Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 187 of 250
Found at i:58855597 original size:26 final size:26
Alignment explanation
Indices: 58855537--58855599 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
58855527 TTTATTTACG
*
58855537 AAAT-TAAAAA-ACCTTATTATTAAT
1 AAATATAAAAATAACTTATTATTAAT
*
58855561 ATATATAAAAATAACTTA-TATTAAT
1 AAATATAAAAATAACTTATTATTAAT
*
58855586 AAATGATCAAAATA
1 AAAT-ATAAAAATA
58855600 TGCGGTTAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 16 0.50
26 13 0.41
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (26 bp):
AAATATAAAAATAACTTATTATTAAT
Found at i:58855842 original size:14 final size:14
Alignment explanation
Indices: 58855803--58855845 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
58855793 ATTTAATTAT
58855803 TTTTAATTATTCAAAA
1 TTTTAATT-TT-AAAA
*
58855819 TTTAATATTTTAAAA
1 TTTTA-ATTTTAAAA
58855834 TTTTAATTTTAA
1 TTTTAATTTTAA
58855846 CTCAAACGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 8 0.33
16 6 0.25
17 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAATTTTAAAA
Found at i:58859315 original size:28 final size:30
Alignment explanation
Indices: 58859247--58859316 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
58859237 CATTTTACAT
** *
58859247 ATTTTTAAAATTTTTAAAGGGTTAAATTAA
1 ATTTTTATTATTTTTAAAGGGTTAAAGTAA
*
58859277 ATTTTTGTTATTTTTAAA-GG-TAAAGTATA
1 ATTTTTATTATTTTTAAAGGGTTAAAGTA-A
58859306 A-TTTTATTATT
1 ATTTTTATTATT
58859317 ACTATTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 15 0.44
29 4 0.12
30 15 0.44
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (30 bp):
ATTTTTATTATTTTTAAAGGGTTAAAGTAA
Found at i:58865701 original size:41 final size:41
Alignment explanation
Indices: 58865644--58865746 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
58865634 AGTAGTGGCT
*
58865644 GCAAAAGGTCTAGCATTAGCAGCATTTATGAGAAAAATGCC
1 GCAAAAGGTCTAGCATTAGCAGCATTTATGAGAAAAACGCC
* **
58865685 GCAAAAGGTCTAGCATTAGCGGTGTTTATGAGAAAAACGCC
1 GCAAAAGGTCTAGCATTAGCAGCATTTATGAGAAAAACGCC
* * *
58865726 TCAAAAAGTCAAGCATTAGCA
1 GCAAAAGGTCTAGCATTAGCA
58865747 AAAACGCCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (41 bp):
GCAAAAGGTCTAGCATTAGCAGCATTTATGAGAAAAACGCC
Found at i:58866006 original size:15 final size:15
Alignment explanation
Indices: 58865986--58866015 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58865976 GAAAAAAAAA
58865986 TTAAAATAATATTAT
1 TTAAAATAATATTAT
58866001 TTAAAATAATATTAT
1 TTAAAATAATATTAT
58866016 AGTTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAATAATATTAT
Found at i:58866640 original size:78 final size:77
Alignment explanation
Indices: 58866507--58866657 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 77
58866497 TGCCTTAGTA
* * *
58866507 TTTTTCCCAAAATCTATTCCCCCTCCCCACGAAATCCCAAAATTTCACCTGAAATCTCTTCTGT-
1 TTTTTCCCAAAATCGATTCCCCCTCCCCACGAAATCCCAAAATTTCACCTAAAATCTCTTAT-TC
58866571 TTTTTTCCCCTTC
65 TTTTTTCCCCTTC
* *
58866584 TTTTTCCCAAAATCGGTTCCCCCTTCCCCCCGAAATCCCAAAATTTCACCTAAAATCTCTTATTC
1 TTTTTCCCAAAATCGATTCCCCC-TCCCCACGAAATCCCAAAATTTCACCTAAAATCTCTTATTC
58866649 TTTTTTCCC
65 TTTTTTCCC
58866658 ATTTTATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
77 22 0.33
78 45 0.67
ACGTcount: A:0.23, C:0.36, G:0.04, T:0.37
Consensus pattern (77 bp):
TTTTTCCCAAAATCGATTCCCCCTCCCCACGAAATCCCAAAATTTCACCTAAAATCTCTTATTCT
TTTTTCCCCTTC
Found at i:58866753 original size:25 final size:25
Alignment explanation
Indices: 58866725--58866799 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
58866715 ATTTCCCCTA
58866725 ATTGGCAGCCCACTGCTGCATCTCC
1 ATTGGCAGCCCACTGCTGCATCTCC
****
58866750 ATTGGCAGGGTGCTGCTGCATCTCC
1 ATTGGCAGCCCACTGCTGCATCTCC
* * * *
58866775 ATCGGCAGCCCTCTGTTGCTTCTCC
1 ATTGGCAGCCCACTGCTGCATCTCC
58866800 TTGTAAGTTT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.12, C:0.36, G:0.24, T:0.28
Consensus pattern (25 bp):
ATTGGCAGCCCACTGCTGCATCTCC
Found at i:58878747 original size:24 final size:24
Alignment explanation
Indices: 58878717--58878762 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
58878707 TTTAATTTTC
58878717 AAAATTTTAAAAAAATAAAAATAA
1 AAAATTTTAAAAAAATAAAAATAA
*
58878741 AAAATTTTTAAAAAATAAAAAT
1 AAAATTTTAAAAAAATAAAAAT
58878763 TACATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATTTTAAAAAAATAAAAATAA
Found at i:58878793 original size:30 final size:30
Alignment explanation
Indices: 58878759--58878878 Score: 149
Period size: 30 Copynumber: 4.1 Consensus size: 30
58878749 TAAAAAATAA
* *
58878759 AAATTACATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-TT
*
58878789 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* *
58878819 AAATTTCACTTAGACCCCTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
*
58878849 AAATTTCATTTT-AACCCTAAA-TTT-TTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
58878876 AAA
1 AAA
58878879 AATTACATTT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
27 6 0.08
28 3 0.04
29 8 0.10
30 62 0.77
31 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:58879653 original size:14 final size:15
Alignment explanation
Indices: 58879634--58879668 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
58879624 TTTAATTTTC
*
58879634 AAAATTTCAAAAA-A
1 AAAATTTAAAAAATA
58879648 AAAATTTAAAAAATA
1 AAAATTTAAAAAATA
58879663 AAAATT
1 AAAATT
58879669 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTAAAAAATA
Found at i:58879698 original size:30 final size:31
Alignment explanation
Indices: 58879664--58879765 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
58879654 TAAAAAATAA
*
58879664 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
58879694 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
58879724 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
58879754 AAATTTCATTTT
1 AAATTTCATTTT
58879766 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:58880047 original size:10 final size:10
Alignment explanation
Indices: 58880028--58880057 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58880018 TTTTTCGAAG
*
58880028 GAAAAAAGAA
1 GAAAAGAGAA
58880038 GAAAAGAGAA
1 GAAAAGAGAA
58880048 GAAAAGAGAA
1 GAAAAGAGAA
58880058 AGAGGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:58880138 original size:3 final size:3
Alignment explanation
Indices: 58880132--58880177 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
58880122 GGCTAGATTT
*
58880132 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA
58880178 AGAAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:58880150 original size:10 final size:10
Alignment explanation
Indices: 58880135--58880163 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
58880125 TAGATTTGAA
58880135 GAAGAAGAAG
1 GAAGAAGAAG
58880145 GAAGAAGAAG
1 GAAGAAGAAG
58880155 GAAGAAGAA
1 GAAGAAGAA
58880164 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:58880150 original size:13 final size:13
Alignment explanation
Indices: 58880132--58880177 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
58880122 GGCTAGATTT
58880132 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
58880145 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
58880158 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
58880169 GAAGAAGAA
1 GAAGAAGAA
58880178 AGAAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:58880298 original size:25 final size:24
Alignment explanation
Indices: 58880255--58880327 Score: 96
Period size: 26 Copynumber: 3.0 Consensus size: 24
58880245 CCAGCAGCCC
*
58880255 AAGAAAAA-ACAAAAAAAAAAGAA
1 AAGAAAAACCCAAAAAAAAAAGAA
58880278 AA-AAACAAGCCCAAAAAAAAAAAGAA
1 AAGAAA-AA-CCC-AAAAAAAAAAGAA
58880304 AAGAAAAACCCAAAAAAAAAAGAA
1 AAGAAAAACCCAAAAAAAAAAGAA
58880328 GAGCAGGCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 3 0.07
23 4 0.09
24 13 0.30
25 4 0.09
26 17 0.39
27 3 0.07
ACGTcount: A:0.81, C:0.11, G:0.08, T:0.00
Consensus pattern (24 bp):
AAGAAAAACCCAAAAAAAAAAGAA
Found at i:58880471 original size:10 final size:10
Alignment explanation
Indices: 58880456--58880518 Score: 72
Period size: 10 Copynumber: 6.0 Consensus size: 10
58880446 GTTGGCAAGC
58880456 AGAAAAAAAA
1 AGAAAAAAAA
*
58880466 AGAAAAGAAA
1 AGAAAAAAAA
58880476 AGAAGAAAAAA
1 AGAA-AAAAAA
*
58880487 GAGAAGGAAAAA
1 -AGAA-AAAAAA
*
58880499 AGAAGAAAAA
1 AGAAAAAAAA
58880509 AGAAAAAAAA
1 AGAAAAAAAA
58880519 GAGGTTCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
10 28 0.60
11 9 0.19
12 10 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:58880483 original size:23 final size:23
Alignment explanation
Indices: 58880456--58880520 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 23
58880446 GTTGGCAAGC
58880456 AGAAAAAAAAAGAAAAGAAAAGA
1 AGAAAAAAAAAGAAAAGAAAAGA
* *
58880479 AG-AAAAAAGAG-AAGGAAAA-A
1 AGAAAAAAAAAGAAAAGAAAAGA
*
58880499 AGAAGAAAAAAGAAAA-AAAAGA
1 AGAAAAAAAAAGAAAAGAAAAGA
58880521 GGTTCAATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.09
21 18 0.53
22 11 0.32
23 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAAAGAAAAGAAAAGA
Found at i:58880698 original size:5 final size:5
Alignment explanation
Indices: 58880646--58880699 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
58880636 ATTTTATGCA
* * * *
58880646 TATTT ATATTA TATTT ATATTT AATTT AATTT GATTT TATTT TATTT TATTT
1 TATTT -TATTT TATTT -TATTT TATTT TATTT TATTT TATTT TATTT TATTT
58880698 TA
1 TA
58880700 AATAATTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
5 33 0.79
6 9 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (5 bp):
TATTT
Found at i:58880879 original size:17 final size:17
Alignment explanation
Indices: 58880857--58881064 Score: 142
Period size: 17 Copynumber: 12.1 Consensus size: 17
58880847 AAATTTCATG
58880857 TCAAAAATCTTCGTGTT
1 TCAAAAATCTTCGTGTT
* *
58880874 TCAAAATTC-TAGTGTT
1 TCAAAAATCTTCGTGTT
* *
58880890 TCAAAAATTTTCTTGTTT
1 TCAAAAATCTTCGTG-TT
58880908 TCAAAAAAT-TTCGTGTT
1 TC-AAAAATCTTCGTGTT
* *
58880925 TTAAAAAT-TTCCGTATT
1 TCAAAAATCTT-CGTGTT
* *
58880942 TCAAAAAATCAT-GTCTT
1 TC-AAAAATCTTCGTGTT
*
58880959 TCAAAAATTTTCGTGTTT
1 TCAAAAATCTTCGTG-TT
** *
58880977 TCAAAAAAAATACCGTGTT
1 TC-AAAAATCT-TCGTGTT
58880996 TCAAAAAT-TTCCGTG-T
1 TCAAAAATCTT-CGTGTT
* *
58881012 TAAAAAATCTTCGTATTT
1 TCAAAAATCTTCGT-GTT
*
58881030 TCAAAAAAT-TTTGTGTT
1 TC-AAAAATCTTCGTGTT
58881047 TCAAAAATCTTCGTGTT
1 TCAAAAATCTTCGTGTT
58881064 T
1 T
58881065 TAGAGATTTA
Statistics
Matches: 149, Mismatches: 26, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
16 45 0.30
17 47 0.32
18 30 0.20
19 23 0.15
20 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (17 bp):
TCAAAAATCTTCGTGTT
Found at i:58880911 original size:18 final size:17
Alignment explanation
Indices: 58880857--58881065 Score: 132
Period size: 16 Copynumber: 12.1 Consensus size: 17
58880847 AAATTTCATG
58880857 TCAAAAATCTTCGTG-TT
1 TCAAAAAT-TTCGTGTTT
*
58880874 TC-AAAATTCTAGTG-TT
1 TCAAAAATT-TCGTGTTT
*
58880890 TCAAAAATTTTCTTGTTT
1 TCAAAAA-TTTCGTGTTT
58880908 TCAAAAAATTTCGTGTTT
1 TC-AAAAATTTCGTGTTT
*
58880926 T-AAAAATTTCCGT-ATT
1 TCAAAAATTT-CGTGTTT
* *
58880942 TCAAAAA-ATCATGTCTT
1 TCAAAAATTTCGTGT-TT
58880959 TCAAAAATTTTCGTGTTT
1 TCAAAAA-TTTCGTGTTT
**
58880977 TCAAAAAAAATACCGTG-TT
1 TC---AAAAATTTCGTGTTT
58880996 TCAAAAATTTCCGTG--T
1 TCAAAAATTT-CGTGTTT
* *
58881012 TAAAAAATCTTCGTATTT
1 TCAAAAAT-TTCGTGTTT
*
58881030 TCAAAAAATTTTGTG-TT
1 TC-AAAAATTTCGTGTTT
58881047 TCAAAAATCTTCGTGTTT
1 TCAAAAAT-TTCGTGTTT
58881065 T
1 T
58881066 AGAGATTTAA
Statistics
Matches: 151, Mismatches: 20, Indels: 41
0.71 0.09 0.19
Matches are distributed among these distances:
15 3 0.02
16 48 0.32
17 41 0.27
18 29 0.19
19 20 0.13
20 5 0.03
21 5 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (17 bp):
TCAAAAATTTCGTGTTT
Found at i:58880931 original size:35 final size:33
Alignment explanation
Indices: 58880876--58881066 Score: 122
Period size: 35 Copynumber: 5.5 Consensus size: 33
58880866 TTCGTGTTTC
* *
58880876 AAAATTCTAGTGTTTCAAAAATTTTCTTGTTTTCAA
1 AAAATT-TCGTGTTTTAAAAA-TTTC-TGTTTTCAA
*
58880912 AAAATTTCGTGTTTTAAAAATTTCCGTATTTCAA
1 AAAATTTCGTGTTTTAAAAATTTCTGT-TTTCAA
*
58880946 AAAA--TCATGTCTTTCAAAAATTTTCGTGTTTTCAAAA
1 AAAATTTCGTGT-TTT-AAAAA-TTTC-TGTTTTC--AA
** * * *
58880983 AAAATACCGTGTTTCAAAAATTTCCGTGTT-AA
1 AAAATTTCGTGTTTTAAAAATTTCTGTTTTCAA
*
58881015 AAAATCTTCGTATTTTCAAAAAATTT-TGTGTTTC-A
1 AAAAT-TTCGTGTTTT--AAAAATTTCTGT-TTTCAA
58881050 AAAATCTTCGTGTTTTA
1 AAAAT-TTCGTGTTTTA
58881067 GAGATTTAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
32 12 0.10
33 12 0.10
34 21 0.17
35 50 0.40
36 12 0.10
37 11 0.09
38 2 0.02
39 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (33 bp):
AAAATTTCGTGTTTTAAAAATTTCTGTTTTCAA
Found at i:58885684 original size:5 final size:5
Alignment explanation
Indices: 58885674--58885700 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
58885664 GTATCTATCT
58885674 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
58885701 GTATATAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:58886283 original size:32 final size:32
Alignment explanation
Indices: 58886244--58886317 Score: 148
Period size: 32 Copynumber: 2.3 Consensus size: 32
58886234 GTGTCCCAAG
58886244 CCACACGGGCATGTGTGATCACACAGCCCCAC
1 CCACACGGGCATGTGTGATCACACAGCCCCAC
58886276 CCACACGGGCATGTGTGATCACACAGCCCCAC
1 CCACACGGGCATGTGTGATCACACAGCCCCAC
58886308 CCACACGGGC
1 CCACACGGGC
58886318 GTGACACTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.24, C:0.42, G:0.23, T:0.11
Consensus pattern (32 bp):
CCACACGGGCATGTGTGATCACACAGCCCCAC
Found at i:58908817 original size:19 final size:18
Alignment explanation
Indices: 58908759--58908818 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
58908749 TTAAAAGATA
58908759 ATTTATCCTTATTAAATAT
1 ATTTATCCTTATT-AATAT
* *
58908778 ATTTAGT-GTTA-T-ATCT
1 ATTTA-TCCTTATTAATAT
58908794 ATTTATCCTTATTAATTAT
1 ATTTATCCTTATTAA-TAT
58908813 ATTTAT
1 ATTTAT
58908819 TCTAACATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 1 0.03
16 11 0.34
17 1 0.03
18 2 0.06
19 16 0.50
20 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTATCCTTATTAATAT
Found at i:58916835 original size:22 final size:22
Alignment explanation
Indices: 58916810--58916856 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
58916800 TAAGAAACAG
* *
58916810 GATTTAGTTAGATGTCAGAAGA
1 GATTTAATTAGATCTCAGAAGA
*
58916832 GATTTAATTAGTTCTCAGAAGA
1 GATTTAATTAGATCTCAGAAGA
58916854 GAT
1 GAT
58916857 GAAATAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (22 bp):
GATTTAATTAGATCTCAGAAGA
Found at i:58917976 original size:26 final size:26
Alignment explanation
Indices: 58917940--58917991 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
58917930 ATGTTGAAAT
58917940 GGGAATGAAGAAAACCGTTAAACAAG
1 GGGAATGAAGAAAACCGTTAAACAAG
58917966 GGGAATGAAGAAAACCGTTAAACAAG
1 GGGAATGAAGAAAACCGTTAAACAAG
58917992 TGCTAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.27, T:0.12
Consensus pattern (26 bp):
GGGAATGAAGAAAACCGTTAAACAAG
Found at i:58929915 original size:15 final size:17
Alignment explanation
Indices: 58929891--58929925 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
58929881 GTTAAGGACT
58929891 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
58929907 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
58929923 AAA
1 AAA
58929926 AATTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:58933325 original size:13 final size:14
Alignment explanation
Indices: 58933288--58933328 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
58933278 TTTATAGATA
58933288 CAGATA-ACAGAAT
1 CAGATATACAGAAT
* *
58933301 CAGATGTGCAGAAT
1 CAGATATACAGAAT
58933315 -AGATATACAGAAT
1 CAGATATACAGAAT
58933328 C
1 C
58933329 CTACCCCCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:58937492 original size:18 final size:18
Alignment explanation
Indices: 58937469--58937514 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
58937459 TTTTATATAG
*
58937469 AATTTTTTTATCTTTTCT
1 AATTTTTTTATATTTTCT
* *
58937487 AATTTTTTTGTATTTTTT
1 AATTTTTTTATATTTTCT
*
58937505 TATTTTTTTA
1 AATTTTTTTA
58937515 GAATTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
AATTTTTTTATATTTTCT
Found at i:58938361 original size:25 final size:24
Alignment explanation
Indices: 58938314--58938362 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
58938304 CTATCGGACC
* * *
58938314 TTTTCTCTTGATTAGTAACAAAAA
1 TTTTCTCTTGATAAGAAAAAAAAA
58938338 TTTTCTCATTGATAAGAAAAAAAAA
1 TTTTCTC-TTGATAAGAAAAAAAAA
58938363 AATAGTCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (24 bp):
TTTTCTCTTGATAAGAAAAAAAAA
Found at i:58942105 original size:27 final size:28
Alignment explanation
Indices: 58942074--58942134 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
58942064 TAGTTTACCA
* *
58942074 AATTACTGA-AATGCCCTCGATTTATAG
1 AATTACTCATAATACCCTCGATTTATAG
**
58942101 AATTAC-CATTTTACCCTCGATTTATAG
1 AATTACTCATAATACCCTCGATTTATAG
58942128 AATTACT
1 AATTACT
58942135 ATTTCACCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (28 bp):
AATTACTCATAATACCCTCGATTTATAG
Found at i:58942138 original size:27 final size:27
Alignment explanation
Indices: 58942087--58942187 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
58942077 TACTGAAATG
* *
58942087 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
58942114 CCCTCGATTTATAGAATTACTATTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
58942141 CCATCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
58942168 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAAAATTAC
58942188 TGAAATAACC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:58942212 original size:27 final size:27
Alignment explanation
Indices: 58942182--58942565 Score: 464
Period size: 27 Copynumber: 14.3 Consensus size: 27
58942172 CGATTTACAA
* *
58942182 AATTACTGAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
58942209 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58942236 AATTACTGAAATACCCCTGCAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58942263 AATTACCGGAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
58942290 AATTACCAAAATACCCCTACATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58942317 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
58942344 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
58942371 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
58942398 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
58942425 AATTACCGGAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58942452 AATTATCGTAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
58942479 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
58942506 AATTACTAAAATACCCCTGTATGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
58942533 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
58942559 AATTACC
1 AATTACC
58942566 ATTTTGCCCT
Statistics
Matches: 304, Mismatches: 53, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 15 0.05
27 289 0.95
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:58943044 original size:22 final size:22
Alignment explanation
Indices: 58942992--58943047 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
58942982 TTAAATCCTT
* *
58942992 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
58943014 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
58943036 TTGATTATGGCT
1 CTGATTATGGCT
58943048 GTATGCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:58943244 original size:27 final size:27
Alignment explanation
Indices: 58943214--58943315 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
58943204 ATTCTGTTAA
* *
58943214 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
58943241 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
58943268 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
58943295 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
58943316 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:58943493 original size:25 final size:25
Alignment explanation
Indices: 58943463--58943520 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
58943453 TTCTGATTTT
* * *
58943463 TGATTCTGTTACCTGATACTGATTC
1 TGATTCTGTCACCTAATACTAATTC
* *
58943488 TGATTCTATCACCTAATTCTAATTC
1 TGATTCTGTCACCTAATACTAATTC
58943513 TGATTCTG
1 TGATTCTG
58943521 ATTCTAGTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (25 bp):
TGATTCTGTCACCTAATACTAATTC
Found at i:58946571 original size:16 final size:16
Alignment explanation
Indices: 58946550--58946580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58946540 AGTCCTAATT
58946550 TATTTATTCGTTTATC
1 TATTTATTCGTTTATC
*
58946566 TATTTATTGGTTTAT
1 TATTTATTCGTTTAT
58946581 ACATACCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (16 bp):
TATTTATTCGTTTATC
Found at i:58952937 original size:16 final size:16
Alignment explanation
Indices: 58952921--58952961 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 16
58952911 TTAAAAAAAT
58952921 TAAAAAGAATGATAATTA
1 TAAAAA-AAT-ATAATTA
58952939 TAAAAAAATATAATTA
1 TAAAAAAATATAATTA
58952955 TAAAAAA
1 TAAAAAA
58952962 TCCAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 14 0.61
17 3 0.13
18 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (16 bp):
TAAAAAAATATAATTA
Found at i:58955328 original size:32 final size:32
Alignment explanation
Indices: 58955292--58955356 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
58955282 TGTATGCATT
58955292 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
58955324 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
58955356 T
1 T
58955357 GGTAACCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:58956869 original size:26 final size:26
Alignment explanation
Indices: 58956840--58956892 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
58956830 TTTACAGTTT
58956840 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
58956866 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
58956892 T
1 T
58956893 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:58958569 original size:54 final size:54
Alignment explanation
Indices: 58958504--58958614 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
58958494 AATGTTCTTG
58958504 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTAGGTTAAATCCAT
1 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTAGGTTAAATCCAT
* *
58958558 TCATTAGTGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
1 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTAGGTTAAATCCAT
58958612 TCA
1 TCA
58958615 CCTAGTATGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (54 bp):
TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTAGGTTAAATCCAT
Found at i:58962879 original size:23 final size:24
Alignment explanation
Indices: 58962844--58962894 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
58962834 AATTAACTTC
*
58962844 TTTTAATGTTA-TTAAAAATTTTA
1 TTTTAATGATATTTAAAAATTTTA
* * *
58962867 TTTTTATGATATTTATATATTTTA
1 TTTTAATGATATTTAAAAATTTTA
58962891 TTTT
1 TTTT
58962895 CCGAAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTAATGATATTTAAAAATTTTA
Found at i:58968564 original size:19 final size:20
Alignment explanation
Indices: 58968539--58968596 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
58968529 TATATAAGTT
58968539 TAAAATTATAAAAAAATTAA
1 TAAAATTATAAAAAAATTAA
*
58968559 -AAAATTATATAAAAAGTTAA
1 TAAAATTATA-AAAAAATTAA
*
58968579 TAAAATTCAAAAAAAAAT
1 TAAAATT-ATAAAAAAAT
58968597 AACATGAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 9 0.28
20 9 0.28
21 12 0.38
22 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAAATTATAAAAAAATTAA
Found at i:58987858 original size:30 final size:30
Alignment explanation
Indices: 58987822--58987878 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
58987812 ACGGCCATGA
58987822 CACACGGGCGTGTGGCCTACCCGTGTGTAT
1 CACACGGGCGTGTGGCCTACCCGTGTGTAT
**
58987852 CACACGGGCGTGTGGTTTACCCGTGTG
1 CACACGGGCGTGTGGCCTACCCGTGTG
58987879 AAAATACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.28, G:0.35, T:0.25
Consensus pattern (30 bp):
CACACGGGCGTGTGGCCTACCCGTGTGTAT
Found at i:58998653 original size:47 final size:47
Alignment explanation
Indices: 58998596--58999094 Score: 863
Period size: 47 Copynumber: 10.6 Consensus size: 47
58998586 TATTTGAATA
58998596 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58998643 AATGTAAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58998692 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58998739 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58998786 AATGTGAAAGTGTATTTATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58998833 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58998880 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58998927 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58998974 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
58999021 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58999068 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58999095 TCCCGAAGGG
Statistics
Matches: 436, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 390 0.89
49 46 0.11
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:59003268 original size:76 final size:76
Alignment explanation
Indices: 59003060--59003308 Score: 239
Period size: 76 Copynumber: 3.3 Consensus size: 76
59003050 AATGTTTTGC
* * * ** ** *
59003060 GCCCAGCGA-TAGTCGCATAAATCGACAACGTCTTGCGCCCAAAGCTAGTCGGCATAAGCCGACG
1 GCCCAGC-ACTAGTCGGATAAACCAACAACGTCTTGCGCCCAGTGCTAGTC-AAATAAACCGACG
59003124 ATGTCAAATATGT
64 ATGTCAAATATGT
* * * * * *
59003137 GCCCAGCACTAGTCAGATAACCCGATAATGTTTTGCGCCCAGTGCTAGTCAAATAAACCGACGAT
1 GCCCAGCACTAGTCGGATAAACCAACAACGTCTTGCGCCCAGTGCTAGTCAAATAAACCGACGAT
*
59003202 GTCAAATGTGT
66 GTCAAATATGT
* * * ** * *
59003213 GCCCAGCACTAGTCGGATAAACCAACAACGTCTTGTGCCTAGTGTTAGTTGAATAAACCAACAAT
1 GCCCAGCACTAGTCGGATAAACCAACAACGTCTTGCGCCCAGTGCTAGTCAAATAAACCGACGAT
*
59003278 GTTAAATATGT
66 GTCAAATATGT
* * *
59003289 GCCCAACACTACTTGGATAA
1 GCCCAGCACTAGTCGGATAA
59003309 CCTGACAATA
Statistics
Matches: 140, Mismatches: 31, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
76 101 0.72
77 39 0.28
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (76 bp):
GCCCAGCACTAGTCGGATAAACCAACAACGTCTTGCGCCCAGTGCTAGTCAAATAAACCGACGAT
GTCAAATATGT
Found at i:59003330 original size:76 final size:75
Alignment explanation
Indices: 59003124--59003337 Score: 221
Period size: 76 Copynumber: 2.8 Consensus size: 75
59003114 TAAGCCGACG
* * *
59003124 ATGTCAAATATGTGCCCAGCACTAGTCAGATAACCCGATAATGTTTTGCGCCCAGTGCTAGTCAA
1 ATGTCAAATATGTGCCCAGCACTAGTCGGATAA-CCGACAATGTTTTGCGCCTAGTGCTAGTCAA
* *
59003189 ATAAACCGACG
65 ATAAACCAACA
* * * * * * **
59003200 ATGTCAAATGTGTGCCCAGCACTAGTCGGATAAACCAACAACGTCTTGTGCCTAGTGTTAGTTGA
1 ATGTCAAATATGTGCCCAGCACTAGTCGGAT-AACCGACAATGTTTTGCGCCTAGTGCTAGTCAA
59003265 ATAAACCAACA
65 ATAAACCAACA
* * * * * * *
59003276 ATGTTAAATATGTGCCCAACACTACTTGGATAACCTGACAATATTTTGCACCTAGCGCTAGT
1 ATGTCAAATATGTGCCCAGCACTAGTCGGATAACC-GACAATGTTTTGCGCCTAGTGCTAGT
59003338 AGGAGATAAA
Statistics
Matches: 110, Mismatches: 26, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
75 4 0.04
76 104 0.95
77 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (75 bp):
ATGTCAAATATGTGCCCAGCACTAGTCGGATAACCGACAATGTTTTGCGCCTAGTGCTAGTCAAA
TAAACCAACA
Found at i:59009680 original size:43 final size:43
Alignment explanation
Indices: 59009628--59009746 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
59009618 ACTTATCGAA
* * * *
59009628 GCCACTGTCCCAGACAAGGTCTTACACG-AGATC-GATTAACGAT
1 GCCAATGTCCCAGACAAGGTCTTACACGTA-ATCTCAAT-ACAAT
* *
59009671 GCCAATGTCCCAGAAAATGTCTTACACGTAATCTCAATACAAT
1 GCCAATGTCCCAGACAAGGTCTTACACGTAATCTCAATACAAT
* * *
59009714 GGCAATGTCCCAGACATGGTCTTACATGTAATC
1 GCCAATGTCCCAGACAAGGTCTTACACGTAATC
59009747 ACCAATAACC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 60 0.95
44 3 0.05
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACAAGGTCTTACACGTAATCTCAATACAAT
Found at i:59011059 original size:35 final size:35
Alignment explanation
Indices: 59011017--59011088 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
59011007 TGCCTTTCTT
59011017 TCAGAGTTCATTGAATACTTAGTTCTTTCTACTTC
1 TCAGAGTTCATTGAATACTTAGTTCTTTCTACTTC
59011052 TCAGAGTTCATTGAATACTTAGTTCTTTCTACTTC
1 TCAGAGTTCATTGAATACTTAGTTCTTTCTACTTC
59011087 TC
1 TC
59011089 CCATATGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (35 bp):
TCAGAGTTCATTGAATACTTAGTTCTTTCTACTTC
Found at i:59011352 original size:29 final size:28
Alignment explanation
Indices: 59011320--59011420 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 28
59011310 GTAGCCATAG
59011320 AGGCTTTCCTTTGACAGAGATTGCCACAA
1 AGGCTTTCCTTT-ACAGAGATTGCCACAA
*
59011349 AGGCATTTCATTT-CAGAGATTTGCCACAA
1 AGGC-TTTCCTTTACAGAGA-TTGCCACAA
* * *
59011378 AGGCATT-CTTAAACAGAGGTTGCCACAA
1 AGGCTTTCCTT-TACAGAGATTGCCACAA
59011406 AGGCTTTCCTTTACA
1 AGGCTTTCCTTTACA
59011421 TTCAATACTC
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 2 0.03
28 26 0.43
29 25 0.42
30 7 0.12
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (28 bp):
AGGCTTTCCTTTACAGAGATTGCCACAA
Found at i:59011440 original size:32 final size:32
Alignment explanation
Indices: 59011399--59011506 Score: 105
Period size: 32 Copynumber: 3.5 Consensus size: 32
59011389 AACAGAGGTT
59011399 GCCACAAAGGCTTTCCTTTACATTCAATACTC
1 GCCACAAAGGCTTTCCTTTACATTCAATACTC
* * ** * * *
59011431 GCCACAAAGGCTTTACTGT-C-TAGAGT-TTT
1 GCCACAAAGGCTTTCCTTTACATTCAATACTC
* * *
59011460 GCTAGAAAGGCTATCCTTTACATTCAATACTC
1 GCCACAAAGGCTTTCCTTTACATTCAATACTC
59011492 GCCACAAAGGCTTTC
1 GCCACAAAGGCTTTC
59011507 GTGTCTAAAA
Statistics
Matches: 53, Mismatches: 20, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
29 15 0.28
30 4 0.08
31 4 0.08
32 30 0.57
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (32 bp):
GCCACAAAGGCTTTCCTTTACATTCAATACTC
Found at i:59011530 original size:61 final size:61
Alignment explanation
Indices: 59011398--59011532 Score: 200
Period size: 61 Copynumber: 2.2 Consensus size: 61
59011388 AAACAGAGGT
* * * *
59011398 TGCCACAAAGGCTTTCCTTTACATTCAATACTCGCCACAAAGGCTTTACTGTCTAGAGTTT
1 TGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTTACTGTCTAAAATTG
* *
59011459 TGCTAGAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTT-CGTGTCTAAAATTG
1 TGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTTAC-TGTCTAAAATTG
59011520 TGCCACAAAGGCT
1 TGCCACAAAGGCT
59011533 TTTCTATCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
60 1 0.02
61 64 0.98
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (61 bp):
TGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTTACTGTCTAAAATTG
Found at i:59016890 original size:26 final size:27
Alignment explanation
Indices: 59016851--59016906 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
59016841 TTATAATATT
** * *
59016851 AAATAAAATTTTATTATTAT-TTTGAA
1 AAATAAAAAATTATAATTATATTTAAA
59016877 AAATAAAAAATTATAATTATATTTAAA
1 AAATAAAAAATTATAATTATATTTAAA
59016904 AAA
1 AAA
59016907 ACATGTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
AAATAAAAAATTATAATTATATTTAAA
Found at i:59017167 original size:185 final size:185
Alignment explanation
Indices: 59016851--59017276 Score: 629
Period size: 185 Copynumber: 2.3 Consensus size: 185
59016841 TTATAATATT
* * *
59016851 AAATAAAATTTTATTATTATTTTGAAAAATAAAAAATTATAATTATATTTAAAAAAACATGTCAC
1 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATATTTAAAAAAACATGTCAC
* **
59016916 TTAGTACATAATTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAGTTATATTTAT
66 TTAGTACATAACTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAACTATATTTAT
* * * *
59016981 TCATTACGAATCTTTTCTAAAAGCTATGCTTATTTGATTAAATCTATTCAGATGC
131 TCATTACGAATCTTTTCTAAAAGCTATGCTTATTTAAATAAATCTACTCAAATGC
* *
59017036 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATGTTTAAAAAAATATGTCAC
1 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATATTTAAAAAAACATGTCAC
* * * *
59017101 TTAGTACGTAACTTGTGGCATAAGTTACGCTTTTCCATAACATTATAGCTTTCAACTATGTTTAT
66 TTAGTACATAACTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAACTATATTTAT
* * * *
59017166 TCATTACGAATCTTTTTTTAAAGTTATGCTTATTTAAATAAATCTACTCAAATGG
131 TCATTACGAATCTTTTCTAAAAGCTATGCTTATTTAAATAAATCTACTCAAATGC
* * *
59017221 AAATAAAAATTTATTATTGTTTTGAAAAATAAAAAA-AAATTATTGTATTTAAAAAA
1 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAA-AATTATATTTAAAAAA
59017277 TTATTTGCAC
Statistics
Matches: 216, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
184 3 0.01
185 213 0.99
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (185 bp):
AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATATTTAAAAAAACATGTCAC
TTAGTACATAACTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAACTATATTTAT
TCATTACGAATCTTTTCTAAAAGCTATGCTTATTTAAATAAATCTACTCAAATGC
Found at i:59019690 original size:18 final size:18
Alignment explanation
Indices: 59019667--59019703 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
59019657 TTACCATATT
59019667 ACATGGTATTAATCTATA
1 ACATGGTATTAATCTATA
59019685 ACATGGTATTAATCTATA
1 ACATGGTATTAATCTATA
59019703 A
1 A
59019704 GCTAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ACATGGTATTAATCTATA
Found at i:59023315 original size:32 final size:32
Alignment explanation
Indices: 59023274--59023334 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
59023264 GTTAATTTCG
59023274 TGTGTTATTATGATTAATTAGTTCCAAACTAT
1 TGTGTTATTATGATTAATTAGTTCCAAACTAT
59023306 TGTGTTATTATGATTAATTAGTTCCAAAC
1 TGTGTTATTATGATTAATTAGTTCCAAAC
59023335 CATACATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (32 bp):
TGTGTTATTATGATTAATTAGTTCCAAACTAT
Found at i:59027117 original size:12 final size:13
Alignment explanation
Indices: 59027095--59027123 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59027085 AAATTAAATT
59027095 TATTAAATATTAA
1 TATTAAATATTAA
59027108 TATT-AATATTAA
1 TATTAAATATTAA
59027120 TATT
1 TATT
59027124 TTTAATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTAAATATTAA
Found at i:59027448 original size:26 final size:26
Alignment explanation
Indices: 59027396--59027476 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 26
59027386 AAGAATATAT
* *
59027396 TTTTTATTTAATA-TTAAATAATTATA
1 TTTTTATTTAATATTTAAA-CATAATA
*
59027422 TTTTTATTAAATATTTAAACATAATA
1 TTTTTATTTAATATTTAAACATAATA
59027448 --TTTATTTAATATTT--ACATAATA
1 TTTTTATTTAATATTTAAACATAATA
*
59027470 ATTTTAT
1 TTTTTAT
59027477 ATTTTAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
22 8 0.17
24 18 0.38
26 17 0.35
27 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTATTTAATATTTAAACATAATA
Found at i:59028196 original size:12 final size:13
Alignment explanation
Indices: 59028179--59028208 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
59028169 GAAAAGATCT
59028179 TTTTTTTTTAC-A
1 TTTTTTTTTACTA
59028191 TTTTTTTTTACTA
1 TTTTTTTTTACTA
59028204 TTTTT
1 TTTTT
59028209 CTATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTACTA
Found at i:59029522 original size:18 final size:18
Alignment explanation
Indices: 59029491--59029529 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
59029481 ATCAAATTTT
59029491 TTAAACTAATAATTATATA
1 TTAAACTAATAATTATA-A
59029510 TTAAACT-ATAATTATAA
1 TTAAACTAATAATTATAA
59029527 TTA
1 TTA
59029530 TCACAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAACTAATAATTATAA
Found at i:59031610 original size:16 final size:16
Alignment explanation
Indices: 59031589--59031645 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
59031579 TTTGGTTCGC
*
59031589 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
59031605 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
59031621 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
59031637 TGTAATGGA
1 TGTAATGGA
59031646 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:59031912 original size:18 final size:17
Alignment explanation
Indices: 59031891--59031925 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59031881 TTATTATTAA
*
59031891 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
59031909 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
59031926 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:59032062 original size:16 final size:16
Alignment explanation
Indices: 59032025--59032066 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
59032015 TTAATCATAT
*
59032025 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
59032041 TT-AAATATATTATAA
1 TTAAAATATATTATAA
59032056 TTAAAATATAT
1 TTAAAATATAT
59032067 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:59032064 original size:154 final size:156
Alignment explanation
Indices: 59031778--59032075 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
59031768 TAGAATACCC
59031778 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
59031843 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
59031908 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
59031935 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
59031998 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
59032063 ATATAATTTAATA
131 ATATAATTTAATA
59032076 TGAATTTACT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:59032073 original size:14 final size:15
Alignment explanation
Indices: 59032034--59032168 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
59032024 TTTAAACATA
*
59032034 ATTATTATTAAATAT
1 ATTATAATTAAATAT
59032049 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
59032063 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
59032077 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
59032099 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
59032114 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
59032127 ATTATTATTAAATAT
1 ATTATAATTAAATAT
59032142 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
59032156 A-TATAATTTAATA
1 ATTATAATTAAATA
59032169 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:59032132 original size:154 final size:155
Alignment explanation
Indices: 59031817--59032132 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
59031807 ATTGTTATTG
59031817 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
59031882 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
59031947 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
59031974 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
59032037 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
59032099 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
59032128 TTATT
1 TTATT
59032133 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:59032183 original size:44 final size:43
Alignment explanation
Indices: 59032094--59032184 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
59032084 CTCAAATCAT
* * *
59032094 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
59032137 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
59032181 AATA
1 AATA
59032185 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:59032209 original size:120 final size:119
Alignment explanation
Indices: 59032074--59032292 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
59032064 TATAATTTAA
* * * *
59032074 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATCA
59032137 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
59032194 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
*
59032259 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
59032293 TAAAATTATT
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
119 24 0.26
120 62 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATCAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:59032278 original size:17 final size:17
Alignment explanation
Indices: 59032258--59032291 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59032248 TTAATATCAA
*
59032258 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
59032275 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
59032292 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:59032434 original size:93 final size:92
Alignment explanation
Indices: 59032324--59032518 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
59032314 GATTATAGTT
* * *
59032324 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
59032387 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
59032417 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
59032482 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
59032509 TATGAATTTA
1 TATGAATTTA
59032519 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:59034123 original size:34 final size:34
Alignment explanation
Indices: 59034080--59034147 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
59034070 TCTGAAATTC
59034080 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
59034114 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
59034148 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:59034420 original size:78 final size:78
Alignment explanation
Indices: 59034291--59034447 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
59034281 TATTAGTCAA
* * *
59034291 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
59034356 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
59034369 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
59034434 GACAGCAACACTC
66 GACAGCAACACTC
59034447 G
1 G
59034448 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:59039520 original size:2 final size:2
Alignment explanation
Indices: 59039513--59039539 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59039503 TTCGCAGTTT
59039513 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
59039540 TTAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59041349 original size:22 final size:22
Alignment explanation
Indices: 59041317--59041364 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
59041307 AATTGAGAAT
*
59041317 ATATAATTATTAACT-AAAAATA
1 ATATAAATATT-ACTAAAAAATA
*
59041339 ATATAAATATTATTAAAAAATA
1 ATATAAATATTACTAAAAAATA
59041361 ATAT
1 ATAT
59041365 GAGTGATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAAATATTACTAAAAAATA
Found at i:59041363 original size:25 final size:24
Alignment explanation
Indices: 59041314--59041363 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
59041304 AATAATTGAG
* *
59041314 AATATATAATTATTAACTAAAAAT
1 AATATAAAATTATTAACAAAAAAT
59041338 AATATAAATATTATTAA-AAAATAAT
1 AATATAAA-ATTATTAACAAAA-AAT
59041363 A
1 A
59041364 TGAGTGATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AATATAAAATTATTAACAAAAAAT
Found at i:59042060 original size:6 final size:6
Alignment explanation
Indices: 59042051--59042085 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
59042041 GTTCTCTTGT
59042051 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
59042086 TTTCCCAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTTCC
Found at i:59045691 original size:17 final size:17
Alignment explanation
Indices: 59045669--59045702 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59045659 TGTTTGTTTC
59045669 TTTAAGGAGCAATTGTG
1 TTTAAGGAGCAATTGTG
59045686 TTTAAGGAGCAATTGTG
1 TTTAAGGAGCAATTGTG
59045703 GTTAGTGAGT
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:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
TTTAAGGAGCAATTGTG
Found at i:59046008 original size:20 final size:19
Alignment explanation
Indices: 59045964--59046009 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
59045954 AGTATTTGTT
59045964 AATTTTATTTGACTTGAAA
1 AATTTTATTTGACTTGAAA
** *
59045983 TTTTTTGATTTGATTTGAAA
1 AATTTT-ATTTGACTTGAAA
59046003 AATTTTA
1 AATTTTA
59046010 AATGAGTTCG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (19 bp):
AATTTTATTTGACTTGAAA
Found at i:59047446 original size:239 final size:239
Alignment explanation
Indices: 59047022--59047498 Score: 575
Period size: 239 Copynumber: 2.0 Consensus size: 239
59047012 ATGAACAAAT
* * *
59047022 CAAATGCCCTTGTATCAACAAAAGCACTTATTCTTCAGCCTGCTAAGTTGATGTCTACGAATATC
1 CAAATGCCCATGTATCAACAAAAGCACTTATTCTTCAGCCTGCTAAGTTAATGTCTACGAACATC
* * * *
59047087 AATCATTTTTGCTTGTAATCCCTCTTCACTCTAATAGAATTGAATATCATTGGACCAATCTTTAA
66 AACCATTTCTGCTTGTAATCCCTCTTCACTCTAACAGAATTGAATATCATTGGACCAAGCTTTAA
* ** * *
59047152 AGCCTCTGTAACACCCCTTGCTTGACCCGTTCGTCAAGTCTGAGCTACAGAATGCTATATTCATT
131 AGCCTCTATAACACCCCTTGCTCAACCCGTTCATCAAGTCTGAGCTACAGAATGCTACATTCATT
* * * *
59047217 GCCAGAGCAATTACAGCCAATTAGACATCATATAATCATTTATA
196 GCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
* * *
59047261 CAAATGCCCATGTATCAACAAAAGCACTTATTCTT-TGACCTG-TGATGTTAATGTCTATGAACA
1 CAAATGCCCATGTATCAACAAAAGCACTTATTCTTCAG-CCTGCT-AAGTTAATGTCTACGAACA
* * ** * * *
59047324 TCAACCATTTCTGCTTGTGATCCCTTTTTGCTTTAGCAGAATTGAGTATCATTGGACCAAGCTTT
64 TCAACCATTTCTGCTTGTAATCCCTCTTCACTCTAACAGAATTGAATATCATTGGACCAAGCTTT
* * * * **
59047389 AAAGCTTCTATAACATCCCTT-ATCCAACCCCG-TCATCAGGTCTGAGCTATGGAATGCTACATT
129 AAAGCCTCTATAACACCCCTTGCT-CAA-CCCGTTCATCAAGTCTGAGCTACAGAATGCTACATT
* * *
59047452 CGTTGTCAGAACAACTACAACCAATTAGACATCATACAATTATTTAT
192 CATTGCCAGAACAACTACAACCAATTAGACATCATACAATCATTTAT
59047499 TTATATAATT
Statistics
Matches: 199, Mismatches: 35, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
238 3 0.02
239 192 0.96
240 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (239 bp):
CAAATGCCCATGTATCAACAAAAGCACTTATTCTTCAGCCTGCTAAGTTAATGTCTACGAACATC
AACCATTTCTGCTTGTAATCCCTCTTCACTCTAACAGAATTGAATATCATTGGACCAAGCTTTAA
AGCCTCTATAACACCCCTTGCTCAACCCGTTCATCAAGTCTGAGCTACAGAATGCTACATTCATT
GCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
Found at i:59051267 original size:37 final size:37
Alignment explanation
Indices: 59051223--59051297 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
59051213 TTTTTAAAAG
59051223 TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
1 TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
59051260 TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
1 TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
59051297 T
1 T
59051298 ATCAATTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (37 bp):
TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
Found at i:59063120 original size:18 final size:16
Alignment explanation
Indices: 59063084--59063115 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59063074 TAGATATTAA
59063084 TATATATTTAAATAAT
1 TATATATTTAAATAAT
*
59063100 TATATATTTGAATAAT
1 TATATATTTAAATAAT
59063116 CTTATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:59071058 original size:2 final size:2
Alignment explanation
Indices: 59071051--59071078 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59071041 AGATAAAGCA
59071051 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
59071079 CTCCCACATT
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:59080068 original size:11 final size:11
Alignment explanation
Indices: 59080052--59080106 Score: 65
Period size: 11 Copynumber: 4.7 Consensus size: 11
59080042 CAATTAATTA
59080052 ATTTTTTAAAT
1 ATTTTTTAAAT
59080063 ATTTTTTAAAAAT
1 ATTTTTT--AAAT
*
59080076 ATTTTTTTAAT
1 ATTTTTTAAAT
*
59080087 ATTTTTTAAAA
1 ATTTTTTAAAT
59080098 ATATTTTTA
1 AT-TTTTTA
59080107 TAATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
11 21 0.55
12 6 0.16
13 11 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTTTAAAT
Found at i:59080075 original size:13 final size:13
Alignment explanation
Indices: 59080059--59080105 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
59080049 TTAATTTTTT
59080059 AAATATTTTTTAA
1 AAATATTTTTTAA
59080072 AAATATTTTTT--
1 AAATATTTTTTAA
*
59080083 TAATATTTTTTAA
1 AAATATTTTTTAA
59080096 AAATATTTTT
1 AAATATTTTT
59080106 ATAATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.33
13 20 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:59080079 original size:24 final size:23
Alignment explanation
Indices: 59080052--59080120 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 23
59080042 CAATTAATTA
59080052 ATTTTTTAAATATTTTTTAAAAAT
1 ATTTTTT-AATATTTTTTAAAAAT
59080076 ATTTTTTTAATATTTTTTAAAAAT
1 A-TTTTTTAATATTTTTTAAAAAT
*
59080100 A-TTTTT-ATAATTTTTAAAAAT
1 ATTTTTTAATATTTTTTAAAAAT
59080121 TTAAAAGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
21 14 0.33
22 5 0.12
24 18 0.42
25 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTTAATATTTTTTAAAAAT
Found at i:59083013 original size:30 final size:30
Alignment explanation
Indices: 59082979--59083038 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
59082969 TATTTTATTA
59082979 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
59083009 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
59083039 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:59083140 original size:18 final size:19
Alignment explanation
Indices: 59083114--59083161 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
59083104 TTGTTGGAAA
* *
59083114 ATATTTATTTTGATTTATT
1 ATATATATTTTGATGTATT
*
59083133 TTA-ATATTTTTGATGTATT
1 ATATATA-TTTTGATGTATT
59083152 ATATATATTT
1 ATATATATTT
59083162 ATAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.09
19 18 0.78
20 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
ATATATATTTTGATGTATT
Found at i:59083143 original size:19 final size:20
Alignment explanation
Indices: 59083121--59083161 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
59083111 AAAATATTTA
* *
59083121 TTTTGATTTATTTTA-ATAT
1 TTTTGATGTATTATATATAT
59083140 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
59083160 TT
1 TT
59083162 ATAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:59085864 original size:19 final size:18
Alignment explanation
Indices: 59085833--59085870 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
59085823 TTCCTAAACA
59085833 TATTCTCCTCTCTTCTTC
1 TATTCTCCTCTCTTCTTC
*
59085851 TATTCTCTCTCTCTTTTTC
1 TATTCTC-CTCTCTTCTTC
59085870 T
1 T
59085871 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTCTCCTCTCTTCTTC
Found at i:59088254 original size:3 final size:3
Alignment explanation
Indices: 59088195--59088228 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
59088185 CAAAAATGGC
* *
59088195 AAT AAC AAT GAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
59088229 TAACGTAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:59088656 original size:16 final size:17
Alignment explanation
Indices: 59088637--59088671 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
59088627 TTAATAACTT
59088637 TACATATAAATAT-ATA
1 TACATATAAATATGATA
*
59088653 TACATATAAGTATGATA
1 TACATATAAATATGATA
59088670 TA
1 TA
59088672 AGTATGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
TACATATAAATATGATA
Found at i:59088672 original size:11 final size:11
Alignment explanation
Indices: 59088656--59088680 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59088646 ATATATATAC
59088656 ATATAAGTATG
1 ATATAAGTATG
59088667 ATATAAGTATG
1 ATATAAGTATG
59088678 ATA
1 ATA
59088681 AATAGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (11 bp):
ATATAAGTATG
Found at i:59088760 original size:24 final size:24
Alignment explanation
Indices: 59088693--59088749 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
59088683 TAGTAATTAT
* * * *
59088693 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
59088717 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
59088741 AATAATAAT
1 AATAATAAT
59088750 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:59089126 original size:28 final size:29
Alignment explanation
Indices: 59089094--59089149 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
59089084 ATATTATTAT
*
59089094 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
59089122 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
59089150 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:59089131 original size:19 final size:20
Alignment explanation
Indices: 59089083--59089132 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
59089073 CTTAGATTTT
59089083 TATATTATT-ATTATATAAA
1 TATATTATTAATTATATAAA
* *
59089102 TATATAAATTAATTATA-AAG
1 TATAT-TATTAATTATATAAA
59089122 TATATTATTAA
1 TATATTATTAA
59089133 ATTAATTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 10 0.38
21 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TATATTATTAATTATATAAA
Found at i:59089931 original size:18 final size:18
Alignment explanation
Indices: 59089908--59089950 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
59089898 ATGTGAGGTA
59089908 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
59089926 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
59089944 ATTATTA
1 AGTATTA
59089951 TGAGTGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:59089951 original size:6 final size:6
Alignment explanation
Indices: 59089908--59089950 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
59089898 ATGTGAGGTA
* * *
59089908 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
59089951 TGAGTGGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:59090136 original size:24 final size:25
Alignment explanation
Indices: 59090104--59090163 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
59090094 GTGATTAATT
59090104 ATTG-ATTGAAAG-GTGGAAAAA-TG
1 ATTGAATTGAAAGTGT-GAAAAAGTG
59090127 ATTGAATTGAAAGTGTGAAAAAGTGTG
1 ATTGAATTGAAAGTGTGAAAAA--GTG
59090154 ATTGAATTGA
1 ATTGAATTGA
59090164 GAATATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.12
24 14 0.44
25 2 0.06
27 12 0.38
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (25 bp):
ATTGAATTGAAAGTGTGAAAAAGTG
Found at i:59090366 original size:37 final size:39
Alignment explanation
Indices: 59090307--59090402 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
59090297 CGGATAGATT
* * * *
59090307 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
59090344 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
59090383 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
59090403 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:59096421 original size:28 final size:29
Alignment explanation
Indices: 59096390--59096445 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
59096380 TATTATTATT
*
59096390 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
59096418 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
59096446 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:59097227 original size:18 final size:18
Alignment explanation
Indices: 59097204--59097246 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
59097194 ATGTGAGGTA
59097204 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
59097222 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
59097240 ATTATTA
1 AGTATTA
59097247 TGAGTGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:59097247 original size:6 final size:6
Alignment explanation
Indices: 59097204--59097246 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
59097194 ATGTGAGGTA
* * *
59097204 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
59097247 TGAGTGGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:59097431 original size:24 final size:25
Alignment explanation
Indices: 59097399--59097458 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
59097389 CGGATTAATT
59097399 ATTG-ATTGAAAG-GTGGAAAAA-TG
1 ATTGAATTGAAAGTGT-GAAAAAGTG
59097422 ATTGAATTGAAAGTGTGAAAAAGTGTG
1 ATTGAATTGAAAGTGTGAAAAA--GTG
59097449 ATTGAATTGA
1 ATTGAATTGA
59097459 GAATATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.12
24 14 0.44
25 2 0.06
27 12 0.38
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (25 bp):
ATTGAATTGAAAGTGTGAAAAAGTG
Found at i:59097661 original size:37 final size:39
Alignment explanation
Indices: 59097602--59097697 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
59097592 CGGATAGATT
* * * *
59097602 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
59097639 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
59097678 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
59097698 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:59101538 original size:7 final size:7
Alignment explanation
Indices: 59101528--59101574 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
59101518 TATGAATTAT
59101528 GATATTG
1 GATATTG
59101535 GATATTG
1 GATATTG
59101542 GATATTG
1 GATATTG
59101549 GATATTG
1 GATATTG
59101556 GATATTG
1 GATATTG
59101563 GATATTG
1 GATATTG
59101570 GATAT
1 GATAT
59101575 GAATTGATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.43
Consensus pattern (7 bp):
GATATTG
Found at i:59110608 original size:192 final size:193
Alignment explanation
Indices: 59110281--59110668 Score: 672
Period size: 192 Copynumber: 2.0 Consensus size: 193
59110271 CTTAGCTCAG
*
59110281 TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCG
1 TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCA
* ** *
59110346 GCAGGTCGGAATTTTTTTTAACTATACTTTTATAATTGGGTTAATATGCGCTTTGATATCTTAAT
66 GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACGCTTTGATATCTTAAT
*
59110411 TTTGCTTCAATGTTCAATTTAGCAACCGGGTCTTTTTT-TT-TTAATCAATTTGGTACATATGT
131 TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATT-ATCAATTTGGTACATATGT
* *
59110473 TTGGTAGAGCGGAGGACTGTAGTGGTAAATGTCAGAGCAATCGTTAGGTCGCTGGTTCGAATCCA
1 TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCA
*
59110538 GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACTCTTTGATATCTTAAT
66 GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACGCTTTGATATCTTAAT
59110603 TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATTATCAATTTGGTACATATGT
131 TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATTATCAATTTGGTACATATGT
59110666 TTG
1 TTG
59110669 ATTTCAATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
192 159 0.86
193 24 0.13
194 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (193 bp):
TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCA
GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACGCTTTGATATCTTAAT
TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATTATCAATTTGGTACATATGT
Found at i:59114813 original size:12 final size:12
Alignment explanation
Indices: 59114798--59114823 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59114788 TAAGTTTATT
59114798 TATATATATACA
1 TATATATATACA
59114810 TATATATATACA
1 TATATATATACA
59114822 TA
1 TA
59114824 ATTTGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:59115838 original size:132 final size:132
Alignment explanation
Indices: 59115502--59115888 Score: 451
Period size: 130 Copynumber: 2.9 Consensus size: 132
59115492 ATAATTATTC
* *
59115502 TTCTAAAAATCCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATTGTGTCCTAA
1 TTCTAAAAATCC-TTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAA
* * *
59115567 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCATTTAGAATTTCACCCATG
65 CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAGGTCCATTTAGAAATTCACCCATG
59115632 TCT
130 TCT
* * * *
59115635 TT-T-AAAATCCTTTAAACGAAGGCGATGTTCGATATTTGACAATTCGCAGAATCGTGCCCTAAC
1 TTCTAAAAATCCTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
* * * * **
59115698 GTGCTGGGTTGTAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTTGAAATTCACTTATGT
66 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAGGTCCATTTAGAAATTCACCCATGT
59115763 -T
131 CT
* * * * * *
59115764 TTCTAAAAACCCTTCAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 TTCTAAAAATCCTT-AAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAA
* * * * * * *
59115829 CGTGCTGGGTAGCGATTTCTTGCTTGGC-CAAAATGATCGAAGATTCC-TTTAGAATTTCAC
65 CGTGCTGGGTTGCAATTTCTCG-TTTGCTCAAAATAATCGAAG-GTCCATTTAGAAATTCAC
59115889 TCATACTCTC
Statistics
Matches: 214, Mismatches: 35, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
129 3 0.01
130 104 0.49
131 15 0.07
132 84 0.39
133 8 0.04
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (132 bp):
TTCTAAAAATCCTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAGGTCCATTTAGAAATTCACCCATGT
CT
Found at i:59115901 original size:132 final size:128
Alignment explanation
Indices: 59115503--59115902 Score: 413
Period size: 132 Copynumber: 3.0 Consensus size: 128
59115493 TAATTATTCT
* *
59115503 TCTAAAAATCCTTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATTGTGTCCTAAC
1 TCTAAAAATCC-TTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
* * * * * *
59115568 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCATTTAGAATTTCACCCATGT
65 GTGCTGGGTTGCAATTTCTCGTTGGC-CAAAATAATCGAAGTTCC-TTTAGAATTTCACTCATCT
59115633 C
128 C
* * * * * *
59115634 TTTTAAAATCCTTTAAACGAAGGCGATGTTCGATATTTGACAATTCGCAGAATCGTGCCCTAACG
1 TCTAAAAATCCTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACG
* ** * * * * *
59115699 TGCTGGGTTGTAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTTGAAATTCACTTATGTT
66 TGCTGGGTTGCAATTTCTCG-TTGGCCAAAATAATCGAA-GTTCCTTTAGAATTTCACTCAT-CT
*
59115764 T
128 C
* * * * * *
59115765 TCTAAAAACCCTTCAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TCTAAAAATCCTT-AAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAAC
* * * *
59115830 GTGCTGGGTAGCGATTTCTTGCTTGGCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCATAC
65 GTGCTGGGTTGCAATTTCTCG-TTGGCCAAAATAATCGAAG-TTCCTTTAGAATTTCACTCAT-C
59115895 TC
127 TC
59115897 TCTAAA
1 TCTAAA
59115903 TTCTAAAATA
Statistics
Matches: 215, Mismatches: 49, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
130 91 0.42
131 26 0.12
132 98 0.46
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (128 bp):
TCTAAAAATCCTTAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACG
TGCTGGGTTGCAATTTCTCGTTGGCCAAAATAATCGAAGTTCCTTTAGAATTTCACTCATCTC
Found at i:59118033 original size:20 final size:20
Alignment explanation
Indices: 59117996--59118052 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
59117986 ATTTATCATT
*
59117996 ATTATTATTCTATCAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
59118018 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
59118038 ATTATTATTATTAAA
1 ATTATTATTATTAAA
59118053 AATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 23 0.74
21 3 0.10
22 5 0.16
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:59118181 original size:18 final size:17
Alignment explanation
Indices: 59118158--59118198 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
59118148 TATTTAAGTA
**
59118158 AAAATATTTTATTATATT
1 AAAATATTAAATTATA-T
59118176 AAAATATTAAATTATAT
1 AAAATATTAAATTATAT
59118193 AAAATA
1 AAAATA
59118199 AATAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTAAATTATAT
Found at i:59118342 original size:13 final size:14
Alignment explanation
Indices: 59118324--59118370 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
59118314 TTATTAAGTT
59118324 AATAAAATAAAAG-
1 AATAAAATAAAAGA
*
59118337 AATAAAATAAATGA
1 AATAAAATAAAAGA
59118351 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
*
59118364 AACAAAA
1 AATAAAA
59118371 CAAAGTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 22 0.73
14 8 0.27
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:59119192 original size:21 final size:21
Alignment explanation
Indices: 59119167--59119232 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
59119157 TTGTTTGGAA
59119167 TACTGCATTGAATTGTGAAGT
1 TACTGCATTGAATTGTGAAGT
* * *
59119188 TACTG-AAT--ATTGTTATGT
1 TACTGCATTGAATTGTGAAGT
* *
59119206 GTACTGCATTGAACTGTGAAAT
1 -TACTGCATTGAATTGTGAAGT
59119228 TACTG
1 TACTG
59119233 AAGTAATGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 8 0.24
19 5 0.15
20 4 0.12
21 10 0.30
22 6 0.18
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (21 bp):
TACTGCATTGAATTGTGAAGT
Found at i:59119199 original size:40 final size:40
Alignment explanation
Indices: 59119148--59119234 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
59119138 AATTATGGAA
* *
59119148 TACTGAATATTGTT-TG-GAATACTGCATTGAATTGTGAAGT
1 TACTGAATATTGTTATGTG--TACTGCATTGAACTGTGAAAT
59119188 TACTGAATATTGTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATGTGTACTGCATTGAACTGTGAAAT
59119228 TACTGAA
1 TACTGAA
59119235 GTAATGAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 40 0.93
41 2 0.05
42 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (40 bp):
TACTGAATATTGTTATGTGTACTGCATTGAACTGTGAAAT
Found at i:59119506 original size:45 final size:45
Alignment explanation
Indices: 59119438--59119526 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
59119428 GCCGACTATT
* *
59119438 GTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCGACACTTTGTGAGTCGAATACTGTTACC
*
59119483 GTTACTGTTACAGATTC-AGCACTTTGTGAGTTGAATACTGTTAC
1 GTTACTGTTACAGATTCGA-CACTTTGTGAGTCGAATACTGTTAC
59119527 TATTGCTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (45 bp):
GTTACTGTTACAGATTCGACACTTTGTGAGTCGAATACTGTTACC
Found at i:59119536 original size:45 final size:45
Alignment explanation
Indices: 59119439--59119538 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
59119429 CCGACTATTG
* * *
59119439 TTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGTTACAGATTCGACACTTTGTGAGTCGAATACTGTTACCA
* *
59119484 TTACTGTTACAGATTC-AGCACTTTGTGAGTTGAATACTGTTACTA
1 TTACTGTTACAGATTCGA-CACTTTGTGAGTCGAATACTGTTACCA
*
59119529 TTGCTGTTAC
1 TTACTGTTAC
59119539 TGCTACCGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
TTACTGTTACAGATTCGACACTTTGTGAGTCGAATACTGTTACCA
Found at i:59119694 original size:18 final size:18
Alignment explanation
Indices: 59119660--59119695 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59119650 GGGACAAATG
* *
59119660 AAATAAATTTTACTGATA
1 AAATAAATTTGAATGATA
59119678 AAATAAATTTGAATGATA
1 AAATAAATTTGAATGATA
59119696 TGGCATATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (18 bp):
AAATAAATTTGAATGATA
Found at i:59120310 original size:16 final size:17
Alignment explanation
Indices: 59120279--59120311 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59120269 TTCATAAGTA
59120279 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
59120296 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
59120312 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:59120750 original size:46 final size:46
Alignment explanation
Indices: 59120596--59120735 Score: 201
Period size: 46 Copynumber: 3.0 Consensus size: 46
59120586 TTTGACATGA
* * * * *
59120596 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
* *
59120642 TGCCATGGTATCTTTCAACCATTGTCTTATTCTTTTCATGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
59120688 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
59120734 TG
1 TG
59120736 GTCTTATTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
45 5 0.06
46 79 0.94
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.45
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Done.