Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 33 of 135
Found at i:13355486 original size:10 final size:10
Alignment explanation
Indices: 13355471--13355507 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
13355461 GGTGCTGCCG
13355471 GAAAAAGAGA
1 GAAAAAGAGA
13355481 GAAAAAGAGA
1 GAAAAAGAGA
*
13355491 GAAAGAGAAGA
1 GAAAAAG-AGA
13355502 GAAAAA
1 GAAAAA
13355508 AAAGGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:13360053 original size:308 final size:308
Alignment explanation
Indices: 13359495--13360111 Score: 1234
Period size: 308 Copynumber: 2.0 Consensus size: 308
13359485 AATTTATAAT
13359495 TAGTGCGTTAGTGCACCATATGTCAGAATGAACGTATGCAGATGAGGGTACCACATCTGTTAATT
1 TAGTGCGTTAGTGCACCATATGTCAGAATGAACGTATGCAGATGAGGGTACCACATCTGTTAATT
13359560 TTCGGCCTACGGTATGGCATCCATATAAACTGCATGATTAATAACATGGTTATAATTAGCCATAA
66 TTCGGCCTACGGTATGGCATCCATATAAACTGCATGATTAATAACATGGTTATAATTAGCCATAA
13359625 CGTTTGAGTAAGATATAGAAAGTAAGATGTCATGAATATTAGAATAGCAGCTTACCCCTTCCCCG
131 CGTTTGAGTAAGATATAGAAAGTAAGATGTCATGAATATTAGAATAGCAGCTTACCCCTTCCCCG
13359690 GCATGCTGTTCGATCATGAGTCAGTATATCGGGACAGTGTGTGACCTCCCGATACTCGAATAAAG
196 GCATGCTGTTCGATCATGAGTCAGTATATCGGGACAGTGTGTGACCTCCCGATACTCGAATAAAG
13359755 ACTTCACCTACAAAAAACAAATATAGGGTTTAGGGTTGGTAACATTAG
261 ACTTCACCTACAAAAAACAAATATAGGGTTTAGGGTTGGTAACATTAG
13359803 TAGTGCGTTAGTGCACCATATGTCAGAATGAACGTATGCAGATGAGGGTACCACATCTGTTAATT
1 TAGTGCGTTAGTGCACCATATGTCAGAATGAACGTATGCAGATGAGGGTACCACATCTGTTAATT
13359868 TTCGGCCTACGGTATGGCATCCATATAAACTGCATGATTAATAACATGGTTATAATTAGCCATAA
66 TTCGGCCTACGGTATGGCATCCATATAAACTGCATGATTAATAACATGGTTATAATTAGCCATAA
13359933 CGTTTGAGTAAGATATAGAAAGTAAGATGTCATGAATATTAGAATAGCAGCTTACCCCTTCCCCG
131 CGTTTGAGTAAGATATAGAAAGTAAGATGTCATGAATATTAGAATAGCAGCTTACCCCTTCCCCG
13359998 GCATGCTGTTCGATCATGAGTCAGTATATCGGGACAGTGTGTGACCTCCCGATACTCGAATAAAG
196 GCATGCTGTTCGATCATGAGTCAGTATATCGGGACAGTGTGTGACCTCCCGATACTCGAATAAAG
13360063 ACTTCACCTACAAAAAACAAATATAGGGTTTAGGGTTGGTAACATTAG
261 ACTTCACCTACAAAAAACAAATATAGGGTTTAGGGTTGGTAACATTAG
13360111 T
1 T
13360112 CAATATACTA
Statistics
Matches: 309, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
308 309 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (308 bp):
TAGTGCGTTAGTGCACCATATGTCAGAATGAACGTATGCAGATGAGGGTACCACATCTGTTAATT
TTCGGCCTACGGTATGGCATCCATATAAACTGCATGATTAATAACATGGTTATAATTAGCCATAA
CGTTTGAGTAAGATATAGAAAGTAAGATGTCATGAATATTAGAATAGCAGCTTACCCCTTCCCCG
GCATGCTGTTCGATCATGAGTCAGTATATCGGGACAGTGTGTGACCTCCCGATACTCGAATAAAG
ACTTCACCTACAAAAAACAAATATAGGGTTTAGGGTTGGTAACATTAG
Found at i:13361560 original size:157 final size:157
Alignment explanation
Indices: 13361206--13361619 Score: 379
Period size: 160 Copynumber: 2.6 Consensus size: 157
13361196 CTAANNNNNN
* * *
13361206 ATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTGCATTATTTCAGTGCATTATT-TT
1 ATTACTTTAAAAAATATCATAATTTCTAATTTTATTATTTTACATTATTTCAGTACATT-TTGTT
* * * *
13361270 TG--A-ATTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCT
65 TGAAATATTTTATTAATTTA-TCTGATTTTTAAATAAATTTAG-GT-AAAAAAACCCTTATTCCG
* **
13361332 GCCCTTTGCTCGTATTATTTTTTTGAATTTT
127 GCCATTTGCTCGTATTATTTTTCCGAATTTT
* * *
13361363 ATTACTTTTAATAAAAATAT-ATTACTTT-TGTATTTTATTATTTTATATTATTTCAGTACATTT
1 ATTAC-TTT-A-AAAAATATCA-TAATTTCT-AATTTTATTATTTTACATTATTTCAGTACATTT
* *
13361426 TGTTTGAAATATTTGTATTAATCATT-TCTGAATTTTTAAA-AAATTTA-GT-AAAATACTCTTA
61 TGTTTGAAATATTT-TATTAAT--TTATCTG-ATTTTTAAATAAATTTAGGTAAAAAAACCCTTA
* * **
13361487 TTTCGGCCATTTGTTCGTATT-TTTTCTCCGCTTTTT
122 TTCCGGCCATTTGCTCGTATTATTTT-TCCGAATTTT
* * *
13361523 ATTACTTTAAAAAATATCATAATTTCTAATTTTATTATTTTACATGATTTTAGTACATTATGTTT
1 ATTACTTTAAAAAATATCATAATTTCTAATTTTATTATTTTACATTATTTCAGTACATTTTGTTT
* *
13361588 G-AA-A-TTTATTAATTTAGTGTGTTTTTTAAATA
66 GAAATATTTTATTAATTTA-TCTGATTTTTAAATA
13361620 TACCATTTTT
Statistics
Matches: 211, Mismatches: 27, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
151 2 0.01
152 8 0.04
153 11 0.05
154 2 0.01
155 1 0.00
156 2 0.01
157 52 0.25
158 6 0.03
159 12 0.06
160 82 0.39
162 3 0.01
163 4 0.02
164 16 0.08
165 8 0.04
166 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.53
Consensus pattern (157 bp):
ATTACTTTAAAAAATATCATAATTTCTAATTTTATTATTTTACATTATTTCAGTACATTTTGTTT
GAAATATTTTATTAATTTATCTGATTTTTAAATAAATTTAGGTAAAAAAACCCTTATTCCGGCCA
TTTGCTCGTATTATTTTTCCGAATTTT
Found at i:13362007 original size:41 final size:41
Alignment explanation
Indices: 13361928--13362086 Score: 172
Period size: 41 Copynumber: 4.0 Consensus size: 41
13361918 AAAAATTACC
* *
13361928 TTTTTTTTTCCT-TCCTTCCCTCTTC-TT-CTTCTTCTTTCT
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTT-TTTCT
*
13361967 TTTTTTTTTCATCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
* *
13362008 TTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTC--TTTC-
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
* * *
13362046 --TTTCTTTCCTCTCCTTTCGTTTTCTTTCTTTCTTTCTTCT
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTT-TTCT
13362086 T
1 T
13362087 CCTTCCCTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
36 27 0.26
38 1 0.01
39 18 0.18
40 11 0.11
41 39 0.38
42 6 0.06
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (41 bp):
TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
Found at i:13362027 original size:31 final size:32
Alignment explanation
Indices: 13361992--13362090 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 32
13361982 CTTTCCTTTT
13361992 CTTTCCTTCTTTTTCTTTCTTT-TTTCTTCTC
1 CTTTCCTTCTTTTTCTTTCTTTCTTTCTTCTC
*
13362023 CTTTCCTT-TTCTTTCCTTCTTTCTTTCTT-TC
1 CTTTCCTTCTT-TTTCTTTCTTTCTTTCTTCTC
* *
13362054 CTCTCCTTTCGTTTTCTTTCTTTCTTTCTTCTTC
1 CTTTCC-TTCTTTTTCTTTCTTTCTTTCTTC-TC
13362088 CTT
1 CTT
13362091 CCCTCTCCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.04
31 25 0.44
32 25 0.44
33 1 0.02
34 4 0.07
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (32 bp):
CTTTCCTTCTTTTTCTTTCTTTCTTTCTTCTC
Found at i:13362059 original size:36 final size:35
Alignment explanation
Indices: 13362004--13362083 Score: 124
Period size: 36 Copynumber: 2.3 Consensus size: 35
13361994 TTCCTTCTTT
*
13362004 TTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTTCTTTTTTCCTCTCCTTTCCTTTTCTTTCC
* *
13362039 TTCTTTCTTTCTTTCCTCTCCTTTCGTTTTCTTTCT
1 TTCTTTCTTT-TTTCCTCTCCTTTCCTTTTCTTTCC
13362075 TTCTTTCTT
1 TTCTTTCTT
13362084 CTTCCTTCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 10 0.24
36 31 0.76
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (35 bp):
TTCTTTCTTTTTTCCTCTCCTTTCCTTTTCTTTCC
Found at i:13362070 original size:28 final size:28
Alignment explanation
Indices: 13362007--13362090 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
13361997 CTTCTTTTTC
* *
13362007 TTTCTTT-TTTCTTCTCCTTTCCTTTTCTT
1 TTTCTTTCTTTCTT-TCCTCTCC-TTTCGT
13362036 TCCTTCTTTCTTTCTTTCCTCTCCTTTCGT
1 T--TTCTTTCTTTCTTTCCTCTCCTTTCGT
*
13362066 TTTCTTTCTTTCTTTCTTCTTCCTT
1 TTTCTTTCTTTCTTTCCTC-TCCTT
13362091 CCCTCTCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 17 0.35
29 6 0.12
30 6 0.12
31 13 0.27
32 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (28 bp):
TTTCTTTCTTTCTTTCCTCTCCTTTCGT
Found at i:13368533 original size:72 final size:73
Alignment explanation
Indices: 13368404--13368575 Score: 240
Period size: 73 Copynumber: 2.4 Consensus size: 73
13368394 AAAATAAGCA
** * * **
13368404 TTAGCGGCGTTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACTTTGTTTTTC-GAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAACCCCAACGACTCCGTTTTTCTGAGCTT
13368468 TCGGGGAT
66 TCGGGGAT
* *
13368476 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACATAACCCCAACGACTCCG-TTTTCTGAGCT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACATAACCCCAACGACTCCGTTTTTCTGAGCT
*
13368540 TTTGGGGAT
65 TTCGGGGAT
13368549 TTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
13368576 TAATGCTCAG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
72 29 0.33
73 59 0.67
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (73 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAACCCCAACGACTCCGTTTTTCTGAGCTT
TCGGGGAT
Found at i:13368791 original size:114 final size:114
Alignment explanation
Indices: 13368475--13369241 Score: 1124
Period size: 114 Copynumber: 6.7 Consensus size: 114
13368465 CTTTCGGGGA
* * * *
13368475 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACATAACCCCAACGACTCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
13368540 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*** * ** ** * *
13368589 TTTAGCAATGTTTCTGAGAAAGCGCTTCAAAAAAAAAATAAGCCCAACGACGTCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
* *
13368654 TTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGTC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
13368704 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
13368769 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCAGCTAATGTTCAGGTC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* **
13368818 TTTAGCGGCGTTTTTGAGAACGCGTTGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
13368883 TTCGGGGATTTAGCAGTGTTTTT-AGTAAAGCGCCGCTAATGCTCAGGTC
66 TTCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGC
* * * *
13368932 TTTATCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
13368997 TTCGGGGATTTAGCGGCGTTTCT-AGTAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGC
*
13369046 TTTAGCGACGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
13369111 TTCGGGGATTTAACGGCGTTTTTAAGAAAGAGCCGCCAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
13369160 TTTAGCGGCGTTTTTGAGAATGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
13369225 TTCAGGGATGTAGCGGC
66 TTCGGGGATTTAGCGGC
13369242 AAAAGATTCT
Statistics
Matches: 588, Mismatches: 62, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
113 2 0.00
114 484 0.82
115 102 0.17
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:13369307 original size:41 final size:42
Alignment explanation
Indices: 13369250--13369330 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 42
13369240 GCAAAAGATT
*
13369250 CTGGGGGCTTTGGCGGCGTTTTTGAAAAAGCGCCG-TTAATG
1 CTGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTTAATG
* *
13369291 CTGGGGGCTTTAGCGGCGTTTTTGGAAAATCGCCGCTTAA
1 CTGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTTAA
13369331 AATATTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 32 0.89
42 4 0.11
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.30
Consensus pattern (42 bp):
CTGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTTAATG
Found at i:13369894 original size:21 final size:20
Alignment explanation
Indices: 13369860--13369900 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
13369850 TATGGATTTA
*
13369860 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
13369880 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
13369901 AAGGGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:13370308 original size:137 final size:137
Alignment explanation
Indices: 13370159--13370428 Score: 531
Period size: 137 Copynumber: 2.0 Consensus size: 137
13370149 AAATTTTAGC
*
13370159 ATAGCAAAACGGCTTCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATGAAAAACGT
1 ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATGAAAAACGT
13370224 CGCAAAAGATAAGCAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
66 CGCAAAAGATAAGCAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
13370289 AAACAAA
131 AAACAAA
13370296 ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATGAAAAACGT
1 ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATGAAAAACGT
13370361 CGCAAAAGATAAGCAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
66 CGCAAAAGATAAGCAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
13370426 AAA
131 AAA
13370429 AATAAAAAAA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (137 bp):
ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATGAAAAACGT
CGCAAAAGATAAGCAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
AAACAAA
Found at i:13370511 original size:107 final size:108
Alignment explanation
Indices: 13370375--13370603 Score: 349
Period size: 107 Copynumber: 2.1 Consensus size: 108
13370365 AAAGATAAGC
* *
13370375 AATAGCGGCGTTTTT-T-ATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAA-AATAAAAA
1 AATAGCAGCGTTTTTATAAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAA-AAAAA
*
13370437 AAAAATTTTAGCAT-GCAAAACGGCGTCATTTTGTTCAAAATGA
65 AAAAATTTTAGCATAGCAAAACGACGTCATTTTGTTCAAAATGA
* *
13370480 AATAGCAGTGTTTTTATAAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAA
1 AATAGCAGCGTTTTTATAAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAAAAAA
**
13370545 AATTTTTTAGCATAGCAAAACGACGTCATTTTGTTCAAAATGA
66 AAAATTTTAGCATAGCAAAACGACGTCATTTTGTTCAAAATGA
*
13370588 AATAGCGGCGTTTTTA
1 AATAGCAGCGTTTTTA
13370604 AAATAAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
105 13 0.12
106 1 0.01
107 53 0.48
108 44 0.40
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (108 bp):
AATAGCAGCGTTTTTATAAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAAAAAA
AAAATTTTAGCATAGCAAAACGACGTCATTTTGTTCAAAATGA
Found at i:13370613 original size:90 final size:90
Alignment explanation
Indices: 13370513--13370679 Score: 300
Period size: 90 Copynumber: 1.9 Consensus size: 90
13370503 AACGCCGCAA
*
13370513 AAAATAAATCAATTTATAAAAAACAAAATAA-AAATTTTTTAGCATAGCAAAACGACGTCATTTT
1 AAAATAAATCAATTTATAAAAAACAAAATAAGAAA-TTTTTAGAATAGCAAAACGACGTCATTTT
13370577 GTTCAAAATGAAATAGCGGCGTTTTT
65 GTTCAAAATGAAATAGCGGCGTTTTT
*
13370603 AAAATAAATCAATTTATAAAAAACAAAATAAGAAATTTTTAGAATAGCAAAACGGCGTCATTTTG
1 AAAATAAATCAATTTATAAAAAACAAAATAAGAAATTTTTAGAATAGCAAAACGACGTCATTTTG
13370668 TTCAAAATGAAA
66 TTCAAAATGAAA
13370680 AATTCTTTGT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
90 71 0.96
91 3 0.04
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (90 bp):
AAAATAAATCAATTTATAAAAAACAAAATAAGAAATTTTTAGAATAGCAAAACGACGTCATTTTG
TTCAAAATGAAATAGCGGCGTTTTT
Found at i:13374035 original size:43 final size:42
Alignment explanation
Indices: 13373934--13374238 Score: 344
Period size: 43 Copynumber: 7.2 Consensus size: 42
13373924 TGTTTTTAGT
* * * * *
13373934 GGCGTTTTTGCAAGAAGCGTCGCTAAAGGT-TTGTTCTATAGT
1 GGCGTTTGTG-AAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
13373976 GGCGTTTTTGATAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
13374019 GGCGTTTGTAGAAAAAGCGCCACTAAAGGTCTTGATCTATAGC
1 GGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
13374062 GGCGTTTGTGGGAAAATCACCGCTAAAGGTCTTGAGCTATAGC
1 GGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
13374105 GGCGTTTGTTGTAAAA-CGCCGCTAAAGATCCTGATCTATAAC
1 GGCGTTTG-TGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
13374147 GGCGTTTATGGAAAAGCGCAGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
13374189 GGTGTTTGTGAGGAAAGCGCCGCTAAAGGTCTTGGTCTATAGC
1 GGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
13374232 GGCGTTT
1 GGCGTTT
13374239 ATTTCCAAAA
Statistics
Matches: 226, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
41 7 0.03
42 85 0.38
43 131 0.58
44 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
GGCGTTTGTGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
Found at i:13377329 original size:9 final size:9
Alignment explanation
Indices: 13377315--13377453 Score: 64
Period size: 9 Copynumber: 14.3 Consensus size: 9
13377305 ATCTGTTATG
13377315 TATGTATAT
1 TATGTATAT
*
13377324 TATGTATGT
1 TATGTATAT
13377333 TATGTATAT
1 TATGTATAT
*
13377342 TATTGTTTAT
1 TA-TGTATAT
*
13377352 GTTTGTATAT
1 -TATGTATAT
* *
13377362 TACGTATGT
1 TATGTATAT
13377371 TATGTAGTATAT
1 TA--T-GTATAT
* *
13377383 TACTGTTTTT
1 TA-TGTATAT
*
13377393 GTAT-TTTAT
1 -TATGTATAT
*
13377402 GTATGCTATGT
1 -TATG-TATAT
*
13377413 TATGTGTAT
1 TATGTATAT
*
13377422 TATTGTTTAT
1 TA-TGTATAT
13377432 GTATGTATAT
1 -TATGTATAT
*
13377442 TATGTATGT
1 TATGTATAT
13377451 TAT
1 TAT
13377454 ATTTATTATT
Statistics
Matches: 99, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
9 50 0.51
10 33 0.33
11 9 0.09
12 7 0.07
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.58
Consensus pattern (9 bp):
TATGTATAT
Found at i:13377353 original size:38 final size:38
Alignment explanation
Indices: 13377310--13377499 Score: 197
Period size: 38 Copynumber: 4.9 Consensus size: 38
13377300 AGTATATCTG
13377310 TTATGTATGTATATTATGTATGTTATGTATATTATTGT
1 TTATGTATGTATATTATGTATGTTATGTATATTATTGT
* * *
13377348 TTATGTTTGTATATTACGTATGTTATGTAGTATATTACTGT
1 TTATGTATGTATATTATGTATGTTA--T-GTATATTATTGT
* * *
13377389 TTTTGTAT-TTTATGTATGCTATGTTATGTGTATTATTGT
1 TTATGTATGTATAT-TATG-TATGTTATGTATATTATTGT
* *
13377428 TTATGTATGTATATTATGTATGTTATATTTATTATTGT
1 TTATGTATGTATATTATGTATGTTATGTATATTATTGT
* * *
13377466 TTATAATATGTATGTTTAT-CATG-TATGTATATTA
1 TTAT-GTATGTAT-ATTATGTATGTTATGTATATTA
13377500 CAATTTATAT
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
38 54 0.43
39 31 0.25
40 14 0.11
41 20 0.16
42 7 0.06
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.57
Consensus pattern (38 bp):
TTATGTATGTATATTATGTATGTTATGTATATTATTGT
Found at i:13380928 original size:14 final size:14
Alignment explanation
Indices: 13380909--13380940 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13380899 CCATGGATAA
*
13380909 TTTGATGGTTTTAT
1 TTTGATGGTTCTAT
13380923 TTTGATGGTTCTAT
1 TTTGATGGTTCTAT
13380937 TTTG
1 TTTG
13380941 TTGGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.22, T:0.62
Consensus pattern (14 bp):
TTTGATGGTTCTAT
Found at i:13382344 original size:25 final size:24
Alignment explanation
Indices: 13382292--13382344 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
13382282 CCAAACATTA
* *
13382292 TAAAAAATTAACGAGGAAAAATAG
1 TAAAAAAATAAAGAGGAAAAATAG
13382316 -AAAAAAATAAAGAGAGAAATAAT-G
1 TAAAAAAATAAAGAG-GAAA-AATAG
13382340 TAAAA
1 TAAAA
13382345 GAGAAATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 12 0.50
24 5 0.21
25 7 0.29
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (24 bp):
TAAAAAAATAAAGAGGAAAAATAG
Found at i:13384286 original size:17 final size:18
Alignment explanation
Indices: 13384261--13384296 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
13384251 GAATCGGTTC
*
13384261 AAAATTTTAAATAA-TAA
1 AAAAATTTAAATAACTAA
13384278 AAAAATTTAAATAACTAA
1 AAAAATTTAAATAACTAA
13384296 A
1 A
13384297 TAAGTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATTTAAATAACTAA
Found at i:13396079 original size:15 final size:15
Alignment explanation
Indices: 13396058--13396100 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13396048 AGAAGGGAAT
13396058 AAGAAAAGGAAAGAA
1 AAGAAAAGGAAAGAA
* * *
13396073 AATAAAAAGAAAGAG
1 AAGAAAAGGAAAGAA
13396088 AAGAAAAGTGAAA
1 AAGAAAAG-GAAA
13396101 AGGGAGTGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (15 bp):
AAGAAAAGGAAAGAA
Found at i:13407584 original size:12 final size:13
Alignment explanation
Indices: 13407559--13407587 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13407549 GATACAGTGT
13407559 AGAATAAGGGAGG
1 AGAATAAGGGAGG
13407572 AGAATAA-GGAGG
1 AGAATAAGGGAGG
13407584 AGAA
1 AGAA
13407588 ATGGAGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.41, T:0.07
Consensus pattern (13 bp):
AGAATAAGGGAGG
Found at i:13410175 original size:10 final size:10
Alignment explanation
Indices: 13410160--13410184 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13410150 AATTTTAATT
13410160 AAAAAATTAG
1 AAAAAATTAG
13410170 AAAAAATTAG
1 AAAAAATTAG
13410180 AAAAA
1 AAAAA
13410185 TTATAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (10 bp):
AAAAAATTAG
Found at i:13410240 original size:19 final size:20
Alignment explanation
Indices: 13410205--13410242 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13410195 GTAAAAGAAT
*
13410205 TTATAAATAATTTTAAAATG
1 TTATAAATAATTATAAAATG
13410225 TTATAAA-AATTATAAAAT
1 TTATAAATAATTATAAAAT
13410243 ATATAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TTATAAATAATTATAAAATG
Found at i:13412359 original size:13 final size:14
Alignment explanation
Indices: 13412345--13412383 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
13412335 TTTAAAAATA
13412345 ATTTAAAAAATTAAT
1 ATTTAAAAAATT-AT
13412360 CATTTGAAAAAATTAT
1 -ATTT-AAAAAATTAT
13412376 ATTTAAAA
1 ATTTAAAA
13412384 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 6 0.27
17 8 0.36
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
ATTTAAAAAATTAT
Found at i:13412407 original size:21 final size:19
Alignment explanation
Indices: 13412367--13412403 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13412357 AATCATTTGA
*
13412367 AAAAATTATATTTAAAATT
1 AAAAATAATATTTAAAATT
13412386 AAAAATAATATTTAAAAT
1 AAAAATAATATTTAAAAT
13412404 ATTATAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATAATATTTAAAATT
Found at i:13412493 original size:13 final size:13
Alignment explanation
Indices: 13412471--13412527 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
13412461 ATGTTTTATA
*
13412471 ATATTAAAAATAT
1 ATATTTAAAATAT
*
13412484 ATATTTAAAATTT
1 ATATTTAAAATAT
* *
13412497 AAAATTTAAAACAT
1 -ATATTTAAAATAT
*
13412511 ACATTTAAAATAGT
1 ATATTTAAAATA-T
13412525 ATA
1 ATA
13412528 AAAAAATAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
13 21 0.62
14 13 0.38
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATTTAAAATAT
Found at i:13412658 original size:27 final size:27
Alignment explanation
Indices: 13412593--13412648 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
13412583 AAAGCAAATT
13412593 AAAAA-AG-AAAAGGACAAACAAATAA
1 AAAAACAGAAAAAGGACAAACAAATAA
*
13412618 AAAAATCAGAAAAAGGA-AAACAAATGA
1 AAAAA-CAGAAAAAGGACAAACAAATAA
13412645 AAAA
1 AAAA
13412649 CAAATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
27 15 0.56
28 7 0.26
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.05
Consensus pattern (27 bp):
AAAAACAGAAAAAGGACAAACAAATAA
Found at i:13416879 original size:29 final size:28
Alignment explanation
Indices: 13416838--13416906 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 28
13416828 TTGACGTCAT
13416838 CGTGACAAATTGCTGACATCAGTAGTCG
1 CGTGACAAATTGCTGACATCAGTAGTCG
*
13416866 CGTGAGCAAATTGCTGACATCAGTGGTCG
1 CGTGA-CAAATTGCTGACATCAGTAGTCG
13416895 CGTGAACAAATT
1 CGTG-ACAAATT
13416907 TTAAAGATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 5 0.13
29 32 0.84
30 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (28 bp):
CGTGACAAATTGCTGACATCAGTAGTCG
Found at i:13417271 original size:19 final size:19
Alignment explanation
Indices: 13417249--13417308 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
13417239 TTTATATGAA
13417249 TATTAGAATAAGTTATGCG
1 TATTAGAATAAGTTATGCG
*** **
13417268 TATT-G-ATGTTTATATGAA
1 TATTAGAATAAGT-TATGCG
13417286 TATTAGAATAAGTTATGCG
1 TATTAGAATAAGTTATGCG
13417305 TATT
1 TATT
13417309 TTTTATCTGG
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
17 3 0.11
18 9 0.32
19 13 0.46
20 3 0.11
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.43
Consensus pattern (19 bp):
TATTAGAATAAGTTATGCG
Found at i:13417273 original size:37 final size:37
Alignment explanation
Indices: 13417232--13417308 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
13417222 GGCTTGATCA
13417232 ATTGATGTTTATATGAATATTAGAATAAGTTATGCGT
1 ATTGATGTTTATATGAATATTAGAATAAGTTATGCGT
13417269 ATTGATGTTTATATGAATATTAGAATAAGTTATGCGT
1 ATTGATGTTTATATGAATATTAGAATAAGTTATGCGT
13417306 ATT
1 ATT
13417309 TTTTATCTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (37 bp):
ATTGATGTTTATATGAATATTAGAATAAGTTATGCGT
Found at i:13419408 original size:13 final size:13
Alignment explanation
Indices: 13419390--13419423 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13419380 ATTTTTTAAA
13419390 TTTTGTTTGTTCC
1 TTTTGTTTGTTCC
**
13419403 TTTTGTTTGTTTG
1 TTTTGTTTGTTCC
13419416 TTTTGTTT
1 TTTTGTTT
13419424 TCCACAAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.18, T:0.76
Consensus pattern (13 bp):
TTTTGTTTGTTCC
Found at i:13434506 original size:8 final size:9
Alignment explanation
Indices: 13434486--13434516 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13434476 CATATATTTA
*
13434486 TTTTATAAT
1 TTTTTTAAT
13434495 TTTTTTAAT
1 TTTTTTAAT
13434504 TTTTTTAAT
1 TTTTTTAAT
13434513 TTTT
1 TTTT
13434517 ATCTAGCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:13434778 original size:19 final size:19
Alignment explanation
Indices: 13434723--13434778 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
13434713 TTGAATTTTA
* *
13434723 TTTAAGTTTTTTTATAAAT
1 TTTATGTTTTTTTAAAAAT
** *
13434742 TTTAATAATATTTT-AAAAT
1 TTT-ATGTTTTTTTAAAAAT
13434761 TTTATGTTTTTTTAAAAA
1 TTTATGTTTTTTTAAAAA
13434779 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
18 7 0.26
19 14 0.52
20 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTATGTTTTTTTAAAAAT
Found at i:13436219 original size:24 final size:23
Alignment explanation
Indices: 13436165--13436219 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
13436155 TAAAAAAAAA
*
13436165 TAAATTTTATATTTTTATATTTT
1 TAAAATTTATATTTTTATATTTT
13436188 TAATAATTTATATTTTT-TAATTTTT
1 TAA-AATTTATATTTTTAT-A-TTTT
13436213 TAAAATT
1 TAAAATT
13436220 AAAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
25 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TAAAATTTATATTTTTATATTTT
Found at i:13438264 original size:41 final size:41
Alignment explanation
Indices: 13438173--13438250 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
13438163 CACCTTTTGC
13438173 GGCTTTAGCGGCGCTTTTGAAAAAGAGCCGCTAATGCACGA
1 GGCTTTAGCGGCGCTTTTGAAAAAGAGCCGCTAATGCACGA
* * * *
13438214 GGCTTTAGCGGTGTTTTTGAAAATGCGCCGCTAATGC
1 GGCTTTAGCGGCGCTTTTGAAAAAGAGCCGCTAATGC
13438251 TTGGGGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
GGCTTTAGCGGCGCTTTTGAAAAAGAGCCGCTAATGCACGA
Found at i:13438319 original size:30 final size:31
Alignment explanation
Indices: 13438275--13438334 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
13438265 ACATTTTTTG
*
13438275 AAAAAGCACTGCTAATGCTCA-GTGTTTTAGC
1 AAAAAGCACCGCTAATGCT-AGGTGTTTTAGC
13438306 AAAAA-CACCGCTAATGCTAGGTGTTTTAG
1 AAAAAGCACCGCTAATGCTAGGTGTTTTAG
13438335 TGGCGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 21 0.78
31 5 0.19
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (31 bp):
AAAAAGCACCGCTAATGCTAGGTGTTTTAGC
Found at i:13438553 original size:14 final size:14
Alignment explanation
Indices: 13438534--13438561 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13438524 TTTTTTGGGC
13438534 ACATGGTTACTGAT
1 ACATGGTTACTGAT
13438548 ACATGGTTACTGAT
1 ACATGGTTACTGAT
13438562 TTTTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
ACATGGTTACTGAT
Found at i:13438758 original size:15 final size:14
Alignment explanation
Indices: 13438720--13438754 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13438710 ACTATTTTAA
13438720 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
13438734 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
13438749 GGTTTA
1 GGTTTA
13438755 AGGGTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:13438775 original size:21 final size:20
Alignment explanation
Indices: 13438741--13438781 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
13438731 TATGGATTTA
*
13438741 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
13438761 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
13438782 AGGAGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:13438796 original size:22 final size:22
Alignment explanation
Indices: 13438769--13438828 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
13438759 TTGGGATTTA
*
13438769 AGGTTTAGGGGTTAGGAGTTAG
1 AGGTTTAGGGGTTAAGAGTTAG
*
13438791 GGGTTTAGGGGTTAAGAGTTAG
1 AGGTTTAGGGGTTAAGAGTTAG
* *
13438813 AGATTTAGGGTTTAAG
1 AGGTTTAGGGGTTAAG
13438829 GATTCAGGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (22 bp):
AGGTTTAGGGGTTAAGAGTTAG
Found at i:13439022 original size:15 final size:15
Alignment explanation
Indices: 13439002--13439050 Score: 66
Period size: 14 Copynumber: 3.4 Consensus size: 15
13438992 CATATTTTAA
*
13439002 GATTTAGGGAGTATG
1 GATTTAGGGATTATG
13439017 GATTTAGGGATTAT-
1 GATTTAGGGATTATG
*
13439031 GAATTAGGGATTATG
1 GATTTAGGGATTATG
13439046 G-TTTA
1 GATTTA
13439051 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.39
Consensus pattern (15 bp):
GATTTAGGGATTATG
Found at i:13439071 original size:21 final size:20
Alignment explanation
Indices: 13439037--13439077 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
13439027 TTATGAATTA
*
13439037 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
13439057 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
13439078 AGGGGTGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:13442819 original size:44 final size:44
Alignment explanation
Indices: 13442726--13442833 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
13442716 TTTTTATGAC
*
13442726 CTTTAGCGGTATTTT-TGGTAAAAGCGCCGCTAAAAGTCATGTTA
1 CTTTAGCGGCATTTTGTGG-AAAAGCGCCGCTAAAAGTCATGTTA
* * * *
13442770 TTTTAGCGGCATTTTGTGGAGAAAGTGCCGTTAAAGGTCATGTT-
1 CTTTAGCGGCATTTTGTGGA-AAAGCGCCGCTAAAAGTCATGTTA
13442814 CTTTAGCGGCA-TTTGTGGAA
1 CTTTAGCGGCATTTTGTGGAA
13442834 CCTTTAGCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 8 0.14
44 24 0.43
45 23 0.41
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (44 bp):
CTTTAGCGGCATTTTGTGGAAAAGCGCCGCTAAAAGTCATGTTA
Found at i:13442897 original size:43 final size:43
Alignment explanation
Indices: 13442835--13442930 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
13442825 TTTGTGGAAC
* * *
13442835 CTTTAGCGGCGTTTTTGGGAAAAGGGTCACTAAATGTCATGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGGGCCACTAAAGGTCATGTT
* *
13442878 CTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGGGCCACTAAAGGTCATGTT
13442921 CTTTAGCGGC
1 CTTTAGCGGC
13442931 ATTTTTTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGGGCCACTAAAGGTCATGTT
Found at i:13442927 original size:107 final size:109
Alignment explanation
Indices: 13442724--13442934 Score: 302
Period size: 107 Copynumber: 2.0 Consensus size: 109
13442714 ATTTTTTATG
* * * *
13442724 ACCTTTAGCGGTATTTTTGGTAAAAGCGCCGCTAAAAGTCATGTTATTTTAGCGGCATTTTGTGG
1 ACCTTTAGCGGCATTTTTGGGAAAAGCGCCACTAAAAGTCATGTTACTTTAGCGGCATTTTGTGG
*
13442789 AGAAAGTGCCGTTAAAGGTCATGTTCTTTAGCGGCATTTGTGGA
66 AGAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGA
* * * * *
13442833 ACCTTTAGCGGCGTTTTTGGGAAAAGGGTCACTAAATGTCATGTT-CTTTAGCGGC-GTTTGTGG
1 ACCTTTAGCGGCATTTTTGGGAAAAGCGCCACTAAAAGTCATGTTACTTTAGCGGCATTTTGTGG
13442896 -GAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCATTT
66 AG-AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCATTT
13442935 TTTCATATAA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
106 1 0.01
107 43 0.47
108 9 0.10
109 38 0.42
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (109 bp):
ACCTTTAGCGGCATTTTTGGGAAAAGCGCCACTAAAAGTCATGTTACTTTAGCGGCATTTTGTGG
AGAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGA
Found at i:13444890 original size:17 final size:17
Alignment explanation
Indices: 13444868--13444925 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 17
13444858 CAAACGTATG
13444868 TGGGAAAATGACTAAAA
1 TGGGAAAATGACTAAAA
*
13444885 TGGGAAAATTTTACTAATTTAA
1 TGGGAAAA--TGACTAA---AA
*
13444907 TGGGAAAATGACTTAAA
1 TGGGAAAATGACTAAAA
13444924 TG
1 TG
13444926 CAATATTACC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
17 12 0.36
19 6 0.18
20 5 0.15
22 10 0.30
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (17 bp):
TGGGAAAATGACTAAAA
Found at i:13447172 original size:18 final size:17
Alignment explanation
Indices: 13447133--13447165 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13447123 TGATGAAAAA
*
13447133 TATTTTATCTTGATAAT
1 TATTTTATCTTAATAAT
13447150 TATTTT-TCTTAATAAT
1 TATTTTATCTTAATAAT
13447166 ATCATTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTTATCTTAATAAT
Found at i:13448289 original size:14 final size:14
Alignment explanation
Indices: 13448270--13448298 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13448260 AAATGGCAGC
13448270 AATCTTAAACATAT
1 AATCTTAAACATAT
13448284 AATCTTAAACATAT
1 AATCTTAAACATAT
13448298 A
1 A
13448299 GCCTTCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
AATCTTAAACATAT
Found at i:13450409 original size:27 final size:27
Alignment explanation
Indices: 13450371--13450424 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13450361 TTAGTTTCAA
13450371 TACACCATCTTAGGATAAAGGATGCTT
1 TACACCATCTTAGGATAAAGGATGCTT
13450398 TACACCATCTTAGGATAAAGGATGCTT
1 TACACCATCTTAGGATAAAGGATGCTT
13450425 AGTTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
TACACCATCTTAGGATAAAGGATGCTT
Found at i:13455542 original size:57 final size:58
Alignment explanation
Indices: 13455455--13455572 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 58
13455445 ATAGAAATGG
* * * *
13455455 TGAAAATGGATATATAAGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATAAGAAACATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAA
* *
13455513 TGAAAATGGAGAAAT-AGAATCATTTGGAAATAAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATAAGAAACATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAA
13455570 TGA
1 TGA
13455573 CCTGAAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 41 0.76
58 13 0.24
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.30
Consensus pattern (58 bp):
TGAAAATGGAGAAATAAGAAACATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAA
Found at i:13460375 original size:39 final size:39
Alignment explanation
Indices: 13460332--13460430 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
13460322 GCTTCAGTTG
13460332 CTAGTTAGGTAATTTTGTTATAAGCAGTTGCTTTAGCTA
1 CTAGTTAGGTAATTTTGTTATAAGCAGTTGCTTTAGCTA
* *
13460371 CTAGTTAGGTAATTTCGTTATAAGCAGTTGCTTTAGCTG
1 CTAGTTAGGTAATTTTGTTATAAGCAGTTGCTTTAGCTA
* *
13460410 CTAGTTAGCTAGTTTTGTTAT
1 CTAGTTAGGTAATTTTGTTAT
13460431 GTACTTAGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (39 bp):
CTAGTTAGGTAATTTTGTTATAAGCAGTTGCTTTAGCTA
Found at i:13460779 original size:19 final size:19
Alignment explanation
Indices: 13460757--13460793 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13460747 ACCACTATCA
13460757 CCCACCGTAATCAAATTTG
1 CCCACCGTAATCAAATTTG
13460776 CCCACCGTAATCAAATTT
1 CCCACCGTAATCAAATTT
13460794 TTTATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.27
Consensus pattern (19 bp):
CCCACCGTAATCAAATTTG
Found at i:13463523 original size:21 final size:21
Alignment explanation
Indices: 13463494--13463559 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
13463484 CGCGACATGC
13463494 ACCCTGTGTTGAGCCATAGCA
1 ACCCTGTGTTGAGCCATAGCA
*
13463515 ACCCAGTGTTGAGCCATAG-A
1 ACCCTGTGTTGAGCCATAGCA
* *
13463535 AGCCTTGTGTTGAGCCATAACA
1 A-CCCTGTGTTGAGCCATAGCA
13463557 ACC
1 ACC
13463560 TTGCATTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.05
21 35 0.90
22 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (21 bp):
ACCCTGTGTTGAGCCATAGCA
Found at i:13465082 original size:19 final size:19
Alignment explanation
Indices: 13465053--13465092 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13465043 CTAGGGCCTT
*
13465053 ATGGCCAGGCCGTGT-GAC
1 ATGGCCAGGCCATGTGGAC
13465071 ATGGCTCAGGCCATGTGGAC
1 ATGGC-CAGGCCATGTGGAC
13465091 AT
1 AT
13465093 ATGAAGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (19 bp):
ATGGCCAGGCCATGTGGAC
Found at i:13468768 original size:41 final size:41
Alignment explanation
Indices: 13468711--13468838 Score: 150
Period size: 41 Copynumber: 3.1 Consensus size: 41
13468701 CAATAGTTAT
*
13468711 CTGA-TTCACTACACTGGCACGAAGCCTACTAGGCTCAAAGC
1 CTGATTTCA-TACACTGGCACGAAGCCTGCTAGGCTCAAAGC
* * *
13468752 CTGATTTCATACACTGGCATGAGGCCTGCTAGGCTCAAGGC
1 CTGATTTCATACACTGGCACGAAGCCTGCTAGGCTCAAAGC
* * ** * *
13468793 CTAAATTGTTACACTGGCACGAAGCCTGCTAGGTTCAAAAC
1 CTGATTTCATACACTGGCACGAAGCCTGCTAGGCTCAAAGC
13468834 CTGAT
1 CTGAT
13468839 AAATGTCTCC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 67 0.94
42 4 0.06
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
CTGATTTCATACACTGGCACGAAGCCTGCTAGGCTCAAAGC
Found at i:13472822 original size:11 final size:11
Alignment explanation
Indices: 13472806--13472831 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13472796 AAATAATGTT
13472806 TTTTAATATTA
1 TTTTAATATTA
13472817 TTTTAATATTA
1 TTTTAATATTA
13472828 TTTT
1 TTTT
13472832 TTGTGTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATATTA
Found at i:13474117 original size:42 final size:43
Alignment explanation
Indices: 13474052--13474134 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
13474042 TGAGACTTAC
* *
13474052 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTT
1 GTGTAAGACCATGTCCGGAACATTGGCATCGATATATGATTTT
* *
13474094 GTGTAAGACCCTGTCCGGAACATTGGCATCGATATTTGATT
1 GTGTAAGACCATGTCCGGAACATTGGCATCGATATATGATT
13474135 ACAAGTAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCATGTCCGGAACATTGGCATCGATATATGATTTT
Found at i:13474145 original size:43 final size:42
Alignment explanation
Indices: 13474054--13474145 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
13474044 AGACTTACGT
* * ****
13474054 GTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTTGT
1 GTAAGACCATGTCCGGAACATTGGCATCGTATATGATTACAA
* *
13474096 GTAAGACCCTGTCCGGAACATTGGCATCGATATTTGATTACAA
1 GTAAGACCATGTCCGGAACATTGGCATCG-TATATGATTACAA
13474139 GTAAGAC
1 GTAAGAC
13474146 TACGTCTGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 26 0.63
43 15 0.37
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
GTAAGACCATGTCCGGAACATTGGCATCGTATATGATTACAA
Found at i:13475819 original size:16 final size:17
Alignment explanation
Indices: 13475798--13475830 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13475788 TTATTTTGTT
13475798 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
13475814 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
13475831 CTAGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:13483532 original size:19 final size:18
Alignment explanation
Indices: 13483508--13483548 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
13483498 TAATAAATAA
13483508 TAAATTTTAGA-AAAATTAT
1 TAAATTTT-GATAAAATT-T
13483527 TAAATTTTGATAAAATTT
1 TAAATTTTGATAAAATTT
13483545 TAAA
1 TAAA
13483549 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
TAAATTTTGATAAAATTT
Found at i:13483559 original size:17 final size:18
Alignment explanation
Indices: 13483537--13483571 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13483527 TAAATTTTGA
13483537 TAAAATTT-TAAAAAATT
1 TAAAATTTATAAAAAATT
*
13483554 TAAAATTTATTAAAAATT
1 TAAAATTTATAAAAAATT
13483572 AGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATTTATAAAAAATT
Found at i:13483918 original size:12 final size:12
Alignment explanation
Indices: 13483901--13483927 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13483891 TTGATTTTAA
13483901 TTTTTTCTAATT
1 TTTTTTCTAATT
13483913 TTTTTTCTAATT
1 TTTTTTCTAATT
13483925 TTT
1 TTT
13483928 AATAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTAATT
Found at i:13484030 original size:89 final size:90
Alignment explanation
Indices: 13483931--13484151 Score: 286
Period size: 89 Copynumber: 2.5 Consensus size: 90
13483921 AATTTTTAAT
* * * * *
13483931 AAAAGAAGGGGCTTAATTACTTTTTTTGAAAGATTTTGAGGGTCTGTTTGATGCATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGCCTGTTTGATGCATTTTAAAAGT
*
13483996 TCAAGTACCCAATTAAGTG-CAAAA
66 TCAAGTACCCAAATAAGTGTCAAAA
* * *
13484020 AAAAGTAGGGGCTTAATTGC-TTTTTTAAAAAAGGTTTGAGGGCCTTTTTGATGCATTTTAAAAG
1 AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAA-GTTTGAGGGCCTGTTTGATGCATTTTAAAAG
* * *
13484084 TTCAAGTATCCAAATGAGTGTGAAAA
65 TTCAAGTACCCAAATAAGTGTCAAAA
**
13484110 AAAA-TAGGGGCTTAATTTTTTTTTTTGAAAAAGTTTGAGGGC
1 AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGC
13484152 TTTTTGCACC
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
88 10 0.09
89 85 0.75
90 19 0.17
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (90 bp):
AAAAGTAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGCCTGTTTGATGCATTTTAAAAGT
TCAAGTACCCAAATAAGTGTCAAAA
Found at i:13484406 original size:9 final size:9
Alignment explanation
Indices: 13484392--13484449 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
13484382 TGAAAAAGAC
13484392 TTTTTAATA
1 TTTTTAATA
13484401 TTTTTAATAA
1 TTTTTAAT-A
13484411 TTTTT-A-A
1 TTTTTAATA
13484418 TTTTTAAT-
1 TTTTTAATA
*
13484426 TTTTATAAAA
1 TTTT-TAATA
*
13484436 TTTTAAATAA
1 TTTTTAAT-A
13484446 TTTT
1 TTTT
13484450 GAAAATGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
7 6 0.15
8 5 0.12
9 14 0.35
10 15 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTAATA
Found at i:13484517 original size:72 final size:73
Alignment explanation
Indices: 13484418--13484575 Score: 293
Period size: 72 Copynumber: 2.2 Consensus size: 73
13484408 TAATTTTTAA
13484418 TTTT-TAATTTTTATAAAATTTTAAATAATTTTGAAAATGAATTATTGATAAGCAAAGTTAACAA
1 TTTTCTAATTTTTATAAAATTTTAAATAATTTTGAAAATGAATTATTGATAAGCAAAGTTAACAA
13484482 ATGGTAAC
66 ATGGTAAC
13484490 TTTTCTAATTTTTAT-AAATTTTAAATAATTTTGAAAATGAATTATTGATAAGCAAAGTTAACAA
1 TTTTCTAATTTTTATAAAATTTTAAATAATTTTGAAAATGAATTATTGATAAGCAAAGTTAACAA
13484554 ATGGTAAC
66 ATGGTAAC
13484562 TTTTCTAACTTTTT
1 TTTTCTAA-TTTTT
13484576 TTTGTTTGAT
Statistics
Matches: 84, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
72 69 0.82
73 15 0.18
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (73 bp):
TTTTCTAATTTTTATAAAATTTTAAATAATTTTGAAAATGAATTATTGATAAGCAAAGTTAACAA
ATGGTAAC
Found at i:13487280 original size:3 final size:3
Alignment explanation
Indices: 13487261--13487324 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
13487251 TTTCCTTTTC
*
13487261 ATT ATC ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13487307 A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
13487325 CTACTACTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13487435 original size:2 final size:2
Alignment explanation
Indices: 13487394--13487425 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13487384 GTTTTTATGC
*
13487394 AT AT AC 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
13487426 TTTGATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13497646 original size:3 final size:3
Alignment explanation
Indices: 13497638--13497690 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
13497628 ATATGTAAGT
*
13497638 ATA ATA ATA ATA GTA AGTA AT- ATA ATA ATA ATTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
13497684 AGTA ATA
1 A-TA ATA
13497691 GTAGCAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13497655 original size:18 final size:17
Alignment explanation
Indices: 13497633--13497690 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 17
13497623 TATATATATG
*
13497633 TAAGTATAATAATAATAG
1 TAAGT-TAATAATAATAA
13497651 TAAG-TAAT-ATAATAA
1 TAAGTTAATAATAATAA
13497666 TAA-TTAATAATAATAA
1 TAAGTTAATAATAATAA
13497682 TAAG-TAATA
1 TAAGTTAATA
13497691 GTAGCAACGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 13 0.36
16 19 0.53
18 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (17 bp):
TAAGTTAATAATAATAA
Found at i:13499114 original size:44 final size:44
Alignment explanation
Indices: 13499018--13499124 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 44
13499008 TATTCCACTC
* * *
13499018 CTGCAACTCCAAGGAGATAGGATTAGTTTCTTTTGCCTGCTCCA
1 CTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGCCTGCTCCA
* * *
13499062 CTGCAACTTCAGGGGGATAGGATTATTTTCTTCTGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGCCTGCTCCA
*
13499106 CTGCAACTTTAGGGAGATA
1 CTGCAACTTCAGGGAGATA
13499125 AGACTTGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGCCTGCTCCA
Found at i:13499255 original size:89 final size:88
Alignment explanation
Indices: 13499162--13500377 Score: 1129
Period size: 89 Copynumber: 13.6 Consensus size: 88
13499152 TCCAATATGG
*
13499162 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAATACATGAAGACAATATCTACTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTTTCT
*
13499227 TCGATCTACTTCACGCCAATATAT
65 TCGATCTACTTCACGCCAATACAT
* * * * * **
13499251 GAAGACAAGATTTGCTATCTTTGATCTACTTTACTGCCAGTACAGGAAGAAAAGAT-TTGTTATC
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTT-TC
* * * *
13499315 TTTGATCTAGTTCACGGCCAGTACAG
64 TTCGATCTACTTCAC-GCCAATACAT
** * * * *
13499341 GAAGACAAGATCTGCTATCTTCAATCTATTTCACGGCAATACATGAAGACAAGATTTACTATCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
13499406 CGATCTACTTCACGCCAATACAT
66 CGATCTACTTCACGCCAATACAT
* * ** * * *
13499429 GAAGACAAGATCTGTTTTCTTTGATCTACTT--CGCCACCAGTATGGAAAGACAAGATCTGCTAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATA-CAT-G-AAGACAAGATCTACTTT
* * *
13499492 CTTTGATCTACTTTACGTCAATACAT
63 CTTCGATCTACTTCACGCCAATACAT
* * * * * * *
13499518 GAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAGATATATTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTTTCT
* * * ***
13499583 TCGATCTACTTCGCCACCAGTATGG
65 TCGATCTACTTC-ACGCCAATACAT
*
13499608 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTATT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
* * * *
13499673 TGATCTACTTCGCTGCCAGTACAG
66 CGATCTACTTCAC-GCCAATACAT
* * * * * * *
13499697 GAAGACAAGATCTGTTTTCTTCGATCTACTTTGC-CACCAATATGA-GAAGACAAGATCTGCTAT
1 GAAGACAAGATCTGCTATCTTTGATCTAC-TT-CACGCCAATA-CATGAAGACAAGATCTACTTT
* *
13499760 CTTTGATCTACTTCACGCAAATACAT
63 CTTCGATCTACTTCACGCCAATACAT
* * * * * **
13499786 GAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTTTCT
* *
13499851 TCGATCTACTTTGC-CACCAATATGA-
65 TCGATCTAC-TT-CACGCCAATA-CAT
* * *
13499876 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAAACAAGATTTGCTATTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACT-TTCT
* *
13499941 TCAATCTACTTCACGCAAATACAT
65 TCGATCTACTTCACGCCAATACAT
* * * *
13499965 GAAAACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-GTTATCC
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTT-TCT
* *
13500029 TCTGATCTACTTCATGCCAGTACAT
65 TC-GATCTACTTCACGCCAATACAT
* * * * *
13500054 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCCACTAGTATGGGAAGACAAGATCTACTAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTACTTT
*
13500117 CTTTGATCTACTTCACGCCAATACAT
63 CTTCGATCTACTTCACGCCAATACAT
* * * * * * *
13500143 GAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAAGAAAACAAGATCTATTTTCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTTTCT
* * ***
13500208 TCGATCTACTTCGCCACCAATATGG
65 TCGATCTACTTC-ACGCCAATACAT
* * ** *
13500233 GAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATATGTTTTATT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
* * *
13500298 TGATCTACTTCACTGCCAGTACAG
66 CGATCTACTTCAC-GCCAATACAT
* * * * * * * *
13500322 GAAGACAAAATATGTTTTCTTCGATCTACTTCACCACCAATATAAGAAGACAAGAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAATACATGAAGACAAGAT
13500378 ATGTTGCCTT
Statistics
Matches: 922, Mismatches: 170, Indels: 69
0.79 0.15 0.06
Matches are distributed among these distances:
86 5 0.01
87 11 0.01
88 53 0.06
89 596 0.65
90 237 0.26
91 9 0.01
92 11 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (88 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
CGATCTACTTCACGCCAATACAT
Found at i:13499329 original size:134 final size:134
Alignment explanation
Indices: 13499161--13500353 Score: 1261
Period size: 134 Copynumber: 8.9 Consensus size: 134
13499151 CTCCAATATG
* * * * *
13499161 GGAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAATACATGAAGACAATATCTACTTTC
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACATGAAGACAAGATCTGCTATC
* * * * * **
13499226 TTCGATCTACTTCACGCCAATATATGAAGACAAGATTTGCTATCTTTGATCTACTTTACTGCCAG
66 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCCAG
13499291 TACA
131 TACA
* * * * * *
13499295 GGAAGAAAAGATTTGTTATCTTTGATCTAGTTCACGGCCAGTACAGGAAGACAAGATCTGCTATC
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACATGAAGACAAGATCTGCTATC
** * * * * * * *
13499360 TTCAATCTATTTCACGGCAATACATGAAGACAAGATTTACTATCTTCGATCTACTTCAC-GCCAA
66 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCCAG
13499424 TACA
131 TACA
* * * * *
13499428 TGAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAGT--ATGGAAAGACAAGATCTGCTA
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACAT-G-AAGACAAGATCTGCTA
* * * *
13499491 TCTTTGATCTACTTTACGTCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCC
64 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCC
13499556 AGTACA
129 AGTACA
* * * * * * * * ***
13499562 AGAAGACAAGATATATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACATGAAGACAAGATCTGCTATC
* * *
13499627 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTATTTGATCTACTTCGCTGCCAG
66 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCCAG
13499692 TACA
131 TACA
* * ** * *
13499696 GGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAATATGA-GAAGACAAGATCTGCTAT
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATA-CATGAAGACAAGATCTGCTAT
* * *
13499760 CTTTGATCTACTTCACGCAAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCA
65 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCCA
13499825 GTACA
130 GTACA
* * ** * *
13499830 GGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAATATGA-GAAGACAAGATCTGCTAT
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATA-CATGAAGACAAGATCTGCTAT
* * * * *
13499894 CTTTGATCTACTTCACGCCAATACATGAAAACAAGATTTGCTATTCTTCAATCTACTTCAC-GCA
65 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-TTCTTCGATCTACTTCGCTGCC
*
13499958 AATACA
129 AGTACA
* * * * *
13499964 TGAAAACAAGATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTATC
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACATGAAGACAAGATCTGCTAT-
* * * ** *
13500028 CTCTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTA
65 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCCA
**
13500093 GTATG
130 GTACA
** * *
13500098 GGAAGACAAGATCTACTATCTTTGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTA
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACATGAAGACAAGATCTGCTATC
* * * * ** **
13500162 TTTGATCTACTTCGCTGCCAGTACAAGAAAACAAGATCTATTTTCTTCGATCTACTTCGCCACCA
66 TTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCCA
* **
13500227 ATATG
130 GTACA
* * * * * *
13500232 GGAAGACAAGATCTGCTATCTTTAATCTACTTCA-CGCCAATACATGAAGACAAGATATGTTTTA
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACATGAAGACAAGATCTGCTATC
* * * * *
13500296 TTTGATCTACTTCACTGCCAGTACAGGAAGACAAAATATGTTTTCTTCGATCTACTTC
66 TTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
13500354 ACCACCAATA
Statistics
Matches: 935, Mismatches: 113, Indels: 22
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.00
132 2 0.00
133 160 0.17
134 757 0.81
135 15 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (134 bp):
GGAAGACAAGATCTGTTATCTTTGATCTACTTCACCGCCAATACATGAAGACAAGATCTGCTATC
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTGCCAG
TACA
Found at i:13499614 original size:223 final size:220
Alignment explanation
Indices: 13499138--13500377 Score: 1103
Period size: 223 Copynumber: 5.6 Consensus size: 220
13499128 CTTGTATCAG
* * * ** *
13499138 CGATCTACTTTGCCTCCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAAT
1 CGATCTACTTCGCCGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAAT
* * *
13499203 ACATGAAGACAATATCTACTTTCTTCGATCTACTTCACGCCAATATATGAAGACAAGATTTGCTA
65 ACATGAAGACAAGATCTACTTTCTTTGATCTACTT-ACGCCAATATATGAAGACAAGATCTGCTA
* * * * * *
13499268 TCTTTGATCTACTTTACTGCCAGTACAGGAAGAAAAGATTTGTTATCTTTGATCTAGTTCACGGC
129 TCTTTGATCTACTTTAC-GCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GC
* *
13499333 CAGTACAGGAAGACAAGATCTGCTATCTT
192 CAATACATGAAGACAAGATCTGCTATCTT
* * * * * * * *
13499362 CAATCTATTTC-ACGGCAATACATGAAGACAAGATTTACTATCTTCGATCTACTTCACGCCAATA
1 CGATCTACTTCGCCGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA
** **
13499426 CATGAAGACAAGATCTGTTTTCTTTGATCTACTT-CGCCACCAGTATGGAAAGACAAGATCTGCT
66 CATGAAGACAAGATCTACTTTCTTTGATCTACTTACGCCAATA-TAT-G-AAGACAAGATCTGCT
* * * *
13499490 ATCTTTGATCTACTTTACGTCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGC
128 ATCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-GC
* * * ** *
13499555 CAGTACAAGAAGACAAGATATATTTTCTT
192 CAATACATGAAGACAAGATCTGCTATCTT
* ** *
13499584 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATA
1 CGATCTACTTCGCCGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA
* * * * * * *
13499649 CATGAAGACAAGATCTACTTTATTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTT
66 CATGAAGACAAGATCTACTTTCTTTGATCTACTT-AC-GCCAATATATGAAGACAAGATCTGCTA
* * * *
13499714 TCTTCGATCTACTTTGCCACCAATATGA-GAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
129 TCTTTGATCTACTTT-ACGCCAATA-CATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
* * *
13499778 AAATACATGAAGACAAGATCTGCTTTATT
192 CAATACATGAAGACAAGATCTGCTATCTT
* * * * *
13499807 TGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTTTCTTCGATCTACTTTGC-CACCAA
1 CGATCTACTTCGCCGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTAC-TT-CACGCCAA
* * * * * *
13499871 TATGA-GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAAACAAGATTTGC
64 TA-CATGAAGACAAGATCTACTTTCTTTGATCTACTT-ACGCCAATATATGAAGACAAGATCTGC
** * * * *
13499935 TATTCTTCAATCTACTTCACGCAAATACATGAAAACAAGATCTGCTATCTTCGATCTACTTCACG
127 TA-TCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACG
* *
13500000 CCAATACATGAAGACAAGATCTGTTATCCT
191 CCAATACATGAAGACAAGATCTGCTATCTT
** * * *
13500030 CTGATCTACTTC-ATGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCCACT
1 C-GATCTACTTCGCCGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAAT
* * *
13500092 AGTATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
65 A-CAT--GAAGACAAGATCTACTTTCTTTGATCTACTT-ACGCCAATATATGAAGACAAGATCTG
* * ** * * * ** * * *
13500157 CTTTATTTGATCTACTTCGCTGCCAGTACAAGAAAACAAGATCTATTTTCTTCGATCTACTTCGC
126 CTATCTTTGATCTACTTTAC-GCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTC-A
* ***
13500222 CACCAATATGGGAAGACAAGATCTGCTATCTT
189 CGCCAATACATGAAGACAAGATCTGCTATCTT
** * * * * * * * * *
13500254 TAATCTACTTC-ACGCCAATACATGAAGACAAGATATGTTTTATTTGATCTACTTCACTGCCAGT
1 CGATCTACTTCGCCGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAAT
* * * ** * * *
13500318 ACAGGAAGACAAAATATGTTTTCTTCGATCTACTTCACCACCAATATAAGAAGACAAGAT
65 ACATGAAGACAAGATCTACTTTCTTTGATCTACTT-A-CGCCAATATATGAAGACAAGAT
13500378 ATGTTGCCTT
Statistics
Matches: 839, Mismatches: 153, Indels: 48
0.81 0.15 0.05
Matches are distributed among these distances:
220 13 0.02
221 3 0.00
222 123 0.15
223 529 0.63
224 153 0.18
225 7 0.01
226 11 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (220 bp):
CGATCTACTTCGCCGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA
CATGAAGACAAGATCTACTTTCTTTGATCTACTTACGCCAATATATGAAGACAAGATCTGCTATC
TTTGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAAT
ACATGAAGACAAGATCTGCTATCTT
Found at i:13500382 original size:45 final size:45
Alignment explanation
Indices: 13499162--13500377 Score: 1100
Period size: 45 Copynumber: 27.2 Consensus size: 45
13499152 TCCAATATGG
* *
13499162 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * *
13499207 GAAGACAATATCTACTTTCTTCGATCTACTTCA-CGCCAATATAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * * *
13499251 GAAGACAAGATTTGCTATCTTTGATCTACTTTACTGCCAGTACAG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * * *
13499296 GAAGAAAAGATTTG-TTATCTTTGATCTAGTTCACGGCCAGTACAG
1 GAAGACAAGATCTGCTT-TCTTTGATCTACTTCACCGCCAATACAT
* ** * *
13499341 GAAGACAAGATCTGCTATCTTCAATCTATTTCA-CGGCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * *
13499385 GAAGACAAGATTTACTATCTTCGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * *
13499429 GAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAGT--AT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * *
13499472 GGAAAGACAAGATCTGCTATCTTTGATCTACTTTA-CGTCAATACAT
1 -G-AAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * *
13499518 GAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAA
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* ** * * * * ***
13499563 GAAGACAAGATATATTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
*
13499608 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * * *
13499652 GAAGACAAGATCTACTTTATTTGATCTACTTCGCTGCCAGTACAG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * ** * *
13499697 GAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAATATGA-
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATA-CAT
* *
13499742 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCAAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * *
13499786 GAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * ** * *
13499831 GAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAATATGA-
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATA-CAT
*
13499876 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * ** *
13499920 GAAAACAAGATTTGCTATTCTTCAATCTACTTCA-CGCAAATACAT
1 GAAGACAAGATCTGCT-TTCTTTGATCTACTTCACCGCCAATACAT
* * *
13499965 GAAAACAAGATCTGCTATCTTCGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * *
13500009 GAAGACAAGATCTG-TTATCCTCTGATCTACTTCA-TGCCAGTACAT
1 GAAGACAAGATCTGCTT-T-CTTTGATCTACTTCACCGCCAATACAT
* * * * * ***
13500054 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* *
13500099 GAAGACAAGATCTACTATCTTTGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * *
13500143 GAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGTACAA
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* ** * * * ***
13500188 GAAAACAAGATCTATTTTCTTCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* *
13500233 GAAGACAAGATCTGCTATCTTTAATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * * *
13500277 GAAGACAAGATATGTTTTATTTGATCTACTTCACTGCCAGTACAG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
* * * * * * *
13500322 GAAGACAAAATATGTTTTCTTCGATCTACTTCACCACCAATATAA
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
13500367 GAAGACAAGAT
1 GAAGACAAGAT
13500378 ATGTTGCCTT
Statistics
Matches: 942, Mismatches: 207, Indels: 44
0.79 0.17 0.04
Matches are distributed among these distances:
43 5 0.01
44 355 0.38
45 575 0.61
46 7 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (45 bp):
GAAGACAAGATCTGCTTTCTTTGATCTACTTCACCGCCAATACAT
Found at i:13501682 original size:13 final size:13
Alignment explanation
Indices: 13501666--13501716 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
13501656 TACCTTATCC
13501666 TTTTCATTTTACT
1 TTTTCATTTTACT
*
13501679 TTTTCCATTTTTCAT
1 TTTT-CATTTTAC-T
*
13501694 TTCTCATTTTCAC-
1 TTTTCATTTT-ACT
13501707 TTTTCATTTT
1 TTTTCATTTT
13501717 TTCATTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 13 0.42
14 13 0.42
15 5 0.16
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTCATTTTACT
Found at i:13501700 original size:28 final size:29
Alignment explanation
Indices: 13501669--13501732 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 29
13501659 CTTATCCTTT
13501669 TCATTTT-ACTTTTTCCA-TTTTTCATTTC-
1 TCATTTTCAC-TTTT-CATTTTTTCATTTCA
13501697 TCATTTTCACTTTTCATTTTTTCATTTCA
1 TCATTTTCACTTTTCATTTTTTCATTTCA
13501726 TCATTTT
1 TCATTTT
13501733 TACGACTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.06
28 22 0.67
29 9 0.27
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (29 bp):
TCATTTTCACTTTTCATTTTTTCATTTCA
Found at i:13501717 original size:7 final size:7
Alignment explanation
Indices: 13501666--13501733 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
13501656 TACCTTATCC
13501666 TTTTCAT
1 TTTTCAT
*
13501673 TTTAC-T
1 TTTTCAT
13501679 TTTTCCAT
1 TTTT-CAT
13501687 TTTTCAT
1 TTTTCAT
*
13501694 TTCTCA-
1 TTTTCAT
*
13501700 TTTTCAC
1 TTTTCAT
13501707 TTTTCATT
1 TTTTCA-T
13501715 TTTTCAT
1 TTTTCAT
*
13501722 TTCATCAT
1 TT-TTCAT
13501730 TTTT
1 TTTT
13501734 ACGACTCAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
6 9 0.18
7 23 0.47
8 17 0.35
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTTCAT
Found at i:13506693 original size:21 final size:21
Alignment explanation
Indices: 13506662--13506710 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13506652 GTATATATAT
* *
13506662 GTAAGTATAATAATAGTAGTAA
1 GTAA-TATAATAATAATAATAA
13506684 GTAATATAATAATAATAATAA
1 GTAATATAATAATAATAATAA
13506705 GTAATA
1 GTAATA
13506711 GTAGCAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (21 bp):
GTAATATAATAATAATAATAA
Found at i:13511319 original size:21 final size:21
Alignment explanation
Indices: 13511293--13511342 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
13511283 AATCATATCT
*
13511293 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
13511314 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
13511335 TCTAAGAT
1 TCTAAGAT
13511343 CTAAGATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:13511613 original size:44 final size:45
Alignment explanation
Indices: 13511560--13511658 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
13511550 AGGAATTCGT
* *
13511560 GCTTCAATCTACTCCACTGCAACTTC-AGGGAGATAAGACTT-ATA
1 GCTTAAATCTACTCCACTGCAACTTCAAGAG-GATAAGACTTGATA
* * * *
13511604 GCTTTAATCTGCTCCACTGCCACTTCAAGAGGATAAGACTTGCTA
1 GCTTAAATCTACTCCACTGCAACTTCAAGAGGATAAGACTTGATA
13511649 GCTTAAATCT
1 GCTTAAATCT
13511659 GCTTCCCACT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 33 0.70
45 14 0.30
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
GCTTAAATCTACTCCACTGCAACTTCAAGAGGATAAGACTTGATA
Found at i:13512134 original size:44 final size:44
Alignment explanation
Indices: 13512086--13512270 Score: 146
Period size: 44 Copynumber: 4.2 Consensus size: 44
13512076 TATCTTGGAA
*
13512086 AGATAAGATTTGTCGTCTTCAATCTTCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * *
13512130 AGATAAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * *
13512174 AGACAAGGCTTGGT-GGCTTAAATCTGCTTCTCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTAC-TC-CACTACTGCTTAGG-G
*
13512218 AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
13512262 AGATAAGAT
1 AGATAAGAT
13512271 CTATGATCCT
Statistics
Matches: 101, Mismatches: 30, Indels: 20
0.67 0.20 0.13
Matches are distributed among these distances:
42 5 0.05
43 10 0.10
44 76 0.75
45 7 0.07
46 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:13512272 original size:132 final size:132
Alignment explanation
Indices: 13512035--13512316 Score: 492
Period size: 132 Copynumber: 2.1 Consensus size: 132
13512025 NNNNNNNNNN
*
13512035 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTC
1 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
* *
13512100 GTCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
66 GTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCGCTGC
13512165 TG
131 TG
*
13512167 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTGCC
1 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
** *
13512232 GTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTATGATCCTCAACCTACTCCGCTGT
66 GTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCGCTGC
13512297 TG
131 TG
*
13512299 CTTAGGGAGACAAGGCTT
1 CTCAGGGAGACAAGGCTT
13512317 AGTGTTTCAC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 142 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
GTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCGCTGC
TG
Found at i:13513595 original size:7 final size:7
Alignment explanation
Indices: 13513585--13513634 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
13513575 TCCATTTTAC
13513585 TTTTTCA
1 TTTTTCA
13513592 TTTTTCA
1 TTTTTCA
13513599 TTTTTCA
1 TTTTTCA
*
13513606 CTTTTTTA
1 -TTTTTCA
13513614 TTTTTTCA
1 -TTTTTCA
*
13513622 TTTCGTCA
1 TTT-TTCA
13513630 TTTTT
1 TTTTT
13513635 TTCGACTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 18 0.50
8 18 0.50
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:13513610 original size:15 final size:14
Alignment explanation
Indices: 13513585--13513634 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
13513575 TCCATTTTAC
13513585 TTTTTCATTTTTCA
1 TTTTTCATTTTTCA
*
13513599 TTTTTCACTTTTTTA
1 TTTTTCA-TTTTTCA
*
13513614 TTTTTTCATTTCGTCA
1 -TTTTTCATTT-TTCA
13513630 TTTTT
1 TTTTT
13513635 TTCGACTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 7 0.23
15 14 0.47
16 9 0.30
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:13513611 original size:22 final size:22
Alignment explanation
Indices: 13513579--13513624 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
13513569 AGCCTCTCCA
13513579 TTTTACTTTTTCA-TTTTTCAT
1 TTTTACTTTTTCATTTTTTCAT
*
13513600 TTTTCACTTTTTTATTTTTTCAT
1 TTTT-ACTTTTTCATTTTTTCAT
13513623 TT
1 TT
13513625 CGTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
23 10 0.45
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTACTTTTTCATTTTTTCAT
Found at i:13513633 original size:23 final size:23
Alignment explanation
Indices: 13513583--13513636 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
13513573 TCTCCATTTT
* *
13513583 ACTTTTTCA-TTTTTCATTTTTC
1 ACTTTTTTATTTTTTCATTTGTC
13513605 ACTTTTTTATTTTTTCATTTCGTC
1 ACTTTTTTATTTTTTCATTT-GTC
*
13513629 ATTTTTTT
1 ACTTTTTT
13513637 CGACTCAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 8 0.30
23 10 0.37
24 9 0.33
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.70
Consensus pattern (23 bp):
ACTTTTTTATTTTTTCATTTGTC
Found at i:13518658 original size:16 final size:16
Alignment explanation
Indices: 13518637--13518675 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13518627 TTTTAATAAA
13518637 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
**
13518653 ATTAAAGTTAATTGTT
1 ATTAAAACTAATTGTT
*
13518669 AGTAAAA
1 ATTAAAA
13518676 TTATCAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:13518748 original size:66 final size:67
Alignment explanation
Indices: 13518667--13518794 Score: 231
Period size: 68 Copynumber: 1.9 Consensus size: 67
13518657 AAGTTAATTG
13518667 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
13518731 GA
66 GA
*
13518733 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAAC
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAATAAAATCTAAC
13518795 NNNNNNNNNN
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
66 26 0.44
68 33 0.56
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.46
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
GA
Found at i:13518784 original size:9 final size:9
Alignment explanation
Indices: 13518751--13518778 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13518741 TTTATCAAAT
13518751 TATTAATTG
1 TATTAATTG
13518760 TATTAATTG
1 TATTAATTG
13518769 TATTAATTG
1 TATTAATTG
13518778 T
1 T
13518779 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13531996 original size:44 final size:45
Alignment explanation
Indices: 13531931--13532021 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13531921 ACCTCTATTC
* * *
13531931 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
13531975 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
13532020 CA
1 CA
13532022 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:13532023 original size:16 final size:16
Alignment explanation
Indices: 13532002--13532069 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
13531992 GATTAGCTAT
13532002 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13532018 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
13532034 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
13532050 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13532066 TACA
1 TACA
13532070 GCGAGCCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13533434 original size:3 final size:3
Alignment explanation
Indices: 13533426--13533471 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
13533416 ATATGTAGGT
* *
13533426 ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
13533471 A
1 A
13533472 CAAAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13533471 original size:15 final size:15
Alignment explanation
Indices: 13533426--13533487 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
13533416 ATATGTAGGT
*
13533426 ATAATAATAATAATA
1 ATAAAAATAATAATA
*
13533441 ATATATAAT-ATAATA
1 ATA-AAAATAATAATA
*
13533456 ATAAAAATAATGATA
1 ATAAAAATAATAATA
* *
13533471 ACAAAATTAATAA-A
1 ATAAAAATAATAATA
13533485 ATA
1 ATA
13533488 GACTAAAAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 7 0.18
15 27 0.69
16 5 0.13
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAAATAATAATA
Found at i:13533481 original size:27 final size:24
Alignment explanation
Indices: 13533426--13533483 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
13533416 ATATGTAGGT
* * *
13533426 ATAATAATAATAATAATATATAAT
1 ATAATAATAAAAATAATATACAAA
13533450 ATAATAATAAAAATAATGATAACAAA
1 ATAATAATAAAAATAAT-AT-ACAAA
13533476 ATTAATAA
1 A-TAATAA
13533484 AATAGACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.57
25 2 0.07
26 4 0.14
27 6 0.21
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
ATAATAATAAAAATAATATACAAA
Found at i:13533960 original size:21 final size:21
Alignment explanation
Indices: 13533930--13534005 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
13533920 CATCATATCT
13533930 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
* *
13533951 TCTAATATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
13533972 TCTAAGA-T-TACATATCATA
1 TCTAAGATTGTATATATCATA
13533991 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
13534006 CCTCGAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.34
20 2 0.04
21 29 0.62
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:13533965 original size:19 final size:19
Alignment explanation
Indices: 13533943--13534006 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
13533933 AAGATTGTAT
*
13533943 ATATCATATCTAATATTGC
1 ATATCATATCTAAGATTGC
*
13533962 ATATATCATATCTAAGATTAC
1 --ATATCATATCTAAGATTGC
*
13533983 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
13534002 ATATC
1 ATATC
13534007 CTCGAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 22 0.56
21 17 0.44
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:13536100 original size:19 final size:19
Alignment explanation
Indices: 13536065--13536102 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13536055 GCATACTTTG
**
13536065 ATTTTTTTTTATTTTCATA
1 ATTTTTTTTTACATTCATA
13536084 ATTTTTTTTTACATTCATA
1 ATTTTTTTTTACATTCATA
13536103 TATATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTTTTACATTCATA
Found at i:13536146 original size:25 final size:26
Alignment explanation
Indices: 13536111--13536164 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
13536101 TATATATATA
13536111 TTTATACATACATATATTTTA-ATT-T
1 TTTATACATACATAT-TTTTATATTCT
*
13536136 TTTATATATACATATTTTTATATTCT
1 TTTATACATACATATTTTTATATTCT
13536162 TTT
1 TTT
13536165 CTGTGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 17 0.65
26 4 0.15
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTATACATACATATTTTTATATTCT
Found at i:13537544 original size:14 final size:14
Alignment explanation
Indices: 13537525--13537553 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13537515 CAACAAGAAG
13537525 AAGATGATAGTTTA
1 AAGATGATAGTTTA
13537539 AAGATGATAGTTTA
1 AAGATGATAGTTTA
13537553 A
1 A
13537554 TGGAGGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (14 bp):
AAGATGATAGTTTA
Found at i:13537911 original size:19 final size:18
Alignment explanation
Indices: 13537887--13537932 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
13537877 AACGTCTCTT
*
13537887 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTGCAT-CA
13537906 TTTGCATTTCATTGCATCA
1 TTTGCA-TTCATTGCATCA
*
13537925 TATGCATT
1 TTTGCATT
13537933 AAACACCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTGCATCA
Found at i:13542872 original size:89 final size:88
Alignment explanation
Indices: 13542064--13542893 Score: 871
Period size: 89 Copynumber: 9.3 Consensus size: 88
13542054 CCCTAATATT
* * * * * *
13542064 CGAAGTAGATCGAATAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAACATAACA
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCAT-TACTGGCGTGAAGTAGATCAAAGATAGCA
*
13542129 GATCTTGTCTTCCCTTACTGGTGG
65 GATCTTGTCTTCCCATACTGGTGG
* * * * * * *
13542153 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGGCGAAGCAGAGCAAAGAAAGC
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTT-CATTACTGG-CGTGAAGTAGATCAAAGATAGC
*
13542218 AGATCTTGTCTTCCCTTACTGGTGG
64 AGATCTTGTCTTCCCATACTGGTGG
* * * * * * *
13542243 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGGCGAAGCAGAGCAAAGAAAGC
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTT-CATTACTGG-CGTGAAGTAGATCAAAGATAGC
*
13542308 AGATCTTGTCTTCCCTTACTGGTGG
64 AGATCTTGTCTTCCCATACTGGTGG
* * * * * * *
13542333 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGGCGAAGCAGAGCAAAGAAAGC
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTT-CATTACTGG-CGTGAAGTAGATCAAAGATAGC
*
13542398 AGATCTTGTCTTCCCTTACTGGTGG
64 AGATCTTGTCTTCCCATACTGGTGG
* * *
13542423 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATACCA
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCAT-TACTGGCGTGAAGTAGATCAAAGATAGCA
13542488 GATCTTGTCTTCCCATACTGGTGG
65 GATCTTGTCTTCCCATACTGGTGG
* * ** *
13542512 CGAAGCAGATCAGAGAAAGCAAATCTTGTCTTCATGTACCAGCGTGAAGTAGATCAAAGATAACA
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCAT-TACTGGCGTGAAGTAGATCAAAGATAGCA
13542577 GATCTTGTCTTCCCATACTGGTGG
65 GATCTTGTCTTCCCATACTGGTGG
* * * *
13542601 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAAACA
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCAT-TACTGGCGTGAAGTAGATCAAAGATAGCA
* * *
13542666 AATCTTATCTT--CATGAACTGG-CG
65 GATCTTGTCTTCCCAT--ACTGGTGG
* * * * * * * * * *
13542689 TGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGATAGC--GAAGTAGATCGAATATA
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCAT-TA-C--TGGCGTGAAGTAGATCAAAGATA
* *
13542752 -CAAATTTTGTCTTCCCATACTGGTGG
62 GCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542778 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
1 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCAT-TACTGGCGTGAAGTAGATCAAAGATAGCA
13542843 GATCTTGTCTTCCCATACTGGTGG
65 GATCTTGTCTTCCCATACTGGTGG
* * ** *
13542867 TGAAGTAGATTGAAGAAAACAGATCTT
1 CGAAGCAGATCAAAGAAAGCAGATCTT
13542894 NNNNNNNNNN
Statistics
Matches: 655, Mismatches: 72, Indels: 28
0.87 0.10 0.04
Matches are distributed among these distances:
86 3 0.00
87 3 0.00
88 63 0.10
89 321 0.49
90 262 0.40
91 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (88 bp):
CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATTACTGGCGTGAAGTAGATCAAAGATAGCAG
ATCTTGTCTTCCCATACTGGTGG
Found at i:13542890 original size:45 final size:45
Alignment explanation
Indices: 13542064--13542893 Score: 784
Period size: 45 Copynumber: 18.6 Consensus size: 45
13542054 CCCTAATATT
* * * *** *
13542064 CGAAGTAGATCGAATAAAACAGATCTTGTCTTCATGTACTGG-CG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542108 TGAAGTAGATCAAACATAA-CAGATCTTGTCTTCCCTTACTGGTGG
1 CGAAGTAGATCAAAGA-AAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542153 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542198 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542243 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542288 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542333 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542378 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * ** * *
13542423 CGAAGCAGAGCAAAGAAAGCAGATCTTGTCTTCATATATTGG-CG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * *
13542467 TGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * * *** ** *
13542512 CGAAGCAGATCAGAGAAAGCAAATCTTGTCTTCATGTACCAG-CG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
*
13542556 TGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATACTGGTGG
1 CGAAGTAGATCAAAGA-AAGCAGATCTTGTCTTCCCATACTGGTGG
* ** * *
13542601 CGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGG-CG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* * * * * *
13542645 TGAAGTAGATCGAAGAAAACAAATCTTATCTT--CATGAACTGG-CG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCAT--ACTGGTGG
* * * * * * * *
13542689 TGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATA-TCGATAG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACT-GGTGG
* * * * *
13542734 CGAAGTAGATCGAATATA-CAAATTTTGTCTTCCCATACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* *** * *
13542778 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* *
13542822 TGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGG
1 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
* ** *
13542867 TGAAGTAGATTGAAGAAAACAGATCTT
1 CGAAGTAGATCAAAGAAAGCAGATCTT
13542894 NNNNNNNNNN
Statistics
Matches: 666, Mismatches: 104, Indels: 31
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.00
43 1 0.00
44 230 0.35
45 431 0.65
46 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGG
Found at i:13546170 original size:48 final size:48
Alignment explanation
Indices: 13546091--13546184 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
13546081 AGGGAATTCT
* * *
13546091 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATCGATGCAAGTTGAGCTGACTTAGGCGTTTTTACG
13546139 GTTGAATCCTTTATCGATGCAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATCGATGCAAGTTGA-GCTGACTTAGGCGTTTTTA
13546185 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (48 bp):
GTTGAATCCTTTATCGATGCAAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:13550129 original size:17 final size:19
Alignment explanation
Indices: 13550097--13550132 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
13550087 TTATGTAATA
13550097 TATTATATTAATATAATTT
1 TATTATATTAATATAATTT
13550116 TATT-TATT-ATATAATTT
1 TATTATATTAATATAATTT
13550133 ATATAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATATTAATATAATTT
Found at i:13553391 original size:11 final size:11
Alignment explanation
Indices: 13553360--13553393 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13553350 AGCTTTACGA
13553360 ATTTTTCTTTG
1 ATTTTTCTTTG
*
13553371 A-TTCTCTTTG
1 ATTTTTCTTTG
13553381 ATTTTTCTTTG
1 ATTTTTCTTTG
13553392 AT
1 AT
13553394 CGAAGTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.68
Consensus pattern (11 bp):
ATTTTTCTTTG
Found at i:13560202 original size:16 final size:16
Alignment explanation
Indices: 13560178--13560216 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13560168 TGAATTACTA
* * *
13560178 ATTATAGCTTTATTCT
1 ATTACAGCTCTATTCC
13560194 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
13560210 ATTACAG
1 ATTACAG
13560217 TGAACCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:13565686 original size:18 final size:20
Alignment explanation
Indices: 13565664--13565710 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
13565654 TATATAAATG
*
13565664 ATTTACATAAA-AATTAT-A
1 ATTTACATAAATAACTATCA
*
13565682 TTTTACA-AAATAACTATCA
1 ATTTACATAAATAACTATCA
13565701 ATTTACATAA
1 ATTTACATAA
13565711 TTCAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.13
18 11 0.48
19 7 0.30
20 2 0.09
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTACATAAATAACTATCA
Found at i:13567460 original size:9 final size:9
Alignment explanation
Indices: 13567446--13567476 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13567436 GTTAAACGAA
13567446 TCGAGTTAT
1 TCGAGTTAT
*
13567455 TCGAGTTAA
1 TCGAGTTAT
13567464 TCGAGTTAT
1 TCGAGTTAT
13567473 TCGA
1 TCGA
13567477 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:13567546 original size:9 final size:9
Alignment explanation
Indices: 13567529--13567565 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13567519 TGAGTTTTCA
13567529 AATTCGAAT
1 AATTCGAAT
*
13567538 AACTCGAAT
1 AATTCGAAT
13567547 AATTCGAAT
1 AATTCGAAT
13567556 AATTCGAAT
1 AATTCGAAT
13567565 A
1 A
13567566 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13568231 original size:5 final size:5
Alignment explanation
Indices: 13568221--13568246 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13568211 GAACAAATAT
13568221 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
13568247 ATTTCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:13570427 original size:20 final size:18
Alignment explanation
Indices: 13570411--13570447 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13570401 CAATATATGT
13570411 AAAAATAATTTAATATATA
1 AAAAATAA-TTAATATATA
*
13570430 AAAAATTATTAATATATA
1 AAAAATAATTAATATATA
13570448 TATCAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATAATTAATATATA
Found at i:13570431 original size:18 final size:18
Alignment explanation
Indices: 13570405--13570447 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13570395 TCATTGCAAT
*
13570405 ATATGTAAAAATAAT-TTA
1 ATATATAAAAA-AATATTA
*
13570423 ATATATAAAAAATTATTA
1 ATATATAAAAAAATATTA
13570441 ATATATA
1 ATATATA
13570448 TATCAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATAAAAAAATATTA
Found at i:13570448 original size:20 final size:20
Alignment explanation
Indices: 13570402--13570449 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
13570392 AAATCATTGC
*
13570402 AATATATGT-AAAAATAATT
1 AATATATATAAAAAATAATT
* *
13570421 TA-ATATATAAAAAATTATT
1 AATATATATAAAAAATAATT
13570440 AATATATATA
1 AATATATATA
13570450 TCAATATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 11 0.48
20 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATATATATAAAAAATAATT
Found at i:13570594 original size:34 final size:35
Alignment explanation
Indices: 13570539--13570604 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
13570529 CAAACACCAG
*
13570539 AAAATATTTTCCAGTAAATCATTTTACAGAAATGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAATGT
* *
13570574 AAAACATTTTCCCG-AAATCATTTTACGGAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAA
13570605 ATATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAATGT
Found at i:13571185 original size:72 final size:72
Alignment explanation
Indices: 13571068--13571210 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
13571058 TCTTTTCAAA
*
13571068 CTCAAGTTTTAAACGATCCCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCCCGGGAATTAAAAAGAGATCATGTCCTAACTTACTGGGCATGATCCC
13571133 TTTTTTT
66 TTTTTTT
* **
13571140 CTCAAGTTTTAAACTATCTTGGGAATTAAGAAA-AGATCATGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCCCGGGAATTAA-AAAGAGATCATGTCCTAACTTACTGGGCATGATCC
13571204 CTTTTTT
65 CTTTTTT
13571211 AAATCTGAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
72 63 0.95
73 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCCCGGGAATTAAAAAGAGATCATGTCCTAACTTACTGGGCATGATCCC
TTTTTTT
Found at i:13579125 original size:50 final size:50
Alignment explanation
Indices: 13579016--13579312 Score: 292
Period size: 50 Copynumber: 5.8 Consensus size: 50
13579006 ATTTGGGTAA
* **
13579016 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTAAGATTGTG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA---TG
* * *
13579072 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
13579122 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGAACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
13579172 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * **
13579222 AGAAATCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTACAAC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
13579271 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13579313 TGTTATTATC
Statistics
Matches: 207, Mismatches: 33, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.18
50 126 0.61
53 3 0.01
55 1 0.00
56 38 0.18
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:13586173 original size:50 final size:50
Alignment explanation
Indices: 13585985--13586179 Score: 255
Period size: 50 Copynumber: 3.9 Consensus size: 50
13585975 ATTGAGATTG
* *
13585985 TGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTCGGCACCGAGA
1 TGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGA
* * *
13586035 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACCGAGA
1 TGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGA
** * * *
13586085 TGAGAGGTCCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATA
1 TGAGAGGT-CCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGA
** * *
13586136 TGAGAAATCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 TGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
13586180 GTACAACAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
50 85 0.67
51 42 0.33
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
TGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGA
Found at i:13586178 original size:101 final size:100
Alignment explanation
Indices: 13585985--13586179 Score: 264
Period size: 101 Copynumber: 1.9 Consensus size: 100
13585975 ATTGAGATTG
* * **
13585985 TGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTCGGCACCGAGATGAGAGGTCCCATGT
1 TGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATCGGCACCGAGATGAGAAATCCCATGT
* * * *
13586050 AAGACCATGTCTGGGACATGTCGTTGGCACCGAGA
66 AAGACCATATCTAGGACATGGCATTGGCACCGAGA
* * * *
13586085 TGAGAGGTCCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAATCCCATG
1 TGAGAGGT-CCCACGTAAGACCATATCTGGGACATGGCATCGGCACCGAGATGAGAAATCCCATG
*
13586150 TAAGACCATATCTAGGATATGGCATTGGCA
65 TAAGACCATATCTAGGACATGGCATTGGCA
13586180 GTACAACAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 8 0.10
101 73 0.90
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (100 bp):
TGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATCGGCACCGAGATGAGAAATCCCATGT
AAGACCATATCTAGGACATGGCATTGGCACCGAGA
Found at i:13586221 original size:49 final size:49
Alignment explanation
Indices: 13585992--13586228 Score: 154
Period size: 50 Copynumber: 4.8 Consensus size: 49
13585982 TTGTGAGAGG
* * * * ** * **
13585992 TCCCATGTAAGACCATATCTGGGACATGGCGTCGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATACAAAAAA
* * * ** * **
13586042 TCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATACAAAAAA
** * ** *
13586092 TCCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAA
1 T-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATACAAAAAA
* * *
13586143 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA-G-TACAACAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGATACAA-AAA-A
* *
13586192 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13586229 TGTTATTATC
Statistics
Matches: 159, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
47 3 0.02
48 3 0.02
49 33 0.21
50 78 0.49
51 42 0.26
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGATACAAAAAA
Done.