Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 105 of 172
Found at i:35155755 original size:42 final size:42
Alignment explanation
Indices: 35155696--35155842 Score: 179
Period size: 42 Copynumber: 3.5 Consensus size: 42
35155686 TACAATGCCA
*
35155696 ATGTCCCAGCCATGGTCTTATACGTAAATCTCATCGAGGCCT
1 ATGTCCCAGACATGGTCTTATACGTAAATCTCATCGAGGCCT
* * ** * *
35155738 ATGTCCCAGACATGGTCTTACATG-AAATCAGATACGATGCCG
1 ATGTCCCAGACATGGTCTTATACGTAAATCTCAT-CGAGGCCT
*
35155780 ATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCAT
1 ATGTCCCAGACATGGTCTTATACGTAAATCTC-ATCGAGGCCT
* *
35155823 GTGACCCAGACATGGTCTTA
1 ATGTCCCAGACATGGTCTTA
35155843 CACGATGTCT
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 7 0.08
42 49 0.57
43 28 0.33
44 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTATACGTAAATCTCATCGAGGCCT
Found at i:35163109 original size:42 final size:42
Alignment explanation
Indices: 35163042--35163196 Score: 127
Period size: 42 Copynumber: 3.7 Consensus size: 42
35163032 AATTCAATAT
** * *
35163042 CGATGCCTCTGTCCCAAACAGGGTCTTACACGAAATCAGATA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
* * *
35163084 CGATACCGATCTCCCAGACATGGTCTTATACGTAAATCCCA-AT-
1 CGATGCCGATGTCCCAGACATGGTCTTACACG-AAAT--CAGATA
* * * *
35163127 TGAGGCC-ATTGTCCTAGACACGGTCTTACACGAAATCAGATA
1 CGATGCCGA-TGTCCCAGACATGGTCTTACACGAAATCAGATA
* * *
35163169 CAATGCTGATGTTCCAGACATGGTCTTA
1 CGATGCCGATGTCCCAGACATGGTCTTA
35163197 TAAGTAAATC
Statistics
Matches: 85, Mismatches: 21, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 49 0.58
43 28 0.33
44 2 0.02
45 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
Found at i:35163162 original size:85 final size:85
Alignment explanation
Indices: 35163040--35163242 Score: 255
Period size: 85 Copynumber: 2.4 Consensus size: 85
35163030 GTAATTCAAT
* * * * *
35163040 ATCGATGCCTCTGTCCCAAACAGGGTCTTACACGAAATCAGATACGATACCGATCTCCCAGACAT
1 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACAATACCGATCTCCCAGACAT
*
35163105 GGTCTTATACGTAAATCCCA
66 GGTCTTATAAGTAAATCCCA
* * * * * *
35163125 ATTGAGGCCAT-TGTCCTAGACACGGTCTTACACGAAATCAGATACAATGCTGATGTTCCAGACA
1 ATCGAGGCC-TGTGTCCCAGACACGGTCTTACACGAAATCAGATACAATACCGATCTCCCAGACA
*
35163189 TGGTCTTATAAGTAAATCTCA
65 TGGTCTTATAAGTAAATCCCA
**
35163210 ATCGAGGCCTGTGTCCCAGACATAGTCTTACAC
1 ATCGAGGCCTGTGTCCCAGACACGGTCTTACAC
35163243 AATGTCTTAG
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
84 1 0.01
85 98 0.98
86 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACAATACCGATCTCCCAGACAT
GGTCTTATAAGTAAATCCCA
Found at i:35163230 original size:43 final size:43
Alignment explanation
Indices: 35163095--35163239 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
35163085 GATACCGATC
* *
35163095 TCCCAGACATGGTCTTATACGTAAATCCCAATTGAGGCCAT-TG
1 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCC-TGTG
* * * * *
35163138 TCCTAGACACGGTCTTACACG-AAA--TCAGATACAATG-CTGATG
1 TCCCAGACATGGTCTTATACGTAAATCTCA-AT-CGAGGCCTG-TG
* *
35163180 TTCCAGACATGGTCTTATAAGTAAATCTCAATCGAGGCCTGTG
1 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTG
*
35163223 TCCCAGACATAGTCTTA
1 TCCCAGACATGGTCTTA
35163240 CACAATGTCT
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 23 0.29
43 41 0.53
44 5 0.06
45 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTG
Found at i:35166253 original size:43 final size:43
Alignment explanation
Indices: 35166192--35166423 Score: 340
Period size: 43 Copynumber: 5.4 Consensus size: 43
35166182 AAAGCGCCAT
35166192 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
* **
35166235 TAAAGAACATGACTTTTAGCGGTACTTTTCCCACAAACGCCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
* *
35166278 TAAAGAACAGGACCTTTAGCGGCGCTTTTCCCACAAACGCTGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
* * * * *
35166321 TAAAGAGCATGACCTTTAGCGGTGCTTTTCCCACAAATGCTGT
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
* * *
35166364 TATAGAACAT-ACCTTTAGCGGCGCTTTTTCCACAAACGTCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
35166406 TAAAGAACATGACCTTTA
1 TAAAGAACATGACCTTTA
35166424 AAAAAATATT
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 35 0.21
43 131 0.79
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
Found at i:35166598 original size:34 final size:35
Alignment explanation
Indices: 35166560--35166625 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
35166550 CTATTAAAAT
*
35166560 TTTAACTTTAAAAC-TAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAACTTAAA-ATAAGAAATTAATGAA
*
35166594 TTTAAATTTAGAACTTAAAATAAGAAATTAAT
1 TTTAAATTTAAAACTTAAAATAAGAAATTAAT
35166626 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (35 bp):
TTTAAATTTAAAACTTAAAATAAGAAATTAATGAA
Found at i:35173069 original size:72 final size:72
Alignment explanation
Indices: 35172952--35173279 Score: 638
Period size: 72 Copynumber: 4.6 Consensus size: 72
35172942 ACAACTTGAC
*
35172952 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
35173017 ACTAACA
66 ACTAACA
*
35173024 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
35173089 ACTAACA
66 ACTAACA
35173096 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
35173161 ACTAACA
66 ACTAACA
35173168 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
35173233 ACTAACA
66 ACTAACA
35173240 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
35173280 AATAATAATA
Statistics
Matches: 255, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 255 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:35173288 original size:3 final size:3
Alignment explanation
Indices: 35173280--35173305 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35173270 ATTACATCCA
35173280 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
35173306 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35179053 original size:17 final size:18
Alignment explanation
Indices: 35179021--35179060 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
35179011 CGTCACTGTC
35179021 ACTCTTAGAGCATGAACT
1 ACTCTTAGAGCATGAACT
*
35179039 ACTCTTCGA-CATGAACT
1 ACTCTTAGAGCATGAACT
35179056 ACTCT
1 ACTCT
35179061 AGCCTATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (18 bp):
ACTCTTAGAGCATGAACT
Found at i:35181412 original size:16 final size:16
Alignment explanation
Indices: 35181388--35181418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35181378 TTGAAAATTA
35181388 TTTAAAATTTGAAATC
1 TTTAAAATTTGAAATC
*
35181404 TTTAGAATTTGAAAT
1 TTTAAAATTTGAAAT
35181419 TATTTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (16 bp):
TTTAAAATTTGAAATC
Found at i:35181412 original size:26 final size:25
Alignment explanation
Indices: 35181356--35181412 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
35181346 AATATTTAAA
35181356 AGAATTAGATAAAATTGAAATCTTG
1 AGAATTAGATAAAATTGAAATCTTG
* ** *
35181381 AAAATTATTTAAAATTTGAAATCTTT
1 AGAATTAGATAAAA-TTGAAATCTTG
35181407 AGAATT
1 AGAATT
35181413 TGAAATTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.39
Consensus pattern (25 bp):
AGAATTAGATAAAATTGAAATCTTG
Found at i:35181602 original size:15 final size:15
Alignment explanation
Indices: 35181582--35181635 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
35181572 CCATAAAATA
35181582 TAAACCTTAAACCCC
1 TAAACCTTAAACCCC
*
35181597 TAAACCTCTAAA-CCT
1 TAAACCT-TAAACCCC
* *
35181612 TAAA-CATCAACCCC
1 TAAACCTTAAACCCC
35181626 TAAACCTTAA
1 TAAACCTTAA
35181636 CCTGTAACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 3 0.10
14 7 0.23
15 16 0.53
16 4 0.13
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCTTAAACCCC
Found at i:35182653 original size:39 final size:39
Alignment explanation
Indices: 35182570--35182666 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
35182560 TGAAACTAAT
*
35182570 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
35182608 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
35182647 TTCCAGCACGTAGCCTGCGG
1 TACCAGCACGAAGCCTGCGG
35182667 ACCTTAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 14 0.29
39 35 0.71
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:35182690 original size:39 final size:38
Alignment explanation
Indices: 35182599--35182715 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
35182589 GAATTTAAAC
* * * * *
35182599 CCGGTATAATACCAGCTCGAAGCCTGCGGGA-CTTTAGC
1 CCGGTATAATTCCAGCACGTAGCCTGC-GGACCTTAAGT
* *
35182637 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGG-TATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
* *
35182676 CCGGTTATAATTCCAGCACATAGCATGCGGACCTTAAGT
1 CCGG-TATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
35182715 C
1 C
35182716 TGGATAAACA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 7 0.11
39 58 0.89
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (38 bp):
CCGGTATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
Found at i:35190813 original size:39 final size:39
Alignment explanation
Indices: 35190730--35190826 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
35190720 TGAAACCAAT
*
35190730 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
35190768 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
35190807 TTCCAGCACGTAGCCTGCGG
1 TACCAGCACGAAGCCTGCGG
35190827 CCCTTAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 14 0.29
39 35 0.71
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:35193259 original size:14 final size:14
Alignment explanation
Indices: 35193215--35193253 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
35193205 TCCTAAACCT
*
35193215 TAAACCTTAAATCA
1 TAAACCCTAAATCA
*
35193229 TATACCCTAAATCA
1 TAAACCCTAAATCA
35193243 TAAACCCTAAA
1 TAAACCCTAAA
35193254 CTATAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:35193739 original size:75 final size:75
Alignment explanation
Indices: 35193604--35193780 Score: 246
Period size: 75 Copynumber: 2.4 Consensus size: 75
35193594 GATCTATAGC
* * * *
35193604 GGCGTTTTTCAAAAAGCGCCGCTAGTGCCACTAAAGCTCAACATAAAATAACGACATTGTGCTTA
1 GGCGTTTTTCAAAAAGTGTCGCTAATGCCACTAAAGCTCAACATAAAACAACGACATTGTGCTTA
35193669 ATTTTTTTGA
66 ATTTTTTTGA
* * * *
35193679 GGCGTTTTTCAAAAAGTGTCTCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTA
1 GGCGTTTTTCAAAAAGTGTCGCTAATGCCACTAAAGCTCAACATAAAACAACGACATTGTGCTTA
*
35193744 ATTTTTTTGC
66 ATTTTTTTGA
* **
35193754 GGCATTTTTTGAAAAGTGTCGCTAATG
1 GGCGTTTTTCAAAAAGTGTCGCTAATG
35193781 GTCAACCTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 89 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (75 bp):
GGCGTTTTTCAAAAAGTGTCGCTAATGCCACTAAAGCTCAACATAAAACAACGACATTGTGCTTA
ATTTTTTTGA
Found at i:35195124 original size:3 final size:3
Alignment explanation
Indices: 35195116--35195168 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
35195106 ATTATATCTT
* *
35195116 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35195164 ATA AT
1 ATA AT
35195169 TATTATTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35195667 original size:15 final size:16
Alignment explanation
Indices: 35195647--35195676 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35195637 TACAATTGTC
35195647 CACATATA-TTTATTA
1 CACATATAGTTTATTA
35195662 CACATATAGTTTATT
1 CACATATAGTTTATT
35195677 TATAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (16 bp):
CACATATAGTTTATTA
Found at i:35195691 original size:5 final size:5
Alignment explanation
Indices: 35195681--35195847 Score: 325
Period size: 5 Copynumber: 33.4 Consensus size: 5
35195671 TTTATTTATA
35195681 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
35195731 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
35195781 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
35195831 ATAAT ATAAT TTAAT AT
1 ATAAT ATAAT ATAAT AT
35195848 TTAATCAACA
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 160 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:35201245 original size:28 final size:28
Alignment explanation
Indices: 35201214--35201276 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
35201204 GTGTCTCAAT
35201214 CGTGTGTGACACACGTCAAGTACACTGC
1 CGTGTGTGACACACGTCAAGTACACTGC
35201242 CGTGTGTGACACACGTCAAGTACACTGC
1 CGTGTGTGACACACGTCAAGTACACTGC
35201270 CGTGTGT
1 CGTGTGT
35201277 CCCCTGGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (28 bp):
CGTGTGTGACACACGTCAAGTACACTGC
Found at i:35217551 original size:34 final size:32
Alignment explanation
Indices: 35217482--35217565 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 32
35217472 TGGGTTTTGG
*
35217482 TGTTATATAT-AATATATATTGCGTGCATGGG
1 TGTTATATATAAATATATATTGCGTGCATGGA
*
35217513 TGTTATATATAAAATATATATTTGGGTGCATGGA
1 TGTTATATAT-AAATATATA-TTGCGTGCATGGA
*
35217547 TGTTATATGTATAATATAT
1 TGTTATATATA-AATATAT
35217566 TTGTGTTGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.22
33 9 0.20
34 27 0.59
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (32 bp):
TGTTATATATAAATATATATTGCGTGCATGGA
Found at i:35218056 original size:64 final size:63
Alignment explanation
Indices: 35217955--35218077 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 63
35217945 CGTGTGCTAG
* *
35217955 GCCGTGTGAAGCTACTGGCTTGATTTCTATAGAAGTATCAAGGGACACACGGATGTGTCATCTA
1 GCCGTGTGAAGCTACTGACTTGATTTCTATAGAAGTATCAAGGGACACACCG-TGTGTCATCTA
*
35218019 GCCGTGTGAAGCTACTGACTTGATTTCTATAGAAGTATCAGGGGACACACCGTGTGTCA
1 GCCGTGTGAAGCTACTGACTTGATTTCTATAGAAGTATCAAGGGACACACCGTGTGTCA
35218078 CATATGGCTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 7 0.12
64 49 0.88
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (63 bp):
GCCGTGTGAAGCTACTGACTTGATTTCTATAGAAGTATCAAGGGACACACCGTGTGTCATCTA
Found at i:35219152 original size:25 final size:25
Alignment explanation
Indices: 35219131--35219180 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
35219121 CTTCGAGCTT
35219131 AAAATCGGTAAGCTCATACGAGTTG
1 AAAATCGGTAAGCTCATACGAGTTG
* *
35219156 CAAATTGGTAAGCTCATACGAGTTG
1 AAAATCGGTAAGCTCATACGAGTTG
35219181 TGGTGAGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAATCGGTAAGCTCATACGAGTTG
Found at i:35228404 original size:27 final size:27
Alignment explanation
Indices: 35228374--35228579 Score: 189
Period size: 27 Copynumber: 7.3 Consensus size: 27
35228364 TACTGAAATG
*
35228374 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35228401 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
35228428 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
35228455 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
35228482 CCCTCGATTTACAGAATTACAGAATTACAGTTTTA
1 CCCTCGATTTATAGAATTAC-------CA-TTTTA
* * *
35228517 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
35228544 CCCTC-AGTTTACAAAATTGCCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
35228571 CCCTCGATT
1 CCCTCGATT
35228580 GTGAAATTAC
Statistics
Matches: 152, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.01
27 123 0.81
28 3 0.02
34 2 0.01
35 23 0.15
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:35228506 original size:35 final size:35
Alignment explanation
Indices: 35228467--35228535 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
35228457 CTCGATTTAT
*
35228467 AGAATTACCA-TTTTACCCTCGATTTACAGAATTAC
1 AGAATTA-CAGTTTTACCCTCGATTTACAAAATTAC
35228502 AGAATTACAGTTTTACCCTCGATTTACAAAATTA
1 AGAATTACAGTTTTACCCTCGATTTACAAAATTA
35228536 TCATTTTACC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (35 bp):
AGAATTACAGTTTTACCCTCGATTTACAAAATTAC
Found at i:35228508 original size:62 final size:62
Alignment explanation
Indices: 35228436--35228561 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 62
35228426 CACCCTCGAT
* * *
35228436 TTACAAAATTATC-GTTTTACCCTCGATTTATAGAATTACCATTTTACCCTC-GATTTACAGAA
1 TTACAAAATTA-CAGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAG-TTTACAAAA
* *
35228498 TTACAGAATTACAGTTTTACCCTCGATTTACAAAATTATCATTTTACCCTCAGTTTACAAAA
1 TTACAAAATTACAGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAA
35228560 TT
1 TT
35228562 GCCGTTTTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 1 0.02
62 55 0.96
63 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (62 bp):
TTACAAAATTACAGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAA
Found at i:35228543 original size:89 final size:89
Alignment explanation
Indices: 35228413--35228579 Score: 255
Period size: 89 Copynumber: 1.9 Consensus size: 89
35228403 CTCGATTTAT
* * * *
35228413 AGAATTACCGTTTCACCCTCGATTTACAAAATTATCGTTTTACCCTC-GATTTATAGAATTACCA
1 AGAATTACAGTTTCACCCTCGATTTACAAAATTATCATTTTACCCTCAG-TTTACAAAATTACCA
35228477 TTTTACCCTCGATTTACAGAATTAC
65 TTTTACCCTCGATTTACAGAATTAC
* * *
35228502 AGAATTACAGTTTTACCCTCGATTTACAAAATTATCATTTTACCCTCAGTTTACAAAATTGCCGT
1 AGAATTACAGTTTCACCCTCGATTTACAAAATTATCATTTTACCCTCAGTTTACAAAATTACCAT
35228567 TTTACCCTCGATT
66 TTTACCCTCGATT
35228580 GTGAAATTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
89 69 0.99
90 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (89 bp):
AGAATTACAGTTTCACCCTCGATTTACAAAATTATCATTTTACCCTCAGTTTACAAAATTACCAT
TTTACCCTCGATTTACAGAATTAC
Found at i:35228641 original size:27 final size:27
Alignment explanation
Indices: 35228611--35228734 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
35228601 TGTAGGATAG
35228611 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
35228638 AATTACCGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
35228665 AATTACTAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
35228692 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
35228719 AATTACAAAAATACCC
1 AATTACCAAAATACCC
35228735 TTGACTTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 74 0.91
28 4 0.05
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:35228650 original size:54 final size:52
Alignment explanation
Indices: 35228569--35228707 Score: 131
Period size: 54 Copynumber: 2.6 Consensus size: 52
35228559 ATTGCCGTTT
* * *
35228569 TACCCTCGA-TTGTGAAATTACTGAAATACTCCTGTAGGAT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCGAAATAC-CCTGTAGG-TGA-AATTACCAAAA
* ** *
35228622 TACCC-CTAGTTTGTAAAATTACCGAAATACCACTAGTTTGTGAAATTACTAAAA
1 TACCCTC-AATTTGTAAAATTACCGAAATACC-CT-GTAGGTGAAATTACCAAAA
*
35228676 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCGAAATACCC
35228708 CTGATTTACA
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
52 1 0.01
53 7 0.10
54 58 0.82
55 5 0.07
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (52 bp):
TACCCTCAATTTGTAAAATTACCGAAATACCCTGTAGGTGAAATTACCAAAA
Found at i:35228722 original size:54 final size:55
Alignment explanation
Indices: 35228611--35228811 Score: 187
Period size: 54 Copynumber: 3.7 Consensus size: 55
35228601 TGTAGGATAG
* * * ***
35228611 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCGAAATACCACT-AGTTTGTGA
1 AATTACTAAAATACCCTTCAGTTTGTAAAATTACCAAAATACCACTGA-TTTACAA
* *
35228665 AATTACTAAAATACCC-TCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTTCAGTTTGTAAAATTACCAAAATACCACTGATTTACAA
* * * * * * *
35228719 AATTACAAAAATACCCTTGACTTTCTAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACTAAAATACCCTTCAGTTTGTAAAATTACCA-AAATACCACTGATTTACAA
* * *
35228774 AATTACTGAAATACCCTTC-GTTTGTAGATTTACCAAAA
1 AATTACTAAAATACCCTTCAGTTTGTAAAATTACCAAAA
35228812 CACCCTTGTA
Statistics
Matches: 119, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 71 0.60
55 47 0.39
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (55 bp):
AATTACTAAAATACCCTTCAGTTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:35228786 original size:109 final size:108
Alignment explanation
Indices: 35228611--35228816 Score: 243
Period size: 109 Copynumber: 1.9 Consensus size: 108
35228601 TGTAGGATAG
* * * * ***
35228611 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTAGTTTGTGAAATTACTAAAA
1 AATTACAAAAATACCCCTACTTTCTAAAATTACAGAAATACCACTAGTTTACAAAATTACTAAAA
*
35228676 TACCC-TCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
66 TACCCTTC-ATTTGTAAAATTACCAAAACACCCCTGATTTACAA
* * * * *
35228719 AATTACAAAAATACCCTTGACTTTCTAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAA
1 AATTACAAAAATACCCCT-ACTTTCTAAAATTACAGAAATACCACTAGTTTACAAAATTACTAAA
* * *
35228784 ATACCCTTCGTTTGTAGATTTACCAAAACACCC
65 ATACCCTTCATTTGTAAAATTACCAAAACACCC
35228817 TTGTAGGATG
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
108 16 0.20
109 62 0.77
110 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (108 bp):
AATTACAAAAATACCCCTACTTTCTAAAATTACAGAAATACCACTAGTTTACAAAATTACTAAAA
TACCCTTCATTTGTAAAATTACCAAAACACCCCTGATTTACAA
Found at i:35228796 original size:27 final size:26
Alignment explanation
Indices: 35228664--35228796 Score: 99
Period size: 27 Copynumber: 4.9 Consensus size: 26
35228654 CTAGTTTGTG
** **
35228664 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACTAAAATACCCT-TGTTTACA
* *
35228691 AAATTACCAAAATACCCCTGATTTACA
1 AAATTACTAAAATACCCTTG-TTTACA
*
35228718 AAATTACAAAAATACCCTTGACTTT-CTA
1 AAATTACTAAAATACCCTTG--TTTAC-A
*
35228746 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACTA-AAATACCCTT-GTTTACA
*
35228773 AAATTACTGAAATACCCTTCGTTT
1 AAATTACTAAAATACCCTT-GTTT
35228797 GTAGATTTAC
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
27 63 0.74
28 21 0.25
29 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (26 bp):
AAATTACTAAAATACCCTTGTTTACA
Found at i:35228873 original size:27 final size:27
Alignment explanation
Indices: 35228841--35228892 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
35228831 GACTAAAATA
35228841 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
35228868 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
35228893 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:35229758 original size:25 final size:26
Alignment explanation
Indices: 35229724--35229793 Score: 117
Period size: 25 Copynumber: 2.8 Consensus size: 26
35229714 AGGAAGTGCT
*
35229724 AAAAGGGCTTTGCCCCAGTTTA-CCG
1 AAAAGGGCTTTGCCCCAGTTTATCAG
35229749 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTATCAG
35229775 AAAA-GGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
35229794 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 37 0.86
26 6 0.14
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTATCAG
Found at i:35230000 original size:42 final size:42
Alignment explanation
Indices: 35229941--35230074 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
35229931 TAGTCTCCCC
35229941 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
35229983 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
35230025 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
35230067 AAATGGGC
1 AAATGGGC
35230075 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:35230133 original size:31 final size:31
Alignment explanation
Indices: 35230098--35230181 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
35230088 CGTTTATAGT
35230098 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35230129 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35230160 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35230182 TCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35234547 original size:18 final size:18
Alignment explanation
Indices: 35234524--35234561 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
35234514 CTTGATTAAT
*
35234524 TATACATAATAATTAAAC
1 TATACATAATAATCAAAC
35234542 TATACATAATAATCAAAC
1 TATACATAATAATCAAAC
35234560 TA
1 TA
35234562 ACCTCATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (18 bp):
TATACATAATAATCAAAC
Found at i:35237527 original size:43 final size:43
Alignment explanation
Indices: 35237472--35237559 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
35237462 AATGCCTGTA
* * * **
35237472 TGAGGAGGGGCACAGAGCCGTGTGGCTGAGGTACACGCCCGTG
1 TGAGGAGAGGCACAGAGCCGTGTGACTGAGGCACACAACCGTG
*
35237515 TGAGGAGAGGCACATAGCCGTGTGACTGAGGCACACAACCGTG
1 TGAGGAGAGGCACAGAGCCGTGTGACTGAGGCACACAACCGTG
35237558 TG
1 TG
35237560 GACCAAGGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (43 bp):
TGAGGAGAGGCACAGAGCCGTGTGACTGAGGCACACAACCGTG
Found at i:35237547 original size:21 final size:20
Alignment explanation
Indices: 35237480--35237559 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
35237470 TATGAGGAGG
*
35237480 GGCACAGAGCCGTGTGGCTGA
1 GGCACA-AGCCGTGTGACTGA
* * **
35237501 GGTACACGCCCGTGTGAGGAGA
1 GGCACAAG-CCGTGTGA-CTGA
35237523 GGCACATAGCCGTGTGACTGA
1 GGCACA-AGCCGTGTGACTGA
*
35237544 GGCACACAACCGTGTG
1 GGCACA-AGCCGTGTG
35237560 GACCAAGGAC
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
20 1 0.02
21 28 0.62
22 15 0.33
23 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.15
Consensus pattern (20 bp):
GGCACAAGCCGTGTGACTGA
Found at i:35238351 original size:14 final size:15
Alignment explanation
Indices: 35238332--35238360 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35238322 TTATTAAATT
35238332 AAAACAACA-AAAAC
1 AAAACAACATAAAAC
35238346 AAAACAACATAAAAC
1 AAAACAACATAAAAC
35238361 TATACCTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.21, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAACAACATAAAAC
Found at i:35248318 original size:16 final size:16
Alignment explanation
Indices: 35248299--35248330 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35248289 TTAGGGGAGT
35248299 GACAGTGTTTTTGAAG
1 GACAGTGTTTTTGAAG
35248315 GACAGTGTTTTTGAAG
1 GACAGTGTTTTTGAAG
35248331 AATCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
GACAGTGTTTTTGAAG
Found at i:35249271 original size:13 final size:14
Alignment explanation
Indices: 35249245--35249277 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35249235 ATAAAATATA
35249245 AATTTATATTTAAT
1 AATTTATATTTAAT
35249259 AATTTAT-TTTAAT
1 AATTTATATTTAAT
35249272 ATATTT
1 A-ATTT
35249278 CATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:35255631 original size:84 final size:83
Alignment explanation
Indices: 35255488--35255654 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 83
35255478 AGGAGGAATT
* * * *
35255488 AGATGCCCTTGATAAACATTTTGGAGATTGAATTATTCGATGTATGGGGCACTGACTTCTTAGGA
1 AGATGCCCTTGACAAACATTTTAGAGATTGAATTATTCGACGTATAGGGCACTGACTTCTTAGGA
35255553 CCGTTCCCTTCTTCGTATG
66 CCGTT-CCTTCTTCGTATG
* *
35255572 AGATGCCCTTGACAAACATTTTAGAGATTGAATTATTCGACGTATAGGGCATTGGCTTCTTAGGA
1 AGATGCCCTTGACAAACATTTTAGAGATTGAATTATTCGACGTATAGGGCACTGACTTCTTAGGA
*
35255637 TCGTTCCTTCTTCGTATG
66 CCGTTCCTTCTTCGTATG
35255655 GGAACAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 13 0.17
84 63 0.83
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (83 bp):
AGATGCCCTTGACAAACATTTTAGAGATTGAATTATTCGACGTATAGGGCACTGACTTCTTAGGA
CCGTTCCTTCTTCGTATG
Found at i:35264442 original size:23 final size:23
Alignment explanation
Indices: 35264416--35264474 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
35264406 AGAACTAAGA
35264416 TATATTTTTAATATGATTTTCAG
1 TATATTTTTAATATGATTTTCAG
*
35264439 TATAATTTTAATATGATTTTCAG
1 TATATTTTTAATATGATTTTCAG
35264462 TATATTTTTAATA
1 TATATTTTTAATA
35264475 AAGAGCTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (23 bp):
TATATTTTTAATATGATTTTCAG
Found at i:35264468 original size:11 final size:12
Alignment explanation
Indices: 35264415--35264474 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 12
35264405 AAGAACTAAG
*
35264415 ATAT-ATTTTTA
1 ATATGATTTTCA
35264426 ATATGATTTTCA
1 ATATGATTTTCA
* *
35264438 GTATAATTTT-A
1 ATATGATTTTCA
35264449 ATATGATTTTCA
1 ATATGATTTTCA
* *
35264461 GTAT-ATTTTTA
1 ATATGATTTTCA
35264472 ATA
1 ATA
35264475 AAGAGCTAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 21 0.54
12 18 0.46
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (12 bp):
ATATGATTTTCA
Found at i:35271279 original size:12 final size:12
Alignment explanation
Indices: 35271259--35271288 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35271249 TGCCCCACGT
*
35271259 CCACGGCCATTA
1 CCACCGCCATTA
35271271 CCACCGCCATTA
1 CCACCGCCATTA
35271283 CCACCG
1 CCACCG
35271289 TGACCTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.50, G:0.13, T:0.13
Consensus pattern (12 bp):
CCACCGCCATTA
Found at i:35273547 original size:72 final size:72
Alignment explanation
Indices: 35273450--35273596 Score: 294
Period size: 72 Copynumber: 2.0 Consensus size: 72
35273440 TGGCCACTCC
35273450 GAATCTCGCCCAGCTCCAAGTCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTG
1 GAATCTCGCCCAGCTCCAAGTCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTG
35273515 AGTTTGG
66 AGTTTGG
35273522 GAATCTCGCCCAGCTCCAAGTCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTG
1 GAATCTCGCCCAGCTCCAAGTCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTG
35273587 AGTTTGG
66 AGTTTGG
35273594 GAA
1 GAA
35273597 ACTCAGTGTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.16
Consensus pattern (72 bp):
GAATCTCGCCCAGCTCCAAGTCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTG
AGTTTGG
Found at i:35276880 original size:192 final size:190
Alignment explanation
Indices: 35276538--35276918 Score: 717
Period size: 192 Copynumber: 2.0 Consensus size: 190
35276528 AACTTCCACG
*
35276538 AAAATCAAATACAATCTCTCAACATATCTTCCAGAACCTCAAAAACCATTTCTAACTGTCCATCT
1 AAAATCAAATACAACCTCTCAACATATCTTCCAGAACCTCAAAAACCATTTCTAACTGTCCATCT
35276603 GTCTGTGGGTGAAAAGCGGTGCTAAAATCCAATCGTGCACCCAACGCTTCCTGCAACTTCCACCA
66 GTCTGTGGGTGAAAAGCGGTGCTAAAATCCAATCGTGCACCCAACGCTTCCTGCAACTTCCACCA
35276668 AAACCGAGATGTAAACCTAGGGTCTCGATCAAAAATTATCGTCACTGGCACCCCATGCTA
131 AAACCGAGATGTAAACCTAGGGTCTCGATCAAAAATTATCGTCACTGGCACCCCATGCTA
* *
35276728 AAAATCAATGATACAACCTCTCAACATATCTTCCAGAACCTGAAAAACCCTTTCTAACTGTCCAT
1 AAAATCAA--ATACAACCTCTCAACATATCTTCCAGAACCTCAAAAACCATTTCTAACTGTCCAT
35276793 CTGTCTGTGGGTGAAAAGCGGTGCTAAAATCCAATCGTGCACCCAACGCTTCCTGCAACTTCCAC
64 CTGTCTGTGGGTGAAAAGCGGTGCTAAAATCCAATCGTGCACCCAACGCTTCCTGCAACTTCCAC
35276858 CAAAACCGAGATGTAAACCTAGGGTCTCGATCAAAAATTATCGTCACTGGCACCCCATGCT
129 CAAAACCGAGATGTAAACCTAGGGTCTCGATCAAAAATTATCGTCACTGGCACCCCATGCT
35276919 GTCGCACTAC
Statistics
Matches: 186, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
190 8 0.04
192 178 0.96
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.24
Consensus pattern (190 bp):
AAAATCAAATACAACCTCTCAACATATCTTCCAGAACCTCAAAAACCATTTCTAACTGTCCATCT
GTCTGTGGGTGAAAAGCGGTGCTAAAATCCAATCGTGCACCCAACGCTTCCTGCAACTTCCACCA
AAACCGAGATGTAAACCTAGGGTCTCGATCAAAAATTATCGTCACTGGCACCCCATGCTA
Found at i:35285069 original size:16 final size:16
Alignment explanation
Indices: 35285042--35285084 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
35285032 GTAGATCGGC
*
35285042 AAAAGCCAAAATGCCG
1 AAAAGCCGAAATGCCG
* *
35285058 AATAGCCGAAATGCTG
1 AAAAGCCGAAATGCCG
35285074 AAAAGCCGAAA
1 AAAAGCCGAAA
35285085 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:35285339 original size:28 final size:29
Alignment explanation
Indices: 35285299--35285405 Score: 155
Period size: 29 Copynumber: 3.8 Consensus size: 29
35285289 CATGATTGTA
35285299 AATGTGATTTGGGCCTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
35285327 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
35285356 AATGTGATTTGGGCCTCATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * *
35285385 AAAGAGA-TTGGGCCTAGTGGG
1 AATGTGATTTGGGCCTAATGGG
35285406 TTAGATACAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
28 31 0.44
29 40 0.56
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:35285396 original size:57 final size:57
Alignment explanation
Indices: 35285297--35285405 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 57
35285287 AGCATGATTG
* *
35285297 TAAATGTGATTTGGGCCTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
* *
35285354 TAAATGTGATTTGGGCCTCATGGGCCATATGAAAGAGA-TTGGGCCTAGTGGG
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGG
35285406 TTAGATACAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
57 33 0.70
58 14 0.30
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
Found at i:35288005 original size:22 final size:22
Alignment explanation
Indices: 35287977--35288035 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
35287967 CCTGAGCTGA
*
35287977 TGAATAGTAAGCTC-TATCGAGT
1 TGAATAGTAAGCTCATA-CGAGC
*
35287999 TGAATAGTAAGTTCATACGAGC
1 TGAATAGTAAGCTCATACGAGC
*
35288021 TGAAACAGTAAGCTC
1 TG-AATAGTAAGCTC
35288036 CAATGAGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (22 bp):
TGAATAGTAAGCTCATACGAGC
Found at i:35295641 original size:46 final size:48
Alignment explanation
Indices: 35295590--35295720 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 48
35295580 ATGGTTGAGC
35295590 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
35295637 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
*
35295682 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35295721 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 28 0.40
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:35303213 original size:46 final size:48
Alignment explanation
Indices: 35303162--35303292 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 48
35303152 ATGATTGAGC
35303162 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
35303209 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
35303254 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35303293 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:35305674 original size:22 final size:19
Alignment explanation
Indices: 35305624--35305675 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
35305614 CCCATGCTTA
*
35305624 AATTCATGAAATTATTGAT
1 AATTCATGAGATTATTGAT
*
35305643 AATTTTATGAGATTACATTGAT
1 AA-TTCATGAGATT--ATTGAT
35305665 GAATTCATGAG
1 -AATTCATGAG
35305676 TTTTGTGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.08
20 9 0.35
22 13 0.50
23 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (19 bp):
AATTCATGAGATTATTGAT
Found at i:35307741 original size:31 final size:31
Alignment explanation
Indices: 35307703--35307781 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
35307693 TTCGTTTAAT
35307703 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
35307734 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
35307765 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
35307782 ACTGTAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:35307852 original size:42 final size:42
Alignment explanation
Indices: 35307805--35307896 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
35307795 TGGCCCATAG
* ** **
35307805 GCCCATTTCAATATCACATGTAATGTCAATGGGTGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
35307847 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
35307889 GCCCATTT
1 GCCCATTT
35307897 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:35308093 original size:26 final size:26
Alignment explanation
Indices: 35308041--35308138 Score: 137
Period size: 26 Copynumber: 3.8 Consensus size: 26
35308031 CCTCTTTAAT
*
35308041 AACTGGGGCA-AAGCCC-TTTCTGGTA
1 AACTGGGGCATAAGCCCTTTTC-GATA
*
35308066 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
35308092 AATTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
35308118 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
35308139 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.15
26 51 0.78
27 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:35309016 original size:26 final size:27
Alignment explanation
Indices: 35308941--35309023 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
35308931 GGGCATATTC
* * *
35308941 GTCATTTTACCATACAG-GGGTATTACG
1 GTCACTTTACCCTACAGAGGCT-TTACG
35308968 GTCACTTTACCCTACAGAGGCTTTACG
1 GTCACTTTACCCTACAGAGGCTTTACG
*
35308995 GTCAC-TTACCCTATAG-GAGCTTTACG
1 GTCACTTTACCCTACAGAG-GCTTTACG
35309021 GTC
1 GTC
35309024 TTTTTACCTG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
25 1 0.02
26 21 0.42
27 25 0.50
28 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGAGGCTTTACG
Found at i:35309313 original size:81 final size:79
Alignment explanation
Indices: 35309063--35309314 Score: 211
Period size: 81 Copynumber: 3.1 Consensus size: 79
35309053 TTCATCCTAC
* * * * * ** *
35309063 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTAGTAATTTTACAAACCAA-GGTATTT-
*
35309128 TA-TAATTTTTAGAAAGTT
63 TAGTAA-TTTTACAAA-TT
* * * **
35309146 AAGGGTATTTTTGTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTT
1 AAGGGTATTTTGGTAA-TTT-TACAAACAGGGGTATTTTAGTAATTTTACAAA-CCAAGGTATTT
** * **
35309210 CGGTAATTTCACAAACC
63 TAGTAATTTTACAAATT
35309227 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTAGTAATTTTACAAACCAA-GGTATTTT
*
35309292 AGTAATTTTATAAATT
64 AGTAATTTTACAAATT
*
35309308 GAGGGTA
1 AAGGGTA
35309315 AAATGGTAAT
Statistics
Matches: 132, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
79 2 0.02
80 8 0.06
81 63 0.48
82 7 0.05
83 45 0.34
84 5 0.04
85 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (79 bp):
AAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTAGTAATTTTACAAACCAAGGTATTTTAG
TAATTTTACAAATT
Found at i:35309314 original size:27 final size:27
Alignment explanation
Indices: 35309063--35309301 Score: 189
Period size: 27 Copynumber: 8.8 Consensus size: 27
35309053 TTCATCCTAC
* * * * *
35309063 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTAGTAATTTTACAAACT
* **
35309090 AAGGGTATTTCAGTAATTTTGTAAACT
1 AAGGGTATTTTAGTAATTTTACAAACT
* * *
35309117 AATGGTATTTCTA-TAATTTTTAGAAAGTT
1 AAGGGTATTT-TAGTAA-TTTTACAAA-CT
* *
35309146 AAGGGTATTTTTGTAACTTTGTA-AATC-
1 AAGGGTATTTTAGTAA-TTT-TACAAACT
* * *
35309173 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTACAAACT
** * *
35309200 GAA-GGTATTTCGGTAATTTCACAAACC
1 -AAGGGTATTTTAGTAATTTTACAAACT
*
35309227 AAGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTAGTAATTTTACAAACT
* *
35309254 AGGGGTATTTTAGTAATTTTACAAACC
1 AAGGGTATTTTAGTAATTTTACAAACT
35309281 AAGGGTATTTTAGTAATTTTA
1 AAGGGTATTTTAGTAATTTTA
35309302 TAAATTGAGG
Statistics
Matches: 169, Mismatches: 34, Indels: 18
0.76 0.15 0.08
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 130 0.77
28 10 0.06
29 18 0.11
30 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTACAAACT
Found at i:35309323 original size:27 final size:27
Alignment explanation
Indices: 35309293--35309449 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
35309283 GGGTATTTTA
* * * *
35309293 GTAATTTTATAAATTGAGGGTAAAATG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
35309320 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * *
35309347 GTAATTCTGTAAGTCGAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAACG
*
35309374 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
35309401 GTAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTATGTAAATCGA-GGGTAAAACG
* * *
35309428 ATAATTTTGTAAATCGGGGGTA
1 GTAATTATGTAAATCGAGGGTA
35309450 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
GTAATTATGTAAATCGAGGGTAAAACG
Found at i:35309324 original size:54 final size:54
Alignment explanation
Indices: 35309175--35309325 Score: 189
Period size: 54 Copynumber: 2.8 Consensus size: 54
35309165 TGTAAATCAG
*
35309175 GGGTATTTTGGTAATTTTACAAATTGAAGGT-ATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTAATTT-GGTAATTTCACAAACCAA
* * * *
35309229 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTAATTTGGTAATTTCACAAACCAA
* * **
35309283 GGGTATTTTAGTAATTTTATAAATTGAGGGTAAAATGGTAATT
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTAATTTGGTAATT
35309326 CTGTAAATCG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 77 0.94
55 4 0.05
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTAATTTGGTAATTTCACAAACCAA
Found at i:35309367 original size:81 final size:81
Alignment explanation
Indices: 35309282--35309463 Score: 204
Period size: 81 Copynumber: 2.2 Consensus size: 81
35309272 TTACAAACCA
* * * *
35309282 AGGGTATTTTAGTAATTTTATAAATTGAGGGTAAAATGGTAATTCTGTAAATC-GAGGGTAAAAC
1 AGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTATGTAAATCAG-GGGTAAAAC
* *
35309346 GGTAATTCTGTAAGTCG
65 GATAATTCTGTAAATCG
*** * * *
35309363 AGGGTAAAACAGTAATTATGTAAATCGGGGGTAAAACGGTAATTATGTAAATCAGGGGTAAAACG
1 AGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTATGTAAATCAGGGGTAAAACG
*
35309428 ATAATTTTGTAAATCG
66 ATAATTCTGTAAATCG
* * *
35309444 GGGGTACTTTGGTAATTTTA
1 AGGGTAATTTAGTAATTTTA
35309464 CAAGTCGAAG
Statistics
Matches: 79, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
81 78 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (81 bp):
AGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTATGTAAATCAGGGGTAAAACG
ATAATTCTGTAAATCG
Found at i:35309476 original size:27 final size:27
Alignment explanation
Indices: 35309455--35309544 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 27
35309445 GGGTACTTTG
*
35309455 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
35309482 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
35309509 GTATTTTTACAAA-CTAAGGGTATTTCA
1 GTAATTTTACAAATCGAA-GGTATTTCA
35309536 GTAATTTTA
1 GTAATTTTA
35309545 GTGAACTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.04
27 54 0.96
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:35309487 original size:54 final size:54
Alignment explanation
Indices: 35309429--35309544 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
35309419 GGTAAAACGA
** * * *
35309429 TAATTTTGTAAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAG
1 TAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAG
* *
35309483 TAATTTTACAAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAG
35309537 TAATTTTA
1 TAATTTTA
35309545 GTGAACTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 6 0.11
54 47 0.89
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAG
Found at i:35311760 original size:23 final size:23
Alignment explanation
Indices: 35311700--35311769 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
35311690 AGTCATAATT
* *
35311700 GGTAAGCTCTTCTTGAGCTGATGAAC
1 GGTAAGCTC-TATTGAGCT-A-AAAC
* *
35311726 AGTAAGCACTATTGAGCTAAAAC
1 GGTAAGCTCTATTGAGCTAAAAC
*
35311749 GGTAAGCTCTATCGAGCTAAA
1 GGTAAGCTCTATTGAGCTAAA
35311770 TAGTAAACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 21 0.57
24 1 0.03
25 8 0.22
26 7 0.19
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
GGTAAGCTCTATTGAGCTAAAAC
Found at i:35312508 original size:21 final size:21
Alignment explanation
Indices: 35312468--35312508 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35312458 TTGTATATCT
* *
35312468 ATCATTAAACCTTCATAATCA
1 ATCATTAAACATTCAAAATCA
*
35312489 ATCATTAAACATTTAAAATC
1 ATCATTAAACATTCAAAATC
35312509 TCAAGCACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (21 bp):
ATCATTAAACATTCAAAATCA
Found at i:35314700 original size:37 final size:37
Alignment explanation
Indices: 35314650--35314728 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
35314640 TTATTACGAA
* *
35314650 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
* *
35314687 GTCTTACCTGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
35314724 GTCTT
1 GTCTT
35314729 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:35314925 original size:47 final size:47
Alignment explanation
Indices: 35314847--35315288 Score: 758
Period size: 47 Copynumber: 9.4 Consensus size: 47
35314837 CCCTTCGGGA
* * * * * * * *
35314847 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
35314894 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
35314941 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
35314988 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
35315035 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
35315082 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
35315129 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
35315176 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
35315223 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
35315270 CTTATCGCATATATACACT
1 CTTATCACATATATACACT
35315289 GTCTTGGCTG
Statistics
Matches: 379, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 379 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:35319063 original size:27 final size:27
Alignment explanation
Indices: 35319032--35319209 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
35319022 TAAATTGTAC
35319032 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35319059 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35319085 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35319113 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
35319141 AGCACTAAGTGTGTGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35319168 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35319195 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35319210 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35319146 original size:82 final size:81
Alignment explanation
Indices: 35319033--35319188 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
35319023 AAATTGTACA
* *
35319033 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35319097 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
35319114 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35319179 TGCGAGTTGA
65 TGCGAATTGA
35319189 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35319200 original size:82 final size:81
Alignment explanation
Indices: 35319029--35319209 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
35319019 GATTAAATTG
* *
35319029 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35319094 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
35319110 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35319174 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35319192 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35319210 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35319220 original size:27 final size:27
Alignment explanation
Indices: 35319167--35319220 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
35319157 TTTGATTACG
* * *
35319167 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
35319194 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
35319221 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:35327138 original size:27 final size:27
Alignment explanation
Indices: 35327097--35327245 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
35327087 AAATTGTACA
* *
35327097 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGAT
* * * *
35327124 GCCCTAAGTCTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
* **
35327151 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGAT
* * * *
35327178 GCACTAAGTGTACGATTTGATTACG-T
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
35327204 AGCACTAAGTGTGCGAGTTGATTAT-AT
1 -GCACTAAGTGTGCGAATTGACTATGAT
*
35327231 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
35327246 GACTCAATAT
Statistics
Matches: 97, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:35327236 original size:81 final size:81
Alignment explanation
Indices: 35327097--35327245 Score: 192
Period size: 81 Copynumber: 1.8 Consensus size: 81
35327087 AAATTGTACA
* * * *
35327097 GCACTAAGTGTGCGATTTGACTATGTTGCCCTAAGTCTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTACGATTTGACTACGTAGCACTAAGTCTGCGAAATGAATATGATGCACTAAGTGT
35327162 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * ** * *
35327178 GCACTAAGTGTACGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTG
1 GCACTAAGTGTACGATTTGACTACGTAGCACTAAGTCTGCGAAATGAATATGAT-GCACTAAGTG
35327242 TGCG
65 TGCG
35327246 GACTCAATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.04
81 55 0.96
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTACGATTTGACTACGTAGCACTAAGTCTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35333114 original size:55 final size:55
Alignment explanation
Indices: 35332981--35333115 Score: 126
Period size: 55 Copynumber: 2.5 Consensus size: 55
35332971 GACATGGCCG
* * ** * ** *
35332981 TGGGCAAACCTGGCAAAACAACACGGGCGTGCGACACGCCCGTGCCTTGAAACCG
1 TGGGCGAACCTGCCAAAACAACACGAACGTACGACACGCCCGTGCCAAGAAACCA
* ** ** * * *
35333036 TGGCCGAACCTATCAAATTAACACGAACGTACGACACGTCTGTGCCAAGCAACCA
1 TGGGCGAACCTGCCAAAACAACACGAACGTACGACACGCCCGTGCCAAGAAACCA
35333091 TGGGCGAACCTGCCAAAACAACACG
1 TGGGCGAACCTGCCAAAACAACACG
35333116 GGTGTGGGAG
Statistics
Matches: 60, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.13
Consensus pattern (55 bp):
TGGGCGAACCTGCCAAAACAACACGAACGTACGACACGCCCGTGCCAAGAAACCA
Found at i:35335053 original size:6 final size:6
Alignment explanation
Indices: 35335005--35335064 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
35334995 AATGATGATG
* * * *
35335005 TTTAAT TTTA-T TTTATA TTTATT TTTATT ATCATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
35335052 TTATGTT TTTATT
1 TT-TATT TTTATT
35335065 AATTCACCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 5 0.11
6 34 0.77
7 5 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:35345472 original size:31 final size:31
Alignment explanation
Indices: 35345436--35345514 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
35345426 TTTAACAGTT
* *
35345436 ACTGGGCTGAATCCTTTTCATAAATCATATA
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
*
35345467 ACTGGGCCGAAGCCTTTTCATAAATCATATT
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
* *
35345498 ATTGAGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
35345515 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATA
Found at i:35345774 original size:26 final size:26
Alignment explanation
Indices: 35345725--35345874 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
35345715 CTCTTTTAAT
*
35345725 AACTGGGGCA-AAGCCCTTTCCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
35345750 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* * **
35345776 AACTGGGCCATAATCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* *
35345802 AACTGGGGCATAAGCCTTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
35345828 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
35345854 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
35345875 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 10 0.09
26 99 0.91
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:35346762 original size:27 final size:27
Alignment explanation
Indices: 35346678--35346764 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
35346668 TATTCGTCAT
* * *
35346678 TTTACCATAC-AGGGGTATTACGATCAC
1 TTTACCCTACAAGGGCT-TTACGATCTC
* *
35346705 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAAGGGCTTTACGATCTC
*
35346732 TTTACCCTACAAGGGCTTTACGATCTT
1 TTTACCCTACAAGGGCTTTACGATCTC
35346759 TTTACC
1 TTTACC
35346765 TAATAGGGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 47 0.92
28 4 0.08
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAAGGGCTTTACGATCTC
Found at i:35346848 original size:27 final size:27
Alignment explanation
Indices: 35346822--35347073 Score: 156
Period size: 27 Copynumber: 9.3 Consensus size: 27
35346812 ATCTACAAAC
* *
35346822 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAT
* *
35346849 CAATGGTATTTCCA-TAATTTT-TAGAAAGT
1 CAAGGGTATTT-TAGTAATTTTGT--AAA-T
*
35346878 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTGTAAAT
* * **
35346905 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
** ** ** *
35346932 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAT
* *
35346959 CAAGGGTATTTTAGCAA-TTT-TACAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
* * * *
35346984 ACTAGGGTATTTTGGTAATTTTACT-GAT
1 -CAAGGGTATTTTAGTAATTTT-GTAAAT
* * *
35347012 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAT
*
35347039 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
*
35347066 CGAGGGTA
1 CAAGGGTA
35347074 AAACAATAAT
Statistics
Matches: 181, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
25 2 0.01
26 20 0.11
27 130 0.72
28 10 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTGTAAAT
Found at i:35347017 original size:80 final size:80
Alignment explanation
Indices: 35346908--35347059 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
35346898 TGTAAATCAG
*
35346908 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
35346973 CAATTTTACATACTA
66 CAATTTTACATACTA
** * ** *
35346988 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
*
35347053 TAATTTT
66 CAATTTT
35347060 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.43
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
CAATTTTACATACTA
Found at i:35347068 original size:54 final size:54
Alignment explanation
Indices: 35346795--35347073 Score: 204
Period size: 54 Copynumber: 5.1 Consensus size: 54
35346785 TTTCATCCTA
* * * * *
35346795 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAT
* *** * * *
35346849 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAAT
* *** ** ** *
35346905 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAT
* * * * * * *
35346959 CAAGGGTATTTTAGCAATTTTACATA-CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT-GTAAAT
* ** *
35347012 CGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAT
*
35347066 CGAGGGTA
1 CAAGGGTA
35347074 AAACAATAAT
Statistics
Matches: 172, Mismatches: 46, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
53 40 0.23
54 83 0.48
55 14 0.08
56 35 0.20
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAT
Found at i:35347083 original size:27 final size:27
Alignment explanation
Indices: 35347061--35347181 Score: 179
Period size: 27 Copynumber: 4.5 Consensus size: 27
35347051 AGTAATTTTG
35347061 TAAATCGAGGGTAAAACAATAATTCTA
1 TAAATCGAGGGTAAAACAATAATTCTA
* * *
35347088 TAAATCAAGAGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACAATAATTCTA
* * *
35347115 TAAATCGAGTGTAAAACGATAATTCTG
1 TAAATCGAGGGTAAAACAATAATTCTA
*
35347142 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACAATAATTCTA
35347169 TAAATCGAGGGTA
1 TAAATCGAGGGTA
35347182 CTTTGGTAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.26
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACAATAATTCTA
Found at i:35347218 original size:81 final size:81
Alignment explanation
Indices: 35347010--35347219 Score: 213
Period size: 81 Copynumber: 2.6 Consensus size: 81
35347000 AATTTTACTG
* * * * * *
35347010 ATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATTCTGTAAATCGAGGGTAA
35347075 AACAATAATTCTATAA
66 AACAATAATTCTATAA
* * **** * * *** *
35347091 ATCAAGAGTAAAACAGTAATTCTATAAATCGAGTGTAAAACGATAATTCTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATTCTGTAAATCGAGGGTAA
*
35347156 AACGATAATTCTATAA
66 AACAATAATTCTATAA
* * * *
35347172 ATCGAGGGTACTTTGGTAATTTTACAATTTGAGGGTATTTCAATAATT
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATT
35347220 TCGTAAACTA
Statistics
Matches: 94, Mismatches: 35, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATTCTGTAAATCGAGGGTAA
AACAATAATTCTATAA
Found at i:35351997 original size:27 final size:27
Alignment explanation
Indices: 35351958--35352352 Score: 400
Period size: 27 Copynumber: 14.7 Consensus size: 27
35351948 CATATCTCAC
*
35351958 ATAAGGGCAAAATAGTCAATTTACCAT
1 ATAAGGGCAAAATAGTCATTTTACCAT
* ** * *
35351985 ATAAAGGTGAAATAGTCATTTTTCCAC
1 ATAAGGGCAAAATAGTCATTTTACCAT
*
35352012 ATAAGGGCAAAATAGTCGTTTTACCACT
1 ATAAGGGCAAAATAGTCATTTTACCA-T
* * * * ** *
35352040 -TAAGGCCAAAACAATTATTTTTTCAC
1 ATAAGGGCAAAATAGTCATTTTACCAT
*
35352066 ATAAAGGCAAAATAGTCATTTTACCAT
1 ATAAGGGCAAAATAGTCATTTTACCAT
*
35352093 AGAAGGGCAAAATAGTCATTTTACCAT
1 ATAAGGGCAAAATAGTCATTTTACCAT
* * *
35352120 TTAAGGGCAAAATAGTCATTTTTCCAC
1 ATAAGGGCAAAATAGTCATTTTACCAT
* *
35352147 ATAAGGGAAAAATAGTCATTTTACCAC
1 ATAAGGGCAAAATAGTCATTTTACCAT
35352174 ATAAGGGCAAAATAGTCATTTTACCAT
1 ATAAGGGCAAAATAGTCATTTTACCAT
**
35352201 ATAAGGGCAAAATAGTCATTTTAATAT
1 ATAAGGGCAAAATAGTCATTTTACCAT
* * * * *
35352228 ATAAGAGAAAAACAGTCATTTTAGCAC
1 ATAAGGGCAAAATAGTCATTTTACCAT
* * *
35352255 ATAAGGGAAAAATAGTTATTTTATCA-
1 ATAAGGGCAAAATAGTCATTTTACCAT
* * *
35352281 ATTAGGGCAAAATAGTCATTTAATCA-
1 ATAAGGGCAAAATAGTCATTTTACCAT
* * *
35352307 ATTAGGGCAAAACAGTCATTTTACCAC
1 ATAAGGGCAAAATAGTCATTTTACCAT
* * *
35352334 GTAAAGGCAAAACAGTCAT
1 ATAAGGGCAAAATAGTCAT
35352353 GTTATCGATT
Statistics
Matches: 304, Mismatches: 61, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 45 0.15
27 259 0.85
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (27 bp):
ATAAGGGCAAAATAGTCATTTTACCAT
Found at i:35356269 original size:27 final size:27
Alignment explanation
Indices: 35356203--35356277 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
35356193 CATTTCAGTT
* *
35356203 ATTTTACCACATAAGGGCAAAATAGTC
1 ATTTTACCACATAAGGGCAAAACAATC
* * * *
35356230 ATTCTATCTCATAAGGGTAAAACAATC
1 ATTTTACCACATAAGGGCAAAACAATC
*
35356257 ATTTTACCACAT-AGGGGAAAA
1 ATTTTACCACATAAGGGCAAAA
35356278 TTGTCATTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 8 0.21
27 30 0.79
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
ATTTTACCACATAAGGGCAAAACAATC
Found at i:35358710 original size:21 final size:20
Alignment explanation
Indices: 35358671--35358710 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
35358661 TGGTCCGTAA
*
35358671 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
*
35358691 GCCCATTGAGGCCCTCTTTT
1 GCCCATTG-GGCCCACTTTT
35358711 TCTGAAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.10, C:0.33, G:0.25, T:0.33
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:35363893 original size:40 final size:40
Alignment explanation
Indices: 35363799--35364023 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
35363789 TATTCGAATG
* *
35363799 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
35363840 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
35363880 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
35363920 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
35363960 ATATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
35364000 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35364024 CTTGCGCAAG
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 29 0.18
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:35363979 original size:80 final size:80
Alignment explanation
Indices: 35363799--35364059 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
35363789 TATTCGAATG
* * * *
35363799 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
35363864 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
35363880 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
35363945 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
35363960 ATATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
35364025 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
35364039 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
35364060 ATTACTTAGT
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.08
80 94 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:35372113 original size:40 final size:40
Alignment explanation
Indices: 35372011--35372235 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
35372001 TATTCGAATG
* * * *
35372011 ATATCCGGGATAAGTCCCGAAGACTTTTATGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTA-GTGACT
* * ** * *
35372052 ATAACCGGACTAAGATTCGAAGGCATTCATGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * * *
35372092 ATATCCGGGCTAAGACCCGAAGCCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
35372132 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
35372172 ATATCCGAGCTAAGTCCCGAAGGTATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
35372212 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35372236 CTTGCGCAAG
Statistics
Matches: 148, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.82
41 26 0.18
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:35380114 original size:50 final size:50
Alignment explanation
Indices: 35379940--35380172 Score: 247
Period size: 49 Copynumber: 4.7 Consensus size: 50
35379930 ATCTATTGTG
* *
35379940 AGGTCACGTGTGTAGCACTAAGTGCAGGTTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
35379990 -GGTCGA-ATGTGTAGTACTAAGTGAAGGCTACTATGCGTACCCGATAAATT
1 AGGTC-ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-AATT
* * * **
35380040 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
35380090 AGGTCACGTGTGTAGTATTAAGTGCAGGCTACTATGTGTGCCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
35380140 -GGTCGCATGTGTAGTACTAACTGTAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
35380173 TGCGTACCAG
Statistics
Matches: 149, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 64 0.43
50 49 0.33
51 36 0.24
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:35384670 original size:58 final size:58
Alignment explanation
Indices: 35384600--35384714 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
35384590 TTTGCTAAGC
* *
35384600 GATTTTACGTGAAAACGAATAAAACGGTATAATCGGTAAAAATACCTAATGTTCATAT
1 GATTGTACGTGAAAACGAATAAAACGGTATAATCGATAAAAATACCTAATGTTCATAT
*
35384658 GATTGTACGTGAAAACGAGTAAAACGGTATAATCGATAAAAATACCTAATGTTCATA
1 GATTGTACGTGAAAACGAATAAAACGGTATAATCGATAAAAATACCTAATGTTCATA
35384715 AGTACTTGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (58 bp):
GATTGTACGTGAAAACGAATAAAACGGTATAATCGATAAAAATACCTAATGTTCATAT
Found at i:35385338 original size:50 final size:50
Alignment explanation
Indices: 35385213--35385506 Score: 338
Period size: 50 Copynumber: 5.9 Consensus size: 50
35385203 ATCTATTGTG
* * *
35385213 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-ACTT
* * * * * **
35385264 CGATCACGTGTATAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATACTT
* *
35385314 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATACTT
* * * * *
35385364 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-ACTT
* * * * * **
35385414 CGATCACGTGTATAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATACTT
*
35385464 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
35385507 AATAGCTTTG
Statistics
Matches: 200, Mismatches: 41, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 40 0.20
50 86 0.43
51 74 0.37
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATACTT
Found at i:35385492 original size:150 final size:150
Alignment explanation
Indices: 35385221--35385505 Score: 561
Period size: 150 Copynumber: 1.9 Consensus size: 150
35385211 TGAGGTCACG
35385221 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAG
35385286 TGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
66 TGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
35385351 GTACCGGATAATTGGTCGCA
131 GTACCGGATAATTGGTCGCA
35385371 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAG
*
35385436 TGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGT
66 TGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
35385501 GTACC
131 GTACC
35385506 AAATAGCTTT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 134 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTATAGTACTAAG
TGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
GTACCGGATAATTGGTCGCA
Found at i:35397866 original size:13 final size:13
Alignment explanation
Indices: 35397848--35397878 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
35397838 GCAATCAAAG
35397848 AAAACCCTTCAAC
1 AAAACCCTTCAAC
35397861 AAAACCCTTCAAC
1 AAAACCCTTCAAC
35397874 AAAAC
1 AAAAC
35397879 GTCTGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAACCCTTCAAC
Found at i:35401586 original size:26 final size:26
Alignment explanation
Indices: 35401550--35401600 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
35401540 ACACCAATAT
*
35401550 CAGTATCGCAGTAAAACTGCCAGTAG
1 CAGTATCGCAGCAAAACTGCCAGTAG
35401576 CAGTATCGCAGCAAAACTGCCAGTA
1 CAGTATCGCAGCAAAACTGCCAGTA
35401601 ATTAGTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (26 bp):
CAGTATCGCAGCAAAACTGCCAGTAG
Found at i:35408959 original size:17 final size:20
Alignment explanation
Indices: 35408923--35408960 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
35408913 AACATTTACA
35408923 TTTAGCCTAGATTCAATTAT
1 TTTAGCCTAGATTCAATTAT
35408943 TTTA-CCTA-ATT-AATTAT
1 TTTAGCCTAGATTCAATTAT
35408960 T
1 T
35408961 GAAGTAGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 4 0.22
20 4 0.22
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAGCCTAGATTCAATTAT
Found at i:35420027 original size:47 final size:47
Alignment explanation
Indices: 35419968--35420813 Score: 186
Period size: 48 Copynumber: 17.7 Consensus size: 47
35419958 GTGAATGTGT
* *
35419968 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
* * * *
35420015 ATATGTGTGATAAGGCCAAATGGCCGATGTGGTGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
* * * ** *
35420062 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420111 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420159 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420207 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420255 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420303 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420351 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420399 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420447 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420495 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420543 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420591 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420639 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420687 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * * ** *
35420735 -TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG-
1 ATATATGTGATAAGGCCGAATGGCCAATGTG--ATGAATATGA-ACATGC
* * *
35420783 -TATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
35420814 AATGTGTATG
Statistics
Matches: 780, Mismatches: 16, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 66 0.08
48 702 0.90
49 7 0.01
50 4 0.01
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.30
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
Found at i:35420121 original size:48 final size:48
Alignment explanation
Indices: 35420063--35420869 Score: 1596
Period size: 48 Copynumber: 16.8 Consensus size: 48
35420053 TGAACATGCA
35420063 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420111 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420159 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420207 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420255 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420303 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420351 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420399 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420447 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420495 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420543 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420591 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420639 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420687 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420735 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
35420783 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
* *
35420831 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTA
35420870 GGCGATGTGC
Statistics
Matches: 757, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 757 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
Found at i:35421123 original size:37 final size:37
Alignment explanation
Indices: 35421015--35421123 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
35421005 GGAAATATAT
* *
35421015 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
35421052 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
35421089 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
35421124 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:35421538 original size:237 final size:237
Alignment explanation
Indices: 35421123--35421596 Score: 948
Period size: 237 Copynumber: 2.0 Consensus size: 237
35421113 TGTGGAGATT
35421123 TCGTCTGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCGTAATAA
1 TCGTCTGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCGTAATAA
35421188 GAATTGCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGA
66 GAATTGCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGA
35421253 GCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCGTACGAGAGCAATCTATGAGACTATT
131 GCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCGTACGAGAGCAATCTATGAGACTATT
35421318 CCTATGATTATGTGACATCGGATCAGTGTGAGAGGTTATGTA
196 CCTATGATTATGTGACATCGGATCAGTGTGAGAGGTTATGTA
35421360 TCGTCTGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCGTAATAA
1 TCGTCTGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCGTAATAA
35421425 GAATTGCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGA
66 GAATTGCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGA
35421490 GCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCGTACGAGAGCAATCTATGAGACTATT
131 GCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCGTACGAGAGCAATCTATGAGACTATT
35421555 CCTATGATTATGTGACATCGGATCAGTGTGAGAGGTTATGTA
196 CCTATGATTATGTGACATCGGATCAGTGTGAGAGGTTATGTA
35421597 AAATCATACG
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 237 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (237 bp):
TCGTCTGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCGTAATAA
GAATTGCTTATAAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGA
GCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCGTACGAGAGCAATCTATGAGACTATT
CCTATGATTATGTGACATCGGATCAGTGTGAGAGGTTATGTA
Found at i:35426254 original size:33 final size:33
Alignment explanation
Indices: 35426207--35426277 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
35426197 TGAATGTGGT
*
35426207 CGTGT-GGACCACACGGGCTAGGCCAAGTTAGG
1 CGTGTGGGACCACACGGGCAAGGCCAAGTTAGG
* * *
35426239 CGTGTGGGCCCACACGGGCAAGGGCAATTTAGG
1 CGTGTGGGACCACACGGGCAAGGCCAAGTTAGG
*
35426272 CATGTG
1 CGTGTG
35426278 TGCTCACTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.21, C:0.24, G:0.38, T:0.17
Consensus pattern (33 bp):
CGTGTGGGACCACACGGGCAAGGCCAAGTTAGG
Found at i:35426544 original size:22 final size:22
Alignment explanation
Indices: 35426519--35426562 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35426509 AATTATTAAC
*
35426519 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
35426541 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAAATAATTTT
35426563 GATCATGTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:35445085 original size:40 final size:40
Alignment explanation
Indices: 35445039--35445283 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
35445029 CGGGATTTAA
* * *
35445039 CCGGATATAGCT-ACTTGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCTCAAATGCCTTCGGGACTTAGC
* *
35445079 CCGGATATAGTAACTCGCACTAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCTCAAATGCCTTCGGGACTTAGC
*
35445119 CCGGATATAGTAACTC-ATACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCT-CAAATGCCTTCGGGACTTAGC
*
35445159 CCGGATATAGTAACTCACAT-AAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGC-TCAAATGCCTTCGGGACTTAGC
* * *
35445199 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCTCAAATGCCTTCGGGACTTAGC
* * *
35445239 CCGGA-ACTAGTCACTAGCGCAAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCTC-AAATGCCTTCGGGACTTAGC
35445280 CCGG
1 CCGG
35445284 TTATCATCCA
Statistics
Matches: 181, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 155 0.86
41 24 0.13
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCTCAAATGCCTTCGGGACTTAGC
Found at i:35450231 original size:34 final size:33
Alignment explanation
Indices: 35450151--35450240 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 33
35450141 TCTGATTCTG
*
35450151 CACTAATTTGGGCTAAGGCCCACACTGATACTAC
1 CACTAA-TTGGGCTAAGGCCCACACTAATACTAC
* *
35450185 CACTGTAA-TGGGCTAAGGCCCACACTAATATTGC
1 CAC--TAATTGGGCTAAGGCCCACACTAATACTAC
*
35450219 TACTAATGTGGGCTTAA-GCCCA
1 CACTAAT-TGGGC-TAAGGCCCA
35450241 GACTGTTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
32 3 0.06
34 38 0.81
35 3 0.06
36 3 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (33 bp):
CACTAATTGGGCTAAGGCCCACACTAATACTAC
Found at i:35459960 original size:40 final size:40
Alignment explanation
Indices: 35459876--35460100 Score: 230
Period size: 40 Copynumber: 5.7 Consensus size: 40
35459866 TTGAATGATG
* *
35459876 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
35459915 ATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35459956 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
35459996 TCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35460035 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35460074 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35460101 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.22
40 108 0.69
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35460039 original size:79 final size:80
Alignment explanation
Indices: 35459876--35460100 Score: 235
Period size: 79 Copynumber: 2.8 Consensus size: 80
35459866 TTGAATGATG
* * * * * * * * *
35459876 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTA-AGATCCGAAGGCCT
1 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAA-TTACTATAACCGGGCTATA-ACCCGAAGGCAT
*
35459939 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
35459956 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTA-AACCCGAAGGCAT
1 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTATAACCCGAAGGCAT
* *
35460018 TTGTGCTAGTTACTAAA
64 TTGTGCGAGATACTAAA
* **
35460035 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAATTACTATAACCGGGCTATAACCCGAAGGCATTT
35460100 G
66 G
35460101 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.55
80 46 0.37
81 8 0.06
82 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAATTACTATAACCGGGCTATAACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:35460089 original size:119 final size:120
Alignment explanation
Indices: 35459876--35460100 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
35459866 TTGAATGATG
* * *
35459876 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGCTAAGACCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
35459941 GTGCGAGATACTAATTCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAATACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGATACTAAT
* * **
35459996 TCCGGGCTAA-ACCCGAAGGCATTTGTGCT-AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGACCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
35460058 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAGTCCCAAAGGCATTTG
35460101 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 4 0.04
119 68 0.76
120 18 0.20
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGACCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGATACTAAT
Found at i:35460122 original size:79 final size:79
Alignment explanation
Indices: 35459958--35460133 Score: 180
Period size: 79 Copynumber: 2.2 Consensus size: 79
35459948 ATACTAATTC
* **
35459958 CGGGTTAAGTCCCAAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAACCCGAAGGCATTTGTG
1 CGGGTTAAGTCCCAAAGGCATTTGTGCGAGATACTAATACCGGGCTAAACCCGAAGGCATTTGAA
* * *
35460023 CTAGTTACTAAATC
66 CGAGTGACTAAATA
* **
35460037 CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTT
1 CGGGTTAAGTCCCAAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTA-AACCCGAAGGCATTT
*
35460100 GAACGAG-GAGCTATATA
63 GAACGAGTGA-CTAAATA
* *
35460117 C-GGTTAAATTCCAAAGG
1 CGGGTTAAGTCCCAAAGG
35460134 TACGTGATTT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.04
79 54 0.68
80 23 0.29
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
CGGGTTAAGTCCCAAAGGCATTTGTGCGAGATACTAATACCGGGCTAAACCCGAAGGCATTTGAA
CGAGTGACTAAATA
Found at i:35466178 original size:46 final size:46
Alignment explanation
Indices: 35466127--35466294 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
35466117 TCTCGTAGTT
35466127 GAAGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCC
1 GAAGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCC
* * * * * * *
35466173 GAAGCATGTCCCAGACATATCGTACATTAGCATT-CGTCTCAATGCC
1 GAAGCATGTCCCAGACATGTCTTACACTGGC-TTATGTCTCGAGGCC
* * ** *
35466219 GATGCCATGTCCCAAACATGGTCTTACACTGGCTGTCAT-AAT-GTGGCC
1 GAAG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATGTCTCGAGGCC
*
35466267 GATGCATGTCCCAGACATGTCTTACACT
1 GAAGCATGTCCCAGACATGTCTTACACT
35466295 AGCTCACACA
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
46 49 0.51
47 29 0.30
48 17 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (46 bp):
GAAGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCC
Found at i:35467523 original size:67 final size:67
Alignment explanation
Indices: 35467435--35467565 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
35467425 TTTCCATTTC
* * * * *
35467435 AGAGAGCACATTCCCGTGAACCTCATTTCTTATAGTAGGGTTACC-TGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAT-TCCAGGCTAAATCCCCT
35467499 ATG
65 ATG
*
35467502 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCAGGATTACCATTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCATTCCAGGCTAAATCCCCT
35467566 GTAACATATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 56 0.98
68 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCATTCCAGGCTAAATCCCCTA
TG
Found at i:35467771 original size:60 final size:60
Alignment explanation
Indices: 35467678--35467797 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
35467668 AAATCCAGAC
35467678 TCACACATATTCTTCAGGAGGGCTATATCATTAGGATCACCCATCCAAGCTAGATCCTTT
1 TCACACATATTCTTCAGGAGGGCTATATCATTAGGATCACCCATCCAAGCTAGATCCTTT
** **
35467738 TCACACATATTCTTC-GAGAGGGCTATATCATTAGGATCACCTGTCCGGGCTAGATCCTTT
1 TCACACATATTCTTCAG-GAGGGCTATATCATTAGGATCACCCATCCAAGCTAGATCCTTT
35467798 GTACCGTCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 1 0.02
60 54 0.98
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (60 bp):
TCACACATATTCTTCAGGAGGGCTATATCATTAGGATCACCCATCCAAGCTAGATCCTTT
Found at i:35469712 original size:27 final size:27
Alignment explanation
Indices: 35469665--35469891 Score: 156
Period size: 27 Copynumber: 8.4 Consensus size: 27
35469655 AGAATTACTG
35469665 AAAA-ACCC-TGGTTTGTAAAATTACC
1 AAAATACCCTTGGTTTGTAAAATTACC
* *
35469690 AAAATACCCTTGGTTTGTGAAATTATC
1 AAAATACCCTTGGTTTGTAAAATTACC
* * ** *
35469717 GAAATACCCCTAATTTGAAAAATTACC
1 AAAATACCCTTGGTTTGTAAAATTACC
* * *
35469744 AAAATACCCTTGATTTGGAAAATTA-T
1 AAAATACCCTTGGTTTGTAAAATTACC
* * ** *
35469770 AGAAATACCCCTGATTTACAAAATTACA
1 A-AAATACCCTTGGTTTGTAAAATTACC
* * ** *
35469798 AAAATACCATTGACTTTCAAAAATTA-T
1 AAAATACCCTTG-GTTTGTAAAATTACC
* * * *
35469825 AGAAATACCATTGGTTTGCAAAATTGCT
1 A-AAATACCCTTGGTTTGTAAAATTACC
* *
35469853 AAAATACCCTTGGTTTGTAGATTTACC
1 AAAATACCCTTGGTTTGTAAAATTACC
*
35469880 AAAACACCCTTG
1 AAAATACCCTTG
35469892 TAGGGTGAAA
Statistics
Matches: 160, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
25 4 0.03
26 5 0.03
27 127 0.79
28 24 0.15
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
AAAATACCCTTGGTTTGTAAAATTACC
Found at i:35469742 original size:54 final size:54
Alignment explanation
Indices: 35469670--35469870 Score: 208
Period size: 54 Copynumber: 3.7 Consensus size: 54
35469660 TACTGAAAAA
* * *
35469670 CCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTATCGAAATAC
1 CCCTGATTTGAAAAATTACCAAAATACCCTTGGTTTGTGAAATTATAGAAATAC
* *
35469724 CCCTAATTTGAAAAATTACCAAAATACCCTTGATTTG-GAAAATTATAGAAATAC
1 CCCTGATTTGAAAAATTACCAAAATACCCTTGGTTTGTG-AAATTATAGAAATAC
* * * ***
35469778 CCCTGATTT-ACAAAATTACAAAAATACCATTGACTTTCAAAAATTATAGAAATAC
1 CCCTGATTTGA-AAAATTACCAAAATACCCTTG-GTTTGTGAAATTATAGAAATAC
** * * * *
35469833 CATTGGTTTGCAAAATTGCTAAAATACCCTTGGTTTGT
1 CCCTGATTTGAAAAATTACCAAAATACCCTTGGTTTGT
35469871 AGATTTACCA
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
53 2 0.02
54 77 0.64
55 42 0.35
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (54 bp):
CCCTGATTTGAAAAATTACCAAAATACCCTTGGTTTGTGAAATTATAGAAATAC
Found at i:35470161 original size:27 final size:26
Alignment explanation
Indices: 35470127--35470213 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
35470117 GGAAGTTCTG
* *
35470127 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
*
35470154 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCAC-ATTACTGT
*
35470181 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
*
35470208 TTCTGG
1 TACTGG
35470214 CAGCTATGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.92
28 3 0.06
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:35470428 original size:28 final size:28
Alignment explanation
Indices: 35470374--35470428 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
35470364 ACTGTATTGT
* *
35470374 TACTGCATTGGGCTTAGGCTCACACTGC
1 TACTGCATAGGGCTTAGGCCCACACTGC
* * *
35470402 TACTGTATAGGGCTTTGGCCCAGACTG
1 TACTGCATAGGGCTTAGGCCCACACTG
35470429 AACTTGTAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.29
Consensus pattern (28 bp):
TACTGCATAGGGCTTAGGCCCACACTGC
Found at i:35473157 original size:30 final size:30
Alignment explanation
Indices: 35473123--35473182 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
35473113 TCCTTAACTC
35473123 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35473153 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35473183 GGGCTCGGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.