Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 119 of 373
Found at i:38898689 original size:81 final size:81
Alignment explanation
Indices: 38898491--38898670 Score: 238
Period size: 81 Copynumber: 2.2 Consensus size: 81
38898481 TTCAATTTGT
* * *
38898491 AAAATTACCAAAGTACCCTCGATTTACAGAATTA-TCGTTTTACCCTCGATTTACAGAATTACCG
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCA
*
38898555 TTTTACCCTCGATTTAT
65 TTTTACCCTCGATTTAC
* *** * *
38898572 AGAATTACCATTTTACCGTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCAT
38898637 TTTACCCTCGA-TTAGC
66 TTTACCCTCGATTTA-C
38898653 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
38898671 CTGGTTTGTA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 3 0.04
81 79 0.95
82 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:38898766 original size:27 final size:27
Alignment explanation
Indices: 38898653--38898878 Score: 179
Period size: 27 Copynumber: 8.4 Consensus size: 27
38898643 CTCGATTAGC
**
38898653 AAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGT
* **
38898680 AAAATTACTAAAATACCCCTAGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGT
****
38898707 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGTAGGGT
38898734 AAAATTACCAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
* * * *
38898761 AGAATTATCGAAATACCCTTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
* *
38898788 AGAAA-TACCGAAATACCCCTATAGGGT
1 A-AAATTACCAAAATACCCCTGTAGGGT
* ** *
38898815 AGAATTACTGAAATACCCCTGTAGTGT
1 AAAATTACCAAAATACCCCTGTAGGGT
* * * * *
38898842 AGAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
*
38898869 AAAATAACCA
1 AAAATTACCA
38898879 TTTTTCCCCT
Statistics
Matches: 168, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.02
27 163 0.97
28 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAGGGT
Found at i:38898802 original size:81 final size:80
Alignment explanation
Indices: 38898653--38898874 Score: 205
Period size: 81 Copynumber: 2.8 Consensus size: 80
38898643 CTCGATTAGC
** * ** * **
38898653 AAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCCTAGT-TTGTAAAATTACC
1 AAAATTACCAAAATACCCCT-GTAGGGTAGAATTACCGAAATA-CCCTTGTAGGGTAAAA-TACC
* ***
38898716 AAAATACCCCTGGCTTGT
63 AAAATACCCCTAGAGGGT
* *
38898734 AAAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGA
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATACCAA
*
38898799 AATACCCCTATAGGGT
65 AATACCCCTAGAGGGT
* ** * * *
38898815 AGAATTACTGAAATACCCCTGTAGTGTAGAATTACCGAGATACCCTTGTGGGGTAAAATA
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATA
38898875 ACCATTTTTC
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
80 13 0.11
81 100 0.86
82 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATACCAAA
ATACCCCTAGAGGGT
Found at i:38899162 original size:24 final size:25
Alignment explanation
Indices: 38899084--38899173 Score: 148
Period size: 25 Copynumber: 3.6 Consensus size: 25
38899074 AGTGCTAAAC
38899084 GGGCTTTGCCCCAGTTTA-CAGAAAA
1 GGGCTTTGCCCCAGTTTATC-GAAAA
*
38899109 GGGCTTTGCCCCAGTTTACCGAAAA
1 GGGCTTTGCCCCAGTTTATCGAAAA
38899134 GGGCTTTGCCCCAGTTTATC-AAAA
1 GGGCTTTGCCCCAGTTTATCGAAAA
38899158 GGGCTTTGCCCCAGTT
1 GGGCTTTGCCCCAGTT
38899174 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
24 20 0.32
25 42 0.67
26 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (25 bp):
GGGCTTTGCCCCAGTTTATCGAAAA
Found at i:38899186 original size:24 final size:24
Alignment explanation
Indices: 38899084--38899186 Score: 136
Period size: 25 Copynumber: 4.2 Consensus size: 24
38899074 AGTGCTAAAC
*
38899084 GGGCTTTGCCCCAGTTTACAGAAAA
1 GGGCTTTGCCCCAGTTTA-TGAAAA
*
38899109 GGGCTTTGCCCCAGTTTACCGAAAA
1 GGGCTTTGCCCCAGTTTA-TGAAAA
*
38899134 GGGCTTTGCCCCAGTTTATCAAAA
1 GGGCTTTGCCCCAGTTTATGAAAA
*
38899158 GGGCTTTGCCCCAG-TTATTAAAA
1 GGGCTTTGCCCCAGTTTATGAAAA
38899181 GAGGCT
1 G-GGCT
38899187 AGGCCTCCAG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 9 0.12
24 22 0.30
25 42 0.58
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (24 bp):
GGGCTTTGCCCCAGTTTATGAAAA
Found at i:38899197 original size:49 final size:49
Alignment explanation
Indices: 38899091--38899198 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 49
38899081 AACGGGCTTT
**
38899091 GCCCCAGTTTA-CAGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTT
1 GCCCCAGTTTATC--AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAG
**
38899141 GCCCCAGTTTATCAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAG
1 GCCCCAGTTTATCAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAG
38899189 GCCTCCAGTT
1 GCC-CCAGTT
38899199 ATGTGATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
47 5 0.10
48 10 0.20
49 24 0.47
50 11 0.22
51 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (49 bp):
GCCCCAGTTTATCAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAG
Found at i:38899236 original size:27 final size:27
Alignment explanation
Indices: 38899205--38899307 Score: 170
Period size: 27 Copynumber: 3.8 Consensus size: 27
38899195 AGTTATGTGA
*
38899205 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
**
38899232 TAAAATTAGTAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
*
38899259 TAAAATTACCAAAATACCCCTGGCTTG
1 TAAAATTACCAAAATACCCCTGGTTTG
38899286 TAAAATTACCAAAATACCCCTG
1 TAAAATTACCAAAATACCCCTG
38899308 TAGGGTAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGGTTTG
Found at i:38899269 original size:54 final size:54
Alignment explanation
Indices: 38899205--38899385 Score: 186
Period size: 54 Copynumber: 3.4 Consensus size: 54
38899195 AGTTATGTGA
* ** **
38899205 TAAAATTACCAAAATACCCTTGGTTTGTAAAATTAGTAAAATACCCCTGGT-TTG
1 TAAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAATACCCCT-GTAGGG
*
38899259 TAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAATACCCCTGTAGGG
* * **** *
38899313 TAGAATTACTAAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCTTGGCTTGTA-AAATTACCAAAATACCCCTGTAGGG
* * *
38899367 TAGAATTATCGAAATACCC
1 TAAAATTACCAAAATACCC
38899386 CTGTAGGGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.02
54 103 0.95
55 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAATACCCCTGTAGGG
Found at i:38899319 original size:27 final size:27
Alignment explanation
Indices: 38899262--38899431 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 27
38899252 TGGTTTGTAA
**** *
38899262 AATTACCAAAATACCCCTGGCTTGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
38899289 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
38899316 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
38899343 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
38899370 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * * * *
38899397 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
38899424 AATTACCA
1 AATTACCA
38899432 TTTTGCCTCT
Statistics
Matches: 124, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:38899355 original size:81 final size:78
Alignment explanation
Indices: 38899205--38899431 Score: 204
Period size: 81 Copynumber: 2.8 Consensus size: 78
38899195 AGTTATGTGA
* ** * * **
38899205 TAAAATTACCAAAATACCCTTGGT-TTGTAAAATTAGTAAAATACCCCTGGTTTGTAAAATTACC
1 TAAAATTACCAAAATACCCCT-GTAGGGTAGAATTA-TAAAATA-CCCTTGTGGGTAAAA-TACC
***
38899269 AAAATACCCCTGGCTTG
62 AAAATACCCCTGGAGGG
*
38899286 TAAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGTAGGGTAGAAATACCG
1 TAAAATTACCAAAATACCCCTGTAGGGTAGAATTA-TAAAATACCCTTGT-GGGTA-AAATACCA
*
38899351 AAATACCCCTGTAGGG
63 AAATACCCCTGGAGGG
* * * * *
38899367 TAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAAAATTACCA
1 TAAAATTACCAAAATACCCCTGTAGGGTAGAATTAT-AAAATACCCTTGT-GGGTAAAA-TACCA
38899432 TTTTGCCTCT
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
80 12 0.10
81 106 0.88
82 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (78 bp):
TAAAATTACCAAAATACCCCTGTAGGGTAGAATTATAAAATACCCTTGTGGGTAAAATACCAAAA
TACCCCTGGAGGG
Found at i:38905173 original size:48 final size:48
Alignment explanation
Indices: 38905076--38905211 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
38905066 CACATGGTAG
* * * *
38905076 GATGCCAATTCCATATCCTAGATATGGTTTTACATGGGATCACATATC
1 GATGCCAATACCATATCCTAGAAATGGTCTTACATGGGATCACAGATC
* * ***
38905124 GATGCCAATACCCTATCTTAGAAATGGTCTTACATGGGATTGTAGATC
1 GATGCCAATACCATATCCTAGAAATGGTCTTACATGGGATCACAGATC
* * * *
38905172 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 GATGCCAATACCATATCCTAGAAATGGTCTTACATGGGAT
38905212 GCCAATAGCC
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (48 bp):
GATGCCAATACCATATCCTAGAAATGGTCTTACATGGGATCACAGATC
Found at i:38908258 original size:93 final size:93
Alignment explanation
Indices: 38908151--38908322 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
38908141 GCCCATAAGC
* *
38908151 GAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
38908215 ACGAGCTCGGATGCCTAGTTACATCTCAT
65 ACGAGCTCGGATGCCTAGTTACATCTCAT
38908244 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
38908309 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
38908323 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAT
Found at i:38908313 original size:46 final size:46
Alignment explanation
Indices: 38908143--38908318 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
38908133 TGTAACCCGC
* * *
38908143 CCATAAGCGAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTCGGACGCTCGCAT
* * * *
38908189 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
38908239 -C-TCA-TGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
38908282 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
38908319 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 64 0.59
47 31 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38908337 original size:46 final size:45
Alignment explanation
Indices: 38908194--38908337 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
38908184 CGCATCCATA
* * *
38908194 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
38908242 A-TGAACTCAGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
38908287 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
38908333 AGTGA
1 AGTGA
38908338 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.48
47 30 0.39
48 5 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:38910790 original size:15 final size:15
Alignment explanation
Indices: 38910713--38910790 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
38910703 AGAAAACCGA
*
38910713 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
* *
38910728 ATAGAGAAACCC-GG
1 ATAAAGAAACCCAAG
* *
38910742 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
38910757 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
38910773 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
38910788 ATA
1 ATA
38910791 CGATACTATG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
14 2 0.04
15 43 0.91
16 2 0.04
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:38913171 original size:14 final size:14
Alignment explanation
Indices: 38913152--38913182 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
38913142 AAGGAGGGAG
38913152 TAAGCATAAATGCT
1 TAAGCATAAATGCT
38913166 TAAGCATAAATGCT
1 TAAGCATAAATGCT
38913180 TAA
1 TAA
38913183 TAAGTTCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (14 bp):
TAAGCATAAATGCT
Found at i:38913622 original size:93 final size:93
Alignment explanation
Indices: 38913514--38913686 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
38913504 CGCCCATAAG
* * *
38913514 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAG-TTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
38913578 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
38913607 CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38913672 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
38913687 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:38913677 original size:46 final size:46
Alignment explanation
Indices: 38913507--38913682 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
38913497 TGTAACCCGC
* *
38913507 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACGCTCGCAT
* * * *
38913553 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
38913603 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
38913646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38913683 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 64 0.60
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38916119 original size:15 final size:15
Alignment explanation
Indices: 38916061--38916140 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
38916051 CAAAGATAAC
*
38916061 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
38916075 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
38916090 GAGAAA-CCCGAAATA
1 AAGAAATCCAG-AATA
*
38916105 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
38916120 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
38916135 AAGAAA
1 AAGAAA
38916141 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 11 0.22
15 37 0.73
16 3 0.06
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:38916149 original size:15 final size:15
Alignment explanation
Indices: 38916072--38916149 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
38916062 AGAAAACCGA
*
38916072 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
38916087 ATAGAGAAACCCGAA-
1 ATAAAGAAACCC-AAG
* *
38916102 ATAAAGAAA-TCTAG
1 ATAAAGAAACCCAAG
* * *
38916116 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
38916132 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
38916147 ATA
1 ATA
38916150 CGATACTATG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 41 0.87
16 4 0.09
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:38922662 original size:32 final size:33
Alignment explanation
Indices: 38922612--38922675 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
38922602 CTAGTATTGG
38922612 TGTGGGCCATAGCCCATTACAGTAAAGTATTAA
1 TGTGGGCCATAGCCCATTACAGTAAAGTATTAA
* **
38922645 TGTGGG-CTTAGCCCATTACAGTTCAGTATTA
1 TGTGGGCCATAGCCCATTACAGTAAAGTATTA
38922676 GAAATGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (33 bp):
TGTGGGCCATAGCCCATTACAGTAAAGTATTAA
Found at i:38923104 original size:17 final size:19
Alignment explanation
Indices: 38923070--38923106 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
38923060 AAAGCCCATA
38923070 ACACAGCCCATATGGGCCC
1 ACACAGCCCATATGGGCCC
*
38923089 ACACA-CCCGTAT-GGCCC
1 ACACAGCCCATATGGGCCC
38923106 A
1 A
38923107 ATAAGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.27, C:0.43, G:0.19, T:0.11
Consensus pattern (19 bp):
ACACAGCCCATATGGGCCC
Found at i:38930436 original size:32 final size:33
Alignment explanation
Indices: 38930385--38930447 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
38930375 TCTAGTATCG
*
38930385 GTGTGGGCCTTAGCTCATTACAGTACAGTATTA
1 GTGTGGGCCTTAGCCCATTACAGTACAGTATTA
*
38930418 GTGTGGG-CTTAGCCCATTACAGTTCAGTAT
1 GTGTGGGCCTTAGCCCATTACAGTACAGTAT
38930448 CAGAAATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (33 bp):
GTGTGGGCCTTAGCCCATTACAGTACAGTATTA
Found at i:38938975 original size:19 final size:19
Alignment explanation
Indices: 38938951--38938990 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
38938941 GATTATATTC
38938951 TGGTACATGTATATATATG
1 TGGTACATGTATATATATG
*
38938970 TGGTACTTGTATATATATG
1 TGGTACATGTATATATATG
38938989 TG
1 TG
38938991 TTTAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (19 bp):
TGGTACATGTATATATATG
Found at i:38945501 original size:14 final size:14
Alignment explanation
Indices: 38945482--38945511 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38945472 TTAAATGTTA
38945482 TATATTATAATTTT
1 TATATTATAATTTT
*
38945496 TATATTATTATTTT
1 TATATTATAATTTT
38945510 TA
1 TA
38945512 CTTAATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATTATAATTTT
Found at i:38960074 original size:68 final size:66
Alignment explanation
Indices: 38959987--38960194 Score: 196
Period size: 67 Copynumber: 3.2 Consensus size: 66
38959977 CATCATGTGT
** *
38959987 ACAAGAGAGCTACAAGATATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTATGAGATA-TA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
38960052 TAG
64 TAG
* * * * * *
38960055 ACAAGAGAGCTATG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTATGAGATATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCAT
38960118 GTAG
63 GTAG
* * *
38960122 ACAAGAGAGCTATGAGATA-A-AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ACAAGAGAGCTATGAGATATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
38960183 -G
65 AG
38960184 TACAAGAGAGC
1 -ACAAGAGAGC
38960195 CAAACTATAT
Statistics
Matches: 115, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 26 0.23
65 2 0.02
66 22 0.19
67 30 0.26
68 14 0.12
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (66 bp):
ACAAGAGAGCTATGAGATATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTA
G
Found at i:38964470 original size:68 final size:64
Alignment explanation
Indices: 38964354--38964612 Score: 233
Period size: 68 Copynumber: 3.9 Consensus size: 64
38964344 TGAATGATAC
** * * *
38964354 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
38964418 AAG
64 --G
* *
38964421 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
38964485 CG
63 CG
* * * *
38964487 GGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
38964550 TACG
61 TACG
* * *
38964554 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
38964613 CGAACTATAT
Statistics
Matches: 159, Mismatches: 20, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 19 0.12
64 20 0.13
65 5 0.03
66 19 0.12
67 36 0.23
68 51 0.32
69 2 0.01
70 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:38970756 original size:47 final size:46
Alignment explanation
Indices: 38970596--38970946 Score: 175
Period size: 47 Copynumber: 7.5 Consensus size: 46
38970586 AGAGCCAGAA
* * * * *
38970596 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTG
1 TAAGACCATGTCTGGGACAT-GCATCGGCGTAGAG-TGAGTGCCAGTG
* * * *
38970644 TAAGA-CGTGTCTGGGACATGCATCAGGCGCATCA-TGA-TAGCCCGTG
1 TAAGACCATGTCTGGGACATGCATC-GGCGTA-GAGTGAGT-GCCAGTG
* *
38970690 TAAGACCACGTCTTGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTG
1 TAAGACCATGTCTGGGACAT-GCATCGGCGTAGA-GTGAGTGCCAGTG
*
38970738 TAAGA-CATGTCTGGGACATGCATCGGACTTA-A-TGATGTTAGCCAGTG
1 TAAGACCATGTCTGGGACATGCATCGG-CGTAGAGTGA-G-T-GCCAGTG
* ** *
38970785 TAAGA-CGTGTCTGGGACATGCATCGGC-TA-AGTTTCGTGCTAGTG
1 TAAGACCATGTCTGGGACATGCATCGGCGTAGAG-TGAGTGCCAGTG
* * * * * ** * *
38970829 TAAGA-TATGTCGGGGACATACATCAGCACGTATACACGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGCATC-G-GCGTAGA-GTGAGTGCCAGTG
* * * *
38970877 TAAGACCATGCCTGGGACATGGCATCGGCCTTGA-TGGAGATAGCCAGCG
1 TAAGACCATGTCTGGGACAT-GCATCGGCGTAGAGT-GAG-T-GCCAGTG
* *
38970926 TAAGACCATGTTTAGGACATG
1 TAAGACCATGTCTGGGACATG
38970947 GCAACGGCAA
Statistics
Matches: 232, Mismatches: 47, Indels: 48
0.71 0.14 0.15
Matches are distributed among these distances:
44 29 0.12
45 6 0.03
46 30 0.13
47 85 0.37
48 43 0.19
49 35 0.15
50 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
TAAGACCATGTCTGGGACATGCATCGGCGTAGAGTGAGTGCCAGTG
Found at i:38970802 original size:94 final size:93
Alignment explanation
Indices: 38970596--38970905 Score: 304
Period size: 94 Copynumber: 3.3 Consensus size: 93
38970586 AGAGCCAGAA
* * * *
38970596 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
* *
38970661 ATGCATCAGGCGCATCATGATAGCCCGTG
65 ATGCATCAGGCGAATCATGATAGCCAGTG
* * * *
38970690 TAAGACCACGTCTTGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACATGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
* * *
38970755 ATGCATC-GGACTTAATGATGTTAGCCAGTG
65 ATGCATCAGG-C-GAATCATGATAGCCAGTG
* * ** * *
38970785 TAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCGTGCTAGTGTAAGATATGTCGGGGACA
1 TAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACA
* * * * * *
38970847 TACATCAGCACGTATACACGAGAGCTAGTG
66 TGCATCAG-GCGAAT-CATGATAGCCAGTG
*
38970877 TAAGACCATGCCTGGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
38970906 CTTGATGGAG
Statistics
Matches: 175, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
91 34 0.19
92 18 0.10
93 22 0.13
94 83 0.47
95 18 0.10
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (93 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACA
TGCATCAGGCGAATCATGATAGCCAGTG
Found at i:38973369 original size:43 final size:43
Alignment explanation
Indices: 38973322--38973442 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 43
38973312 CGTCGATTGA
*
38973322 GATTTACGTATAAGACCATGTCTGGGACATCGGTATCG-TATCT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGTATCGATAT-T
* ** *
38973365 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGTATCGATATT
* * * *
38973407 GAATTACATGTAAGACCACGTCTGGGACGTCGGTAT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGTAT
38973443 TGTACTTGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATCGGTATCGATATT
Found at i:38973386 original size:42 final size:42
Alignment explanation
Indices: 38973322--38973442 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
38973312 CGTCGATTGA
* *
38973322 GATTTACGTATAAGACCATGTCTGGGACATCGGTATCG-TATCT
1 GATTT-CGTGTAAGACCCTGTCTGGGACATCGGTATCGATAT-T
** *
38973365 GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTCGTGTAAGACCCTGTCTGGGACATCGGTATCGATATT
* * *
38973407 GAATTACATGTAAGACCAC-GTCTGGGACGTCGGTAT
1 G-ATTTCGTGTAAGACC-CTGTCTGGGACATCGGTAT
38973443 TGTACTTGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.45
43 34 0.53
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GATTTCGTGTAAGACCCTGTCTGGGACATCGGTATCGATATT
Found at i:38975988 original size:48 final size:48
Alignment explanation
Indices: 38975917--38976013 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
38975907 AACTTTGACC
38975917 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
1 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
38975965 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
1 AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
38976013 A
1 A
38976014 TCACAATCTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (48 bp):
AACCTGGCCCAACTTGTTTTCCTCGTATACGAAACTAGCCCATATTTA
Found at i:38978168 original size:48 final size:48
Alignment explanation
Indices: 38978100--38978193 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
38978090 CAAATTTACC
*
38978100 AATCCTAATTGTAATCCCAAGTAGACCAATGCAGAGTTGCAGACAAAT
1 AATCCTAACTGTAATCCCAAGTAGACCAATGCAGAGTTGCAGACAAAT
* *
38978148 AATCCTAACTGTAATTCCAAGTTGACCAATGCAGAGTTGCAGACAA
1 AATCCTAACTGTAATCCCAAGTAGACCAATGCAGAGTTGCAGACAA
38978194 TTTTTTTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (48 bp):
AATCCTAACTGTAATCCCAAGTAGACCAATGCAGAGTTGCAGACAAAT
Found at i:38984553 original size:30 final size:30
Alignment explanation
Indices: 38984502--38984560 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
38984492 TATATCTTGT
* *
38984502 TTAAATAAGATCTTGTACTATTTTTTTTAG
1 TTAAATAAGATCTTATACTATTATTTTTAG
*
38984532 TTAAATAAGCATC-TATCCTATTATTTTTA
1 TTAAATAAG-ATCTTATACTATTATTTTTA
38984561 CTCATGAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (30 bp):
TTAAATAAGATCTTATACTATTATTTTTAG
Found at i:38984623 original size:18 final size:17
Alignment explanation
Indices: 38984581--38984624 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 17
38984571 TCTTTTATTT
38984581 TAATATTAAATTAAAAAA
1 TAAT-TTAAATTAAAAAA
38984599 TATATTTAAATTAAAAAA
1 TA-ATTTAAATTAAAAAA
38984617 CTAATTTA
1 -TAATTTA
38984625 TTAATAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATTTAAATTAAAAAA
Found at i:38984771 original size:40 final size:40
Alignment explanation
Indices: 38984720--38984797 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
38984710 TGAAAGTGCT
* *
38984720 TATATAAATATCATAATTAACCACTCTTTTGAAAAATCTA
1 TATATAAATATCACAATTAACCACTCTTTTAAAAAATCTA
* *
38984760 TATATACATATCACAATTAATCACTCTTTTAAAAAATC
1 TATATAAATATCACAATTAACCACTCTTTTAAAAAATC
38984798 AACTTACTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (40 bp):
TATATAAATATCACAATTAACCACTCTTTTAAAAAATCTA
Found at i:38985716 original size:22 final size:22
Alignment explanation
Indices: 38985688--38985731 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38985678 GATATACACT
38985688 TTTACCTTATAACTATGGAATG
1 TTTACCTTATAACTATGGAATG
38985710 TTTACCTTATAACTATGGAATG
1 TTTACCTTATAACTATGGAATG
38985732 ATCCATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTACCTTATAACTATGGAATG
Found at i:38992669 original size:48 final size:48
Alignment explanation
Indices: 38992479--38992701 Score: 188
Period size: 48 Copynumber: 4.8 Consensus size: 48
38992469 GTTATGTACA
* * * * *
38992479 ATCCCATGTAAGACCATGTTTGGGATATGGCTTTGGCATCAATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
** * * * *
38992527 ATTTCGTGTAAGACCATAGT-TGGG-C-T---ATCGACATTGATATGTG
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTG
* * * * **
38992570 ATCCCATGTAAGACCATGTTTGGGGCATGGAATTGGCATCGATCTACG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
*
38992618 ATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* * ** *
38992666 ATCCCATGCAAGACCATATCCAGGATATGGCATTGG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
38992702 TATCCTACCA
Statistics
Matches: 136, Mismatches: 32, Indels: 14
0.75 0.18 0.08
Matches are distributed among these distances:
42 2 0.01
43 29 0.21
44 1 0.01
45 1 0.01
46 1 0.01
48 100 0.74
49 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
Found at i:38996791 original size:46 final size:47
Alignment explanation
Indices: 38996737--38996870 Score: 168
Period size: 46 Copynumber: 2.9 Consensus size: 47
38996727 GGGACATTTG
38996737 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATGACGA
* * *
38996784 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATG--ACGA
*
38996830 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
38996871 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 34 0.46
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGACGA
Found at i:38999847 original size:15 final size:15
Alignment explanation
Indices: 38999808--38999887 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
38999798 GTATCTTGGG
*
38999808 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
38999823 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
38999838 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
38999853 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
38999868 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
38999882 TTTCTT
1 TTTCTT
38999888 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 11 0.21
15 36 0.68
16 5 0.09
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38999877 original size:30 final size:31
Alignment explanation
Indices: 38999799--38999878 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
38999789 CATAGTATCG
* * *
38999799 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCAGGATCTCTC
*
38999829 TAT-TCTGGATTTCTTTATTCCAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCAGGATCTCTC
38999859 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
38999879 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.84
31 6 0.14
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.55
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCAGGATCTCTC
Found at i:39002480 original size:14 final size:14
Alignment explanation
Indices: 39002461--39002488 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39002451 TGAATGATTG
39002461 GTTCACCCAATATA
1 GTTCACCCAATATA
39002475 GTTCACCCAATATA
1 GTTCACCCAATATA
39002489 TTAGAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
GTTCACCCAATATA
Found at i:39006714 original size:31 final size:31
Alignment explanation
Indices: 39006679--39006741 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
39006669 GCCACCAGAG
39006679 TTAGAAAAAAATTCATAATGTGATTCATGTA
1 TTAGAAAAAAATTCATAATGTGATTCATGTA
*
39006710 TTAGAAAAAAATTCATAATGTGTTTCATGTA
1 TTAGAAAAAAATTCATAATGTGATTCATGTA
39006741 T
1 T
39006742 CGATGTTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (31 bp):
TTAGAAAAAAATTCATAATGTGATTCATGTA
Found at i:39010419 original size:20 final size:20
Alignment explanation
Indices: 39010390--39010428 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
39010380 CTATTTCATG
39010390 AAAATTTTCT-AAGTTTTCC
1 AAAATTTTCTAAAGTTTTCC
39010409 AAAAGTTTTCTAAAGTTTTC
1 AAAA-TTTTCTAAAGTTTTC
39010429 GATTTAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAATTTTCTAAAGTTTTCC
Found at i:39015124 original size:47 final size:47
Alignment explanation
Indices: 39015063--39015551 Score: 834
Period size: 47 Copynumber: 10.4 Consensus size: 47
39015053 CAGCCAAGAC
39015063 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39015110 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39015157 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39015204 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39015251 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39015298 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39015345 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39015392 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39015439 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
39015486 AGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39015533 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
39015552 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 423 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:39015726 original size:37 final size:37
Alignment explanation
Indices: 39015670--39015748 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
39015660 CCGAGCTCTA
* *
39015670 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
39015707 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39015744 AAGAC
1 AAGAC
39015749 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39017272 original size:47 final size:45
Alignment explanation
Indices: 39017119--39017348 Score: 253
Period size: 47 Copynumber: 5.0 Consensus size: 45
39017109 ATTGACAGTT
*
39017119 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGAC
* * *
39017164 AAGGATCCCGTGTAAGACCATGTCAAGACATGGCATTGGCACTTAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGAC
***
39017212 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAC
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGAC
* *** *
39017259 AAGGATACAATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGAC
* * * *
39017306 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
39017349 TTCTATAAGG
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
45 44 0.28
46 7 0.04
47 71 0.44
48 26 0.16
49 8 0.05
50 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (45 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGAC
Found at i:39017431 original size:55 final size:54
Alignment explanation
Indices: 39017306--39017500 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
39017296 TTGGTAAGAT
* * *
39017306 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATAAGGC
* * * *
39017360 AAGGAAATCATGTAAGACGATGTCAAGACATGGTATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGTATTGATAAGTT-CTATAAGGC
* ** * * *
39017415 AAAGG-TCCCATGTAAGAAAATGCCAAGGCATGGTATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATAAGGC
* * *
39017468 TAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
39017501 AAATGGTAAG
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 29 0.25
54 41 0.35
55 40 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATAAGGC
Found at i:39017511 original size:108 final size:109
Alignment explanation
Indices: 39017314--39017512 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 109
39017304 ATAAGGATAT
** * * *
39017314 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACG
1 CATGTAAGAAAATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* *
39017379 ATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCC
* * * * *
39017423 CATGTAAGAAAATGCCAAGGCATGGTATTGGTGAGTTC-ATAAGGCTAGGATACCACGTAAGACC
1 CATGTAAGAAAATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
39017487 ATGTCAAGACATGGAAATGGTAAGTT
66 ATGTCAAGACATGGAAATGATAAGTT
39017513 CAAAAAGGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
108 44 0.57
109 33 0.43
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (109 bp):
CATGTAAGAAAATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:39019620 original size:13 final size:13
Alignment explanation
Indices: 39019599--39019629 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
39019589 TAACTTGTGT
*
39019599 ACACAGCCATGCC
1 ACACGGCCATGCC
39019612 ACACGGCCATGCC
1 ACACGGCCATGCC
39019625 ACACG
1 ACACG
39019630 CCTATGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.45, G:0.19, T:0.06
Consensus pattern (13 bp):
ACACGGCCATGCC
Found at i:39021835 original size:79 final size:81
Alignment explanation
Indices: 39021699--39021883 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
39021689 TTGAATGATG
* *
39021699 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
39021763 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
39021778 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
39021840 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
39021858 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39021884 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:39021897 original size:40 final size:40
Alignment explanation
Indices: 39021700--39021883 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
39021690 TGAATGATGT
* * * *
39021700 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
39021740 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
39021780 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
39021818 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39021859 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39021884 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39021905 original size:79 final size:79
Alignment explanation
Indices: 39021752--39021916 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
39021742 GGACTAAGAT
* * **
39021752 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
39021817 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
39021831 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
39021894 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
39021910 CCGAAGG
1 CCGAAGG
39021917 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39025437 original size:15 final size:16
Alignment explanation
Indices: 39025401--39025438 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
39025391 ATTGTTTTCT
39025401 TTTTCATTTAATTAAA
1 TTTTCATTTAATTAAA
*
39025417 TTTTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
39025432 TTTTCAT
1 TTTTCAT
39025439 CTTTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:39025852 original size:27 final size:27
Alignment explanation
Indices: 39025786--39025865 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
39025776 ATTACATGGT
39025786 GTACGCCAGTAGGCCTGGCAAGTTGAA
1 GTACGCCAGTAGGCCTGGCAAGTTGAA
* ** *
39025813 GAAAACCAGTAGGCCTGGCGAA-TTGGA
1 GTACGCCAGTAGGCCTGGC-AAGTTGAA
* * *
39025840 GTACGCCAATAGGCTTAGCAAGTTGA
1 GTACGCCAGTAGGCCTGGCAAGTTGA
39025866 GGTTCGTCAG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 2 0.05
27 36 0.90
28 2 0.05
ACGTcount: A:0.30, C:0.20, G:0.31, T:0.19
Consensus pattern (27 bp):
GTACGCCAGTAGGCCTGGCAAGTTGAA
Found at i:39028233 original size:28 final size:28
Alignment explanation
Indices: 39028170--39028292 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
39028160 ATATTAAGTC
*
39028170 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
39028197 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39028225 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
39028253 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
39028282 CGCACACTTAG
1 CGCACACTTAG
39028293 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39034852 original size:26 final size:28
Alignment explanation
Indices: 39034815--39034868 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
39034805 ATCATAGCAC
*
39034815 AAATCAGTCA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
*
39034842 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
39034869 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAGGGGTA
Found at i:39036326 original size:24 final size:24
Alignment explanation
Indices: 39036299--39036351 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
39036289 TCCTAAAATC
* *
39036299 TCTCCATAATCCTCTCCTTGATTT
1 TCTCCACAATCCTCTCATTGATTT
*
39036323 TCTCCCCAATCCTCTCATTGATTT
1 TCTCCACAATCCTCTCATTGATTT
*
39036347 CCTCC
1 TCTCC
39036352 TCATAACACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.40, G:0.04, T:0.42
Consensus pattern (24 bp):
TCTCCACAATCCTCTCATTGATTT
Found at i:39043314 original size:40 final size:40
Alignment explanation
Indices: 39043222--39043427 Score: 272
Period size: 40 Copynumber: 5.2 Consensus size: 40
39043212 ATTTGAATGA
* *
39043222 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-TT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
39043261 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
39043301 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * * * *
39043341 TATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * *
39043381 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
39043421 TATCCGG
1 TATCCGG
39043428 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 36 0.24
40 109 0.74
41 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:39055862 original size:37 final size:37
Alignment explanation
Indices: 39055812--39055890 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
39055802 TTATTACGAA
* *
39055812 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
39055849 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
39055886 GTCTT
1 GTCTT
39055891 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:39056085 original size:47 final size:47
Alignment explanation
Indices: 39056007--39056294 Score: 434
Period size: 47 Copynumber: 6.1 Consensus size: 47
39055997 GCCTTCGGGA
* * * * * * *
39056007 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39056054 CCTGTCACATATATACACTTTCA-ACTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACA-TTCATCACATCGGCCATTAGGC
39056101 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39056148 CTTATTACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39056197 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39056244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39056291 CTTA
1 CTTA
39056295 CTATCATTTC
Statistics
Matches: 220, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 172 0.78
48 3 0.01
49 44 0.20
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39056201 original size:96 final size:94
Alignment explanation
Indices: 39056007--39056294 Score: 434
Period size: 96 Copynumber: 3.0 Consensus size: 94
39055997 GCCTTCGGGA
* * * * * * * * *
39056007 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
39056072 TTTCA-ACTTCATCACATCGGCCATTAGGC
66 TTTCACA-TTCATCACATCGGCCATTAGGC
*
39056101 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-T-CACATATATAC
*
39056166 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
39056197 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
39056262 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
39056291 CTTA
1 CTTA
39056295 CTATCATTTC
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
94 86 0.49
95 2 0.01
96 88 0.50
97 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:39056280 original size:143 final size:143
Alignment explanation
Indices: 39056022--39056294 Score: 449
Period size: 143 Copynumber: 1.9 Consensus size: 143
39056012 CACATTTATG
* * * * *
39056022 CACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCAACTTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACACTTTCAACTTCATCAC
39056087 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39056152 TTACATATATATA
131 TTACATATATATA
* * * *
39056165 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC-ACATTCATCA
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACACTTTCAAC-TTCATCA
39056229 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
65 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
39056294 A
130 A
39056295 CTATCATTTC
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
142 2 0.02
143 118 0.98
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (143 bp):
CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACACTTTCAACTTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TTACATATATATA
Found at i:39060093 original size:40 final size:40
Alignment explanation
Indices: 39060049--39060147 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
39060039 CATGATTGCT
* *
39060049 CTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAA-GC
* * *
39060089 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAAAGC
39060129 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
39060148 CATCATTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
39 3 0.06
40 36 0.72
41 11 0.22
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAAGC
Found at i:39060492 original size:29 final size:29
Alignment explanation
Indices: 39060453--39060531 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
39060443 CTTAATAATC
*
39060453 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
39060483 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
39060512 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39060532 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:39060574 original size:43 final size:43
Alignment explanation
Indices: 39060513--39060658 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
39060503 TGCATTTCAA
39060513 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
39060556 GCCCGCACACTCAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
39060599 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
39060642 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
39060659 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:39062798 original size:47 final size:47
Alignment explanation
Indices: 39062721--39063054 Score: 542
Period size: 47 Copynumber: 7.1 Consensus size: 47
39062711 CCTTCGGGAA
* * * * * * *
39062721 TTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
39062768 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
39062815 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
39062862 TTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
39062911 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
39062958 TTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
39063005 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
39063052 TTA
1 TTA
39063055 CTATCATTTC
Statistics
Matches: 270, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
47 224 0.83
49 46 0.17
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:39062993 original size:143 final size:143
Alignment explanation
Indices: 39062721--39063054 Score: 541
Period size: 143 Copynumber: 2.4 Consensus size: 143
39062711 CCTTCGGGAA
* * * * * * * *
39062721 TTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
39062784 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
39062849 CGGCCATTAGGCC
131 CGGCCATTAGGCC
*
39062862 TTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
39062927 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
39062992 CGGCCATTAGGCC
131 CGGCCATTAGGCC
39063005 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39063055 CTATCATTTC
Statistics
Matches: 179, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 51 0.28
142 1 0.01
143 127 0.71
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTAGGCC
Found at i:39066778 original size:24 final size:24
Alignment explanation
Indices: 39066733--39066778 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
39066723 ATCTCTCCAT
* * *
39066733 AATCTTCTCCTTGGTTTTCTCCCC
1 AATCCTCTCCTTGATTTCCTCCCC
*
39066757 AATCCTCTCTTTGATTTCCTCC
1 AATCCTCTCCTTGATTTCCTCC
39066779 ACATAACACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.11, C:0.37, G:0.07, T:0.46
Consensus pattern (24 bp):
AATCCTCTCCTTGATTTCCTCCCC
Found at i:39068480 original size:48 final size:48
Alignment explanation
Indices: 39068409--39068729 Score: 393
Period size: 48 Copynumber: 6.8 Consensus size: 48
39068399 GACACCGTGC
* *
39068409 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * *
39068457 TAAATGTGCATGTGTAAGACCATGTTTGGGACATGGCATCGGTGATAA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
*
39068505 TAAATGTGCATGTGTAAGACTATGTCTGGGACATGGCATCGGCGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * * *
39068553 TATATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATTGGCGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * *
39068601 TATATGTGCCTGTGTAAGACCATGTATGGGACATGGCAT---CGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
** *
39068646 TATGTGTGCCA-GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
1 TAAATGTG-CATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * * *
39068694 T--ATGTGGATTCATGTAAGACTATGTCGGGGACATGG
1 TAAATGTGCA-T-GTGTAAGACCATGTCTGGGACATGG
39068730 TATTGGTACT
Statistics
Matches: 245, Mismatches: 21, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
45 41 0.17
46 5 0.02
48 199 0.81
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (48 bp):
TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
Found at i:39072699 original size:27 final size:27
Alignment explanation
Indices: 39072668--39072845 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
39072658 TAAATTGTAC
39072668 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39072695 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39072721 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39072749 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39072777 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39072804 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
39072831 GGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39072846 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39072782 original size:82 final size:81
Alignment explanation
Indices: 39072669--39072824 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39072659 AAATTGTACA
* *
39072669 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39072733 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39072750 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39072815 TGCGAGTTGA
65 TGCGAATTGA
39072825 TTATATGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39072835 original size:82 final size:81
Alignment explanation
Indices: 39072669--39072845 Score: 230
Period size: 82 Copynumber: 2.2 Consensus size: 81
39072659 AAATTGTACA
* *
39072669 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
*
39072734 GCGAATTGACCATGCG
66 GCGAATTGACCATACG
** *
39072750 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* ** *
39072814 GTGCGAGTTGATTATATG
64 GTGCGAATTGACCATACG
*
39072832 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
39072846 GACTCAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
81 16 0.19
82 67 0.81
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATACG
Found at i:39099393 original size:37 final size:37
Alignment explanation
Indices: 39099343--39099421 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39099333 TTATTACGAA
* * *
39099343 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39099380 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39099417 GTCTT
1 GTCTT
39099422 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39099650 original size:47 final size:47
Alignment explanation
Indices: 39099539--39099996 Score: 853
Period size: 47 Copynumber: 9.7 Consensus size: 47
39099529 GCCCTTCGGG
*
39099539 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
39099589 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39099636 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39099683 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39099730 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39099777 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39099824 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39099871 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39099918 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39099965 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
39099997 ATACTATCAT
Statistics
Matches: 403, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
47 365 0.91
49 34 0.08
50 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:39099817 original size:22 final size:23
Alignment explanation
Indices: 39099784--39099958 Score: 70
Period size: 22 Copynumber: 7.5 Consensus size: 23
39099774 TACACTTTCA
39099784 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
39099807 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
39099831 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
39099854 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
39099878 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
* **** ***
39099901 CCTT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
39099925 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
39099948 CATT-ATCACAT
1 CATTCATCACAT
39099959 ATATACACTT
Statistics
Matches: 99, Mismatches: 44, Indels: 19
0.61 0.27 0.12
Matches are distributed among these distances:
22 28 0.28
23 27 0.27
24 23 0.23
25 21 0.21
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:39099840 original size:25 final size:24
Alignment explanation
Indices: 39099762--39099983 Score: 82
Period size: 25 Copynumber: 9.4 Consensus size: 24
39099752 CCATTAGGCC
39099762 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
39099786 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
39099809 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
39099833 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
39099856 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** *** *
39099880 TTCATCACAT-CGGCCA-TTAGGCC
1 TT-ATCACATATATACACTTTCACA
39099903 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
**** ***
39099927 TTCATCACAT-CGGCCA-TTAGGCA
1 TT-ATCACATATATACACTTTCACA
39099950 TTATCACATATATACACTTTCACA
1 TTATCACATATATACACTTTCACA
39099974 TTCATCACAT
1 TT-ATCACAT
39099984 CGGCCATTAG
Statistics
Matches: 127, Mismatches: 58, Indels: 25
0.60 0.28 0.12
Matches are distributed among these distances:
22 28 0.22
23 31 0.24
24 33 0.26
25 35 0.28
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (24 bp):
TTATCACATATATACACTTTCACA
Found at i:39103504 original size:40 final size:40
Alignment explanation
Indices: 39103460--39103682 Score: 243
Period size: 40 Copynumber: 5.6 Consensus size: 40
39103450 CCAACATGAT
* * * * * *
39103460 TGCTCTTCGGGACCTAGCCCGGGTATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*** * *
39103500 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
39103540 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
39103580 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * **
39103620 TGCTCTTTGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAA
* *
39103661 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
39103683 CATCATTCAA
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 147 0.91
41 8 0.05
42 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:39105361 original size:29 final size:29
Alignment explanation
Indices: 39105298--39105365 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
39105288 TAATCAACCG
39105298 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
39105327 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
39105356 CGCACACTTA
1 CGCACACTTA
39105366 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:39105478 original size:174 final size:174
Alignment explanation
Indices: 39105187--39105514 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
39105177 AACTCAAGGT
* *
39105187 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
39105252 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
39105317 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
39105361 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
39105426 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
39105491 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
39105515 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:39105506 original size:29 final size:30
Alignment explanation
Indices: 39105467--39105545 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
39105457 CTTAATAATC
39105467 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
39105497 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
39105526 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39105546 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:39107376 original size:29 final size:29
Alignment explanation
Indices: 39107337--39107415 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
39107327 CTTAATAATC
*
39107337 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
39107367 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
39107396 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39107416 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:39107458 original size:43 final size:43
Alignment explanation
Indices: 39107397--39107499 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
39107387 TGCATTTCAA
*
39107397 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
39107440 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
39107483 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
39107500 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
Found at i:39109050 original size:5 final size:5
Alignment explanation
Indices: 39109030--39109091 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
39109020 GCCGGGATCA
39109030 CTAA- CTAAT ACTAAT CTAAT CTAA- CTAAT ACTAAT CTAAT ACTAAT
1 CTAAT CTAAT -CTAAT CTAAT CTAAT CTAAT -CTAAT CTAAT -CTAAT
**
39109076 AGAAT ACTAAT CTAAT
1 CTAAT -CTAAT CTAAT
39109092 ATACATTAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
4 8 0.17
5 22 0.46
6 18 0.38
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.34
Consensus pattern (5 bp):
CTAAT
Found at i:39109055 original size:20 final size:21
Alignment explanation
Indices: 39109029--39109092 Score: 96
Period size: 20 Copynumber: 3.0 Consensus size: 21
39109019 AGCCGGGATC
39109029 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
39109050 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
39109070 ACTAA-TAGAATACTAATCTAAT
1 ACTAACT--AATACTAATCTAAT
39109092 A
1 A
39109093 TACATTAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
20 21 0.52
21 4 0.10
22 15 0.38
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:39109068 original size:11 final size:11
Alignment explanation
Indices: 39109029--39109092 Score: 89
Period size: 11 Copynumber: 6.1 Consensus size: 11
39109019 AGCCGGGATC
39109029 ACTAA-CTAAT
1 ACTAATCTAAT
39109039 ACTAATCTAAT
1 ACTAATCTAAT
39109050 -CTAA-CTAAT
1 ACTAATCTAAT
39109059 ACTAATCTAAT
1 ACTAATCTAAT
**
39109070 ACTAATAGAAT
1 ACTAATCTAAT
39109081 ACTAATCTAAT
1 ACTAATCTAAT
39109092 A
1 A
39109093 TACATTAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 5 0.11
10 13 0.28
11 29 0.62
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:39109700 original size:37 final size:37
Alignment explanation
Indices: 39109650--39109728 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39109640 TTATTACGAA
* * *
39109650 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39109687 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39109724 GTCTT
1 GTCTT
39109729 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39110006 original size:47 final size:47
Alignment explanation
Indices: 39109846--39110128 Score: 485
Period size: 47 Copynumber: 5.9 Consensus size: 47
39109836 GCCCTTCGGG
*
39109846 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
39109896 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
39109945 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39109992 ACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39110039 ACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39110086 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
39110129 CTCAAATTCA
Statistics
Matches: 228, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 141 0.62
49 83 0.36
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:39112444 original size:50 final size:50
Alignment explanation
Indices: 39112350--39112672 Score: 331
Period size: 50 Copynumber: 6.4 Consensus size: 50
39112340 AGGGGTGTCA
* * * * * *
39112350 TAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACT
1 TAGTACTACACACGTGACCTAACAATCCGATACACGTAGTAGCCTGCACT
* * * * *
39112400 TAGTACTACACACGTGACTTATCCATCCGATACACATAGGAGCCTGCACT
1 TAGTACTACACACGTGACCTAACAATCCGATACACGTAGTAGCCTGCACT
* * * *
39112450 TAGTACTACACATGCGACTTATCAATCCGATACACGTAGTAGCCTGCACT
1 TAGTACTACACACGTGACCTAACAATCCGATACACGTAGTAGCCTGCACT
* * * *
39112500 TAGTACTACACGCATGACCTAACCATCTGATACACGTAGTAGCCTGCACT
1 TAGTACTACACACGTGACCTAACAATCCGATACACGTAGTAGCCTGCACT
** * * * ** * *
39112550 TAGTACTACACACGTGATCAAAACTATCGGGTATGCATAGTAGCCTACACT
1 TAGTACTACACACGTGA-CCTAACAATCCGATACACGTAGTAGCCTGCACT
* * ** *
39112601 TAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGCCTGCACT
1 TAGTACTACACACGTGACCTAACAATCCGATACACGTAGTAGCCTGCACT
*
39112651 TAGTACAACACACGTGACCTAA
1 TAGTACTACACACGTGACCTAA
39112673 AACTGTCTTA
Statistics
Matches: 225, Mismatches: 47, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
50 186 0.83
51 39 0.17
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTACTACACACGTGACCTAACAATCCGATACACGTAGTAGCCTGCACT
Found at i:39112635 original size:101 final size:102
Alignment explanation
Indices: 39112386--39112716 Score: 313
Period size: 100 Copynumber: 3.3 Consensus size: 102
39112376 CTGGTACATG
* * * * * * * * *
39112386 TAGTAGCCTGCACTTAGTACTACACACG-TGACTTATCCATCCGATACACATAGGAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACATGCAGACCTAACAATCTGATACACGTAGTAGCCTGCACT
* * * * * *
39112450 TAGTACTACACATGCGACTTATCAA-T-CCG-AT-ACA
66 TAGTACAACACACGTGACCTA-AAACTATCGTATGACA
* *
39112484 CGTAGTAGCCTGCACTTAGTACTACAC--GCATGACCTAACCATCTGATACACGTAGTAGCCTGC
1 --TAGTAGCCTACACTTAGTACTACACATGCA-GACCTAACAATCTGATACACGTAGTAGCCTGC
* *
39112547 ACTTAGTACTACACACGTGATC-AAAACTATCGGGTATG-CA
63 ACTTAGTACAACACACGTGACCTAAAACTATC--GTATGACA
* *
39112587 TAGTAGCCTACACTTAGTACTACACATGC-GACCTAACAATTTGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACATGCAGACCTAACAATCTGATACACGTAGTAGCCTGCACT
* *
39112651 TAGTACAACACACGTGACCTAAAACTGTCTTATGCACA
66 TAGTACAACACACGTGACCTAAAACTATCGTATG-ACA
*
39112689 TAGTAGCCTACACATAGTACTACACATG
1 TAGTAGCCTACACTTAGTACTACACATG
39112717 TGTTCTCACA
Statistics
Matches: 197, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
98 3 0.02
99 2 0.01
100 75 0.38
101 73 0.37
102 38 0.19
103 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (102 bp):
TAGTAGCCTACACTTAGTACTACACATGCAGACCTAACAATCTGATACACGTAGTAGCCTGCACT
TAGTACAACACACGTGACCTAAAACTATCGTATGACA
Found at i:39112652 original size:151 final size:150
Alignment explanation
Indices: 39112365--39112714 Score: 414
Period size: 151 Copynumber: 2.3 Consensus size: 150
39112355 CTACACATGC
* * * ** *
39112365 GACCTATCAATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCCGA
1 GACCTAACAATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAAACCATCCGA
* * *
39112430 TACACATAGGAGCCTGCACTTAGTACTACACATGCGACTTATCAATCCGATACACGTAGTAGCCT
66 TACACATAGGAGCCTACACTTAGTACTACACATGCGACCTAACAATCCGATACACGTAGTAGCCT
* *
39112495 GCACTTAGTACTACACGCAT
131 GCACTTAGTACAACACACAT
* * *
39112515 GACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAACTATCGG
1 GACCTAACAATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CAAAACCATCCG
* ** * ** *
39112580 GTATGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGCC
65 ATACACATAGGAGCCTACACTTAGTACTACACATGCGACCTAACAATCCGATACACGTAGTAGCC
*
39112645 TGCACTTAGTACAACACACGT
130 TGCACTTAGTACAACACACAT
* * * * *
39112666 GACCTAA-AACTGTCTTATGCACATAGTAGCCTACACATAGTACTACACA
1 GACCTAACAA---TCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
39112715 TGTGTTCTCA
Statistics
Matches: 168, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
150 49 0.29
151 87 0.52
153 32 0.19
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (150 bp):
GACCTAACAATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAAACCATCCGA
TACACATAGGAGCCTACACTTAGTACTACACATGCGACCTAACAATCCGATACACGTAGTAGCCT
GCACTTAGTACAACACACAT
Found at i:39112728 original size:102 final size:100
Alignment explanation
Indices: 39112486--39112716 Score: 297
Period size: 101 Copynumber: 2.3 Consensus size: 100
39112476 CCGATACACG
* * * * *
39112486 TAGTAGCCTGCACTTAGTACTACAC--GCATGACCTAACCATCTGATACACGTAGTAGCCTGCAC
1 TAGTAGCCTACACATAGTACTACACATGC--GACCTAACAATTTGGTACACGTAGTAGCCTGCAC
* *
39112549 TTAGTACTACACACGTGATCAAAACTATCGGGTATGCA
64 TTAGTACAACACACGTGACCAAAACTATC-GGTATGCA
*
39112587 TAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACATAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGCCTGCACTT
* *
39112652 AGTACAACACACGTGACCTAAAACTGTC-TTATGCACA
66 AGTACAACACACGTGACC-AAAACTATCGGTATG--CA
39112689 TAGTAGCCTACACATAGTACTACACATG
1 TAGTAGCCTACACATAGTACTACACATG
39112717 TGTTCTCACA
Statistics
Matches: 116, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
100 4 0.03
101 73 0.63
102 37 0.32
103 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTACACATAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGCCTGCACTT
AGTACAACACACGTGACCAAAACTATCGGTATGCA
Found at i:39113210 original size:12 final size:12
Alignment explanation
Indices: 39113193--39113218 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39113183 GAACTTACCT
39113193 TGGGTTCGAGTA
1 TGGGTTCGAGTA
39113205 TGGGTTCGAGTA
1 TGGGTTCGAGTA
39113217 TG
1 TG
39113219 ACTATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.42, T:0.35
Consensus pattern (12 bp):
TGGGTTCGAGTA
Found at i:39126617 original size:27 final size:27
Alignment explanation
Indices: 39126577--39126717 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
39126567 AGGAAGCGTC
*
39126577 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
39126604 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
39126630 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
39126658 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
39126685 CTGGTGCCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
39126712 CTGGTG
1 CTGGTG
39126718 ATTTCGTCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:39126656 original size:54 final size:54
Alignment explanation
Indices: 39126574--39126717 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
39126564 TGGAGGAAGC
*
39126574 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
39126628 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
39126682 GTTCTGGTGCCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
39126718 ATTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:39126729 original size:81 final size:80
Alignment explanation
Indices: 39126577--39126735 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 80
39126567 AGGAAGCGTC
* *
39126577 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGCCTCTGCCACATATATCTGTCCTGGTGGATAT
39126642 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
39126658 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGCCTCTGCCACA-ATATCTGTATCTGGT-GA
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGCCTCTGCCACATATATCTGT-CCTGGTGGA
* *
39126719 TTTCGTCACAATATCTG
63 TAT-GCCACAATATCTG
39126736 GTAGCCTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
80 21 0.31
81 47 0.69
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGCCTCTGCCACATATATCTGTCCTGGTGGATAT
GCCACAATATCTGAT
Found at i:39149453 original size:46 final size:46
Alignment explanation
Indices: 39149308--39149528 Score: 245
Period size: 46 Copynumber: 4.7 Consensus size: 46
39149298 ATTTGTTTGT
* * * * *
39149308 GAGCTAGTGTAAGCCATGTATGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* *
39149354 GAGAC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAG-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
39149402 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
39149449 -AGCTAGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
*
39149494 TAGCTA-TGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
39149529 ACTTGAGATA
Statistics
Matches: 153, Mismatches: 12, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
45 10 0.07
46 84 0.55
47 35 0.23
48 23 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:39149537 original size:46 final size:48
Alignment explanation
Indices: 39149359--39149576 Score: 220
Period size: 46 Copynumber: 4.7 Consensus size: 48
39149349 TATGAGAGAC
* * *
39149359 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGACGATAAGCT
*
39149407 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGACGATAAGCT
* * *
39149453 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACGAGATGAT-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGACGATAAGCT
* * * *
39149499 A-TGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGATAAGCT
* * *
39149545 AATGTAAGACTATGTATGGGACATGGCATCGA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA
39149577 TACCTTACCC
Statistics
Matches: 149, Mismatches: 13, Indels: 17
0.83 0.07 0.09
Matches are distributed among these distances:
45 12 0.08
46 76 0.51
47 52 0.35
48 9 0.06
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGATAAGCT
Found at i:39149551 original size:92 final size:92
Alignment explanation
Indices: 39149308--39149575 Score: 242
Period size: 92 Copynumber: 2.9 Consensus size: 92
39149298 ATTTGTTTGT
* * * * * *
39149308 GAGCTAGTGTAAGCCATGTATGGGACATGCATCGG-C-C-ACATTATGAGAGACAGTGTAAGACC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGA-CAT-A-AGCCAATGTAAGA-C
*
39149370 ATGTCTGGGACATGGCATCGGCATTGAGACGA
62 ATGTCTGGGACAT-GCATCGGCATCGAGACGA
* * * *
39149402 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCTAGTGTAAGACATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATAAGCCAATGTAAGACATGT
* *
39149467 CTGGGACATGCATTGGC-TACGAGATGA
66 CTGGGACATGCATCGGCAT-CGAGACGA
* * * *
39149494 TAGCTA-TGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATATGAGCCAATGTAAGACTA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGAGACATAAGCCAATGTAAGAC-A
*
39149557 TGTATGGGACATGGCATCG
63 TGTCTGGGACAT-GCATCG
39149576 ATACCTTACC
Statistics
Matches: 146, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
91 8 0.05
92 52 0.36
93 31 0.21
94 49 0.34
95 2 0.01
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (92 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACATAAGCCAATGTAAGACATGT
CTGGGACATGCATCGGCATCGAGACGA
Found at i:39152309 original size:40 final size:40
Alignment explanation
Indices: 39152276--39152545 Score: 402
Period size: 40 Copynumber: 6.8 Consensus size: 40
39152266 GGATATAGCT
* *
39152276 ACTCGCTCAAATGCCTTCGAGACTTAGCCCGG-ATATAGT-
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
* * *
39152315 AGTTCACACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 A-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
*
39152356 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39152396 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39152436 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39152476 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39152516 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
39152546 CGTTATCGTC
Statistics
Matches: 218, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 214 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
Found at i:39159903 original size:22 final size:22
Alignment explanation
Indices: 39159878--39160000 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
39159868 AAGTGTATGT
39159878 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
39159900 ATGTGATGAATGTGAAAGTGTATG
1 ATGTGAT-AAGGCCTAA-TGGCCG
39159924 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGCCTAATGGCCG
* *** ***
39159947 ATGTGATGAATGTGAAAGTGTATG
1 ATGTGAT-AAGGCCTAA-TGGCCG
39159971 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGCCTAATGGCCG
39159994 ATGTGAT
1 ATGTGAT
39160001 GAATGTGAAA
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
22 21 0.31
23 16 0.24
24 16 0.24
25 14 0.21
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:39159933 original size:47 final size:47
Alignment explanation
Indices: 39159864--39160314 Score: 740
Period size: 47 Copynumber: 9.5 Consensus size: 47
39159854 GTGTGTATAC
*
39159864 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39159911 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39159958 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
39160005 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39160052 GCGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39160101 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39160148 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39160197 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
39160244 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39160291 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
39160315 TCCCGAAGGG
Statistics
Matches: 385, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 294 0.76
49 91 0.24
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:39160124 original size:143 final size:141
Alignment explanation
Indices: 39159864--39160314 Score: 740
Period size: 143 Copynumber: 3.2 Consensus size: 141
39159854 GTGTGTATAC
* *
39159864 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
39159929 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCG
66 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39159994 ATGTGATGAAT
131 ATGTGATGAAT
* * *
39160005 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAATGCGAAAGTGTATATATAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
39160070 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
64 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
39160135 CGATGTGATGAAT
129 CGATGTGATGAAT
39160148 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * *
39160213 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
64 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * *
39160278 CAACGTGATGGAT
129 CGATGTGATGAAT
*
39160291 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
39160315 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 15, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
141 68 0.23
143 179 0.62
145 44 0.15
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAAT
Found at i:39160132 original size:96 final size:94
Alignment explanation
Indices: 39159864--39160314 Score: 740
Period size: 96 Copynumber: 4.8 Consensus size: 94
39159854 GTGTGTATAC
* *
39159864 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
39159929 GATAAGGCCTAATGGCCGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
* *
39159958 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
39160023 GATAAGGCCTAATGGCTGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
*
39160052 GCGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
39160117 GTGATAAGGCCTAATGGCCGATGTGATGAAT
64 GTGATAAGGCCTAATGGCCGATGTGATGAAT
39160148 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
39160213 GTGATAAGGCCTAATGGCCGATGTGATGAAT
64 GTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * *
39160244 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
39160309 GATAAG
66 GATAAG
39160315 TCCCGAAGGG
Statistics
Matches: 341, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
94 155 0.45
96 186 0.55
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (94 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:39162426 original size:39 final size:39
Alignment explanation
Indices: 39162355--39162429 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
39162345 ACTAAGATCC
* * *
39162355 GAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCAT
1 GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCAT
*
39162394 GAAGGCATTGGTGTGAGTTACT-ATAACCGGGCTAAG
1 GAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG
39162430 TCCCGAAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (39 bp):
GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCAT
Found at i:39162467 original size:40 final size:40
Alignment explanation
Indices: 39162420--39162654 Score: 317
Period size: 40 Copynumber: 5.9 Consensus size: 40
39162410 GTTACTATAA
39162420 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* *
39162460 CCGGGCTAAGTTCCGAAGAGCATTCATACTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
*
39162500 CCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
39162540 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* ** * * * *
39162580 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * * *
39162620 CCGAGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
39162655 CGTGTATTCG
Statistics
Matches: 177, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
Found at i:39162846 original size:25 final size:25
Alignment explanation
Indices: 39162816--39162866 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
39162806 TGTGTAATAA
39162816 GAATGAATAAGA-GCACTATGTGTGT
1 GAATG-ATAAGAGGCACTATGTGTGT
* *
39162841 GAATGATTAGAGGCACTGTGTGTGT
1 GAATGATAAGAGGCACTATGTGTGT
39162866 G
1 G
39162867 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.29
Consensus pattern (25 bp):
GAATGATAAGAGGCACTATGTGTGT
Found at i:39166106 original size:46 final size:47
Alignment explanation
Indices: 39166005--39166434 Score: 660
Period size: 46 Copynumber: 9.5 Consensus size: 47
39165995 GTGTGTATAC
*
39166005 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39166052 GTGAAAGTGTATGTATGTGATAAGGCCTAATGG-CGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39166098 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39166145 GTGAAAGTGTATGTATGTGATAAGGCCTAATGG-CGA--TGATG-AT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39166188 G-G-AAGTG--TATATGTGATAAGG-CTAATGG-CGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39166229 G-GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39166275 G-GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39166321 G-GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
39166367 GTGAAAGTGTATATATGTGA-CAGGCC-GATGGCC-ACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39166411 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
39166435 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 7, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
38 10 0.03
39 13 0.04
40 5 0.01
41 9 0.02
42 6 0.02
43 3 0.01
44 47 0.13
45 15 0.04
46 160 0.44
47 97 0.27
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:39166114 original size:93 final size:94
Alignment explanation
Indices: 39166005--39166434 Score: 660
Period size: 93 Copynumber: 4.8 Consensus size: 94
39165995 GTGTGTATAC
* *
39166005 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
39166070 GATAAGGCCTAATGG-CGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
* *
39166098 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
39166163 GATAAGGCCTAATGG-CGA--TGATG-AT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
39166188 G-G-AAGTG--TATATGTGATAAGG-CTAATGG-CGATGTGATGAATG-GAAAGTGTATATATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
39166246 GATAAGGCCTAATGGCCGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
39166275 G-GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG-GAAAGTGTATATATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
39166338 GATAAGGCCTAATGGCCGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
* * * * *
39166367 GTGAAAGTGTATATATGTGA-CAGGCC-GATGGCC-ACGTGATGGATGTGAAAGTGTATAAATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
39166429 GATAAG
66 GATAAG
39166435 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 7, Indels: 24
0.91 0.02 0.07
Matches are distributed among these distances:
83 30 0.09
84 17 0.05
85 7 0.02
86 18 0.06
87 4 0.01
88 10 0.03
89 1 0.00
90 27 0.08
91 39 0.12
92 65 0.20
93 101 0.32
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (94 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:39168517 original size:39 final size:39
Alignment explanation
Indices: 39168446--39168520 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
39168436 ACTAAGATCC
* * *
39168446 GAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCAT
1 GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCAT
*
39168485 GAAGGCATTGGTGTGAGTTACT-ATAACCGGGCTAAG
1 GAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG
39168521 TCCCGAAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (39 bp):
GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCAT
Found at i:39168558 original size:40 final size:40
Alignment explanation
Indices: 39168511--39168745 Score: 317
Period size: 40 Copynumber: 5.9 Consensus size: 40
39168501 GTTACTATAA
39168511 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* *
39168551 CCGGGCTAAGTTCCGAAGAGCATTCATACTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
*
39168591 CCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
39168631 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* ** * * * *
39168671 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * * *
39168711 CCGAGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
39168746 CGTGTATTCG
Statistics
Matches: 177, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
Found at i:39172165 original size:47 final size:47
Alignment explanation
Indices: 39172096--39172235 Score: 232
Period size: 47 Copynumber: 3.0 Consensus size: 47
39172086 GTGTGTATAC
*
39172096 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39172143 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAAT
1 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
39172190 GTGAAAGTGTATGTATGTGAT-A-GCCTAATGG-CGATGTGATGTAT
1 GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39172234 GT
1 GT
39172236 ATTGATAGCC
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
44 13 0.15
45 9 0.10
46 1 0.01
47 66 0.74
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.32
Consensus pattern (47 bp):
GTGAAAGTGTATGTATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:39172185 original size:22 final size:22
Alignment explanation
Indices: 39172110--39172185 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
39172100 AAGTGTATAT
*
39172110 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCTG
* *** **
39172132 ATGTGATGAATGTGAAAGTGTATG
1 ATGTGAT-AAGGCCTAA-TGGCTG
39172156 TATGTGATAAGGCCTAATGGCTG
1 -ATGTGATAAGGCCTAATGGCTG
39172179 ATGTGAT
1 ATGTGAT
39172186 GAATGTGAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 14 0.37
23 9 0.24
24 8 0.21
25 7 0.18
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCTG
Found at i:39172228 original size:19 final size:19
Alignment explanation
Indices: 39172204--39172260 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
39172194 AAGTGTATGT
39172204 ATGTGATAGCCTAATGGCG
1 ATGTGATAGCCTAATGGCG
*
39172223 ATGTGAT-G--T-AT-G-T
1 ATGTGATAGCCTAATGGCG
39172236 AT-TGATAGCCTAATGGCG
1 ATGTGATAGCCTAATGGCG
39172254 ATGTGAT
1 ATGTGAT
39172261 GAATGTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
12 4 0.14
13 3 0.10
14 1 0.03
15 3 0.10
16 3 0.10
17 1 0.03
18 3 0.10
19 11 0.38
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (19 bp):
ATGTGATAGCCTAATGGCG
Found at i:39172245 original size:31 final size:32
Alignment explanation
Indices: 39172197--39172266 Score: 124
Period size: 31 Copynumber: 2.2 Consensus size: 32
39172187 AATGTGAAAG
39172197 TGTATGTATGTGATAGCCTAATGGCGATGTGA
1 TGTATGTATGTGATAGCCTAATGGCGATGTGA
39172229 TGTATGTAT-TGATAGCCTAATGGCGATGTGA
1 TGTATGTATGTGATAGCCTAATGGCGATGTGA
*
39172260 TGAATGT
1 TGTATGT
39172267 GAAAGTGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 28 0.76
32 9 0.24
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.36
Consensus pattern (32 bp):
TGTATGTATGTGATAGCCTAATGGCGATGTGA
Found at i:39172257 original size:75 final size:82
Alignment explanation
Indices: 39172150--39172308 Score: 269
Period size: 75 Copynumber: 2.0 Consensus size: 82
39172140 AATGTGAAAG
39172150 TGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATGTATGTGAT-A-G
1 TGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
39172213 CCTAATGGC-GATGTGA
66 CCTAATGGCTGATGTGA
39172229 TGTATGTAT-TGAT-A-GCCTAATGGC-GATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
1 TGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
39172290 CCTAATGGCTGATGTGA
66 CCTAATGGCTGATGTGA
39172307 TG
1 TG
39172309 AATGCGAAAG
Statistics
Matches: 77, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
75 33 0.43
76 11 0.14
77 11 0.14
78 13 0.17
79 9 0.12
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.33
Consensus pattern (82 bp):
TGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
CCTAATGGCTGATGTGA
Found at i:39172304 original size:47 final size:47
Alignment explanation
Indices: 39172243--39172525 Score: 478
Period size: 47 Copynumber: 6.0 Consensus size: 47
39172233 TGTATTGATA
* *
39172243 GCCTAATGG-CGATGTGATGAATGTGAAAGTGTATGTATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
*
39172289 GCCTAATGGCTGATGTGATGAATGCGAAAGTGTATATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGCGAAAGTG--TATATATGTGATAAG
39172338 GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
39172385 GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
*
39172432 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
* * *
39172479 GCCTAATGGCCGATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
39172526 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
46 9 0.04
47 173 0.76
49 45 0.20
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAG
Found at i:39172356 original size:22 final size:22
Alignment explanation
Indices: 39172328--39172450 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
39172318 GTGTATATAT
39172328 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* ** ****
39172350 ATGTGATGAATGCGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
39172375 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* ** ****
39172397 ATGTGATGAATGCGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
39172422 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
39172444 ATGTGAT
1 ATGTGAT
39172451 GAATGTGAAA
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
22 21 0.31
23 16 0.24
24 16 0.24
25 14 0.21
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:39176968 original size:40 final size:40
Alignment explanation
Indices: 39176936--39177205 Score: 366
Period size: 40 Copynumber: 6.8 Consensus size: 40
39176926 GGATATAGCT
*
39176936 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
* * * *
39176975 AGATCGCACAACTGCCTTCGGGACTTAGCTCGG-ATATAGTA
1 A-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTC
*
39177016 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
* * *
39177056 ACTCACACAAATGCCTTCGGGACTTAGCCCTGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39177096 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
* * *
39177136 ACTAGCACAAATGCCTTTGGGACGTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
*
39177176 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
39177206 TGTTATCATC
Statistics
Matches: 209, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.00
40 205 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
Found at i:39179488 original size:53 final size:53
Alignment explanation
Indices: 39179410--39179608 Score: 274
Period size: 53 Copynumber: 3.8 Consensus size: 53
39179400 TAAGAAAGCT
* *
39179410 TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTCTAAAAGGACTCT
1 TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTCTAAAAGGACGCC
* *
39179463 TTTGTGGCTAGCTCTGAAAGGAAGCCTTTGTGGCTAATCTCTAAAAGGACGCC
1 TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTCTAAAAGGACGCC
* * * * *
39179516 TTTGTGGCTATCTTTGAAAGAAAGCCTTTATAGCT-ATCTTTAAAAGGAAGCC
1 TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTCTAAAAGGACGCC
* * *
39179568 TTTGTGGCTAATATCTAAAAGGAAGCCTTTATGGTTAATCT
1 TTTGTGGCT-ATCTCTGAAAGGAAGCCTTTATGGCTAATCT
39179609 ATGTTAAAGA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
52 24 0.19
53 99 0.78
54 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (53 bp):
TTTGTGGCTATCTCTGAAAGGAAGCCTTTATGGCTAATCTCTAAAAGGACGCC
Done.