Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 70 of 210
Found at i:21031151 original size:58 final size:57
Alignment explanation
Indices: 21031089--21031223 Score: 180
Period size: 58 Copynumber: 2.3 Consensus size: 57
21031079 GTTATTAAAT
* * * * *
21031089 TTTAATAAAATTATTATTAAATATATTTTAATAAAATAAATAAATAATTTAATCATAA
1 TTTAATATAATTATTATTAAATACAATTTAATAAAAT-AATAAATAATTTAATAACAA
* * *
21031147 TTTAACATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTCATAACAT
1 TTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAACAA
21031204 TCTTAATATAATTATTATTA
1 T-TTAATATAATTATTATTA
21031224 TATGAATTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
57 17 0.25
58 50 0.75
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (57 bp):
TTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAACAA
Found at i:21034892 original size:49 final size:49
Alignment explanation
Indices: 21034836--21035250 Score: 422
Period size: 49 Copynumber: 8.5 Consensus size: 49
21034826 CTATCTTGGT
* * *
21034836 TGGCCCGACAACGATTGCTTTCACTATCTGCATATTCTACCATCCCAGG
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAGG
* * * *
21034885 TGGCCCGACAACTATAGCTTTCACTATTTGCATATTCTACCAT-CCTGAA
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAG-G
* * *
21034934 TGGCCCGACAATGATGGTTTCCACTATTTGCATATTCTACCATCCC-GAG
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAG-G
* * * *
21034983 TGACCCGACAATGATGGTTTTCACTATTTGCATATTCTACCATCTCAGG
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAGG
* ** * * ***
21035032 TGGCTCGATTACAATAGTTTTCACTATTTACATATTCTACCATCTTGGG
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAGG
* *
21035081 TGGCCTGACAACGATGGTTTTCACTATTTGCATATTCTACCATCCCAGG
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAGG
* * * * * ***
21035130 TGGCTCGATAACGATAGTTTTCAGTATTTACATATTCTACTATCTTGGG
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAGG
* * * * *
21035179 TGGCCCGACAACAATGGCTTTCACTATTTACATATTCTACCAT-CCTGAG
1 TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAG-G
** *
21035228 TGGCCTAACAACGATGGTTTTCA
1 TGGCCCGACAACGATAGTTTTCA
21035251 ATCACTATAT
Statistics
Matches: 304, Mismatches: 58, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
48 4 0.01
49 297 0.98
50 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (49 bp):
TGGCCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCCCAGG
Found at i:21035091 original size:147 final size:147
Alignment explanation
Indices: 21034839--21035247 Score: 550
Period size: 147 Copynumber: 2.8 Consensus size: 147
21034829 TCTTGGTTGG
* * * * *
21034839 CCCGACAACGATTGCTTTCACTATCTGCATATTCTACCATCCCAGGTGGCCCGACAACTATAGCT
1 CCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCTCAGGTGGCCCGACAACAATAGCT
* * * *
21034904 TTCACTATTTGCATATTCTACCATCCTGAATGGCCCGACAATGATGGTTTCCACTATTTGCATAT
66 TTCACTATTTACATATTCTACCATCCTGAGTGGCCTGACAACGATGGTTTCCACTATTTGCATAT
21034969 TCTACCATCCC-GAGTGA
131 TCTACCATCCCAG-GTGA
* * * ** *
21034986 CCCGACAATGATGGTTTTCACTATTTGCATATTCTACCATCTCAGGTGGCTCGATTACAATAGTT
1 CCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCTCAGGTGGCCCGACAACAATAGCT
* * *
21035051 TTCACTATTTACATATTCTACCATCTTGGGTGGCCTGACAACGATGGTTTTCACTATTTGCATAT
66 TTCACTATTTACATATTCTACCATCCTGAGTGGCCTGACAACGATGGTTTCCACTATTTGCATAT
*
21035116 TCTACCATCCCAGGTGG
131 TCTACCATCCCAGGTGA
* * * * * ** *
21035133 CTCGATAACGATAGTTTTCAGTATTTACATATTCTACTATCTTGGGTGGCCCGACAACAATGGCT
1 CCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCTCAGGTGGCCCGACAACAATAGCT
*
21035198 TTCACTATTTACATATTCTACCATCCTGAGTGGCCTAACAACGATGGTTT
66 TTCACTATTTACATATTCTACCATCCTGAGTGGCCTGACAACGATGGTTT
21035248 TCAATCACTA
Statistics
Matches: 226, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
147 225 1.00
148 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (147 bp):
CCCGACAACGATAGTTTTCACTATTTGCATATTCTACCATCTCAGGTGGCCCGACAACAATAGCT
TTCACTATTTACATATTCTACCATCCTGAGTGGCCTGACAACGATGGTTTCCACTATTTGCATAT
TCTACCATCCCAGGTGA
Found at i:21042013 original size:96 final size:96
Alignment explanation
Indices: 21041849--21042042 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
21041839 ACTAATTGCA
21041849 GATAAATATACCGCCCATTTAAAGGGGCTCTTGAAAAAATTATTCAGAAAACTCATTACAGCTTT
1 GATAAATATACCGCCCATTTAAAGGGGCTCTTGAAAAAATTATTCAGAAAACTCATTACAGCTTT
21041914 CCATAAGTTCTCTTGTAATTGTAAAAAATAT
66 CCATAAGTTCTCTTGTAATTGTAAAAAATAT
21041945 GATAAATATACCGCCCATTTAAAGGGGCTCTTGAAAAAATTATTCAGAAAACTCATTACAGCTTT
1 GATAAATATACCGCCCATTTAAAGGGGCTCTTGAAAAAATTATTCAGAAAACTCATTACAGCTTT
21042010 CCATAAGTTCTCTTGTAATTGTAAAAAATAT
66 CCATAAGTTCTCTTGTAATTGTAAAAAATAT
21042041 GA
1 GA
21042043 AAAACAAATT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (96 bp):
GATAAATATACCGCCCATTTAAAGGGGCTCTTGAAAAAATTATTCAGAAAACTCATTACAGCTTT
CCATAAGTTCTCTTGTAATTGTAAAAAATAT
Found at i:21042164 original size:19 final size:20
Alignment explanation
Indices: 21042134--21042171 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21042124 GATAATCTCT
21042134 CATAATTTTTAGTATTTTCC
1 CATAATTTTTAGTATTTTCC
21042154 CATAA-TTTTAGTATTTTC
1 CATAATTTTTAGTATTTTC
21042172 TCGTAAGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (20 bp):
CATAATTTTTAGTATTTTCC
Found at i:21042385 original size:20 final size:20
Alignment explanation
Indices: 21042362--21042436 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
21042352 CCTCTTATAA
21042362 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATGT
*
21042382 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATGT
* *
21042403 TTTTTGGTATTTCC-TCGTGT
1 TTTTTGGTA-CTCCATCATGT
*
21042423 TTTTTAGTACTCCA
1 TTTTTGGTACTCCA
21042437 AAAATTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.07
20 24 0.52
21 17 0.37
22 2 0.04
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATGT
Found at i:21042398 original size:21 final size:20
Alignment explanation
Indices: 21042362--21042411 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
21042352 CCTCTTATAA
*
21042362 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATAT
21042382 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATAT
21042403 TTTTTGGTA
1 TTTTTGGTA
21042412 TTTCCTCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATAT
Found at i:21044010 original size:18 final size:18
Alignment explanation
Indices: 21043977--21044021 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
21043967 TAATAGGTTA
*
21043977 TTCAAATCATTTTCTA-T
1 TTCAAATCACTTTCTACT
21043994 TTCAAATTCACTTTCTACT
1 TTCAAA-TCACTTTCTACT
*
21044013 TTCTAATCA
1 TTCAAATCA
21044022 ATATACAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCAAATCACTTTCTACT
Found at i:21047166 original size:16 final size:17
Alignment explanation
Indices: 21047145--21047177 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21047135 TTATAATTTT
21047145 TTTTCAT-TTATTTAAA
1 TTTTCATATTATTTAAA
*
21047161 TTTTCATATTTTTTAAA
1 TTTTCATATTATTTAAA
21047178 AATTATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCATATTATTTAAA
Found at i:21048918 original size:29 final size:30
Alignment explanation
Indices: 21048858--21049006 Score: 105
Period size: 29 Copynumber: 5.1 Consensus size: 30
21048848 CAAAAAATAA
* * *
21048858 AAAATTACATTTTGACCCCTAAA-CTTCTT
1 AAAATCACATTTTGACCCCTAAATTTTCCT
*
21048887 AAAATCGCA-TTTGACCCCTAAATTTTCCT
1 AAAATCACATTTTGACCCCTAAATTTTCCT
* *
21048916 AAAATTATATTTTGACCCCTAAAATTTT--T
1 AAAATCACATTTTGACCCCT-AAATTTTCCT
* * * *
21048945 GAAATTACATTTTGACCCATTAACTTTT-C-
1 AAAATCACATTTTGACCC-CTAAATTTTCCT
* * * *
21048974 GAAATTATATTTTGACTCCTAAATTTT-CT
1 AAAATCACATTTTGACCCCTAAATTTTCCT
21049003 AAAA
1 AAAA
21049007 ATGATATCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
28 21 0.21
29 59 0.60
30 11 0.11
31 7 0.07
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATCACATTTTGACCCCTAAATTTTCCT
Found at i:21048956 original size:58 final size:58
Alignment explanation
Indices: 21048858--21049006 Score: 160
Period size: 58 Copynumber: 2.6 Consensus size: 58
21048848 CAAAAAATAA
* * * *
21048858 AAAATTACATTTTGACCCCTAAACTTCTTAAAATCGCA-TTTGACCC-CTAAATTTTCC
1 AAAATTATATTTTGACCCCTAAAATTTTTAAAATCACATTTTGACCCACTAAATTTT-C
* * * *
21048915 TAAAATTATATTTTGACCCCTAAAATTTTTGAAATTACATTTTGACCCATTAACTTTTC
1 -AAAATTATATTTTGACCCCTAAAATTTTTAAAATCACATTTTGACCCACTAAATTTTC
* *
21048974 GAAATTATATTTTGACTCCT-AAATTTTCTAAAA
1 AAAATTATATTTTGACCCCTAAAATTTT-TAAAA
21049007 ATGATATCTT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
57 7 0.09
58 54 0.70
59 9 0.12
60 7 0.09
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (58 bp):
AAAATTATATTTTGACCCCTAAAATTTTTAAAATCACATTTTGACCCACTAAATTTTC
Found at i:21049430 original size:31 final size:31
Alignment explanation
Indices: 21049392--21049463 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
21049382 GGTTTCGAAA
* *
21049392 AAGAAGAAGGAA-GAAGAAAAATAAAAAGAAG
1 AAGAAGAAGAAAGGAA-AAAAAGAAAAAGAAG
21049423 AAGAAGAAGAAAGGAAAAAAAGAAAAAG-AG
1 AAGAAGAAGAAAGGAAAAAAAGAAAAAGAAG
*
21049453 AA-AAAAAGAAA
1 AAGAAGAAGAAA
21049464 ATAATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 8 0.22
30 4 0.11
31 22 0.59
32 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (31 bp):
AAGAAGAAGAAAGGAAAAAAAGAAAAAGAAG
Found at i:21049442 original size:25 final size:24
Alignment explanation
Indices: 21049389--21049464 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
21049379 TAGGGTTTCG
21049389 AAAAAGAAGAAGGAAGAAGAAA-AA
1 AAAAAGAAGAA-GAAGAAGAAAGAA
21049413 TAAAAAGAAGAAGAAGAAGAAAGGAA
1 -AAAAAGAAGAAGAAGAAGAAA-GAA
* *
21049439 AAAAAGAAAAAG-AGAAAAAAAGAA
1 AAAAAGAAGAAGAAG-AAGAAAGAA
21049463 AA
1 AA
21049465 TAATTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
24 17 0.37
25 27 0.59
26 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (24 bp):
AAAAAGAAGAAGAAGAAGAAAGAA
Found at i:21049448 original size:6 final size:6
Alignment explanation
Indices: 21049388--21049464 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
21049378 CTAGGGTTTC
* * * * *
21049388 GAAAAA GAAGAAG GAAGAA GAAAAA TAAAAA GAAGAA GAAGAA GAAAGGAA
1 GAAAAA GAA-AAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA--AA
*
21049439 -AAAAA GAAAAA G-AGAA -AAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
21049465 TAATTTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
5 8 0.15
6 37 0.67
7 8 0.15
8 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.01
Consensus pattern (6 bp):
GAAAAA
Found at i:21049631 original size:16 final size:15
Alignment explanation
Indices: 21049610--21049650 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
21049600 TAGTAGGCCT
21049610 CGCAGGCCAACCCAAG
1 CGCAGGCCAACCC-AG
21049626 CGCAGGCCCAACCCAG
1 CGCAGG-CCAACCCAG
21049642 CGCCAGGCC
1 CG-CAGGCC
21049651 TAGCAGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.24, C:0.49, G:0.27, T:0.00
Consensus pattern (15 bp):
CGCAGGCCAACCCAG
Found at i:21049638 original size:17 final size:16
Alignment explanation
Indices: 21049610--21049650 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
21049600 TAGTAGGCCT
21049610 CGCAGG-CCAACCCAAG
1 CGCAGGCCCAACCC-AG
21049626 CGCAGGCCCAACCCAG
1 CGCAGGCCCAACCCAG
21049642 CGCCAGGCC
1 CG-CAGGCC
21049651 TAGCAGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.24, C:0.49, G:0.27, T:0.00
Consensus pattern (16 bp):
CGCAGGCCCAACCCAG
Found at i:21049763 original size:21 final size:21
Alignment explanation
Indices: 21049737--21049807 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
21049727 GCCCAGTCCC
*
21049737 GAAAAAAGGAAGGAAAAAAAG
1 GAAAAAAGGAAGAAAAAAAAG
* *
21049758 GAAAAAAGAAAGAAAAAAAAA
1 GAAAAAAGGAAGAAAAAAAAG
21049779 GAGAAAAAGAGAA-AAGAAAAAAG
1 GA-AAAAAG-GAAGAA-AAAAAAG
21049802 GAAAAA
1 GAAAAA
21049808 GGGTTGTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
21 20 0.48
22 12 0.29
23 10 0.24
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
GAAAAAAGGAAGAAAAAAAAG
Found at i:21049768 original size:7 final size:7
Alignment explanation
Indices: 21049751--21049808 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
21049741 AAAGGAAGGA
21049751 AAAAAAGG
1 AAAAAA-G
21049759 AAAAAAG
1 AAAAAAG
21049766 AAAGAAA-
1 AAA-AAAG
21049773 AAAAAAG
1 AAAAAAG
21049780 AGAAAAAG
1 A-AAAAAG
*
21049788 AGAAAAG
1 AAAAAAG
21049795 AAAAAAG
1 AAAAAAG
*
21049802 GAAAAAG
1 AAAAAAG
21049809 GGTTGTGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
6 3 0.07
7 25 0.57
8 16 0.36
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:21049786 original size:24 final size:23
Alignment explanation
Indices: 21049750--21049800 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 23
21049740 AAAAGGAAGG
21049750 AAAAAAAGGAAAAAAG-AAAGAA
1 AAAAAAAGGAAAAAAGAAAAGAA
21049772 AAAAAAAGAGAAAAAGAGAAAAGAA
1 AAAAAAAG-GAAAAA-AGAAAAGAA
21049797 AAAA
1 AAAA
21049801 GGAAAAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 2 0.08
25 10 0.38
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAAAAAGGAAAAAAGAAAAGAA
Found at i:21049805 original size:13 final size:13
Alignment explanation
Indices: 21049737--21049806 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 13
21049727 GCCCAGTCCC
*
21049737 GAAAAAAGG-AAG
1 GAAAAAAGGAAAA
21049749 GAAAAAAAGGAAAAAA
1 G-AAAAAAGG--AAAA
**
21049765 GAAAGAAAAAAAAA
1 GAAA-AAAGGAAAA
21049779 GAGAAAAAGAGAAAA
1 GA-AAAAAG-GAAAA
21049794 GAAAAAAGGAAAA
1 GAAAAAAGGAAAA
21049807 AGGGTTGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
12 1 0.02
13 13 0.28
14 15 0.33
15 11 0.24
16 6 0.13
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAAAAAGGAAAA
Found at i:21061916 original size:158 final size:158
Alignment explanation
Indices: 21061755--21062639 Score: 1195
Period size: 158 Copynumber: 5.6 Consensus size: 158
21061745 ATTTCTGTTT
*
21061755 TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTAT
1 TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATACCGAGGTAT
* **
21061820 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC-GAACA
65 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
21061884 CATGCCGAGGTATTTTTTTTAATTTCTT-
130 CATGCTGAGGTATTTTTTTTAATTTCTTG
*** * *
21061912 TTTTTCAAAAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGACATATACCGAGGTA
1 TTTTT-TTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATACCGAGGTA
21061977 TTTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
64 TTTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
* *
21062042 ACACGCTGAGGTA-TTTTTTAAATTTC-TG
129 ACATGCTGAGGTATTTTTTTTAATTTCTTG
* **
21062070 TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGATATAT
1 TTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATACCGAGGTAT
* *
21062135 TTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGTC
65 TT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
* *
21062200 ACATGCTGAGGTATTTTTTTAAATTT-ATG
129 ACATGCTGAGGTATTTTTTTTAATTTCTTG
* * * *
21062229 TTTTTTGCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCGGACACATGCCAAGGTATT
1 TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATACCGAGGTATT
* *
21062294 CTTTT-AATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCAGG
66 TTTTTAAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
21062358 TCACATGCTGAGGTATTTTTTTTAAATTTC-TG
127 TCACATGCTGAGGTATTTTTTTT-AATTTCTTG
* *
21062390 TTTTTTTCAAAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTAT
1 TTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATACCGAGGTAT
*
21062455 TTCTTTTAAATTTCCGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
65 TT-TTTTAAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
21062520 GTCACACGAC-GAGGTA--TTTTTTAATTTCTTTT
126 GTCACATG-CTGAGGTATTTTTTTTAATTTC-TTG
* *
21062552 TTTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACA-AGCCGAGGTA
1 TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATA-CCGAGGTA
* *
21062615 --TTTTTCAATTTCTATTTTTCAAAAA
64 TTTTTTTAAATTTCTGTTTTTCAAAAA
21062640 AAAAAAGGAA
Statistics
Matches: 657, Mismatches: 49, Indels: 46
0.87 0.07 0.06
Matches are distributed among these distances:
155 5 0.01
156 13 0.02
157 58 0.09
158 242 0.37
159 67 0.10
160 103 0.16
161 33 0.05
162 63 0.10
163 59 0.09
164 14 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (158 bp):
TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATACCGAGGTATT
TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
ATGCTGAGGTATTTTTTTTAATTTCTTG
Found at i:21061973 original size:81 final size:79
Alignment explanation
Indices: 21061755--21062640 Score: 1120
Period size: 81 Copynumber: 11.2 Consensus size: 79
21061745 ATTTCTGTTT
* *
21061755 TTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTA
1 TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTA
21061819 TTTTTTTAAATTTC
66 TTTTTTTAAATTTC
* * **
21061833 TGTTTTTC-AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC-GAACACATGCCGAGGTA
1 TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTA
*
21061896 TTTTTTTTAATTTC
66 TTTTTTTAAATTTC
* * * *
21061910 TTTTTTTCAAAAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGACATATACCGAG
1 TTTTTTTC--AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAG
21061974 GTATTTTTTTAAATTTC
63 GTATTTTTTTAAATTTC
* * *
21061991 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA
1 TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTA
21062055 -TTTTTTAAATTTC
66 TTTTTTTAAATTTC
* **
21062068 TGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGATA
1 --TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGG
21062132 TATTTCTTTTAAATTTC
64 TATTT-TTTTAAATTTC
* * *
21062149 TATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGTCACATGCTGAGGTA
1 TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTA
*
21062213 TTTTTTTAAATTTA
66 TTTTTTTAAATTTC
* * *
21062227 TGTTTTTTGC-AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC-GGACACATGCCAAGG
1 T-TTTTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGG
*
21062290 TATTCTTTT-AATTTC
64 TATTTTTTTAAATTTC
* * *
21062305 TGTTTTTCAAAAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCAGGTCACATGCTGAG
1 TTTTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAG
21062370 GTATTTTTTTTAAATTTC
63 GTA-TTTTTTTAAATTTC
* *
21062388 TGTTTTTTTCAAAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGG
1 --TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGG
21062452 TATTTCTTTTAAATTTC
64 TATTT-TTTTAAATTTC
** * *
21062469 CGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGACGAGG
1 TTTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGG
21062534 TA-TTTTTT-AATTTC
64 TATTTTTTTAAATTTC
*** * *
21062548 TTTTTTTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACAAGCCGAGG
1 --TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGG
*
21062613 TA--TTTTTCAATTTC
64 TATTTTTTTAAATTTC
*
21062627 TATTTTTCAAAAAA
1 TTTTTTTCAAAAAA
21062641 AAAAAGGAAT
Statistics
Matches: 708, Mismatches: 71, Indels: 59
0.84 0.08 0.07
Matches are distributed among these distances:
76 1 0.00
77 94 0.13
78 120 0.17
79 137 0.19
80 125 0.18
81 161 0.23
82 57 0.08
83 6 0.01
85 7 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (79 bp):
TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTA
TTTTTTTAAATTTC
Found at i:21062259 original size:238 final size:236
Alignment explanation
Indices: 21061756--21062640 Score: 1180
Period size: 238 Copynumber: 3.7 Consensus size: 236
21061746 TTTCTGTTTT
* **
21061756 TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATT
1 TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTA-T
* *
21061821 TTTTTAAATTTCTG--TTTTTC-AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC-GAA
65 TTTTT-AATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * *
21061882 CACATGCCGAGGTATTTTTTTTAATTTCTTTTTTTCAAAAAAAACTCAACTCATATTGCGAGAAG
129 CACATGCCGAGGTATTTTTTTAAATTTCTATTTTTC--AAAAAA-TCAACTCATATTGCGAGAGG
* *
21061947 TGAGTTGAGCCTCGGACATATACCGAGGTATTTTTTTAAATTTCTG
191 TGAGTTGAGCCTCGGACACATGCCGAGGTATTTTTTTAAATTTCTG
*
21061993 -TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATT
1 TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
21062057 TTTTAAATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC
66 TTTT-AATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
**
21062121 ACATGCCGATATATTTCTTTTAAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGA
130 ACATGCCGAGGTATTT-TTTTAAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
* * * *
21062185 GCTGAGCCTCAGGTCACATGCTGAGGTATTTTTTTAAATTTATG
194 GTTGAGCCTC-GGACACATGCCGAGGTATTTTTTTAAATTTCTG
* * * *
21062229 TTTTTTGCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC-GGACACATGCCAAGGTAT
1 TTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
*** *
21062293 TCTTTTAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCAGG
65 T-TTTTAATTTCTGTTTTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * * *
21062358 TCACATGCTGAGGTATTTTTTTTAAATTTCTGTTTTTTTCAAAAAATGAACTCATATTGCGAGAG
128 ACACATGCCGAGGTA-TTTTTTTAAATTTC--TATTTTTCAAAAAATCAACTCATATTGCGAGAG
*
21062423 GTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAATTTCCG
190 GTGAGTTGAGCCTCGGACACATGCCGAGGTATTT-TTTTAAATTTCTG
*
21062471 -TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGACGAGGT
1 TTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGT
* *** *
21062535 ATTTTTTAATTTCTTTTTTTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
63 ATTTTTTAATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
21062600 TCACAAGCCGAGGTA--TTTTTCAATTTCTATTTTTCAAAAAA
128 ACACATGCCGAGGTATTTTTTTAAATTTCTATTTTTCAAAAAA
21062641 AAAAAGGAAT
Statistics
Matches: 575, Mismatches: 54, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
235 46 0.08
236 91 0.16
237 52 0.09
238 134 0.23
239 52 0.09
240 4 0.01
241 30 0.05
242 98 0.17
243 53 0.09
244 15 0.03
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (236 bp):
TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
TTTTAATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CATGCCGAGGTATTTTTTTAAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCGGACACATGCCGAGGTATTTTTTTAAATTTCTG
Found at i:21062921 original size:59 final size:58
Alignment explanation
Indices: 21062855--21062984 Score: 188
Period size: 59 Copynumber: 2.2 Consensus size: 58
21062845 AAAATAAAAT
* * **
21062855 ATTATATTTTGACCCTTAAACTTCTTGAAATCACATTTTGACCCCTAATTTTTTCTAAA
1 ATTATATTTTGACCCTTAAAATTCTTGAAATCACATTTTGACCCATAAACTTTTC-AAA
* *
21062914 ATTATATTTTGACCCTTAAAATTTTTGAAATTACATTTTGACCCATAAACTTTTCAAA
1 ATTATATTTTGACCCTTAAAATTCTTGAAATCACATTTTGACCCATAAACTTTTCAAA
*
21062972 ATTACATTTTGAC
1 ATTATATTTTGAC
21062985 TCCTAAATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 15 0.23
59 49 0.77
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (58 bp):
ATTATATTTTGACCCTTAAAATTCTTGAAATCACATTTTGACCCATAAACTTTTCAAA
Found at i:21062925 original size:30 final size:30
Alignment explanation
Indices: 21062855--21063017 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 30
21062845 AAAATAAAAT
* * * * *
21062855 ATTATATTTTGACCCTTAAACTTCT-TGAA
1 ATTACATTTTGACCCCTAAAATTTTCTAAA
* **
21062884 ATCACATTTTGACCCCTAATTTTTTCTAAA
1 ATTACATTTTGACCCCTAAAATTTTCTAAA
* * *
21062914 ATTATATTTTGACCCTTAAAATTTT-TGAA
1 ATTACATTTTGACCCCTAAAATTTTCTAAA
* *
21062943 ATTACATTTTGACCCATAAACTTTTC-AAA
1 ATTACATTTTGACCCCTAAAATTTTCTAAA
*
21062972 ATTACATTTTGACTCCT-AAATTTTCTCAAA
1 ATTACATTTTGACCCCTAAAATTTTCT-AAA
* *
21063002 ATTATATTTTGGCCCC
1 ATTACATTTTGACCCC
21063018 AGAAGTTTTG
Statistics
Matches: 107, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
28 7 0.07
29 61 0.57
30 39 0.36
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.44
Consensus pattern (30 bp):
ATTACATTTTGACCCCTAAAATTTTCTAAA
Found at i:21063004 original size:59 final size:59
Alignment explanation
Indices: 21062855--21063012 Score: 169
Period size: 59 Copynumber: 2.7 Consensus size: 59
21062845 AAAATAAAAT
* * * * * * **
21062855 ATTATATTTTGACCCTTAAACTTCTTGAAATCACATTTTGACCCCTAATTTTTTCTAAA
1 ATTACATTTTGACCCTTAAAATTTTTAAAATTACATTTTGACCCATAAACTTTTCTAAA
* *
21062914 ATTATATTTTGACCCTTAAAATTTTTGAAATTACATTTTGACCCATAAACTTTTC-AAA
1 ATTACATTTTGACCCTTAAAATTTTTAAAATTACATTTTGACCCATAAACTTTTCTAAA
*
21062972 ATTACATTTTGACTCC-T-AAATTTTCTCAAAATTATATTTTG
1 ATTACATTTTGAC-CCTTAAAATTTT-T-AAAATTACATTTTG
21063013 GCCCCAGAAG
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
57 7 0.08
58 17 0.20
59 63 0.72
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (59 bp):
ATTACATTTTGACCCTTAAAATTTTTAAAATTACATTTTGACCCATAAACTTTTCTAAA
Found at i:21063269 original size:16 final size:16
Alignment explanation
Indices: 21063244--21063284 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
21063234 TTTTTCGAAA
*
21063244 AAAGAGAAGAGAAAAG
1 AAAGAAAAGAGAAAAG
21063260 AAAGAAAAGA-AAAAG
1 AAAGAAAAGAGAAAAG
21063275 AAA-AAAAGAG
1 AAAGAAAAGAG
21063285 GAGAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAGAAAAG
Found at i:21063418 original size:19 final size:18
Alignment explanation
Indices: 21063372--21063437 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
21063362 GCTAAGGTTT
21063372 TGAAAAAGAAGAAGGAAGA
1 TGAAAAA-AAGAAGGAAGA
21063391 TGAAGAAAAAGAA-GAAGAA
1 TGAA-AAAAAGAAGGAAG-A
*
21063410 TGGAAAAAA-AAGGAA-A
1 TGAAAAAAAGAAGGAAGA
* *
21063426 AGAAAAAGAGAA
1 TGAAAAAAAGAA
21063438 AAAAAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 7 0.18
17 4 0.10
18 12 0.31
19 13 0.33
20 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (18 bp):
TGAAAAAAAGAAGGAAGA
Found at i:21063612 original size:16 final size:17
Alignment explanation
Indices: 21063580--21063623 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
21063570 AGCAGGCCTA
*
21063580 GCAGG-CCAGCCCAAGC
1 GCAGGCCCAACCCAAGC
21063596 GCAGGCCCAACCC-AGC
1 GCAGGCCCAACCCAAGC
21063612 GCCAGGCCCAAC
1 G-CAGGCCCAAC
21063624 AGCAGGCCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.25, C:0.48, G:0.27, T:0.00
Consensus pattern (17 bp):
GCAGGCCCAACCCAAGC
Found at i:21063736 original size:8 final size:9
Alignment explanation
Indices: 21063718--21063795 Score: 52
Period size: 10 Copynumber: 8.1 Consensus size: 9
21063708 AGAATAAAGG
21063718 AAGGAAAAA
1 AAGGAAAAA
21063727 AAGGAAAAAA
1 AAGG-AAAAA
*
21063737 GAAAGAAAAA
1 -AAGGAAAAA
*
21063747 AAGAAAAAAA
1 AAG-GAAAAA
21063757 AAGAGAAAAGA
1 AAG-GAAAA-A
*
21063768 TGAAAGAAAAA
1 --AAGGAAAAA
21063779 AA-G-AAAA
1 AAGGAAAAA
21063786 AAGGAAAAA
1 AAGGAAAAA
21063795 A
1 A
21063796 GGTCGTGTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
7 6 0.11
8 2 0.04
9 13 0.23
10 23 0.41
11 5 0.09
12 5 0.09
13 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (9 bp):
AAGGAAAAA
Found at i:21063740 original size:7 final size:7
Alignment explanation
Indices: 21063723--21063796 Score: 60
Period size: 7 Copynumber: 10.0 Consensus size: 7
21063713 AAAGGAAGGA
21063723 AAAAAAGG
1 AAAAAA-G
21063731 AAAAAAG
1 AAAAAAG
21063738 AAAGAAA-
1 AAA-AAAG
*
21063745 AAAAGAAA
1 AAAA-AAG
21063753 AAAAAAG
1 AAAAAAG
*
21063760 AGAAAAG
1 AAAAAAG
**
21063767 ATGAAAG
1 AAAAAAG
21063774 AAAAAAAG
1 -AAAAAAG
21063782 AAAAAAGG
1 AAAAAA-G
21063790 AAAAAAG
1 AAAAAAG
21063797 GTCGTGTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
6 1 0.02
7 29 0.53
8 25 0.45
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:21063746 original size:12 final size:12
Alignment explanation
Indices: 21063722--21063784 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 12
21063712 TAAAGGAAGG
*
21063722 AAAA-AAAGGAA
1 AAAAGAAAGAAA
21063733 AAAAGAAAGAAA
1 AAAAGAAAGAAA
21063745 AAAAG-AA-AAA
1 AAAAGAAAGAAA
21063755 AAAAG--AGAAA
1 AAAAGAAAGAAA
* *
21063765 AGATGAAAGAAA
1 AAAAGAAAGAAA
21063777 AAAAGAAA
1 AAAAGAAA
21063785 AAAGGAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 1 0.02
10 14 0.33
11 6 0.14
12 22 0.51
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAGAAAGAAA
Found at i:21063746 original size:20 final size:20
Alignment explanation
Indices: 21063721--21063796 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
21063711 ATAAAGGAAG
21063721 GAAAAAAAGGAAAAAAGAAA
1 GAAAAAAAGGAAAAAAGAAA
21063741 GAAAAAAA-GAAAAAA-AAA
1 GAAAAAAAGGAAAAAAGAAA
* * *
21063759 GAGAAAAGATGAAAGAAAAAAA
1 GA-AAAAAAGGAAA-AAAGAAA
21063781 G-AAAAAAGGAAAAAAG
1 GAAAAAAAGGAAAAAAG
21063797 GTCGTGTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
18 5 0.10
19 15 0.31
20 21 0.44
21 3 0.06
22 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (20 bp):
GAAAAAAAGGAAAAAAGAAA
Found at i:21063773 original size:32 final size:30
Alignment explanation
Indices: 21063722--21063787 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 30
21063712 TAAAGGAAGG
21063722 AAAAAAAGGAAAAAAGAAAGAAAAAAAGAA
1 AAAAAAAGGAAAAAAGAAAGAAAAAAAGAA
*
21063752 AAAAAAAGAGAAAAGATGAAAGAAAAAAAGAA
1 AAAAAAAG-GAAAA-AAGAAAGAAAAAAAGAA
21063784 AAAA
1 AAAA
21063788 GGAAAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 8 0.24
31 5 0.15
32 20 0.61
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (30 bp):
AAAAAAAGGAAAAAAGAAAGAAAAAAAGAA
Found at i:21064725 original size:20 final size:20
Alignment explanation
Indices: 21064700--21064778 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
21064690 CTTTCGAAAC
* *
21064700 AATACAAAAAATTATGATAG
1 AATACAAAAAATTATGAGAA
*
21064720 AATACAAATCAA-TATGAGAA
1 AATACAAA-AAATTATGAGAA
* *
21064740 AATACAAAAAA-TATAAGGA
1 AATACAAAAAATTATGAGAA
* *
21064759 AGTAC-CAAAATTATGAGAA
1 AATACAAAAAATTATGAGAA
21064778 A
1 A
21064779 GTACCAAAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
18 4 0.09
19 19 0.40
20 22 0.47
21 2 0.04
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.20
Consensus pattern (20 bp):
AATACAAAAAATTATGAGAA
Found at i:21064768 original size:19 final size:19
Alignment explanation
Indices: 21064730--21064787 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
21064720 AATACAAATC
* * *
21064730 AATATGAGAAAATACAAAA
1 AATATAAGAAAGTACCAAA
*
21064749 AATATAAGGAAGTACCAAA
1 AATATAAGAAAGTACCAAA
* *
21064768 ATTATGAGAAAGTACCAAA
1 AATATAAGAAAGTACCAAA
21064787 A
1 A
21064788 CTTAGATGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (19 bp):
AATATAAGAAAGTACCAAA
Found at i:21064848 original size:21 final size:19
Alignment explanation
Indices: 21064823--21064896 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
21064813 GAAAACCAAA
21064823 AAAAAATATGAGGAAGTACC
1 AAAAAATATGAGGAA-TACC
21064843 AAAAAATTATGATCGG-ATACC
1 AAAAAA-TATGA--GGAATACC
** *
21064864 AAAAGTTATGAGGGATACC
1 AAAAAATATGAGGAATACC
21064883 AAAAAATATGAGGA
1 AAAAAATATGAGGA
21064897 TGTAAATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
18 2 0.04
19 16 0.36
20 11 0.24
21 13 0.29
22 1 0.02
23 2 0.04
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.19
Consensus pattern (19 bp):
AAAAAATATGAGGAATACC
Found at i:21065085 original size:19 final size:16
Alignment explanation
Indices: 21065041--21065074 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21065031 AGTACAAAAA
21065041 AAAAATATGAGGATGT
1 AAAAATATGAGGATGT
*
21065057 AAAAATATGATGATGT
1 AAAAATATGAGGATGT
21065073 AA
1 AA
21065075 CAAAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAAATATGAGGATGT
Found at i:21065096 original size:58 final size:62
Alignment explanation
Indices: 21064981--21065104 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 62
21064971 AGAATTCCAT
* *
21064981 AAAACATGAGGAAGTATAAAACAATGAGGATGTACCAATAAATTTGAGAAAGTACAAAA-AA
1 AAAACATGAGGAAGTATAAAACAATGAGGATGTAACAATAAATATGAGAAAGTACAAAACAA
* * * *
21065042 AAAATATGAGGATGTA-AAAA-TATGATGATGTAACAA-AAATATGAGAGAA-TACAAAACAA
1 AAAACATGAGGAAGTATAAAACAATGAGGATGTAACAATAAATATGAGA-AAGTACAAAACAA
21065101 AAAA
1 AAAA
21065105 AAAAAAAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
58 16 0.29
59 21 0.38
60 4 0.07
61 14 0.25
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (62 bp):
AAAACATGAGGAAGTATAAAACAATGAGGATGTAACAATAAATATGAGAAAGTACAAAACAA
Found at i:21065217 original size:20 final size:20
Alignment explanation
Indices: 21065192--21065275 Score: 55
Period size: 20 Copynumber: 4.1 Consensus size: 20
21065182 GTACCAAAAA
21065192 ATGAGAAAGAACAAAAAATT
1 ATGAGAAAGAACAAAAAATT
* **
21065212 ATGAG-AGGATACAAAAAAAAAA
1 ATGAGAAAGA-AC--AAAAAATT
*
21065234 ATGA-AAATGTACAAAAAATT
1 ATGAGAAA-GAACAAAAAATT
* * *
21065254 ATGAGGAAGTATAAAAAATT
1 ATGAGAAAGAACAAAAAATT
21065274 AT
1 AT
21065276 AAGAGAATAC
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.06
20 30 0.61
21 2 0.04
22 13 0.27
23 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (20 bp):
ATGAGAAAGAACAAAAAATT
Found at i:21065270 original size:42 final size:42
Alignment explanation
Indices: 21065187--21065271 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
21065177 AGGAAGTACC
*
21065187 AAAAAATGAGAAAGAACAAAAAATTATGAGAGGATACAAAAA
1 AAAAAATGAGAAAGAACAAAAAATTATGAGAAGATACAAAAA
* *
21065229 AAAAAATGA-AAATGTACAAAAAATTATGAGGAAG-TATAAAAA
1 AAAAAATGAGAAA-GAACAAAAAATTATGA-GAAGATACAAAAA
21065271 A
1 A
21065272 TTATAAGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.08
42 32 0.84
43 3 0.08
ACGTcount: A:0.66, C:0.04, G:0.15, T:0.15
Consensus pattern (42 bp):
AAAAAATGAGAAAGAACAAAAAATTATGAGAAGATACAAAAA
Found at i:21070765 original size:15 final size:15
Alignment explanation
Indices: 21070747--21070798 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
21070737 ATTAAAAAAT
21070747 TATAATA-TATAATA
1 TATAATATTATAATA
*
21070761 TTATAAAAATTATAATA
1 -TAT-AATATTATAATA
21070778 TATAATATTATAATA
1 TATAATATTATAATA
21070793 TATAAT
1 TATAAT
21070799 TTTTCTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 20 0.61
16 6 0.18
17 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATATTATAATA
Found at i:21070772 original size:24 final size:24
Alignment explanation
Indices: 21070737--21070790 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
21070727 TTTATTTAAA
21070737 ATTA-AAAAATTATAATATATAAT
1 ATTATAAAAATTATAATATATAAT
21070760 ATTATAAAAATTATAATATATAAT
1 ATTATAAAAATTATAATATATAAT
21070784 ATTATAA
1 ATTATAA
21070791 TATATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTATAAAAATTATAATATATAAT
Found at i:21070816 original size:7 final size:8
Alignment explanation
Indices: 21070745--21070798 Score: 69
Period size: 7 Copynumber: 7.0 Consensus size: 8
21070735 AAATTAAAAA
21070745 ATTATAAT
1 ATTATAAT
21070753 A-TATAAT
1 ATTATAAT
*
21070760 ATTATAAAA
1 ATTAT-AAT
21070769 ATTATAAT
1 ATTATAAT
21070777 A-TATAAT
1 ATTATAAT
21070784 ATTATAAT
1 ATTATAAT
21070792 A-TATAAT
1 ATTATAAT
21070799 TTTTCTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
7 20 0.49
8 14 0.34
9 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
ATTATAAT
Found at i:21071782 original size:58 final size:57
Alignment explanation
Indices: 21071633--21071760 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 57
21071623 ATTTTAATAA
* * * *
21071633 AATTATTATTAAATATATTTTAATAAAAAATAATAAATAATTTAATCATAATTTAACAT
1 AATTATTATTAAATACAATTT-A-AAAAAATAATAAATAATTTAATAACAATTTAACAT
* * * *
21071692 AATTATTATTAAATACAATTTAATAAAATAATAAATAATTTCATAACATTCTTAATAT
1 AATTATTATTAAATACAATTTAAAAAAATAATAAATAATTTAATAACAAT-TTAACAT
21071750 AATTATTATTA
1 AATTATTATTA
21071761 TATGAATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 23 0.38
58 18 0.30
59 19 0.32
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (57 bp):
AATTATTATTAAATACAATTTAAAAAAATAATAAATAATTTAATAACAATTTAACAT
Found at i:21074529 original size:11 final size:12
Alignment explanation
Indices: 21074513--21074555 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
21074503 TATGTTATTT
21074513 TATAATAAAAG-
1 TATAATAAAAGA
21074524 TATAATAAAAGA
1 TATAATAAAAGA
* *
21074536 AATAATAAAAGT
1 TATAATAAAAGA
21074548 TATAATAA
1 TATAATAA
21074556 TAAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (12 bp):
TATAATAAAAGA
Found at i:21074554 original size:15 final size:12
Alignment explanation
Indices: 21074514--21074565 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 12
21074504 ATGTTATTTT
*
21074514 ATAATAAAAG-T
1 ATAATAAAAGAA
21074525 ATAATAAAAGAA
1 ATAATAAAAGAA
21074537 ATAATAAAAGTTATA
1 ATAATAAAAG--A-A
21074552 ATAATAAAAAGAA
1 ATAAT-AAAAGAA
21074565 A
1 A
21074566 GTGGTAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 10 0.29
12 10 0.29
13 2 0.06
14 2 0.06
15 6 0.17
16 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
ATAATAAAAGAA
Found at i:21074976 original size:20 final size:19
Alignment explanation
Indices: 21074932--21074976 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
21074922 TGGACAGGCC
*
21074932 TTTTTTTTGCTACTGCTTT
1 TTTTTTTTACTACTGCTTT
* *
21074951 TGTTTTTTTACTGCTGCTGT
1 T-TTTTTTTACTACTGCTTT
21074971 TTTTTT
1 TTTTTT
21074977 GGGCTGATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.69
Consensus pattern (19 bp):
TTTTTTTTACTACTGCTTT
Found at i:21075111 original size:20 final size:19
Alignment explanation
Indices: 21075082--21075141 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
21075072 TTTATTTTTC
21075082 CTTTTTCTTTCCATTTCTT
1 CTTTTTCTTTCCATTTCTT
21075101 CTTTCTTCTTT-C-TTTCTT
1 CTTT-TTCTTTCCATTTCTT
*
21075119 CTCTTTT-TCTCCATTTGCTT
1 CT-TTTTCTTTCCATTT-CTT
21075139 CTT
1 CTT
21075142 CTCCTTCGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
19 11 0.31
20 11 0.31
ACGTcount: A:0.03, C:0.28, G:0.02, T:0.67
Consensus pattern (19 bp):
CTTTTTCTTTCCATTTCTT
Found at i:21075127 original size:11 final size:12
Alignment explanation
Indices: 21075097--21075128 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21075087 TCTTTCCATT
21075097 TCTTCTTTCTTC
1 TCTTCTTTCTTC
21075109 T-TTCTTTCTTC
1 TCTTCTTTCTTC
21075120 TCTT-TTTCT
1 TCTTCTTTCT
21075129 CCATTTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 16 0.84
12 3 0.16
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTTCTTTCTTC
Found at i:21075277 original size:12 final size:12
Alignment explanation
Indices: 21075230--21075279 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
21075220 TCCCTTATTT
21075230 TTTTTCTTTT-C
1 TTTTTCTTTTGC
*
21075241 TTTCTTC-TTTAC
1 TTT-TTCTTTTGC
*
21075253 TATTTCTTTTTGC
1 TTTTTC-TTTTGC
21075266 TTTTTCTTTTGC
1 TTTTTCTTTTGC
21075278 TT
1 TT
21075280 GCTGCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 9 0.28
12 14 0.44
13 9 0.28
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTTGC
Found at i:21075624 original size:30 final size:29
Alignment explanation
Indices: 21075589--21075753 Score: 177
Period size: 29 Copynumber: 5.6 Consensus size: 29
21075579 TAAATACAGT
* *
21075589 AAAATTTTTGGGGTCAAAACGTAATTTTG
1 AAAATTTTAGGGGTCAAAATGTAATTTTG
* * *
21075618 AGAAATTTCAAGGGTCAAAATGTAATTTAG
1 A-AAATTTTAGGGGTCAAAATGTAATTTTG
* **
21075648 AAAAGTTTAGGGGTTGAAATGTAATTTTG
1 AAAATTTTAGGGGTCAAAATGTAATTTTG
**
21075677 AAAATTTTAGGGGTTGAAATGTAATTTTG
1 AAAATTTTAGGGGTCAAAATGTAATTTTG
* * *
21075706 AAAGAGTTTAAGGGTCAAAATGTAATTTTA
1 AAA-ATTTTAGGGGTCAAAATGTAATTTTG
**
21075736 AAAAAATTAGGGGTCAAA
1 AAAATTTTAGGGGTCAAA
21075754 TTGCAAATTT
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
29 66 0.58
30 48 0.42
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (29 bp):
AAAATTTTAGGGGTCAAAATGTAATTTTG
Found at i:21075746 original size:59 final size:58
Alignment explanation
Indices: 21075599--21075753 Score: 184
Period size: 59 Copynumber: 2.6 Consensus size: 58
21075589 AAAATTTTTG
* * * *
21075599 GGGTCAAAACGTAATTTTGAGAAATTTCAAGGGTCAAAATGTAATTTAGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGAAAAATTT-AGGGGTCAAAATGTAATTTAGAAAAGTTTAA
** * ** *
21075658 GGGTTGAAATGTAATTTTGAAAATTTTAGGGGTTGAAATGTAATTTTGAAAGAGTTTAA
1 GGGTCAAAATGTAATTTTGAAAAATTTAGGGGTCAAAATGTAATTTAGAAA-AGTTTAA
* *
21075717 GGGTCAAAATGTAATTTTAAAAAAATTAGGGGTCAAA
1 GGGTCAAAATGTAATTTTGAAAAATTTAGGGGTCAAA
21075754 TTGCAAATTT
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
58 20 0.26
59 58 0.74
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (58 bp):
GGGTCAAAATGTAATTTTGAAAAATTTAGGGGTCAAAATGTAATTTAGAAAAGTTTAA
Found at i:21076593 original size:305 final size:304
Alignment explanation
Indices: 21075939--21078211 Score: 2540
Period size: 305 Copynumber: 7.5 Consensus size: 304
21075929 GAATAGCTTG
* *
21075939 GCGTGCGA-CCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 GCGTG-GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATT--
* * * * *
21076003 AAATAATACCTCGGCATGCGACCCGAAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGA
63 TAA-AATACCTCGGCTTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-
* * *
21076068 AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAACATGA
126 AAAAACAGAAATT-AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* **
21076133 GTTGA-TTTTTGAAAAACAGAAATT-TA-AAATACCTCAGCGTGCGACCCGAGGCTC-ACTCACC
190 GTTGATTTTTTGAAAAACAGAAATTAAAGAAATACCTCAGCGTATGACCCGAGGCTCAACTCACC
*
21076194 TCTCGCAGTATGAGTTGA-TTTTTGAAAAACA-AAATTTAAAATACCTCA
255 TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATACCTCA
* *
21076242 -CGTGGCACCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGATTTTTGCAAAACAAAAATTTA
1 GCGTGG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTA
* *
21076306 AAATACCTCGGCTTGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAA
65 AAATACCTCGGCTTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * * * *
21076368 ATAGAAATTAAAGATACCTCGGTATGTGATCCGATGCTCAACTCACCTCTCGCAATATGAGTTGA
130 ACAGAAATTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
21076433 TTTTTTGAAAAACAGAAATTTAAAAAGAAATACCTCAGCGTACGACCCGAGCCTCAACTCACCTC
195 TTTTTTGAAAAACAGAAA-TT--AAAGAAATACCTCAGCGTATGACCCGAGGCTCAACTCACCTC
*
21076498 TCGCAATATAAGTTGATTTTTTGAAAAACAGAAATTTAAAATACCTCA
257 TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATACCTCA
* *
21076546 GCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGATTTTTGCAAAACAAAAATTTA
1 GCGTG-GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTA
* *
21076611 AAATACCTCGGCTTGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAA
65 AAATACCTCGGCTTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * * * *
21076673 ATAGAAATTAAAGATACCTCGGTATGTGATCCGATGCTCAACTCACCTCTCGCAATATGAGTTGA
130 ACAGAAATTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
21076738 TTTTTTGAAAAACAGAAAATAAAG--ATACCTC-G-GTATGTGACCCGAGGCTCAATTCACCTCT
195 TTTTTTGAAAAACAGAAATTAAAGAAATACCTCAGCGTA--TGACCCGAGGCTCAACTCACCTCT
* * *
21076799 CGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTGAAAATACCTCA
258 CGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAATACCTCA
* * * *
21076848 GCGT-GACTCGAGTG-TCAACTCACCTCTGGCATTATGAGTTGATTTTT-AAAAA-AAAAAATTA
1 GCGTGGACCCGAG-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTA
* *
21076909 AAGATACCTCGG-TAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTG
65 AA-ATACCTCGGCT-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTG
* * *
21076973 AAAAACAGAAATTTAAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAG
126 AAAAACAGAAATTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
21077037 TTGA-TTTTTG-AAAATAGAAATTAAAG--ATACCTC-G-GTATGTGATCCGATGCTCAACTCAC
191 TTGATTTTTTGAAAAACAGAAATTAAAGAAATACCTCAGCGTA--TGACCCGAGGCTCAACTCAC
* * * *
21077096 CTTTCGCAATATGAGTTGATTTTTTGAAAAATAGAAA-ATAAAGATACCTCG
254 CTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-ATACCTCA
** ** * * * *
21077147 GTATGTGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAAC
1 GCGTG-GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAAAAAT
* * * * *
21077212 TAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACTTCTCGCATTATTAGTTGACTTTTTTG
62 TTAAAATACCTCGGCTTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
* * * * *
21077275 AAAAACAGAAATTAAAGATACCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCACAATATGAG
126 AAAAACAGAAATTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
21077340 TTGATTTTTTTTGAAAAATAGAAA-CAGA-AAATACCTCAGC--ATGACCCGAGGCTCAACTCAC
191 TTGA--TTTTTTGAAAAACAGAAATTAAAGAAATACCTCAGCGTATGACCCGAGGCTCAACTCAC
*
21077401 CTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAAGATACCTC-
254 CTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAA-ATACCTCA
* *
21077452 G-GTAAGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA
1 GCGT--G-GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAA
* *
21077516 -TTAAAGATACCTCGG-TATGTGACCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTT
61 TTTAAA-ATACCTCGGCT-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * *
21077579 TTGAAAAATAGAAA-CAGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTA
123 TTGAAAAACAGAAATTA-AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
21077641 TGAGTTGATTTTTTTGAAAAACAGAAATTAAAG--ATACCTC-G-GTAAGTGACCCGAGGCTCAA
187 TGAGTTGA-TTTTTTGAAAAACAGAAATTAAAGAAATACCTCAGCGT-A-TGACCCGAGGCTCAA
* * * * *
21077702 CTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAG-ACTTTAAAAAAATACCTCG
249 CTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTT---AAAATACCTCA
*
21077761 GCGT-GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAAAAATTGA
1 GCGTGGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAAAAATTTA
* * * *
21077825 GAAATACCTCGGCGTGTG-CCCAAGGCTCAACTCACCTCTTGCATTATGAGTTGAATTTTTTGAA
65 -AAATACCTCGGCTTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAA
* * * *
21077889 AAACAGAACTTAAAAAAAACACCTCGGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGA
128 AAACAGAAATT---AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* *
21077954 GTTGATTTTTTGAAAAAAAGAAATTGAA-AAATACCTCAGCG--TGACCCGAGGCTCAACTCACC
190 GTTGATTTTTTGAAAAACAGAAATTAAAGAAATACCTCAGCGTATGACCCGAGGCTCAACTCACC
* * * *
21078016 TCTCGCATTATGAGTTAATTTTTTGAAAAATAGAAATTGAAAAATACCTCA
255 TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-TAAAATACCTCA
* * * * *
21078067 G-GATGTGACTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAGAAAT
1 GCG-TG-GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAAT
* * * * *
21078131 TGAAAATACCTCAGC--ATGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGC
62 TTAAAATACCTCGGCTTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-
21078193 AAAAACAGAAATTGAAAAA
126 AAAAACAGAAATT-AAAAA
21078212 AAATAATTTT
Statistics
Matches: 1725, Mismatches: 157, Indels: 175
0.84 0.08 0.09
Matches are distributed among these distances:
295 49 0.03
296 28 0.02
297 2 0.00
298 23 0.01
299 76 0.04
300 128 0.07
301 124 0.07
302 106 0.06
303 172 0.10
304 91 0.05
305 386 0.22
306 216 0.13
307 126 0.07
308 105 0.06
309 39 0.02
310 52 0.03
311 1 0.00
312 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (304 bp):
GCGTGGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAA
AATACCTCGGCTTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
CAGAAATTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGAAAAACAGAAATTAAAGAAATACCTCAGCGTATGACCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATACCTCA
Found at i:21076977 original size:77 final size:75
Alignment explanation
Indices: 21075947--21078210 Score: 2293
Period size: 77 Copynumber: 29.8 Consensus size: 75
21075937 TGGCGTGCGA
* *
21075947 CCGAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAATAATA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATT---AA-AATA
* *
21076011 CCTCGGCATGCGAC
62 CCTCGGTATGTGAC
* * *
21076025 CCGAAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAAAAATT--AAAATAC
* **
21076090 CTCAGCGTGTGAC
63 CTCGGTATGTGAC
* *
21076103 CCGAGGCTCAACTCACCTCTCGCAACATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-AAAATTAAAATACCT
* ** *
21076167 CAGCGTGCGAC
65 CGGTATGTGAC
* *
21076178 CCGAGGCTC-ACTCACCTCTCGCAGTATGAGTTGA-TTTTTGAAAAACAAAATTTAAAATACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAATACCTC
*
21076241 ---ACGTGGCAC
66 GGTATGT-G-AC
* *
21076250 CCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA-TTTTTGCAAAACAAAAATTTAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAA-TTAAAATACCT
*
21076314 CGGCT-TGTG-T
65 CGG-TATGTGAC
* * *
21076324 CCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAATTAAAGATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAA-ATACCT
*
21076387 CGGTATGTGAT
65 CGGTATGTGAC
* *
21076398 CCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-AAAATT----A-AAA
*
21076463 TACCTCAGCGTA--CGAC
60 TACCTC-G-GTATGTGAC
* * *
21076479 CCGAGCCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAATTTAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-AAAATTAAAATACCT
* ** *
21076544 CAGCGTGCGAC
65 CGGTATGTGAC
* *
21076555 CCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA-TTTTTGCAAAACAAAAATTTAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAA-TTAAAATACCT
*
21076619 CGGCT-TGTG-T
65 CGG-TATGTGAC
* * *
21076629 CCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAATTAAAGATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAA-ATACCT
*
21076692 CGGTATGTGAT
65 CGGTATGTGAC
*
21076703 CCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAA-TAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-AAAATTAAA-ATACC
21076767 TCGGTATGTGAC
64 TCGGTATGTGAC
* * * *
21076779 CCGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAACTGAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACA-AAAATTAAAATAC
* *
21076844 CTCAG--CGTGAC
63 CTCGGTATGTGAC
* * * *
21076855 TCGAGTG-TCAACTCACCTCTGGCATTATGAGTTGA-TTTTT-AAAAAAAAAAATTAAAGATACC
1 CCGAG-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAA-ATACC
*
21076917 TCGGTAAGTGAC
64 TCGGTATGTGAC
* *
21076929 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACA-AAAATTAAAATAC
* *
21076994 CTCGGCATGTG-T
63 CTCGGTATGTGAC
* * *
21077006 CCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAATTAAAGATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAA-ATACCT
*
21077069 CGGTATGTGAT
65 CGGTATGTGAC
* * *
21077080 CCGATGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTGAAAAATAGAAAA-TAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-AAAATTAAA-ATACC
21077144 TCGGTATGTGAC
64 TCGGTATGTGAC
** * * * *
21077156 TTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACA-AAAATTAAAATAC
* *
21077221 CTCAG--CGTGAC
63 CTCGGTATGTGAC
* * * *
21077232 CCGAGGCTCAACTCACTTCTCGCATTATTAGTTGACTTTTTTGAAAAACAGAAATTAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATTAAA-ATACC
*
21077297 TCGGTAAGTGAC
64 TCGGTATGTGAC
* * * *
21077309 CCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAACA-GAAAATA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACA-AAA-ATTAAAATA
* *
21077373 CCTCAGCA--TGAC
62 CCTCGGTATGTGAC
* *
21077385 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATTAAA-ATACC
*
21077450 TCGGTAAGTGAC
64 TCGGTATGTGAC
* *
21077462 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATTAAA-ATACC
21077527 TCGGTATGTGAC
64 TCGGTATGTGAC
* * * *
21077539 CCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAAATAGAAACA-GAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACA-AAA-ATTAAAATAC
* *
21077603 CTCAG--CGTGAC
63 CTCGGTATGTGAC
* *
21077614 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATTAAA-ATACC
*
21077679 TCGGTAAGTGAC
64 TCGGTATGTGAC
* * * * **
21077691 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAGACTTTAAAAAAATA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATT---AAAATA
*
21077756 CCTCGG--CGTGAC
62 CCTCGGTATGTGAC
21077768 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAACAAAAATTGAGAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAAAAATT-A-AAATAC
**
21077832 CTCGGCGTGTG-C
63 CTCGGTATGTGAC
* * * ** *
21077844 CCAAGGCTCAACTCACCTCTTGCATTATGAGTTGAATTTTTTGAAAAACAGAACTTAAAAAAAAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAAACA-AA---AATTAAAAT
** *
21077909 ACCTCGGCGTATGAC
61 ACCTCGGTATGTGAC
21077924 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-AAGAAATTGAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAA-AAATT--AAAATAC
* *
21077988 CTCAG--CGTGAC
63 CTCGGTATGTGAC
* * * *
21077999 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTGAAAAATAGAAATTGAAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATT--AAAATACC
21078064 TCAGG-ATGTGAC
64 TC-GGTATGTGAC
* * * * *
21078076 TCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAGAAATTGAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAATT-AAAATACC
* *
21078141 TCAGCA--TGAC
64 TCGGTATGTGAC
* * *
21078151 TCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGCAAAAACAGAAATTGAAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAAAAATT-AAAA
21078211 AAAATAATTT
Statistics
Matches: 1890, Mismatches: 202, Indels: 192
0.83 0.09 0.08
Matches are distributed among these distances:
70 1 0.00
71 8 0.00
72 44 0.02
73 128 0.07
74 305 0.16
75 298 0.16
76 322 0.17
77 394 0.21
78 203 0.11
79 66 0.03
80 50 0.03
81 65 0.03
82 3 0.00
83 3 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAATACCTC
GGTATGTGAC
Found at i:21077272 original size:152 final size:148
Alignment explanation
Indices: 21075947--21078210 Score: 2471
Period size: 152 Copynumber: 14.9 Consensus size: 148
21075937 TGGCGTGCGA
*
21075947 CCGAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAATAATA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT--AAA-AATA
* * *
21076011 CCTCGGCATGCGACCCGAAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAG
63 CCTCGGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAG
21076076 AAATTGAAAAATACCTCAGCG-TGTGAC
125 AAATT--AAAATACCTC-G-GATGTGAC
* *
21076103 CCGAGGCTCAACTCACCTCTCGCAACATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCT
* *
21076167 CAGCGTGCGACCCGAGGCTC-ACTCACCTCTCGCAGTATGAGTTGA-TTTTTGAAAAACA-AAAT
66 CGGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-
*
21076229 TTAAAATACCTC--ACGTGGCAC
128 TTAAAATACCTCGGATGT-G-AC
* * * *
21076250 CCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA-TTTTTGCAAAACAAAAATTTAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCT
* * *
21076314 CGGCTTGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAAT
66 CGGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
*
21076376 TAAAGATACCTCGGTATGTGAT
129 TAAA-ATACCTCGG-ATGTGAC
*
21076398 CCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT---AA-AAA
* * *
21076463 TACCTCAGCGTACGACCCGAGCCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAAACA
61 TACCTCGGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
*
21076528 GAAATTTAAAATACCTCAGCG-TGCGAC
124 GAAA-TTAAAATACCTC-G-GATGTGAC
* * * *
21076555 CCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA-TTTTTGCAAAACAAAAATTTAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCT
* * *
21076619 CGGCTTGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAAT
66 CGGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
*
21076681 TAAAGATACCTCGGTATGTGAT
129 TAAA-ATACCTCGG-ATGTGAC
* * *
21076703 CCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAATAAAGATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCT
* * *
21076768 CGGTATGTGACCCGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAA
66 CGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAA
* * *
21076833 ACTGAAAATACCTCAG-CGTGAC
127 A-TTAAAATACCTCGGATGTGAC
* * * * * *
21076855 TCGAGTG-TCAACTCACCTCTGGCATTATGAGTTGA-TTTTT-AAAAAAAAAAATTAAAGATACC
1 CCGAG-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACC
* *
21076917 TCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTGAAAAACAGA
65 TCGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGA
*
21076982 AATTTAAAATACCTCGGCATGTG-T
126 AA-TTAAAATACCTCGG-ATGTGAC
* * *
21077006 CCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAATTAAAGATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCT
* * * * * *
21077069 CGGTATGTGATCCGATGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTGAAAAATAGAAAA
66 CGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
21077134 TAAAGATACCTCGGTATGTGAC
129 TAAA-ATACCTCGG-ATGTGAC
** * * *
21077156 TTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTAAAAATAC
* * * *
21077221 CTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCATTATTAGTTGACTTTTTTGAAAAACAGAAA
64 CTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAA
*
21077286 TTAAAGATACCTCGGTAAGTGAC
128 TTAAA-ATACCTCGG-ATGTGAC
* * * *
21077309 CCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAA-CAGAAAATA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTA-AAAATA
* * *
21077373 CCTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAA
63 CCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAA
*
21077438 ATTAAAGATACCTCGGTAAGTGAC
127 ATTAAA-ATACCTCGG-ATGTGAC
* *
21077462 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACC
* * * *
21077527 TCGGTATGTGACCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAAATAGAA
65 TCGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAA
** * *
21077592 ACAGAAAATACCTCAG-CGTGAC
127 A-TTAAAATACCTCGGATGTGAC
* *
21077614 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACC
* * * * *
21077679 TCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAGAC
65 TCGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAA
* *
21077744 TTTAAAAAAATACCTCGG-CGTGAC
127 ATT---AAAATACCTCGGATGTGAC
* *
21077768 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAACAAAAATTGAGAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATT-AAAAATAC
* * * *
21077832 CTCGGCGTGTGCCCAAGGCTCAACTCACCTCTTGCATTATGAGTTGAATTTTTTGAAAAACAGAA
64 CTCGGCGTG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAAACAGAA
* * * *
21077897 CTTAAAAAAAACACCTCGGCGTATGAC
127 ATT----AAAATACCTCGG-ATGTGAC
*
21077924 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAGAAATTGAAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAAATACC
* * * *
21077989 TCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTGAAAAATAGAAATT
65 TCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
21078054 GAAAAATACCTCAGGATGTGAC
130 --AAAATACCTC-GGATGTGAC
* * * * *
21078076 TCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAGAAATTGAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACC
* * * *
21078141 TCAGCATGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGCAAAAACAGAAAT
65 TCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAAT
21078205 TGAAAA
129 T-AAAA
21078211 AAAATAATTT
Statistics
Matches: 1849, Mismatches: 186, Indels: 151
0.85 0.09 0.07
Matches are distributed among these distances:
145 2 0.00
146 21 0.01
147 111 0.06
148 101 0.05
149 88 0.05
150 205 0.11
151 131 0.07
152 371 0.20
153 329 0.18
154 212 0.11
155 73 0.04
156 139 0.08
157 59 0.03
158 6 0.00
159 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (148 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCT
CGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTA
AAATACCTCGGATGTGAC
Found at i:21077393 original size:229 final size:222
Alignment explanation
Indices: 21075947--21078205 Score: 2405
Period size: 229 Copynumber: 9.9 Consensus size: 222
21075937 TGGCGTGCGA
* * *
21075947 CCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA--AAGAA-AATAC
* * *
21076012 CTCGGCATGCGACCCGAAGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTGAAAAAACAG
63 CTCAGCAT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAG
* *
21076076 AAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTT
125 AAATT-AAAAATACCTC-G-GCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
21076141 TTGAAAAACAGAAATTTAAA-ATACCTCAGCG-TGCGAC
187 TTGAAAAACAGAAA-TTAAAGATACCTC-G-GTTGTGAC
* * ***
21076178 CCGAGGCTC-ACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAACA-AAATTTAAAATACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGAAAATACCTC
* * * *
21076241 A-CGTGGCACCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA--TTTTTGCAAAACAAAAAT
66 AGCAT-G-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT
* * *
21076303 TTAAAATACCTCGGCTTGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTG-A
129 TAAAAATACCTCGGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* *
21076366 AAATAGAAATTAAAGATACCTCGGTATGTGAT
192 AAACAGAAATTAAAGATACCTCGGT-TGTGAC
* * *
21076398 CCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAGAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAG-AA---AAAGA-AAA
* * *
21076463 TACCTCAGCGTACGACCCGAGCCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAAAC
60 TACCTCAGC--ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
* * *
21076527 AGAAATTTAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGATT
123 AGAAATTAAAAATACCTCGGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * *
21076592 TTTGCAAAACAAAAATTTAAA-ATACCTCGGCTTGTG-T
186 TTTGAAAAACAGAAA-TTAAAGATACCTCGG-TTGTGAC
* * *
21076629 CCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTG-AAAATAGAAATTA-AAGATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA-AAGAAAATACCT
* * * *
21076692 CGGTATGTGATCCGATGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAA
65 CAGCA--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
* * * *
21076756 ATAAAGATACCTCGGTATGTGACCCGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTT
128 TTAAAAATACCTCGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT
* * * *
21076821 TGAAAAATAGAAACTGAAA-ATACCTCAG-CGTGAC
188 TGAAAAACAGAAA-TTAAAGATACCTCGGTTGTGAC
* * * *
21076855 TCGAGTG-TCAACTCACCTCTGGCATTATGAGTTGATTTTT-AAAAA-A-AAAAATTAAAGATAC
1 CCGAG-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAA-GAAA-ATAC
* * *
21076916 CTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTGAAAAACAG
63 CTCAG-CA-TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAG
* * *
21076981 AAATTTAAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTT
125 AAATTAAAAATACCTCGGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
21077045 TG-AAAATAGAAATTAAAGATACCTCGGTATGTGAT
188 TGAAAAACAGAAATTAAAGATACCTCGGT-TGTGAC
* * *
21077080 CCGATGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTGAAAAATAGAAAATA-AAGATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAAA-AGAAAATACC
* * ** * *
21077144 TCGGTATGTGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAAATAGA
64 TCAGCA--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGA
* * * * *
21077209 AACTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCATTATTAGTTGACTTTTTT
126 AATTAAAAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
*
21077274 GAAAAACAGAAATTAAAGATACCTCGGTAAGTGAC
189 GAAAAACAGAAATTAAAGATACCTCGGT-TGTGAC
* * *
21077309 CCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAACAGAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATAGAAAAAGAAAATAC
*
21077374 CTCAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA
63 CTCAGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
* * *
21077439 TTAAAGATACCTCGGTAAGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTT
128 TTAAAAATACCTCGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
21077504 GAAAAACAGAAATTAAAGATACCTCGGTATGTGAC
189 GAAAAACAGAAATTAAAGATACCTCGGT-TGTGAC
* * *
21077539 CCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAAATAGAAACAGAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATAGAAAAAGAAAATACC
* *
21077604 TCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAAT
64 TCAGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT
* * * *
21077669 TAAAGATACCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTT
129 TAAAAATACCTCGG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
* ** * *
21077734 AAAAGCAGACTTTAAAAAAATACCTCGG-CGTGAC
190 AAAAACAGAAATT--AAAGATACCTCGGTTGTGAC
*
21077768 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-ACAAAAATTGAGAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAA--GA-AAATAC
* * * * * * *
21077832 CTCGGCGTGTGCCCAAGGCTCAACTCACCTCTTGCATTATGAGTTGAATTTTTTGAAAAACAGAA
63 CTCAGCATG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
* *
21077897 CTTAAAAAAAACACCTCGGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
127 ATT---AAAAATACCTCGGCG--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* * * *
21077962 TTTGAAAAAAAGAAATTGAAAAATACCTCAG-CGTGAC
186 TTTGAAAAACAGAAATT-AAAGATACCTCGGTTGTGAC
* * **
21077999 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTGAAAAATAGAAATTGAAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAAAAG-AAAATACC
* * * * *
21078064 TCAGGATGTGACTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAGAA
64 TCAGCA--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
* * * * *
21078129 ATTGAAAATACCTCAGCATGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGCA
127 ATTAAAAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-A
21078194 AAAACAGAAATT
191 AAAACAGAAATT
21078206 GAAAAAAAAT
Statistics
Matches: 1765, Mismatches: 184, Indels: 162
0.84 0.09 0.08
Matches are distributed among these distances:
218 1 0.00
219 6 0.00
220 29 0.02
221 64 0.04
222 31 0.02
223 30 0.02
224 127 0.07
225 79 0.04
226 143 0.08
227 207 0.12
228 88 0.05
229 375 0.21
230 242 0.14
231 186 0.11
232 96 0.05
233 61 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (222 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGAAAATACCTC
AGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTA
AAAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AGAAATTAAAGATACCTCGGTTGTGAC
Found at i:21079070 original size:10 final size:9
Alignment explanation
Indices: 21079049--21079140 Score: 98
Period size: 9 Copynumber: 10.1 Consensus size: 9
21079039 TGATTTTTCA
21079049 TTTTTTGTT
1 TTTTTTGTT
*
21079058 TTTTTTCTGT
1 TTTTTTGT-T
21079068 TTTTTTGTT
1 TTTTTTGTT
21079077 TCTTTTTGTT
1 T-TTTTTGTT
*
21079087 TCTTTCTGTT
1 T-TTTTTGTT
*
21079097 TTTTCTGTT
1 TTTTTTGTT
* *
21079106 TTTTCT-AT
1 TTTTTTGTT
21079114 TTTTTTG-T
1 TTTTTTGTT
21079122 TTTTTTGTT
1 TTTTTTGTT
21079131 TTTTTTGTT
1 TTTTTTGTT
21079140 T
1 T
21079141 GTTTAGGCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
8 14 0.19
9 34 0.46
10 26 0.35
ACGTcount: A:0.01, C:0.07, G:0.10, T:0.83
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:21079073 original size:14 final size:14
Alignment explanation
Indices: 21079056--21079100 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
21079046 TCATTTTTTG
21079056 TTTTT-TTTCTGTT
1 TTTTTCTTTCTGTT
*
21079069 TTTTTGTTTCT-TT
1 TTTTTCTTTCTGTT
21079082 TTGTTTCTTTCTGTT
1 TT-TTTCTTTCTGTT
21079097 TTTT
1 TTTT
21079101 CTGTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.32
14 15 0.54
15 4 0.14
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTCTGTT
Found at i:21085667 original size:18 final size:18
Alignment explanation
Indices: 21085644--21085803 Score: 145
Period size: 17 Copynumber: 8.9 Consensus size: 18
21085634 GAGGGACAAG
21085644 ATTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
*
21085662 ATTTTTG-AAACACTG-GA
1 ATTTTTGAAAACAC-GAAA
*
21085679 A-TTTTGAAAACACGAAG
1 ATTTTTGAAAACACGAAA
* *
21085696 ATTTTTG-AAACATGAGA
1 ATTTTTGAAAACACGAAA
21085713 ATTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
* *
21085731 TTTTTTTTAAAAACAC-AGAA
1 --ATTTTTGAAAACACGA-AA
21085751 ATTTTTG-AAACACGAGAA
1 ATTTTTGAAAACACGA-AA
*
21085769 TTTTTTTTGAAAACACGAAA
1 --ATTTTTGAAAACACGAAA
21085789 ATTTTTG-AAACACGA
1 ATTTTTGAAAACACGA
21085804 TTTTTTTTAA
Statistics
Matches: 116, Mismatches: 14, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.05
17 43 0.37
18 36 0.31
19 1 0.01
20 22 0.19
21 8 0.07
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAA
Found at i:21085751 original size:21 final size:20
Alignment explanation
Indices: 21085714--21085794 Score: 80
Period size: 21 Copynumber: 4.1 Consensus size: 20
21085704 AACATGAGAA
*
21085714 TTTTTGAAAACACGAAATTT
1 TTTTTAAAAACACGAAATTT
21085734 TTTTTAAAAACACAGAAA---
1 TTTTTAAAAACAC-GAAATTT
*
21085752 TTTTT-GAAACACGAGAATTT
1 TTTTTAAAAACACGA-AATTT
*
21085772 TTTTTGAAAACACGAAAATTT
1 TTTTTAAAAACACG-AAATTT
21085793 TT
1 TT
21085795 GAAACACGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
16 2 0.04
17 8 0.16
18 5 0.10
20 17 0.33
21 18 0.35
22 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TTTTTAAAAACACGAAATTT
Found at i:21085810 original size:17 final size:17
Alignment explanation
Indices: 21085752--21085811 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
21085742 AACACAGAAA
21085752 TTTTTGAAACACGAGAATTT
1 TTTTTGAAACAC--G-ATTT
***
21085772 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGATTT
21085790 TTTTTGAAACACGATTT
1 TTTTTGAAACACGATTT
21085807 TTTTT
1 TTTTT
21085812 AAGAAGTACC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 13 0.39
18 7 0.21
19 1 0.03
20 6 0.18
21 6 0.18
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (17 bp):
TTTTTGAAACACGATTT
Found at i:21086098 original size:27 final size:29
Alignment explanation
Indices: 21086068--21086125 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
21086058 TGCCTTATTT
* *
21086068 ATTGAAATT-ATTTAAATTTAAAATA-AA
1 ATTGAAATTAAATTAAATTAAAAATATAA
21086095 ATTGAAATTAAATTAAATTAAAAATATAA
1 ATTGAAATTAAATTAAATTAAAAATATAA
21086124 AT
1 AT
21086126 ACAAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 9 0.33
28 14 0.52
29 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTGAAATTAAATTAAATTAAAAATATAA
Found at i:21086295 original size:16 final size:16
Alignment explanation
Indices: 21086270--21086318 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
21086260 GCAAATTGAA
21086270 TCCC-TTTTTTCTTTT
1 TCCCTTTTTTTCTTTT
21086285 TCCCTTTTTTTTCTTTT
1 TCCC-TTTTTTTCTTTT
*
21086302 T-TCTTTTTCTTCTTTT
1 TCCCTTTTT-TTCTTTT
21086318 T
1 T
21086319 TTTCTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.30
16 9 0.30
17 12 0.40
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TCCCTTTTTTTCTTTT
Found at i:21086309 original size:25 final size:25
Alignment explanation
Indices: 21086273--21086336 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
21086263 AATTGAATCC
21086273 CTTTTTTCTTTTTC-CCTTTTTTTT
1 CTTTTTTCTTTTTCTCCTTTTTTTT
*
21086297 CTTTTTTCTTTTTCTTCTTTTTTTT
1 CTTTTTTCTTTTTCTCCTTTTTTTT
*
21086322 CTCCTTTT-TTTTTCT
1 CT-TTTTTCTTTTTCT
21086337 GCTGGGCTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 14 0.39
25 18 0.50
26 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (25 bp):
CTTTTTTCTTTTTCTCCTTTTTTTT
Found at i:21086664 original size:36 final size:36
Alignment explanation
Indices: 21086595--21086679 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
21086585 TGTTAAAATT
* * *
21086595 TTTATTTTCTTTTTCTTTTTTTCTTTCTATTTCTTC
1 TTTATTTTCTTCTTCTTTCTTTCTTTCTATTTCTCC
*
21086631 TTTATTTT-TTCTTCTTTCTTTCTTCTCTTTTTCTCC
1 TTTATTTTCTTCTTCTTTCTTTCTT-TCTATTTCTCC
21086667 TTT-TTCTTCTTCT
1 TTTATT-TTCTTCT
21086680 CCTTCGGCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 16 0.38
36 22 0.52
37 4 0.10
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (36 bp):
TTTATTTTCTTCTTCTTTCTTTCTTTCTATTTCTCC
Found at i:21087192 original size:30 final size:29
Alignment explanation
Indices: 21087148--21087309 Score: 166
Period size: 29 Copynumber: 5.6 Consensus size: 29
21087138 GTAAATGCAG
* * *
21087148 TAAAAGTTTT-AGGGTCGAAACGTAATTT
1 TAAAAATTTTAAGGGTTGAAATGTAATTT
*
21087176 TAAGAAATTTTAAGGGTTAAAATGTAA-TT
1 TAA-AAATTTTAAGGGTTGAAATGTAATTT
* *
21087205 TAGAAAAGTTTAGGGGTTGAAATGTAATTT
1 TA-AAAATTTTAAGGGTTGAAATGTAATTT
* *
21087235 TGAAAATTTTAGGGGTTGAAATGTAATTT
1 TAAAAATTTTAAGGGTTGAAATGTAATTT
* **
21087264 TAAAATAGTTTAAGGGTCAAAATGTAATTT
1 TAAAA-ATTTTAAGGGTTGAAATGTAATTT
* *
21087294 TAAAAAATTTAGGGGT
1 TAAAAATTTTAAGGGT
21087310 CAAAATGCAA
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
28 3 0.03
29 69 0.61
30 41 0.36
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (29 bp):
TAAAAATTTTAAGGGTTGAAATGTAATTT
Found at i:21087221 original size:29 final size:29
Alignment explanation
Indices: 21087169--21087316 Score: 172
Period size: 29 Copynumber: 5.0 Consensus size: 29
21087159 GGGTCGAAAC
* *
21087169 GTAATTTTAAGAAATTTTAAGGGTTAAAAT
1 GTAATTTTAA-AAAGTTTAGGGGTTAAAAT
*
21087199 GTAA-TTTAGAAAAGTTTAGGGGTTGAAAT
1 GTAATTTTA-AAAAGTTTAGGGGTTAAAAT
* * *
21087228 GTAATTTTGAAAATTTTAGGGGTTGAAAT
1 GTAATTTTAAAAAGTTTAGGGGTTAAAAT
* *
21087257 GTAATTTTAAAATAGTTTAAGGGTCAAAAT
1 GTAATTTTAAAA-AGTTTAGGGGTTAAAAT
* *
21087287 GTAATTTTAAAAAATTTAGGGGTCAAAAT
1 GTAATTTTAAAAAGTTTAGGGGTTAAAAT
21087316 G
1 G
21087317 CAAATTTTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
29 70 0.68
30 33 0.32
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (29 bp):
GTAATTTTAAAAAGTTTAGGGGTTAAAAT
Found at i:21087232 original size:59 final size:57
Alignment explanation
Indices: 21087149--21087316 Score: 203
Period size: 59 Copynumber: 2.9 Consensus size: 57
21087139 TAAATGCAGT
* *
21087149 AAAAGTTTTAGGGTCGAAACGTAATTTTAAGAAATTTTAAGGGTTAAAATGTAA-TTTA
1 AAAAG-TTTAGGGTCGAAATGTAATTTTAA-AAATTTTAGGGGTTAAAATGTAATTTTA
* * *
21087207 GAAAAGTTTAGGGGTTGAAATGTAATTTTGAAAATTTTAGGGGTTGAAATGTAATTTTA
1 -AAAAGTTTA-GGGTCGAAATGTAATTTTAAAAATTTTAGGGGTTAAAATGTAATTTTA
* * *
21087266 AAATAGTTTAAGGGTCAAAATGTAATTTTAAAAAATTTAGGGGTCAAAATG
1 AAA-AGTTT-AGGGTCGAAATGTAATTTTAAAAATTTTAGGGGTTAAAATG
21087317 CAAATTTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
58 28 0.30
59 65 0.69
60 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (57 bp):
AAAAGTTTAGGGTCGAAATGTAATTTTAAAAATTTTAGGGGTTAAAATGTAATTTTA
Found at i:21087286 original size:88 final size:88
Alignment explanation
Indices: 21087149--21087309 Score: 229
Period size: 88 Copynumber: 1.8 Consensus size: 88
21087139 TAAATGCAGT
* * *
21087149 AAAAGTTTTAGGGTCGAAACGTAATTTTAAGAAATTTTAAGGGTTAAAATGTAA-TTTAGAAAAG
1 AAAAGTTTTAGGGTCGAAACGTAATTTTAAGAAAGTTTAAGGGTCAAAATGTAATTTTA-AAAAA
21087213 TTTAGGGGTTGAAATGTAATTTTG
65 TTTAGGGGTTGAAATGTAATTTTG
* *
21087237 AAAA-TTTTAGGGGTTGAAATGTAATTTTAA-AATAGTTTAAGGGTCAAAATGTAATTTTAAAAA
1 AAAAGTTTTA-GGGTCGAAACGTAATTTTAAGAA-AGTTTAAGGGTCAAAATGTAATTTTAAAAA
21087300 ATTTAGGGGT
64 ATTTAGGGGT
21087310 CAAAATGCAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
87 7 0.11
88 54 0.83
89 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (88 bp):
AAAAGTTTTAGGGTCGAAACGTAATTTTAAGAAAGTTTAAGGGTCAAAATGTAATTTTAAAAAAT
TTAGGGGTTGAAATGTAATTTTG
Found at i:21089005 original size:24 final size:24
Alignment explanation
Indices: 21088961--21089006 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
21088951 TGGATTGTAA
21088961 TTTGAGTTATAAGTATAATGTTGG
1 TTTGAGTTATAAGTATAATGTTGG
21088985 TTTGAGTATATAAGTAT-ATGTT
1 TTTGAGT-TATAAGTATAATGTT
21089007 TATGTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (24 bp):
TTTGAGTTATAAGTATAATGTTGG
Found at i:21095600 original size:15 final size:17
Alignment explanation
Indices: 21095564--21095601 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
21095554 ATGTTTTGAA
*
21095564 ACTCACATGGCCGTGTG
1 ACTCACATGGCCGTGAG
21095581 ACTCACATGG-C-TGAG
1 ACTCACATGGCCGTGAG
21095596 ACTCAC
1 ACTCAC
21095602 GCCCGTGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (17 bp):
ACTCACATGGCCGTGAG
Found at i:21101556 original size:27 final size:27
Alignment explanation
Indices: 21101515--21101576 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
21101505 TTGTTACAAC
**
21101515 TATTCTTTTAGAGTTCGCCATGAAGGT
1 TATTCTTTTAGAGTTCGCCACAAAGGT
**
21101542 TATTCTTTTTTAGTTCGCCACAAAGGT
1 TATTCTTTTAGAGTTCGCCACAAAGGT
21101569 TATTCTTT
1 TATTCTTT
21101577 CATGTCATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (27 bp):
TATTCTTTTAGAGTTCGCCACAAAGGT
Found at i:21102327 original size:49 final size:49
Alignment explanation
Indices: 21102253--21102348 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
21102243 GAAACTACTG
* *
21102253 ATTTACATATTCTACCATCCTGGGTGGCCTGACAATGATGGTTTTCACT
1 ATTTACATATTCTACCATCCTGGGTGGCCTGACAACGATGATTTTCACT
21102302 ATTTACATATTCTACCATTCC-GGGTGGCCTGACAACGATGATTTTCA
1 ATTTACATATTCTACCA-TCCTGGGTGGCCTGACAACGATGATTTTCA
21102349 ATAACTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 41 0.93
50 3 0.07
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (49 bp):
ATTTACATATTCTACCATCCTGGGTGGCCTGACAACGATGATTTTCACT
Found at i:21110286 original size:17 final size:17
Alignment explanation
Indices: 21110264--21110297 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21110254 AACTTTATGA
21110264 AAAAAAAAATATTGTAG
1 AAAAAAAAATATTGTAG
**
21110281 AAAAAAATTTATTGTAG
1 AAAAAAAAATATTGTAG
21110298 CCATTCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
AAAAAAAAATATTGTAG
Found at i:21110487 original size:22 final size:22
Alignment explanation
Indices: 21110455--21110499 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21110445 ACTTATTAAA
21110455 ATTTTTAAAAATTAAAAACATT
1 ATTTTTAAAAATTAAAAACATT
* *
21110477 ATTTTTTAAAATTAAAATCATT
1 ATTTTTAAAAATTAAAAACATT
21110499 A
1 A
21110500 AAATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTTAAAAATTAAAAACATT
Found at i:21112712 original size:2 final size:2
Alignment explanation
Indices: 21112705--21112732 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21112695 AAAACATAAA
21112705 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
21112733 CAAATTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21112990 original size:20 final size:20
Alignment explanation
Indices: 21112967--21113014 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21112957 GATAAATTTA
21112967 AAAAAATATGA-AGAAATACC
1 AAAAAATATGAGAG-AATACC
* *
21112987 AAAAATTTTGAGAGAATACC
1 AAAAAATATGAGAGAATACC
21113007 AAAAAATA
1 AAAAAATA
21113015 AAAGAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (20 bp):
AAAAAATATGAGAGAATACC
Found at i:21113678 original size:39 final size:37
Alignment explanation
Indices: 21113635--21113748 Score: 113
Period size: 39 Copynumber: 3.0 Consensus size: 37
21113625 ATTTATAAGA
*
21113635 AAGTACCAAAATTTATGAGCGAATACAAAAAGAATGAGG
1 AAGTACCAAAAATTATGAG-GAATACAAAAA-AATGAGG
* ** * *
21113674 AAGTACCAAAAGTTATGAGG-ATGTAAATATATGAGG
1 AAGTACCAAAAATTATGAGGAATACAAAAAAATGAGG
* *
21113710 ATGCACCAAAAATTATGAGGGAATACAAAAAATATGAGG
1 AAGTACCAAAAATTATGA-GGAATACAAAAAA-ATGAGG
21113749 GGATACTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
36 21 0.35
37 8 0.13
38 7 0.12
39 24 0.40
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (37 bp):
AAGTACCAAAAATTATGAGGAATACAAAAAAATGAGG
Found at i:21113691 original size:20 final size:20
Alignment explanation
Indices: 21113612--21113694 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
21113602 AAAAAATACA
* * *
21113612 AGGAAGTACCCAAATTTATA
1 AGGAAGTACCAAAAGTTATG
* *
21113632 AGAAAGTACCAAAATTTATG
1 AGGAAGTACCAAAAGTTATG
* *
21113652 AGCGAA-TACAAAAAG-AATG
1 AG-GAAGTACCAAAAGTTATG
21113671 AGGAAGTACCAAAAGTTATG
1 AGGAAGTACCAAAAGTTATG
21113691 AGGA
1 AGGA
21113695 TGTAAATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
18 3 0.06
19 13 0.25
20 33 0.65
21 2 0.04
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.19
Consensus pattern (20 bp):
AGGAAGTACCAAAAGTTATG
Found at i:21113740 original size:20 final size:19
Alignment explanation
Indices: 21113716--21113764 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
21113706 GAGGATGCAC
*
21113716 CAAAAATTATGAGGGAATA
1 CAAAAAATATGAGGGAATA
*
21113735 CAAAAAATATGAGGGGATA
1 CAAAAAATATGAGGGAATA
21113754 CTAAAAAATAT
1 C-AAAAAATAT
21113765 TAGAAAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.20
Consensus pattern (19 bp):
CAAAAAATATGAGGGAATA
Found at i:21113795 original size:20 final size:20
Alignment explanation
Indices: 21113714--21113801 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
21113704 ATGAGGATGC
* *
21113714 ACCAAAAATTATGAGGGAAT
1 ACCAAAAAATATGAGAGAAT
* *
21113734 A-CAAAAAATATGAGGGGAT
1 ACCAAAAAATATGAGAGAAT
* *
21113753 ACTAAAAAATATTAGA-AAGT
1 ACCAAAAAATATGAGAGAA-T
*
21113773 ACCAAAAATTATGAGAGAAT
1 ACCAAAAAATATGAGAGAAT
21113793 ACCATAAAA
1 ACCA-AAAA
21113802 CTTGAGGAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 18 0.33
20 31 0.56
21 6 0.11
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (20 bp):
ACCAAAAAATATGAGAGAAT
Found at i:21113818 original size:59 final size:59
Alignment explanation
Indices: 21113714--21113834 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 59
21113704 ATGAGGATGC
* * * *
21113714 ACCAAAAATTATGAGGGAATACAAAAAATATGAGGGGATACTAAAAAATATTAGAAAGT
1 ACCAAAAATTATGAGAGAATACAAAAAATATGAGGAGATACTAAAAAAAATGAGAAAGT
* *
21113773 ACCAAAAATTATGAGAGAATACCATAAAACT-TGAGGA-AGTA-TAAAAAAAATGAGAATGT
1 ACCAAAAATTATGAGAGAATA-CA-AAAAATATGAGGAGA-TACTAAAAAAAATGAGAAAGT
21113832 ACC
1 ACC
21113835 GATAATTTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 39 0.74
60 9 0.17
61 5 0.09
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (59 bp):
ACCAAAAATTATGAGAGAATACAAAAAATATGAGGAGATACTAAAAAAAATGAGAAAGT
Found at i:21113927 original size:153 final size:154
Alignment explanation
Indices: 21113659--21113987 Score: 407
Period size: 153 Copynumber: 2.1 Consensus size: 154
21113649 ATGAGCGAAT
* * * * * *
21113659 ACAAAAAGAATGAGGAAGTACC-AAAAGTTATGAGGATGTAAATATATGAGGATGCACCAAAAAT
1 ACAAAAAAAATGAGAAAGTACCGATAA-TT-TGAGGACGTAAAAATATGAGGATGCACCAAAAAA
* * * *
21113723 TATGAGGGAATACAAAAAATATGAGGGGATACTAAAAAATATTAGAAAGTACCAAAAATTATGAG
64 TATGAGAGAATACAAAAAACACGAGGGGATACTAAAAAATATGAGAAAGTACCAAAAATTATGAG
21113788 AGAATACCATAAAACTTGAGGAAGT-
129 AGAATACCATAAAACTTGAGGAAGTG
* * * *
21113813 ATAAAAAAAATGAGAATGTACCGATAATTTGAGGACGTAAAAATATGATGATGTA-CAAAAAATA
1 ACAAAAAAAATGAGAAAGTACCGATAATTTGAGGACGTAAAAATATGAGGATGCACCAAAAAATA
* * * *
21113877 TGAGAGAATGCCAAAAAAACACGAGGGGATA-TTAAAAATATGATG-AAGTACTAAACATTATGA
66 TGAGAGAAT-AC-AAAAAACACGAGGGGATACTAAAAAATATGA-GAAAGTACCAAAAATTATGA
21113940 GAGAATACCATAAAACTTGAGGAAGTG
128 GAGAATACCATAAAACTTGAGGAAGTG
*
21113967 CCAAAAAAAATGAGAAAGTAC
1 ACAAAAAAAATGAGAAAGTAC
21113988 AAAAAATTAT
Statistics
Matches: 149, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
152 16 0.11
153 75 0.50
154 55 0.37
155 3 0.02
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.20
Consensus pattern (154 bp):
ACAAAAAAAATGAGAAAGTACCGATAATTTGAGGACGTAAAAATATGAGGATGCACCAAAAAATA
TGAGAGAATACAAAAAACACGAGGGGATACTAAAAAATATGAGAAAGTACCAAAAATTATGAGAG
AATACCATAAAACTTGAGGAAGTG
Found at i:21114694 original size:34 final size:33
Alignment explanation
Indices: 21114656--21114754 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
21114646 GTACACATTA
* *
21114656 CCAGAAAAATATGTCAAATCAAAATGTCATATTT
1 CCAGAAACATAT-ACAAATCAAAATGTCATATTT
* *
21114690 CCAGAAACATATACTAGATTAAAATGTCATATTT
1 CCAGAAACATATAC-AAATCAAAATGTCATATTT
* * *
21114724 TCAGAAACATATACCATAGCAAAATGTCATA
1 CCAGAAACATATA-CAAATCAAAATGTCATA
21114755 ACATATCAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.02
34 53 0.96
35 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.28
Consensus pattern (33 bp):
CCAGAAACATATACAAATCAAAATGTCATATTT
Found at i:21119736 original size:33 final size:33
Alignment explanation
Indices: 21119677--21119740 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
21119667 CTACCACAGT
*
21119677 CCAACTATGGCCTTACATCCATAATGCCATAAC
1 CCAACTATGGCCTTACATCCAGAATGCCATAAC
* *
21119710 CCAATTATGGTCTTATCAT-CAGAATGCCATA
1 CCAACTATGGCCTTA-CATCCAGAATGCCATA
21119741 GCGAGCTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (33 bp):
CCAACTATGGCCTTACATCCAGAATGCCATAAC
Found at i:21122512 original size:19 final size:20
Alignment explanation
Indices: 21122461--21122513 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
21122451 AAAATATGAA
21122461 AATGTACAAAAAATTACGAGGG
1 AATGTA-AAAAAATTACGA-GG
*
21122483 AATTTAAAAAAATTACGA-G
1 AATGTAAAAAAATTACGAGG
*
21122502 AATGTATAAAAA
1 AATGTAAAAAAA
21122514 CTATGAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.39
21 12 0.43
22 5 0.18
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTAAAAAAATTACGAGG
Found at i:21124483 original size:2 final size:2
Alignment explanation
Indices: 21124478--21124509 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
21124468 ATATGTGTGG
*
21124478 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21124510 GTGTATGAAT
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):
AT
Found at i:21130811 original size:4 final size:4
Alignment explanation
Indices: 21130787--21130826 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
21130777 GACATTTTGG
* **
21130787 TTTA TTTG TTTA TGCA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
21130827 CCAATTTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:21150610 original size:12 final size:12
Alignment explanation
Indices: 21150593--21150622 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
21150583 GAGGATGACC
21150593 AAAAGAAGAAAA
1 AAAAGAAGAAAA
21150605 AAAAGAAGAAAA
1 AAAAGAAGAAAA
21150617 ACAAAG
1 A-AAAG
21150623 CTGTTACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAAA
Found at i:21162851 original size:33 final size:33
Alignment explanation
Indices: 21162814--21162878 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
21162804 CCTTCCCTTT
*
21162814 TCCATA-AGGTAGAAAGCTGGTTTTTGTCATTTC
1 TCCATAGA-GTAGAAAGCTGGGTTTTGTCATTTC
*
21162847 TCCATAGAGTAGAAAGTTGGGTTTTGTCATTT
1 TCCATAGAGTAGAAAGCTGGGTTTTGTCATTT
21162879 TAGATTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (33 bp):
TCCATAGAGTAGAAAGCTGGGTTTTGTCATTTC
Found at i:21166182 original size:17 final size:17
Alignment explanation
Indices: 21166160--21166193 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21166150 ATCAAACTCA
21166160 TCTGTCATAATTCTAAG
1 TCTGTCATAATTCTAAG
21166177 TCTGTCATAATTCTAAG
1 TCTGTCATAATTCTAAG
21166194 GCAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
TCTGTCATAATTCTAAG
Found at i:21173877 original size:27 final size:26
Alignment explanation
Indices: 21173824--21173876 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
21173814 TATCTTGAAT
21173824 TTTTTAGATAATTTTTAATATTTTTTA
1 TTTTTAGATAATTTTTAATA-TTTTTA
*
21173851 TTTTTATATAATCTTTATAATATTTT
1 TTTTTAGATAAT-TTT-TAATATTTT
21173877 ACAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTAGATAATTTTTAATATTTTTA
Found at i:21173903 original size:21 final size:21
Alignment explanation
Indices: 21173849--21173903 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
21173839 TAATATTTTT
*
21173849 TATTTTTATATAATCTTTATAA
1 TATTTTT-TAAAATCTTTATAA
**
21173871 TATTTTACAAAAT-TTTAATAA
1 TATTTTTTAAAATCTTT-ATAA
21173892 TATTTTTTAAAA
1 TATTTTTTAAAA
21173904 AATTTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.11
21 18 0.67
22 6 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTTTTAAAATCTTTATAA
Found at i:21175413 original size:12 final size:12
Alignment explanation
Indices: 21175396--21175420 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21175386 AATATTTTTA
21175396 AAAATTAAAACT
1 AAAATTAAAACT
21175408 AAAATTAAAACT
1 AAAATTAAAACT
21175420 A
1 A
21175421 TGTGTGAATA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTAAAACT
Found at i:21176253 original size:72 final size:72
Alignment explanation
Indices: 21176136--21176272 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 72
21176126 GGCTCACGGG
*
21176136 TCAACGAGTCTAATGCCTCTATCTAAATTGATACCTAAATCAATTCTCGATCCAA-TCAATTTAA
1 TCAACGAGTCTAATGCCTCTATCTAAATTGATACCTAAACCAATTCTCGATCCAACT-AATTTAA
21176200 CTAGCAGA
65 CTAGCAGA
* *
21176208 TCAACGAGTCTAATATCC-CTCTCTAAATTGATACCTAAACCAATTCTCGATCCAACTAATTTAA
1 TCAACGAGTCTAAT-GCCTCTATCTAAATTGATACCTAAACCAATTCTCGATCCAACTAATTTAA
21176272 C
65 C
21176273 AATTCGAACA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
72 57 0.95
73 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (72 bp):
TCAACGAGTCTAATGCCTCTATCTAAATTGATACCTAAACCAATTCTCGATCCAACTAATTTAAC
TAGCAGA
Found at i:21185151 original size:35 final size:35
Alignment explanation
Indices: 21185016--21185182 Score: 212
Period size: 34 Copynumber: 4.8 Consensus size: 35
21185006 CTTTGTTGGT
*
21185016 GTGTTTCGGGTGGATTAGCTCTTATGAGCACACTGGT
1 GTGTTTCGGGTGGATTAGCTCTTATGAG--CACTGGC
* *
21185053 GTGTTTCGAG-GGATTAGTTCTTATGAGCACTGGC
1 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
** * *
21185087 GTGTTTCAAG-GGTTTAGTTCTTATGAGCACTGGC
1 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
21185121 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
1 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
* * *
21185156 GTATATCAGGTGGATTAGCTCTTATGA
1 GTGTTTCGGGTGGATTAGCTCTTATGA
21185183 ACATCGGCGT
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
34 46 0.39
35 46 0.39
36 16 0.14
37 9 0.08
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (35 bp):
GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
Found at i:21202893 original size:24 final size:24
Alignment explanation
Indices: 21202866--21202917 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
21202856 AATCAAAGTC
* *
21202866 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
21202890 AAATATATTGTACTCATAAATACT
1 AAATATATTATACTAATAAATACT
21202914 AAAT
1 AAAT
21202918 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:21207912 original size:19 final size:19
Alignment explanation
Indices: 21207871--21207913 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
21207861 AATCCAAAAC
* * **
21207871 CAAAACAGTCCCAAAATGT
1 CAAAACAATCCAAAAATAA
21207890 CAAAACAATCCAAAAATAA
1 CAAAACAATCCAAAAATAA
21207909 CAAAA
1 CAAAA
21207914 TGTGATAACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.23, G:0.05, T:0.12
Consensus pattern (19 bp):
CAAAACAATCCAAAAATAA
Found at i:21208099 original size:41 final size:41
Alignment explanation
Indices: 21208042--21208123 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
21208032 GTGAGTTTCG
21208042 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
1 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
21208083 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
1 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
21208124 TCAGATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (41 bp):
AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
Found at i:21208896 original size:26 final size:25
Alignment explanation
Indices: 21208850--21208898 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
21208840 TAATGGGTTG
* **
21208850 AAAATATAGAGATAATTCTATTTCT
1 AAAATATAGAGACAAACCTATTTCT
21208875 AAAATTATAGAGACAAACCTATTT
1 AAAA-TATAGAGACAAACCTATTT
21208899 ATAGCATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (25 bp):
AAAATATAGAGACAAACCTATTTCT
Found at i:21209712 original size:24 final size:23
Alignment explanation
Indices: 21209684--21209742 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
21209674 AACATTATTC
*
21209684 CTGAACATGTTCAATTATATGTTCA
1 CTGAACATGTTCAATTA-A-GTTAA
*
21209709 -TGAACATGTTCGATTAAGTTAA
1 CTGAACATGTTCAATTAAGTTAA
21209731 CTGAACATGTTC
1 CTGAACATGTTC
21209743 TTGAACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.13
23 12 0.39
24 15 0.48
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (23 bp):
CTGAACATGTTCAATTAAGTTAA
Found at i:21210033 original size:2 final size:2
Alignment explanation
Indices: 21210026--21210060 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21210016 TTGAAGGTTT
21210026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21210061 TTGGAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21210586 original size:19 final size:20
Alignment explanation
Indices: 21210562--21210602 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
21210552 AAGGTTTTTA
21210562 TTTTATTAGAG-TTAGGGTT
1 TTTTATTAGAGTTTAGGGTT
*
21210581 TTTTATTAGGGTTTAGGGTT
1 TTTTATTAGAGTTTAGGGTT
21210601 TT
1 TT
21210603 ATAAAAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (20 bp):
TTTTATTAGAGTTTAGGGTT
Found at i:21211179 original size:12 final size:12
Alignment explanation
Indices: 21211162--21211191 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21211152 CGTACCACCA
21211162 GAGGTGTATCCG
1 GAGGTGTATCCG
21211174 GAGGTGTATCCG
1 GAGGTGTATCCG
*
21211186 AAGGTG
1 GAGGTG
21211192 CGGGCCCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.13, G:0.43, T:0.23
Consensus pattern (12 bp):
GAGGTGTATCCG
Found at i:21213648 original size:20 final size:20
Alignment explanation
Indices: 21213620--21213678 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 20
21213610 ATACGTGCCA
21213620 CACTGATATGTAGCTGCTAC
1 CACTGATATGTAGCTGCTAC
* *
21213640 CATTGATATATAGCCATAGCTAC
1 CACTGATATGTAG-C-T-GCTAC
*
21213663 CACTGAAATGTAGCTG
1 CACTGATATGTAGCTG
21213679 AAGCTACTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 12 0.39
21 2 0.06
22 2 0.06
23 15 0.48
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (20 bp):
CACTGATATGTAGCTGCTAC
Found at i:21213676 original size:23 final size:22
Alignment explanation
Indices: 21213635--21213710 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
21213625 ATATGTAGCT
* * *
21213635 GCTACCATTGATATATAGCCATA
1 GCTACCACTGAAATGTAGCCA-A
*
21213658 GCTACCACTGAAATGTAGCTGAA
1 GCTACCACTGAAATGTAGC-CAA
**
21213681 GCTACTGCTGAAATGTAGCCGAA
1 GCTACCACTGAAATGTAGCC-AA
21213704 GCTACCA
1 GCTACCA
21213711 TTGGTCAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
23 41 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (22 bp):
GCTACCACTGAAATGTAGCCAA
Found at i:21215312 original size:50 final size:49
Alignment explanation
Indices: 21215157--21215344 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 49
21215147 TCAGTTCACA
* * * *
21215157 TAGTAGCCTACACATAGTACTGCACATGTGACCATTACCA-TCTGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-T--CATTCTGATACACG
* * ** * * *
21215208 TAGTAGCCTGCACATAGAACTACACACGTGATCAGAACTATCTGGT-CGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-T-TCTGATACACG
*
21215258 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCATTCTGATACACG
*
21215308 TAGTAGCCTGCACATAGTACTGCACACGTGACCATCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA
21215345 CTTTCACTTT
Statistics
Matches: 111, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 9 0.08
50 65 0.59
51 36 0.32
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCATTCTGATACACG
Found at i:21215335 original size:100 final size:100
Alignment explanation
Indices: 21215155--21215338 Score: 289
Period size: 100 Copynumber: 1.8 Consensus size: 100
21215145 GTTCAGTTCA
* *
21215155 CATAGTAGCCTACACATAGTACTGCACATGTGACCATTACCATCTGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCA-TACCATCTGATACACGTAGTAGCCTGCA
21215220 CATAGAACTACACACGTGATCAGAACTATCTGGTCG
65 CATAGAACTACACACGTGATCAGAACTATCTGGTCG
* *
21215256 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCATACCA-TCTGATACACGTAGTAGCCTGCA
* *
21215320 CATAGTACTGCACACGTGA
65 CATAGAACTACACACGTGA
21215339 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 4 0.05
100 39 0.51
101 33 0.43
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
CATAGTAGCCTACACATAGTACTACACATGTGACCATACCATCTGATACACGTAGTAGCCTGCAC
ATAGAACTACACACGTGATCAGAACTATCTGGTCG
Found at i:21223081 original size:22 final size:22
Alignment explanation
Indices: 21223056--21223098 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21223046 CAAATAAACT
*
21223056 CTAAACATTAGCATCA-GAATAG
1 CTAAACA-CAGCATCACGAATAG
*
21223078 CTAATCACAGCATCACGAATA
1 CTAAACACAGCATCACGAATA
21223099 TTTAACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (22 bp):
CTAAACACAGCATCACGAATAG
Found at i:21224277 original size:22 final size:22
Alignment explanation
Indices: 21224252--21224293 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21224242 AATTTGGGTG
21224252 TTTTATTTATTTTATTTTTTCT
1 TTTTATTTATTTTATTTTTTCT
* * *
21224274 TTTTCTTTGTTTTCTTTTTT
1 TTTTATTTATTTTATTTTTT
21224294 TTCCTTGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTATTTATTTTATTTTTTCT
Found at i:21224664 original size:4 final size:4
Alignment explanation
Indices: 21224657--21224681 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21224647 TTAAATAAAA
21224657 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
21224682 CAACCTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:21230422 original size:18 final size:19
Alignment explanation
Indices: 21230399--21230461 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
21230389 TATTAATAAC
21230399 ATAAATATAATAATAAAA-
1 ATAAATATAATAATAAAAT
*
21230417 ATAAATAATTTATAATAAAAT
1 ATAAAT-A-TAATAATAAAAT
21230438 ATAAA-A-AATACATAAAAT
1 ATAAATATAATA-ATAAAAT
21230456 AATAAA
1 -ATAAA
21230462 CGATATAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.08
18 13 0.34
19 7 0.18
20 10 0.26
21 5 0.13
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAATATAATAATAAAAT
Found at i:21231028 original size:21 final size:21
Alignment explanation
Indices: 21231003--21231044 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
21230993 TTAATATTTT
21231003 AATA-TTTTAAAAATTCAAAAA
1 AATATTTTTAAAAATT-AAAAA
21231024 AATATTTTTAAAAATTAAAAA
1 AATATTTTTAAAAATTAAAAA
21231045 TCATTAAATT
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:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATTTTTAAAAATTAAAAA
Found at i:21231073 original size:20 final size:21
Alignment explanation
Indices: 21231050--21231095 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
21231040 AAAAATCATT
*
21231050 AAATTTATTTTAAA-ATTATA
1 AAATTTATTTTAAATATTAAA
*
21231070 AAATATATTTTAAATATTAAA
1 AAATTTATTTTAAATATTAAA
21231091 AAATT
1 AAATT
21231096 AATTAAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTTATTTTAAATATTAAA
Found at i:21232768 original size:25 final size:24
Alignment explanation
Indices: 21232751--21232826 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 24
21232741 TTTTTGCAAT
21232751 TTATTTATTTTAAAATTTTT-ATA
1 TTATTTATTTTAAAATTTTTAATA
* * *
21232774 TTATTTGTTTTAAATTATTTTATTA
1 TTATTTATTTTAAAAT-TTTTAATA
*
21232799 TTATTTATTTTAAAATTTTCACATA
1 TTATTTATTTTAAAATTTTTA-ATA
21232824 TTA
1 TTA
21232827 GGCATTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.33
24 8 0.19
25 21 0.49
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATTTATTTTAAAATTTTTAATA
Found at i:21232797 original size:22 final size:23
Alignment explanation
Indices: 21232751--21232817 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 23
21232741 TTTTTGCAAT
21232751 TTATTTATTTTAAAATTTTTATA
1 TTATTTATTTTAAAATTTTTATA
* *
21232774 TTATTTGTTTTAAATTATTTTATTA
1 TTATTTATTTTAAAAT-TTTTA-TA
21232799 TTATTTATTTTAAAATTTT
1 TTATTTATTTTAAAATTTT
21232818 CACATATTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 14 0.37
24 8 0.21
25 16 0.42
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (23 bp):
TTATTTATTTTAAAATTTTTATA
Found at i:21233095 original size:23 final size:23
Alignment explanation
Indices: 21233063--21233110 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
21233053 TGGTTATTTA
* * *
21233063 TTTTAATTTGCTTTGTATGTTAT
1 TTTTAATTTGCGTTGCATATTAT
*
21233086 TTTTATTTTGCGTTGCATATTAT
1 TTTTAATTTGCGTTGCATATTAT
21233109 TT
1 TT
21233111 ACTTTGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.12, T:0.65
Consensus pattern (23 bp):
TTTTAATTTGCGTTGCATATTAT
Found at i:21233144 original size:24 final size:25
Alignment explanation
Indices: 21233102--21233160 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
21233092 TTTGCGTTGC
* ** *
21233102 ATATTATTTACTTTGAATTG-CTTT
1 ATATTATTTACCTCAAATTGTCTAT
21233126 ATATTATTTACCTCAAATTGTTCTAT
1 ATATTATTTACCTCAAATTG-TCTAT
21233152 ATATTATTT
1 ATATTATTT
21233161 CGTTTTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 17 0.59
26 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (25 bp):
ATATTATTTACCTCAAATTGTCTAT
Found at i:21242721 original size:3 final size:3
Alignment explanation
Indices: 21242713--21242790 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
21242703 TACTAGCATA
21242713 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
21242761 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
21242791 AATAATAATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Done.