Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 59 of 171
Found at i:23047813 original size:59 final size:58
Alignment explanation
Indices: 23047689--23047813 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 58
23047679 AGAAAGTCCT
* * *
23047689 TAAACTCTTTAAAAATCATATTTTGATCGCAAACTTCTCAAAAATTACATTTTGACCCC
1 TAAACT-TTTAAAAATCATATATTGACCACAAACTTCTCAAAAATTACATTTTGACCCC
* * * *
23047748 TGAACTTTTCAAAAATCATATATTGACCATAAACTT-TCCAAAAATTACATTTTTATCCC
1 TAAACTTTT-AAAAATCATATATTGACCACAAACTTCT-CAAAAATTACATTTTGACCCC
23047807 TAAACTT
1 TAAACTT
23047814 CCAAAATTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
58 4 0.07
59 52 0.93
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (58 bp):
TAAACTTTTAAAAATCATATATTGACCACAAACTTCTCAAAAATTACATTTTGACCCC
Found at i:23047823 original size:28 final size:30
Alignment explanation
Indices: 23047718--23047946 Score: 185
Period size: 29 Copynumber: 7.8 Consensus size: 30
23047708 ATTTTGATCG
* *
23047718 CAAACTTCTCAAAAATTACATTTTGACCCCT
1 CAAACTTC-CAAAAATTACATTTTTATCCCT
* * * * * * *
23047749 -GAACTTTTCAAAAATCATATATTGA-CCAT
1 CAAAC-TTCCAAAAATTACATTTTTATCCCT
23047778 -AAACTTTCCAAAAATTACATTTTTATCCCT
1 CAAAC-TTCCAAAAATTACATTTTTATCCCT
23047808 -AAACTTCC-AAAATTACATTTTTATCCCT
1 CAAACTTCCAAAAATTACATTTTTATCCCT
*
23047836 -AAACTTCCAAAAATTGTCA-TTTTA-CCCT
1 CAAACTTCCAAAAATT-ACATTTTTATCCCT
* *
23047864 CAAACTTCCAAAAAAT-CACTTTTTGT-CCT
1 CAAACTTCCAAAAATTACA-TTTTTATCCCT
*
23047893 CGAACTTCCAAAAATTAC-TATTTTA-CCCT
1 CAAACTTCCAAAAATTACAT-TTTTATCCCT
*
23047922 CAAACTTCCAAAAAATCACATTTTT
1 CAAACTTCC-AAAAATTACATTTTT
23047947 GCCCCCGAAC
Statistics
Matches: 164, Mismatches: 21, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
27 2 0.01
28 33 0.20
29 87 0.53
30 39 0.24
31 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
CAAACTTCCAAAAATTACATTTTTATCCCT
Found at i:23047958 original size:30 final size:29
Alignment explanation
Indices: 23047837--23047960 Score: 124
Period size: 29 Copynumber: 4.2 Consensus size: 29
23047827 TTTATCCCTA
* ** * * *
23047837 AACTTCCAAAAATTGTCATTTTACCCTCA
1 AACTTCCAAAAAATCACTTTTTGCCCTCG
*
23047866 AACTTCCAAAAAATCACTTTTTGTCCTCG
1 AACTTCCAAAAAATCACTTTTTGCCCTCG
* * *
23047895 AACTTCC-AAAAATTACTATTTTACCCTCA
1 AACTTCCAAAAAATCACT-TTTTGCCCTCG
*
23047924 AACTTCCAAAAAATCACATTTTTGCCCCCG
1 AACTTCCAAAAAATCAC-TTTTTGCCCTCG
23047954 AACTTCC
1 AACTTCC
23047961 CGAACTTCCA
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
28 9 0.12
29 44 0.57
30 23 0.30
31 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAAATCACTTTTTGCCCTCG
Found at i:23048015 original size:30 final size:29
Alignment explanation
Indices: 23047981--23048167 Score: 115
Period size: 29 Copynumber: 6.3 Consensus size: 29
23047971 AAAATATAAT
**
23047981 TTTTGCCCCCAAACTTTTTGAAAATTACCA
1 TTTTGCCCCCAAAC-TTTCAAAAATTACCA
** *
23048011 TTTTGCCTTCGAACTTTCAAAAATTACCA
1 TTTTGCCCCCAAACTTTCAAAAATTACCA
** *
23048040 TTTTATTACCCCAAACTTCCAAAAATTACACA
1 -TTT-TGCCCCCAAACTTTCAAAAATTAC-CA
* * * *
23048072 TTTTGCTCCC-GAGTGTCCAAAAATTACCA
1 TTTTGCCCCCAAACT-TTCAAAAATTACCA
* * * * *
23048101 TTTTGCCCTCGAAGTGTCCAAAATTACCA
1 TTTTGCCCCCAAACTTTCAAAAATTACCA
** * * *
23048130 TTTTATCCCCAAACCTCCAAAAATTATCA
1 TTTTGCCCCCAAACTTTCAAAAATTACCA
*
23048159 TTTTACCCC
1 TTTTGCCCC
23048168 TCCGAGCATC
Statistics
Matches: 119, Mismatches: 33, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
29 63 0.53
30 33 0.28
31 21 0.18
32 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (29 bp):
TTTTGCCCCCAAACTTTCAAAAATTACCA
Found at i:23071497 original size:8 final size:7
Alignment explanation
Indices: 23071468--23071493 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23071458 TTCATGCCTT
23071468 AAAAGAA
1 AAAAGAA
23071475 AAAAGAA
1 AAAAGAA
23071482 AAAAGAA
1 AAAAGAA
23071489 AAAAG
1 AAAAG
23071494 GAAATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:23072577 original size:18 final size:18
Alignment explanation
Indices: 23072554--23072588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23072544 TTTTTATTCA
* *
23072554 AATTAATTCGAATAACTC
1 AATTAACTCAAATAACTC
23072572 AATTAACTCAAATAACT
1 AATTAACTCAAATAACT
23072589 TGACATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (18 bp):
AATTAACTCAAATAACTC
Found at i:23075470 original size:18 final size:16
Alignment explanation
Indices: 23075439--23075482 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
23075429 AGGTGTAAGT
*
23075439 TTAAAAATTTTAATTAA
1 TTAAAAA-TTTATTTAA
23075456 TT--AAATTTATTTAA
1 TTAAAAATTTATTTAA
23075470 TTAAAAATTTATT
1 TTAAAAATTTATT
23075483 CTCATCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 9 0.38
17 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATTTATTTAA
Found at i:23087050 original size:2 final size:2
Alignment explanation
Indices: 23087043--23087067 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23087033 ATTTATCTTT
23087043 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23087068 TTCTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23087863 original size:2 final size:2
Alignment explanation
Indices: 23087851--23087922 Score: 67
Period size: 2 Copynumber: 35.5 Consensus size: 2
23087841 TTCATATTGC
23087851 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TGA TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA T-A
** * *
23087893 TA -A GC TT TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23087923 TAATTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
1 2 0.03
2 53 0.87
3 6 0.10
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23088783 original size:93 final size:93
Alignment explanation
Indices: 23088651--23088838 Score: 358
Period size: 93 Copynumber: 2.0 Consensus size: 93
23088641 GACAATGGTA
*
23088651 TAAAGTAAATCACGTTGTAGCCACTCAATTATTGTTTTTTTTTGTCATTTAATTATTTATATATT
1 TAAAGTAAATCACGTTGTAGCCACTCAATTATTGATTTTTTTTGTCATTTAATTATTTATATATT
*
23088716 TTATTCTCGTCATTTAATTATTATTTTT
66 TTATTCTCGTCATTTAATTATTATTATT
23088744 TAAAGTAAATCACGTTGTAGCCACTCAATTATTGATTTTTTTTGTCATTTAATTATTTATATATT
1 TAAAGTAAATCACGTTGTAGCCACTCAATTATTGATTTTTTTTGTCATTTAATTATTTATATATT
23088809 TTATTCTCGTCATTTAATTATTATTATT
66 TTATTCTCGTCATTTAATTATTATTATT
23088837 TA
1 TA
23088839 TCATCCAATT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (93 bp):
TAAAGTAAATCACGTTGTAGCCACTCAATTATTGATTTTTTTTGTCATTTAATTATTTATATATT
TTATTCTCGTCATTTAATTATTATTATT
Found at i:23088810 original size:27 final size:28
Alignment explanation
Indices: 23088771--23088837 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
23088761 TAGCCACTCA
*
23088771 ATTATTGATTTT-TT-TTGTCATTTAATT
1 ATTATT-ATTTTATTCTCGTCATTTAATT
23088798 ATTTATATATTTTATTCTCGTCATTTAATT
1 A-TTAT-TATTTTATTCTCGTCATTTAATT
23088828 ATTATTATTT
1 ATTATTATTT
23088838 ATCATCCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 1 0.03
28 14 0.40
29 7 0.20
30 13 0.37
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.64
Consensus pattern (28 bp):
ATTATTATTTTATTCTCGTCATTTAATT
Found at i:23099775 original size:28 final size:29
Alignment explanation
Indices: 23099691--23099775 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 29
23099681 GAAATATTTT
* *
23099691 TATTATGTACTTTG-AATTTGTTTAATAA
1 TATTTTGTACTTTGAAATTTATTTAATAA
** * * * *
23099719 TAAATTGTATTTGTGAAGTGTATTGAATAA
1 TATTTTGTACTT-TGAAATTTATTTAATAA
23099749 TATTTTGTA-TTTGAAATTTATTTAATA
1 TATTTTGTACTTTGAAATTTATTTAATA
23099776 TCATTATTTG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
28 21 0.50
29 4 0.10
30 17 0.40
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (29 bp):
TATTTTGTACTTTGAAATTTATTTAATAA
Found at i:23100143 original size:13 final size:13
Alignment explanation
Indices: 23100125--23100152 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23100115 AACTTTTTTT
23100125 TTTAGGATTATTA
1 TTTAGGATTATTA
23100138 TTTAGGATTATTA
1 TTTAGGATTATTA
23100151 TT
1 TT
23100153 ATTATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
TTTAGGATTATTA
Found at i:23100253 original size:24 final size:24
Alignment explanation
Indices: 23100218--23100263 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
23100208 CCAATTAAGG
23100218 AATTATTGTTTAG-ATTTAATTCA
1 AATTATTGTTTAGAATTTAATTCA
23100241 AATTATCTGTTTAGAATTTAATT
1 AATTAT-TGTTTAGAATTTAATT
23100264 TGGATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (24 bp):
AATTATTGTTTAGAATTTAATTCA
Found at i:23101111 original size:17 final size:16
Alignment explanation
Indices: 23101100--23101175 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 16
23101090 TTTTACTTTG
23101100 AAATTAAATTTATTTT
1 AAATTAAATTTATTTT
*
23101116 AATTTTAAATTTATTTT
1 AA-ATTAAATTTATTTT
* **
23101133 AAATTCAA-TT-TTAA
1 AAATTAAATTTATTTT
*
23101147 AAATTAAATTTGAATTT
1 AAATTAAATTT-ATTTT
*
23101164 AACTTAAATTTA
1 AAATTAAATTTA
23101176 ACATTATTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 9 0.20
15 4 0.09
16 7 0.15
17 26 0.57
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (16 bp):
AAATTAAATTTATTTT
Found at i:23101143 original size:12 final size:11
Alignment explanation
Indices: 23101100--23101147 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
23101090 TTTTACTTTG
*
23101100 AAATTAAATTT
1 AAATTAATTTT
**
23101111 ATTTTAATTTT
1 AAATTAATTTT
*
23101122 AAATTTATTTT
1 AAATTAATTTT
23101133 AAATTCAATTTT
1 AAATT-AATTTT
23101145 AAA
1 AAA
23101148 AATTAAATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
AAATTAATTTT
Found at i:23101922 original size:13 final size:13
Alignment explanation
Indices: 23101904--23101933 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23101894 TAATAATGTT
*
23101904 TTAATAATATTAA
1 TTAATAATAATAA
23101917 TTAATAATAATAA
1 TTAATAATAATAA
23101930 TTAA
1 TTAA
23101934 ATTTTTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAATAATAATAA
Found at i:23103108 original size:59 final size:58
Alignment explanation
Indices: 23102953--23103301 Score: 339
Period size: 60 Copynumber: 5.9 Consensus size: 58
23102943 GTCTAGAAAT
* * * *
23102953 TACATTTTGATCCTAAAACTTTCTGAAAATTATATTTT-AACCTCAAAACTTTCTAAAAA
1 TACATTTTGACCCCAAAACTTT-TGAAAATTATATTTTGACCCT-AAAACTTTCCAAAAA
* * *
23103012 TTATATTTTGACCCCAAAACTTTTCTAAAATTATATTTTGACCCTAAAACTTTCTAAAAA
1 -TACATTTTGACCCCAAAACTTTT-GAAAATTATATTTTGACCCTAAAACTTTCCAAAAA
* *
23103072 TACATTTTGACCCCAAACCTTTATGAAAATTATA-TTTGACCCTAAAACTTTTCCAAAAT
1 TACATTTTGACCCCAAAACTTT-TGAAAATTATATTTTGACCCTAAAAC-TTTCCAAAAA
* * * *
23103131 TACATTTTGACCCCAAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCCAAAAT
1 TACATTTTGACCCCAAAAC-TTTTGAAAATTATATTTTGACCCTAAAAC-TTTCCAAAAA
* * * *
23103191 TACATTTTGACCTCAAAACTTTTCCAAAATCATATTTTGACCCCAAAA-TTTCCAAAAAAAA
1 TACATTTTGACCCCAAAACTTTT-GAAAATTATATTTTGACCCTAAAACTTTCC---AAAAA
* ** * *
23103252 TTACATTTT-ACCCCGAAACTTTCAAAAATTACCATTTT-ACCCTCAAACTT
1 -TACATTTTGACCCCAAAACTTTTGAAAATTA-TATTTTGACCCTAAAACTT
23103302 CCCTAAATCC
Statistics
Matches: 248, Mismatches: 28, Indels: 25
0.82 0.09 0.08
Matches are distributed among these distances:
58 19 0.08
59 70 0.28
60 125 0.50
61 26 0.10
62 8 0.03
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (58 bp):
TACATTTTGACCCCAAAACTTTTGAAAATTATATTTTGACCCTAAAACTTTCCAAAAA
Found at i:23103301 original size:29 final size:29
Alignment explanation
Indices: 23102949--23103298 Score: 307
Period size: 30 Copynumber: 11.7 Consensus size: 29
23102939 AATTGTCTAG
* * *
23102949 AAATTACATTTTGATCCTAAAACTTTCTGA
1 AAATTACATTTTGACCCCAAAACTTTC-AA
* * *
23102979 AAATTATATTTTAACCTCAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTC-AA
* *
23103009 AAATTATATTTTGACCCCAAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAAC-TTTCAA
* *
23103039 AAATTATATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTC-AA
*
23103069 AAA-TACATTTTGACCCCAAACCTTT-ATGA
1 AAATTACATTTTGACCCCAAAACTTTCA--A
* * *
23103098 AAATTATA-TTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC-TTTCAA
**
23103127 AAATTACATTTTGACCCCAAAACTTTTTGA
1 AAATTACATTTTGACCCCAAAAC-TTTCAA
* *
23103157 AAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC-TTTCAA
* *
23103187 AAATTACATTTTGACCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC-TTTCAA
* *
23103217 AAATCATATTTTGACCCCAAAA-TTTCCAAAAA
1 AAATTACATTTTGACCCCAAAACTTT-C---AA
*
23103249 AAATTACATTTT-ACCCCGAAACTTTCAA
1 AAATTACATTTTGACCCCAAAACTTTCAA
23103277 AAATTACCATTTT-ACCCTCAAA
1 AAATTA-CATTTTGACCC-CAAA
23103299 CTTCCCTAAA
Statistics
Matches: 270, Mismatches: 35, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
27 1 0.00
28 11 0.04
29 58 0.21
30 173 0.64
31 13 0.05
32 14 0.05
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTGACCCCAAAACTTTCAA
Found at i:23103309 original size:29 final size:28
Alignment explanation
Indices: 23103249--23103367 Score: 91
Period size: 29 Copynumber: 4.1 Consensus size: 28
23103239 TTTCCAAAAA
* **
23103249 AAATTA-CATTTTACCCCGAAACTTTCAA
1 AAATTACCATTTTACCCC-AAACTTCCCT
23103277 AAATTACCATTTTACCCTCAAACTTCCCT
1 AAATTACCATTTTACCC-CAAACTTCCCT
* * * *
23103306 AAA-TCCCATTTTAAACCCC-GATTTCACT
1 AAATTACCATTTT--ACCCCAAACTTCCCT
*
23103334 AAAATTACCATTTCACCCTCAAACTTCCCT
1 -AAATTACCATTTTACCC-CAAACTTCCCT
23103364 AAAT
1 AAAT
23103368 CCTATTTTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
28 24 0.34
29 29 0.41
30 18 0.25
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (28 bp):
AAATTACCATTTTACCCCAAACTTCCCT
Found at i:23103340 original size:58 final size:58
Alignment explanation
Indices: 23103276--23103412 Score: 202
Period size: 58 Copynumber: 2.3 Consensus size: 58
23103266 GAAACTTTCA
*
23103276 AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACT
1 AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* * * *
23103334 AAAATTACCATTTCACCCTCAAACTTCCCTAAATCCTATTTTTAACCCTGATTTCACC
1 AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* *
23103392 AAAATCTACTATTTTGCCCTC
1 AAAAT-TACCATTTTACCCTC
23103413 GGGTATCCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 58 0.83
59 12 0.17
ACGTcount: A:0.31, C:0.32, G:0.02, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:23103382 original size:30 final size:29
Alignment explanation
Indices: 23103286--23103382 Score: 69
Period size: 30 Copynumber: 3.3 Consensus size: 29
23103276 AAAATTACCA
23103286 TTTT-ACCCTCAAACTTCCCTAAATCCCAT
1 TTTTAACCCTCAAACTTCCCTAAAT-CCAT
* * * *
23103315 TTTAAACCC-C-GATTTCACTAAAATTACCA-
1 TTTTAACCCTCAAACTTCCCT-AAA-T-CCAT
*
23103344 -TTTCACCCTCAAACTTCCCTAAATCCTAT
1 TTTTAACCCTCAAACTTCCCTAAATCC-AT
23103373 TTTTAACCCT
1 TTTTAACCCT
23103383 GATTTCACCA
Statistics
Matches: 49, Mismatches: 11, Indels: 15
0.65 0.15 0.20
Matches are distributed among these distances:
27 2 0.04
28 14 0.29
29 11 0.22
30 22 0.45
ACGTcount: A:0.30, C:0.34, G:0.01, T:0.35
Consensus pattern (29 bp):
TTTTAACCCTCAAACTTCCCTAAATCCAT
Found at i:23115486 original size:23 final size:23
Alignment explanation
Indices: 23115458--23115501 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23115448 ATTATTTTTT
*
23115458 ATATTTAAAATTTAAATAAAATA
1 ATATTTAAAATTTAAAAAAAATA
* *
23115481 ATATTTATAGTTTAAAAAAAA
1 ATATTTAAAATTTAAAAAAAA
23115502 ACAAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATTTAAAATTTAAAAAAAATA
Found at i:23116935 original size:30 final size:29
Alignment explanation
Indices: 23116868--23117099 Score: 259
Period size: 30 Copynumber: 7.9 Consensus size: 29
23116858 TTAAAATTTG
**
23116868 AATTTTTGGAAAGTTTGGGGTCAAATTGG
1 AATTTTTGGAAAGTTTGGGGTCAAATTCA
*
23116897 AA-TTTTGGAAAGTTCGAGGGTCAAATTCA
1 AATTTTTGGAAAGTTTG-GGGTCAAATTCA
23116926 AATTTTTGGAAAGTTTGGGGTCAAATTCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTCA
* * * *
23116955 ATTTTTTGGAAAATTTGGGGGCCAAATGCA
1 AATTTTTGGAAAGTTT-GGGGTCAAATTCA
**
23116985 AATTTTTGGAAAGCTCAGGGGTCAAATTCA
1 AATTTTTGGAAAG-TTTGGGGTCAAATTCA
*
23117015 AATTTTTGGAAAGTTTGGGGTCAAATTTA
1 AATTTTTGGAAAGTTTGGGGTCAAATTCA
** * **
23117044 AATTTTTAAAAAGTTTGAGGGTAAAATTTG
1 AATTTTTGGAAAGTTTG-GGGTCAAATTCA
* *
23117074 GATTTTTGGAAAATTTGGTGGTCAAA
1 AATTTTTGGAAAGTTTGG-GGTCAAA
23117100 ACATAATTTT
Statistics
Matches: 171, Mismatches: 26, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
28 13 0.08
29 69 0.40
30 88 0.51
31 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (29 bp):
AATTTTTGGAAAGTTTGGGGTCAAATTCA
Found at i:23116991 original size:59 final size:58
Alignment explanation
Indices: 23116868--23117099 Score: 252
Period size: 59 Copynumber: 3.9 Consensus size: 58
23116858 TTAAAATTTG
* * * *
23116868 AATTTTTGGAAAGTTTGGGGTCAAATTGGAA-TTTTGGAAAGTTCGAGGGTCAAATTCA
1 AATTTTTGGAAAGTTTGGGGTCAAATT-CAATTTTTGGAAAATTTGGGGGTCAAATTCA
* *
23116926 AATTTTTGGAAAGTTTGGGGTCAAATTCAATTTTTTGGAAAATTTGGGGGCCAAATGCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTCAA-TTTTTGGAAAATTTGGGGGTCAAATTCA
** * *
23116985 AATTTTTGGAAAGCTCAGGGGTCAAATTCAAATTTTTGGAAAGTTT-GGGGTCAAATTTA
1 AATTTTTGGAAAG-TTTGGGGTCAAATTC-AATTTTTGGAAAATTTGGGGGTCAAATTCA
** * ** *
23117044 AATTTTTAAAAAGTTTGAGGGTAAAATTTGGATTTTTGGAAAATTTGGTGGTCAAA
1 AATTTTTGGAAAGTTTG-GGGTCAAA-TTCAATTTTTGGAAAATTTGGGGGTCAAA
23117100 ACATAATTTT
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
57 2 0.01
58 29 0.20
59 77 0.53
60 36 0.25
61 2 0.01
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (58 bp):
AATTTTTGGAAAGTTTGGGGTCAAATTCAATTTTTGGAAAATTTGGGGGTCAAATTCA
Found at i:23117079 original size:89 final size:88
Alignment explanation
Indices: 23116861--23117085 Score: 276
Period size: 89 Copynumber: 2.5 Consensus size: 88
23116851 AACCGAGTTA
* * * *
23116861 AAATTTGAATTTTTGGAAAGTTTGGGGTCAAA-TTGGAATTTTGGAAAGTTCGAGGGTCAAATTC
1 AAATTTAAATTTTTGAAAAGTTTGGGGTCAAATTTGGATTTTTGGAAAGCTCGAGGGTCAAATTC
23116925 AAATTTTTGGAAAGTTTGGGGTC
66 AAATTTTTGGAAAGTTTGGGGTC
* * * ****
23116948 AAATTCAATTTTTTGGAAAA-TTTGGGGGCCAAATGCAAATTTTTGGAAAGCTC-AGGGGTCAAA
1 AAATTTAAATTTTT-GAAAAGTTT-GGGGTCAAATTTGGATTTTTGGAAAGCTCGA-GGGTCAAA
23117011 TTCAAATTTTTGGAAAGTTTGGGGTC
63 TTCAAATTTTTGGAAAGTTTGGGGTC
* *
23117037 AAATTTAAATTTTTAAAAAGTTTGAGGGTAAAATTTGGATTTTTGGAAA
1 AAATTTAAATTTTTGAAAAGTTTG-GGGTCAAATTTGGATTTTTGGAAA
23117086 ATTTGGTGGT
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
87 14 0.12
88 18 0.16
89 80 0.71
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (88 bp):
AAATTTAAATTTTTGAAAAGTTTGGGGTCAAATTTGGATTTTTGGAAAGCTCGAGGGTCAAATTC
AAATTTTTGGAAAGTTTGGGGTC
Found at i:23117400 original size:35 final size:35
Alignment explanation
Indices: 23117351--23117422 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
23117341 GAGCAGGTGA
*
23117351 ATCTTCGGCCTCAAAACAACGTCGTTTTGAAGCCT
1 ATCTTCGGCATCAAAACAACGTCGTTTTGAAGCCT
*
23117386 ATCTTCGGCATCAAAACAACGTCGTTTTGGAGCCT
1 ATCTTCGGCATCAAAACAACGTCGTTTTGAAGCCT
23117421 AT
1 AT
23117423 TGAGTTAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (35 bp):
ATCTTCGGCATCAAAACAACGTCGTTTTGAAGCCT
Found at i:23118117 original size:29 final size:29
Alignment explanation
Indices: 23118058--23118115 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
23118048 TTTTATTCAA
***
23118058 AATAAAAGAAATAAACATCTTTTTCTTTT
1 AATAAAAGAAATAAACATCTTAAACTTTT
*
23118087 AATATAAGAAATAAACATCTTAAAACTTT
1 AATAAAAGAAATAAACATCTT-AAACTTT
23118116 AAATTCTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.36
Consensus pattern (29 bp):
AATAAAAGAAATAAACATCTTAAACTTTT
Found at i:23127114 original size:25 final size:26
Alignment explanation
Indices: 23127081--23127130 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
23127071 GAGTCTTCCA
23127081 AAAATTTAGCTCATACGAGCCCAGAC
1 AAAATTTAGCTCATACGAGCCCAGAC
*
23127107 AAAA-TTAGCTCATATGAGCCCAGA
1 AAAATTTAGCTCATACGAGCCCAGA
23127131 TAGGTTAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (26 bp):
AAAATTTAGCTCATACGAGCCCAGAC
Found at i:23127803 original size:37 final size:39
Alignment explanation
Indices: 23127767--23127844 Score: 102
Period size: 42 Copynumber: 1.9 Consensus size: 39
23127757 ATCTTTTTAC
23127767 AAAATTACCCTTAACTTTTCACTTTTATTCAATTTACTCCCT
1 AAAATTACCCTTAACTTTTCACTTTTATTCAATTTA---CCT
* **
23127809 TAAATTGTCCTTAACTTTTCACTTTTATTCAATTTA
1 AAAATTACCCTTAACTTTTCACTTTTATTCAATTTA
23127845 GTCTCTTAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.01, T:0.49
Consensus pattern (39 bp):
AAAATTACCCTTAACTTTTCACTTTTATTCAATTTACCT
Found at i:23131737 original size:14 final size:14
Alignment explanation
Indices: 23131718--23131747 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23131708 CTTCAAAAAC
23131718 AACCGAATCTTTCA
1 AACCGAATCTTTCA
23131732 AACCGAATCTTTCA
1 AACCGAATCTTTCA
23131746 AA
1 AA
23131748 ACCAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (14 bp):
AACCGAATCTTTCA
Found at i:23135854 original size:23 final size:23
Alignment explanation
Indices: 23135807--23135908 Score: 127
Period size: 23 Copynumber: 4.4 Consensus size: 23
23135797 ACAGAACAAA
* *
23135807 CAGAGAGTAC-CAAAGTACTAA-
1 CAGAGAGCACACAAAGTGCTAAT
*
23135828 CAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
23135851 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* *
23135874 TAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
23135897 AACAGAGAGCAC
1 --CAGAGAGCAC
23135909 GAGATGTGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.13
22 9 0.13
23 43 0.61
25 9 0.13
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.13
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAT
Found at i:23135881 original size:46 final size:45
Alignment explanation
Indices: 23135806--23135908 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 45
23135796 TACAGAACAA
*
23135806 ACAGAGAGTACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
* *
23135851 -CAGAGAGCACACAAAGTGCTAATTAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCAC-CAAAGTACTAA-CAGAGAGCACACACAGTGCTAAT
23135897 AACAGAGAGCAC
1 -ACAGAGAGCAC
23135909 GAGATGTGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
44 9 0.18
45 10 0.20
46 22 0.43
48 10 0.20
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (45 bp):
ACAGAGAGCACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
Found at i:23142989 original size:23 final size:23
Alignment explanation
Indices: 23142942--23143061 Score: 120
Period size: 23 Copynumber: 5.2 Consensus size: 23
23142932 ACGGAACAAA
* * *
23142942 CAGAGAGTAC-CAAAGTACTAA-
1 CAGAGAGCACACACAGTGCTAAT
23142963 CAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
*
23142986 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
* *
23143009 TAGAGAGCAAACACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
* *
23143032 AACAGAGAGCACGAGAC-GTGCTAAA
1 --CAGAGAGCAC-ACACAGTGCTAAT
23143057 CAGAG
1 CAGAG
23143062 TGCGCGCTAG
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.11
22 9 0.11
23 47 0.57
25 15 0.18
26 3 0.04
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (23 bp):
CAGAGAGCACACACAGTGCTAAT
Found at i:23143016 original size:46 final size:45
Alignment explanation
Indices: 23142941--23143043 Score: 136
Period size: 46 Copynumber: 2.2 Consensus size: 45
23142931 TACGGAACAA
* *
23142941 ACAGAGAGTACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCACCAAAGTACTAACAGAGAGCAAACACAGTGCTAAT
* *
23142986 -CAGAGAGCACACAAAGTGCTAATTAGAGAGCAAACACAGTGCTAAT
1 ACAGAGAGCAC-CAAAGTACTAA-CAGAGAGCAAACACAGTGCTAAT
23143032 AACAGAGAGCAC
1 -ACAGAGAGCAC
23143044 GAGACGTGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 9 0.18
45 10 0.20
46 21 0.42
48 10 0.20
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (45 bp):
ACAGAGAGCACCAAAGTACTAACAGAGAGCAAACACAGTGCTAAT
Found at i:23146460 original size:20 final size:19
Alignment explanation
Indices: 23146370--23146459 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 19
23146360 CAAAATGTAA
* *
23146370 GGGTAGAAGAGGACTTGTAT
1 GGGTAGAAG-TGACTTGCAT
23146390 AGGGTAGAAGTGTACTTGCAT
1 -GGGTAGAAGTG-ACTTGCAT
* **
23146411 GGGTACAAGTGACTTTTAT
1 GGGTAGAAGTGACTTGCAT
**
23146430 TAGTAGAAGTCGACTTGCAT
1 GGGTAGAAGT-GACTTGCAT
23146450 GGGTAGAAGT
1 GGGTAGAAGT
23146460 CCCCCTGAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
19 13 0.24
20 26 0.47
21 16 0.29
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (19 bp):
GGGTAGAAGTGACTTGCAT
Found at i:23148097 original size:29 final size:29
Alignment explanation
Indices: 23147988--23148339 Score: 311
Period size: 29 Copynumber: 12.1 Consensus size: 29
23147978 AAAAATGAAG
* * *
23147988 TTTTGGAGAGTTCGA-GATTAAAATGT-AA
1 TTTTGGA-AGTTCGAGGGTAAAAATGTGAT
** *
23148016 TTTTGGAAAGTTTC-AGGGGTAAAAATGACAC
1 TTTTGG-AAG-TTCGA-GGGTAAAAATGTGAT
* *
23148047 TTTAGGAGAGTTTG-GGGTAAAAATGTGAT
1 TTTTGGA-AGTTCGAGGGTAAAAATGTGAT
* *
23148076 TTTTGAGATGTTCGA-GGCAAAAATGTGATT
1 TTTTG-GAAGTTCGAGGGTAAAAATGTGA-T
** * * *
23148106 TTTTGGAAGTTTAAGGGCAAAATTGTAAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTGAT
* * * *
23148135 TTTTGAAAGATCGAGGGTAAAAGTATGAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTGAT
* *
23148164 TTTTGGAAGTTTGATGGTAAAAATGTGAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTGAT
* *
23148193 TTTTGGAACTTCGAGGGTAAAAATGTTAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTGAT
* *
23148222 TTTTGGATGTTCGAGGGCAAAAATGTGAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTGAT
*
23148251 TTTTGGAAGTTCGTGGGTAAAAATGTGAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTGAT
* * *
23148280 TTTTGTAAGTTTGAGGGTAAAAATGTAAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTGAT
* *
23148309 TTTTGAGAAGTTTGAGGGT-AAAATGTAAT
1 TTTTG-GAAGTTCGAGGGTAAAAATGTGAT
23148338 TT
1 TT
23148340 GGAAAAGTTT
Statistics
Matches: 264, Mismatches: 48, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
28 9 0.03
29 205 0.78
30 42 0.16
31 8 0.03
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (29 bp):
TTTTGGAAGTTCGAGGGTAAAAATGTGAT
Found at i:23148348 original size:58 final size:58
Alignment explanation
Indices: 23148007--23148379 Score: 295
Period size: 58 Copynumber: 6.4 Consensus size: 58
23147997 GTTCGAGATT
* * *
23148007 AAAATGTAATTTTGGA-AAGTTTC-AGGGGTAAAAATG-ACACTTTAGGAGAGTTTG-GGGTA
1 AAAATGTGATTTTTGAGAAG-TTCGA-GGGTAAAAATGTATA-TTT-GGA-AGTTTGAGGGTA
* * * * *
23148066 AAAATGTGATTTTTGAGATGTTCGA-GGCAAAAATGTGATTTTTTGGAAGTTTAAGGGCA
1 AAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGT-A-TATTTGGAAGTTTGAGGGTA
* * * * *
23148125 AAATTGTAATTTTTGA-AAGATCGAGGGTAAAAGTATG-ATTTTTGGAAGTTTGATGGTA
1 AAAATGTGATTTTTGAGAAGTTCGAGGGTAAAA--ATGTATATTTGGAAGTTTGAGGGTA
* * * * *
23148183 AAAATGTGATTTTTG-GAACTTCGAGGGTAAAAATGTTATTTTTGGATGTTCGAGGGCA
1 AAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATG-TATATTTGGAAGTTTGAGGGTA
* * *
23148241 AAAATGTGATTTTTG-GAAGTTCGTGGGTAAAAATGTGATTTTTGTAAGTTTGAGGGTA
1 AAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGT-ATATTTGGAAGTTTGAGGGTA
* * *
23148299 AAAATGTAATTTTTGAGAAGTTTGAGGGT-AAAATGTA-ATTTGGAAAAGTTTTG-GGGTC
1 AAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGTATATTTGG--AAG-TTTGAGGGTA
*
23148357 AAAATATGATTTTTG-GAAAGTTC
1 AAAATGTGATTTTTGAG-AAGTTC
23148380 AAGGACCTTC
Statistics
Matches: 257, Mismatches: 39, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
56 7 0.03
57 3 0.01
58 177 0.69
59 60 0.23
60 7 0.03
61 3 0.01
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (58 bp):
AAAATGTGATTTTTGAGAAGTTCGAGGGTAAAAATGTATATTTGGAAGTTTGAGGGTA
Found at i:23148348 original size:87 final size:85
Alignment explanation
Indices: 23148094--23148374 Score: 284
Period size: 87 Copynumber: 3.2 Consensus size: 85
23148084 TGTTCGAGGC
* * * *
23148094 AAAAATGTGATTTTTTGGAAGTTTAAGGGCAAAATTGTAATTTTTGA-AAGATCGAGGGTAAAA-
1 AAAAATGTGA-TTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAT
23148157 GTATGATTTTTGGAAGTT-TGATGGT
65 GTAT-A--TTTGGAAGTTGTG--GGT
* * * * *
23148182 AAAAATGTGATTTTTGGAACTTCGAGGGTAAAAATGTTATTTTTG-GATGTTCGAGGGCAAAAAT
1 AAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGG-TAAAAT
*
23148246 GTGATTTTTGGAAGTTCGTGGGT
65 GT-ATATTTGGAAGTT-GTGGGT
* *
23148269 AAAAATGTGATTTTTGTAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAATG
1 AAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAATG
*
23148334 TA-ATTTGGAAAAGTTTTGGGGT
66 TATATTTGG--AAGTTGT-GGGT
* *
23148356 CAAAATATGATTTTTGGAA
1 AAAAATGTGATTTTTGGAA
23148375 AGTTCAAGGA
Statistics
Matches: 161, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
85 5 0.03
86 2 0.01
87 124 0.77
88 24 0.15
89 4 0.02
90 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (85 bp):
AAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAATG
TATATTTGGAAGTTGTGGGT
Found at i:23150059 original size:41 final size:40
Alignment explanation
Indices: 23150013--23150147 Score: 182
Period size: 41 Copynumber: 3.3 Consensus size: 40
23150003 TTTATCTTGG
23150013 TTTGGGCCTGTTAATTGGGTTTAGGTTTA-ACGTTTGGACCA
1 TTTGGGCCTGTTAATTGGGTTTAGGTTTAGA-GTTTGG-CCA
* * *
23150054 TTTGGGCTTGTTAATTGAGTTTAGATTTAGAGTTTAGGCCA
1 TTTGGGCCTGTTAATTGGGTTTAGGTTTAGAGTTT-GGCCA
* *
23150095 TTTGGGTCTGTTAATTGGGTTTAGGCTTAGAGTTTGGGCCA
1 TTTGGGCCTGTTAATTGGGTTTAGGTTTAGAGTTT-GGCCA
23150136 TTTGGGCCTGTT
1 TTTGGGCCTGTT
23150148 TGTAATTGGG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
41 79 0.96
42 3 0.04
ACGTcount: A:0.16, C:0.10, G:0.30, T:0.43
Consensus pattern (40 bp):
TTTGGGCCTGTTAATTGGGTTTAGGTTTAGAGTTTGGCCA
Found at i:23150241 original size:17 final size:17
Alignment explanation
Indices: 23150219--23150308 Score: 94
Period size: 17 Copynumber: 5.4 Consensus size: 17
23150209 ACTTTGATAT
23150219 TTTAAATTCAAAATAAA
1 TTTAAATTCAAAATAAA
* *
23150236 TTTAAACTC-AACTAAA
1 TTTAAATTCAAAATAAA
* *
23150252 TTTAAATTTAAGATAAA
1 TTTAAATTCAAAATAAA
* *
23150269 TTTAAACTT-AAGATGAA
1 TTTAAA-TTCAAAATAAA
*
23150286 TTTAAATTTAAAATAAA
1 TTTAAATTCAAAATAAA
23150303 TTTAAA
1 TTTAAA
23150309 AATGGGTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 15 0.25
17 44 0.72
18 2 0.03
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTAAATTCAAAATAAA
Found at i:23150802 original size:39 final size:39
Alignment explanation
Indices: 23150741--23151158 Score: 262
Period size: 39 Copynumber: 10.7 Consensus size: 39
23150731 GGATAACTGC
* * *
23150741 AATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATGGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * *
23150780 AATCTGCCTCAAGCTCGGGGTAAGAGATTGGCTAATGGG
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * * * * * ***
23150819 GATCTGTCCTAGGCTCGGGGTAAGAGATCGGAC-GGTTAC
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGG-CTGATGGT
* * *
23150858 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGATGATGGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * *
23150897 GATCTGCCCCAAGCTCGGGGTAAGAGATCGGAC-GACT-GC
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGG-CTGA-TGGT
* * * *
23150936 AATCTGCCCCAGGTTCGGGGTAAGAGATTAGCTGATAGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * ** * * *
23150975 GATTTATCCCAAGCTCAGGATAAAAGATTGG--G-TGGCT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-T
* * * * *
23151012 ACAATCTGCCCTAGGGTCGAGGTAAGAGATTGGCTGATGAT
1 --AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * *
23151053 GATCTGCACCAAGCTCGGGGTAAAAGATCAAATGGCTG-T-G-
1 AATCTGCCCCAAGCTCGGGGTAAGAGAT----TGGCTGATGGT
* * *
23151093 -ATCTGCCCCAAGCTCGAGGTAAGAGATTGACTGGTGGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
* * *
23151131 GATCTGCCCCAGGCTCGTGGTAAGAGAT
1 AATCTGCCCCAAGCTCGGGGTAAGAGAT
23151159 AGGAATATTC
Statistics
Matches: 285, Mismatches: 74, Indels: 40
0.71 0.19 0.10
Matches are distributed among these distances:
35 5 0.02
36 3 0.01
37 3 0.01
38 2 0.01
39 259 0.91
40 2 0.01
41 2 0.01
42 3 0.01
43 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (39 bp):
AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT
Found at i:23150874 original size:78 final size:78
Alignment explanation
Indices: 23150780--23151158 Score: 380
Period size: 78 Copynumber: 4.9 Consensus size: 78
23150770 GGCTGATGGT
* * * * * * *
23150780 AATCTGCCTCAAGCTCGGGGTAAGAGATTGGCTAATGGGGATCTGTCCTAGGCTCGGGGTAAGAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
*
23150845 ATCGGACGGTTAC
66 ATCGGACGGCTAC
* *
23150858 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
* *
23150923 ATCGGACGACTGC
66 ATCGGACGGCTAC
* * * * ** * * *
23150936 AATCTGCCCCAGGTTCGGGGTAAGAGATTAGCTGATAGTGATTTATCCCAAGCTCAGGATAAAAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
* **
23151001 ATTGGGTGGCTAC
66 ATCGGACGGCTAC
* * * * * *
23151014 AATCTGCCCTAGGGTCGAGGTAAGAGATTGGCTGATGATGATCTGCACCAAGCTCGGGGTAAAAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
** * **
23151079 ATCAAATGGCTGT
66 ATCGGACGGCTAC
* * * * * * *
23151092 GATCTGCCCCAAGCTCGAGGTAAGAGATTGACTGGTGGTGATCTGCCCCAGGCTCGTGGTAAGAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
23151157 AT
66 AT
23151159 AGGAATATTC
Statistics
Matches: 244, Mismatches: 57, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
78 244 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (78 bp):
AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
ATCGGACGGCTAC
Found at i:23150954 original size:117 final size:117
Alignment explanation
Indices: 23150740--23150963 Score: 297
Period size: 117 Copynumber: 1.9 Consensus size: 117
23150730 TGGATAACTG
* * *
23150740 CAATCTGCCCCATGATCGAGGTAAGAGATTGGCTGATGGTAATCTGCCTCAAGCTCGGGGTAAGA
1 CAATCTGCCCCAGGATCGAGGTAAGAGATTGGATGATGGTAATCTGCCCCAAGCTCGGGGTAAGA
* * ** * *
23150805 GATTGGCTAATGGGGATCTGTCCTAGGCTCGGGGTAAGAGATCGGACGGTTA
66 GATCGGCGAATGGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGACGGTTA
* * * *
23150857 CAATCTGCCCTAGGCTCGGGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTCGGGGTAAGA
1 CAATCTGCCCCAGGATCGAGGTAAGAGATTGGATGATGGTAATCTGCCCCAAGCTCGGGGTAAGA
* *
23150922 GATCGGACGACT-GCAATCTGCCCCAGGTTCGGGGTAAGAGAT
66 GATCGG-CGAATGGCAATCTGCCCCAGGCTCGGGGTAAGAGAT
23150964 TAGCTGATAG
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
117 88 0.97
118 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (117 bp):
CAATCTGCCCCAGGATCGAGGTAAGAGATTGGATGATGGTAATCTGCCCCAAGCTCGGGGTAAGA
GATCGGCGAATGGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGACGGTTA
Found at i:23152113 original size:16 final size:18
Alignment explanation
Indices: 23152092--23152129 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
23152082 ATTTTAATTG
23152092 ATAATAATATT-AT-AAT
1 ATAATAATATTAATAAAT
23152108 ATAATAATATTAATAAAT
1 ATAATAATATTAATAAAT
23152126 ATAA
1 ATAA
23152130 AAGAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 2 0.10
18 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATAATATTAATAAAT
Found at i:23153155 original size:16 final size:18
Alignment explanation
Indices: 23153130--23153171 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
23153120 ATATGGGACT
*
23153130 AAAATGAGAA-TGATGTG
1 AAAATGAGAATTGAAGTG
23153147 AAAAT-AGAATTGAAGTG
1 AAAATGAGAATTGAAGTG
23153164 AAATATGA
1 AAA-ATGA
23153172 TTTTTACCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 2 0.10
19 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAAATGAGAATTGAAGTG
Found at i:23165257 original size:29 final size:28
Alignment explanation
Indices: 23165225--23165504 Score: 210
Period size: 29 Copynumber: 9.6 Consensus size: 28
23165215 AAAAGGGCTC
23165225 AAAAATG-AAGTTTTGGAGAGTTCGGGGT
1 AAAAATGTAA-TTTTGGAGAGTTCGGGGT
* * * *
23165253 TAAAATATAATTTTGGAAAGTTTTAGGGGT
1 AAAAATGTAATTTTGGAGAG--TTCGGGGT
* *
23165283 AAAATTGTTATTTTAGGAGAGTTCGGGGGT
1 AAAAATGTAATTTT-GGAGAGTTC-GGGGT
* ** *
23165313 AAAAATGTGATTTTTAAGTAGTTCGGGGC
1 AAAAATGTAATTTTGGAG-AGTTCGGGGT
*
23165342 AAAAATGTGATTTTTGGA-AGTTCGAGGGT
1 AAAAATGT-AATTTTGGAGAGTTCG-GGGT
*
23165371 AAAAATGTAATTTTTGGA-AGTTTGCGGGT
1 AAAAATGTAA-TTTTGGAGAGTTCG-GGGT
**
23165400 AAAAATGTGGTTTTTGGATG-G-TCGAGGGT
1 AAAAATGT-AATTTTGGA-GAGTTCG-GGGT
* * *
23165429 AAAAATGTGATTTTTGAAAGTTCGAGGGT
1 AAAAATGTAATTTTGGAGAGTTCG-GGGT
* *
23165458 AAAAATGTAATTTTTGAGAAGTTTAGGGGT
1 AAAAATGTAATTTTGGAG-AG-TTCGGGGT
23165488 AAAAATGTAATTTTGGA
1 AAAAATGTAATTTTGGA
23165505 AAAGTTTTAG
Statistics
Matches: 202, Mismatches: 34, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
28 29 0.14
29 98 0.49
30 67 0.33
31 8 0.04
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (28 bp):
AAAAATGTAATTTTGGAGAGTTCGGGGT
Found at i:23165433 original size:87 final size:86
Alignment explanation
Indices: 23165279--23165501 Score: 279
Period size: 87 Copynumber: 2.5 Consensus size: 86
23165269 AAAGTTTTAG
* * * * *
23165279 GGGTAAAATTGTTATTTTAGGAGAGTTCGGGGGTAAAAATGTGATTTTTAAGTAGTTCGGGGCAA
1 GGGTAAAAATGTAATTTTTGGA-AGTT-TGGGGTAAAAATGTGATTTTTAAGTAGGTCGGGGCAA
*
23165344 AAATGTGATTTTTGGAAGTTCGA
64 AAATGTGATTTTTGAAAGTTCGA
* * *
23165367 GGGTAAAAATGTAATTTTTGGAAGTTTGCGGGTAAAAATGTGGTTTTT--GGATGGTCGAGGGTA
1 GGGTAAAAATGTAATTTTTGGAAGTTTG-GGGTAAAAATGTGATTTTTAAGTA-GGTCG-GGGCA
23165430 AAAATGTGATTTTTGAAAGTTCGA
63 AAAATGTGATTTTTGAAAGTTCGA
*
23165454 GGGTAAAAATGTAATTTTTGAGAAGTTTAGGGGTAAAAATGTAATTTT
1 GGGTAAAAATGTAATTTTTG-GAAGTTT-GGGGTAAAAATGTGATTTT
23165502 GGAAAAGTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
85 2 0.02
86 5 0.04
87 69 0.58
88 42 0.35
89 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.30, T:0.36
Consensus pattern (86 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTGGGGTAAAAATGTGATTTTTAAGTAGGTCGGGGCAAAA
ATGTGATTTTTGAAAGTTCGA
Found at i:23165502 original size:58 final size:56
Alignment explanation
Indices: 23165235--23165530 Score: 243
Period size: 58 Copynumber: 5.0 Consensus size: 56
23165225 AAAAATGAAG
* * ** * *
23165235 TTTTGGAGAGTTCGGGGTTAAAATATAATTTTGGAAAGTTTTAGGGGTAAAATTGTTAT
1 TTTTGGA-AGTTCGGGGTAAAAATGTAATTTT-GAAAGTTCGA-GGGTAAAAATGTGAT
* * * *
23165294 TTTAGGAGAGTTCGGGGGTAAAAATGTGATTTTTAAGTAGTTCG-GGGCAAAAATGTGAT
1 TTTTGGA-AGTTC-GGGGTAAAAATGTAATTTTGAA--AGTTCGAGGGTAAAAATGTGAT
* * * *
23165353 TTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGGAAGTTTGCGGGTAAAAATGTGGT
1 TTTTGGAAGTTCG-GGGTAAAAATGTAA-TTTTGAAAGTTCGAGGGTAAAAATGTGAT
* * * *
23165411 TTTTGGATGGTCGAGGGTAAAAATGTGATTTTTGAAAGTTCGAGGGTAAAAATGTAAT
1 TTTTGGAAGTTCG-GGGTAAAAATGT-AATTTTGAAAGTTCGAGGGTAAAAATGTGAT
* ** * *
23165469 TTTTGAGAAGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATGAT
1 TTTTG-GAAG-TTCGGGGTAAAAATGTAATTTT-G-AAAGTTCGAGGGTAAAAATGTGAT
23165529 TT
1 TT
23165531 CTAGAAAGTT
Statistics
Matches: 192, Mismatches: 34, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
57 6 0.03
58 89 0.46
59 54 0.28
60 39 0.20
61 4 0.02
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (56 bp):
TTTTGGAAGTTCGGGGTAAAAATGTAATTTTGAAAGTTCGAGGGTAAAAATGTGAT
Found at i:23166603 original size:21 final size:20
Alignment explanation
Indices: 23166578--23166624 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
23166568 AATCTCCTCT
* *
23166578 TTTATTTATTATTATTATTA
1 TTTATTTAATATTATAATTA
23166598 TATTATTTAATATTATAATTA
1 T-TTATTTAATATTATAATTA
23166619 TTTATT
1 TTTATT
23166625 ATAAAACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATTTAATATTATAATTA
Found at i:23166620 original size:16 final size:15
Alignment explanation
Indices: 23166580--23166622 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23166570 TCTCCTCTTT
*
23166580 TATT-TATTA-TTAT
1 TATTATATTATTTAA
23166593 TATTATATTATTTAA
1 TATTATATTATTTAA
23166608 TATTATAATTATTTA
1 TATTAT-ATTATTTA
23166623 TTATAAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 5 0.19
15 9 0.35
16 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATATTATTTAA
Found at i:23167318 original size:17 final size:17
Alignment explanation
Indices: 23167296--23167385 Score: 94
Period size: 17 Copynumber: 5.4 Consensus size: 17
23167286 ACTTTGATAT
23167296 TTTAAATTCAAAATAAA
1 TTTAAATTCAAAATAAA
* *
23167313 TTTAAACTC-AACTAAA
1 TTTAAATTCAAAATAAA
* *
23167329 TTTAAATTTAAGATAAA
1 TTTAAATTCAAAATAAA
* *
23167346 TTTAAACTT-AAGATGAA
1 TTTAAA-TTCAAAATAAA
*
23167363 TTTAAATTTAAAATAAA
1 TTTAAATTCAAAATAAA
23167380 TTTAAA
1 TTTAAA
23167386 AATGGGTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 15 0.25
17 44 0.72
18 2 0.03
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTAAATTCAAAATAAA
Found at i:23171365 original size:28 final size:29
Alignment explanation
Indices: 23171281--23171365 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 29
23171271 GAAATATTTT
* *
23171281 TATTATGTACTTTG-AATTTGTTTAATAA
1 TATTTTGTACTTTGAAATTTATTTAATAA
** * ** *
23171309 TAAATTGTATTTGTGAAGCTTATTGAATAA
1 TATTTTGTACTT-TGAAATTTATTTAATAA
23171339 TATTTTGTA-TTTGAAATTTATTTAATA
1 TATTTTGTACTTTGAAATTTATTTAATA
23171366 TCATTATTTG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
28 21 0.50
29 4 0.10
30 17 0.40
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (29 bp):
TATTTTGTACTTTGAAATTTATTTAATAA
Found at i:23174726 original size:27 final size:29
Alignment explanation
Indices: 23174658--23174726 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
23174648 ATTATGTAAC
* *
23174658 TTTG-AATTTGTTTAATAATAATTTGTAT
1 TTTGAAATTTATTGAATAATAATTTGTAT
* *
23174686 TTGTGAAGTGTATTGAATAAT-ATTTGTA-
1 TT-TGAAATTTATTGAATAATAATTTGTAT
23174714 TTTGAAATTTATT
1 TTTGAAATTTATT
23174727 TAACTATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
27 9 0.27
28 4 0.12
29 9 0.27
30 11 0.33
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (29 bp):
TTTGAAATTTATTGAATAATAATTTGTAT
Found at i:23175056 original size:17 final size:17
Alignment explanation
Indices: 23175034--23175073 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23175024 TAGGAAGAGA
*
23175034 TTTATTGGAATATAAAC
1 TTTATTGAAATATAAAC
* *
23175051 TTTATTTAAATTTAAAC
1 TTTATTGAAATATAAAC
23175068 TTTATT
1 TTTATT
23175074 TTTTAGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (17 bp):
TTTATTGAAATATAAAC
Found at i:23175101 original size:13 final size:13
Alignment explanation
Indices: 23175069--23175101 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23175059 AATTTAAACT
*
23175069 TTATTTTTTAGGA
1 TTATTATTTAGGA
23175082 TTA-TATTTAGGA
1 TTATTATTTAGGA
23175094 TTATTATT
1 TTATTATT
23175102 ATTATGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (13 bp):
TTATTATTTAGGA
Found at i:23175201 original size:24 final size:24
Alignment explanation
Indices: 23175166--23175211 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
23175156 CCAATTAAGG
23175166 AATTATTGTTTAG-ATTTAATTCA
1 AATTATTGTTTAGAATTTAATTCA
23175189 AATTATCTGTTTAGAATTTAATT
1 AATTAT-TGTTTAGAATTTAATT
23175212 TGGATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (24 bp):
AATTATTGTTTAGAATTTAATTCA
Found at i:23176203 original size:2 final size:2
Alignment explanation
Indices: 23176196--23176229 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23176186 GACTGCAGCA
23176196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23176230 TAGAATAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23182104 original size:21 final size:21
Alignment explanation
Indices: 23182071--23182110 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23182061 TATCTAAATT
*
23182071 ATTTTTATGATTTTCAAATAC
1 ATTTTTATCATTTTCAAATAC
* *
23182092 ATTTTTTTCATTTTTAAAT
1 ATTTTTATCATTTTCAAAT
23182111 GGTATATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTATCATTTTCAAATAC
Found at i:23185048 original size:6 final size:6
Alignment explanation
Indices: 23185037--23185061 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23185027 GTTTAATGTT
23185037 GATCTG GATCTG GATCTG GATCTG G
1 GATCTG GATCTG GATCTG GATCTG G
23185062 GTTGGGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GATCTG
Found at i:23192604 original size:23 final size:23
Alignment explanation
Indices: 23192576--23192619 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23192566 ATTATTTTTT
*
23192576 ATATTTAAAATTTAAATAAAATA
1 ATATTTAAAATTTAAAAAAAATA
* *
23192599 ATATTTATAGTTTAAAAAAAA
1 ATATTTAAAATTTAAAAAAAA
23192620 CAAATAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATTTAAAATTTAAAAAAAATA
Found at i:23194030 original size:29 final size:29
Alignment explanation
Indices: 23193995--23194226 Score: 243
Period size: 29 Copynumber: 7.9 Consensus size: 29
23193985 TTAAAATTTG
*
23193995 AATTTTTGGAAAGTTTGGGGTCAAATTGG
1 AATTTTTGGAAAGTTTGGGGTCAAATTGA
* *
23194024 AATTTTTGGAAAGTTCGAGGGTCAAATTCA
1 AATTTTTGGAAAGTTTG-GGGTCAAATTGA
*
23194054 AATTTTTGGAAAGTTTGGGGTCAAATTCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGA
* * *
23194083 ATTTTTTGGAAAATTTGGGGGCCAAA-TGCA
1 AATTTTTGGAAAGTTT-GGGGTCAAATTG-A
* ** *
23194113 AATTTTTGGAAAGCTCAGGGTCAAATTCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGA
*
23194142 AATTTTTGGAAAGTTTGGGGTCAAATTTA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGA
** *
23194171 AATTTTTAAAAAGTTTGAGGGTAAAATTTG-
1 AATTTTTGGAAAGTTTG-GGGTCAAA-TTGA
* *
23194201 GATTTTTGGAAAATTTGGTGGTCAAA
1 AATTTTTGGAAAGTTTGG-GGTCAAA
23194227 ACATAATTTT
Statistics
Matches: 168, Mismatches: 28, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
29 92 0.55
30 74 0.44
31 2 0.01
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAAGTTTGGGGTCAAATTGA
Found at i:23194062 original size:59 final size:58
Alignment explanation
Indices: 23193995--23194226 Score: 261
Period size: 59 Copynumber: 3.9 Consensus size: 58
23193985 TTAAAATTTG
*
23193995 AATTTTTGGAAAGTTTGGGGTCAAATTGGAATTTTTGGAAAGTTCGAGGGTCAAATTCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGGAATTTTTGGAAAGTTTG-GGGTCAAATTCA
* * * *
23194054 AATTTTTGGAAAGTTTGGGGTCAAATT-CAATTTTTTGGAAAATTTGGGGGCCAAATGCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGGAA-TTTTTGGAAAGTTT-GGGGTCAAATTCA
* ** ** *
23194113 AATTTTTGGAAAGCTCAGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGGAATTTTTGGAAAGTTTGGGGTCAAATTCA
** * *
23194171 AATTTTTAAAAAGTTTGAGGGTAAAATTTGG-ATTTTTGGAAAATTTGGTGGTCAAA
1 AATTTTTGGAAAGTTTG-GGGTCAAA-TTGGAATTTTTGGAAAGTTTGG-GGTCAAA
23194227 ACATAATTTT
Statistics
Matches: 145, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
58 24 0.17
59 109 0.75
60 12 0.08
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (58 bp):
AATTTTTGGAAAGTTTGGGGTCAAATTGGAATTTTTGGAAAGTTTGGGGTCAAATTCA
Found at i:23194206 original size:88 final size:88
Alignment explanation
Indices: 23193988--23194212 Score: 285
Period size: 88 Copynumber: 2.5 Consensus size: 88
23193978 AACCGAGTTA
* * *
23193988 AAATTTGAATTTTTGGAAAGTTTGGGGTCAAA-TTGGAATTTTTGGAAAGTTCGAGGGTCAAATT
1 AAATTTAAATTTTTGAAAAGTTTGGGGTCAAATTTGG-ATTTTTGGAAAGCTCGAGGGTCAAATT
23194052 CAAATTTTTGGAAAGTTTGGGGTC
65 CAAATTTTTGGAAAGTTTGGGGTC
* * * ****
23194076 AAATTCAATTTTTTGGAAAA-TTTGGGGGCCAAATGCAAATTTTTGGAAAGCTC-AGGGTCAAAT
1 AAATTTAAATTTTT-GAAAAGTTT-GGGGTCAAATTTGGATTTTTGGAAAGCTCGAGGGTCAAAT
23194139 TCAAATTTTTGGAAAGTTTGGGGTC
64 TCAAATTTTTGGAAAGTTTGGGGTC
* *
23194164 AAATTTAAATTTTTAAAAAGTTTGAGGGTAAAATTTGGATTTTTGGAAA
1 AAATTTAAATTTTTGAAAAGTTTG-GGGTCAAATTTGGATTTTTGGAAA
23194213 ATTTGGTGGT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
87 5 0.04
88 82 0.73
89 26 0.23
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (88 bp):
AAATTTAAATTTTTGAAAAGTTTGGGGTCAAATTTGGATTTTTGGAAAGCTCGAGGGTCAAATTC
AAATTTTTGGAAAGTTTGGGGTC
Found at i:23203942 original size:25 final size:26
Alignment explanation
Indices: 23203909--23203958 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
23203899 GAGTCTTCCA
23203909 AAAATTTAGCTCATACGAGCCCAGAC
1 AAAATTTAGCTCATACGAGCCCAGAC
*
23203935 AAAA-TTAGCTCATATGAGCCCAGA
1 AAAATTTAGCTCATACGAGCCCAGA
23203959 TAGGTTAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (26 bp):
AAAATTTAGCTCATACGAGCCCAGAC
Found at i:23204630 original size:37 final size:39
Alignment explanation
Indices: 23204594--23204671 Score: 102
Period size: 42 Copynumber: 1.9 Consensus size: 39
23204584 ATCTTTTTAC
23204594 AAAATTACCCTTAACTTTTCACTTTTATTCAATTTACTCCCT
1 AAAATTACCCTTAACTTTTCACTTTTATTCAATTTA---CCT
* **
23204636 TAAATTGTCCTTAACTTTTCACTTTTATTCAATTTA
1 AAAATTACCCTTAACTTTTCACTTTTATTCAATTTA
23204672 GTCTCTTAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.01, T:0.49
Consensus pattern (39 bp):
AAAATTACCCTTAACTTTTCACTTTTATTCAATTTACCT
Found at i:23212703 original size:23 final size:23
Alignment explanation
Indices: 23212656--23212757 Score: 127
Period size: 23 Copynumber: 4.4 Consensus size: 23
23212646 ACAGAACAAA
* *
23212656 CAGAGAGTAC-CAAAGTACTAA-
1 CAGAGAGCACACAAAGTGCTAAT
*
23212677 CAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
23212700 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* *
23212723 TAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
23212746 AACAGAGAGCAC
1 --CAGAGAGCAC
23212758 GAGATGTGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.13
22 9 0.13
23 43 0.61
25 9 0.13
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.13
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAT
Found at i:23212730 original size:46 final size:45
Alignment explanation
Indices: 23212655--23212757 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 45
23212645 TACAGAACAA
*
23212655 ACAGAGAGTACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
* *
23212700 -CAGAGAGCACACAAAGTGCTAATTAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCAC-CAAAGTACTAA-CAGAGAGCACACACAGTGCTAAT
23212746 AACAGAGAGCAC
1 -ACAGAGAGCAC
23212758 GAGATGTGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
44 9 0.18
45 10 0.20
46 22 0.43
48 10 0.20
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (45 bp):
ACAGAGAGCACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
Found at i:23219867 original size:46 final size:45
Alignment explanation
Indices: 23219792--23219894 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 45
23219782 TACGGAACAA
*
23219792 ACAGAGAGTACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
* *
23219837 -CAGAGAGCACACAAAGTGCTAATTAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCAC-CAAAGTACTAA-CAGAGAGCACACACAGTGCTAAT
23219883 AACAGAGAGCAC
1 -ACAGAGAGCAC
23219895 GAGACGTGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
44 9 0.18
45 10 0.20
46 22 0.43
48 10 0.20
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (45 bp):
ACAGAGAGCACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
Found at i:23219903 original size:25 final size:23
Alignment explanation
Indices: 23219793--23219912 Score: 129
Period size: 23 Copynumber: 5.2 Consensus size: 23
23219783 ACGGAACAAA
* * *
23219793 CAGAGAGTAC-CAAAGTACTAA-
1 CAGAGAGCACACACAGTGCTAAT
23219814 CAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
*
23219837 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
*
23219860 TAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
* *
23219883 AACAGAGAGCACGAGAC-GTGCTAAA
1 --CAGAGAGCAC-ACACAGTGCTAAT
23219908 CAGAG
1 CAGAG
23219913 TGCGCGCTAG
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
21 9 0.11
22 9 0.11
23 48 0.56
25 16 0.19
26 3 0.04
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (23 bp):
CAGAGAGCACACACAGTGCTAAT
Found at i:23234068 original size:29 final size:28
Alignment explanation
Indices: 23234036--23234315 Score: 201
Period size: 29 Copynumber: 9.6 Consensus size: 28
23234026 AAAAGGGCTC
23234036 AAAAATG-AAGTTTTGGAGAGTTCGGGGT
1 AAAAATGTAA-TTTTGGAGAGTTCGGGGT
* * * *
23234064 TAAAATATAATTTTGGAAAGTTTTAGGGGT
1 AAAAATGTAATTTTGGAGAG--TTCGGGGT
* *
23234094 AAAATTGTTATTTTAGGAGAGTTCGGGGGT
1 AAAAATGTAATTTT-GGAGAGTTC-GGGGT
* ** *
23234124 AAAAATGTGATTTTTAAGTAGTTCGGGGC
1 AAAAATGTAATTTTGGAG-AGTTCGGGGT
*
23234153 AAAAATGTGATTTTTGGA-AGTTCGAGGGT
1 AAAAATGT-AATTTTGGAGAGTTCG-GGGT
*
23234182 AAAAATGTAATTTTTGGA-AGTTTGCGGGT
1 AAAAATGTAA-TTTTGGAGAGTTCG-GGGT
** *
23234211 AAAAATGTGGTTTTTTGATG-G-TCGAGGGT
1 AAAAATGT-AATTTTGGA-GAGTTCG-GGGT
* * *
23234240 AAAAATGTGATTTTTGAAAGTTCGAGGGT
1 AAAAATGTAATTTTGGAGAGTTCG-GGGT
* *
23234269 AAAAATGTAATTTTTGAGAAGTTTAGGGGT
1 AAAAATGTAATTTTGGAG-AG-TTCGGGGT
23234299 AAAAATGTAATTTTGGA
1 AAAAATGTAATTTTGGA
23234316 AAAGTTTTAG
Statistics
Matches: 202, Mismatches: 34, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
28 30 0.15
29 97 0.48
30 67 0.33
31 8 0.04
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.36
Consensus pattern (28 bp):
AAAAATGTAATTTTGGAGAGTTCGGGGT
Found at i:23234186 original size:58 final size:58
Alignment explanation
Indices: 23234046--23234312 Score: 222
Period size: 58 Copynumber: 4.6 Consensus size: 58
23234036 AAAAATGAAG
* * * ** * *
23234046 TTTTGGAGAGTTCG-GGGTTAAAATATAATTTTGGAA-AGTTTTAGGGGTAAAATTGTTAT
1 TTTTGGA-AGTTCGAGGGTAAAAATGTAATTTT-TAAGAGTTCGA-GGGTAAAAATGTGAT
* * * *
23234105 TTTAGGAGAGTTCGGGGGTAAAAATGTGATTTTTAAGTAGTTCG-GGGCAAAAATGTGAT
1 TTTTGGA-AGTTCGAGGGTAAAAATGTAATTTTTAAG-AGTTCGAGGGTAAAAATGTGAT
* * * *
23234164 TTTTGGAAGTTCGAGGGTAAAAATGTAATTTTT-GGAAGTTTGCGGGTAAAAATGTGGT
1 TTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAAG-AGTTCGAGGGTAAAAATGTGAT
* * * * *
23234222 TTTTTGATGGTCGAGGGTAAAAATGTGATTTTTGAA-AGTTCGAGGGTAAAAATGTAAT
1 TTTTGGAAGTTCGAGGGTAAAAATGTAATTTTT-AAGAGTTCGAGGGTAAAAATGTGAT
*
23234280 TTTTGAGAAGTT-TAGGGGTAAAAATGTAATTTT
1 TTTTG-GAAGTTCGA-GGGTAAAAATGTAATTTT
23234313 GGAAAAGTTT
Statistics
Matches: 168, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
57 6 0.04
58 89 0.53
59 54 0.32
60 15 0.09
61 4 0.02
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.37
Consensus pattern (58 bp):
TTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTAAGAGTTCGAGGGTAAAAATGTGAT
Found at i:23234244 original size:87 final size:86
Alignment explanation
Indices: 23234090--23234312 Score: 279
Period size: 87 Copynumber: 2.5 Consensus size: 86
23234080 AAAGTTTTAG
* * * * *
23234090 GGGTAAAATTGTTATTTTAGGAGAGTTCGGGGGTAAAAATGTGATTTTTAAGTAGTTCGGGGCAA
1 GGGTAAAAATGTAATTTTTGGA-AGTT-TGGGGTAAAAATGTGATTTTTAAGTAGGTCGGGGCAA
*
23234155 AAATGTGATTTTTGGAAGTTCGA
64 AAATGTGATTTTTGAAAGTTCGA
* * *
23234178 GGGTAAAAATGTAATTTTTGGAAGTTTGCGGGTAAAAATGTGGTTTTT-TG-ATGGTCGAGGGTA
1 GGGTAAAAATGTAATTTTTGGAAGTTTG-GGGTAAAAATGTGATTTTTAAGTA-GGTCG-GGGCA
23234241 AAAATGTGATTTTTGAAAGTTCGA
63 AAAATGTGATTTTTGAAAGTTCGA
*
23234265 GGGTAAAAATGTAATTTTTGAGAAGTTTAGGGGTAAAAATGTAATTTT
1 GGGTAAAAATGTAATTTTTG-GAAGTTT-GGGGTAAAAATGTGATTTT
23234313 GGAAAAGTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
85 1 0.01
86 6 0.05
87 69 0.58
88 42 0.35
89 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.36
Consensus pattern (86 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTGGGGTAAAAATGTGATTTTTAAGTAGGTCGGGGCAAAA
ATGTGATTTTTGAAAGTTCGA
Found at i:23234351 original size:60 final size:59
Alignment explanation
Indices: 23234046--23234356 Score: 167
Period size: 58 Copynumber: 5.3 Consensus size: 59
23234036 AAAAATGAAG
* * * ** * * *
23234046 TTTTGGAG-AGTTC-GGGGTTAAAATATAATTTTGGAAAGTTTTAGGGGTAAAATTGTTA
1 TTTTAGAGAAGTTCAGGGGTAAAAATGTAATTTTGGAAAGTTCGA-GGGTAAAAATATAA
* * * * * *
23234104 TTTTAG-GAGAGTTCGGGGGTAAAAATGTGATTTT-TAAGTAGTTCG-GGGCAAAAATGTGA
1 TTTTAGAGA-AGTTCAGGGGTAAAAATGTAATTTTGGAA--AGTTCGAGGGTAAAAATATAA
* * * * **
23234163 TTTTTG-GAAGTTC-GAGGGTAAAAATGTAATTTTTGG-AAGTTTGCGGGTAAAAATGTGG
1 TTTTAGAGAAGTTCAG-GGGTAAAAATGTAA-TTTTGGAAAGTTCGAGGGTAAAAATATAA
** * * * * *
23234221 TTTT-TTGATGGTC-GAGGGTAAAAATGTGATTTTTGAAAGTTCGAGGGTAAAAATGTAA
1 TTTTAGAGAAGTTCAG-GGGTAAAAATGTAATTTTGGAAAGTTCGAGGGTAAAAATATAA
* * ** * *
23234279 TTTTTGAGAAGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATGA
1 TTTTAGAGAAGTTCAGGGGTAAAAATGTAATTTTGG-AAAGTTCGAGGGTAAAAATATAA
23234339 TTTCTAGA-AAGTTCAGGG
1 TTT-TAGAGAAGTTCAGGG
23234357 ACCTTCTGGA
Statistics
Matches: 199, Mismatches: 39, Indels: 28
0.75 0.15 0.11
Matches are distributed among these distances:
57 12 0.06
58 81 0.41
59 52 0.26
60 47 0.24
61 7 0.04
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.36
Consensus pattern (59 bp):
TTTTAGAGAAGTTCAGGGGTAAAAATGTAATTTTGGAAAGTTCGAGGGTAAAAATATAA
Found at i:23235415 original size:21 final size:20
Alignment explanation
Indices: 23235390--23235436 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
23235380 AATCTCCTCT
* *
23235390 TTTATTTATTATTATTATTA
1 TTTATTTAATATTATAATTA
23235410 TATTATTTAATATTATAATTA
1 T-TTATTTAATATTATAATTA
23235431 TTTATT
1 TTTATT
23235437 ATAAAACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATTTAATATTATAATTA
Found at i:23235432 original size:16 final size:15
Alignment explanation
Indices: 23235392--23235434 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23235382 TCTCCTCTTT
*
23235392 TATT-TATTA-TTAT
1 TATTATATTATTTAA
23235405 TATTATATTATTTAA
1 TATTATATTATTTAA
23235420 TATTATAATTATTTA
1 TATTAT-ATTATTTA
23235435 TTATAAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 5 0.19
15 9 0.35
16 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATATTATTTAA
Found at i:23236130 original size:17 final size:17
Alignment explanation
Indices: 23236108--23236197 Score: 94
Period size: 17 Copynumber: 5.4 Consensus size: 17
23236098 ACTTTGATAT
23236108 TTTAAATTCAAAATAAA
1 TTTAAATTCAAAATAAA
* *
23236125 TTTAAACTC-AACTAAA
1 TTTAAATTCAAAATAAA
* *
23236141 TTTAAATTTAAGATAAA
1 TTTAAATTCAAAATAAA
* *
23236158 TTTAAACTT-AAGATGAA
1 TTTAAA-TTCAAAATAAA
*
23236175 TTTAAATTTAAAATAAA
1 TTTAAATTCAAAATAAA
23236192 TTTAAA
1 TTTAAA
23236198 AATGGGTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 15 0.25
17 44 0.72
18 2 0.03
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTAAATTCAAAATAAA
Found at i:23240193 original size:28 final size:29
Alignment explanation
Indices: 23240109--23240193 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 29
23240099 GAAATATTTT
* *
23240109 TATTATGTACTTTG-AATTTGTTTAATAA
1 TATTTTGTACTTTGAAATTTATTTAATAA
** * ** *
23240137 TAAATTGTATTTGTGAAGCTTATTGAATAA
1 TATTTTGTACTT-TGAAATTTATTTAATAA
23240167 TATTTTGTA-TTTGAAATTTATTTAATA
1 TATTTTGTACTTTGAAATTTATTTAATA
23240194 TCATTATTTG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
28 21 0.50
29 4 0.10
30 17 0.40
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (29 bp):
TATTTTGTACTTTGAAATTTATTTAATAA
Found at i:23240672 original size:24 final size:24
Alignment explanation
Indices: 23240610--23240664 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
23240600 CGAAGAAACA
23240610 AAAAGGGAAAACTTTTAGAGTAAC
1 AAAAGGGAAAACTTTTAGAGTAAC
23240634 AAAAGGGAAAACTTTTAGAGTAAC
1 AAAAGGGAAAACTTTTAGAGTAAC
23240658 AAAAGGG
1 AAAAGGG
23240665 GAAGCTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (24 bp):
AAAAGGGAAAACTTTTAGAGTAAC
Found at i:23249332 original size:30 final size:30
Alignment explanation
Indices: 23249259--23249613 Score: 211
Period size: 29 Copynumber: 12.1 Consensus size: 30
23249249 CATAGTATTG
** * *
23249259 GAAAGTTTTAGGGGTAAAAATGTCATTTTGG
1 GAAAGTTCGAGGGGTAAAAATGTAATTTT-T
* *
23249290 GAAAGTT--TGGGGTAAAAATGTGATTTTT
1 GAAAGTTCGAGGGGTAAAAATGTAATTTTT
* *
23249318 GAAAGTTCGAGGGGTCAAAATGTGATTTTT
1 GAAAGTTCGAGGGGTAAAAATGTAATTTTT
* ** * *
23249348 GGAAGCCCGA-GAGAAAAAATGTAATTTTT
1 GAAAGTTCGAGGGGTAAAAATGTAATTTTT
* *
23249377 GAGAAGTTTGA-GGGT-AGAATGTAATTTTT
1 GA-AAGTTCGAGGGGTAAAAATGTAATTTTT
* * *
23249406 GAAAGTT-TAGGGGTCAAAATGTGATTTTT
1 GAAAGTTCGAGGGGTAAAAATGTAATTTTT
* * *
23249435 GGAAGTTTGA-GGGCAAAAATGTAATTTTT
1 GAAAGTTCGAGGGGTAAAAATGTAATTTTT
* * *
23249464 GAGAAGTTC-AAGAGT-AAAATGTAAATTTT
1 GA-AAGTTCGAGGGGTAAAAATGTAATTTTT
* * * * *
23249493 GGAACTT--TGGGGCAAAAATATAATTTTT
1 GAAAGTTCGAGGGGTAAAAATGTAATTTTT
* *
23249521 GAGAAGTT-TAGGGGT-AAAATATAATTTTT
1 GA-AAGTTCGAGGGGTAAAAATGTAATTTTT
* * * *
23249550 AAGAAGTTCGA-GGGTCAAAATATAATTTTG
1 GA-AAGTTCGAGGGGTAAAAATGTAATTTTT
*
23249580 GAAAAG-TCTGA-GGGTTAAAATGTAATTTTT
1 G-AAAGTTC-GAGGGGTAAAAATGTAATTTTT
23249610 GAAA
1 GAAA
23249614 TGTTTAGGGT
Statistics
Matches: 258, Mismatches: 51, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
27 3 0.01
28 33 0.13
29 133 0.52
30 81 0.31
31 8 0.03
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (30 bp):
GAAAGTTCGAGGGGTAAAAATGTAATTTTT
Found at i:23249457 original size:87 final size:86
Alignment explanation
Indices: 23249256--23249629 Score: 299
Period size: 87 Copynumber: 4.2 Consensus size: 86
23249246 AAACATAGTA
* * * * *
23249256 TTGGAAAGTTTTAGGGGTAAAAATGTCA-TTTTGGGAAAGTTTG-GGGTAAAAATGTGATTTTTG
1 TTGG-AAG-TTTA-GGGCAAAAATGTAATTTTTGAG-AAGTTCGAGGGTAAAAATGTAATTTTTG
* *
23249319 AAAGTTCGAGGGGTCAAAATGTGATTT
62 AAAGTT--TGGGGTCAAAATGTAATTT
*** * * * *
23249346 TTGGAAGCCCGAGAGAAAAAATGTAATTTTTGAGAAGTTTGAGGGT-AGAATGTAATTTTTGAAA
1 TTGGAAG-TTTAGGGCAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATGTAATTTTTGAAA
*
23249410 GTTTAGGGGTCAAAATGTGATTT
65 GTTT-GGGGTCAAAATGTAATTT
* * * *
23249433 TTGGAAGTTTGAGGGCAAAAATGTAATTTTTGAGAAGTTCAAGAGT-AAAATGTAAATTTTGGAA
1 TTGGAAGTTT-AGGGCAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATGTAATTTTTGAAA
* *
23249497 CTTTGGGG-CAAAAATATAATTT
65 GTTTGGGGTC-AAAATGTAATTT
** * * * * *
23249519 TTGAGAAGTTTAGGGGTAAAATATAATTTTTAAGAAGTTCGAGGGTCAAAATATAATTTTGGAAA
1 TTG-GAAGTTTAGGGCAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATGTAATTTTTG-AA
* *
23249584 AGTCTGAGGGTTAAAATGTAATTT
64 AGTTTG-GGGTCAAAATGTAATTT
*
23249608 TTGAAATGTTTAGGGTCAAAAA
1 TTGGAA-GTTTAGGG-CAAAAA
23249630 ATGATTTTTG
Statistics
Matches: 230, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
85 1 0.00
86 46 0.20
87 92 0.40
88 44 0.19
89 39 0.17
90 8 0.03
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (86 bp):
TTGGAAGTTTAGGGCAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATGTAATTTTTGAAAG
TTTGGGGTCAAAATGTAATTT
Found at i:23249651 original size:29 final size:28
Alignment explanation
Indices: 23249507--23249651 Score: 91
Period size: 29 Copynumber: 4.9 Consensus size: 28
23249497 CTTTGGGGCA
*
23249507 AAAATATAATTTTT-GAGAAGTTTAGGGGT-
1 AAAATAT-ATTTTTGGA-AAGTTCA-GGGTC
*
23249536 AAAATATAATTTTT-AAGAAGTTCGAGGGTC
1 AAAATAT-ATTTTTGGA-AAGTTC-AGGGTC
* * *
23249566 AAAATATAATTTTGGAAAAGTCTGAGGGTT
1 AAAATATATTTTTGG-AAAGT-TCAGGGTC
* *
23249596 AAAATGTAATTTTT-GAAATGTTTAGGGTC
1 AAAATAT-ATTTTTGGAAA-GTTCAGGGTC
*
23249625 AAAAAATGATTTTTGGAAAGTTCAGGG
1 AAAATAT-ATTTTTGGAAAGTTCAGGG
23249652 ACCTTCTAAG
Statistics
Matches: 94, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
29 57 0.61
30 30 0.32
31 7 0.07
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (28 bp):
AAAATATATTTTTGGAAAGTTCAGGGTC
Found at i:23250103 original size:36 final size:35
Alignment explanation
Indices: 23250054--23250132 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 35
23250044 TGAAACAATG
*
23250054 TCGTTTTGGCCTCAAAGTTTTGACACTAAAACGAC
1 TCGTTTTGGCCTCAAAGTTTTGACACCAAAACGAC
*
23250089 GTTGTTTTGGCCTCAAAGTTTTGACACCAAAACGAC
1 -TCGTTTTGGCCTCAAAGTTTTGACACCAAAACGAC
23250125 TCGTTTTG
1 TCGTTTTG
23250133 ATGTGTGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 7 0.17
36 33 0.82
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (35 bp):
TCGTTTTGGCCTCAAAGTTTTGACACCAAAACGAC
Found at i:23250786 original size:13 final size:12
Alignment explanation
Indices: 23250760--23250807 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
23250750 AATTTCTCTT
23250760 TATTATTATTAA
1 TATTATTATTAA
23250772 TATTATTATTTAA
1 TATTATTA-TTAA
*
23250785 TATTATAATTATA
1 TATTATTATTA-A
23250798 TATTTATTAT
1 TA-TTATTAT
23250808 GAAACTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.35
13 14 0.45
14 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:23251406 original size:21 final size:21
Alignment explanation
Indices: 23251380--23251431 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
23251370 TTGGACTTGG
23251380 TTTGTAATTTTGGACTTTAAA
1 TTTGTAATTTTGGACTTTAAA
*
23251401 TTTGTAATTTTGGACTTTTAA
1 TTTGTAATTTTGGACTTTAAA
23251422 TTTG-AATTTT
1 TTTGTAATTTT
23251432 AAATTTAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.58
Consensus pattern (21 bp):
TTTGTAATTTTGGACTTTAAA
Found at i:23251438 original size:6 final size:6
Alignment explanation
Indices: 23251429--23251521 Score: 57
Period size: 6 Copynumber: 15.8 Consensus size: 6
23251419 TAATTTGAAT
* * * *
23251429 TTTAAA TTTAAA CTCAAA -ATAAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** * * *
23251475 CTCAAA AATAAA TTTAAA TTTAAA -ATAGA TTAAAA TTTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAA
23251522 TGTTGGGTTC
Statistics
Matches: 63, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
5 10 0.16
6 48 0.76
7 5 0.08
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:23251474 original size:23 final size:24
Alignment explanation
Indices: 23251420--23251474 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
23251410 TTGGACTTTT
* *
23251420 AATTTGAATTTTAAATTTAAACTCA
1 AATTT-AAATTTAAATTTAAAATCA
*
23251445 AA-ATAAATTTAAATTTAAAAT-A
1 AATTTAAATTTAAATTTAAAATCA
23251467 AATTTAAA
1 AATTTAAA
23251475 CTCAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.12
23 19 0.76
24 1 0.04
25 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
AATTTAAATTTAAATTTAAAATCA
Found at i:23251492 original size:35 final size:34
Alignment explanation
Indices: 23251431--23251501 Score: 133
Period size: 35 Copynumber: 2.1 Consensus size: 34
23251421 ATTTGAATTT
23251431 TAAATTTAAACTCAAAATAAATTTAAATTTAAAA
1 TAAATTTAAACTCAAAATAAATTTAAATTTAAAA
23251465 TAAATTTAAACTCAAAAATAAATTTAAATTTAAAA
1 TAAATTTAAACTC-AAAATAAATTTAAATTTAAAA
23251500 TA
1 TA
23251502 GATTAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 13 0.36
35 23 0.64
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (34 bp):
TAAATTTAAACTCAAAATAAATTTAAATTTAAAA
Found at i:23251499 original size:17 final size:17
Alignment explanation
Indices: 23251431--23251517 Score: 102
Period size: 17 Copynumber: 5.1 Consensus size: 17
23251421 ATTTGAATTT
* *
23251431 TAAATTTAAACTCAAAA
1 TAAATTTAAATTTAAAA
23251448 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
**
23251465 TAAATTTAAACTCAAAAA
1 TAAATTTAAA-TTTAAAA
23251483 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* * *
23251500 TAGATTAAAATTTTAAA
1 TAAATTTAAATTTAAAA
23251517 T
1 T
23251518 TTAATGTTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
17 45 0.75
18 15 0.25
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:23252024 original size:39 final size:39
Alignment explanation
Indices: 23251981--23252448 Score: 262
Period size: 39 Copynumber: 12.1 Consensus size: 39
23251971 GGTTGCAATA
23251981 TGCCCCTA-GCTCGGGGTAAGAGATTGATTGATGGTGATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTGA-TGATGGTGATC
* * *
23252020 TGCCCC-AAGCTCGGGGTAAGAGATCGA--ATGGCTGCAATA
1 TGCCCCTAGGCTCGGGGTAAGAGATTGATGATGG-TG--ATC
* * * * **
23252059 TACCTC-AGGCTCGGGGTAAGAGATCGAATGATTGCAATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTG-ATGATGGTGATC
* * * *
23252098 T-ACCTTAGGCTCGGGGTAAGAGATAGGCTGATGGTGATC
1 TGCCCCTAGGCTCGGGGTAAGAGAT-TGATGATGGTGATC
*
23252137 TGCCCC-AGGCTCGGGGTAAGAGATCGA--ATGGCTGTAATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTGATGATGG-TG--ATC
* * * *
23252176 TGCCCC-AAGCTCGAGGTAAGAGATTGGCTGATAGTGATC
1 TGCCCCTAGGCTCGGGGTAAGAGATT-GATGATGGTGATC
* * * *
23252215 TACTCC-AAGCTCGGGGTAAGAGA-TCA-GATGGCTGCAATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTGATGATGG-TG--ATC
* * *
23252254 T-ACCCTAGGCTCGGGGTAAGAGGTTGACTGATGGTAATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTGA-TGATGGTGATC
* * * *
23252293 TG-CCCTAAGCTCGAGGTAAGAGA-TCA-GATGCTGCAATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTGATGATGGTG--ATC
*
23252331 TG-CCCTAGGCTCGGGGTAAGAGATTGACTAATGGTGATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTGA-TGATGGTGATC
* *
23252370 TGCCCC-AGGCTCGGGGTAAAAGATCG--GATGGCTGCAATC
1 TGCCCCTAGGCTCGGGGTAAGAGATTGATGATGG-TG--ATC
* * * *
23252409 TGTCCC-AAGCTCGAGGTAAG-GATTGGTTGATGGTGATC
1 TGCCCCTAGGCTCGGGGTAAGAGATT-GATGATGGTGATC
23252447 TG
1 TG
23252449 TTCGAGAGTC
Statistics
Matches: 336, Mismatches: 57, Indels: 73
0.72 0.12 0.16
Matches are distributed among these distances:
36 21 0.06
37 8 0.02
38 40 0.12
39 231 0.69
40 12 0.04
41 13 0.04
42 11 0.03
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (39 bp):
TGCCCCTAGGCTCGGGGTAAGAGATTGATGATGGTGATC
Found at i:23252146 original size:78 final size:78
Alignment explanation
Indices: 23252064--23252566 Score: 507
Period size: 78 Copynumber: 6.5 Consensus size: 78
23252054 CAATATACCT
** * ** * *
23252064 CAGGCTCGGGGTAAGAGATCGAATGATTGCAATCTACCTTAGGCTCGGGGTAAGAGATAGGCTGA
1 CAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA
23252129 TGGTGATCTGCCC
66 TGGTGATCTGCCC
* *
23252142 CAGGCTCGGGGTAAGAGATCGAATGGCTGTAATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGA
1 CAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA
* * *
23252207 TAGTGATCTACTC
66 TGGTGATCTGCCC
* * * * * *
23252220 CAAGCTCGGGGTAAGAGATC-AGATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGGTTGACTG
1 CAGGCTCGGGGTAAGAGATCGA-ATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTG
*
23252284 ATGGTAATCTGCCC
65 ATGGTGATCTGCCC
* * * * * * *
23252298 TAAGCTCGAGGTAAGAGATC-AGAT-GCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGACTA
1 CAGGCTCGGGGTAAGAGATCGA-ATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTG
23252361 ATGGTGATCTGCCC
65 ATGGTGATCTGCCC
* * * * *
23252375 CAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGTCCCAAGCTCGAGGTAAG-GATTGGTTGA
1 CAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA
**
23252439 TGGTGATCTGTTC
66 TGGTGATCTGCCC
* * * * * * * * *
23252452 GAGAG-TCGAGATAAAAGATCGAATGGTTGCAATCTGCCTCAGGCTCGAGGTAAGTGATTAGTTG
1 CAG-GCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTG
* *
23252516 ATGGTGATCTGTCT
65 ATGGTGATCTGCCC
* * *
23252530 CAGGCTCGAGGTAAAAGATCGAAT--CTTCAATCTGCCC
1 CAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCC
23252567 TTCTTAATTA
Statistics
Matches: 359, Mismatches: 60, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
76 10 0.03
77 131 0.36
78 218 0.61
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (78 bp):
CAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA
TGGTGATCTGCCC
Found at i:23252162 original size:117 final size:116
Alignment explanation
Indices: 23251989--23252428 Score: 462
Period size: 117 Copynumber: 3.8 Consensus size: 116
23251979 TATGCCCCTA
* *
23251989 GCTCGGGGTAAGAGATTGATTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTG
1 GCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTG
* * * *
23252054 CAATATACCTCAGGCTCGGGGTAAGAGATCGAATGATTGCAATCTACCTTAG
66 CAATCTGCC-CAAGCTCGAGGTAAGAGATCGAATGATTGCAATCTACCTTAG
* *
23252106 GCTCGGGGTAAGAGATAGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTG
1 GCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTG
* * ** * ** * *
23252171 TAATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATAGTGATCTA-CTCCAA
66 CAATCTG-CCCAAGCTCGAGGTAAGAGATCGAATGATTGCAATCTACCT-TAG
* * * * * *
23252223 GCTCGGGGTAAGAGA-T--CAGATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGGTTGACT-G
1 GCTCGGGGTAAGAGATTGACTGATGG-TG--ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGG
* * * * *
23252284 ATGGTAATCTGCCCTAAGCTCGAGGTAAGAGATC-AGATG-CTGCAATCTGCCCTAG
63 CT-GCAATCTGCCC-AAGCTCGAGGTAAGAGATCGA-ATGATTGCAATCTACCTTAG
* * *
23252339 GCTCGGGGTAAGAGATTGACTAATGGTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTG
1 GCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTG
23252404 CAATCTGTCCCAAGCTCGAGGTAAG
66 CAATCTG-CCCAAGCTCGAGGTAAG
23252429 GATTGGTTGA
Statistics
Matches: 262, Mismatches: 47, Indels: 29
0.78 0.14 0.09
Matches are distributed among these distances:
114 6 0.02
115 2 0.01
116 74 0.28
117 171 0.65
118 4 0.02
119 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (116 bp):
GCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTG
CAATCTGCCCAAGCTCGAGGTAAGAGATCGAATGATTGCAATCTACCTTAG
Found at i:23252406 original size:155 final size:156
Alignment explanation
Indices: 23252064--23252550 Score: 529
Period size: 155 Copynumber: 3.1 Consensus size: 156
23252054 CAATATACCT
* * ** * *
23252064 CAGGCTCGGGGTAAGAGATCGAATGATTGCAATCTACCTTAGGCTCGGGGTAAGAGATAGGCTGA
1 CAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGA
* * * * *
23252129 TGGTGATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGTAATCTGCCCCAAGCTCGAGGTA
66 TGGTGATCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTA
* * * *
23252194 AGAGATTGGCTGATAGTGATCTACTC
131 AGAGATTGACTGATGGTGATCTGCCC
* * * * *
23252220 CAAGCTCGGGGTAAGAGATCAGATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGGTTGACTGA
1 CAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGA
* * *
23252285 TGGTAATCTGCCCTAAGCTCGAGGTAAGAGATC-AGAT-GCTGCAATCTGCCCTAGGCTCGGGGT
66 TGGTGATCTGCCCCAAGCTCGAGGTAAGAGATCGA-ATGGCTGCAATCTGCCCTAGGCTCGAGGT
*
23252348 AAGAGATTGACTAATGGTGATCTGCCC
130 AAGAGATTGACTGATGGTGATCTGCCC
* * * *
23252375 CAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGTCCC-AAGCTCGAGGTAAG-GATTGGTTG
1 CAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCT-ACCCTAGGCTCGGGGTAAGAGATTGGCTG
** * * * *
23252438 ATGGTGATCTGTTCGAGAG-TCGAGATAAAAGATCGAATGGTTGCAATCTG-CCTCAGGCTCGAG
65 ATGGTGATCTGCCCCA-AGCTCGAGGTAAGAGATCGAATGGCTGCAATCTGCCCT-AGGCTCGAG
* * * *
23252501 GTAAGTGATT-AGTTGATGGTGATCTGTCT
128 GTAAGAGATTGA-CTGATGGTGATCTGCCC
*
23252530 CAGGCTCGAGGTAAAAGATCG
1 CAGGCTCGGGGTAAAAGATCG
23252551 AATCTTCAAT
Statistics
Matches: 279, Mismatches: 45, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
154 37 0.13
155 152 0.54
156 90 0.32
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (156 bp):
CAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGA
TGGTGATCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTA
AGAGATTGACTGATGGTGATCTGCCC
Found at i:23252591 original size:39 final size:38
Alignment explanation
Indices: 23252544--23252622 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
23252534 CTCGAGGTAA
* *
23252544 AAGATCGAATCTTCAATCTGCCCTTCTTAATTAAGGGT
1 AAGATCGAATCTTCAATCTACCCTTCTTAACTAAGGGT
* *
23252582 AAGACTCGAATCTTTAATCTACCCTTCTTGACTAAGGGT
1 AAGA-TCGAATCTTCAATCTACCCTTCTTAACTAAGGGT
23252621 AA
1 AA
23252623 AAGACTGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 4 0.11
39 32 0.89
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (38 bp):
AAGATCGAATCTTCAATCTACCCTTCTTAACTAAGGGT
Found at i:23252930 original size:49 final size:49
Alignment explanation
Indices: 23252870--23253506 Score: 613
Period size: 49 Copynumber: 12.9 Consensus size: 49
23252860 TGTTTTCTAA
* * *
23252870 GGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTAAAATCTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * *
23252919 GGTACCGGGTTCGCCATTACGGCCTCAACCTTTCCCATCACAT-TTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* ** * * *
23252967 GGTATCGAATTTGCCGTTGCGGCCTCAATCTTTCCCATCACATCTTC-T
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* **
23253015 GAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCAT
1 --GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * * * *
23253066 GGTACCAGGTTCACCGTTGTGGCTTCAACCTTTCCCATCACATCTTCTAA
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTC-AT
** * * * **
23253116 GGTACCGAATTTGCCATCGCGGCCTCAATCC-TT-CCTATTGCATCTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCT-TCACATCTTCAT
* *
23253165 GGTACCGGGTTCGCCGTTGTGGCCTCAACCCTTCCCTTCATC-TCTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA-CATCTTCAT
* * *
23253214 GGTATCGGGTTCGCCATTGCGGCCTCAACCCTTCCCTTCATC-TCTTCAT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCA-CATCTTCAT
* * * * **
23253263 GGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATCAAATCTTTTT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* ** **
23253312 AGGTACTGGGTTTACCGTTGCACCCTCAACCTTTCCCTT-ACATCTTCAT
1 -GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * *
23253361 GGTACCGGGTTCGCCGTTGCGGTCTCAACCTTTCCCATCACATCTTCTT
1 GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * * **
23253410 AGGTATCGGGTTCACCGTTGCAGCCTCAACCTTTCCCATCACATCTTTTT
1 -GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
** * * *
23253460 AGGTATTGGATTCGCCATTGCAGCCTCAACCTTTCCCTTCACATCTT
1 -GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTT
23253507 TTAAGGTGCC
Statistics
Matches: 484, Mismatches: 90, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
48 75 0.15
49 215 0.44
50 191 0.39
51 3 0.01
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (49 bp):
GGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATCTTCAT
Found at i:23253237 original size:197 final size:195
Alignment explanation
Indices: 23252877--23253513 Score: 681
Period size: 197 Copynumber: 3.2 Consensus size: 195
23252867 TAAGGTATCG
* * * * *
23252877 GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTAAAATCTTC-ATGGTACCGGGTTCGCCATTACGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCTAAGGTACCGGGTTTGCCATTGCGG
* * ** * *
23252941 CCTCAACCTTTCCCATCACAT-TTCATGGTATCGAATTTGCCGTTGCGGCCTCAATCTTTCCCAT
66 CCTCAACCTTT-CCATTACATCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCAT
* * *
23253005 CACATCTTCTGAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCATGGTA
130 CACATCTTCT-AGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTA
23253070 CC
194 CC
* * * * ** *
23253072 AGGTTCACCGTTGTGGCTTCAACCTTTCCCATCACATCTTCTAAGGTACCGAATTTGCCATCGCG
1 -GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCTAAGGTACCGGGTTTGCCATTGCG
* * *
23253137 GCCTCAATCC-TTCCTATTGCATCTTCATGGTACCGGGTTCGCCGTTGTGGCCTCAACCCTTCCC
65 GCCTCAA-CCTTTCC-ATTACATCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCC
* * * *
23253201 TTCATC-TCTTC-ATGGTATCGGGTTCGCCATTGCGGCCTCAACCCTTCCCTTCATCTCTTCATG
128 ATCA-CATCTTCTA-GGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATG
23253264 GTACC
191 GTACC
* * * * * * *
23253269 GAGTTCGCCGTTGCGACCTCAACCTTTCCCATCAAATCTTTTTAGGTACTGGGTTTACCGTTGCA
1 G-GTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCTAAGGTACCGGGTTTGCCATTGCG
* * *
23253334 CCCTCAACCTTTCCCTTACATCTTCATGGTACCGGGTTCGCCGTTGCGGTCTCAACCTTTCCCAT
65 GCCTCAACCTTTCCATTACATCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCAT
* * * * **
23253399 CACATCTTCTTAGGTATCGGGTTCACCGTTGCAGCCTCAACCTTTCCCATCACATCTTTTTAGGT
130 CACATCTTC-TAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT-GGT
**
23253464 ATT
193 ACC
* * * * *
23253467 GGATTCGCCATTGCAGCCTCAACCTTTCCCTTCACATCTTTTAAGGT
1 GG-TTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCTAAGGT
23253514 GCCAAATTCG
Statistics
Matches: 362, Mismatches: 66, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
195 1 0.00
196 92 0.25
197 180 0.50
198 88 0.24
199 1 0.00
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (195 bp):
GGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCTAAGGTACCGGGTTTGCCATTGCGG
CCTCAACCTTTCCATTACATCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATC
ACATCTTCTAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACC
Found at i:23253443 original size:148 final size:147
Alignment explanation
Indices: 23252864--23253506 Score: 704
Period size: 148 Copynumber: 4.3 Consensus size: 147
23252854 CTATCTTGTT
* * *
23252864 TTCTAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTAAAATCTTCATGGTACCGGGT
1 TTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTT-ACATCTTCATGGTACCGGGT
* * *
23252929 TCGCCATTACGGCCTCAACCTTTCCCATCACAT-TTCATGGTATCGAATTTGCCGTTGCGGCCTC
65 TCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCATGGTACCGAATTCGCCGTTGCGGCCTC
*
23252993 AATCTTTCCCATCACATC
130 AACCTTTCCCATCACATC
* * *
23253011 TTCTGAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTT-CGTATCTTCATGGTACCAGG
1 TTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTAC--ATCTTCATGGTACCGGG
* * * * * * * *
23253075 TTCACCGTTGTGGCTTCAACCTTTCCCATCACATCTTCTAAGGTACCGAATTTGCCATCGCGGCC
64 TTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTC-ATGGTACCGAATTCGCCGTTGCGGCC
* **
23253140 TCAATCC-TTCCTATTGCATC
128 TCAA-CCTTTCCCATCACATC
* * * *
23253160 TTCAT-GGTACCGGGTTCGCCGTTGTGGCCTCAACCCTTCCCTT-CATCTCTTCATGGTATCGGG
1 TTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTACA--TCTTCATGGTACCGGG
* * * *
23253223 TTCGCCATTGCGGCCTCAACCCTTCCCTTCATC-TCTTCATGGTACCGAGTTCGCCGTTGCGACC
64 TTCGCCATTGCGGCCTCAACCTTTCCCATCA-CATCTTCATGGTACCGAATTCGCCGTTGCGGCC
*
23253287 TCAACCTTTCCCATCAAATC
128 TCAACCTTTCCCATCACATC
* * ** **
23253307 TTTTTAGGTACTGGGTTTACCGTTGCACCCTCAACCTTTCCCTTACATCTTCATGGTACCGGGTT
1 TTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTACATCTTCATGGTACCGGGTT
* * * * ** * *
23253372 CGCCGTTGCGGTCTCAACCTTTCCCATCACATCTTCTTAGGTATCGGGTTCACCGTTGCAGCCTC
66 CGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCAT-GGTACCGAATTCGCCGTTGCGGCCTC
23253437 AACCTTTCCCATCACATC
130 AACCTTTCCCATCACATC
* ** * * *
23253455 TTTTTAGGTATTGGATTCGCCATTGCAGCCTCAACCTTTCCCTTCACATCTT
1 TTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTT-ACATCTT
23253507 TTAAGGTGCC
Statistics
Matches: 414, Mismatches: 68, Indels: 26
0.81 0.13 0.05
Matches are distributed among these distances:
146 4 0.01
147 170 0.41
148 190 0.46
149 49 0.12
150 1 0.00
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (147 bp):
TTCTTAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTACATCTTCATGGTACCGGGTT
CGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCATGGTACCGAATTCGCCGTTGCGGCCTCA
ACCTTTCCCATCACATC
Found at i:23255897 original size:21 final size:21
Alignment explanation
Indices: 23255873--23255917 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
23255863 TTGGGCTTGG
*
23255873 TTTGTAATTTTGGACTTTTAA
1 TTTGTAATTTTGAACTTTTAA
23255894 TTTGTAATTTTGAACTTTTAA
1 TTTGTAATTTTGAACTTTTAA
23255915 TTT
1 TTT
23255918 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.60
Consensus pattern (21 bp):
TTTGTAATTTTGAACTTTTAA
Found at i:23261841 original size:17 final size:17
Alignment explanation
Indices: 23261819--23261857 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23261809 AGGTGGAGAA
* * *
23261819 CTTGTTCGTTGAGAGTT
1 CTTGTTCATAGAGAATT
23261836 CTTGTTCATAGAGAATT
1 CTTGTTCATAGAGAATT
23261853 CTTGT
1 CTTGT
23261858 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (17 bp):
CTTGTTCATAGAGAATT
Found at i:23263019 original size:59 final size:58
Alignment explanation
Indices: 23262934--23263285 Score: 318
Period size: 59 Copynumber: 5.9 Consensus size: 58
23262924 TTAAAATTTG
*
23262934 AATTTTTGGAAAGTTTGGGGTCAAATTGGAATTTTTGGAAAGTTCGAGGGTCAAATTCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGGAATTTTTGGAAAGTTTG-GGGTCAAATTCA
* * * *
23262993 AATTTTTGGAAAGTTTGGGGTCAAATT-CAATTTTTTGGAAAATTTGAGGGCCAAATGCA
1 AATTTTTGGAAAGTTTGGGGTCAAATTGGAA-TTTTTGGAAAGTTTG-GGGTCAAATTCA
** ** *
23263052 AATTTTT-GAAAGGCTCAGGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTA
1 AATTTTTGGAAA-G-TTTGGGGTCAAATTGGAATTTTTGGAAAGTTTGGGGTCAAATTCA
** * * *
23263111 AATTTTTAAAAAGTTTGAGGGTAAAATTTGG-ATTTTTGGAAAATTTGGGGGCCAAATGT-A
1 AATTTTTGGAAAGTTTG-GGGTCAAA-TTGGAATTTTTGGAAAGTTT-GGGGTCAAAT-TCA
* ** ** *
23263171 AATTTTTGGAAGGCTCAGGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTA
1 AATTTTTGGAAAG-TTTGGGGTCAAATTGGAATTTTTGGAAAGTTTGGGGTCAAATTCA
** * * *
23263230 AATTTTTAAAAAGTTTGAAGGTAAAATTTGG-ATTTTTGGAAAATTTGGTGGTCAAA
1 AATTTTTGGAAAGTTTG-GGGTCAAA-TTGGAATTTTTGGAAAGTTTGG-GGTCAAA
23263286 ACATAATTTT
Statistics
Matches: 238, Mismatches: 40, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
58 11 0.05
59 141 0.59
60 81 0.34
61 5 0.02
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (58 bp):
AATTTTTGGAAAGTTTGGGGTCAAATTGGAATTTTTGGAAAGTTTGGGGTCAAATTCA
Found at i:23263265 original size:89 final size:89
Alignment explanation
Indices: 23262934--23263285 Score: 354
Period size: 89 Copynumber: 4.0 Consensus size: 89
23262924 TTAAAATTTG
** * *
23262934 AATTTTTGGAAAGTTTG-GGGTCAAATTGGAATTTTTGGAAAGTTCGAGGGTCAAATTCAAATTT
1 AATTTTTGGAAAGTTTGAGGGTCAAATTTAAATTTTTGAAAAGTTTGAGGGTCAAATTCAAATTT
23262998 TTGGAAAGTTTGGGGTCAAATTCA
66 TTGGAAAGTTTGGGGTCAAATTCA
* * * ** ** *
23263022 ATTTTTTGGAAAATTTGAGGGCCAAATGCAAATTTTTG-AAAGGCTCAGGGGTCAAATTCAAATT
1 AATTTTTGGAAAGTTTGAGGGTCAAATTTAAATTTTTGAAAAGTTTGA-GGGTCAAATTCAAATT
*
23263086 TTTGGAAAGTTTGGGGTCAAATTTA
65 TTTGGAAAGTTTGGGGTCAAATTCA
** * ** * *
23263111 AATTTTTAAAAAGTTTGAGGGTAAAATTTGGATTTTTGGAAAA-TTTGGGGGCCAAATGT-AAAT
1 AATTTTTGGAAAGTTTGAGGGTCAAATTTAAATTTTT-GAAAAGTTTGAGGGTCAAAT-TCAAAT
* **
23263174 TTTTGGAAGGCTCAGGGGTCAAATTCA
64 TTTTGGAAAG-TTTGGGGTCAAATTCA
* * * ***
23263201 AATTTTTGGAAAGTTTG-GGGTCAAATTTAAATTTTTAAAAAGTTTGAAGGTAAAATTTGGATTT
1 AATTTTTGGAAAGTTTGAGGGTCAAATTTAAATTTTTGAAAAGTTTGAGGGTCAAATTCAAATTT
*
23263265 TTGGAAAATTTGGTGGTCAAA
66 TTGGAAAGTTTGG-GGTCAAA
23263286 ACATAATTTT
Statistics
Matches: 209, Mismatches: 46, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
88 28 0.13
89 147 0.70
90 31 0.15
91 3 0.01
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (89 bp):
AATTTTTGGAAAGTTTGAGGGTCAAATTTAAATTTTTGAAAAGTTTGAGGGTCAAATTCAAATTT
TTGGAAAGTTTGGGGTCAAATTCA
Found at i:23263277 original size:119 final size:119
Alignment explanation
Indices: 23262950--23263277 Score: 507
Period size: 119 Copynumber: 2.8 Consensus size: 119
23262940 TGGAAAGTTT
** * * **
23262950 GGGGTCAAATTGGAATTTTTGGAAAGTTCGAGGGTCAAATTCAAATTTTTGGAAAGTTTG-GGGT
1 GGGGTCAAATTCAAATTTTTGGAAAGTTTG-GGGTCAAATTTAAATTTTTAAAAAGTTTGAGGGT
* ** *
23263014 CAAA-TTCAATTTTTTGGAAAATTTGAGGGCCAAATGCAAATTTTTGAAAGGCTCA
65 AAAATTTGGA-TTTTTGGAAAATTTGGGGGCCAAATGCAAATTTTTGAAAGGCTCA
23263069 GGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTAAATTTTTAAAAAGTTTGAGGGTA
1 GGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTAAATTTTTAAAAAGTTTGAGGGTA
* *
23263134 AAATTTGGATTTTTGGAAAATTTGGGGGCCAAATGTAAATTTTTGGAAGGCTCA
66 AAATTTGGATTTTTGGAAAATTTGGGGGCCAAATGCAAATTTTTGAAAGGCTCA
*
23263188 GGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTAAATTTTTAAAAAGTTTGAAGGTA
1 GGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTAAATTTTTAAAAAGTTTGAGGGTA
23263253 AAATTTGGATTTTTGGAAAATTTGG
66 AAATTTGGATTTTTGGAAAATTTGG
23263278 TGGTCAAAAC
Statistics
Matches: 194, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
118 26 0.13
119 165 0.85
120 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (119 bp):
GGGGTCAAATTCAAATTTTTGGAAAGTTTGGGGTCAAATTTAAATTTTTAAAAAGTTTGAGGGTA
AAATTTGGATTTTTGGAAAATTTGGGGGCCAAATGCAAATTTTTGAAAGGCTCA
Found at i:23263588 original size:35 final size:35
Alignment explanation
Indices: 23263539--23263610 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
23263529 AGCAGGTCGA
*
23263539 ATCTTCGGCCTCAAAACAACGTCGTTTTGGAGCCT
1 ATCTTCGGCCTCAAAACAACGTCGTTTTGGAACCT
*
23263574 ATCTTCGGCGTCAAAACAACGTCGTTTTGGAACCT
1 ATCTTCGGCCTCAAAACAACGTCGTTTTGGAACCT
23263609 AT
1 AT
23263611 TGAGTTAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (35 bp):
ATCTTCGGCCTCAAAACAACGTCGTTTTGGAACCT
Found at i:23271782 original size:12 final size:12
Alignment explanation
Indices: 23271759--23271793 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23271749 ATTAACATTA
*
23271759 TTCGTTAACATG
1 TTCGTGAACATG
*
23271771 TTCTTGAACATG
1 TTCGTGAACATG
23271783 TTCGTGAACAT
1 TTCGTGAACAT
23271794 TAAATAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (12 bp):
TTCGTGAACATG
Found at i:23273823 original size:10 final size:10
Alignment explanation
Indices: 23273808--23273841 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23273798 CTACCATTAT
23273808 ATTTTTTTTA
1 ATTTTTTTTA
23273818 ATTTTTTTT-
1 ATTTTTTTTA
*
23273827 GTTTTTTTTA
1 ATTTTTTTTA
23273837 ATTTT
1 ATTTT
23273842 AAATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:23273913 original size:30 final size:27
Alignment explanation
Indices: 23273874--23273939 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
23273864 TTTTTGGTGG
*
23273874 GTTTTTTTAATTTTAAAATTATAAAAAAT
1 GTTTTTTTAAATTT-AAA-TATAAAAAAT
23273903 GTTTTATTTAAATTTAAATATAAAAAAT
1 GTTTT-TTTAAATTTAAATATAAAAAAT
* *
23273931 ATTATTTTA
1 GTTTTTTTA
23273940 TTTGGTGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.12
28 13 0.39
29 8 0.24
30 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
GTTTTTTTAAATTTAAATATAAAAAAT
Found at i:23278651 original size:49 final size:49
Alignment explanation
Indices: 23278498--23278668 Score: 121
Period size: 49 Copynumber: 3.4 Consensus size: 49
23278488 AGGTTCGCCA
* * * *
23278498 TTGCAACTTAAACCTTTTTCCCTTTGTATCTTCGTGGTACTAGATTCACCTT
1 TTGCTACTTAAACC--TTTCCCTTTGTACCTTCGAGGTACTAGATTCA-CTG
* * ** * * * * ** *
23278550 TGTGGT-CTTAAATCTTTCCC-TTCAAGCTTCTAAGGTACGAGGTTTGCCG
1 T-TGCTACTTAAACCTTTCCCTTTGTACCTTC-GAGGTACTAGATTCACTG
23278599 TTGCTACTTAAACCTTTCCCTTTGTACCTTCGAGGTACTAGATTCACTG
1 TTGCTACTTAAACCTTTCCCTTTGTACCTTCGAGGTACTAGATTCACTG
** *
23278648 TTGCGGCTTAAATCTTTCCCT
1 TTGCTACTTAAACCTTTCCCT
23278669 CCATGCTTAC
Statistics
Matches: 87, Mismatches: 28, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
48 3 0.03
49 52 0.60
50 22 0.25
52 8 0.09
53 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (49 bp):
TTGCTACTTAAACCTTTCCCTTTGTACCTTCGAGGTACTAGATTCACTG
Found at i:23278758 original size:50 final size:50
Alignment explanation
Indices: 23278704--23278863 Score: 141
Period size: 50 Copynumber: 3.2 Consensus size: 50
23278694 GACTTCAACC
23278704 TTTCCCTTTGTTATCTTCGTGGTACTAAATTCGCCGTTGCGGCTTAAATT
1 TTTCCCTTTGTTATCTTCGTGGTACTAAATTCGCCGTTGCGGCTTAAATT
* * * * * *
23278754 TTTCCC--T-TCATGCTTCTGAGGTAC-AAGGTTCGTCGTTGCGACTTAAACCT
1 TTTCCCTTTGTTAT-CTTC-GTGGTACTAA-ATTCGCCGTTGCGGCTTAAA-TT
*** ** *
23278804 TTT-CCTCCATTATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATC
1 TTTCCCTTTGTTATCTTCGTGGTACTAAATTCGCCGTTGCGGCTTAAATT
23278853 TTTCCCTTTGT
1 TTTCCCTTTGT
23278864 GGTAATGAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
47 3 0.04
48 7 0.09
49 28 0.34
50 37 0.45
51 4 0.05
52 3 0.04
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (50 bp):
TTTCCCTTTGTTATCTTCGTGGTACTAAATTCGCCGTTGCGGCTTAAATT
Found at i:23278820 original size:99 final size:99
Alignment explanation
Indices: 23278432--23278860 Score: 466
Period size: 99 Copynumber: 4.4 Consensus size: 99
23278422 TCAATCTGCA
* * * * ** *
23278432 TGGTACT-GAATTCACCTTTGCGACTTAAATTTTTCCCTTAATTTTTTTGAGGTACAAGGTTCGC
1 TGGTACTAG-ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGC
*
23278496 CATTGCAACTTAAACCTTTTTCCCTTTGTATCTTCG
65 CATTGCGACTTAAACC-TTTTCCCTTTGTATCTTCG
* * * * * *
23278532 TGGTACTAGATTCACCTTTGTGGTCTTAAATCTTTCCCTTCAAGCTTCTAAGGTACGAGGTTTGC
1 TGGTACTAGATTCACCGTTGCGG-CTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGC
* * *
23278597 CGTTGCTACTTAAACC-TTTCCCTTTGTACCTTCG
65 CATTGCGACTTAAACCTTTTCCCTTTGTATCTTCG
* * *
23278631 AGGTACTAGATTCACTGTTGCGGCTTAAATCTTTCCCTCCATG---CT----TACAAGGTTCGCC
1 TGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCC
*
23278689 ATTGCGACTTCAACC-TTTCCCTTTGTTATCTTCG
66 ATTGCGACTTAAACCTTTTCCCTTTG-TATCTTCG
* * * *
23278723 TGGTACTAAATTCGCCGTTGCGGCTTAAATTTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTC
1 TGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCC
* **
23278788 GTTGCGACTTAAACCTTTTCCTCCAT-TATCTTCG
66 ATTGCGACTTAAACCTTTTCC-CTTTGTATCTTCG
* *
23278822 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTT
1 TGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTT
23278861 TGTGGTAATG
Statistics
Matches: 277, Mismatches: 40, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
91 33 0.12
92 44 0.16
95 4 0.01
98 18 0.06
99 105 0.38
100 24 0.09
101 49 0.18
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (99 bp):
TGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCC
ATTGCGACTTAAACCTTTTCCCTTTGTATCTTCG
Found at i:23292463 original size:13 final size:13
Alignment explanation
Indices: 23292447--23292471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23292437 TTGTAATTGG
23292447 AAGATTTAATTTA
1 AAGATTTAATTTA
23292460 AAGATTTAATTT
1 AAGATTTAATTT
23292472 TTATTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
AAGATTTAATTTA
Found at i:23292685 original size:18 final size:16
Alignment explanation
Indices: 23292640--23292686 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
23292630 ATTTACAAGC
23292640 ATAAATAATAAAAACA
1 ATAAATAATAAAAACA
*
23292656 ATATATACATAAAATACA
1 ATAAATA-ATAAAA-ACA
23292674 ATAAAATAATAAA
1 AT-AAATAATAAA
23292687 TTAAGTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 6 0.23
18 10 0.38
19 4 0.15
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAATAATAAAAACA
Found at i:23292899 original size:30 final size:29
Alignment explanation
Indices: 23292865--23293104 Score: 178
Period size: 30 Copynumber: 8.1 Consensus size: 29
23292855 AACCGAGTTA
*
23292865 AAATTTGAATTTTTGGAAAGTTAAGGGGTC
1 AAATTTAAATTTTTGGAAAGTT-AGGGGTC
*
23292895 AAATTTGAATTTTTGGAAAGTTTA-GGGTC
1 AAATTTAAATTTTTGGAAAG-TTAGGGGTC
** * *
23292924 AAATTGGAATTTTTGAAAAGTTCGAGGGTC
1 AAATTTAAATTTTTGGAAAGTTAG-GGGTC
* * * *
23292954 ATATTCAATTTTTTGGAAAGTT-TGGGTC
1 AAATTTAAATTTTTGGAAAGTTAGGGGTC
* * * * *
23292982 ATATTCAATTTTTTGGAAAGTTTGAGGGCC
1 AAATTTAAATTTTTGGAAAGTTAG-GGGTC
** * * *
23293012 AAATGCAAACTTTTGGAAAGCTCAAGGGTC
1 AAATTTAAATTTTTGGAAAG-TTAGGGGTC
* *
23293042 AAATTCAAATTTTTGGAAAGCTCAGGGGTC
1 AAATTTAAATTTTTGGAAAG-TTAGGGGTC
* * *
23293072 AAATTCAAATTTTTGGAAATTTTGGTGGTC
1 AAATTTAAATTTTTGGAAAGTTAGG-GGTC
23293102 AAA
1 AAA
23293105 ACGTAATTTT
Statistics
Matches: 178, Mismatches: 25, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
28 29 0.16
29 26 0.15
30 120 0.67
31 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.36
Consensus pattern (29 bp):
AAATTTAAATTTTTGGAAAGTTAGGGGTC
Found at i:23293102 original size:60 final size:60
Alignment explanation
Indices: 23292872--23293104 Score: 242
Period size: 60 Copynumber: 3.9 Consensus size: 60
23292862 TTAAAATTTG
* ** **
23292872 AATTTTTGGAAAGTTAAG-GGGTCAAATTTGAATTTTTGGAAAGTTTAGGGTCAAATTGG
1 AATTTTTGGAAAGTTCAGAGGGTCAAATTCAAATTTTTGGAAAGTTTAGGGTCAAATTCA
* * * *
23292931 AATTTTTGAAAAGTTC-GAGGGTCATATTCAATTTTTTGGAAAGTTT-GGGTCATATTCA
1 AATTTTTGGAAAGTTCAGAGGGTCAAATTCAAATTTTTGGAAAGTTTAGGGTCAAATTCA
* * * * * **
23292989 ATTTTTTGGAAAGTT-TGAGGGCCAAATGCAAACTTTTGGAAAGCTCAAGGGTCAAATTCA
1 AATTTTTGGAAAGTTCAGAGGGTCAAATTCAAATTTTTGGAAAG-TTTAGGGTCAAATTCA
* * *
23293049 AATTTTTGGAAAGCTCAG-GGGTCAAATTCAAATTTTTGGAAATTTTGGTGGTCAAA
1 AATTTTTGGAAAGTTCAGAGGGTCAAATTCAAATTTTTGGAAAGTTTAG-GGTCAAA
23293105 ACGTAATTTT
Statistics
Matches: 139, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
58 45 0.32
59 41 0.29
60 52 0.37
61 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.36
Consensus pattern (60 bp):
AATTTTTGGAAAGTTCAGAGGGTCAAATTCAAATTTTTGGAAAGTTTAGGGTCAAATTCA
Found at i:23314396 original size:2 final size:2
Alignment explanation
Indices: 23314389--23314465 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
23314379 GATCATGCTT
23314389 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23314431 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23314466 TTTCTTTTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:23316644 original size:168 final size:166
Alignment explanation
Indices: 23316360--23316696 Score: 530
Period size: 168 Copynumber: 2.0 Consensus size: 166
23316350 GATAGAGCAC
23316360 TAATTTATTCAAGTTAGGAGTGTTTTATGTGTGCATTGTTTTTGTAAGCAATCAAGAGAGTTTCT
1 TAATTTATTCAAGTTAGGAGTGTTTTATGTGTGCATTGTTTTTGTAAGCAATCAAGAGAGTTTCT
* * *
23316425 TGAGTTGCAAAGCTAAGCTTTCAAGGGGAAAGCTTAATGACAGAGTGATCTAGTCTTTGTACAAC
66 TGAGTTGCAAAGCTAAGCTTTCAAGAGGAAAGCTTAATGACAGAATGATCTAGTCTCTGTACAAC
*
23316490 GGTGAGGTCACTAAATTGGTGAGAGTTAGATCAGTG
131 AGTGAGGTCACTAAATTGGTGAGAGTTAGATCAGTG
* * *
23316526 TAATTTGTTCAAGTTAGGAGTGTTTTATGTGTGCATTTTTTTTTTGTAAGTAATCAAGAGAGTTT
1 TAATTTATTCAAGTTAGGAGTGTTTTATGTGTGCA--TTGTTTTTGTAAGCAATCAAGAGAGTTT
* * **
23316591 CTTGAGTTGCAAAGCTAAGCTTTCGAGAGGAAAGCTTAGTGGTAGAATGATCTAGTCTCTGTACA
64 CTTGAGTTGCAAAGCTAAGCTTTCAAGAGGAAAGCTTAATGACAGAATGATCTAGTCTCTGTACA
* * *
23316656 ACAGTGAGGTCGCTCAATTGGTGAGTGTTAGATCAGTG
129 ACAGTGAGGTCACTAAATTGGTGAGAGTTAGATCAGTG
23316694 TAA
1 TAA
23316697 GGAATTAAAT
Statistics
Matches: 155, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
166 34 0.22
168 121 0.78
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.36
Consensus pattern (166 bp):
TAATTTATTCAAGTTAGGAGTGTTTTATGTGTGCATTGTTTTTGTAAGCAATCAAGAGAGTTTCT
TGAGTTGCAAAGCTAAGCTTTCAAGAGGAAAGCTTAATGACAGAATGATCTAGTCTCTGTACAAC
AGTGAGGTCACTAAATTGGTGAGAGTTAGATCAGTG
Found at i:23320102 original size:29 final size:28
Alignment explanation
Indices: 23320041--23320195 Score: 88
Period size: 29 Copynumber: 5.4 Consensus size: 28
23320031 AAATTGAAAT
*
23320041 TTTTGGAAAATTTAGGATT-AAAATCG-AA
1 TTTTGGAAAATTTAGG-TTGAAAAT-GTGA
23320069 CTTTTGGAAAATTTGAGGTTGAAAATGTGA
1 -TTTTGGAAAATTT-AGGTTGAAAATGTGA
* *
23320099 TTTTTGG-AAATTTAGG-GGCAAAA-GGGTA
1 -TTTTGGAAAATTTAGGTTG-AAAATGTG-A
* ** *
23320127 ATTTGGAAAAGTTTAGGGGTT-AAAAAATAA
1 TTTTGGAAAA-TTTA--GGTTGAAAATGTGA
*
23320157 TTTTGGAAAAGTTTAGGGTGAAAATGTGA
1 TTTTGGAAAA-TTTAGGTTGAAAATGTGA
*
23320186 TTTTAGAAAA
1 TTTTGGAAAA
23320196 GTTTTGGAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
27 8 0.08
28 14 0.14
29 41 0.41
30 34 0.34
31 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (28 bp):
TTTTGGAAAATTTAGGTTGAAAATGTGA
Found at i:23320164 original size:30 final size:30
Alignment explanation
Indices: 23320020--23320249 Score: 165
Period size: 30 Copynumber: 7.8 Consensus size: 30
23320010 TTTCAAGGAA
* *
23320020 TTTAGGGGTCAAAATTGAAATTTTTGGAAAA-
1 TTTAGGGGTTAAAA-TGTAA-TTTTGGAAAAG
*
23320051 TTTA-GGATTAAAATCG-AACTTTTGGAAAA-
1 TTTAGGGGTTAAAAT-GTAA-TTTTGGAAAAG
* *
23320080 TTT-GAGGTTGAAAATGTGATTTTTGG-AAA-
1 TTTAGGGGTT-AAAATGT-AATTTTGGAAAAG
* *
23320109 TTTAGGGG-CAAAAGGGTAA-TTTGGAAAAG
1 TTTAGGGGTTAAAA-TGTAATTTTGGAAAAG
**
23320138 TTTAGGGGTTAAAAAATAATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * *
23320168 TTTA-GGGTGAAAATGTGATTTTAGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * * **
23320197 TTTTGGAGTTAAAATGTAATTTTTGTGAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
*
23320227 TTTGGGGGTTAAAATGTAATTTT
1 TTTAGGGGTTAAAATGTAATTTT
23320250 TGGATAAAAT
Statistics
Matches: 160, Mismatches: 27, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
27 5 0.03
28 8 0.05
29 62 0.39
30 80 0.50
31 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TTTAGGGGTTAAAATGTAATTTTGGAAAAG
Found at i:23320228 original size:59 final size:58
Alignment explanation
Indices: 23320090--23320249 Score: 137
Period size: 59 Copynumber: 2.7 Consensus size: 58
23320080 TTTGAGGTTG
* * * * * *
23320090 AAAATGTGATTTTTGGAAATTTAGGG-GCAAAA-GGGTAATTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAGTTTAGGGTG-AAAATGTG-ATTTTAGAAAAGTTTAGGAGTT
** *
23320148 AAAAAATAA-TTTTGGAAAAGTTTAGGGTGAAAATGTGATTTTAGAAAAGTTTTGGAGTT
1 AAAATGTAATTTTTGG--AAGTTTAGGGTGAAAATGTGATTTTAGAAAAGTTTAGGAGTT
* * *
23320207 AAAATGTAATTTTTGTGAAGTTTGGGGGTTAAAATGTAATTTT
1 AAAATGTAATTTTTG-GAAGTTT-AGGGTGAAAATGTGATTTT
23320250 TGGATAAAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
57 6 0.07
58 6 0.07
59 44 0.54
60 24 0.30
61 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTAGGGTGAAAATGTGATTTTAGAAAAGTTTAGGAGTT
Found at i:23321048 original size:21 final size:21
Alignment explanation
Indices: 23321005--23321048 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23320995 TAGATCTGGA
*
23321005 TTTGATTTTCTTTTTTTAATT
1 TTTGATTTTCTTTTTTCAATT
*
23321026 TTTGATTTT-TATTTTTCACTT
1 TTTGATTTTCT-TTTTTCAATT
23321047 TT
1 TT
23321049 CTTTTTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTGATTTTCTTTTTTCAATT
Found at i:23322432 original size:39 final size:39
Alignment explanation
Indices: 23322378--23322454 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
23322368 GATTTGGTCT
* *
23322378 ACTTCTCTGTATCTCATCAGGAAGATGACTGCATCACTC
1 ACTTCTCTGTATCTCATCAGAAAGATGACCGCATCACTC
*
23322417 ACTTCTCTGTATCTCATCAGAAAGATGACCGCTTCACT
1 ACTTCTCTGTATCTCATCAGAAAGATGACCGCATCACT
23322455 GCTTCGACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (39 bp):
ACTTCTCTGTATCTCATCAGAAAGATGACCGCATCACTC
Done.