Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 194 of 325
Found at i:60955566 original size:47 final size:46
Alignment explanation
Indices: 60955497--60955668 Score: 186
Period size: 47 Copynumber: 3.7 Consensus size: 46
60955487 CGCCCATAAG
*
60955497 CGAACTCGGACTCAACTCAACGAGTTCAGACGCCTAGTTACATTTCA
1 CGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACA-TTCA
* * * * * * * *
60955544 CGAACTTGGAATCAACTCAACGAGTTCGGATG-TTCGCATCCA-TAA
1 CGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TTACATTCA
* * *
60955589 GTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-TCA
60955637 CGAACTCGGACTCAACTCAACGAGTTCAGATG
1 CGAACTCGGACTCAACTCAACGAGTTCAGATG
60955669 TTCGTATCCA
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 33 0.33
47 62 0.63
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTCA
Found at i:60955615 original size:46 final size:46
Alignment explanation
Indices: 60955545--60955713 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
60955535 TACATTTCAC
* *
60955545 GAACTTGGAATCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
* ** * *
60955591 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCATCCATAAGT
* *
60955638 GAACTCGGACTCAACTCAACGAGTTCAGATGTTCGTATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
* *
60955684 GAACTCGGATTCAACTCAACAAGTTCGGAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAT
60955714 CCCCAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 55 0.56
47 29 0.29
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
Found at i:60955652 original size:93 final size:93
Alignment explanation
Indices: 60955490--60955713 Score: 349
Period size: 93 Copynumber: 2.4 Consensus size: 93
60955480 TGTAACCCGC
* * * * *
60955490 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGCCTAGTTACATTTCACGAACTTGGAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAA
*
60955555 TCAACTCAACGAGTTCGGATGTTCGCAT
66 TCAACTCAACGAGTTCAGATGTTCGCAT
* *
60955583 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAA
*
60955648 TCAACTCAACGAGTTCAGATGTTCGTAT
66 TCAACTCAACGAGTTCAGATGTTCGCAT
* *
60955676 CCATAAGTGAACTCGGATTCAACTCAACAAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
60955714 CCCCAAATAT
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 119 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAA
TCAACTCAACGAGTTCAGATGTTCGCAT
Found at i:60961581 original size:47 final size:47
Alignment explanation
Indices: 60961524--60961676 Score: 169
Period size: 47 Copynumber: 3.4 Consensus size: 47
60961514 AGTGAAATCA
60961524 GACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCG
1 GACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCG
* * * *
60961571 GACTCAACTCAGCGAGTTCGGA---C--GTTCACA-TCCA-TAAGT-G
1 GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATTTCACGAACTCG
* * *
60961611 AACTCAGACTCAACGAGTTCGGATGCCTAATTACATCTCACGAACTCG
1 GACTCA-ACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCG
60961659 GACTCAACTCAACGAGTT
1 GACTCAACTCAACGAGTT
60961677 TGGACGTTCG
Statistics
Matches: 84, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
40 6 0.07
41 18 0.21
42 6 0.07
43 3 0.04
44 2 0.02
45 3 0.04
46 4 0.05
47 36 0.43
48 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
GACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCG
Found at i:60961597 original size:93 final size:93
Alignment explanation
Indices: 60961470--60961730 Score: 372
Period size: 88 Copynumber: 2.9 Consensus size: 93
60961460 CGCCCATAAG
* * * *
60961470 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAAATCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCA
* *
60961535 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAATTACATCTCA
*
60961563 CGAACTCGGACTCAACTCAGCGAGTTCGGACGTTCACATCCATAAGTGAACTCAG-----ACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCA
60961623 ACGAGTTCGGATGCCTAATTACATCTCA
66 ACGAGTTCGGATGCCTAATTACATCTCA
* * *
60961651 CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCA
*
60961716 ATGAGCTT-GGATGCC
66 ACGAG-TTCGGATGCC
60961731 CAAATATCCC
Statistics
Matches: 150, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
88 82 0.55
93 66 0.44
94 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAATTACATCTCA
Found at i:60961628 original size:41 final size:40
Alignment explanation
Indices: 60961572--60961712 Score: 120
Period size: 41 Copynumber: 3.3 Consensus size: 40
60961562 ACGAACTCGG
*
60961572 ACTCAACTCAGCGAGTTCGGACGTTCACATCCATAAGTGA
1 ACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGA
* * * * *
60961612 ACTCAGACTCAACGAGTTCGGATGCCTAATTACATCTCACGAACTCGG
1 ACTCA-ACTCAACGAGTTCGGA--CGT--TCACATC-CA-TAAGT-GA
* *
60961660 ACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGTGA
1 ACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGA
*
60961700 ACTCGGACTCAAC
1 ACTC-AACTCAAC
60961713 TCAATGAGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 17
0.72 0.13 0.16
Matches are distributed among these distances:
40 10 0.13
41 25 0.32
42 2 0.03
43 7 0.09
45 8 0.10
46 2 0.03
47 18 0.23
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
ACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGA
Found at i:60961663 original size:42 final size:41
Alignment explanation
Indices: 60961530--60961666 Score: 109
Period size: 42 Copynumber: 3.2 Consensus size: 41
60961520 ATCAGACTCA
*
60961530 ACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGG
1 ACTCAACGAGTTCGGATGCCTA-TTACATCTCACGAACTCGG
* * * * *
60961572 ACTCAACTCAGCGAGTTCGGA--CGT-TCACATCCATAAGTGAACTCAG
1 ACTC-A---A-CGAGTTCGGATGCCTATTACAT-C-TCA-CGAACTCGG
60961618 ACTCAACGAGTTCGGATGCCTAATTACATCTCACGAACTCGG
1 ACTCAACGAGTTCGGATGCCT-ATTACATCTCACGAACTCGG
60961660 ACTCAAC
1 ACTCAAC
60961667 TCAACGAGTT
Statistics
Matches: 72, Mismatches: 11, Indels: 24
0.67 0.10 0.22
Matches are distributed among these distances:
41 10 0.14
42 19 0.26
43 10 0.14
44 1 0.01
45 10 0.14
46 12 0.17
47 10 0.14
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
ACTCAACGAGTTCGGATGCCTATTACATCTCACGAACTCGG
Found at i:60961705 original size:46 final size:46
Alignment explanation
Indices: 60961463--60961716 Score: 190
Period size: 46 Copynumber: 5.6 Consensus size: 46
60961453 TGTAACTCGC
* * *
60961463 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
* * *
60961509 CCATAAGTGAAATCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACAT
* * *
60961559 --TTCA-CGAACTCGGACTCAACTCAGCGAGTTCGGACGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
* * * *
60961602 CCATAAGTGAACTC--A---GACTCAACGAGTTCGGATGCCTAATTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA--CGT--TCACAT
* * *
60961647 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
*
60961690 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGCGAACTCGGACTCAACTCAA
60961717 TGAGCTTGGA
Statistics
Matches: 159, Mismatches: 28, Indels: 42
0.69 0.12 0.18
Matches are distributed among these distances:
41 15 0.09
42 9 0.06
43 12 0.08
44 5 0.03
45 11 0.07
46 56 0.35
47 41 0.26
48 2 0.01
49 1 0.01
50 4 0.03
51 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:60966079 original size:20 final size:20
Alignment explanation
Indices: 60966043--60966081 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
60966033 AAACGACTAT
*
60966043 TCGATCACTTTCGAATTTCC
1 TCGATCACTTTCCAATTTCC
60966063 TCGATCTAC-TTCCAATTTC
1 TCGATC-ACTTTCCAATTTC
60966082 TTTCGCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.41
Consensus pattern (20 bp):
TCGATCACTTTCCAATTTCC
Found at i:60978929 original size:46 final size:46
Alignment explanation
Indices: 60978876--60978988 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 46
60978866 TGTGTGTCAA
* ** *
60978876 TGTAAGACATGTTTGGGACATGCAGAGACCA-CATTATTAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCAGAGA-CATCAAGATGAGAGCTAG
* * ** *
60978922 TGTAAGACATGTCTAGGACAGGCATCGACATTAAGATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCAGAGACATCAAGATGAGAGCTAG
60978968 TGTAAGACATGTCTGGGACAT
1 TGTAAGACATGTCTGGGACAT
60978989 ACATCAGCCT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 2 0.04
46 53 0.96
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCAGAGACATCAAGATGAGAGCTAG
Found at i:60979113 original size:27 final size:27
Alignment explanation
Indices: 60979062--60979113 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
60979052 TGTGTCAGTG
***
60979062 TAAGACCTGTCTGGGACATGGCATCAA
1 TAAGACCTGTCTGGGACACAACATCAA
60979089 TAAGACCTGTCTGGGACACAACATC
1 TAAGACCTGTCTGGGACACAACATC
60979114 GACCTCGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (27 bp):
TAAGACCTGTCTGGGACACAACATCAA
Found at i:60983938 original size:68 final size:68
Alignment explanation
Indices: 60983847--60984004 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 68
60983837 TTCACTTGGA
* * *
60983847 ATCACTCATGCGACCTAGCTACATTTATCTCTCATGTAGCTCTCTTGTCTACATAGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATAGGATACATCC
60983912 CGT
66 CGT
*
60983915 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATAGGATACATCC
60983980 CGT
66 CGT
60983983 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
60984005 TATATAGTAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATAGGATACATCC
CGT
Found at i:60984021 original size:68 final size:66
Alignment explanation
Indices: 60983847--60984030 Score: 253
Period size: 68 Copynumber: 2.7 Consensus size: 66
60983837 TTCACTTGGA
* *
60983847 ATCACTCATGCGACCTAGCTACATTTATCTCTCATGTAGCTCTCTTGTCTACATAGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTC--GTAGCTCTCTTGTCTACATAGGATACATCC
60983912 CGT
64 CGT
*
60983915 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCT--CGTAGCTCTCTTGTCTACATAGGATACATCC
60983980 CGT
64 CGT
* *
60983983 ATCACACATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATTTA-TCTCTCGTAGCTC-TCTTGT
60984031 ACACATAATG
Statistics
Matches: 106, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
67 1 0.01
68 96 0.91
69 4 0.04
70 5 0.05
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (66 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCGTAGCTCTCTTGTCTACATAGGATACATCCCG
T
Found at i:60991484 original size:66 final size:66
Alignment explanation
Indices: 60991354--60991569 Score: 271
Period size: 68 Copynumber: 3.2 Consensus size: 66
60991344 TAGTACCACT
* * * *
60991354 CATGCGACCTAGC--CGATTTATCT--CGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGA
1 CATGCGACCTAGCTAC-ATTTATCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C--CGT
*
60991414 ATCACT
61 ATCACA
60991420 CATGCGACCTAGCTACATTTATCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCAC
1 CATGCGACCTAGCTACATTTATCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCAC
60991485 A
66 A
*
60991486 CATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATC
1 CATGCGACCTAGCTACATTTA--TCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATC
60991551 ACA
64 ACA
*
60991554 CATGTGACCTAGCTAC
1 CATGCGACCTAGCTAC
60991570 TATATAGTAT
Statistics
Matches: 137, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
66 39 0.28
67 8 0.06
68 64 0.47
69 26 0.19
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (66 bp):
CATGCGACCTAGCTACATTTATCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCAC
A
Found at i:60991533 original size:68 final size:66
Alignment explanation
Indices: 60991414--60991569 Score: 276
Period size: 68 Copynumber: 2.3 Consensus size: 66
60991404 TTCACTTGGA
* *
60991414 ATCACTCATGCGACCTAGCTACATTTATCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
1 ATCACACATGTGACCTAGCTACATTTATCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
60991479 T
66 T
60991480 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTA--TCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
60991545 CGT
64 CGT
60991548 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
60991570 TATATAGTAT
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
66 25 0.29
68 61 0.71
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (66 bp):
ATCACACATGTGACCTAGCTACATTTATCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCG
T
Found at i:60991586 original size:68 final size:66
Alignment explanation
Indices: 60991372--60991595 Score: 263
Period size: 68 Copynumber: 3.3 Consensus size: 66
60991362 CTAGCCGATT
* * * * * *
60991372 TATCTCGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGAATCACTCATGCGACCTAGCTAC
1 TATCTCGTAGCTCTCTTGTCTACATGG-GATACATC-C--CGTATCACACATGTGACCTAGCTAC
60991436 ATTTA
62 ATTTA
* *
60991441 TCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTT
1 TATCTCGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTT
60991506 A
66 A
*
60991507 TCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTAC-A
*
60991572 TATA
63 TTTA
60991576 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
60991596 ACACATAATG
Statistics
Matches: 138, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
66 30 0.22
67 1 0.01
68 70 0.51
69 33 0.24
70 4 0.03
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (66 bp):
TATCTCGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTT
A
Found at i:60993618 original size:7 final size:7
Alignment explanation
Indices: 60993602--60993639 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
60993592 GATGACATCT
60993602 TTTTCT-
1 TTTTCTA
60993608 TTTTCTA
1 TTTTCTA
60993615 TTTTCTA
1 TTTTCTA
60993622 TTTTCTA
1 TTTTCTA
60993629 TTTTCTA
1 TTTTCTA
60993636 TTTT
1 TTTT
60993640 AGTCAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTA
Found at i:60998825 original size:41 final size:41
Alignment explanation
Indices: 60998709--60998858 Score: 187
Period size: 41 Copynumber: 3.7 Consensus size: 41
60998699 CGCTGACTCA
* * *
60998709 AAAAGCCCTTCGAGACCAAGCTCGAATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
60998750 GAAGGCCCTTCGAAACTAGGTTCAGG--TATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTC-GGATTATGACACTGGCTC
60998790 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
60998831 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
60998859 TAAACCCCGA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 28 0.31
41 58 0.65
42 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:61006705 original size:41 final size:41
Alignment explanation
Indices: 61006654--61006803 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
61006644 CGCTGACTCA
* * *
61006654 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
* * * * * * *
61006695 GAAGGCCCTTCGAAACTAGGTTCAG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
*
61006735 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
61006776 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCAGATT
61006804 TAAACCCCGA
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
Found at i:61016172 original size:46 final size:45
Alignment explanation
Indices: 61016122--61016284 Score: 125
Period size: 46 Copynumber: 3.5 Consensus size: 45
61016112 CCAGTGCAAG
61016122 AGATATAC-GGGACATGCATCAGCCTTGAGATATACAAGCTAGTGTA
1 AGATAT-CTGGGACATGCATC-GCCTTGAGATATACAAGCTAGTGTA
* * ** * * *
61016168 AGATAGTCTAGGACATGCATCGACATTGAGA-CGA-GAGCTACTATA
1 AGATA-TCTGGGACATGCATCG-CCTTGAGATATACAAGCTAGTGTA
* *
61016213 AGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTA
1 AG--ATATCTGGGACATGCATC-GCCTTGAGATATACAAGCTAGTGTA
*
61016261 AGACTTGTCTGGGACATGGCATCG
1 AGA--TATCTGGGACAT-GCATCG
61016285 ACACCGATAG
Statistics
Matches: 90, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
45 10 0.11
46 29 0.32
47 23 0.26
48 23 0.26
49 5 0.06
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (45 bp):
AGATATCTGGGACATGCATCGCCTTGAGATATACAAGCTAGTGTA
Found at i:61016204 original size:93 final size:95
Alignment explanation
Indices: 61016107--61016287 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 95
61016097 GCCACATTAT
* * * *
61016107 GAGAGCCAGTGCAAGAGATATAC-GGGACATGCATCAGCCTTGAGATATACAAGCTAGTGTAAGA
1 GAGAGCCACTACAAGACATAT-CTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGA
61016171 -TAGTCTAGGACAT-GCATCGACATTGAGAC
65 CTAGTCTAGGACATGGCATCGACATTGAGAC
* * * *
61016200 GAGAGCTACTATAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCCACTACAAGACATATCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGAC
* *
61016265 TTGTCTGGGACATGGCATCGACA
66 TAGTCTAGGACATGGCATCGACA
61016288 CCGATAGATG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
92 1 0.01
93 54 0.72
94 11 0.15
95 9 0.12
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (95 bp):
GAGAGCCACTACAAGACATATCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGAC
TAGTCTAGGACATGGCATCGACATTGAGAC
Found at i:61016306 original size:49 final size:49
Alignment explanation
Indices: 61016157--61016426 Score: 193
Period size: 49 Copynumber: 5.6 Consensus size: 49
61016147 TGAGATATAC
* * * *
61016157 AAGCTAGTGTAAGA--TAGTCTAGGACAT-GCATCGACATTG--AGACGA
1 AAGCTAGTGTAAGACCT-GTCTGGGACATGGCATCGACCTCGATAGATGA
* * * * * * *
61016202 GAGCTACTATAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-A
1 AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
*
61016249 CAAGCTAGTGTAAGACTTGTCTGGGACATGGCATCGACAC-CGATAGATGA
1 -AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGA
* * * * *
61016299 AAGCTAGTGTAAGACCTATCTGAGACACGGCATCGACCTTGATATATGA
1 AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
* * * * * *
61016348 AAG-TCATTGTAAGACCTATCTGGGACATGGCATCGGCTTTGAT-G-TGC
1 AAGCT-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
* *
61016395 TAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 AAGCTAGTGTAAGACC-TGTCTGGGACATGGC
61016427 GTCAACATCT
Statistics
Matches: 180, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
45 11 0.06
46 19 0.11
47 16 0.09
48 42 0.23
49 90 0.50
50 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
Found at i:61021078 original size:42 final size:43
Alignment explanation
Indices: 61020974--61021139 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 43
61020964 AAAACTCATA
** * * *
61020974 CAATGCCAACGTCCCAGATGAGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACAAGGTCTTACACGAAATCATATAT
***
61021017 CAATGCCAGTATCCCAGACAAGGTCTTACACGAAATCATATA-
1 CAATGCCAACGTCCCAGACAAGGTCTTACACGAAATCATATAT
* * * * *
61021059 CGATGCCAATGTCCCAGACATGGTCTTACACATAAATC-TCAAAT
1 CAATGCCAACGTCCCAGACAAGGTCTTACAC-GAAATCAT-ATAT
* ** * *
61021103 CGATGCCAACGTCTTAGACATGCTCTTACACGAAATC
1 CAATGCCAACGTCCCAGACAAGGTCTTACACGAAATC
61021140 CTATGTCATG
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 28 0.28
43 46 0.46
44 27 0.27
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACAAGGTCTTACACGAAATCATATAT
Found at i:61027967 original size:40 final size:40
Alignment explanation
Indices: 61027912--61028077 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
61027902 AATGATATTA
* *
61027912 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTG-CTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACTATATCC
* *
61027952 GGGCTAAGACCCGAAGGCATCTGTGCTG-GCGACTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACTATATCC
* * * *
61027992 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATATCC
**
61028032 GGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATATCC
61028072 -GGCTAA
1 GGGCTAA
61028078 ATCCCAAAGA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
39 7 0.07
40 99 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATATCC
Found at i:61033090 original size:10 final size:10
Alignment explanation
Indices: 61033077--61033126 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
61033067 TAGATTTAGG
61033077 ATTTAT-TTT
1 ATTTATCTTT
61033086 CATTTATCTTT
1 -ATTTATCTTT
*
61033097 AATTATCTTT
1 ATTTATCTTT
61033107 ATTTAT-TTGT
1 ATTTATCTT-T
61033117 ATTTATCTTT
1 ATTTATCTTT
61033127 TAGGATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:61035807 original size:48 final size:48
Alignment explanation
Indices: 61035702--61035973 Score: 295
Period size: 48 Copynumber: 5.7 Consensus size: 48
61035692 TAAAATGCCT
61035702 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTC-TCAATGT---CG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG--CTC-TCAT-AATGTGGCCG
* * * * *
61035750 ATGCCATGTCCTAGACATTGACTTACATTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
* *
61035798 ATACAATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
* * * * **
61035846 ATGCCATGTCCCAAACATGATCTTACACTAGCACACATATCAACT--CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA--ATGTGGCCG
* *
61035894 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
* *
61035942 ATGCTATGTCCTAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
61035974 ACACATATCA
Statistics
Matches: 185, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
45 7 0.04
46 6 0.03
48 170 0.92
50 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
Found at i:61035962 original size:144 final size:144
Alignment explanation
Indices: 61035702--61035973 Score: 402
Period size: 144 Copynumber: 1.9 Consensus size: 144
61035692 TAAAATGCCT
* * * * * * *
61035702 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAATGTCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAAACATGATCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACA
* *
61035767 TTGACTTACATTGGCTCTCATAATGTGGCCGATACAATGTCCCAGACATGGTCTTACACTAGCTC
66 TGGACTTACACTGGCTCTCATAATGTGGCCGATACAATGTCCCAGACATGGTCTTACACTAGCTC
61035832 TCATAATGTGGCCG
131 TCATAATGTGGCCG
61035846 ATGCCATGTCCCAAACATGATCTTACACTAGCACACATATCAACT-CCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGATCTTACACTAGCACACATATCAA-TGCCGATGCCATGTCCCAGAC
* * * * *
61035910 ATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCTAGACATGGTCTTACACTAGC
65 ATGGACTTACACTGGCTCTCATAATGTGGCCGATACAATGTCCCAGACATGGTCTTACACTAGC
61035974 ACACATATCA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
144 112 0.99
145 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (144 bp):
ATGCCATGTCCCAAACATGATCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACA
TGGACTTACACTGGCTCTCATAATGTGGCCGATACAATGTCCCAGACATGGTCTTACACTAGCTC
TCATAATGTGGCCG
Found at i:61039078 original size:7 final size:7
Alignment explanation
Indices: 61039065--61039100 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
61039055 TCACATTTCT
61039065 ACTCATC
1 ACTCATC
*
61039072 CCTCATC
1 ACTCATC
*
61039079 ATTCATC
1 ACTCATC
61039086 ACTCATC
1 ACTCATC
61039093 ACTCATC
1 ACTCATC
61039100 A
1 A
61039101 TTCTCTCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.42, G:0.00, T:0.31
Consensus pattern (7 bp):
ACTCATC
Found at i:61041379 original size:27 final size:27
Alignment explanation
Indices: 61041339--61041497 Score: 228
Period size: 27 Copynumber: 5.9 Consensus size: 27
61041329 CTAATTAATT
* *
61041339 AAATGACTGTTTTTCCCTATATATGGTA
1 AAATGACTGTTTTGCCCT-TATGTGGTA
*
61041367 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * *
61041394 AAATGATTATTTTGTCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
61041421 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
61041448 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * *
61041475 AGATGACTGTTTTTCCCCTATGT
1 AAATGACTGTTTTGCCCTTATGT
61041498 ACAGTATATA
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 104 0.87
28 16 0.13
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:61041779 original size:23 final size:24
Alignment explanation
Indices: 61041753--61041797 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
61041743 TTATCCCTAC
*
61041753 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
61041776 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
61041798 GTAGGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:61051540 original size:13 final size:13
Alignment explanation
Indices: 61051524--61051549 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61051514 AATTTGGGTT
61051524 TTAAATTAATTAA
1 TTAAATTAATTAA
61051537 TTAAATTAATTAA
1 TTAAATTAATTAA
61051550 ATTTTATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAATTAATTAA
Found at i:61054264 original size:39 final size:39
Alignment explanation
Indices: 61054217--61054344 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
61054207 TATATGAGAT
61054217 TGGAAATATATCCGGACATGAGGTCTGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCTGCAGGCTATATGC
*
61054256 TTGAAATATATCCGGACATGAGGTCTGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCTGCAGGCTATATGC
* * **
61054295 TGGAAATATATCCGAACTTGAGGTCTGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCTGCAGGCTATATGC
*
61054334 TGGAAAAATAT
1 TGGAAATATAT
61054345 TCGGTTAAAG
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCTGCAGGCTATATGC
Found at i:61057861 original size:27 final size:27
Alignment explanation
Indices: 61057824--61058024 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
61057814 TAAATTGTAC
61057824 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
61057851 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61057878 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61057904 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61057932 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61057960 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61057987 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61058014 AGCACTGAGTG
1 AGCACTAAGTG
61058025 AGCGGACTCA
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61065976 original size:27 final size:27
Alignment explanation
Indices: 61065939--61066138 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
61065929 TAAATTGTAC
61065939 AGCAC-AAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
61065965 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61065992 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61066018 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61066046 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61066074 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61066101 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61066128 AGCACTGAGTG
1 AGCACTAAGTG
61066139 AGCGGACTCA
Statistics
Matches: 151, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.03
27 123 0.81
28 23 0.15
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61070518 original size:11 final size:11
Alignment explanation
Indices: 61070504--61070528 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61070494 CAAGCCATTT
61070504 CAAGGCATGAC
1 CAAGGCATGAC
61070515 CAAGGCATGAC
1 CAAGGCATGAC
61070526 CAA
1 CAA
61070529 CCACCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.28, G:0.24, T:0.08
Consensus pattern (11 bp):
CAAGGCATGAC
Found at i:61071810 original size:27 final size:27
Alignment explanation
Indices: 61071780--61072185 Score: 422
Period size: 27 Copynumber: 15.0 Consensus size: 27
61071770 AAAGTACTCC
61071780 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
61071807 CGATTTTTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61071834 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
61071861 CAATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
61071888 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * **
61071915 CAATTTGTAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61071942 CGATTTACAGAATTACTGTCTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
61071969 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
61071996 CGATTTATAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61072023 C-AGTTTACAGAATTACTGCTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
61072050 CAATTTACAGAATTACTGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
61072077 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61072104 CGATTTATAGAATTACTAG-TTTACCCT
1 CGATTTACAGAATTAC-CGTTTTACCCT
* * *
61072131 CGGTTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
61072158 CGATTTAAAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
61072185 C
1 C
61072186 AATTGTGAAA
Statistics
Matches: 316, Mismatches: 57, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.01
27 310 0.98
28 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:61071884 original size:81 final size:81
Alignment explanation
Indices: 61071782--61072189 Score: 507
Period size: 81 Copynumber: 5.0 Consensus size: 81
61071772 AGTACTCCCG
* ** *
61071782 ATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACTGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAAT
61071847 TACCATTTTACCCTCA
66 TACCATTTTACCCTCA
* * * * *
61071863 ATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAAT
* *
61071928 TACTATTTTACCCTCG
66 TACCATTTTACCCTCA
* * ** *
61071944 ATTTACAGAATTACTGTCTTACCCTC-AGTTTACAGAATTACCATTTTACCCTCGATTTATAGAA
1 ATTTACAGAATTACTGTTTTACCCTCGA-TTTACAAAATTACTGTTTTACCCTCGATTTATAAAA
*
61072008 TTATCATTTTACCCTCA
65 TTACCATTTTACCCTCA
* * * * * *
61072025 GTTTACAGAATTACTGCTTTACCCTCAATTTACAGAATTACTGTTTTACCATCGATTTGTAAAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAAT
* *
61072090 TACCGTTTTACCCTCG
66 TACCATTTTACCCTCA
* * *
61072106 ATTTATAGAATTACTAG-TTTACCCTCGGTTTACAAAATTA-TCGTTTTACCCTCGATTTAAAAA
1 ATTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTATAAA
*
61072169 ATTACTATTTTACCCTCA
64 ATTACCATTTTACCCTCA
61072187 ATT
1 ATT
61072190 GTGAAATTAC
Statistics
Matches: 281, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 277 0.99
82 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAAT
TACCATTTTACCCTCA
Found at i:61072232 original size:27 final size:27
Alignment explanation
Indices: 61072202--61072497 Score: 349
Period size: 27 Copynumber: 11.0 Consensus size: 27
61072192 GAAATTACTA
*
61072202 AAATACCCTTATAGGGTAGAATTATCG
1 AAATACCCTTATAGGGTAGAATTACCG
* **
61072229 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCTTATAGGGTAGAATTACCG
61072256 AAATACCCTTATAGGGTAGAATTACCG
1 AAATACCCTTATAGGGTAGAATTACCG
** * *
61072283 AAATACCCTCGTAGGGTGGAATTATCG
1 AAATACCCTTATAGGGTAGAATTACCG
* *
61072310 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTATAGGGTAGAATTACCG
* **
61072337 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCTTATAGGGTAGAATTACCG
61072364 AAATACCCTTATAGGGTAGAATTACCG
1 AAATACCCTTATAGGGTAGAATTACCG
*** *
61072391 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCTTATAGGGTAGAATTACCG
* * *
61072418 AAATACCCTTGTAGGGTAGAAATACAG
1 AAATACCCTTATAGGGTAGAATTACCG
* *
61072445 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTATAGGGTAGAATTACCG
* * * * *
61072472 AGATACCTTTGTGGGGTAAAATTACC
1 AAATACCCTTATAGGGTAGAATTACC
61072498 ATTTTGCCCC
Statistics
Matches: 229, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 229 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCTTATAGGGTAGAATTACCG
Found at i:61072263 original size:54 final size:54
Alignment explanation
Indices: 61072194--61072469 Score: 396
Period size: 54 Copynumber: 5.1 Consensus size: 54
61072184 TCAATTGTGA
* *
61072194 AATTACTAAAATACCCTTATAGGGTAGAATTATCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
61072248 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATA-CCCTCGTAGGGTGG
1 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCT-GTAGGGTAG
* * * *
61072302 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAG
1 AATTACT-AAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
61072356 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
61072410 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACAGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
61072464 AATTAC
1 AATTAC
61072470 CGAGATACCT
Statistics
Matches: 198, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
53 6 0.03
54 187 0.94
55 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:61072339 original size:108 final size:108
Alignment explanation
Indices: 61072202--61072469 Score: 473
Period size: 108 Copynumber: 2.5 Consensus size: 108
61072192 GAAATTACTA
* * *
61072202 AAATACCCTTATAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
* *
61072267 TAGGGTAGAATTACCGAAATACCCTCGTAGGGTGGAATTATCG
66 TAGGGTAGAATTACCGAAATACCCCCGTAGGGTAGAATTATCG
61072310 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
61072375 TAGGGTAGAATTACCGAAATACCCCCGTAGGGTAGAATTATCG
66 TAGGGTAGAATTACCGAAATACCCCCGTAGGGTAGAATTATCG
* *
61072418 AAATACCCTTGTAGGGTAGAAATACAGAAATACCCCTGTAGGGTAGAATTAC
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTAC
61072470 CGAGATACCT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 153 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (108 bp):
AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
TAGGGTAGAATTACCGAAATACCCCCGTAGGGTAGAATTATCG
Found at i:61072734 original size:27 final size:26
Alignment explanation
Indices: 61072696--61072778 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
61072686 CGGAGGAAGC
*
61072696 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
61072723 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
61072749 CTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
61072776 GTT
1 GTT
61072779 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:61072898 original size:22 final size:22
Alignment explanation
Indices: 61072866--61072924 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
61072856 CCCGTTATTA
*
61072866 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
61072888 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
61072910 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
61072925 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:61073289 original size:6 final size:6
Alignment explanation
Indices: 61073280--61073381 Score: 104
Period size: 6 Copynumber: 16.8 Consensus size: 6
61073270 TTGCATTCAC
* *
61073280 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
61073329 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
61073377 ATTCT
1 ATTCT
61073382 CATTTTGGTT
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
5 6 0.07
6 68 0.84
7 5 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:61073343 original size:30 final size:30
Alignment explanation
Indices: 61073280--61073381 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
61073270 TTGCATTCAC
*
61073280 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
61073311 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
61073341 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
61073371 ATTCTGATTCT
1 ATTCTGATTCT
61073382 CATTTTGGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
29 1 0.01
30 45 0.67
31 21 0.31
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:61075588 original size:23 final size:23
Alignment explanation
Indices: 61075561--61075781 Score: 239
Period size: 23 Copynumber: 9.6 Consensus size: 23
61075551 CAAAGTGCCA
* *
61075561 CACTGTAATATAGCCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
61075584 AACTGTAACGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
61075607 CACTGTATTGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
61075630 CACTGTATTATAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
61075653 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
** *
61075676 CACTGTCTTGTAGACGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
61075699 CACTGAAATGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* * * *
61075722 CATTGTATTGTAACCGAAGCAAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
61075745 CATTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
61075768 CACTG-AGATGTAGC
1 CACTGTA-ATGTAGC
61075782 TGATAGATTC
Statistics
Matches: 165, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
22 2 0.01
23 163 0.99
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:61075672 original size:69 final size:69
Alignment explanation
Indices: 61075561--61075772 Score: 273
Period size: 69 Copynumber: 3.1 Consensus size: 69
61075551 CAAAGTGCCA
** * *
61075561 CACTGTAATATAGCCGAAGCTATAACTGTAACGTAGCCGAAGCTACCACTGTATTGTAGCCAAAG
1 CACTGTAATATAGCCGAAGCTACCACTGTAATGTAGCCGAAGCTACCACTGTATTGTAGCCGAAG
61075626 CTAC
66 CTAC
* * *
61075630 CACTGTATTATAGCCGAAGCTACCACTG-AGATGTAGCCGAAGCTACCACTGTCTTGTAGACGAA
1 CACTGTAATATAGCCGAAGCTACCACTGTA-ATGTAGCCGAAGCTACCACTGTATTGTAGCCGAA
61075694 GCTAC
65 GCTAC
* * * * * * * *
61075699 CACTGAAATGTAGCCAAAGCTACCATTGTATTGTAACCGAAGCAACCATTGTATTGTAGCCGAAG
1 CACTGTAATATAGCCGAAGCTACCACTGTAATGTAGCCGAAGCTACCACTGTATTGTAGCCGAAG
61075764 CTAC
66 CTAC
61075768 CACTG
1 CACTG
61075773 AGATGTAGCT
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
68 1 0.01
69 121 0.98
70 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (69 bp):
CACTGTAATATAGCCGAAGCTACCACTGTAATGTAGCCGAAGCTACCACTGTATTGTAGCCGAAG
CTAC
Found at i:61079371 original size:46 final size:45
Alignment explanation
Indices: 61079321--61079496 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
61079311 TGGATGAGCA
*
61079321 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
61079367 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
61079412 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
61079460 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61079497 GCCGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:61079477 original size:93 final size:93
Alignment explanation
Indices: 61079318--61079489 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
61079308 GGATGGATGA
* * *
61079318 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61079383 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
61079411 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61079476 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
61079490 CTTATGGGCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61084147 original size:58 final size:58
Alignment explanation
Indices: 61084077--61084192 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
61084067 CAGGGAATAA
*
61084077 GGCACAAAGTGCCACACTGTAATATAACCAAAGATATCACTGTAACGTAGCCGAAGCT
1 GGCACAAAGTGCCACACTATAATATAACCAAAGATATCACTGTAACGTAGCCGAAGCT
* *
61084135 GGCACAAAGTGCCACACTATAATATAACCGAAGCTATCACTGTAACGTAGCCGAAGCT
1 GGCACAAAGTGCCACACTATAATATAACCAAAGATATCACTGTAACGTAGCCGAAGCT
61084193 ACCACTGTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (58 bp):
GGCACAAAGTGCCACACTATAATATAACCAAAGATATCACTGTAACGTAGCCGAAGCT
Found at i:61084276 original size:69 final size:69
Alignment explanation
Indices: 61084181--61084326 Score: 204
Period size: 69 Copynumber: 2.1 Consensus size: 69
61084171 TCACTGTAAC
* *
61084181 GTAGCCGAAGCTACCACTGTATTGTAGCCAAAGCTACCACTGTATTGTAGCCAAAGCTACCACTG
1 GTAGCCGAAGCTACCACTGTAATGTAGCCAAAGCTACCACTGAATTGTAGCCAAAGCTACCACTG
*
61084246 AGAT
66 AGAG
** * * *
61084250 GTAGCCGAAGCTACCACTG-AGATGTAGCTGAAGCTACCGCTGAATTGTGGCCGAAGCTACCACT
1 GTAGCCGAAGCTACCACTGTA-ATGTAGCCAAAGCTACCACTGAATTGTAGCCAAAGCTACCACT
61084314 GAGAG
65 GAGAG
61084319 GTAGCCGA
1 GTAGCCGA
61084327 TAGATTCCTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.01
69 67 0.99
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (69 bp):
GTAGCCGAAGCTACCACTGTAATGTAGCCAAAGCTACCACTGAATTGTAGCCAAAGCTACCACTG
AGAG
Found at i:61084315 original size:23 final size:22
Alignment explanation
Indices: 61084162--61084326 Score: 177
Period size: 23 Copynumber: 7.2 Consensus size: 22
61084152 TATAATATAA
* *
61084162 CCGAAGCTATCACTGTAACGTAG
1 CCGAAGCTACCACTG-AATGTAG
*
61084185 CCGAAGCTACCACTGTATTGTAG
1 CCGAAGCTACCACTG-AATGTAG
* *
61084208 CCAAAGCTACCACTGTATTGTAG
1 CCGAAGCTACCACTG-AATGTAG
*
61084231 CCAAAGCTACCACTGAGATGTAG
1 CCGAAGCTACCACTGA-ATGTAG
61084254 CCGAAGCTACCACTGAGATGTAG
1 CCGAAGCTACCACTGA-ATGTAG
* * *
61084277 CTGAAGCTACCGCTGAATTGTGG
1 CCGAAGCTACCACTGAA-TGTAG
*
61084300 CCGAAGCTACCACTGAGAGGTAG
1 CCGAAGCTACCACTGA-ATGTAG
61084323 CCGA
1 CCGA
61084327 TAGATTCCTA
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
22 2 0.02
23 123 0.98
24 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (22 bp):
CCGAAGCTACCACTGAATGTAG
Found at i:61091544 original size:37 final size:38
Alignment explanation
Indices: 61091471--61091556 Score: 156
Period size: 37 Copynumber: 2.3 Consensus size: 38
61091461 GAGGTATTAA
61091471 TTAGGTTAATTAATAAATAATTGGTAAAATATCTAATT
1 TTAGGTTAATTAATAAATAATTGGTAAAATATCTAATT
*
61091509 TTAGGTTAATTAATAATTAATT-GTAAAATATCTAATT
1 TTAGGTTAATTAATAAATAATTGGTAAAATATCTAATT
61091546 TTAGGTTAATT
1 TTAGGTTAATT
61091557 GCAACCATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 26 0.55
38 21 0.45
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.45
Consensus pattern (38 bp):
TTAGGTTAATTAATAAATAATTGGTAAAATATCTAATT
Found at i:61092952 original size:19 final size:20
Alignment explanation
Indices: 61092930--61092971 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
61092920 GAAAGTGTTT
*
61092930 ATAATTTT-ATCAAGTCAAA
1 ATAATTTTAAACAAGTCAAA
61092949 ATAATTTTCAAACAAGTCAAA
1 ATAATTTT-AAACAAGTCAAA
61092970 AT
1 AT
61092972 TGCTCAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATTTTAAACAAGTCAAA
Found at i:61102969 original size:56 final size:56
Alignment explanation
Indices: 61102883--61103002 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
61102873 ACAAGGGATG
61102883 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
61102939 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
61102995 ATGGGCAA
1 ATGGGCAA
61103003 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:61104512 original size:47 final size:47
Alignment explanation
Indices: 61104458--61105089 Score: 914
Period size: 47 Copynumber: 13.3 Consensus size: 47
61104448 TATTTGAATA
*
61104458 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
61104505 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61104554 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61104603 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* **
61104650 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
61104699 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
61104746 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61104795 AATGTGAACA-TGTGTATATGTGATAAGACCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61104842 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61104889 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61104936 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
61104983 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGTCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
61105030 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61105077 GATGTGGAAGTGT
1 AATGTGAAAGTGT
61105090 GTAACGCCCC
Statistics
Matches: 552, Mismatches: 25, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 364 0.66
49 186 0.34
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:61104901 original size:94 final size:94
Alignment explanation
Indices: 61104458--61105089 Score: 914
Period size: 96 Copynumber: 6.6 Consensus size: 94
61104448 TATTTGAATA
*
61104458 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
*
61104523 TATGTGATAAGGCCTAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61104554 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
61104619 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* **
61104650 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
61104715 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
61104746 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
61104810 ATATGTGATAAGACCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
61104842 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
61104905 TGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
61104936 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
* *
61104999 TATGAGATAAGGCCGAATGGTCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
61105030 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
61105090 GTAACGCCCC
Statistics
Matches: 502, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 214 0.43
96 238 0.47
97 2 0.00
98 46 0.09
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:61106995 original size:22 final size:22
Alignment explanation
Indices: 61106967--61107088 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
61106957 TTCCACATCC
61106967 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
61106989 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
61107013 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
61107036 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
61107060 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
61107083 ATCACA
1 ATCACA
61107089 CATACACATA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:61107002 original size:47 final size:47
Alignment explanation
Indices: 61106939--61107584 Score: 888
Period size: 47 Copynumber: 13.6 Consensus size: 47
61106929 CCCTTCGGGA
* * *
61106939 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61106986 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61107033 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
61107080 CTTATCACACATACACA-TATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
61107127 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
61107174 CTTATCTCACATACACA-TGTTCACATTCATCACATTGGCCATTCGGT
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
61107221 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
61107268 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61107317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61107364 CTTATCACATATATCTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATTGGCCATTCGGC
*** *
61107413 CTTATCACATATATACACTTTCACATTCATCACATCATCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61107460 TTTATCATATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61107509 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61107558 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
61107585 TATTCAAATA
Statistics
Matches: 559, Mismatches: 30, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 379 0.68
49 178 0.32
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:61112006 original size:19 final size:20
Alignment explanation
Indices: 61111966--61112008 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
61111956 GGGCATTACA
61111966 TATTAAGTATCAATACATTTT
1 TATTAAGTATCAATA-ATTTT
* *
61111987 TATTAAGTATCACTATTTTT
1 TATTAAGTATCAATAATTTT
61112007 TA
1 TA
61112009 AAATATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
TATTAAGTATCAATAATTTT
Found at i:61118394 original size:47 final size:47
Alignment explanation
Indices: 61118210--61118476 Score: 471
Period size: 49 Copynumber: 5.6 Consensus size: 47
61118200 GTATATTTGA
61118210 ATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGT--ATATATGTGATAAGGCCTAATGGCCGATGTG
*
61118259 ATGGATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGT--ATATATGTGATAAGGCCTAATGGCCGATGTG
61118308 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
61118357 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
61118404 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
61118451 ATGAATGTGAAAGTGTATATATGTGA
1 ATGAATGTGAAAGTGTATATATGTGA
61118477 ATGTGAAAGT
Statistics
Matches: 214, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
47 105 0.49
49 108 0.50
51 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:61118479 original size:22 final size:22
Alignment explanation
Indices: 61118452--61118498 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
61118442 GCCGATGTGA
61118452 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
61118474 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
61118496 TGA
1 TGA
61118499 CAGGGCCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (22 bp):
TGAATGTGAAAGTGTATATATG
Found at i:61118479 original size:69 final size:69
Alignment explanation
Indices: 61118405--61118545 Score: 210
Period size: 69 Copynumber: 2.0 Consensus size: 69
61118395 GCCGATGTGA
* * * *
61118405 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
*
61118470 TATG
66 AATG
* * *
61118474 TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
61118539 AATG
66 AATG
61118543 TGA
1 TGA
61118546 TAAGTCCCGA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (69 bp):
TGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
AATG
Found at i:61118724 original size:37 final size:37
Alignment explanation
Indices: 61118668--61118746 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61118658 CCGAGCTCTA
* * *
61118668 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
61118705 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
61118742 AAGAC
1 AAGAC
61118747 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:61124445 original size:28 final size:28
Alignment explanation
Indices: 61124400--61124496 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
61124390 ATGTCGTTGA
* *
61124400 ATACTCAATGTCTCGCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
* *
61124428 ATACTCGATATCTTGCACACTAAGTGCT
1 ATACTCGATATCTCGCACACTAAGTGCC
* *
61124456 ATACTCCATATCTCGCACACTAAGTGTC
1 ATACTCGATATCTCGCACACTAAGTGCC
61124484 ATACTCGATATCT
1 ATACTCGATATCT
61124497 TACACATTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (28 bp):
ATACTCGATATCTCGCACACTAAGTGCC
Found at i:61124471 original size:56 final size:56
Alignment explanation
Indices: 61124400--61124509 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
61124390 ATGTCGTTGA
* *
61124400 ATACTCAATGTCTCGCACACTAAGTGCCATACTCGATATCTTGCACACTAAGTGCT
1 ATACTCAATATCTCGCACACTAAGTGCCATACTCGATATCTTACACACTAAGTGCT
* * *
61124456 ATACTCCATATCTCGCACACTAAGTGTCATACTCGATATCTTACACATTAAGTG
1 ATACTCAATATCTCGCACACTAAGTGCCATACTCGATATCTTACACACTAAGTG
61124510 TCGTACATAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (56 bp):
ATACTCAATATCTCGCACACTAAGTGCCATACTCGATATCTTACACACTAAGTGCT
Found at i:61124502 original size:28 final size:28
Alignment explanation
Indices: 61124400--61124511 Score: 136
Period size: 28 Copynumber: 4.0 Consensus size: 28
61124390 ATGTCGTTGA
* * * *
61124400 ATACTCAATGTCTCGCACACTAAGTGCC
1 ATACTCGATATCTTGCACACTAAGTGTC
61124428 ATACTCGATATCTTGCACACTAAGTG-C
1 ATACTCGATATCTTGCACACTAAGTGTC
* *
61124455 TATACTCCATATCTCGCACACTAAGTGTC
1 -ATACTCGATATCTTGCACACTAAGTGTC
* *
61124484 ATACTCGATATCTTACACATTAAGTGTC
1 ATACTCGATATCTTGCACACTAAGTGTC
61124512 GTACATAGCC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.01
28 71 0.97
29 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (28 bp):
ATACTCGATATCTTGCACACTAAGTGTC
Found at i:61124587 original size:40 final size:40
Alignment explanation
Indices: 61124496--61124591 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
61124486 ACTCGATATC
* *
61124496 TTACACATTAAGTGTCGTACATAGCCGAAGCTATCCCAAA
1 TTACACACTAAGTGCCGTACATAGCCGAAGCTATCCCAAA
** ** * ** *
61124536 TCGCATGCTAAGTGCCGTATATAGCCGAAGCTATGTCGAA
1 TTACACACTAAGTGCCGTACATAGCCGAAGCTATCCCAAA
61124576 TTACACACTAAGTGCC
1 TTACACACTAAGTGCC
61124592 ACAAATAGCC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
TTACACACTAAGTGCCGTACATAGCCGAAGCTATCCCAAA
Found at i:61130948 original size:28 final size:28
Alignment explanation
Indices: 61130916--61130980 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
61130906 ATTTACTAGA
*
61130916 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
61130944 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
61130972 ATACCCCTA
1 ATACCCCTA
61130981 AGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:61131187 original size:29 final size:28
Alignment explanation
Indices: 61131096--61131176 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
61131086 CTGGTAGCTT
* *
61131096 TGCCACAAATTGTCTGTTCTGGTGGCCC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
61131124 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
*
61131152 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAATTATCTGT-TCTGGTG
61131177 ACTCTGTCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 42 0.86
29 7 0.14
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (28 bp):
TGCCACAAATTATCTGTTCTGGTGGCAC
Found at i:61131201 original size:56 final size:55
Alignment explanation
Indices: 61131096--61131201 Score: 124
Period size: 56 Copynumber: 1.9 Consensus size: 55
61131086 CTGGTAGCTT
* * *
61131096 TGCCACAAATTGTCTGTTCTGGTGGCCCTGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTTCTGGTGGCAC
* * *
61131152 TGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-TCTGG
61131202 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
55 8 0.19
56 20 0.48
57 14 0.33
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (55 bp):
TGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTTCTGGTGGCAC
Found at i:61131668 original size:18 final size:18
Alignment explanation
Indices: 61131629--61131669 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
61131619 TAATAAGGCC
* *
61131629 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
61131647 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
61131665 TTTTA
1 TTTTA
61131670 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:61137229 original size:14 final size:14
Alignment explanation
Indices: 61137212--61137239 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61137202 CAATATGCCA
61137212 CAATCATCAATCTC
1 CAATCATCAATCTC
61137226 CAATCATCAATCTC
1 CAATCATCAATCTC
61137240 ACATATCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CAATCATCAATCTC
Found at i:61142755 original size:39 final size:39
Alignment explanation
Indices: 61142639--61142926 Score: 244
Period size: 39 Copynumber: 7.4 Consensus size: 39
61142629 TGCATGGAAT
* * * *
61142639 TGGAAAAATATCCGGACTTGAAGT-CCGCAGGCTTTA-TGC
1 TGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTAGTGC
* * *
61142678 TGGAAATATATCCGGACTTAAAGT-CCGCAGGC-TAAGTGC
1 TGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTAGTGC
* *
61142717 TGGAAAAATATCCAGGCTAAGTCCCGAAGGCATTAGTGC
1 TGGAAATATATCCGGGCTAAGTCCCGAAGGCATTAGTGC
* * * *
61142756 TAGTATTATATCCGGGCTAAGTCCTGAAGGCATTCA-TGC
1 TGGAAATATATCCGGGCTAAGTCCCGAAGGCATT-AGTGC
* * * *
61142795 TGGTATTATATCCGGGCTAAGTCCCGAAAGCATTCGTGC
1 TGGAAATATATCCGGGCTAAGTCCCGAAGGCATTAGTGC
**** *
61142834 TGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGAAATATATCCGGGCTAAGTCCCGAAGGCATTAGTGC
*** *
61142873 TGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGAAATATATCCGGGCTAAGTCCCGAAGGCATTAGTGC
* *
61142912 TGGTATTATATCCGG
1 TGGAAATATATCCGG
61142927 CTTAAAGTCC
Statistics
Matches: 217, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
37 4 0.02
38 10 0.05
39 202 0.93
40 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAGTCCCGAAGGCATTAGTGC
Found at i:61148653 original size:39 final size:39
Alignment explanation
Indices: 61148599--61148730 Score: 212
Period size: 39 Copynumber: 3.4 Consensus size: 39
61148589 TGCATGGTAT
61148599 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
61148638 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
61148677 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
61148716 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
61148731 GCTAAGTCCC
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 2 0.02
39 86 0.98
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:61148755 original size:39 final size:39
Alignment explanation
Indices: 61148635--61148937 Score: 319
Period size: 39 Copynumber: 7.7 Consensus size: 39
61148625 GCAGGCTTTA
* * **
61148635 TGCTGGAAATATATCCGGACTTGAAGT-CCGCAGGC-TTTA
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
* * **
61148674 TGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGC-TAAG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
*
61148713 TGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * *
61148752 TGCT-GTATTATATCCGGGCTAAGTCCTGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
61148790 TGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
***
61148829 TGCTGGTGCTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
***
61148868 TGCTGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
61148907 TGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCG
61148938 CATGCTTTGT
Statistics
Matches: 239, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
37 4 0.02
38 42 0.18
39 184 0.77
40 1 0.00
41 8 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (39 bp):
TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
Found at i:61148923 original size:117 final size:118
Alignment explanation
Indices: 61148723--61148937 Score: 380
Period size: 117 Copynumber: 1.8 Consensus size: 118
61148713 TGCTGGAAAA
* *
61148723 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGTATTATATCCGGGCTAAGTCCTGAAGGCATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGCATTATATCCGGGCTAAGTCCCGAAGGCATT
61148788 CGTGCTGGTATTATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGTGCT
66 CGTGCTGGTATTATATCCGGGCTTAAAGTCCCGAAGGCATTCGTGCTGGTGCT
*
61148839 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCGTTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT-GCATTATATCCGGGCTAAGTCCCGAAGGCAT
61148904 TCGTGCTGGTATTATATCCGGGCTTAAAGTCCCG
65 TCGTGCTGGTATTATATCCGGGCTTAAAGTCCCG
61148938 CATGCTTTGT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
116 33 0.35
117 51 0.55
118 1 0.01
119 8 0.09
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (118 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGCATTATATCCGGGCTAAGTCCCGAAGGCATT
CGTGCTGGTATTATATCCGGGCTTAAAGTCCCGAAGGCATTCGTGCTGGTGCT
Found at i:61150665 original size:7 final size:7
Alignment explanation
Indices: 61150653--61150677 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61150643 ACTTTTTCAA
61150653 TCATCCC
1 TCATCCC
61150660 TCATCCC
1 TCATCCC
61150667 TCATCCC
1 TCATCCC
61150674 TCAT
1 TCAT
61150678 TCATCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:61155430 original size:47 final size:47
Alignment explanation
Indices: 61155359--61156344 Score: 1639
Period size: 47 Copynumber: 20.6 Consensus size: 47
61155349 CCCTTCGGGA
* * * * * *
61155359 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61155406 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61155453 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61155500 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61155547 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61155594 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61155641 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61155690 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61155737 CTTATCACATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61155791 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61155838 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61155885 CTTACCACATATATATACACTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61155934 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61155983 CTTATCACATATATACAATTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61156030 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61156079 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61156126 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61156175 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61156222 CTTATCACATATATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61156269 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61156318 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
61156345 TATTCAAATA
Statistics
Matches: 892, Mismatches: 30, Indels: 34
0.93 0.03 0.04
Matches are distributed among these distances:
47 572 0.64
49 272 0.30
50 1 0.00
51 1 0.00
54 46 0.05
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61155683 original size:96 final size:96
Alignment explanation
Indices: 61155359--61156344 Score: 1654
Period size: 96 Copynumber: 10.3 Consensus size: 96
61155349 CCCTTCGGGA
* * * * * *
61155359 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61155422 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61155453 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61155516 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61155547 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61155610 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
61155641 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61155706 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61155737 CTTATCACATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 CTTATCAC--AT---ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
61155802 TATACACTTTCACATTCATCACATCGGCCATTAGGC
61 TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61155838 CTTATCAC--ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTACCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
61155901 ACACTTGCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
61155934 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
61155999 AATTTCACATTGATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61156030 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61156095 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
61156126 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61156191 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
61156222 CTTATCAC--ATATATACACTTTCACATTGATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
61156285 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
61156318 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
61156345 TATTCAAATA
Statistics
Matches: 852, Mismatches: 25, Indels: 28
0.94 0.03 0.03
Matches are distributed among these distances:
93 1 0.00
94 276 0.32
96 435 0.51
98 48 0.06
101 92 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61155702 original size:143 final size:141
Alignment explanation
Indices: 61155359--61156344 Score: 1639
Period size: 143 Copynumber: 6.9 Consensus size: 141
61155349 CCCTTCGGGA
* * * * * * *
61155359 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
61155424 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
61155489 GGCCATTAGGC
131 GGCCATTAGGC
61155500 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
61155565 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
61155630 GGCCATTAGGC
131 GGCCATTAGGC
* *
61155641 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61155706 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCC---T----TATCACATATATACACTTTCACATT
61155771 CATCACATCGGCCATTAGGC
122 CATCACATCGGCCATTAGGC
61155791 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
61155856 TTTCACATTCATCACATCGACCATTAGGCCTTACCACATATATATACACTTGCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
61155921 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
61155934 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
61155999 AATTTCACATTGATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
61156064 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
61156079 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
61156144 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
61156209 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
61156222 CTTATCACATATATACACTTTCACATTGATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
61156287 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
61156345 TATTCAAATA
Statistics
Matches: 802, Mismatches: 28, Indels: 28
0.93 0.03 0.03
Matches are distributed among these distances:
141 147 0.18
143 336 0.42
145 181 0.23
146 1 0.00
148 84 0.10
150 53 0.07
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:61159440 original size:27 final size:27
Alignment explanation
Indices: 61159409--61159463 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
61159399 TAGAATACTT
*
61159409 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
**
61159436 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
61159463 T
1 T
61159464 GATTTGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.29
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:61159469 original size:27 final size:28
Alignment explanation
Indices: 61159418--61159596 Score: 145
Period size: 27 Copynumber: 6.6 Consensus size: 28
61159408 TTAGTTTACC
*
61159418 AAATTACCAAAATACCCCTAG-TTTGTA
1 AAATTACCAAAATACCCCTCGATTTGTA
*
61159445 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTCGATTTGTA
** **
61159472 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTCGATTTGTA
** *
61159499 AAATTATAAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTCGATTTGTA
* * *
61159526 AAATTACCAAAGTACCCCT-AATTTATA
1 AAATTACCAAAATACCCCTCGATTTGTA
* * *** *
61159553 GAATTGCCATTTTA-CCCTCGATTTATA
1 AAATTACCAAAATACCCCTCGATTTGTA
*
61159580 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
61159597 TTGTAGGGTA
Statistics
Matches: 119, Mismatches: 28, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
26 9 0.08
27 104 0.87
28 6 0.05
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (28 bp):
AAATTACCAAAATACCCCTCGATTTGTA
Found at i:61159614 original size:27 final size:27
Alignment explanation
Indices: 61159584--61159826 Score: 301
Period size: 27 Copynumber: 9.0 Consensus size: 27
61159574 TTTATAAAAT
*
61159584 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
61159611 TACCGAAATACCCTTGTAGGGTAGAAC
1 TACCGAAATACCCCTGTAGGGTAGAAA
61159638 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
61159665 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** *
61159692 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
61159719 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
** *
61159746 TACTAAAATACCCCTGTAGGGTA-ATAT
1 TACCGAAATACCCCTGTAGGGTAGA-AA
** *
61159773 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * * *
61159800 TACTGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
61159826 T
1 T
61159827 TACCATTTTA
Statistics
Matches: 195, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.02
27 190 0.97
28 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:61159814 original size:81 final size:81
Alignment explanation
Indices: 61159584--61159831 Score: 347
Period size: 81 Copynumber: 3.1 Consensus size: 81
61159574 TTTATAAAAT
* * * ** * *
61159584 TACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAACTACCGAAATAC
1 TACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
*
61159649 CCCTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
*
61159665 TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
1 TACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
61159730 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * *
61159746 TACTAAAATACCCCTGTAGGGTA-ATATTACTAAAATACCCCTGTAGGGTAGAATTACTGAGATA
1 TACCAAAATACCCCTGTAGGGTAGA-ATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATA
*
61159810 CCCTTGTGGGGTA-AAA
65 CCCTTGTAGGGTAGAAA
61159826 TTACCA
1 -TACCA
61159832 TTTTACCCCT
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
80 4 0.03
81 148 0.97
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (81 bp):
TACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:61164089 original size:28 final size:27
Alignment explanation
Indices: 61164056--61164154 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
61164046 TTAGAATACT
* *
61164056 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
*
61164084 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
61164111 -TCGATTTGTAAAATTACTGAAATA-CC
1 TTAG-TTTGTAAAATTACTGAAATACCC
**
61164137 TTCAACTTGTAAAATTAC
1 TT-AGTTTGTAAAATTAC
61164155 CAAGGTACCC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.07
27 49 0.82
28 7 0.12
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:61164190 original size:27 final size:26
Alignment explanation
Indices: 61164160--61164316 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 26
61164150 ATTACCAAGG
* *
61164160 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
61164187 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
61164214 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
61164241 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* * **
61164268 TACCCTTGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
61164295 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
61164317 TAAAATACCC
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 114 0.99
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:61164317 original size:81 final size:81
Alignment explanation
Indices: 61164160--61164317 Score: 210
Period size: 81 Copynumber: 2.0 Consensus size: 81
61164150 ATTACCAAGG
* *
61164160 TACCCCCGATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCCCGATTTACAGAATTATCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
*
61164225 TACAGAATTACTGTTT
66 TACAAAATTACTGTTT
* * * * * **
61164241 TACCCTCGATTTATAGAATTA-CTGTTTTACCCTTGATTTATAGAATTATTATTTTACCCTCGAT
1 TACCCCCGATTTACAGAATTATC-GTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGAT
61164305 TTACAAAATTACT
65 TTACAAAATTACT
61164318 AAAATACCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCCCGATTTACAGAATTATCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:61164325 original size:27 final size:27
Alignment explanation
Indices: 61164214--61164516 Score: 130
Period size: 27 Copynumber: 11.1 Consensus size: 27
61164204 ATTACCGTTT
* * ****
61164214 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* ****
61164241 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ***
61164268 TACCCTTGATTTATAGAATTATTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
61164295 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
61164322 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
61164349 TATCCCTAG-TTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTATAAAATTACTAAAA
* * * *
61164376 TACCCT-TAGTTTGTGAAATTA-TCGAAA
1 TACCCTCGA-TTTATAAAATTACT-AAAA
* * *
61164403 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
61164430 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* *
61164457 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAT-AAAATTACTA-AAA
* * * * *
61164486 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
61164513 TACC
1 TACC
61164517 TTTGGTTTGT
Statistics
Matches: 224, Mismatches: 40, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.02
27 189 0.84
28 14 0.06
29 16 0.07
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:61164342 original size:81 final size:81
Alignment explanation
Indices: 61164160--61164343 Score: 190
Period size: 81 Copynumber: 2.3 Consensus size: 81
61164150 ATTACCAAGG
* * * *
61164160 TACCCCCGATTTACATAATTA-TCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACT-GTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGAT
* ****
61164224 TTACAGAATTACTGTTT
65 TTACAAAATTACTAAAA
* * * * **
61164241 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
61164306 TACAAAATTACTAAAA
66 TACAAAATTACTAAAA
* * *
61164322 TACCCTTGGTTTGTAAAATTAC
1 TACCCTCGATTTATAAAATTAC
61164344 CAAAATATCC
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 83 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACTGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTACTAAAA
Found at i:61164367 original size:54 final size:54
Alignment explanation
Indices: 61164295--61164434 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
61164285 ATTATTATTT
* ** * *
61164295 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
61164349 TATCCCT-AGTTTGTAAAATTACCAAAATACCCTTAGTTTGTGAAATTATCGAAA
1 TA-CCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
61164403 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
61164435 CTGATTTACA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.05
54 66 0.89
55 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:61164380 original size:81 final size:79
Alignment explanation
Indices: 61164295--61164516 Score: 180
Period size: 81 Copynumber: 2.7 Consensus size: 79
61164285 ATTATTATTT
* *
61164295 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATATCCCTAGT
1 TACCCT-GACTTT-CAAAATTA-TAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GA
*
61164359 TTGTA-AAA-TTACCAAAA
62 TT-TACAAAGTTACAAAAA
* * ** * ***
61164376 TACCCTTAGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTGACTTT-CAAAATTAT-AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATT
61164441 TACAAAGTTACAAAAA
64 TACAAAGTTACAAAAA
* ** **
61164457 TACCCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 TACCC-TGACTTTC--AAAATTATA-AAATACCCTTGGTTTGTAAAATTACCAAAATACC
61164517 TTTGGTTTGT
Statistics
Matches: 109, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
79 2 0.02
80 8 0.07
81 61 0.56
82 5 0.05
83 33 0.30
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (79 bp):
TACCCTGACTTTCAAAATTATAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTA
CAAAGTTACAAAAA
Found at i:61164521 original size:27 final size:27
Alignment explanation
Indices: 61164473--61164524 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
61164463 TGACTTTCTA
61164473 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
61164500 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
61164525 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:61165812 original size:25 final size:25
Alignment explanation
Indices: 61165783--61165830 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
61165773 TTATAACATG
* *
61165783 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61165808 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61165831 GTTTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61165892 original size:20 final size:20
Alignment explanation
Indices: 61165867--61165917 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
61165857 ATTTTGATAA
61165867 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61165887 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61165907 ACATGAGATGT
1 ACATGATATGT
61165918 TCATAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61165994 original size:23 final size:23
Alignment explanation
Indices: 61165964--61166130 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
61165954 AGGAAGTGCA
61165964 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
61165987 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
61166010 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
61166034 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
61166058 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
61166081 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
61166105 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
61166128 AAA
1 AAA
61166131 AAAGGCTAGG
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 69 0.51
24 66 0.49
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:61166042 original size:24 final size:23
Alignment explanation
Indices: 61165963--61166131 Score: 257
Period size: 24 Copynumber: 7.2 Consensus size: 23
61165953 GAGGAAGTGC
61165963 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
61165986 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
61166009 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
61166032 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
61166056 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
61166080 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
61166103 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
61166128 AAAA
1 AAAA
61166132 AAGGCTAGGC
Statistics
Matches: 136, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 66 0.49
24 69 0.51
25 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:61166055 original size:47 final size:47
Alignment explanation
Indices: 61165963--61166131 Score: 259
Period size: 47 Copynumber: 3.6 Consensus size: 47
61165953 GAGGAAGTGC
*
61165963 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATA
* *
61166009 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATA
* *
61166057 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATA
*
61166104 AAAAGGGCTTTTGCCCCAGTTATTAAAA
1 AAAAGGGCTTATGCCCCAGTTA-TAAAA
61166132 AAGGCTAGGC
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 22 0.20
47 64 0.58
48 25 0.23
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATA
Found at i:61166381 original size:31 final size:31
Alignment explanation
Indices: 61166346--61166409 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61166336 GTTTACAATT
*
61166346 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
61166377 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
61166408 AA
1 AA
61166410 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:61172037 original size:27 final size:27
Alignment explanation
Indices: 61172009--61172165 Score: 156
Period size: 27 Copynumber: 5.7 Consensus size: 27
61171999 TGCTATACAA
* *
61172009 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAACTCGCACACTTAGTGCCACATAG
* *
61172036 TCAAATCGCACCACTTAGTGCTACATAG
1 TCAACTCGCA-CACTTAGTGCCACATAG
* * *
61172064 TTAGACTCGCACACTTAGTGCCGCATGG
1 TCA-ACTCGCACACTTAGTGCCACATAG
* *
61172092 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAACTCGCACACTTAGTGCCA-CATAG
** *
61172119 TCATTTCGCACACTTAGTGCAACATAG
1 TCAACTCGCACACTTAGTGCCACATAG
61172146 TCGAA-TCGCACACTTAGTGC
1 TC-AACTCGCACACTTAGTGC
61172166 TGTACAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 66 0.62
28 34 0.32
29 6 0.06
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (27 bp):
TCAACTCGCACACTTAGTGCCACATAG
Found at i:61172074 original size:56 final size:55
Alignment explanation
Indices: 61171988--61172166 Score: 197
Period size: 54 Copynumber: 3.3 Consensus size: 55
61171978 ATATTGAGCC
* * *
61171988 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
61172042 CGCACCACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCA-CACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
61172098 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
61172152 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61172167 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
53 2 0.02
54 45 0.43
55 27 0.26
56 30 0.29
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:61180136 original size:27 final size:27
Alignment explanation
Indices: 61180106--61180283 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
61180096 ATATTGAGCC
* * *
61180106 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
61180133 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
61180160 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
61180188 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
61180215 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
61180242 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
61180269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61180284 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:61180199 original size:55 final size:55
Alignment explanation
Indices: 61180106--61180283 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
61180096 ATATTGAGCC
* * *
61180106 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
61180160 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
61180215 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
61180269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61180284 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:61180245 original size:82 final size:81
Alignment explanation
Indices: 61180127--61180282 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61180117 TGCTATACAA
* * *
61180127 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
61180192 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
61180209 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
61180273 CACTTAGTGC
65 CACTTAGTGC
61180283 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61183579 original size:46 final size:46
Alignment explanation
Indices: 61183529--61183704 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
61183519 TGGTTGAGCA
61183529 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
61183575 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61183620 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
61183668 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61183705 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 63 0.56
47 30 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61183685 original size:93 final size:93
Alignment explanation
Indices: 61183526--61183696 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
61183516 GGATGGTTGA
* *
61183526 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61183591 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
*
61183619 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
61183684 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
61183697 GCTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:61202055 original size:6 final size:6
Alignment explanation
Indices: 61202015--61202107 Score: 66
Period size: 6 Copynumber: 15.2 Consensus size: 6
61202005 AAGAAACATT
* * * *
61202015 ATCAGA A-CTAGA ATCAAA ATCAAA ATCAAA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
61202064 ATCAGA ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA A
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA A
61202108 CGTGAATGCA
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.07
6 57 0.80
7 6 0.08
8 3 0.04
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:61202105 original size:31 final size:31
Alignment explanation
Indices: 61202032--61202107 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
61202022 CTAGAATCAA
* *
61202032 AATCAAAATCAAAATCAGAATCAGGTGACAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAG
* * *
61202063 AATCAGAATCAGAATCAGTATCAGGTAATAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAG
61202094 AATCAAAATCAGAA
1 AATCAAAATCAGAA
61202108 CGTGAATGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAG
Found at i:61202655 original size:81 final size:81
Alignment explanation
Indices: 61202503--61202725 Score: 304
Period size: 81 Copynumber: 2.8 Consensus size: 81
61202493 GGGGTAAAAT
* * * * * * * *
61202503 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTT-TGGTATTTTTA
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCT-GTAATTCTA
61202567 CCCTACAAGAGTATTTC
65 CCCTACAAGAGTATTTC
* *
61202584 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCTGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCTGTAATTCTAC
* *
61202649 CTTACAAGGGTATTTC
66 CCTACAAGAGTATTTC
* *
61202665 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCTGTAATT
61202726 TCACAAATTA
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
81 124 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCTGTAATTCTAC
CCTACAAGAGTATTTC
Found at i:61202688 original size:27 final size:27
Alignment explanation
Indices: 61202503--61202725 Score: 275
Period size: 27 Copynumber: 8.3 Consensus size: 27
61202493 GGGGTAAAAT
* * * *
61202503 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
61202530 GGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
61202557 GGTATTTTTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61202584 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
61202611 AGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
61202638 TGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
61202665 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
61202692 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61202719 AGTAATT
1 GGTAATT
61202726 TCACAAATTA
Statistics
Matches: 171, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 171 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:61202737 original size:27 final size:27
Alignment explanation
Indices: 61202681--61202807 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 27
61202671 TCTACCCTAC
**
61202681 AGGGGTATTTCAGTAA-TTCTACCCTA-T
1 AGGGGTATTTCAGTAATTTC-A-CAAACT
*
61202708 AGGGGTATTTCAGTAATTTCACAAATT
1 AGGGGTATTTCAGTAATTTCACAAACT
** * *
61202735 AGGGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTCAGTAATTTCACAAACT
** *** *
61202762 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTCAGTAATTTCACAAACT
*
61202789 AAGGGTATTTCAGTAATTT
1 AGGGGTATTTCAGTAATTT
61202808 TGTAAATCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.02
27 81 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCAGTAATTTCACAAACT
Found at i:61202808 original size:27 final size:27
Alignment explanation
Indices: 61202710--61202822 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 27
61202700 TACCCTATAG
* * ** *
61202710 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTCAGTAATTTTATAAACCAA
** * *
61202737 GGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTCAGTAATTTTATAAACCAA
** *
61202764 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTATAAACCAA
* * *
61202791 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTATAAACCAA
61202818 GGGTA
1 GGGTA
61202823 AGACGGTAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAACCAA
Found at i:61202831 original size:27 final size:27
Alignment explanation
Indices: 61202801--61202916 Score: 178
Period size: 27 Copynumber: 4.3 Consensus size: 27
61202791 GGGTATTTCA
* *
61202801 GTAATTTTGTAAATCGAGGGTAAGACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
61202828 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
61202855 GTAATTCTATAAATCGAGGGTAAAGCG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
61202882 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
61202909 GTAATTCT
1 GTAATTCT
61202917 ATCTTATAGG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:61202831 original size:54 final size:53
Alignment explanation
Indices: 61202773--61202918 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 53
61202763 GGGGTATTTT
* * * ** * *
61202773 GGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGT-AAGAC
1 GGTAATTCTGTAAATCGAGGGTAAAT-AGTAATTCTATAAATCGAGGGTAAAG-C
*
61202827 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAGC
1 GGTAATTCTGTAAATCGAGGGT-AAATAGTAATTCTATAAATCGAGGGTAAAGC
*
61202881 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTGTAAATCGAGGGT-AAATAGTAATTCTAT
61202919 CTTATAGGAG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
54 77 0.94
55 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.32
Consensus pattern (53 bp):
GGTAATTCTGTAAATCGAGGGTAAATAGTAATTCTATAAATCGAGGGTAAAGC
Found at i:61202985 original size:27 final size:27
Alignment explanation
Indices: 61202928--61203078 Score: 153
Period size: 27 Copynumber: 5.6 Consensus size: 27
61202918 TCTTATAGGA
*
61202928 GTATTTCAGTAATTTTACAAAATCGAAG
1 GTATTTCAGTAATTTTAC-AAATCGAGG
* * *
61202956 GTATTTCAATAATTTTGCAAATTGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
61202983 GTATTTC-GATAATTTTACAAATCGAGG
1 GTATTTCAG-TAATTTTACAAATCGAGG
* ** * * *
61203010 ATATTTGGGTAATTTTATAAATTGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
61203037 GTACTTT-GGTAATTTTACAAGTCGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
61203064 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
61203079 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.03
27 78 0.77
28 20 0.20
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:61205039 original size:18 final size:18
Alignment explanation
Indices: 61205006--61205073 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
61204996 GGCTTTAACC
61205006 CATTA-CAGAATAAGAAA
1 CATTATCAGAATAAGAAA
*
61205023 CATTATCAGAACT-AGAAT
1 CATTATCAGAA-TAAGAAA
* * *
61205041 CATAATCAGAATCAGAAT
1 CATTATCAGAATAAGAAA
**
61205059 CAGAATCAGAATAAG
1 CATTATCAGAATAAG
61205074 GTGACAGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
17 6 0.14
18 37 0.84
19 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (18 bp):
CATTATCAGAATAAGAAA
Found at i:61205047 original size:6 final size:6
Alignment explanation
Indices: 61205027--61205126 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
61205017 AAGAAACATT
* *
61205027 ATCAGA A-CTAGA ATCATA ATCAGA ATCAGA ATCAGA ATCAGA ATAAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
61205074 GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
61205125 AT
1 AT
61205127 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 64 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:61205085 original size:31 final size:31
Alignment explanation
Indices: 61205047--61205126 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
61205037 GAATCATAAT
*
61205047 CAGAATCAGAATCAGAATCAGAATAAGGTGA
1 CAGAATCAGAATCAGAATCAGAATAAGGTAA
* *
61205078 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATAAGGTAA
*
61205109 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
61205127 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATAAGGTAA
Found at i:61205541 original size:27 final size:28
Alignment explanation
Indices: 61205511--61205569 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
61205501 AACACCCTAG
61205511 GGGTAAAAT-GGTAATTTTACCCCACAA
1 GGGTAAAATCGGTAATTTTACCCCACAA
** * *
61205538 GGGT-ATCTCGGTAATTTTACCCTACAG
1 GGGTAAAATCGGTAATTTTACCCCACAA
61205565 GGGTA
1 GGGTA
61205570 TTTTGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (28 bp):
GGGTAAAATCGGTAATTTTACCCCACAA
Found at i:61205661 original size:28 final size:28
Alignment explanation
Indices: 61205520--61205742 Score: 305
Period size: 27 Copynumber: 8.2 Consensus size: 28
61205510 GGGGTAAAAT
* * *
61205520 GGTAATTTTACCCCACAA-GGGTATCTC
1 GGTAATTCTACCCTACAAGGGGTATTTC
* *
61205547 GGTAATTTTACCCTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGGTATTTC
* *
61205574 GGTATTTCTACCCTACAA-GAGTATTTC
1 GGTAATTCTACCCTACAAGGGGTATTTC
*
61205601 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGGGGTATTTC
*
61205628 GATAATTCTACCCTACAAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGGTATTTC
61205656 GGTAATTCTACCCTACAAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGGTATTTC
*
61205684 GATAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGGTATTTC
*
61205711 AGTAATTCTACCCTACAA-GGGTATTTC
1 GGTAATTCTACCCTACAAGGGGTATTTC
61205738 GGTAA
1 GGTAA
61205743 AATCACAAAT
Statistics
Matches: 176, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.01
27 120 0.68
28 54 0.31
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (28 bp):
GGTAATTCTACCCTACAAGGGGTATTTC
Found at i:61205777 original size:27 final size:27
Alignment explanation
Indices: 61205645--61205827 Score: 91
Period size: 27 Copynumber: 6.7 Consensus size: 27
61205635 CTACCCTACA
* ** *
61205645 AGGGGTATTTCGGTAATTCTACCCTACA
1 AGGGGTATTTCGGTAATTTTA-CAAACT
* * **
61205673 AGGGGTATTTCGATAATTCTACCCTAC-
1 AGGGGTATTTCGGTAATTTTA-CAAACT
* * **
61205700 AGGGGTATTTCAGTAATTCTACCCTAC-
1 AGGGGTATTTCGGTAATTTTA-CAAACT
* ** * *
61205727 AAGGGTATTTCGGTAAAATCACAAATT
1 AGGGGTATTTCGGTAATTTTACAAACT
* *
61205754 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTCGGTAATTTTACAAACT
** * **
61205781 AGGACTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTCGGTAATTTTACAAACT
* *
61205808 AAGGGTATTTCAGTAATTTT
1 AGGGGTATTTCGGTAATTTT
61205828 GTAAATCGAG
Statistics
Matches: 125, Mismatches: 29, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
26 2 0.02
27 97 0.78
28 26 0.21
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACAAACT
Done.