTTTTTTATGCATTTTGAAAGTTCAA
1 -AAGGGCTTAATTAC-TTTTTTGAAAAAATTTGAGGGTACTTTTTTATGCATTTTGAAAGTTCAA
**
35771144 GTACTTAATTGAGTGTAAAAAAAAAAG
64 GTACCCAATTGAGTG-AAAAAAAAAAG
* *
35771171 GAGGGATTTAATTACTTTTTTGAAA
1 AAGGG-CTTAATTACTTTTTTGAAA
35771196 GAGTTTAAGA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
88 13 0.13
89 19 0.19
90 38 0.38
91 13 0.13
92 18 0.18
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (89 bp):
AAGGGCTTAATTACTTTTTTGAAAAAATTTGAGGGTACTTTTTTATGCATTTTGAAAGTTCAAGT
ACCCAATTGAGTGAAAAAAAAAAG
Found at i:35771936 original size:279 final size:278
Alignment explanation
Indices: 35771413--35771949 Score: 764
Period size: 279 Copynumber: 1.9 Consensus size: 278
35771403 ATGTTGCACG
* * * * *
35771413 TCATGTTAGAATTGCGAGATAGATAATAATGGATAAGAGAATGATTGTGTTTTTCATTTTACGAA
1 TCATGTTAAAATTGCGAGATAGATAATAATGGACAAGAGAATGATTGTATTTTCCATTTTACAAA
* * * *
35771478 AAGACATGCATAATTTATGATAAGTTTTTCTTTTCGAAAACATTTTAGTATTAGAATTGCGTTTG
66 AAGACATGCATAATTTATGATAAGTTTTTCATTTCAAAAACATTTTAGCATTAGAATTGCGTATG
* *
35771543 ATTAAAAAAAAACCCTCATTATTATTCTAGTATTTTAACGATATTATATTAAAAAAATAGTACCA
131 ATTAAAAAAAAACCCTCATTATTATTCTAGTATTTAAACAATATTATATT-AAAAAATAGTACCA
35771608 TTAGATCCTAATTTGAGCTAATTAAGCAATAATTACCATGGGATTTTTATTTTTATTTTAAAAAA
195 TTAGATCCTAATTTGAGCTAATTAAGCAATAATTACCATGGGATTTTTATTTTTATTTTAAAAAA
35771673 AAGCTTTTATAAGCATTTA
260 AAGCTTTTATAAGCATTTA
* * *
35771692 TCATGTTAAAATTGCGTGATAGATAATAATGGACATGAGCATGATTGTATTTTCCATTTTACAAA
1 TCATGTTAAAATTGCGAGATAGATAATAATGGACAAGAGAATGATTGTATTTTCCATTTTACAAA
* *
35771757 AAGACATGTATAATTTATGAT-TGATTTTTCATTTCAAAAACATTTTAGCATTAGAATTGCGTAT
66 AAGACATGCATAATTTATGATAAG-TTTTTCATTTCAAAAACATTTTAGCATTAGAATTGCGTAT
* * * *
35771821 GATT-AAAAAAAACCCTCGTTATTTTTCTAGTATTTAAACAATTTTATATT-AACAA-A-TACCA
130 GATTAAAAAAAAACCCTCATTATTATTCTAGTATTTAAACAATATTATATTAAAAAATAGTACCA
** * * *
35771882 TTATTTCCTAATTTGAGCTAATTAAGCAATATTTTATCATGGGA-TTTT-TTTTTATTTAAAAGA
195 TTAGATCCTAATTTGAGCTAATTAAGCAATA-ATTACCATGGGATTTTTATTTTTATTTTAAA-A
35771945 AAAAG
258 AAAAG
35771950 TATTTAAAAG
Statistics
Matches: 230, Mismatches: 25, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
273 12 0.05
274 44 0.19
275 11 0.05
276 4 0.02
278 42 0.18
279 117 0.51
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (278 bp):
TCATGTTAAAATTGCGAGATAGATAATAATGGACAAGAGAATGATTGTATTTTCCATTTTACAAA
AAGACATGCATAATTTATGATAAGTTTTTCATTTCAAAAACATTTTAGCATTAGAATTGCGTATG
ATTAAAAAAAAACCCTCATTATTATTCTAGTATTTAAACAATATTATATTAAAAAATAGTACCAT
TAGATCCTAATTTGAGCTAATTAAGCAATAATTACCATGGGATTTTTATTTTTATTTTAAAAAAA
AGCTTTTATAAGCATTTA
Found at i:35772650 original size:21 final size:21
Alignment explanation
Indices: 35772599--35772650 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
35772589 TTTATTTTTT
35772599 TACTATTTTTTACTGTTTTGC
1 TACTATTTTTTACTGTTTTGC
* **
35772620 TGCTACTTTTTTGTTGTTTT-C
1 TACTA-TTTTTTACTGTTTTGC
35772641 TCACTATTTT
1 T-ACTATTTT
35772651 GCTATCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.12, C:0.15, G:0.10, T:0.63
Consensus pattern (21 bp):
TACTATTTTTTACTGTTTTGC
Found at i:35774067 original size:24 final size:21
Alignment explanation
Indices: 35774029--35774158 Score: 99
Period size: 21 Copynumber: 6.2 Consensus size: 21
35774019 AATTTATTGT
*
35774029 TGTTTTGGTGCTTTTTTTTGC
1 TGTTTTGGTGCTTTTTTTTAC
*
35774050 TGTTTTGGTTGCTATTTTTTTTAT
1 TGTTTTGG-TGC--TTTTTTTTAC
* *
35774074 TGTTTTGAT-ATTGTGTTTTTAC
1 TGTTTTGGTGCTT-T-TTTTTAC
35774096 TGTTTT-G-G-TTTTTTTTAC
1 TGTTTTGGTGCTTTTTTTTAC
* *
35774114 TGTTTTGGTGCTATTTTTTAT
1 TGTTTTGGTGCTTTTTTTTAC
* * *
35774135 TATTTTGGTG-TTGTTTTTAT
1 TGTTTTGGTGCTTTTTTTTAC
35774155 TGTT
1 TGTT
35774159 ATTTTTGTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
18 13 0.15
19 2 0.02
20 16 0.18
21 26 0.30
22 15 0.17
23 1 0.01
24 15 0.17
ACGTcount: A:0.08, C:0.05, G:0.19, T:0.68
Consensus pattern (21 bp):
TGTTTTGGTGCTTTTTTTTAC
Found at i:35774158 original size:12 final size:12
Alignment explanation
Indices: 35774143--35774210 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 12
35774133 ATTATTTTGG
*
35774143 TGTTGTTTTTAT
1 TGTTATTTTTAT
*
35774155 TGTTATTTTTGT
1 TGTTATTTTTAT
*
35774167 TGCTATTTTT-T
1 TGTTATTTTTAT
* *
35774178 TTTTATTTTTAC
1 TGTTATTTTTAT
* **
35774190 TGTTGTTTTGGT
1 TGTTATTTTTAT
35774202 TGTTATTTT
1 TGTTATTTT
35774211 AGTTGTTTGG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
11 9 0.21
12 34 0.79
ACGTcount: A:0.09, C:0.03, G:0.15, T:0.74
Consensus pattern (12 bp):
TGTTATTTTTAT
Found at i:35774175 original size:23 final size:22
Alignment explanation
Indices: 35774116--35774187 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
35774106 TTTTTTACTG
*
35774116 TTTTGGTGCTATTTTTTATTAT
1 TTTTGTTGCTATTTTTTATTAT
*
35774138 TTTGGTGTTG-T-TTTTATTGTTAT
1 TTT--TGTTGCTATTTT-TTATTAT
*
35774161 TTTTGTTGCTATTTTTTTTTTAT
1 TTTTGTTGCTA-TTTTTTATTAT
35774184 TTTT
1 TTTT
35774188 ACTGTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 5 0.12
22 8 0.20
23 20 0.49
24 8 0.20
ACGTcount: A:0.10, C:0.03, G:0.14, T:0.74
Consensus pattern (22 bp):
TTTTGTTGCTATTTTTTATTAT
Found at i:35774196 original size:47 final size:45
Alignment explanation
Indices: 35774116--35774215 Score: 119
Period size: 47 Copynumber: 2.2 Consensus size: 45
35774106 TTTTTTACTG
* ** *
35774116 TTTTGGTGCTATTTTTTATTATTTTGGTGTTGTTTTTATTGTTAT
1 TTTTGTTGCTATTTTTTATTATTTTACTGTTGTTTTGATTGTTAT
* *
35774161 TTTTGTTGCTATTTTTTTTTTATTTTTACTGTTGTTTTGGTTGTTAT
1 TTTTGTTGCTA-TTTTTTATTA-TTTTACTGTTGTTTTGATTGTTAT
*
35774208 TTTAGTTG
1 TTTTGTTG
35774216 TTTGGATGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 10 0.22
46 9 0.20
47 27 0.59
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (45 bp):
TTTTGTTGCTATTTTTTATTATTTTACTGTTGTTTTGATTGTTAT
Found at i:35774232 original size:21 final size:23
Alignment explanation
Indices: 35774180--35774232 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 23
35774170 TATTTTTTTT
*
35774180 TTATTTTTACTGTTGTTTTGGTTG
1 TTATTTTTAC-GTTGTTTTGGATG
35774204 TTA-TTTTA-GTTG-TTTGGATG
1 TTATTTTTACGTTGTTTTGGATG
35774224 TTATTTTTA
1 TTATTTTTA
35774233 TGGGTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.37
21 9 0.33
23 5 0.19
24 3 0.11
ACGTcount: A:0.13, C:0.02, G:0.19, T:0.66
Consensus pattern (23 bp):
TTATTTTTACGTTGTTTTGGATG
Found at i:35792883 original size:9 final size:9
Alignment explanation
Indices: 35792861--35792893 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
35792851 TATTTTCTCT
35792861 AAAAAATTA
1 AAAAAATTA
35792870 TAAAAAATTA
1 -AAAAAATTA
35792880 AAAAAATTA
1 AAAAAATTA
35792889 AAAAA
1 AAAAA
35792894 TATATAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATTA
Found at i:35792883 original size:18 final size:18
Alignment explanation
Indices: 35792860--35792981 Score: 58
Period size: 18 Copynumber: 6.8 Consensus size: 18
35792850 ATATTTTCTC
35792860 TAAAAAATTATAAAAAAT
1 TAAAAAATTATAAAAAAT
*
35792878 TAAAAAAAT-TAAAAAAT
1 TAAAAAATTATAAAAAAT
* ***
35792895 ATATAAACATTATTAAATGTT
1 -TA-AAAAATTA-TAAAAAAT
*
35792916 TAAAAATATT-TTAAAAA-
1 TAAAAA-ATTATAAAAAAT
* ** *
35792933 T-GAAAATTATATGAACT
1 TAAAAAATTATAAAAAAT
*
35792950 TAAAAAATTAT-AAATAT
1 TAAAAAATTATAAAAAAT
35792967 TATAAAAA-TATAAAA
1 TA-AAAAATTATAAAA
35792982 TTCTATTAAA
Statistics
Matches: 73, Mismatches: 21, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
15 3 0.04
16 6 0.08
17 17 0.23
18 29 0.40
19 8 0.11
20 5 0.07
21 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAAAAATTATAAAAAAT
Found at i:35792997 original size:43 final size:42
Alignment explanation
Indices: 35792919--35793004 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
35792909 AAATGTTTAA
* ** *
35792919 AAATATTTTAAAAATGAAAATTATATGAACTTAAAAAATTAT
1 AAATATTATAAAAATGAAAATTATATGAAAATAAAAAAATAT
* * *
35792961 AAATATTATAAAAATATAAAATTCTATTAAAATAAAAAAATAT
1 AAATATTATAAAAAT-GAAAATTATATGAAAATAAAAAAATAT
35793004 A
1 A
35793005 TTTGCAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 14 0.39
43 22 0.61
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (42 bp):
AAATATTATAAAAATGAAAATTATATGAAAATAAAAAAATAT
Found at i:35793039 original size:21 final size:22
Alignment explanation
Indices: 35793015--35793057 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
35793005 TTTGCAATAT
*
35793015 TTAAAATTTTATAAAAA-CGTA
1 TTAAAATTTTACAAAAATCGTA
35793036 TTAAAATTTTACAAAAATCGTA
1 TTAAAATTTTACAAAAATCGTA
35793058 AAAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (22 bp):
TTAAAATTTTACAAAAATCGTA
Found at i:35793062 original size:21 final size:21
Alignment explanation
Indices: 35793017--35793063 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
35793007 TGCAATATTT
* *
35793017 AAAATTTTATAAAAACGTATT
1 AAAATTTTACAAAAACGTATA
35793038 AAAATTTTACAAAAATCGTA-A
1 AAAATTTTACAAAAA-CGTATA
35793059 AAAAT
1 AAAAT
35793064 ATTAAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAATTTTACAAAAACGTATA
Found at i:35793109 original size:49 final size:51
Alignment explanation
Indices: 35793010--35793110 Score: 118
Period size: 49 Copynumber: 2.0 Consensus size: 51
35793000 ATATATTTGC
* * * * *
35793010 AATATTTAAAATTTTATAAAAACGTATTAAAATTTTACAAAAATCGTAAAA
1 AATATTTAAAATTTGATAAAAACATATAAAAATTATACAAAAATCATAAAA
*
35793061 AATA-TTAAAA-TTGATATAAACATATAAAAATTATA-AATAAATCATAAAA
1 AATATTTAAAATTTGATAAAAACATATAAAAATTATACAA-AAATCATAAAA
35793110 A
1 A
35793111 CTTGTACTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.05
49 31 0.72
50 6 0.14
51 4 0.09
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (51 bp):
AATATTTAAAATTTGATAAAAACATATAAAAATTATACAAAAATCATAAAA
Found at i:35793545 original size:19 final size:19
Alignment explanation
Indices: 35793521--35793576 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
35793511 ATATTTCAAT
35793521 TTTATTTTAATAATAAATA
1 TTTATTTTAATAATAAATA
** *
35793540 TTTATTACAATTATAAATA
1 TTTATTTTAATAATAAATA
35793559 --TA--TTAATAATAAATA
1 TTTATTTTAATAATAAATA
35793574 TTT
1 TTT
35793577 TGTAGTATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 10 0.34
17 3 0.10
19 16 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATTTTAATAATAAATA
Found at i:35793572 original size:15 final size:15
Alignment explanation
Indices: 35793527--35793574 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
35793517 CAATTTTATT
35793527 TTAATAATAAATATTTA
1 TTAATAATAAATA--TA
*
35793544 TTACAATTATAAATATA
1 TT--AATAATAAATATA
35793561 TTAATAATAAATAT
1 TTAATAATAAATAT
35793575 TTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:35793921 original size:13 final size:14
Alignment explanation
Indices: 35793896--35793928 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
35793886 TTATTTCATT
35793896 GAAAATAATTTTTA
1 GAAAATAATTTTTA
*
35793910 TAAAAT-ATTTTTA
1 GAAAATAATTTTTA
35793923 GAAAAT
1 GAAAAT
35793929 TTGTCAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
GAAAATAATTTTTA
Found at i:35794730 original size:60 final size:61
Alignment explanation
Indices: 35794635--35795033 Score: 502
Period size: 60 Copynumber: 6.6 Consensus size: 61
35794625 TTTTTTTGTC
* * * *
35794635 AAAAAAAATTCAAAATTTTTTGGTGTTGGCCATCAAATGACAGACACCCCCTATTTCTCGAG
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCT-TTTCTCGAG
* * *
35794697 -AAAAAA-TTCAATTTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCTCTTTTCTCGAG
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAG
* * *
35794756 AAAAAATTTTCAAATTTTTTTGTTGTTGGCCATGC-AATGGCCGACACCCCTTTTTCTCGAG
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCAT-CAAATGGCCGACACCCCCTTTTCTCGAG
* * *
35794817 AAAAAAATTTAAAATTTTTTTCGTGTTGGCCATCAAATGGTCGACACCCCCTTTTCTCGAG
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAG
* * * *
35794878 -AAAAAATTTCAAATTTTTTTGGTGTCGCCCATCAAATGCCCGACACCCCCTTTTCTCAAG
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAG
* * * ** *
35794938 AAAAAATATTTTCAAATCTTTTTCGTGTTGGCCATCAAATGGCCGACACTCTTTTTTCTTGAG
1 AAAAAA-A-TTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAG
* *
35795001 AAAAAAA-ATCAAATTTTTTTGGTGTCGGCCATC
1 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATC
35795034 CTCTTTTCTC
Statistics
Matches: 291, Mismatches: 39, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
59 9 0.03
60 119 0.41
61 110 0.38
62 3 0.01
63 50 0.17
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (61 bp):
AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAG
Found at i:35794783 original size:121 final size:121
Alignment explanation
Indices: 35794636--35795033 Score: 532
Period size: 121 Copynumber: 3.3 Consensus size: 121
35794626 TTTTTTGTCA
* * * *
35794636 AAAAAAATTCAAAATTTTTTGGTGTTGGCCATCAAATGACAGACACCCCCTATTTCTCGAG-AAA
1 AAAAAATTTCAAATTTTTTTGGTGTCGGCCATCAAATGACCGACACCCCCT-TTTCTCGAGAAAA
* *
35794700 AAA-TTCAATTTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCTCTTTTCTCGAG
65 AAATTTCAAATTTTTTTCGTGTTGGCCATCAAATGGCCGACACCCTCTTTTCTCGAG
* * * *
35794756 AAAAAATTTTCAAATTTTTTTGTTGTTGGCCATGC-AATGGCCGACACCCCTTTTTCTCGAGAAA
1 AAAAAA-TTTCAAATTTTTTTGGTGTCGGCCAT-CAAATGACCGACACCCCCTTTTCTCGAGAAA
* * *
35794820 AAAATTTAAAATTTTTTTCGTGTTGGCCATCAAATGGTCGACACCCCCTTTTCTCGAG
64 AAAATTTCAAATTTTTTTCGTGTTGGCCATCAAATGGCCGACACCCTCTTTTCTCGAG
* * *
35794878 AAAAAATTTCAAATTTTTTTGGTGTCGCCCATCAAATGCCCGACACCCCCTTTTCTCAAGAAAAA
1 AAAAAATTTCAAATTTTTTTGGTGTCGGCCATCAAATGACCGACACCCCCTTTTCTCGAGAAAAA
* * * *
35794943 ATATTTTCAAATCTTTTTCGTGTTGGCCATCAAATGGCCGACACTCTTTTTTCTTGAG
66 A-A-TTTCAAATTTTTTTCGTGTTGGCCATCAAATGGCCGACACCCTCTTTTCTCGAG
**
35795001 AAAAAAAATCAAATTTTTTTGGTGTCGGCCATC
1 AAAAAATTTCAAATTTTTTTGGTGTCGGCCATC
35795034 CTCTTTTCTC
Statistics
Matches: 244, Mismatches: 27, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
120 16 0.07
121 95 0.39
122 56 0.23
123 77 0.32
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (121 bp):
AAAAAATTTCAAATTTTTTTGGTGTCGGCCATCAAATGACCGACACCCCCTTTTCTCGAGAAAAA
AATTTCAAATTTTTTTCGTGTTGGCCATCAAATGGCCGACACCCTCTTTTCTCGAG
Found at i:35795080 original size:47 final size:46
Alignment explanation
Indices: 35794991--35795080 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
35794981 CGACACTCTT
* **
35794991 TTTTCTTGAGAAAAAAAATCAAATTTTTTTGGTGTCGGCCATCCTC
1 TTTTCTCGAGAAAAAAAATCAAATTTTTTTGGTGTCAACCATCCTC
* * *
35795037 TTTTCTCGAGAAAAAAATTTAAATTTTTTTTGGTGTTAACCATC
1 TTTTCTCGAGAAAAAAAATCAAA-TTTTTTTGGTGTCAACCATC
35795081 AAATGGCTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 20 0.54
47 17 0.46
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (46 bp):
TTTTCTCGAGAAAAAAAATCAAATTTTTTTGGTGTCAACCATCCTC
Found at i:35795174 original size:61 final size:59
Alignment explanation
Indices: 35795105--35795311 Score: 242
Period size: 57 Copynumber: 3.5 Consensus size: 59
35795095 CCCTATTTCA
* * *
35795105 AAAAAAAATTAAATTTTTTTTCTCGAGAAAGGGGGGGTGTCGGCCATTTGATAGCCCACACC
1 AAAAAAATTTAAA-TTTTTTTCTCGAGAAA--GGGGGTGTCGGCCATTTGATGGCCAACACC
* *
35795167 AAAAAAATTTGAAATTTTTTTCTTGAGAAAAGGGGGTGTCGGCCA-TTGCATGGCCAACACA
1 AAAAAAATTT-AAATTTTTTTCTCGAG-AAAGGGGGTGTCGGCCATTTG-ATGGCCAACACC
* **
35795228 AAAAAAATTTAAATTTTTTT-T-GA-AATAGGGAGTGTCAACCATTTGATGGCCAACACC
1 AAAAAAATTTAAATTTTTTTCTCGAGAA-AGGGGGTGTCGGCCATTTGATGGCCAACACC
*
35795285 AAAAAATTTTAAATTTTTTTCTCGAGA
1 AAAAAAATTTAAATTTTTTTCTCGAGA
35795312 TTTTTTTTCG
Statistics
Matches: 127, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
56 2 0.02
57 42 0.33
58 6 0.05
59 3 0.02
60 14 0.11
61 33 0.26
62 21 0.17
63 6 0.05
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (59 bp):
AAAAAAATTTAAATTTTTTTCTCGAGAAAGGGGGTGTCGGCCATTTGATGGCCAACACC
Found at i:35797918 original size:15 final size:15
Alignment explanation
Indices: 35797898--35797944 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
35797888 TTATTTCAGA
*
35797898 TTATATTTTAGTTAT
1 TTATATTTTAATTAT
* *
35797913 TTATATTTGAAATA-
1 TTATATTTTAATTAT
35797927 TTATATTTTAATTAT
1 TTATATTTTAATTAT
35797942 TTA
1 TTA
35797945 CGTTATTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:35797942 original size:14 final size:14
Alignment explanation
Indices: 35797897--35797942 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
35797887 TTTATTTCAG
*
35797897 ATTATATTTTAGTT
1 ATTATATTTTAATT
* *
35797911 ATTTATATTTGAAAT
1 A-TTATATTTTAATT
35797926 ATTATATTTTAATT
1 ATTATATTTTAATT
35797940 ATT
1 ATT
35797943 TACGTTATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (14 bp):
ATTATATTTTAATT
Found at i:35798539 original size:2 final size:2
Alignment explanation
Indices: 35798532--35798564 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35798522 TGAGTAACCA
35798532 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
35798565 GTTTGAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:35803615 original size:21 final size:19
Alignment explanation
Indices: 35803589--35803627 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
35803579 TTTAGGTTTA
35803589 TATATTGTATACAAATATAAT
1 TATATT-TAT-CAAATATAAT
*
35803610 TATATTTATGAAATATAA
1 TATATTTATCAAATATAA
35803628 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (19 bp):
TATATTTATCAAATATAAT
Found at i:35805778 original size:25 final size:25
Alignment explanation
Indices: 35805724--35805777 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
35805714 TGGGGTAATT
*
35805724 TTTAT-TTTATTTAATATTAATATA
1 TTTATATTTATTTAATATCAATATA
35805748 TTTATATTTATTTAATA-CAA-ATA
1 TTTATATTTATTTAATATCAATATA
*
35805771 TTAATAT
1 TTTATAT
35805778 AAATTTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 9 0.33
24 7 0.26
25 11 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTATATTTATTTAATATCAATATA
Found at i:35805824 original size:10 final size:10
Alignment explanation
Indices: 35805809--35805869 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
35805799 TTTTTTGAAA
35805809 ATATTTTTAT
1 ATATTTTTAT
*
35805819 ATATTTTTAA
1 ATATTTTTAT
* *
35805829 AAATATTTAT
1 ATATTTTTAT
*
35805839 GTATTTTTAT
1 ATATTTTTAT
*
35805849 ATATTTTTTT
1 ATATTTTTAT
35805859 GAT-TTTTTAT
1 -ATATTTTTAT
35805869 A
1 A
35805870 ATTAAGATCA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
9 1 0.03
10 37 0.93
11 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:35805831 original size:22 final size:21
Alignment explanation
Indices: 35805789--35805846 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
35805779 AATTTCAATT
* *
35805789 TATTATTATATTTTTTGAAAA
1 TATTTTTATATTTTTTAAAAA
35805810 TATTTTTATATATTTTTAAAAA
1 TATTTTTATAT-TTTTTAAAAA
* *
35805832 TATTTATGTATTTTT
1 TATTTTTATATTTTT
35805847 ATATATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTTTATATTTTTTAAAAA
Found at i:35805843 original size:20 final size:21
Alignment explanation
Indices: 35805794--35805847 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
35805784 CAATTTATTA
*
35805794 TTATAT-TTTTTGAAAATATTT
1 TTATATATTTTT-AAAATATAT
35805815 TTATATATTTTTAAAA-ATAT
1 TTATATATTTTTAAAATATAT
*
35805835 TTATGTATTTTTA
1 TTATATATTTTTA
35805848 TATATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 15 0.50
21 10 0.33
22 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTATATATTTTTAAAATATAT
Found at i:35809978 original size:3 final size:3
Alignment explanation
Indices: 35809972--35809996 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35809962 TTCGTGTGGG
35809972 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
35809997 GTGCTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:35821451 original size:21 final size:22
Alignment explanation
Indices: 35821389--35821452 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
35821379 TTTTCAAGAC
* *
35821389 ATTTTTTATACAGTACAATGTTA
1 ATTTTTTAAACAGTA-AATGATA
**
35821412 ATTTTATTAAACAACAAATGAT-
1 ATTTT-TTAAACAGTAAATGATA
35821434 ATTTTTTAAACAGTAAATG
1 ATTTTTTAAACAGTAAATG
35821453 TTAACTCTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 12 0.35
22 5 0.15
23 10 0.29
24 7 0.21
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
ATTTTTTAAACAGTAAATGATA
Found at i:35828499 original size:17 final size:17
Alignment explanation
Indices: 35828479--35828520 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
35828469 TTGTTTATTT
35828479 AGTATTTTTCTCTTCTA
1 AGTATTTTTCTCTTCTA
35828496 AGTATTTTTCTCTTCTA
1 AGTATTTTTCTCTTCTA
35828513 AGTATTTT
1 AGTATTTT
35828521 AAAATTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (17 bp):
AGTATTTTTCTCTTCTA
Found at i:35840164 original size:26 final size:25
Alignment explanation
Indices: 35840094--35840164 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 25
35840084 AATCAAATTT
*
35840094 TTATAAAAAAATTTAAA-TTTAAAT
1 TTATAAAAAAATTTAAATTTTAAAA
* **
35840118 TTATTATTATTAATTTAAAATTTTATAAA
1 TTA-TA-AAAAAATTT-AAATTTTA-AAA
35840147 TTATAAAAAAATTTAAAT
1 TTATAAAAAAATTTAAAT
35840165 AGAATTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
24 3 0.09
25 2 0.06
26 10 0.29
27 9 0.26
28 6 0.17
29 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TTATAAAAAAATTTAAATTTTAAAA
Found at i:35845009 original size:52 final size:52
Alignment explanation
Indices: 35844930--35845057 Score: 148
Period size: 52 Copynumber: 2.5 Consensus size: 52
35844920 AAAGGGTCCA
* * ** *
35844930 ATGACTAAGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGCTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGAACAAGAGCTCCG
* * * * *
35844982 ATGACTATTTGTCATCGTGAGTGTATGATTCCTTTATGGAACAAGAGGTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGAACAAGAGCTCCG
* *
35845034 ATGATTATGTGTCATCATGAGTAT
1 ATGACTATGTGTCATCGTGAGTAT
35845058 TAAATGAAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (52 bp):
ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGAACAAGAGCTCCG
Found at i:35851548 original size:17 final size:17
Alignment explanation
Indices: 35851526--35851559 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35851516 GAAAATGCTT
35851526 GTTCTTGAAAGCTTTTA
1 GTTCTTGAAAGCTTTTA
*
35851543 GTTCTTGAAGGCTTTTA
1 GTTCTTGAAAGCTTTTA
35851560 ATATATTTGG
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:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (17 bp):
GTTCTTGAAAGCTTTTA
Found at i:35852202 original size:52 final size:52
Alignment explanation
Indices: 35852116--35852302 Score: 257
Period size: 52 Copynumber: 3.6 Consensus size: 52
35852106 TAAATGAAAA
* * * * * *
35852116 AGGTCTGATAACTAAGTGTAATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTATG
35852168 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTATG
* * * ** *
35852220 AGGTCCGATGACTATGTGTCATCGTGAGTGTATGATTCCTTTACAGAACAAG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTATG
*
35852272 AGGTCCGATGACTATGTGTCATTATGAGTAT
1 AGGTCCGATGACTATGTGTCATCATGAGTAT
35852303 TAAATGAAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 120 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTATG
Found at i:35858891 original size:90 final size:91
Alignment explanation
Indices: 35858733--35858916 Score: 307
Period size: 90 Copynumber: 2.0 Consensus size: 91
35858723 GGGAAGTCTG
** *
35858733 ATTACCAGAATGTTATGATCTTTCAGGTATTTCATGGTCCCATTTTATCTTGCTTCTTTTTTCTC
1 ATTACCAGAATGCCATGATCTTTCAGGTATTTCACGGTCCCATTTTATCTTGCTTCTTTTTTCTC
*
35858798 CCTGTTTAGTTTCTTTTAAAATTTTA
66 CCTGTTTAGTTTCTTTAAAAATTTTA
* *
35858824 ATTACCAGAATGCCATGGTCTTTCAGGTATTTCACGGT-CCATTTTATCTTTCTTCTTTTTTCTC
1 ATTACCAGAATGCCATGATCTTTCAGGTATTTCACGGTCCCATTTTATCTTGCTTCTTTTTTCTC
35858888 CCTGTTTAGTTTCTTTAAAAATTTTA
66 CCTGTTTAGTTTCTTTAAAAATTTTA
35858914 ATT
1 ATT
35858917 TTTGAAGCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 53 0.61
91 34 0.39
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (91 bp):
ATTACCAGAATGCCATGATCTTTCAGGTATTTCACGGTCCCATTTTATCTTGCTTCTTTTTTCTC
CCTGTTTAGTTTCTTTAAAAATTTTA
Found at i:35859259 original size:30 final size:30
Alignment explanation
Indices: 35859223--35859284 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
35859213 GCTGCAAGAG
35859223 AATGACTGAAGAAAATGCTTAATTTTCGTT
1 AATGACTGAAGAAAATGCTTAATTTTCGTT
35859253 AATGACTGAAGAAAATGCTTAATTTTCGTT
1 AATGACTGAAGAAAATGCTTAATTTTCGTT
35859283 AA
1 AA
35859285 GTATAGTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (30 bp):
AATGACTGAAGAAAATGCTTAATTTTCGTT
Found at i:35872518 original size:4 final size:4
Alignment explanation
Indices: 35872509--35872565 Score: 71
Period size: 4 Copynumber: 14.2 Consensus size: 4
35872499 AAAAAACGGG
* * *
35872509 GAAA GAAA GAAA GAAA GAAA GAAA GAAG GAGAG GAAA GAAA G-AA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA
35872557 GAAA GAAA G
1 GAAA GAAA G
35872566 GTAATGTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
3 3 0.06
4 40 0.85
5 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:35872534 original size:20 final size:20
Alignment explanation
Indices: 35872509--35872565 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
35872499 AAAAAACGGG
*
35872509 GAAAGAAAGAAAGAAAGAAA
1 GAAAGAAGGAAAGAAAGAAA
*
35872529 GAAAGAAGGAGAGGAAAGAAA
1 GAAAGAAGGA-AAGAAAGAAA
35872550 G-AAGAAGGAAAGAAAG
1 GAAAGAAGGAAAGAAAG
35872566 GTAATGTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.18
20 17 0.52
21 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GAAAGAAGGAAAGAAAGAAA
Found at i:35872643 original size:24 final size:24
Alignment explanation
Indices: 35872601--35872649 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35872591 TTCAGTATGA
* *
35872601 TATTTTTTAAAATCGTATTTTATT
1 TATTTATTAAAATCGTATTTAATT
**
35872625 TATTTATTAAAATTTTATTTAATT
1 TATTTATTAAAATCGTATTTAATT
35872649 T
1 T
35872650 TTAACAGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TATTTATTAAAATCGTATTTAATT
Found at i:35875820 original size:21 final size:21
Alignment explanation
Indices: 35875794--35875840 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
35875784 TTAGGGTCTA
35875794 ATTGCCCCGGAGGAGT-AGAGT
1 ATTGCCCCGGAGGAGTCA-AGT
*
35875815 ATTGCCCGGGAGGAGTCAAGT
1 ATTGCCCCGGAGGAGTCAAGT
35875836 ATTGC
1 ATTGC
35875841 GGTCCACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
ATTGCCCCGGAGGAGTCAAGT
Found at i:35876029 original size:95 final size:94
Alignment explanation
Indices: 35875848--35876083 Score: 381
Period size: 95 Copynumber: 2.5 Consensus size: 94
35875838 TGCGGTCCAC
***
35875848 TTACTACTACTACTACTAACAACAAAATAAAATTACTAACTA--ATTTTTTTAAACATTATTAAA
1 TTACTACTACTACTACTAACAACAAAATAAAATTACTAACTAGCA-AAATTTAAACATTATTAAA
*
35875911 TTTTAAATCAATAAATATAAACAATGTTTT
65 TTTTAAATCAATAAATATAAACAATATTTT
35875941 TTACTTACTACTACTACTAACAACAAAATAAAATTACTAACTAGCAAAATTTAAACATTATTAAA
1 TTAC-TACTACTACTACTAACAACAAAATAAAATTACTAACTAGCAAAATTTAAACATTATTAAA
*
35876006 TTTTAAATCAATAAATATGAACAATATTTT
65 TTTTAAATCAATAAATATAAACAATATTTT
35876036 TTACT--TACTACTACTAACAACAAAATAAAATTACTAACTAGCAAAATT
1 TTACTACTACTACTACTAACAACAAAATAAAATTACTAACTAGCAAAATT
35876084 AAATTAAAGT
Statistics
Matches: 135, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
92 43 0.32
93 4 0.03
94 39 0.29
95 48 0.36
96 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (94 bp):
TTACTACTACTACTACTAACAACAAAATAAAATTACTAACTAGCAAAATTTAAACATTATTAAAT
TTTAAATCAATAAATATAAACAATATTTT
Found at i:35876072 original size:20 final size:21
Alignment explanation
Indices: 35876047--35876089 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
35876037 TACTTACTAC
35876047 TACTAAC-AACAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
* *
35876067 TACTAACTAGCAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
35876088 TA
1 TA
35876090 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:35876479 original size:18 final size:18
Alignment explanation
Indices: 35876430--35876479 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
35876420 TTACATTTTT
35876430 TTCTT-TTTCCTTCTTCC
1 TTCTTCTTTCCTTCTTCC
*
35876447 -CCTTCTTCTCCTTCTTCC
1 TTCTTCTT-TCCTTCTTCC
*
35876465 TTCTTCTTTCTTTCT
1 TTCTTCTTTCCTTCT
35876480 CTTTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.11
17 2 0.07
18 16 0.59
19 6 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
TTCTTCTTTCCTTCTTCC
Found at i:35876719 original size:27 final size:27
Alignment explanation
Indices: 35876688--35876740 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
35876678 CCCTTAGTGT
*
35876688 CGCCACTTGATATTCCTCCATTGGTGC
1 CGCCACTTGATATTCCTCCACTGGTGC
* *
35876715 CGCCACTTGGTGTTCCTCCACTGGTG
1 CGCCACTTGATATTCCTCCACTGGTG
35876741 TCAAGTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.11, C:0.34, G:0.23, T:0.32
Consensus pattern (27 bp):
CGCCACTTGATATTCCTCCACTGGTGC
Found at i:35878542 original size:84 final size:85
Alignment explanation
Indices: 35878424--35878580 Score: 196
Period size: 84 Copynumber: 1.9 Consensus size: 85
35878414 TCGATAGTAC
* * * * *
35878424 AAATGTAATTTCATCATTTTAATAGTTTATATTTTAATTATTTTTAAAGGGT-TAAATTAAATTT
1 AAATGTAATTTCATCATTTTAATAGTTTATATTTT-ATAAATTATAAAGAGTATAAATTAAAATT
*
35878488 TTATCATTTTTGAGAGAGCCA
65 TTACCATTTTTGAGAGAGCCA
*
35878509 AAATGTAATTTTATCATTATTAA-A--TTATAATTTTATAAATTATAAAGAGTATAAATTAAAAT
1 AAATGTAATTTCATCATT-TTAATAGTTTAT-ATTTTATAAATTATAAAGAGTATAAATTAAAAT
35878571 TTTACCATTT
64 TTTACCATTT
35878581 AAAGGGGCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
83 16 0.26
84 24 0.39
85 18 0.29
86 4 0.06
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (85 bp):
AAATGTAATTTCATCATTTTAATAGTTTATATTTTATAAATTATAAAGAGTATAAATTAAAATTT
TACCATTTTTGAGAGAGCCA
Found at i:35884887 original size:39 final size:40
Alignment explanation
Indices: 35884833--35884912 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
35884823 TATGCAATCA
*
35884833 ATGGACACTTTTTGAAGAGTCACAACCC-TTTCAAATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
*
35884872 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
35884912 A
1 A
35884913 CATACCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 27 0.71
40 11 0.29
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAGTCACAACCCTTTTCAAATTGG
Found at i:35884928 original size:39 final size:38
Alignment explanation
Indices: 35884837--35884929 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
35884827 CAATCAATGG
* * *
35884837 ACACTTTTTGAAGAGTCACAACCCTTTCAAATTGGATGG
1 ACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGA-GC
* *
35884876 ACACCTTTTGAAGAGTCACAACCCTTTTCATATTGGA-C
1 ACACCTTTGGAAGAGTCACAACCC-TTTCAAATTGGAGC
*
35884914 ATACCTCTTGGAAGAG
1 ACACCT-TTGGAAGAG
35884930 ATTTGTCCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.11
39 31 0.66
40 11 0.23
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (38 bp):
ACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGAGC
Found at i:35896693 original size:35 final size:34
Alignment explanation
Indices: 35896621--35896711 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
35896611 ATATGAAAAG
* * * *
35896621 TTAAAGAAGATGGAAGGTTAAAGATTAAAAGAGA
1 TTAAAAAAGATGGAAGATTAAAGACTAAAAGAAA
*
35896655 TTAAAAAAAGATGGAAGATTAAAG-CTCAAAGTAAA
1 TT-AAAAAAGATGGAAGATTAAAGACTAAAAG-AAA
** *
35896690 TTAAGGAAGATGAAAGATTAAA
1 TTAAAAAAGATGGAAGATTAAA
35896712 ACCCTTATTG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
34 24 0.51
35 23 0.49
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (34 bp):
TTAAAAAAGATGGAAGATTAAAGACTAAAAGAAA
Found at i:35903816 original size:15 final size:16
Alignment explanation
Indices: 35903796--35903834 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
35903786 AATTTTTTAA
35903796 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
**
35903811 AAATTATTTAAATAAT
1 AAATTATAAAAATAAT
35903827 AAATTATA
1 AAATTATA
35903835 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:35918957 original size:31 final size:32
Alignment explanation
Indices: 35918922--35918983 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 32
35918912 GTTGGGTTCT
35918922 TTGTATATGTTA-TTTTTTATATGCTACATTG
1 TTGTATATGTTATTTTTTTATATGCTACATTG
35918953 TTGTATATGTTATTTTTTTTATATGCTACAT
1 TTGTATATGTTA-TTTTTTTATATGCTACAT
35918984 GATTGAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 12 0.41
33 17 0.59
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (32 bp):
TTGTATATGTTATTTTTTTATATGCTACATTG
Found at i:35930253 original size:15 final size:16
Alignment explanation
Indices: 35930233--35930271 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
35930223 AATTTTTTAA
35930233 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
**
35930248 AAATTATTTAAATAAT
1 AAATTATAAAAATAAT
35930264 AAATTATA
1 AAATTATA
35930272 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:35935726 original size:15 final size:15
Alignment explanation
Indices: 35935706--35935735 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35935696 CTGAGTATAC
35935706 TCCTTTGTCCAACCT
1 TCCTTTGTCCAACCT
35935721 TCCTTTGTCCAACCT
1 TCCTTTGTCCAACCT
35935736 CAATTTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.40, G:0.07, T:0.40
Consensus pattern (15 bp):
TCCTTTGTCCAACCT
Found at i:35951694 original size:38 final size:41
Alignment explanation
Indices: 35951651--35951737 Score: 99
Period size: 44 Copynumber: 2.1 Consensus size: 41
35951641 TTAAACTCTG
*
35951651 TTTTTATT-TTTT-CACTTAAACTCTGATTAGTGTAGG-TTA
1 TTTTTATTATTTTCCACTTAAACTCTAATTAGTGT-GGTTTA
*
35951690 TTTTAATATTAGTTTTCCACTTAAAGTCTAATTAGTGTGGTTTA
1 TTTT--TATTA-TTTTCCACTTAAACTCTAATTAGTGTGGTTTA
35951734 TTTT
1 TTTT
35951738 AATCTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
39 4 0.10
41 4 0.10
43 6 0.15
44 26 0.65
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (41 bp):
TTTTTATTATTTTCCACTTAAACTCTAATTAGTGTGGTTTA
Found at i:35952785 original size:14 final size:16
Alignment explanation
Indices: 35952755--35952792 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
35952745 ATTGAGAAAC
35952755 AAAAT-AAACCAATAA
1 AAAATAAAACCAATAA
35952770 AAAATAAAACC-A-AA
1 AAAATAAAACCAATAA
35952784 AAAATAAAA
1 AAAATAAAA
35952793 AGAATATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.50
15 6 0.27
16 5 0.23
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATAAAACCAATAA
Found at i:35956235 original size:25 final size:25
Alignment explanation
Indices: 35956207--35956284 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 25
35956197 GCTTACTATT
*
35956207 CAGCACTGTGTGTGCTTTTGTTTCC
1 CAGCACTGTGTGTGCTTCTGTTTCC
* **
35956232 CAGCACTATGTGTGCTTCT-AAT--
1 CAGCACTGTGTGTGCTTCTGTTTCC
35956254 CAGCACTGTGTGTGCTTCTGTTTCCC
1 CAGCACTGTGTGTGCTTCTGTTT-CC
35956280 CAGCA
1 CAGCA
35956285 GTTATGTACT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 18 0.43
23 1 0.02
24 1 0.02
25 17 0.40
26 5 0.12
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (25 bp):
CAGCACTGTGTGTGCTTCTGTTTCC
Found at i:35956297 original size:47 final size:47
Alignment explanation
Indices: 35956206--35956297 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
35956196 CGCTTACTAT
* * *
35956206 TCAGCACTGTGTGTGCTTTTGTTTCCCAGCACTATGTGTGCTTCTAA
1 TCAGCACTGTGTGTGCTTCTGTTTCCCAGCACTATATGTACTTCTAA
*
35956253 TCAGCACTGTGTGTGCTTCTGTTTCCCCAGCAGT-TATGTACTTCT
1 TCAGCACTGTGTGTGCTTCTGTTT-CCCAGCACTATATGTACTTCT
35956298 GTTAAGTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 32 0.80
48 8 0.20
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (47 bp):
TCAGCACTGTGTGTGCTTCTGTTTCCCAGCACTATATGTACTTCTAA
Found at i:35958402 original size:44 final size:44
Alignment explanation
Indices: 35958264--35958387 Score: 214
Period size: 44 Copynumber: 2.8 Consensus size: 44
35958254 TTTGGTAGAA
**
35958264 CAAAATTAGTT-AAAAATCTAGAAGAGCTAATTATTTACTAGTT
1 CAAAATTAGTTGAAAGTTCTAGAAGAGCTAATTATTTACTAGTT
*
35958307 CAAAATTAGTTGAAAGTTCTAGAAGTGCTAATTATTTACTAGTT
1 CAAAATTAGTTGAAAGTTCTAGAAGAGCTAATTATTTACTAGTT
35958351 CAAAATTAGTTGAAAGTTCTAGAAGAGCTAATTATTT
1 CAAAATTAGTTGAAAGTTCTAGAAGAGCTAATTATTT
35958388 GAGAAGAGCT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
43 11 0.14
44 65 0.86
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (44 bp):
CAAAATTAGTTGAAAGTTCTAGAAGAGCTAATTATTTACTAGTT
Found at i:35959295 original size:3 final size:3
Alignment explanation
Indices: 35959287--35959318 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35959277 ATCCCAGATG
35959287 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35959319 TCAAATCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35959974 original size:29 final size:29
Alignment explanation
Indices: 35959941--35960011 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
35959931 TATTTTTTTT
* *
35959941 GTCATCCAACTATGAAAAGTTATAAAATA
1 GTCATTCAACTATGAAAAGTTACAAAATA
*
35959970 GTCATTCAACTATGAAAAGTTACAAAATG
1 GTCATTCAACTATGAAAAGTTACAAAATA
*
35959999 GCCATTCAACTAT
1 GTCATTCAACTAT
35960012 TCAATTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (29 bp):
GTCATTCAACTATGAAAAGTTACAAAATA
Found at i:35962763 original size:16 final size:17
Alignment explanation
Indices: 35962725--35962766 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
35962715 ATTTTTATCA
* *
35962725 TTATTAATT-TAAAATT
1 TTATAAATTATAAAAAT
35962741 TTATAAATTATAAAAAT
1 TTATAAATTATAAAAAT
35962758 TT-TAAATTA
1 TTATAAATTA
35962767 AATTTTTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAAATTATAAAAAT
Found at i:35967792 original size:58 final size:58
Alignment explanation
Indices: 35967725--35967890 Score: 196
Period size: 58 Copynumber: 2.9 Consensus size: 58
35967715 GATCATTGTT
35967725 ATTAAATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
1 ATTAAATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
* * * **
35967783 ATTATATTTTAACATAATTATTATTAAATACAATTTAAT-AAAATAATATCTAATTTA
1 ATTAAATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
* * *
35967840 A-TAACATTTTTAATATAATTATTATTAAAAATGAA-TTAGTAAAAATCATAA
1 ATTAA-A-TTTTAATATAATTATTATTAAATAT-AATTTAATAAAAATAATAA
35967891 TATATAATAT
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
56 2 0.02
57 18 0.20
58 60 0.66
59 11 0.12
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (58 bp):
ATTAAATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
Found at i:35976244 original size:20 final size:20
Alignment explanation
Indices: 35976219--35976256 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35976209 TCGACGAAAA
* *
35976219 TTTAATTAATTTTTTTTATT
1 TTTAATGAATTTATTTTATT
35976239 TTTAATGAATTTATTTTA
1 TTTAATGAATTTATTTTA
35976257 CCTTAAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTAATGAATTTATTTTATT
Found at i:35977707 original size:2 final size:2
Alignment explanation
Indices: 35977702--35977738 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
35977692 AATGAACTTT
35977702 AG 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 AG A
35977739 TAACCTTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35989271 original size:30 final size:30
Alignment explanation
Indices: 35989235--35989304 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
35989225 CAGGCTCACA
35989235 CGCCCGTGTGACTCCACACGGTCGTGTGAG
1 CGCCCGTGTGACTCCACACGGTCGTGTGAG
35989265 CGCCCGTGTGACTCCACACGGTCGTGTGAG
1 CGCCCGTGTGACTCCACACGGTCGTGTGAG
*
35989295 CACCCGTGTG
1 CGCCCGTGTG
35989305 TCCATATCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.13, C:0.34, G:0.33, T:0.20
Consensus pattern (30 bp):
CGCCCGTGTGACTCCACACGGTCGTGTGAG
Found at i:35996345 original size:29 final size:31
Alignment explanation
Indices: 35996294--35996351 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
35996284 TAGCACAATT
* *
35996294 TTTTTTAAAAATTTTTTCATATTATTTTTTA
1 TTTTTGAAAAATTATTTCATATTATTTTTTA
35996325 TTTTTGAAAAA-TATTT-ATATTATTTTT
1 TTTTTGAAAAATTATTTCATATTATTTTT
35996352 AGTTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 4 0.16
31 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (31 bp):
TTTTTGAAAAATTATTTCATATTATTTTTTA
Found at i:36000597 original size:21 final size:19
Alignment explanation
Indices: 36000547--36000600 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
36000537 CATTCATACT
36000547 AAATAAA-TTATAATTTTA
1 AAATAAATTTATAATTTTA
* *
36000565 ACATACATTTATAGATTTTA
1 AAATAAATTTATA-ATTTTA
36000585 AAATAATATTTATAAT
1 AAATAA-ATTTATAAT
36000601 GGTCATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 12 0.41
21 7 0.24
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATAAATTTATAATTTTA
Found at i:36005584 original size:18 final size:18
Alignment explanation
Indices: 36005548--36005581 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36005538 TTAATAATTA
*
36005548 ATTTAATAATAAGATAAT
1 ATTTAATAATAAAATAAT
36005566 ATTTAA-AATAAAATAA
1 ATTTAATAATAAAATAA
36005582 ATAAATAAAT
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:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATTTAATAATAAAATAAT
Found at i:36005822 original size:20 final size:20
Alignment explanation
Indices: 36005792--36005838 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
36005782 TTTTTTACAT
36005792 ATTTTTA-TGATTT-TATATA
1 ATTTTTATTGATTTATA-ATA
*
36005811 ATTTTTATTGATTTATAATG
1 ATTTTTATTGATTTATAATA
36005831 ATTTTTAT
1 ATTTTTAT
36005839 ATAAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 16 0.64
21 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (20 bp):
ATTTTTATTGATTTATAATA
Found at i:36008416 original size:16 final size:16
Alignment explanation
Indices: 36008383--36008429 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
36008373 TATTTTAGGT
*
36008383 AATTAATTCAAAGT-AA
1 AATTAATT-AAAATAAA
*
36008399 AATTATTTAAAATAAA
1 AATTAATTAAAATAAA
*
36008415 AATTAATTAACATAA
1 AATTAATTAAAATAA
36008430 TTAACTCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (16 bp):
AATTAATTAAAATAAA
Found at i:36012620 original size:37 final size:38
Alignment explanation
Indices: 36012570--36012648 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
36012560 TTCGAAGCAA
*
36012570 TAAAGTGACACCCAGTGTCTCATCG-ACCTAGCCGAAG
1 TAAAGTGACACCCAGTGCCTCATCGAACCTAGCCGAAG
** * *
36012607 TAAAGTGGTACCCAGTGCCTCATCGAATCTATCCGAAG
1 TAAAGTGACACCCAGTGCCTCATCGAACCTAGCCGAAG
36012645 TAAA
1 TAAA
36012649 ATAATAACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (38 bp):
TAAAGTGACACCCAGTGCCTCATCGAACCTAGCCGAAG
Found at i:36014960 original size:18 final size:19
Alignment explanation
Indices: 36014937--36014973 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36014927 TTTTTAAAAA
36014937 TATAAA-ATTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
36014955 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
36014974 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:36014974 original size:18 final size:18
Alignment explanation
Indices: 36014937--36014990 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
36014927 TTTTTAAAAA
*
36014937 TATAAA-ATTTGAAATTTT
1 TATAAATATTTTAAA-TTT
36014955 TATAAATATTTTAAATTT
1 TATAAATATTTTAAATTT
* *
36014973 TAAAAATTATTTTGAATT
1 TATAAA-TATTTTAAATT
36014991 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TATAAATATTTTAAATTT
Found at i:36015163 original size:22 final size:21
Alignment explanation
Indices: 36015134--36015177 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
36015124 GAGTTGACTC
*
36015134 AAATAATTCAAATAATTCAAA
1 AAATAATTCAAATAACTCAAA
* *
36015155 AAATCAATTTAATTAACTCAAA
1 AAAT-AATTCAAATAACTCAAA
36015177 A
1 A
36015178 CTTATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAATTCAAATAACTCAAA
Found at i:36018133 original size:19 final size:19
Alignment explanation
Indices: 36018111--36018151 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36018101 GCAAACATAT
36018111 AATATATTTTA-TAATTAAA
1 AATATATTTTATTAA-TAAA
*
36018130 AATATTTTTTATTAATAAA
1 AATATATTTTATTAATAAA
36018149 AAT
1 AAT
36018152 GGCTTATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATATTTTATTAATAAA
Found at i:36021241 original size:4 final size:4
Alignment explanation
Indices: 36021232--36021258 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36021222 CAACTTGAAT
36021232 GGAG GGAG GGAG GGAG GGAG GGAG GGA
1 GGAG GGAG GGAG GGAG GGAG GGAG GGA
36021259 AAGATAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:36037919 original size:15 final size:15
Alignment explanation
Indices: 36037895--36037929 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
36037885 AATGGCAGGA
*
36037895 GGAGGGGGTGGTGGT
1 GGAGGGGGTGGTGGC
*
36037910 GGAGGTGGTGGTGGC
1 GGAGGGGGTGGTGGC
36037925 GGAGG
1 GGAGG
36037930 AGCTGCACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.03, G:0.71, T:0.17
Consensus pattern (15 bp):
GGAGGGGGTGGTGGC
Found at i:36046090 original size:79 final size:80
Alignment explanation
Indices: 36045966--36046116 Score: 232
Period size: 79 Copynumber: 1.9 Consensus size: 80
36045956 ATTTTTTAAA
* * * * *
36045966 AATTATTTTACAAGGAATTTTTAGCATTTATGTCGAAATAAATTTATAAAAAATTTATTTAACAA
1 AATTATTTAACAAGGAACTTTTAACATTTACGTCAAAATAAATTTATAAAAAATTTATTTAACAA
36046031 TTGAATCTTATTTTT
66 TTGAATCTTATTTTT
* *
36046046 AATTATTTAACAAGG-ACTTTTAACATTTACGTCAAAATATATTTATAAAATATTTATTTAACAA
1 AATTATTTAACAAGGAACTTTTAACATTTACGTCAAAATAAATTTATAAAAAATTTATTTAACAA
36046110 TTGAATC
66 TTGAATC
36046117 CGAATTAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 50 0.78
80 14 0.22
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (80 bp):
AATTATTTAACAAGGAACTTTTAACATTTACGTCAAAATAAATTTATAAAAAATTTATTTAACAA
TTGAATCTTATTTTT
Found at i:36050251 original size:3 final size:3
Alignment explanation
Indices: 36050243--36050270 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36050233 TTTAAATTTA
36050243 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
36050271 AATTTGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:36050417 original size:15 final size:15
Alignment explanation
Indices: 36050397--36050430 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36050387 CTAAATTTTG
*
36050397 AAATTTAAAAAATTA
1 AAATTTAAAAAATAA
*
36050412 AAATTTTAAAAATAA
1 AAATTTAAAAAATAA
36050427 AAAT
1 AAAT
36050431 ACTAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTTAAAAAATAA
Found at i:36050429 original size:23 final size:23
Alignment explanation
Indices: 36050389--36050439 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
36050379 AATTTAATCT
* * * *
36050389 AAATTTTGAAATTTAAAAAATTA
1 AAATTTTAAAAATAAAAAAACTA
*
36050412 AAATTTTAAAAATAAAAATACTA
1 AAATTTTAAAAATAAAAAAACTA
36050435 AAATT
1 AAATT
36050440 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATTTTAAAAATAAAAAAACTA
Found at i:36051617 original size:7 final size:7
Alignment explanation
Indices: 36051607--36051631 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36051597 TTTTACTTAA
36051607 CCTCATC
1 CCTCATC
36051614 CCTCATC
1 CCTCATC
36051621 CCTCATC
1 CCTCATC
36051628 CCTC
1 CCTC
36051632 CTTTCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.60, G:0.00, T:0.28
Consensus pattern (7 bp):
CCTCATC
Found at i:36054499 original size:6 final size:6
Alignment explanation
Indices: 36054488--36054512 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36054478 TAATGGGTAC
36054488 CTTCAT CTTCAT CTTCAT CTTCAT C
1 CTTCAT CTTCAT CTTCAT CTTCAT C
36054513 ATCACTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CTTCAT
Found at i:36054600 original size:26 final size:26
Alignment explanation
Indices: 36054567--36054620 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
36054557 CAAAATCAGA
36054567 CACTTGTTCATCCCCATCCAATAAGT
1 CACTTGTTCATCCCCATCCAATAAGT
*
36054593 CACTTGTTCATCTCCATCCAATAAGT
1 CACTTGTTCATCCCCATCCAATAAGT
36054619 CA
1 CA
36054621 TCTAAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.31
Consensus pattern (26 bp):
CACTTGTTCATCCCCATCCAATAAGT
Found at i:36056059 original size:23 final size:22
Alignment explanation
Indices: 36056020--36056062 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
36056010 GTCCATATTT
36056020 TTTTAATTTTTTAAATATTTTA
1 TTTTAATTTTTTAAATATTTTA
* *
36056042 TTTTATTTTATTTTAATATTT
1 TTTTAATTT-TTTAAATATTT
36056063 AATAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTAATTTTTTAAATATTTTA
Found at i:36063924 original size:3 final size:3
Alignment explanation
Indices: 36063878--36063905 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36063868 GACGGATATA
36063878 GAG GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG G
36063906 GAGACGGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:36064994 original size:10 final size:10
Alignment explanation
Indices: 36064976--36065023 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
36064966 AATTTATATT
*
36064976 TTTAAAAAAA
1 TTTATAAAAA
*
36064986 TTTATAAAAT
1 TTTATAAAAA
36064996 TTTATAAAAA
1 TTTATAAAAA
*
36065006 TGT-TAAAAA
1 TTTATAAAAA
*
36065015 TTTTTAAAA
1 TTTATAAAA
36065024 TAATAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:36065004 original size:20 final size:20
Alignment explanation
Indices: 36064975--36065023 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
36064965 AAATTTATAT
*
36064975 TTTTAAAAAAAT-TTATAAAA
1 TTTTATAAAAATGTTA-AAAA
36064995 TTTTATAAAAATGTTAAAAA
1 TTTTATAAAAATGTTAAAAA
36065015 TTTT-TAAAA
1 TTTTATAAAA
36065024 TAATAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.70
21 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TTTTATAAAAATGTTAAAAA
Found at i:36067538 original size:15 final size:17
Alignment explanation
Indices: 36067495--36067552 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 17
36067485 ATGAGTCTAT
36067495 TTTTTTATTCAAACTCA
1 TTTTTTATTCAAACTCA
** *
36067512 TTTTAAAGTCAAA-T-A
1 TTTTTTATTCAAACTCA
36067527 TTTTTTATTCAAAC-C-
1 TTTTTTATTCAAACTCA
36067542 TTTTTATATTC
1 TTTTT-TATTC
36067553 TAGACAAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 16 0.50
16 6 0.19
17 10 0.31
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTTTTATTCAAACTCA
Found at i:36071705 original size:6 final size:6
Alignment explanation
Indices: 36071690--36071722 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
36071680 GGACAATGGC
*
36071690 TCCTAG TCCTAA TCCTAG TCCTAG TCCTAG TCC
1 TCCTAG TCCTAG TCCTAG TCCTAG TCCTAG TCC
36071723 CAGAGCTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.36, G:0.12, T:0.33
Consensus pattern (6 bp):
TCCTAG
Found at i:36073855 original size:19 final size:19
Alignment explanation
Indices: 36073832--36073882 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
36073822 ATTTTTTATA
36073832 AAATTTATAAAATTTTAAT
1 AAATTTATAAAATTTTAAT
* * * *
36073851 TAATTTTTAATATTTTTAT
1 AAATTTATAAAATTTTAAT
*
36073870 AAATTTAAAAAAT
1 AAATTTATAAAAT
36073883 AGAATTTTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTTATAAAATTTTAAT
Found at i:36078143 original size:29 final size:29
Alignment explanation
Indices: 36078094--36078171 Score: 106
Period size: 28 Copynumber: 2.7 Consensus size: 29
36078084 CAAATGATTT
*
36078094 TAAATTTATTAAAATTATTTTTTAAAAT-A
1 TAAAATTATT-AAATTATTTTTTAAAATAA
*
36078123 TAAAAATT-TTAAATTATTTTTTGAAATAA
1 T-AAAATTATTAAATTATTTTTTAAAATAA
36078152 TAAAATTATTAAATTATTTT
1 TAAAATTATTAAATTATTTT
36078172 AATTTCCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
28 22 0.50
29 17 0.39
30 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
TAAAATTATTAAATTATTTTTTAAAATAA
Found at i:36078978 original size:20 final size:20
Alignment explanation
Indices: 36078953--36079064 Score: 64
Period size: 20 Copynumber: 5.9 Consensus size: 20
36078943 GGTGATGATT
36078953 ATAATTTTAAAATAATTTTA
1 ATAATTTTAAAATAATTTTA
36078973 ATAATTTT---AT-ATTTTA
1 ATAATTTTAAAATAATTTTA
** *
36078989 A-AA-AATAAATTAATTTTAAA
1 ATAATTTTAAAATAATTTT--A
*
36079009 ATAAATTT--AATAATTTT-
1 ATAATTTTAAAATAATTTTA
36079026 AT-ATTTTAAAAAATAATTTTA
1 ATAATTTT--AAAATAATTTTA
* *
36079047 ATAATTCTAAAATCATTT
1 ATAATTTTAAAATAATTT
36079065 ACTGACGTGA
Statistics
Matches: 69, Mismatches: 9, Indels: 28
0.65 0.08 0.26
Matches are distributed among these distances:
14 1 0.01
15 2 0.03
16 11 0.16
17 5 0.07
18 5 0.07
20 36 0.52
21 4 0.06
22 5 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAATTTTAAAATAATTTTA
Found at i:36079018 original size:45 final size:45
Alignment explanation
Indices: 36078954--36079041 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
36078944 GTGATGATTA
*
36078954 TAATTTTAAAATAATTTTAATAATTTTATATTTTAAAAAATAAAT
1 TAATTTTAAAATAAATTTAATAATTTTATATTTTAAAAAATAAAT
36078999 TAATTTTAAAATAAATTTAATAATTTTATATTTTAAAAAATAA
1 TAATTTTAAAATAAATTTAATAATTTTATATTTTAAAAAATAA
36079042 TTTTAATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (45 bp):
TAATTTTAAAATAAATTTAATAATTTTATATTTTAAAAAATAAAT
Found at i:36079469 original size:16 final size:17
Alignment explanation
Indices: 36079433--36079469 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
36079423 AATTTTATTT
*
36079433 TAATAATAAATTTTAAA
1 TAATAATAAATTCTAAA
36079450 -AATAAT-AATTCTAAA
1 TAATAATAAATTCTAAA
36079465 TAATA
1 TAATA
36079470 TTCTTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTCTAAA
Found at i:36084875 original size:13 final size:13
Alignment explanation
Indices: 36084857--36084882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36084847 AATTTAATAT
36084857 TTTAAATTTTAAA
1 TTTAAATTTTAAA
36084870 TTTAAATTTTAAA
1 TTTAAATTTTAAA
36084883 CTATGTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAAATTTTAAA
Found at i:36084880 original size:7 final size:7
Alignment explanation
Indices: 36084849--36084882 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
36084839 TTAAAAATAA
36084849 TTTAATAT
1 TTTAA-AT
36084857 TTTAAAT
1 TTTAAAT
36084864 TTTAAA-
1 TTTAAAT
36084870 TTTAAAT
1 TTTAAAT
36084877 TTTAAA
1 TTTAAA
36084883 CTATGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 14 0.56
8 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTTAAAT
Found at i:36085116 original size:29 final size:29
Alignment explanation
Indices: 36085044--36085125 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 29
36085034 TAAATCTTAA
* *
36085044 AATTATACA-TGAACTTTAATTTAATGTGC
1 AATTATACACTGAACTTTAATTT-AGGTAC
* *
36085073 AATTGTATACTTGAACTTTAATTT-GGTAC
1 AATTATACAC-TGAACTTTAATTTAGGTAC
*
36085102 AATTATACACGTGAAACTCTAATT
1 AATTATACAC-TG-AACTTTAATT
36085126 GTAATTCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 20 0.48
30 9 0.21
31 13 0.31
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (29 bp):
AATTATACACTGAACTTTAATTTAGGTAC
Found at i:36085313 original size:30 final size:29
Alignment explanation
Indices: 36085279--36085336 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
36085269 AATTTACAAT
**
36085279 AATTGGATCAAATCAAAATTTCATGTATAA
1 AATTGGAAAAAATCAAAA-TTCATGTATAA
* *
36085309 AATTGTAAAAAATTAAAATTCATGTATA
1 AATTGGAAAAAATCAAAATTCATGTATA
36085337 CAGTTGCACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (29 bp):
AATTGGAAAAAATCAAAATTCATGTATAA
Found at i:36085353 original size:15 final size:15
Alignment explanation
Indices: 36085333--36085364 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36085323 AAAATTCATG
*
36085333 TATACAGTTGCACAT
1 TATACAATTGCACAT
36085348 TATACAATTGCACAT
1 TATACAATTGCACAT
36085363 TA
1 TA
36085365 AACCATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (15 bp):
TATACAATTGCACAT
Found at i:36093130 original size:25 final size:25
Alignment explanation
Indices: 36093096--36093146 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
36093086 TCATCATTTT
36093096 TCATTCTTTCAATTTATTATTGTTC
1 TCATTCTTTCAATTTATTATTGTTC
* *
36093121 TCATTCTTTCACTTTATTCTTGTTC
1 TCATTCTTTCAATTTATTATTGTTC
36093146 T
1 T
36093147 TTGAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.04, T:0.61
Consensus pattern (25 bp):
TCATTCTTTCAATTTATTATTGTTC
Found at i:36093959 original size:7 final size:7
Alignment explanation
Indices: 36093948--36094438 Score: 912
Period size: 7 Copynumber: 70.1 Consensus size: 7
36093938 AAATTAAATT
*
36093948 AACGGGT
1 AACGGGG
*
36093955 AACGGGT
1 AACGGGG
*
36093962 AACGGGT
1 AACGGGG
*
36093969 AACGGGT
1 AACGGGG
*
36093976 AACGGGT
1 AACGGGG
*
36093983 AACGGGT
1 AACGGGG
36093990 AACGGGG
1 AACGGGG
36093997 AACGGGG
1 AACGGGG
36094004 AACGGGG
1 AACGGGG
36094011 AACGGGG
1 AACGGGG
36094018 AACGGGG
1 AACGGGG
36094025 AACGGGG
1 AACGGGG
36094032 AACGGGG
1 AACGGGG
36094039 AACGGGG
1 AACGGGG
36094046 AACGGGG
1 AACGGGG
36094053 AACGGGG
1 AACGGGG
36094060 AACGGGG
1 AACGGGG
36094067 AACGGGG
1 AACGGGG
36094074 AACGGGG
1 AACGGGG
36094081 AACGGGG
1 AACGGGG
36094088 AACGGGG
1 AACGGGG
36094095 AACGGGG
1 AACGGGG
36094102 AACGGGG
1 AACGGGG
36094109 AACGGGG
1 AACGGGG
36094116 AACGGGG
1 AACGGGG
36094123 AACGGGG
1 AACGGGG
36094130 AACGGGG
1 AACGGGG
36094137 AACGGGG
1 AACGGGG
36094144 AACGGGG
1 AACGGGG
36094151 AACGGGG
1 AACGGGG
36094158 AACGGGG
1 AACGGGG
36094165 AACGGGG
1 AACGGGG
36094172 AACGGGG
1 AACGGGG
36094179 AACGGGG
1 AACGGGG
36094186 AACGGGG
1 AACGGGG
36094193 AACGGGG
1 AACGGGG
36094200 AACGGGG
1 AACGGGG
36094207 AACGGGG
1 AACGGGG
36094214 AACGGGG
1 AACGGGG
36094221 AACGGGG
1 AACGGGG
36094228 AACGGGG
1 AACGGGG
36094235 AACGGGG
1 AACGGGG
36094242 AACGGGG
1 AACGGGG
36094249 AACGGGG
1 AACGGGG
36094256 AACGGGG
1 AACGGGG
36094263 AACGGGG
1 AACGGGG
36094270 AACGGGG
1 AACGGGG
36094277 AACGGGG
1 AACGGGG
36094284 AACGGGG
1 AACGGGG
36094291 AACGGGG
1 AACGGGG
36094298 AACGGGG
1 AACGGGG
36094305 AACGGGG
1 AACGGGG
36094312 AACGGGG
1 AACGGGG
36094319 AACGGGG
1 AACGGGG
36094326 AACGGGG
1 AACGGGG
36094333 AACGGGG
1 AACGGGG
36094340 AACGGGG
1 AACGGGG
36094347 AACGGGG
1 AACGGGG
36094354 AAC-GGG
1 AACGGGG
36094360 AACGGGG
1 AACGGGG
36094367 AACGGGG
1 AACGGGG
36094374 AAACGGGG
1 -AACGGGG
36094382 AACGGGG
1 AACGGGG
36094389 AACGGGG
1 AACGGGG
36094396 AACGGGG
1 AACGGGG
36094403 AACGGGG
1 AACGGGG
36094410 AACGGGG
1 AACGGGG
36094417 AACGGGG
1 AACGGGG
36094424 AACGGGG
1 AACGGGG
36094431 AACGGGG
1 AACGGGG
36094438 A
1 A
36094439 GGGTTTCCTG
Statistics
Matches: 481, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
6 6 0.01
7 468 0.97
8 7 0.01
ACGTcount: A:0.29, C:0.14, G:0.56, T:0.01
Consensus pattern (7 bp):
AACGGGG
Found at i:36097454 original size:53 final size:53
Alignment explanation
Indices: 36097379--36097487 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
36097369 TAGATTCATG
36097379 TTGGTTTGATGGTTGGAGATCAAAGAAGAAGGTTTAGGTTTTGATTTGTAGAT
1 TTGGTTTGATGGTTGGAGATCAAAGAAGAAGGTTTAGGTTTTGATTTGTAGAT
36097432 TTGGTTTGATGGTTGGAGATCAAAGAAGAAGGTTTAGGTTTTGATTTGTAGAT
1 TTGGTTTGATGGTTGGAGATCAAAGAAGAAGGTTTAGGTTTTGATTTGTAGAT
36097485 TTG
1 TTG
36097488 TGATGTTCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.26, C:0.02, G:0.32, T:0.40
Consensus pattern (53 bp):
TTGGTTTGATGGTTGGAGATCAAAGAAGAAGGTTTAGGTTTTGATTTGTAGAT
Found at i:36102336 original size:20 final size:21
Alignment explanation
Indices: 36102306--36102344 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
36102296 TAAGCAATAG
36102306 ATTATATAAATTACATAAAGC
1 ATTATATAAATTACATAAAGC
*
36102327 ATTA-ATAAATTATATAAA
1 ATTATATAAATTACATAAA
36102345 TTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (21 bp):
ATTATATAAATTACATAAAGC
Found at i:36112584 original size:3 final size:3
Alignment explanation
Indices: 36112576--36112603 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36112566 GAAACAAATG
36112576 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
36112604 CAAACAAGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:36116452 original size:15 final size:16
Alignment explanation
Indices: 36116425--36116454 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36116415 TTTGCTTGGT
36116425 ATGAAGAATGGAAAAA
1 ATGAAGAATGGAAAAA
36116441 ATGAAG-ATGGAAAA
1 ATGAAGAATGGAAAA
36116455 TTTGTTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (16 bp):
ATGAAGAATGGAAAAA
Found at i:36137208 original size:25 final size:25
Alignment explanation
Indices: 36137188--36137233 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36137178 CCAATTAGAG
36137188 AATTAT-TATTTAG-ATTTAATTCA
1 AATTATCTATTTAGAATTTAATTCA
*
36137211 AATTATCTTTTTAGAATTTAATT
1 AATTATCTATTTAGAATTTAATT
36137234 TTAGAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (25 bp):
AATTATCTATTTAGAATTTAATTCA
Found at i:36137237 original size:13 final size:13
Alignment explanation
Indices: 36137219--36137247 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36137209 CAAATTATCT
36137219 TTTTAGAATTTAA
1 TTTTAGAATTTAA
36137232 TTTTAGAATTTAA
1 TTTTAGAATTTAA
36137245 TTT
1 TTT
36137248 GGATCCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
TTTTAGAATTTAA
Found at i:36138175 original size:83 final size:83
Alignment explanation
Indices: 36138036--36138203 Score: 300
Period size: 83 Copynumber: 2.0 Consensus size: 83
36138026 TATTATTTCT
* *
36138036 TACTTCAATCTTTGTCGCATTTTTAGCTTATTAATTTAATTAAATTAGTTTAAAACAATCACTTT
1 TACTTCAATCTTTGTCGCACTTTGAGCTTATTAATTTAATTAAATTAGTTTAAAACAATCACTTT
36138101 ATTCGATCGGTTAGATAA
66 ATTCGATCGGTTAGATAA
*
36138119 TACTTCAATCTTTGTCGCACTTTGAGCTTATTAATTTAGTTAAATTAGTTTAAAACAATCACTTT
1 TACTTCAATCTTTGTCGCACTTTGAGCTTATTAATTTAATTAAATTAGTTTAAAACAATCACTTT
*
36138184 ATTTGATCGGTTAGATAA
66 ATTCGATCGGTTAGATAA
36138202 TA
1 TA
36138204 GAAAGACAAC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (83 bp):
TACTTCAATCTTTGTCGCACTTTGAGCTTATTAATTTAATTAAATTAGTTTAAAACAATCACTTT
ATTCGATCGGTTAGATAA
Found at i:36139880 original size:42 final size:40
Alignment explanation
Indices: 36139548--36139953 Score: 392
Period size: 41 Copynumber: 9.9 Consensus size: 40
36139538 TGTTTGGAAA
* * *
36139548 TAAAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTTTCT
1 TAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGC-TTTCT
* * * * * *
36139588 TAATGCGCCGCAAAATGTAAAG-CATTAGCGGCGCTTAAC-
1 TAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTT-TCT
* * *
36139627 AAAAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTATAAC-
1 TAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCT-T-TCT
* * * * *
36139668 CACAAGCACCGCTAAAGGTTAGGTAATTAGCGGCGCTTTAT
1 TA-AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCT
* *
36139709 CACAAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTCT
1 TA-AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCT
* * *
36139750 CAAATGCGCCGCTAAAGGT-AGGGTAATTAGCGGCGCTTTCC
1 TAAA-GCGCCGCTAAAGGTCA-GGTCATTAGCGGCGCTTTCT
*
36139791 TCAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCT
1 TAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT-CT
*
36139832 TAAAGCGCCGCTAAAGGT-AGGATCATTTAGCGGTGCTTTCAT
1 TAAAGCGCCGCTAAAGGTCAGG-TCA-TTAGCGGCGCTTTC-T
* * * *
36139874 TTAAGCGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTATAT
1 TAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTT-TCT
36139915 ATAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT
1 -TAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT
36139954 TATAATAAGC
Statistics
Matches: 318, Mismatches: 33, Indels: 29
0.84 0.09 0.08
Matches are distributed among these distances:
39 18 0.06
40 82 0.26
41 117 0.37
42 99 0.31
43 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TAAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCT
Found at i:36139964 original size:42 final size:41
Alignment explanation
Indices: 36139550--36140010 Score: 358
Period size: 42 Copynumber: 11.3 Consensus size: 41
36139540 TTTGGAAATA
* * * *
36139550 AAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTTTCT-T
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
* * * * * * *
36139589 AATGCGCCGCAAAATGTAAAG-CATTAGCGGCGC-TTAACAA
1 AA-GCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
* * * * *
36139629 AAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTATAACCAC
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTA-TAT
* * * *
36139671 AAGCACCGCTAAAGGTTAGGTAATTAGCGGCGC-TTTATCAC
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTAT-AT
*
36139712 AAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTCTCA-A-
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT-T-ATAT
* * ** *
36139753 ATGCGCCGCTAAAGGT-AGGGTAATTAGCGGCGCTTTCCT-C
1 AAGCGCCGCTAAAGGTCA-GGTCATTAGCGGCGCTTTTATAT
36139793 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCT-TA-
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT--TATAT
* * *
36139834 AAGCGCCGCTAAAGGT-AGGATCATTTAGCGGTGCTTTCATTT
1 AAGCGCCGCTAAAGGTCAGG-TCA-TTAGCGGCGCTTTTATAT
* * *
36139876 AAGCGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTATATAT
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
36139917 AAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAAT
1 -AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTAT-AT
* * * ***
36139960 AAGCGTCACTAAAGGT---GTGAATTAGCGGCGCTTTCCCAT
1 AAGCGCCGCTAAAGGTCAGGT-CATTAGCGGCGCTTTTATAT
36139999 AAGCGCCGCTAA
1 AAGCGCCGCTAA
36140011 TGTATTTAAA
Statistics
Matches: 353, Mismatches: 45, Indels: 48
0.79 0.10 0.11
Matches are distributed among these distances:
39 32 0.09
40 92 0.26
41 107 0.30
42 116 0.33
43 5 0.01
44 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (41 bp):
AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAT
Found at i:36142339 original size:49 final size:49
Alignment explanation
Indices: 36142296--36142967 Score: 586
Period size: 49 Copynumber: 13.2 Consensus size: 49
36142286 AAGTATCCTT
36142296 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * *
36142345 GTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * ** * *
36142394 TTATATTAAATTATTTAATCATG-TTTAATTATGTATTTA-ATTATAAACACTATCGA
1 TTATATTAAGTTA---AA--A-GATTTAATTATTTAATTATATTA-AAGTA-AAT-AA
* ** *
36142450 TTA-ATTAAATATTTAAG-TTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGT-TAAAAGATT--TA-A-TT-ATT---TAATTATATTAAAGTAAATAA
*
36142506 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
*
36142555 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * *
36142604 GTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * *
36142652 GTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * * *
36142701 TTATATTAAATTATTTAATCATG-TTTAATTATGTATTTAATTATAAACACTACCGATTAA
1 TTATATTAAGTTA---AA--A-GATTTAATTATTTAATT-A-TATTAA-AGTA---AATAA
* *
36142761 TTAAATATTTAAGTTAAAAGATTTAATTATTTATTTATATTAAAGTAACTAA
1 TT--ATA-TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * ** *
36142813 TTATATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-T
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTA-AATAA
*
36142862 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTTAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * **
36142911 GTATATTAAATT-AATTATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
36142959 TTATATTAA
1 TTATATTAA
36142968 ATTATTTAAT
Statistics
Matches: 515, Mismatches: 68, Indels: 81
0.78 0.10 0.12
Matches are distributed among these distances:
48 88 0.17
49 263 0.51
50 8 0.02
51 1 0.00
52 14 0.03
53 8 0.02
54 32 0.06
55 17 0.03
56 23 0.04
57 16 0.03
58 23 0.04
59 4 0.01
60 8 0.02
62 3 0.01
63 7 0.01
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (49 bp):
TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
Found at i:36142479 original size:26 final size:26
Alignment explanation
Indices: 36142450--36142580 Score: 84
Period size: 26 Copynumber: 5.3 Consensus size: 26
36142440 ACACTATCGA
*
36142450 TTAATTAAATATTTAAGTTAAAAGAT
1 TTAATTAATTATTTAAGTTAAAAGAT
* *
36142476 TTAATTATTTAATTATA-TT-AAAG--
1 TTAATTAATTATTTA-AGTTAAAAGAT
*
36142499 -TAAATAATTATATTAAGTTAAAAGAT
1 TTAATTAATTAT-TTAAGTTAAAAGAT
* *
36142525 TTAATTATTTAATTATA-TT-AAAG--
1 TTAATTAATTATTTA-AGTTAAAAGAT
* *
36142548 -TAACTAATTATATTAAATTAAAAGAT
1 TTAATTAATTAT-TTAAGTTAAAAGAT
36142574 TTAATTA
1 TTAATTA
36142581 TTTAATTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 27
0.66 0.11 0.23
Matches are distributed among these distances:
22 18 0.23
23 10 0.13
24 8 0.10
25 8 0.10
26 19 0.24
27 15 0.19
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (26 bp):
TTAATTAATTATTTAAGTTAAAAGAT
Found at i:36142483 original size:161 final size:160
Alignment explanation
Indices: 36142301--36142853 Score: 776
Period size: 161 Copynumber: 3.5 Consensus size: 160
36142291 TCCTTTTATA
*
36142301 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATAT
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATAT
*
36142366 AATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATT
66 AATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATT
36142431 TAATTATAAACACTATCGATTAATTAAATAT
131 TAATTATAAACACTA-CGATTAATTAAATAT
* *
36142462 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTT
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATAT
* * * *
36142527 AATTATTTAATTATATTAAAGTAACTAATTATATTAAATTA---AA--A-GATTTAATTATTTAA
66 AATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATG-TTTAATTATGTAT
* * * *
36142586 TT-A-TATTAA-AGTA--AATAAGT--ATA-
130 TTAATTATAAACACTACGATTAATTAAATAT
* * *
36142609 TTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATAT
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATAT
*
36142673 AATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATT
66 AATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATT
36142738 TAATTATAAACACTACCGATTAATTAAATAT
131 TAATTATAAACACTA-CGATTAATTAAATAT
* * * * * *
36142769 TTAAGTTAAAAGATTTAATTATTTATTTATATTAAAGTAACTAATTATATCAAGTTGAAAGATTT
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATAT
36142834 AATTATTTAATTATATTAAA
66 AATTATTTAATTATATTAAA
36142854 GTATCCTTTT
Statistics
Matches: 339, Mismatches: 36, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
146 91 0.27
147 6 0.02
148 3 0.01
149 2 0.01
150 5 0.01
151 14 0.04
152 2 0.01
153 8 0.02
154 8 0.02
155 2 0.01
156 14 0.04
157 5 0.01
158 2 0.01
159 3 0.01
160 6 0.02
161 168 0.50
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (160 bp):
TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATAT
AATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATT
TAATTATAAACACTACGATTAATTAAATAT
Found at i:36142868 original size:307 final size:307
Alignment explanation
Indices: 36142297--36142967 Score: 1200
Period size: 307 Copynumber: 2.2 Consensus size: 307
36142287 AGTATCCTTT
* *
36142297 TATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAG
1 TATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAG
36142362 ATATAATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATG
65 ATATAATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATG
*
36142427 TATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTAT
130 TATTTAATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTAT
*
36142492 ATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATT
195 ATTAAAGTAAATAATTATATCAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATT
36142557 ATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAG
260 ATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAG
36142605 TATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGA
1 TATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGA
36142670 TATAATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGT
66 TATAATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGT
*
36142735 ATTTAATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTATTTATA
131 ATTTAATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATA
* * * *
36142800 TTAAAGTAACTAATTATATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-TTT
196 TTAAAGTAAATAATTATATCAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTA-ACTAATT
* *
36142864 ATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTTAATAAG
260 ATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAG
* *
36142912 TATATTAAATTAATTATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAA
1 TATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAA
36142968 ATTATTTAAT
Statistics
Matches: 349, Mismatches: 13, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
307 337 0.97
308 12 0.03
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (307 bp):
TATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGA
TATAATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGT
ATTTAATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATA
TTAAAGTAAATAATTATATCAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTA
TATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAG
Found at i:36142892 original size:8 final size:8
Alignment explanation
Indices: 36142879--36142989 Score: 59
Period size: 8 Copynumber: 13.1 Consensus size: 8
36142869 AAGTTAAAAG
36142879 ATTTAATT
1 ATTTAATT
36142887 ATTTAATT
1 ATTTAATT
36142895 ATATTAAAGTT
1 AT-TT-AA-TT
* *
36142906 A-ATAAGT
1 ATTTAATT
36142913 ATATTAA--
1 AT-TTAATT
36142920 A-TTAATT
1 ATTTAATT
36142927 ATTTAATT
1 ATTTAATT
36142935 ATTTAATT
1 ATTTAATT
*
36142943 ATATTAAAGT
1 AT-TT-AATT
**
36142953 AAATAATT
1 ATTTAATT
36142961 ATATTAAATT
1 AT-TT-AATT
36142971 ATTTAATTGT
1 ATTTAA-T-T
36142981 ATTTAATT
1 ATTTAATT
36142989 A
1 A
36142990 ACTATTTAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
5 4 0.05
7 4 0.05
8 36 0.45
9 14 0.17
10 19 0.24
11 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (8 bp):
ATTTAATT
Found at i:36142988 original size:258 final size:258
Alignment explanation
Indices: 36142296--36142998 Score: 781
Period size: 258 Copynumber: 2.7 Consensus size: 258
36142286 AAGTATCCTT
* * *
36142296 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAA
1 TTATATCAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATT-AAA
* * * * * *
36142361 GATATAATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTAT
65 GATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTA---AA--A-G-AT-ATAAT
* * *** * *
36142426 GTATTTAATTATA--AACACT--ATCGATTA-ATTAAA-TATTTAAGTTA-AAAGATTTAATTAT
122 -TATTTAATTATATTAA-ACTAAAT-AATTATATTAAATTATTTAA-TCATATTTAATTAACTAT
* *
36142484 TTAATTATATTAA-AGTA---AATAATT--ATA-TTAAGTTAAAAGATTTAATTATTTAATTATA
183 TTAATTATA--AACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATA
36142542 TTAAAGTAACTAA
246 TTAAAGTAACTAA
* *
36142555 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
1 TTATATCAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAG
*
36142620 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATT
66 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATATAATTATTTAATT
* * **
36142685 GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACA
131 ATATTAAACTAAATAATTATATTAAATTATTTAATCATATTTAATTAACTATTTAATTATAAACA
*
36142750 CTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTATTTATATTAAAGTAACTAA
196 CTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAA
* * ** ** *
36142813 TTATATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-TTTATATTAAGTTAAA
1 TTATATCAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA-AATAAGTATATTAAATT-AA
* ** *
36142877 AGATTTAATTATTTAATTATATTAAAGTTAATAAGTATATTAAATT-AATTATTTAATTATTTAA
64 AGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATATAATTATTTAA
* **
36142941 TTATATTAAAGTAAATAATTATATTAAATTATTTAATTGTATTTAATTAACTATTTAA
129 TTATATTAAACTAAATAATTATATTAAATTATTTAATCATATTTAATTAACTATTTAA
36142999 CTTAAAATGT
Statistics
Matches: 384, Mismatches: 44, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
249 11 0.03
250 7 0.02
251 9 0.02
252 14 0.04
253 24 0.06
255 8 0.02
257 3 0.01
258 203 0.53
259 105 0.27
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (258 bp):
TTATATCAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAG
ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATATAATTATTTAATT
ATATTAAACTAAATAATTATATTAAATTATTTAATCATATTTAATTAACTATTTAATTATAAACA
CTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAA
Found at i:36143004 original size:36 final size:36
Alignment explanation
Indices: 36142890--36142983 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
36142880 TTTAATTATT
* *
36142890 TAATTATATTAAAGTTA-ATAAGTATATTAAA-T---
1 TAATTATATTAAA-TTATTTAATTATATTAAAGTAAA
36142922 TAATTAT-TT-AATTATTTAATTATATTAAAGTAAA
1 TAATTATATTAAATTATTTAATTATATTAAAGTAAA
*
36142956 TAATTATATTAAATTATTTAATTGTATT
1 TAATTATATTAAATTATTTAATTATATT
36142984 TAATTAACTA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
29 3 0.06
30 14 0.27
31 3 0.06
32 7 0.13
34 7 0.13
35 2 0.04
36 16 0.31
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (36 bp):
TAATTATATTAAATTATTTAATTATATTAAAGTAAA
Found at i:36143054 original size:8 final size:8
Alignment explanation
Indices: 36143018--36143111 Score: 65
Period size: 8 Copynumber: 11.8 Consensus size: 8
36143008 TGGTCGTAAA
36143018 TAATTATAT
1 TAATTAT-T
36143027 ATAATTATT
1 -TAATTATT
36143036 TAAGCTTATT
1 TAA--TTATT
36143046 TAATTATT
1 TAATTATT
36143054 TAATTGA--
1 TAATT-ATT
**
36143061 -AAAGATT
1 TAATTATT
36143068 TAATTATT
1 TAATTATT
36143076 TAATTATAT
1 TAATTAT-T
36143085 TAA--A-T
1 TAATTATT
*
36143090 TAAATATT
1 TAATTATT
36143098 TAATTATT
1 TAATTATT
36143106 TAATTA
1 TAATTA
36143112 ATAAAAACAG
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.07
6 2 0.03
7 2 0.03
8 39 0.57
9 6 0.09
10 15 0.22
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (8 bp):
TAATTATT
Done.