Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 323 of 444
Found at i:93152435 original size:40 final size:40
Alignment explanation
Indices: 93152380--93152461 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
93152370 TATGTGCATA
93152380 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
93152420 GCATTTGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
93152460 GC
1 GC
93152462 GTTAAGTCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:93152467 original size:16 final size:16
Alignment explanation
Indices: 93152446--93152477 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93152436 TTATAACCGG
93152446 GTTAAGTCCCGAAGGC
1 GTTAAGTCCCGAAGGC
*
93152462 GTTAAGTCTCGAAGGC
1 GTTAAGTCCCGAAGGC
93152478 ATTCGTGCGG
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:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (16 bp):
GTTAAGTCCCGAAGGC
Found at i:93152468 original size:56 final size:56
Alignment explanation
Indices: 93152406--93152517 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
93152396 TTATAACCGG
*
93152406 GTTAAGTCCCGAAGGCATTTGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
1 GTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
93152462 GTTAAGTCTCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
1 GTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
93152518 ATTCGTGCTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (56 bp):
GTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
Found at i:93152508 original size:40 final size:40
Alignment explanation
Indices: 93152462--93152540 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
93152452 TCCCGAAGGC
*
93152462 GTTAAGTCTCGAAGGCATTCGTGCGGGTTATTATAACCGG
1 GTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGG
* *
93152502 GTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATAACCG
1 GTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
93152541 AGCCAAATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGG
Found at i:93152554 original size:40 final size:40
Alignment explanation
Indices: 93152471--93152554 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
93152461 CGTTAAGTCT
* ** *
93152471 CGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCC
1 CGAAGGCATTCGTGCGGGTTATTATAACCGAGCCAAATCC
* * *
93152511 CGAAGGCATTCGTGCTGGTTGTTATAACCGAGCCAAATTC
1 CGAAGGCATTCGTGCGGGTTATTATAACCGAGCCAAATCC
93152551 CGAA
1 CGAA
93152555 AGTATTTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTCGTGCGGGTTATTATAACCGAGCCAAATCC
Found at i:93152554 original size:96 final size:96
Alignment explanation
Indices: 93152380--93152554 Score: 278
Period size: 96 Copynumber: 1.8 Consensus size: 96
93152370 TATGTGCATA
*
93152380 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
* ** *
93152445 GGTTAAGTCCCGAAGGCGTTAAGTCTCGAAG
66 AGCCAAATCCCGAAGGCGTTAAGTCTCGAAG
* *
93152476 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
*
93152541 AGCCAAATTCCGAA
66 AGCCAAATCCCGAA
93152555 AGTATTTATG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (96 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
AGCCAAATCCCGAAGGCGTTAAGTCTCGAAG
Found at i:93154053 original size:20 final size:21
Alignment explanation
Indices: 93154028--93154067 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
93154018 TCTATTGTTA
93154028 AAATAATATATT-TTAAAATT
1 AAATAATATATTATTAAAATT
*
93154048 AAATAATATTTTATTAAAAT
1 AAATAATATATTATTAAAAT
93154068 ACTAAGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATAATATATTATTAAAATT
Found at i:93159710 original size:14 final size:14
Alignment explanation
Indices: 93159688--93159725 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
93159678 TCTAGTTAGC
*
93159688 AAATTTAAAATTTA
1 AAATATAAAATTTA
93159702 AAATATAAAATTTA
1 AAATATAAAATTTA
93159716 ATAA-ATAAAA
1 A-AATATAAAA
93159726 AATCTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATAAAATTTA
Found at i:93160661 original size:25 final size:25
Alignment explanation
Indices: 93160619--93160667 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93160609 ATTCAAAAAA
* * *
93160619 TTTATAAAAATTCCAAAATTTATAT
1 TTTAAAAAAATTACAAAAATTATAT
*
93160644 TTTAAAAAAATTATAAAAATTATA
1 TTTAAAAAAATTACAAAAATTATA
93160668 AAAATCTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTAAAAAAATTACAAAAATTATAT
Found at i:93161200 original size:13 final size:13
Alignment explanation
Indices: 93161169--93161200 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
93161159 AGAGAGAAGA
93161169 TTAAGAGAGAGTT
1 TTAAGAGAGAGTT
93161182 TT--GAGAGAGTT
1 TTAAGAGAGAGTT
93161193 TTAAGAGA
1 TTAAGAGA
93161201 TTTTAGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
TTAAGAGAGAGTT
Found at i:93163931 original size:43 final size:41
Alignment explanation
Indices: 93163831--93163940 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 41
93163821 GGTTTATGTA
** * * * *
93163831 TAAGACCATATCTGGGACATTGGCATCGTATTTGATTCGTG
1 TAAGACCACGTCTGGGATAGTGGCATCATATTTGATTCATG
*
93163872 TAAGACC-CTGTTTGGGATAGTGGCATCAATATTTGATTACATG
1 TAAGACCAC-GTCTGGGATAGTGGCATC-ATATTTGATT-CATG
93163915 TAAGACCACGTCTGGGAT-GTTGGCAT
1 TAAGACCACGTCTGGGATAG-TGGCAT
93163941 TGTATGAGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
41 21 0.38
42 10 0.18
43 24 0.43
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
TAAGACCACGTCTGGGATAGTGGCATCATATTTGATTCATG
Found at i:93171904 original size:19 final size:18
Alignment explanation
Indices: 93171882--93171945 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
93171872 TATGTAAGTA
93171882 AAAATTCATTAAAAATTAT
1 AAAATTCA-TAAAAATTAT
* *
93171901 AAAAATCATAAAATTTATT
1 AAAATTCATAAAAATTA-T
* *
93171920 ATAATTTATAAAATATTAT
1 AAAATTCATAAAA-ATTAT
93171939 GAAAATT
1 -AAAATT
93171946 ATTATTTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 8 0.23
19 19 0.54
20 8 0.23
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTCATAAAAATTAT
Found at i:93171905 original size:9 final size:9
Alignment explanation
Indices: 93171880--93171947 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
93171870 ATTATGTAAG
93171880 TAAAAATTCA
1 TAAAAATT-A
93171890 TTAAAAATTA
1 -TAAAAATTA
*
93171900 TAAAAATCA
1 TAAAAATTA
*
93171909 TAAAATTTA
1 TAAAAATTA
* *
93171918 TTATAATTTA
1 -TAAAAATTA
93171928 TAAAATATTA
1 TAAAA-ATTA
*
93171938 TGAAAATTA
1 TAAAAATTA
93171947 T
1 T
93171948 TATTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 24 0.50
10 16 0.33
11 8 0.17
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (9 bp):
TAAAAATTA
Found at i:93171913 original size:29 final size:28
Alignment explanation
Indices: 93171882--93171949 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
93171872 TATGTAAGTA
93171882 AAAATTCATTAAAAATTATAAAA-ATCAT
1 AAAATT-ATTAAAAATTATAAAATATCAT
* * *
93171910 AAAATTTATTATAATTTATAAAATATTAT
1 AAAA-TTATTAAAAATTATAAAATATCAT
93171939 GAAAATTATTA
1 -AAAATTATTA
93171950 TTTAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 18 0.53
29 12 0.35
30 4 0.12
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (28 bp):
AAAATTATTAAAAATTATAAAATATCAT
Found at i:93171918 original size:18 final size:20
Alignment explanation
Indices: 93171880--93171949 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
93171870 ATTATGTAAG
93171880 TAAAAATTCATTAAAAATTA
1 TAAAAATTCATTAAAAATTA
*
93171900 TAAAAA-TCA-TAAAATTTA
1 TAAAAATTCATTAAAAATTA
* * *
93171918 TTATAATTTA-TAAAATATTA
1 TAAAAATTCATTAAAA-ATTA
*
93171938 TGAAAATT-ATTA
1 TAAAAATTCATTA
93171950 TTTAATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
18 12 0.30
19 11 0.28
20 17 0.43
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (20 bp):
TAAAAATTCATTAAAAATTA
Found at i:93172034 original size:19 final size:20
Alignment explanation
Indices: 93172002--93172039 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
93171992 ATTTTTCTAA
93172002 AAAAAATTATTAAAAATATT
1 AAAAAATTATTAAAAATATT
*
93172022 AAAAAGTTA-TAAAAATAT
1 AAAAAATTATTAAAAATAT
93172040 ATAACTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAAAATTATTAAAAATATT
Found at i:93174154 original size:14 final size:14
Alignment explanation
Indices: 93174135--93174161 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93174125 ATTTTTATTT
93174135 TCATTTTTAAAATA
1 TCATTTTTAAAATA
93174149 TCATTTTTAAAAT
1 TCATTTTTAAAAT
93174162 TTTCAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TCATTTTTAAAATA
Found at i:93183619 original size:2 final size:2
Alignment explanation
Indices: 93183612--93183649 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
93183602 GTTATACATG
93183612 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93183650 CTGAGATAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93192194 original size:18 final size:18
Alignment explanation
Indices: 93192171--93192215 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
93192161 TTGTGTACGA
93192171 CACACGGGTGTGTGGGTC
1 CACACGGGTGTGTGGGTC
93192189 CACACGGGTGTGTGGGTC
1 CACACGGGTGTGTGGGTC
93192207 CACACGGGT
1 CACACGGGT
93192216 AGTCTACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.42, T:0.20
Consensus pattern (18 bp):
CACACGGGTGTGTGGGTC
Found at i:93195695 original size:37 final size:36
Alignment explanation
Indices: 93195654--93195753 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 36
93195644 TAAACACTAG
* *
93195654 TCAGTATAATAGTAAAATTTGCTCTGTTGAG-TTCCAT
1 TCAGTATAA-AGTAAGATTTGCTCGGTTGAGCTT-CAT
* * *
93195691 TCAGTATAACGATATGACTTGCTCGGTTGAGCTTCAT
1 TCAGTATAAAG-TAAGATTTGCTCGGTTGAGCTTCAT
93195728 TCAGTATAACAGTAAGATTTGGCTCG
1 TCAGTATAA-AGTAAGATTT-GCTCG
93195754 ATAGAGCCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
36 1 0.02
37 42 0.82
38 8 0.16
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (36 bp):
TCAGTATAAAGTAAGATTTGCTCGGTTGAGCTTCAT
Found at i:93201982 original size:22 final size:20
Alignment explanation
Indices: 93201957--93202002 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
93201947 CCTAATTTCT
*
93201957 ATATCAAACCCTAAAATTTTTA
1 ATAT-AAACCC-AAAATATTTA
*
93201979 ATATAAATCCAAAATATTTA
1 ATATAAACCCAAAATATTTA
93201999 ATAT
1 ATAT
93202003 GTATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 5 0.23
22 4 0.18
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAACCCAAAATATTTA
Found at i:93202943 original size:15 final size:17
Alignment explanation
Indices: 93202925--93202956 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
93202915 TAGCATAATT
93202925 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
93202940 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
93202957 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:93207721 original size:13 final size:13
Alignment explanation
Indices: 93207703--93207727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93207693 TATGTGATAT
93207703 GTGTGAAAATTTC
1 GTGTGAAAATTTC
93207716 GTGTGAAAATTT
1 GTGTGAAAATTT
93207728 TATCTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:93208935 original size:42 final size:41
Alignment explanation
Indices: 93208813--93208940 Score: 148
Period size: 44 Copynumber: 3.0 Consensus size: 41
93208803 TTCTGATATG
* *
93208813 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGATA
* *
93208854 TGAGATTTACGAGTAAGACCATGTTTGGGACATTAGCATCGTATA
1 T--GATTT-CGTGTAAGACCATGTTTGGGACATTGGCATCG-ATA
* * * *
93208899 TGATTTCGTGTAAGACCCTGTTTAGGTCAGTGGCATCGATA
1 TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGATA
93208940 T
1 T
93208941 TTGATAACAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.07
42 26 0.36
43 10 0.14
44 29 0.40
45 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGATA
Found at i:93218558 original size:13 final size:13
Alignment explanation
Indices: 93218540--93218567 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93218530 CCCTCATCTA
93218540 AAGATAAGATATT
1 AAGATAAGATATT
93218553 AAGATAAGATATT
1 AAGATAAGATATT
93218566 AA
1 AA
93218568 AAAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (13 bp):
AAGATAAGATATT
Found at i:93223589 original size:12 final size:11
Alignment explanation
Indices: 93223566--93223624 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 11
93223556 GAAGTCTAAG
*
93223566 AAAATAACAAT
1 AAAATAAAAAT
93223577 AAACATAAAAAT
1 AAA-ATAAAAAT
*
93223589 AGAAATAAAACT
1 A-AAATAAAAAT
93223601 AAAA-ACAAAAT
1 AAAATA-AAAAT
93223612 AAAAT-AAAAT
1 AAAATAAAAAT
93223622 AAA
1 AAA
93223625 TGGACTCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.22
11 14 0.34
12 16 0.39
13 2 0.05
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:93223589 original size:18 final size:16
Alignment explanation
Indices: 93223566--93223624 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 16
93223556 GAAGTCTAAG
93223566 AAAATAACAATAAACATA
1 AAAATAA-AATAAA-ATA
93223584 AAAATAGAAATAAAACTA
1 AAAATA-AAATAAAA-TA
*
93223602 AAAACAAAATAAAAT-
1 AAAATAAAATAAAATA
93223617 AAAATAAA
1 AAAATAAA
93223625 TGGACTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
15 7 0.19
16 1 0.03
17 9 0.24
18 19 0.51
19 1 0.03
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:93223603 original size:6 final size:5
Alignment explanation
Indices: 93223566--93223624 Score: 55
Period size: 5 Copynumber: 10.6 Consensus size: 5
93223556 GAAGTCTAAG
*
93223566 AAAAT AACAAT AAACAT AAAAAT AGAAAT AAAACT AAAAAC AAAAT AAAAT
1 AAAAT AA-AAT AAA-AT -AAAAT A-AAAT AAAA-T -AAAAT AAAAT AAAAT
93223617 AAAAT AAA
1 AAAAT AAA
93223625 TGGACTCAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
5 24 0.52
6 15 0.33
7 7 0.15
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:93227846 original size:25 final size:26
Alignment explanation
Indices: 93227799--93227849 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
93227789 TAAATAAAAA
* *
93227799 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAATAAAACAAATAT
93227825 ATTTAAAAACATAA-AAAACAAATAT
1 ATTTAAAAACATAATAAAACAAATAT
93227850 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (26 bp):
ATTTAAAAACATAATAAAACAAATAT
Found at i:93227849 original size:23 final size:25
Alignment explanation
Indices: 93227799--93227864 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
93227789 TAAATAAAAA
* *
93227799 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAAAATAA-AAAACAAATAT
*
93227825 ATTTAAAAACATAAAAAAC-AA-AT
1 ATTTAAAAAAATAAAAAACAAATAT
93227848 A-TTAAAACAAATAAAAA
1 ATTTAAAA-AAATAAAAA
93227865 TAATACTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.17
23 11 0.31
24 2 0.06
25 4 0.11
26 13 0.36
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (25 bp):
ATTTAAAAAAATAAAAAACAAATAT
Found at i:93243801 original size:30 final size:30
Alignment explanation
Indices: 93243767--93243827 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
93243757 CCCCTAGTAC
93243767 AAACT-TTGGCAAAATTATCA-TTTTGCCCCT
1 AAACTGTT-GCAAAATTA-CACTTTTGCCCCT
* *
93243797 AAACTGTTGCATATTTACACTTTTGCCCCT
1 AAACTGTTGCAAAATTACACTTTTGCCCCT
93243827 A
1 A
93243828 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.07
30 23 0.85
31 2 0.07
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTGTTGCAAAATTACACTTTTGCCCCT
Found at i:93247470 original size:17 final size:16
Alignment explanation
Indices: 93247448--93247479 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
93247438 CCTTCTCACT
93247448 TTTTCTTTTCTTCCATC
1 TTTTCTTTTC-TCCATC
93247465 TTTTCTTTTCTCCAT
1 TTTTCTTTTCTCCAT
93247480 AGCCGAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTCTTTTCTCCATC
Found at i:93248408 original size:27 final size:26
Alignment explanation
Indices: 93248373--93248434 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
93248363 ATTTACTAAA
93248373 ATACCCCTAAGTATGAAAATAACCATT
1 ATACCCCTAAGTAT-AAAATAACCATT
* * * *
93248400 ATACTCCTAGGTGTAAAATTACCATT
1 ATACCCCTAAGTATAAAATAACCATT
93248426 ATACCCCTA
1 ATACCCCTA
93248435 TGGTTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (26 bp):
ATACCCCTAAGTATAAAATAACCATT
Found at i:93248610 original size:27 final size:26
Alignment explanation
Indices: 93248538--93248652 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
93248528 TGGAGGAAGC
93248538 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
93248565 GTTTCTGGTGGTTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
** *
93248593 GTTCTGGTGGCTCCGCCACAATATTT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
93248619 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
93248646 GTTCTGG
1 GTTCTGG
93248653 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.17
27 38 0.49
28 26 0.34
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:93252056 original size:42 final size:42
Alignment explanation
Indices: 93251997--93252085 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
93251987 TCCTAATTGG
93251997 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
93252039 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
93252081 TAAAA
1 GAAAA
93252086 AATATACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:93252133 original size:19 final size:18
Alignment explanation
Indices: 93252111--93252150 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
93252101 TGAATAAAAC
93252111 TTATCTACCTAAATAACAT
1 TTATCTACCTAAATAA-AT
93252130 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
93252148 TTA
1 TTA
93252151 AATTATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:93253984 original size:18 final size:17
Alignment explanation
Indices: 93253956--93253989 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
93253946 TAACAACTAG
*
93253956 AATAAAACAACCATAAA
1 AATAAAACAACAATAAA
93253973 AATAATAACAACAATAA
1 AATAA-AACAACAATAA
93253990 CAACATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (17 bp):
AATAAAACAACAATAAA
Found at i:93259148 original size:30 final size:30
Alignment explanation
Indices: 93259107--93259164 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
93259097 TGGCTCATTT
*
93259107 CATCTATAAGAATTTCCATTACCATGATCA
1 CATCTACAAGAATTTCCATTACCATGATCA
93259137 CATCTACAAGAATTTCCATTACCATGAT
1 CATCTACAAGAATTTCCATTACCATGAT
93259165 TATAATCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (30 bp):
CATCTACAAGAATTTCCATTACCATGATCA
Found at i:93259458 original size:186 final size:185
Alignment explanation
Indices: 93259137--93259676 Score: 769
Period size: 186 Copynumber: 2.9 Consensus size: 185
93259127 ACCATGATCA
*
93259137 CATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCACA
1 CATCTACAAGAATTTCCATTACCATGATTACAATCATGCTTTTGTGTAATTTTTGTAAACCCACA
* * * * * * *
93259202 CCACACGTTCACCTTAAAATCATTGTTTTTTCCCTCCACTATCAGCTGCCATTTTTTTCCTCTTA
66 CCACACTTTCAACTTAAAATCATTGGTTTTTCCCTCAACTGTCGGCTGCCATTTTTTT-CTCTCA
* *
93259267 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAATATATGGTTGGCTCATTT
130 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
* * * * *
93259323 CATCTATAAGAATTTCCATTACTATGGTTACAATAATGCTTTTGTGTAATTTTTGTAAACGCACA
1 CATCTACAAGAATTTCCATTACCATGATTACAATCATGCTTTTGTGTAATTTTTGTAAACCCACA
*
93259388 CCACACTTTCAACTTAAAATCATTGGTTTTTCCCTCAATTGTCGGCTGCCATTTTTTCTCTCTCA
66 CCACACTTTCAACTTAAAATCATTGGTTTTTCCCTCAACTGTCGGCTGCCATTTTTT-TCTCTCA
*
93259453 TTTTCTCTCTTCCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
130 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
* * * * * * **
93259509 CGTCTGCAAGAATTTCCATCACGATGATTACAATCATGCTTTCGTGCAATTTTTTGTAAACTTAC
1 CATCTACAAGAATTTCCATTACCATGATTACAATCATGCTTTTGTGTAA-TTTTTGTAAACCCAC
* * *
93259574 ACCACACTTTCAACTTAAAATCATT-GTTTTTACCT-TACTGTCGACTGCCATTTTTTTCTCTCA
65 ACCACACTTTCAACTTAAAATCATTGGTTTTTCCCTCAACTGTCGGCTGCCATTTTTTTCTCTCA
* *
93259637 TTTTCTCTCTTGCCAAACAGCATTTTTATTCTTCAAAACA
130 TTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACA
93259677 AAACATCTGG
Statistics
Matches: 317, Mismatches: 35, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
184 44 0.14
185 18 0.06
186 216 0.68
187 39 0.12
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (185 bp):
CATCTACAAGAATTTCCATTACCATGATTACAATCATGCTTTTGTGTAATTTTTGTAAACCCACA
CCACACTTTCAACTTAAAATCATTGGTTTTTCCCTCAACTGTCGGCTGCCATTTTTTTCTCTCAT
TTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTCATTT
Found at i:93260020 original size:14 final size:15
Alignment explanation
Indices: 93259993--93260021 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
93259983 ACAGTTAGAG
93259993 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
93260008 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
93260022 AAATGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:93265104 original size:26 final size:26
Alignment explanation
Indices: 93265053--93265109 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
93265043 ATTTATGTTT
* **
93265053 TTAAATAATATAAGAAAATATTAAAA
1 TTAAAAAATATAAGAAAATAAGAAAA
93265079 TTAAAAAATAT-AGAAAAATAAGAAAA
1 TTAAAAAATATAAG-AAAATAAGAAAA
*
93265105 ATAAA
1 TTAAA
93265110 GGAATAGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (26 bp):
TTAAAAAATATAAGAAAATAAGAAAA
Found at i:93269136 original size:18 final size:19
Alignment explanation
Indices: 93269113--93269157 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
93269103 TCTTTTTCAG
*
93269113 TTTAATTAATTTAAAATT-
1 TTTAATTAAGTTAAAATTA
93269131 TTTAATT-AGTTAAAATTA
1 TTTAATTAAGTTAAAATTA
*
93269149 ATTAATTAA
1 TTTAATTAA
93269158 AAATTTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.39
18 13 0.57
19 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTAATTAAGTTAAAATTA
Found at i:93276214 original size:19 final size:20
Alignment explanation
Indices: 93276190--93276227 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
93276180 AATTAGATAT
93276190 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
93276209 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
93276228 TGAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:93276423 original size:17 final size:16
Alignment explanation
Indices: 93276396--93276465 Score: 74
Period size: 15 Copynumber: 4.4 Consensus size: 16
93276386 TTTACTTATT
93276396 ATATAAGTAAATAATA
1 ATATAAGTAAATAATA
*
93276412 ATATAGAGTAAATTATA
1 ATATA-AGTAAATAATA
93276429 ATATAA-TAATATAATA
1 ATATAAGTAA-ATAATA
*
93276445 GT-TAA-TAATATAATA
1 ATATAAGTAA-ATAATA
93276460 ATATAA
1 ATATAA
93276466 TAATAAAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
15 17 0.36
16 15 0.32
17 15 0.32
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
ATATAAGTAAATAATA
Found at i:93276436 original size:28 final size:31
Alignment explanation
Indices: 93276397--93276471 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 31
93276387 TTACTTATTA
*
93276397 TATAAGTA-AATAATAAT-ATAG-AGTAA-AT
1 TATAA-TATAATAATAATAATAGTAATAATAT
93276425 TATAATATAATAAT-ATAATAGTTAATAATAT
1 TATAATATAATAATAATAATAG-TAATAATAT
*
93276456 AATAATATAATAATAA
1 TATAATATAATAATAA
93276472 AAGAATAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 4 0.10
28 15 0.38
30 4 0.10
31 15 0.38
32 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (31 bp):
TATAATATAATAATAATAATAGTAATAATAT
Found at i:93276439 original size:8 final size:8
Alignment explanation
Indices: 93276396--93276470 Score: 84
Period size: 8 Copynumber: 9.4 Consensus size: 8
93276386 TTTACTTATT
93276396 ATATAAGTA
1 ATATAA-TA
93276405 A-ATAATA
1 ATATAATA
93276412 ATATAGAGTA
1 ATATA-A-TA
*
93276422 A-ATTATA
1 ATATAATA
93276429 ATATAATA
1 ATATAATA
93276437 ATATAATA
1 ATATAATA
*
93276445 GT-TAATA
1 ATATAATA
93276452 ATATAATA
1 ATATAATA
93276460 ATATAATA
1 ATATAATA
93276468 ATA
1 ATA
93276471 AAAGAATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
7 12 0.21
8 38 0.67
9 4 0.07
10 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (8 bp):
ATATAATA
Found at i:93276501 original size:18 final size:19
Alignment explanation
Indices: 93276473--93276514 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
93276463 TAATAATAAA
93276473 AGAATAAAGAAAGAAACAG
1 AGAATAAAGAAAGAAACAG
93276492 AGAA-AAAGAAAGAAACAG
1 AGAATAAAGAAAGAAACAG
93276510 AGAAT
1 AGAAT
93276515 TGAAAACGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (19 bp):
AGAATAAAGAAAGAAACAG
Found at i:93283698 original size:19 final size:20
Alignment explanation
Indices: 93283674--93283711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
93283664 AATTAGATTT
93283674 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
93283693 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
93283712 TGAAAACGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:93283906 original size:17 final size:17
Alignment explanation
Indices: 93283879--93283918 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
93283869 ATTTACTTAT
93283879 TATATAAGTAAATAATAA
1 TATA-AAGTAAATAATAA
*
93283897 TATAAAGTAAATTATAA
1 TATAAAGTAAATAATAA
93283914 TATAA
1 TATAA
93283919 TAATATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TATAAAGTAAATAATAA
Found at i:93283923 original size:8 final size:8
Alignment explanation
Indices: 93283880--93283946 Score: 68
Period size: 8 Copynumber: 8.4 Consensus size: 8
93283870 TTTACTTATT
93283880 ATATAAGTA
1 ATATAA-TA
93283889 A-ATAATA
1 ATATAATA
93283896 ATATAAAGTA
1 ATAT-AA-TA
*
93283906 A-ATTATA
1 ATATAATA
93283913 ATATAATA
1 ATATAATA
93283921 ATATAATA
1 ATATAATA
*
93283929 GT-TAATA
1 ATATAATA
93283936 ATATAATA
1 ATATAATA
93283944 ATA
1 ATA
93283947 AAAGAATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 12 0.24
8 29 0.59
9 5 0.10
10 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (8 bp):
ATATAATA
Found at i:93283936 original size:15 final size:14
Alignment explanation
Indices: 93283891--93283943 Score: 67
Period size: 15 Copynumber: 3.9 Consensus size: 14
93283881 TATAAGTAAA
93283891 TAATAATATAA-AG
1 TAATAATATAATAG
*
93283904 TAA-ATTATAATA-
1 TAATAATATAATAG
93283916 TAATAATATAATAG
1 TAATAATATAATAG
93283930 TTAATAATATAATA
1 -TAATAATATAATA
93283944 ATAAAAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 9 0.26
13 12 0.35
15 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
TAATAATATAATAG
Found at i:93283962 original size:19 final size:18
Alignment explanation
Indices: 93283940--93283978 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
93283930 TTAATAATAT
93283940 AATAATAAA-AGAATAAAGA
1 AATAA-AAATAGAA-AAAGA
93283959 AATAAAAATAGAAAAAGA
1 AATAAAAATAGAAAAAGA
93283977 AA
1 AA
93283979 GAAACAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (18 bp):
AATAAAAATAGAAAAAGA
Found at i:93283989 original size:18 final size:19
Alignment explanation
Indices: 93283949--93283990 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
93283939 TAATAATAAA
* *
93283949 AGAATAAAGAAATAAAAAT
1 AGAATAAAGAAAGAAAAAG
*
93283968 AGAA-AAAGAAAGAAACAG
1 AGAATAAAGAAAGAAAAAG
93283986 AGAAT
1 AGAAT
93283991 TGAAAACGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (19 bp):
AGAATAAAGAAAGAAAAAG
Found at i:93285388 original size:16 final size:18
Alignment explanation
Indices: 93285367--93285399 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
93285357 TGTACCTAGG
93285367 TTATTT-TAA-TGCTATC
1 TTATTTATAAGTGCTATC
93285383 TTATTTATAAGTGCTAT
1 TTATTTATAAGTGCTAT
93285400 TAGTGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (18 bp):
TTATTTATAAGTGCTATC
Found at i:93287823 original size:6 final size:6
Alignment explanation
Indices: 93287812--93287896 Score: 98
Period size: 6 Copynumber: 13.8 Consensus size: 6
93287802 GTGCATACTA
*
93287812 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAAC AGAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC -AAAAAC AAAAAC
* * * * *
93287861 AAAAAT AGAAAC AGAAAC AGAAAC AGAAAC AGAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC A-AAAA
93287897 AAATAAATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
6 62 0.87
7 9 0.13
ACGTcount: A:0.78, C:0.14, G:0.07, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:93288029 original size:17 final size:16
Alignment explanation
Indices: 93288007--93288040 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
93287997 TAAAAATAAT
93288007 ACATGGTCATGTGAGCC
1 ACATGGTCATGT-AGCC
*
93288024 ACATGGTCGTGTAGCC
1 ACATGGTCATGTAGCC
93288040 A
1 A
93288041 AGTCGTGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (16 bp):
ACATGGTCATGTAGCC
Found at i:93290111 original size:40 final size:39
Alignment explanation
Indices: 93290066--93290195 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
93290056 CGGAACATAA
93290066 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
93290106 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
93290146 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
93290186 CCGGATATAA
1 CCGGATATAA
93290196 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:93290210 original size:40 final size:40
Alignment explanation
Indices: 93290082--93290233 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
93290072 ATAACCATGT
* * *
93290082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
93290122 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
93290162 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
93290202 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
93290234 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:93290216 original size:80 final size:80
Alignment explanation
Indices: 93290082--93290231 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
93290072 ATAACCATGT
*
93290082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
93290146 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
93290162 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
93290225 CCCGGAT
64 CCCGGAT
93290232 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:93298095 original size:40 final size:39
Alignment explanation
Indices: 93298050--93298179 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
93298040 CGGAATATAA
93298050 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
93298090 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
93298130 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
93298170 CCGGATATAA
1 CCGGATATAA
93298180 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:93298194 original size:40 final size:40
Alignment explanation
Indices: 93298066--93298217 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
93298056 ATAACCATGT
* * *
93298066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
93298106 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
93298146 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
93298186 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
93298218 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:93298200 original size:80 final size:80
Alignment explanation
Indices: 93298066--93298215 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
93298056 ATAACCATGT
*
93298066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
93298130 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
93298146 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
93298209 CCCGGAT
64 CCCGGAT
93298216 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:93304314 original size:40 final size:39
Alignment explanation
Indices: 93304269--93304398 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 39
93304259 CGGAACATAA
93304269 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
93304309 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
93304349 CCGGATGTAGCCACTAGCACAATTGCCTTCGAGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
93304389 CCGGATATAA
1 CCGGATATAA
93304399 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
40 68 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:93311733 original size:46 final size:45
Alignment explanation
Indices: 93311586--93311798 Score: 155
Period size: 47 Copynumber: 4.6 Consensus size: 45
93311576 GTTATCGTGG
* * *
93311586 GTTAGTGTAAGA-CATGTCTGGAACATGCATCGGCCACATTATGAGA
1 GTTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACA-GATGATA
* * *
93311632 GTTAGTGTAAGACCATGTCTAGGACATGGAATCGGCATCAAGACGAGT-
1 GTTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-C-AGATGA-TA
* *
93311680 GCTAGTGTAAGA-CATGTTTGGGACATGCATCGGCTACGAGATGATA
1 GTTAGTGTAAGACCATGTCTGGGACATGCATCGGC-AC-AGATGATA
** * * **
93311726 GTTAGTGTAAGACCATGTCCAGAACATGGCATCGACTTGAGAT-ATGA
1 GTTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-ACAGATGAT-A
**
93311773 GCCAGTGTAAGACCATGTCTGGGACA
1 GTTAGTGTAAGACCATGTCTGGGACA
93311799 CGGCATCGAC
Statistics
Matches: 132, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 38 0.29
47 63 0.48
48 29 0.22
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (45 bp):
GTTAGTGTAAGACCATGTCTGGGACATGCATCGGCACAGATGATA
Found at i:93311753 original size:94 final size:94
Alignment explanation
Indices: 93311588--93311759 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
93311578 TATCGTGGGT
* *
93311588 TAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTATGAGAGTTAGTGTAAGACCATGTCTA
1 TAGTGTAAGACATGTCTGGAACATGCATCGGCCACATGATGAGAGTTAGTGTAAGACCATGTCCA
*
93311653 GGACATGGAATCGGCATCAAGACGAGTGC
66 GAACATGGAATCGGCATCAAGACGAGTGC
* * * *
93311682 TAGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTTAGTGTAAGACCATGTCC
1 TAGTGTAAGACATGTCTGGAACATGCATCGGCCAC-ATGATGAGAGTTAGTGTAAGACCATGTCC
*
93311746 AGAACATGGCATCG
65 AGAACATGGAATCG
93311760 ACTTGAGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (94 bp):
TAGTGTAAGACATGTCTGGAACATGCATCGGCCACATGATGAGAGTTAGTGTAAGACCATGTCCA
GAACATGGAATCGGCATCAAGACGAGTGC
Found at i:93311790 original size:94 final size:94
Alignment explanation
Indices: 93311589--93311798 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 94
93311579 ATCGTGGGTT
* * *
93311589 AGTGTAAGACATGTCTGGAACATGCATCGGCCACATTATGAGAGTTAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGTTAGTGTAAGACCATGTCCAG
* * * *
93311654 GACATGGAATCGGCATCAAGACGAGTGCT
66 AACATGGAATCGACATCAAGACGAGAGCC
* * *
93311683 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTTAGTGTAAGACCATGTCCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGTTAGTGTAAGACCATGTCCA
* ** *
93311747 GAACATGGCATCGAC-TTGAGA-TATGAGCC
65 GAACATGGAATCGACATCAAGACGA-GAGCC
93311776 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
93311799 CGGCATCGAC
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
92 1 0.01
93 16 0.16
94 80 0.82
95 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGTTAGTGTAAGACCATGTCCAG
AACATGGAATCGACATCAAGACGAGAGCC
Found at i:93314483 original size:29 final size:29
Alignment explanation
Indices: 93314457--93314525 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
93314447 GATGGGCTAA
93314457 GGCCCTAACTGATTCTGTAAAAGGGCTCC
1 GGCCCTAACTGATTCTGTAAAAGGGCTCC
93314486 GGCCCTAACTGATTCTGTAAAAGGGCTCC
1 GGCCCTAACTGATTCTGTAAAAGGGCTCC
93314515 GGCCCTAACTG
1 GGCCCTAACTG
93314526 TTTATTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (29 bp):
GGCCCTAACTGATTCTGTAAAAGGGCTCC
Found at i:93318026 original size:15 final size:16
Alignment explanation
Indices: 93318008--93318040 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93317998 TATGGTGCAT
*
93318008 AATAAAA-TAAAATAA
1 AATAAAAGTAAAACAA
93318023 AATAAAAGTAAAACAA
1 AATAAAAGTAAAACAA
93318039 AA
1 AA
93318041 ACAAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
AATAAAAGTAAAACAA
Found at i:93318041 original size:6 final size:6
Alignment explanation
Indices: 93318032--93318093 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
93318022 AAATAAAAGT
* * *
93318032 AAAACA AAAAC- AAAACA AAAACA AAAACA AAAACA AAAATA CAAATA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
* *
93318079 AAAATA AAAATA AAA
1 AAAACA AAAACA AAA
93318094 CTAAATGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
5 5 0.10
6 47 0.90
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.06
Consensus pattern (6 bp):
AAAACA
Found at i:93318046 original size:17 final size:17
Alignment explanation
Indices: 93318032--93318070 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 17
93318022 AAATAAAAGT
93318032 AAAACAAAAACAAAACA
1 AAAACAAAAACAAAACA
93318049 AAAACAAAAACAAAAACA
1 AAAACAAAAAC-AAAACA
93318067 AAAA
1 AAAA
93318071 TACAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACAAAAACAAAACA
Found at i:93318052 original size:11 final size:11
Alignment explanation
Indices: 93318032--93318069 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
93318022 AAATAAAAGT
93318032 AAAACAAAAAC
1 AAAACAAAAAC
93318043 AAAACAAAAAC
1 AAAACAAAAAC
93318054 AAAAACAAAAAC
1 -AAAACAAAAAC
93318066 AAAA
1 AAAA
93318070 ATACAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAC
Found at i:93318098 original size:6 final size:6
Alignment explanation
Indices: 93318010--93318098 Score: 55
Period size: 6 Copynumber: 15.7 Consensus size: 6
93318000 TGGTGCATAA
* * *
93318010 TAAAA- TAAAA- TAAAA- TAAAAG TAAAAC AAAAAC -AAAAC AAAAAC
1 TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC
* * * * *
93318054 AAAAAC AAAAAC -AAAAA TACAAA- TAAAAA TAAAAA TAAAAC TAAA
1 TAAAAC TAAAAC TAAAAC TA-AAAC TAAAAC TAAAAC TAAAAC TAAA
93318099 TGAAATCACT
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
5 27 0.36
6 45 0.60
7 3 0.04
ACGTcount: A:0.79, C:0.09, G:0.01, T:0.11
Consensus pattern (6 bp):
TAAAAC
Found at i:93318098 original size:12 final size:12
Alignment explanation
Indices: 93318008--93318098 Score: 68
Period size: 12 Copynumber: 8.0 Consensus size: 12
93317998 TATGGTGCAT
93318008 AATAAAA-T-AA
1 AATAAAACTAAA
93318018 AATAAAA-TAAA
1 AATAAAACTAAA
*
93318029 AGTAAAAC-AAA
1 AATAAAACTAAA
*
93318040 AACAAAAC-AAA
1 AATAAAACTAAA
*
93318051 AACAAAAAC-AAA
1 AA-TAAAACTAAA
* * *
93318063 AACAAAAATACA
1 AATAAAACTAAA
*
93318075 AATAAAAATAAA
1 AATAAAACTAAA
93318087 AATAAAACTAAA
1 AATAAAACTAAA
93318099 TGAAATCACT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
10 8 0.12
11 26 0.39
12 33 0.49
ACGTcount: A:0.79, C:0.09, G:0.01, T:0.11
Consensus pattern (12 bp):
AATAAAACTAAA
Found at i:93322189 original size:23 final size:22
Alignment explanation
Indices: 93322143--93322190 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
93322133 CCATAAGAAA
*
93322143 CAAAGAAACTCAAAATGATCTT
1 CAAAGAAACTCAAAAAGATCTT
93322165 CAAAGAAA-TCAAAAGGAGATCTT
1 CAAAGAAACTCAAAA--AGATCTT
93322188 CAA
1 CAA
93322191 TCTTGATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (22 bp):
CAAAGAAACTCAAAAAGATCTT
Found at i:93323676 original size:5 final size:6
Alignment explanation
Indices: 93323658--93323682 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
93323648 AATAAATAAA
93323658 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
93323683 CCAAAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:93329109 original size:26 final size:26
Alignment explanation
Indices: 93329078--93329185 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93329068 TGAAATTCCC
*
93329078 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93329104 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93329130 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93329156 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93329182 ATCA
1 ATCA
93329186 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93332778 original size:18 final size:18
Alignment explanation
Indices: 93332756--93332804 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
93332746 TAGTGTGTAG
93332756 TAAAATAAAATAAATAATA
1 TAAAATAAAATAAA-AATA
*
93332775 -AAAACAAAA-AAAAATA
1 TAAAATAAAATAAAAATA
*
93332791 TAAACT-AAATAAAA
1 TAAAATAAAATAAAA
93332805 TCACTTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 8 0.32
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (18 bp):
TAAAATAAAATAAAAATA
Found at i:93333295 original size:9 final size:9
Alignment explanation
Indices: 93333262--93333297 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
93333252 TTTTGTAGTT
93333262 TTTTTTTCAA
1 TTTTTTT-AA
93333272 -TTTTTTAA
1 TTTTTTTAA
93333280 TTTTTTTAA
1 TTTTTTTAA
93333289 TTTTTTTAA
1 TTTTTTTAA
93333298 AGAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 2 0.08
9 23 0.92
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:93333347 original size:11 final size:11
Alignment explanation
Indices: 93333319--93333358 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
93333309 TAAATGTACT
93333319 AATTTTTTTCA
1 AATTTTTTTCA
*
93333330 AA-ATTTTTCA
1 AATTTTTTTCA
*
93333340 AATTTTTTTTA
1 AATTTTTTTCA
93333351 AATTTTTT
1 AATTTTTT
93333359 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (11 bp):
AATTTTTTTCA
Found at i:93334881 original size:39 final size:39
Alignment explanation
Indices: 93334838--93334923 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
93334828 GGTTGTGTCC
** *
93334838 GACACACGGCCACACATGGCTATGTGTGAGGCCGTGTGT
1 GACACACAACCACACACGGCTATGTGTGAGGCCGTGTGT
*
93334877 GACACACAACCACACACGGCTGTGTGTGAGGCCGTGTGT
1 GACACACAACCACACACGGCTATGTGTGAGGCCGTGTGT
93334916 GACACACA
1 GACACACA
93334924 GTCTAAGCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.17
Consensus pattern (39 bp):
GACACACAACCACACACGGCTATGTGTGAGGCCGTGTGT
Found at i:93339495 original size:32 final size:32
Alignment explanation
Indices: 93339453--93339517 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
93339443 AACTGTGAAA
* * *
93339453 TAAAATGGTTACTGAGAGTAATGAGGAAGATG
1 TAAAAGGGTTACTGAGAGTAACGAAGAAGATG
93339485 TAAAAGGGTTACTGAGAGTAACGAAGAAGATG
1 TAAAAGGGTTACTGAGAGTAACGAAGAAGATG
93339517 T
1 T
93339518 GAAATAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.31, T:0.23
Consensus pattern (32 bp):
TAAAAGGGTTACTGAGAGTAACGAAGAAGATG
Found at i:93347777 original size:20 final size:22
Alignment explanation
Indices: 93347752--93347791 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
93347742 TCCTTACAAG
93347752 AAGTATCGAT-AT-TTTTCAAA
1 AAGTATCGATGATGTTTTCAAA
93347772 AAGTATCGATGATGTTTTCA
1 AAGTATCGATGATGTTTTCA
93347792 TCACAACGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (22 bp):
AAGTATCGATGATGTTTTCAAA
Found at i:93355052 original size:23 final size:25
Alignment explanation
Indices: 93355026--93355072 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93355016 GATCATTCAT
*
93355026 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
93355049 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
93355073 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:93355393 original size:46 final size:46
Alignment explanation
Indices: 93355333--93355597 Score: 323
Period size: 46 Copynumber: 5.9 Consensus size: 46
93355323 TTTGACGTGA
* * * * * *
93355333 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
** * * *
93355379 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
* * *
93355425 TGCCATGGTGTCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
93355471 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
93355517 TGCCATGGTATCTTTCAACCATGGTCTT----A---CATA-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
93355555 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
93355598 GAGAGCACAC
Statistics
Matches: 193, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 32 0.17
39 4 0.02
42 2 0.01
45 8 0.04
46 147 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
Found at i:93363227 original size:16 final size:16
Alignment explanation
Indices: 93363206--93363237 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93363196 CTACTTTAGT
93363206 GTTGTGTAAATTGTCA
1 GTTGTGTAAATTGTCA
93363222 GTTGTGTAAATTGTCA
1 GTTGTGTAAATTGTCA
93363238 ATCTAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (16 bp):
GTTGTGTAAATTGTCA
Found at i:93363815 original size:10 final size:10
Alignment explanation
Indices: 93363800--93363827 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
93363790 CAATATAAAA
93363800 AATTCAATTT
1 AATTCAATTT
93363810 AATTCAATTT
1 AATTCAATTT
93363820 AATTCAAT
1 AATTCAAT
93363828 ATATGAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (10 bp):
AATTCAATTT
Found at i:93367800 original size:32 final size:32
Alignment explanation
Indices: 93367764--93367828 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
93367754 TGTATGCATT
93367764 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
* *
93367796 TTAGCATTTTAATCGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
93367828 T
1 T
93367829 GATAAGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:93377078 original size:22 final size:22
Alignment explanation
Indices: 93377050--93377103 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
93377040 AAACAGGGTC
*
93377050 ACACGCCCGTGTGGACATAAGG
1 ACACGCCCGTGTGGAAATAAGG
* *
93377072 ACACGCCCATGTGGAAATAGGG
1 ACACGCCCGTGTGGAAATAAGG
93377094 ACACGCCCGT
1 ACACGCCCGT
93377104 TTCCTCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.30, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGGAAATAAGG
Found at i:93379184 original size:46 final size:50
Alignment explanation
Indices: 93379000--93379271 Score: 234
Period size: 46 Copynumber: 5.7 Consensus size: 50
93378990 GGGTATAATA
* * * * **
93379000 CCGATGCCATGTCCCAAACATAGTCTTACACTGACTAT-CAAAATCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAC-ATCTCGTAGG
* * * * * *
93379049 CTGACGCCATGTCCCTGACATGGTCATACACTAGCTCTCACATATC-T-GTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCTCGTAG-G
* *
93379099 CCGATGCCATGTCCTAGACATGGTCTTACACT-G-AC-ACATCTCGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGG
93379145 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGG
* * * *
93379191 CCGATG-TATGTCCCAGACAT-GTCTTACACTGGCTCT-CGTCTC-AATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGG
*
93379237 CCGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC
93379272 ACACAACTAA
Statistics
Matches: 185, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 68 0.37
47 14 0.08
48 14 0.08
49 31 0.17
50 32 0.17
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGG
Found at i:93384123 original size:25 final size:24
Alignment explanation
Indices: 93384079--93384134 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
93384069 TGCTTCTTGT
93384079 CTTTTTTCTTTCCTTATCTAACTC-
1 CTTTTTTCTTTCCTTATCTAAC-CA
*
93384103 CTTTTTGTCTTTTTCTT-TCTAACCA
1 CTTTTT-TC-TTTCCTTATCTAACCA
93384128 CTTTTTT
1 CTTTTTT
93384135 AATTTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 8 0.29
25 14 0.50
26 6 0.21
ACGTcount: A:0.11, C:0.25, G:0.02, T:0.62
Consensus pattern (24 bp):
CTTTTTTCTTTCCTTATCTAACCA
Found at i:93389499 original size:195 final size:196
Alignment explanation
Indices: 93389149--93389534 Score: 659
Period size: 195 Copynumber: 2.0 Consensus size: 196
93389139 GTTATCAAAG
* * *
93389149 TATGGAAATTAGGTTATGGATGAATATGCTGAAAATTTAAAATTTATGGTAGAAAATGAAAAGAT
1 TATGGAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAATGAAAAGAT
93389214 GTTGATAGATAAACAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATGT
66 GTTGATAGATAAACAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATGT
*
93389279 AAAGTTGTGAAAATTGAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTAAATT
131 AAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTAAATT
93389344 T
196 T
*
93389345 TATGGAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAAT-AAAAGGT
1 TATGGAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAATGAAAA-GA
* * *
93389409 TGTTGATAGATAAATAA-TTTTACAAAGTGATTTTTGATGAAAATATGGTTTAGGTACTAAAATG
65 TGTTGATAGATAAACAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATG
* *
93389473 TAAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTTATAGAAAATATGTTCTGTAAATTCTA
130 TAAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTA
93389535 CATTGAAATT
Statistics
Matches: 179, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
195 108 0.60
196 71 0.40
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (196 bp):
TATGGAAATCAGGTTATGAATGAATATGCTAAAAATTTAAAATTTATGGTAGAAAATGAAAAGAT
GTTGATAGATAAACAACTTTTACAAAGTGATTTTTGATGAAAACATGATTTAGGTACTAAAATGT
AAAGTTGTGAAAATTAAAGAAAAATTCTAAATTTGATAGAAAATATGTGCTGTAAATTCTAAATT
T
Found at i:93391373 original size:106 final size:106
Alignment explanation
Indices: 93391188--93391402 Score: 421
Period size: 106 Copynumber: 2.0 Consensus size: 106
93391178 GTAAATGATA
93391188 ATGATGTTTGTAACCTAGCTATTGGAATAGCTAGTAATGGCATGTTTTGATGTACTTGTAATGTC
1 ATGATGTTTGTAACCTAGCTATTGGAATAGCTAGTAATGGCATGTTTTGATGTACTTGTAATGTC
93391253 ATACTATGGTAGTTTCAAAATGTTAAGTAGTTGATCAAATT
66 ATACTATGGTAGTTTCAAAATGTTAAGTAGTTGATCAAATT
*
93391294 ATGATGTTTGTAACCTAGCTATTGGAATGGCTAGTAATGGCATGTTTTGATGTACTTGTAATGTC
1 ATGATGTTTGTAACCTAGCTATTGGAATAGCTAGTAATGGCATGTTTTGATGTACTTGTAATGTC
93391359 ATACTATGGTAGTTTCAAAATGTTAAGTAGTTGATCAAATT
66 ATACTATGGTAGTTTCAAAATGTTAAGTAGTTGATCAAATT
93391400 ATG
1 ATG
93391403 TCTAACATGT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (106 bp):
ATGATGTTTGTAACCTAGCTATTGGAATAGCTAGTAATGGCATGTTTTGATGTACTTGTAATGTC
ATACTATGGTAGTTTCAAAATGTTAAGTAGTTGATCAAATT
Found at i:93403020 original size:45 final size:44
Alignment explanation
Indices: 93402941--93403110 Score: 162
Period size: 45 Copynumber: 3.8 Consensus size: 44
93402931 CTGGTTGAAG
* * * * *
93402941 GATGCTATAGTGTTTTTCCACCAAGGTATTATTCATTCTTGACTT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTT-ACTT
* * * * *
93402986 GATGCCATTGTGTCTTTCAACTATGGTCTTATTCACTGCTAATTT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTCTTACTT
*
93403031 GATTCCATAGTGTCTTTCAACCATGGTCTTATTCATT-TTACATCGT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTTAC-T--T
* * *
93403077 GTTGCCATAATGTATTTCAACCATGGTCTTATTC
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTC
93403111 GTCTGATTCA
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 63 0.62
46 34 0.34
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (44 bp):
GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTTACTT
Found at i:93403170 original size:45 final size:45
Alignment explanation
Indices: 93403118--93403247 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 45
93403108 TTCGTCTGAT
* *
93403118 TCATGATGCTATAGCGTCTTTCAGCTATGGTTTTACTCGTTAGAA
1 TCATGATGCTATAACGTCTTTCAGCTATGGTTTTACTCGTTAAAA
* *** * * * *
93403163 TCGTGATG-TCATAATAACTTTCGGCTATGGTATTATTCATTAAAA
1 TCATGATGCT-ATAACGTCTTTCAGCTATGGTTTTACTCGTTAAAA
* * *
93403208 TTATGATGCCATAACGTCTTTTAGCTATGGTTTTACTCGT
1 TCATGATGCTATAACGTCTTTCAGCTATGGTTTTACTCGT
93403248 CTCCGGTATG
Statistics
Matches: 62, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
44 1 0.02
45 61 0.98
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (45 bp):
TCATGATGCTATAACGTCTTTCAGCTATGGTTTTACTCGTTAAAA
Found at i:93408030 original size:80 final size:79
Alignment explanation
Indices: 93407895--93408150 Score: 327
Period size: 79 Copynumber: 3.2 Consensus size: 79
93407885 TGAATGATAC
* *
93407895 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
93407960 TGCTAGTGATTATAT
66 TGCTAGTG-TTATAT
*
93407975 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
*
93408040 TGC-GGTTGTTATAT
66 TGCTAG-TGTTATAT
* * * * ** * * *
93408054 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
*
93408119 TGCTTGTGGTTATAT
66 TGCTAGT-GTTATAT
* *
93408134 CC-GGCTAAATTCCGAAG
1 CCGGGCTAAGTCCCGAAG
93408151 AAGCTCGGTT
Statistics
Matches: 155, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 78 0.50
80 77 0.50
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCTAGTGTTATAT
Found at i:93408063 original size:39 final size:40
Alignment explanation
Indices: 93407895--93408150 Score: 311
Period size: 40 Copynumber: 6.5 Consensus size: 40
93407885 TGAATGATAC
93407895 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
93407935 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
93407975 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* ** *
93408015 CCGGGCTAAGACCCGAAGGCATTCGTGC-GGTTG-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * ** *
93408054 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * *
93408094 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* *
93408134 CC-GGCTAAATTCCGAAG
1 CCGGGCTAAGTCCCGAAG
93408151 AAGCTCGGTT
Statistics
Matches: 190, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
39 46 0.24
40 144 0.76
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:93408109 original size:119 final size:120
Alignment explanation
Indices: 93407895--93408141 Score: 311
Period size: 119 Copynumber: 2.1 Consensus size: 120
93407885 TGAATGATAC
* * *
93407895 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
* * ** * * *
93407960 TGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
66 TGCAAGTCACCAAATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
* *
93408015 CCGGGCTAAGACCCGAAGGCATTCGTGC-GGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTCATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
* * * * *
93408078 GTGCAAGTCACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
65 ATGCAAGTCACCAAATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
93408134 CC-GGCTAA
1 CCGGGCTAA
93408142 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
118 6 0.06
119 76 0.70
120 27 0.25
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCAAGTCACCAAATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
Found at i:93416032 original size:40 final size:40
Alignment explanation
Indices: 93415977--93416150 Score: 190
Period size: 40 Copynumber: 4.4 Consensus size: 40
93415967 ATGATACCCT
*
93415977 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCTG
1 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
93416017 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
1 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
* * * ** *
93416057 GGCTAAGACCCGAAGGCATTTGTG-TAAGTCACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTATGCT-AGTGATTATATCCG
* * * * * *
93416097 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-
1 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
* *
93416136 GGCTAAATTCCGAAG
1 GGCTAAGTCCCGAAG
93416151 AAGCTCGGTT
Statistics
Matches: 113, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 12 0.11
40 100 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
Found at i:93419843 original size:25 final size:25
Alignment explanation
Indices: 93419801--93419848 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
93419791 ATATAAACGG
*
93419801 GAAGCTCTTCTGACCCATATAACAC
1 GAAGCTCATCTGACCCATATAACAC
* * *
93419826 GAAGCTCATGTGAGCCATGTAAC
1 GAAGCTCATCTGACCCATATAAC
93419849 GGAAAGCTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (25 bp):
GAAGCTCATCTGACCCATATAACAC
Found at i:93419936 original size:25 final size:25
Alignment explanation
Indices: 93419826--93419988 Score: 99
Period size: 25 Copynumber: 6.6 Consensus size: 25
93419816 CATATAACAC
*
93419826 GAAGCTCATGTGAGCCATGTAA-CGG
1 GAAGCTCATGAGAGCCAT-TAATCGG
* * * *
93419851 AAAGCTCATAAGAGCC-GTAAGT-AG
1 GAAGCTCATGAGAGCCATTAA-TCGG
* *
93419875 GAAGCTCATGCA-AGCCAAT-ATCAG
1 GAAGCTCATG-AGAGCCATTAATCGG
*
93419899 GAACCTC-TAGAGAGCCATTAATCGG
1 GAAGCTCAT-GAGAGCCATTAATCGG
* *
93419924 GAAGCTCATGAGAGCCA-AATATCGA
1 GAAGCTCATGAGAGCCATTA-ATCGG
*
93419949 GAAGCTCGTGAGAGCCATATAAT-GG
1 GAAGCTCATGAGAGCCAT-TAATCGG
* *
93419974 GATGCTCATAAGAGC
1 GAAGCTCATGAGAGC
93419989 TAAATAACGG
Statistics
Matches: 106, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
23 6 0.06
24 30 0.28
25 66 0.62
26 3 0.03
27 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCATTAATCGG
Found at i:93419966 original size:50 final size:50
Alignment explanation
Indices: 93419874--93419994 Score: 135
Period size: 50 Copynumber: 2.4 Consensus size: 50
93419864 GCCGTAAGTA
93419874 GGAAGCTCATGCA-AGCC-AATATCAGGAACCTCTAGAGAGCCAT-TAATCG
1 GGAAGCTCATG-AGAGCCAAATATCAGGAACCTCTAGAGAGCCATATAAT-G
*
93419923 GGAAGCTCATGAGAGCCAAATATC-GAGAAGCTCGT-GAGAGCCATATAATG
1 GGAAGCTCATGAGAGCCAAATATCAG-GAACCTC-TAGAGAGCCATATAATG
* * *
93419973 GGATGCTCATAAGAGCTAAATA
1 GGAAGCTCATGAGAGCCAAATA
93419995 ACGGGATGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
48 1 0.02
49 16 0.25
50 41 0.65
51 5 0.08
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (50 bp):
GGAAGCTCATGAGAGCCAAATATCAGGAACCTCTAGAGAGCCATATAATG
Found at i:93424538 original size:8 final size:8
Alignment explanation
Indices: 93424513--93424563 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
93424503 ATGAATTGGT
93424513 AAAAGCCG
1 AAAAGCCG
* *
93424521 AAATGTCG
1 AAAAGCCG
93424529 AAAAGCCG
1 AAAAGCCG
*
93424537 AAAAGCTG
1 AAAAGCCG
*
93424545 AAATGCCG
1 AAAAGCCG
93424553 AAAAGCCG
1 AAAAGCCG
93424561 AAA
1 AAA
93424564 GTTTGGCTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.49, C:0.20, G:0.24, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:93424547 original size:24 final size:24
Alignment explanation
Indices: 93424513--93424563 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
93424503 ATGAATTGGT
*
93424513 AAAAGCCGAAATGTCGAAAAGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
*
93424537 AAAAGCTGAAATGCCGAAAAGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
93424561 AAA
1 AAA
93424564 GTTTGGCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.20, G:0.24, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:93424705 original size:18 final size:19
Alignment explanation
Indices: 93424672--93424707 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
93424662 ATTTGGCCAT
93424672 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
*
93424691 ATGGGCCCG-ATGGGCTA
1 ATGGGCCAGAATGGGCTA
93424708 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:93424823 original size:30 final size:29
Alignment explanation
Indices: 93424787--93424889 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
93424777 TGAAAGTGAC
*
93424787 TGGGCCTAACGGGCCATATAAATGTGAGTT
1 TGGGCCTAATGGGCCATATAAATGTGA-TT
*
93424817 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
93424846 TGGGCCTAATGGGTCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
93424874 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
93424890 AATACAGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 15 0.23
29 25 0.38
30 25 0.38
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:93424857 original size:29 final size:29
Alignment explanation
Indices: 93424787--93424895 Score: 132
Period size: 30 Copynumber: 3.8 Consensus size: 29
93424777 TGAAAGTGAC
* *
93424787 TGGGCCTAACGGGCCATATAAATGTGAGTT
1 TGGGCCTAATGGGCCATATACATGTGA-TT
93424817 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* *
93424846 TGGGCCTAATGGGTCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACATGTGATT
* *
93424874 TGGGCTTAATGGGCCAAATACA
1 TGGGCCTAATGGGCCATATACA
93424896 GGTATGTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 25 0.36
30 26 0.37
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATGTGATT
Found at i:93429261 original size:29 final size:29
Alignment explanation
Indices: 93429214--93429312 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
93429204 TGAAAGTGAC
* *
93429214 TGGGCCTAACGGGCTATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
93429243 TTGGCCTAATTGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
93429272 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
93429300 TGGGCTTAATGGG
1 TGGGCCTAATGGG
93429313 TCAAATACAG
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
28 13 0.22
29 46 0.78
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.32
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:93431665 original size:48 final size:48
Alignment explanation
Indices: 93431610--93431720 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
93431600 CTTATGGCTC
*
93431610 GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGTCT
1 GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGCCT
* * * * * *
93431658 GAAGCCAACTCGATGAATCTCGCACCCGAAGTTCTAATATTATGGCCT
1 GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGCCT
*
93431706 GAAGCTAACTCAATG
1 GAAGCCAACTCAATG
93431721 TAACCCCATG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (48 bp):
GAAGCCAACTCAATGAATCTCACACCAGAAGTACCAATATCATGGCCT
Found at i:93433524 original size:34 final size:34
Alignment explanation
Indices: 93433475--93433541 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
93433465 TAGGGGGTAG
93433475 CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTAA
1 CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTAA
* * *
93433509 CAGTGGCAGTTTGGGCCTTAGCCCATTTCAGTA
1 CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTA
93433542 TAGTATGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (34 bp):
CAGTAGCAGTCTGGGCCTGAGCCCATTTCAGTAA
Found at i:93442282 original size:48 final size:48
Alignment explanation
Indices: 93442127--93442289 Score: 206
Period size: 48 Copynumber: 3.4 Consensus size: 48
93442117 CTTGCACCCT
*
93442127 AAGTGCCAATATCATGGCCCA-AAGCCAACTCAATGAATCTCGTACCCA-
1 AAGTGCCAATATCATGG-CCAGAAGCCAACTCGATGAATCTCGTA-CCAG
* ** *
93442175 AAGTGCCAATATCATGGCCTGAAGCCAACTCGATGAATCTCACACCCG
1 AAGTGCCAATATCATGGCCAGAAGCCAACTCGATGAATCTCGTACCAG
* *
93442223 AAGTGCCAATATCATGGCCAGAAGCTAACTCGATGAATCTCGTGCCAG
1 AAGTGCCAATATCATGGCCAGAAGCCAACTCGATGAATCTCGTACCAG
*
93442271 AAGAT-CTAATATCATGGCC
1 AAG-TGCCAATATCATGGCC
93442290 CATAGTAAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
47 4 0.04
48 95 0.95
49 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCAGAAGCCAACTCGATGAATCTCGTACCAG
Found at i:93442601 original size:16 final size:16
Alignment explanation
Indices: 93442577--93442607 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93442567 AATATCAAAT
93442577 TCAACTTATTCAATTA
1 TCAACTTATTCAATTA
*
93442593 TCAATTTATTCAATT
1 TCAACTTATTCAATT
93442608 TAGACCAAAT
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:0.35, C:0.16, G:0.00, T:0.48
Consensus pattern (16 bp):
TCAACTTATTCAATTA
Found at i:93451336 original size:17 final size:17
Alignment explanation
Indices: 93451310--93451344 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
93451300 AAATAGGGGA
*
93451310 CACACGCCCGTGTGGCC
1 CACACACCCGTGTGGCC
93451327 CACACACCCGTGTGGCC
1 CACACACCCGTGTGGCC
93451344 C
1 C
93451345 GGCCGTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.49, G:0.26, T:0.11
Consensus pattern (17 bp):
CACACACCCGTGTGGCC
Found at i:93451719 original size:43 final size:43
Alignment explanation
Indices: 93451662--93451754 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
93451652 AACACTAAGG
*
93451662 GACACACAGCCGTGTAACATAACCGTGTATCACATACGGCTAA
1 GACACACAGCCGTGTAACATAACCGTGTATCACACACGGCTAA
* *
93451705 GACACATAGCCGTGTAACATAACCGTGTGTCACACACGGCTAA
1 GACACACAGCCGTGTAACATAACCGTGTATCACACACGGCTAA
*
93451748 AACACAC
1 GACACAC
93451755 CCCTGTGTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.17
Consensus pattern (43 bp):
GACACACAGCCGTGTAACATAACCGTGTATCACACACGGCTAA
Found at i:93451895 original size:33 final size:33
Alignment explanation
Indices: 93451853--93451923 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
93451843 TGGTACCAAT
93451853 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
1 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
93451886 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
1 ACAAGGCATAAATAAGCATTCAATCAAATTCAA
*
93451919 CCAAG
1 ACAAG
93451924 CATCATTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.20
Consensus pattern (33 bp):
ACAAGGCATAAATAAGCATTCAATCAAATTCAA
Found at i:93456707 original size:21 final size:20
Alignment explanation
Indices: 93456669--93456709 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
93456659 TTTGATCCTA
93456669 ATTTTAAAAAATACATAAAT
1 ATTTTAAAAAATACATAAAT
93456689 ATTTTCAAAATAATA-ATAAAT
1 ATTTT-AAAA-AATACATAAAT
93456710 TTAAATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTTAAAAAATACATAAAT
Found at i:93456751 original size:25 final size:24
Alignment explanation
Indices: 93456718--93456765 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
93456708 ATTTAAATTC
93456718 TATATTAATACTAAATAAATATAAT
1 TATATTAATACTAAATAAA-ATAAT
*
93456743 TATATTAATATTAAATAAAATAA
1 TATATTAATACTAAATAAAATAA
93456766 AAATCTCCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATTAATACTAAATAAAATAAT
Found at i:93457474 original size:26 final size:26
Alignment explanation
Indices: 93457413--93457474 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
93457403 AGTATATATT
*
93457413 ATATAATATTTTATATAGTATTTAGAAA
1 ATAT-ATATTTCATATA-TATTTAGAAA
*
93457441 ACAT-TATTTCATAT-TATTTATGAAA
1 ATATATATTTCATATATATTTA-GAAA
93457466 ATATATATT
1 ATATATATT
93457475 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.21
25 7 0.24
26 13 0.45
28 3 0.10
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (26 bp):
ATATATATTTCATATATATTTAGAAA
Found at i:93459537 original size:14 final size:14
Alignment explanation
Indices: 93459497--93459559 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
93459487 TAACATTAAA
*
93459497 AATAAA-AATATTT
1 AATAAATAAAATTT
* *
93459510 AATTTAATATAATTT
1 AA-TAAATAAAATTT
93459525 AATAAATAAAATTT
1 AATAAATAAAATTT
*
93459539 AAAAAAATAAAAATTT
1 -AATAAAT-AAAATTT
93459555 AATAA
1 AATAA
93459560 CGAAAATACA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
13 2 0.05
14 13 0.33
15 17 0.44
16 7 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAATAAAATTT
Found at i:93459546 original size:15 final size:15
Alignment explanation
Indices: 93459515--93459556 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
93459505 TATTTAATTT
* *
93459515 AATATAATTT-AATA
1 AATAAAATTTAAAAA
93459529 AATAAAATTTAAAAA
1 AATAAAATTTAAAAA
93459544 AATAAAAATTTAA
1 AAT-AAAATTTAA
93459557 TAACGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.38
15 6 0.25
16 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAAATTTAAAAA
Found at i:93460283 original size:30 final size:30
Alignment explanation
Indices: 93460183--93460284 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
93460173 TGATGATTTT
* *
93460183 GCCACAAAGGCTCACATGTAATAATGAACA
1 GCCACAAAGGCTCACATGTAACAAAGAACA
* * ** *
93460213 ACCACAAAGGCTTCTACATATAAC-AAGTTCC
1 GCCACAAAGGC-TC-ACATGTAACAAAGAACA
93460244 GCCAC-AAGGCTCACATGTAACAAAGAACA
1 GCCACAAAGGCTCACATGTAACAAAGAACA
*
93460273 GTCACAAAGGCT
1 GCCACAAAGGCT
93460285 TCCATATATT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
28 8 0.15
29 10 0.18
30 21 0.38
31 9 0.16
32 7 0.13
ACGTcount: A:0.41, C:0.26, G:0.16, T:0.17
Consensus pattern (30 bp):
GCCACAAAGGCTCACATGTAACAAAGAACA
Done.