Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 158 of 259
Found at i:51648865 original size:19 final size:18
Alignment explanation
Indices: 51648843--51648895 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
51648833 CTGTCACCAA
51648843 ATTCTGATTCTGATTTTGG
1 ATTCTGATTCTGATTTT-G
*
51648862 ATTCTGATTCT-ATCACTTG
1 ATTCTGATTCTGAT--TTTG
51648881 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
51648896 CTCATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 2 0.07
19 23 0.79
20 4 0.14
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (18 bp):
ATTCTGATTCTGATTTTG
Found at i:51648865 original size:38 final size:38
Alignment explanation
Indices: 51648823--51648895 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
51648813 ACCTGATACT
*
51648823 GATTCTGATTCTGTCACCAAATTCTGATTCTGATTTTG
1 GATTCTGATTCTATCACCAAATTCTGATTCTGATTTTG
***
51648861 GATTCTGATTCTATCACTTGATTCTGATTCTGATT
1 GATTCTGATTCTATCACCAAATTCTGATTCTGATT
51648896 CTCATTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.47
Consensus pattern (38 bp):
GATTCTGATTCTATCACCAAATTCTGATTCTGATTTTG
Found at i:51648871 original size:25 final size:23
Alignment explanation
Indices: 51648843--51648918 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
51648833 CTGTCACCAA
51648843 ATTCTGATTCTGATTTTGGATTCTG
1 ATTCTGATTCT-ATTTT-GATTCTG
*
51648868 ATTCT-A-TC-A-CTTGATTCTG
1 ATTCTGATTCTATTTTGATTCTG
*
51648887 ATTCTGATTCTCATTTTAATTCT-
1 ATTCTGATTCT-ATTTTGATTCTG
51648910 AGTTCTGAT
1 A-TTCTGAT
51648919 AATGTTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
19 12 0.29
20 3 0.07
21 3 0.07
23 4 0.10
24 15 0.36
25 5 0.12
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (23 bp):
ATTCTGATTCTATTTTGATTCTG
Found at i:51651579 original size:37 final size:37
Alignment explanation
Indices: 51651538--51651641 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
51651528 GCACGGGGCC
51651538 AAGGCGATGGAGGAGATGGGTTGCGATGCATGGGGTA-
1 AAGGCGATGGAGGAGATGGGTTGCGATGCATGGGG-AG
*
51651575 AAGGCGATGGAAGG-GATGGTTTGCGATGCATGGGGAG
1 AAGGCGATGG-AGGAGATGGGTTGCGATGCATGGGGAG
* * *
51651612 AAGGCGACGGAGGAGATGGGTAGCAATGCA
1 AAGGCGATGGAGGAGATGGGTTGCGATGCA
51651642 CAGGAGATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
36 4 0.07
37 52 0.88
38 3 0.05
ACGTcount: A:0.27, C:0.10, G:0.47, T:0.16
Consensus pattern (37 bp):
AAGGCGATGGAGGAGATGGGTTGCGATGCATGGGGAG
Found at i:51652470 original size:15 final size:15
Alignment explanation
Indices: 51652447--51652478 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51652437 AAATAATAAT
51652447 TTATATATATTTATC
1 TTATATATATTTATC
*
51652462 TTATTTATATTTATC
1 TTATATATATTTATC
51652477 TT
1 TT
51652479 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:51652589 original size:14 final size:15
Alignment explanation
Indices: 51652555--51652593 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
51652545 CATGAACACC
*
51652555 AAACACCAAACCTTA
1 AAACCCCAAACCTTA
*
51652570 AAACCCCAAA-CTTT
1 AAACCCCAAACCTTA
51652584 AAACCCCAAA
1 AAACCCCAAA
51652594 ATCATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCCAAACCTTA
Found at i:51654503 original size:62 final size:62
Alignment explanation
Indices: 51654434--51654558 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
51654424 TTTTTATCAG
* * * *
51654434 TATAAACCTTTTTTTGTTGTATTATATAGGTTTTGAGAAGTTGATGTCATGTTTATGTTATT
1 TATAAACCTTTTTATGTTGTATTATATAGATTTTGAGAAGTTCATATCATGTTTATGTTATT
* * * **
51654496 TATAAACCTTTTTATGTTGTTTTATATTGATTTTGAGATGTTCATATTGTGTTTATGTTATT
1 TATAAACCTTTTTATGTTGTATTATATAGATTTTGAGAAGTTCATATCATGTTTATGTTATT
51654558 T
1 T
51654559 TTATGTCATA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (62 bp):
TATAAACCTTTTTATGTTGTATTATATAGATTTTGAGAAGTTCATATCATGTTTATGTTATT
Found at i:51654719 original size:23 final size:23
Alignment explanation
Indices: 51654689--51654735 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
51654679 ATATTTTTAA
51654689 AATTTTAAACTAATTTGCATTTT
1 AATTTTAAACTAATTTGCATTTT
51654712 AATTTTAAACTAATTTGCATTTT
1 AATTTTAAACTAATTTGCATTTT
51654735 A
1 A
51654736 TGCTACGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (23 bp):
AATTTTAAACTAATTTGCATTTT
Found at i:51657888 original size:28 final size:28
Alignment explanation
Indices: 51657844--51657951 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 28
51657834 AATATGACCG
* * *
51657844 TTACAATATAACCGTTGGAATCTAAG-TA
1 TTACAATATGACTGTTGGAATCT-GGCTA
* *
51657872 TTACAATATGACTGTTGGAATCTGGTTG
1 TTACAATATGACTGTTGGAATCTGGCTA
* *
51657900 TTACAATAT-AGCTGTTGGAATTTGGCCA
1 TTACAATATGA-CTGTTGGAATCTGGCTA
*
51657928 TTACAATATGACTGTTGGGATCTG
1 TTACAATATGACTGTTGGAATCTG
51657952 ACCGTTGCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 64 0.96
29 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (28 bp):
TTACAATATGACTGTTGGAATCTGGCTA
Found at i:51657962 original size:28 final size:28
Alignment explanation
Indices: 51657841--51657965 Score: 110
Period size: 28 Copynumber: 4.5 Consensus size: 28
51657831 AAAAATATGA
* * *
51657841 CCGTTACAATATAACCGTTGGAATCTAAG
1 CCGTTACAATATGACTGTTGGAATCT-GG
**
51657870 -TATTACAATATGACTGTTGGAATCTGG
1 CCGTTACAATATGACTGTTGGAATCTGG
** *
51657897 TTGTTACAATAT-AGCTGTTGGAATTTGG
1 CCGTTACAATATGA-CTGTTGGAATCTGG
* * *
51657925 CCATTACAATATGACTGTTGGGATCTGA
1 CCGTTACAATATGACTGTTGGAATCTGG
*
51657953 CCGTTGCAATATG
1 CCGTTACAATATG
51657966 GTCAGTTAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.03
28 75 0.96
29 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (28 bp):
CCGTTACAATATGACTGTTGGAATCTGG
Found at i:51660085 original size:27 final size:28
Alignment explanation
Indices: 51660045--51660114 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
51660035 TACTCTTTAA
* *
51660045 AATTTTAAATTTAACTTTTT-TATT-TTT
1 AATTTTAAAATTAAATTTTTAT-TTGTTT
*
51660072 ATTTTTAAAATTAAATTTTTATTTGTTT
1 AATTTTAAAATTAAATTTTTATTTGTTT
*
51660100 AATTTAAAAATTAAA
1 AATTTTAAAATTAAA
51660115 GTTGAATTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 19 0.53
28 17 0.47
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
AATTTTAAAATTAAATTTTTATTTGTTT
Found at i:51660091 original size:28 final size:28
Alignment explanation
Indices: 51660045--51660114 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
51660035 TACTCTTTAA
* *
51660045 AATTTT-AAATTTAACTTTT-TTATTTTT
1 AATTTTAAAATTAAACTTTTATT-TGTTT
* *
51660072 ATTTTTAAAATTAAATTTTTATTTGTTT
1 AATTTTAAAATTAAACTTTTATTTGTTT
*
51660100 AATTTAAAAATTAAA
1 AATTTTAAAATTAAA
51660115 GTTGAATTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 5 0.14
28 28 0.80
29 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
AATTTTAAAATTAAACTTTTATTTGTTT
Found at i:51661618 original size:23 final size:25
Alignment explanation
Indices: 51661588--51661633 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
51661578 AAATTGCTTC
51661588 TAAATCTA-TATATATAT-GTTTTG
1 TAAATCTATTATATATATAGTTTTG
*
51661611 TAAATCTATTATGTATATAGTTT
1 TAAATCTATTATATATATAGTTT
51661634 ATTTCCTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (25 bp):
TAAATCTATTATATATATAGTTTTG
Found at i:51671777 original size:27 final size:27
Alignment explanation
Indices: 51671747--51671897 Score: 212
Period size: 27 Copynumber: 5.6 Consensus size: 27
51671737 ATATTAAGTC
* * *
51671747 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
51671774 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AATT
*
51671802 CGCACACTTAGTGCTACCTAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
51671829 CGCACACTTAGTGCAACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
*
51671856 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
51671883 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51671898 GTACAATTTA
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 87 0.78
28 25 0.22
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAATT
Found at i:51671815 original size:55 final size:54
Alignment explanation
Indices: 51671747--51671897 Score: 221
Period size: 55 Copynumber: 2.8 Consensus size: 54
51671737 ATATTAAGTC
* * *
51671747 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAATC-AACT
* * * *
51671802 CGCACACTTAGTGCTACCTAGTCAATTCGCACACTTAGTGCAACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAATCAACT
*
51671856 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
51671898 GTACAATTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 42 0.49
55 44 0.51
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAATCAACT
Found at i:51671860 original size:82 final size:81
Alignment explanation
Indices: 51671747--51671897 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 81
51671737 ATATTAAGTC
* * *
51671747 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCAACATAATC-AACTCGCACACTTA
51671812 GTGCTACCTAGTCAATT
65 GTGCTACCTAGTCAATT
* * * * *
51671829 CGCACACTTAGTGCAACATATTCAATTCGCACACTTAGTGCAACATAGTCAATTCGCACACTTAG
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCAACATAATCAACTCGCACACTTAG
51671894 TGCT
66 TGCT
51671898 GTACAATTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
81 18 0.30
82 43 0.70
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCAACATAATCAACTCGCACACTTAG
TGCTACCTAGTCAATT
Found at i:51676309 original size:42 final size:43
Alignment explanation
Indices: 51676211--51676311 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
51676201 ATATCCCATA
*
51676211 ATAATATCCTATAATATCCTATTAGGAATAAAATTTCTAAGAG
1 ATAATATCCTATAATATCCTATTAGGAATAAAATTTCTAAAAG
* * * *
51676254 ATAATATCTTATAATATCTTTTTAGGAAT-CAATTTGCTAAAAG
1 ATAATATCCTATAATATCCTATTAGGAATAAAATTT-CTAAAAG
51676297 AT-ATATCCTATAATA
1 ATAATATCCTATAATA
51676312 ATATCTTAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 17 0.33
43 34 0.67
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (43 bp):
ATAATATCCTATAATATCCTATTAGGAATAAAATTTCTAAAAG
Found at i:51678085 original size:20 final size:18
Alignment explanation
Indices: 51678033--51678128 Score: 60
Period size: 17 Copynumber: 5.2 Consensus size: 18
51678023 ATATAAAAGA
51678033 TAAATATTAAATTAA-AT
1 TAAATATTAAATTAATAT
51678050 TAAATATTAAGA-TAATCACT
1 TAAATATTAA-ATTAAT-A-T
*
51678070 TCAATATTAAATTAATA-
1 TAAATATTAAATTAATAT
51678087 -AAATACTATCAAGA-TAAGTAT
1 TAAATA-T-T-AA-ATTAA-TAT
*
51678108 TAAAT-TTAATTTAATAT
1 TAAATATTAAATTAATAT
51678125 TAAA
1 TAAA
51678129 ACTAATAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
16 4 0.06
17 21 0.33
18 7 0.11
19 9 0.14
20 18 0.29
22 4 0.06
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (18 bp):
TAAATATTAAATTAATAT
Found at i:51678144 original size:68 final size:70
Alignment explanation
Indices: 51678002--51678146 Score: 161
Period size: 68 Copynumber: 2.1 Consensus size: 70
51677992 ATATTAAATC
* * *
51678002 TATTAAATTAATAGAATACTTATATAAAAGATAAATATTAAATTAAATTAAATATTAAGATAATC
1 TATTAAATTAATAAAATAC-T-TATAAAAGATAAATATTAAATTAAATTAAATATTAAAATAATA
**
51678067 ACTTCAA
64 AAATCAA
* * * *
51678074 TATTAAATTAATAAAATAC-TAT-CAAGATAAGTATTAAATTTAATTTAATATTAAAACTAATAA
1 TATTAAATTAATAAAATACTTATAAAAGATAAATATTAAATTAAATTAAATATTAAAA-TAATAA
51678137 AAT-AA
65 AATCAA
51678142 TATTA
1 TATTA
51678147 TTTTTGAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
68 36 0.57
69 9 0.14
72 18 0.29
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (70 bp):
TATTAAATTAATAAAATACTTATAAAAGATAAATATTAAATTAAATTAAATATTAAAATAATAAA
ATCAA
Found at i:51684131 original size:18 final size:18
Alignment explanation
Indices: 51684089--51684133 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
51684079 ATATTTTTTC
51684089 ATTATTATTATTATTTGT
1 ATTATTATTATTATTTGT
*
51684107 ATCATTATTATTATTTGCT
1 ATTATTATTATTATTTG-T
51684126 -TTATTATT
1 ATTATTATT
51684134 TATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTATTATTATTATTTGT
Found at i:51686418 original size:21 final size:20
Alignment explanation
Indices: 51686392--51686435 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
51686382 ATAATTAGAA
*
51686392 TAATTAGAATT-ATTTCTTTAT
1 TAATTAAAATTCATTT-TTT-T
51686413 TAATTAAAATTCATTTTTTT
1 TAATTAAAATTCATTTTTTT
51686433 TAA
1 TAA
51686436 AAATCATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 13 0.62
22 4 0.19
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (20 bp):
TAATTAAAATTCATTTTTTT
Found at i:51688576 original size:17 final size:18
Alignment explanation
Indices: 51688536--51688579 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
51688526 GTTTTTGCAG
51688536 ATTTGATTTTAATACTTTA
1 ATTT-ATTTTAATACTTTA
* *
51688555 CTTTATTTTATTA-TTTA
1 ATTTATTTTAATACTTTA
51688572 ATTTATTT
1 ATTTATTT
51688580 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 8 0.36
19 3 0.14
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTATTTTAATACTTTA
Found at i:51688597 original size:21 final size:21
Alignment explanation
Indices: 51688551--51688602 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
51688541 ATTTTAATAC
51688551 TTTACTTTATTTTATTATTTAA
1 TTTACTTTATTTTATTATTT-A
51688573 TTTA-TTTATTTTATTATGATT-
1 TTTACTTTATTTTATTAT--TTA
51688594 TTTACTTTA
1 TTTACTTTA
51688603 AATTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 17 0.63
22 8 0.30
23 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTACTTTATTTTATTATTTA
Found at i:51688931 original size:18 final size:18
Alignment explanation
Indices: 51688905--51688942 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
51688895 CATGTGCATA
*
51688905 TTTTGTCATTATTATTAT
1 TTTTATCATTATTATTAT
51688923 TTTTATCATTATTATTAT
1 TTTTATCATTATTATTAT
51688941 TT
1 TT
51688943 ACTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATCATTATTATTAT
Found at i:51688935 original size:15 final size:14
Alignment explanation
Indices: 51688915--51688954 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
51688905 TTTTGTCATT
51688915 ATTATTATTTTTATC
1 ATTATTATTTTTA-C
51688930 ATTATTATTATTTAC
1 ATTATTATT-TTTAC
*
51688945 TTTATTATTT
1 ATTATTATTT
51688955 ACTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 18 0.78
16 4 0.17
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTATTATTTTTAC
Found at i:51688949 original size:12 final size:12
Alignment explanation
Indices: 51688934--51688962 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
51688924 TTTATCATTA
51688934 TTATTATTTACT
1 TTATTATTTACT
51688946 TTATTATTTACT
1 TTATTATTTACT
51688958 TTATT
1 TTATT
51688963 TTTTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTATTTACT
Found at i:51692197 original size:24 final size:24
Alignment explanation
Indices: 51692169--51692220 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
51692159 TTAGTAGGTC
* *
51692169 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
51692193 AAATATATTATATTAATAAATACT
1 AAATAAACTATACTAATAAATACT
51692217 AAAT
1 AAAT
51692221 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:51718834 original size:49 final size:49
Alignment explanation
Indices: 51718743--51718838 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
51718733 ATGAAACTTA
* * * *
51718743 AACCCATGATTGCATAACCACCGCCAATTGGGGGCCTAAGTTATACTCG
1 AACCCATGATCGCATAACCACCGCCAATAGGAGCCCTAAGTTATACTCG
*
51718792 AACCCATGATCGCATAACCACCGTCAATAGAGAGCCCT-AGTTATACT
1 AACCCATGATCGCATAACCACCGCCAATAG-GAGCCCTAAGTTATACT
51718839 TTTACTCGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 36 0.88
50 5 0.12
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (49 bp):
AACCCATGATCGCATAACCACCGCCAATAGGAGCCCTAAGTTATACTCG
Found at i:51726959 original size:32 final size:32
Alignment explanation
Indices: 51726923--51726985 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
51726913 CTAGCTGATC
* * * *
51726923 TTAGAATCAATATTAGTTGGGCCTATCCCATA
1 TTAGAACCAATATCAGTTGCGCCTAGCCCATA
51726955 TTAGAACCAATATCAGTTGCGCCTAGCCCAT
1 TTAGAACCAATATCAGTTGCGCCTAGCCCAT
51726986 TTCAATATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (32 bp):
TTAGAACCAATATCAGTTGCGCCTAGCCCATA
Found at i:51727362 original size:27 final size:26
Alignment explanation
Indices: 51727320--51727410 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 26
51727310 AGGCATAATC
*
51727320 GTCATTTTACCATACAGGGTTATTACG
1 GTCATTTTACCCTACAGGG-TATTACG
*
51727347 GTCATTTTACCCTACATGGGTATTACA
1 GTCATTTTACCCTACA-GGGTATTACG
* *
51727374 GTCGTTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACA-GGGTATTACG
51727401 GTCATTTTAC
1 GTCATTTTAC
51727411 TAATTTTGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 53 0.95
28 3 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGTATTACG
Found at i:51746329 original size:20 final size:20
Alignment explanation
Indices: 51746292--51746329 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51746282 TGTGGTTTCC
**
51746292 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
51746312 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
51746330 TCCGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:51754392 original size:19 final size:20
Alignment explanation
Indices: 51754368--51754416 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
51754358 ACAAAACATG
51754368 TTAACATGAATTAA-ATAAA
1 TTAACATGAATTAATATAAA
51754387 TTAACATGAATTAATATAAA
1 TTAACATGAATTAATATAAA
51754407 TTAACATGAA
1 TTAACATGAA
51754417 AATCATGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (20 bp):
TTAACATGAATTAATATAAA
Found at i:51754398 original size:10 final size:10
Alignment explanation
Indices: 51754368--51754416 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
51754358 ACAAAACATG
51754368 TTAACATGAA
1 TTAACATGAA
*
51754378 TTAA-ATAAA
1 TTAACATGAA
51754387 TTAACATGAA
1 TTAACATGAA
* *
51754397 TTAATATAAA
1 TTAACATGAA
51754407 TTAACATGAA
1 TTAACATGAA
51754417 AATCATGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (10 bp):
TTAACATGAA
Found at i:51756801 original size:26 final size:25
Alignment explanation
Indices: 51756772--51756842 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 25
51756762 AATAAAAAAC
51756772 AAACAAAGAAGAAAAAGAAAAAAGAA
1 AAACAAAG-AGAAAAAGAAAAAAGAA
* * **
51756798 AAACGAATGAGAAAAATAAGGAAGAA
1 AAAC-AAAGAGAAAAAGAAAAAAGAA
* *
51756824 GAACGAAGGAGAAAAAGAA
1 AAAC-AAAGAGAAAAAGAA
51756843 CGAAGGAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 34 0.92
27 3 0.08
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.03
Consensus pattern (25 bp):
AAACAAAGAGAAAAAGAAAAAAGAA
Found at i:51756841 original size:16 final size:16
Alignment explanation
Indices: 51756822--51756869 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
51756812 AATAAGGAAG
51756822 AAGAACGAAGGAGAAA
1 AAGAACGAAGGAGAAA
51756838 AAGAACGAAGGAGAAA
1 AAGAACGAAGGAGAAA
*
51756854 AAGAACTAAGGA-AAA
1 AAGAACGAAGGAGAAA
51756869 A
1 A
51756870 TAATAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 4 0.13
16 27 0.87
ACGTcount: A:0.65, C:0.06, G:0.27, T:0.02
Consensus pattern (16 bp):
AAGAACGAAGGAGAAA
Found at i:51756847 original size:26 final size:26
Alignment explanation
Indices: 51756781--51756852 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
51756771 CAAACAAAGA
* * *
51756781 AGAAAAAGAAAAAAGAAAAACGAATG
1 AGAAAAAGAAAGAAGAAGAACGAAGG
* *
51756807 AGAAAAATAAGGAAGAAGAACGAAGG
1 AGAAAAAGAAAGAAGAAGAACGAAGG
* *
51756833 AGAAAAAGAACGAAGGAGAA
1 AGAAAAAGAAAGAAGAAGAA
51756853 AAAGAACTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.67, C:0.04, G:0.26, T:0.03
Consensus pattern (26 bp):
AGAAAAAGAAAGAAGAAGAACGAAGG
Found at i:51757103 original size:27 final size:27
Alignment explanation
Indices: 51757073--51757127 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
51757063 ACGGATAAGG
51757073 ATAGTTTTTAAAATAATAAAGCTTTTA
1 ATAGTTTTTAAAATAATAAAGCTTTTA
51757100 ATAGTTTTTAAAATAATAAAGCTTTTA
1 ATAGTTTTTAAAATAATAAAGCTTTTA
51757127 A
1 A
51757128 CGATACGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (27 bp):
ATAGTTTTTAAAATAATAAAGCTTTTA
Found at i:51758772 original size:20 final size:19
Alignment explanation
Indices: 51758734--51758770 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
51758724 AAAATAAAAT
51758734 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
*
51758753 AAAATTTCAAA-ATTTATA
1 AAAATTTAAAATATTTATA
51758771 TATTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:51758789 original size:17 final size:16
Alignment explanation
Indices: 51758767--51758799 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
51758757 TTTCAAAATT
51758767 TATATATTTTTATAAAA
1 TATATATTTTT-TAAAA
51758784 TATATATTTTTTAAAA
1 TATATATTTTTTAAAA
51758800 AAATTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTTTTAAAA
Found at i:51758800 original size:17 final size:19
Alignment explanation
Indices: 51758761--51758800 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51758751 TAAAAATTTC
*
51758761 AAAATTTATATATTTTTAT
1 AAAATATATATATTTTTAT
51758780 AAAATATATAT-TTTTTA-
1 AAAATATATATATTTTTAT
51758797 AAAA
1 AAAA
51758801 AATTCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATATATATATTTTTAT
Found at i:51758803 original size:19 final size:19
Alignment explanation
Indices: 51758761--51758801 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
51758751 TAAAAATTTC
* *
51758761 AAAATTTATATATTTTTAT
1 AAAATATATATATTTTTAA
51758780 AAAATATATAT-TTTTTAA
1 AAAATATATATATTTTTAA
51758798 AAAA
1 AAAA
51758802 ATTCTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATATATATATTTTTAA
Found at i:51758850 original size:10 final size:10
Alignment explanation
Indices: 51758825--51758850 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
51758815 ATAAAAAAGT
51758825 TAAAATTTTC
1 TAAAATTTTC
51758835 TAAAATTTTC
1 TAAAATTTTC
51758845 TAAAAT
1 TAAAAT
51758851 AATAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATTTTC
Found at i:51759483 original size:21 final size:21
Alignment explanation
Indices: 51759444--51759483 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51759434 ATTATTTATT
*
51759444 ATATGCTATTTTGAAACATAA
1 ATATGCTATTTTAAAACATAA
51759465 ATATG-TATTTTAAATACAT
1 ATATGCTATTTTAAA-ACAT
51759484 GGTTTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
ATATGCTATTTTAAAACATAA
Found at i:51759621 original size:16 final size:16
Alignment explanation
Indices: 51759580--51759621 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
51759570 TAGGGTACTA
51759580 ATATTTTTATATAATT
1 ATATTTTTATATAATT
*
51759596 AAATTTTTATAT-ATCT
1 ATATTTTTATATAAT-T
*
51759612 ATATTGTTAT
1 ATATTTTTAT
51759622 TTAAGCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
ATATTTTTATATAATT
Found at i:51768132 original size:38 final size:38
Alignment explanation
Indices: 51768089--51768164 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
51768079 TTCATCCTTT
51768089 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
51768127 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
51768165 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:51769445 original size:40 final size:40
Alignment explanation
Indices: 51769351--51769494 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
51769341 TACTCGAATG
* *
51769351 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
51769392 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
51769432 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
51769472 ATATCCGGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
51769495 TCTTGTGCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:51780641 original size:40 final size:40
Alignment explanation
Indices: 51780558--51780820 Score: 201
Period size: 40 Copynumber: 6.6 Consensus size: 40
51780548 TTGAATGCTG
* * * * *
51780558 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* *
51780598 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
51780638 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * **
51780678 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * **
51780718 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
51780758 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
51780797 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
51780821 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 35 0.17
40 154 0.77
41 10 0.05
42 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:51780695 original size:80 final size:80
Alignment explanation
Indices: 51780558--51780820 Score: 307
Period size: 80 Copynumber: 3.3 Consensus size: 80
51780548 TTGAATGCTG
* * * * * **
51780558 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
* *
51780621 TTGTGCGAGATACTAAA
64 TTGTGTGAGTTACTAAA
* * *
51780638 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
51780703 GTGTGAGTTGTTAAA
66 GTGTGAGTTACTAAA
* * * *
51780718 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
51780782 GTGTGAGTTACTAAA
66 GTGTGAGTTACTAAA
* *
51780797 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
51780821 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 36 0.23
80 115 0.73
81 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGTGAGTTACTAAA
Found at i:51780840 original size:79 final size:80
Alignment explanation
Indices: 51780611--51780855 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
51780601 GGACTAAGAT
* * * * * * ** * *
51780611 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
51780675 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
** * * ** ** *
51780691 CCGAAGGCATTCGTGTGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
51780756 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* *
51780771 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
51780835 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
51780849 CCGAAGG
1 CCGAAGG
51780856 TACGTGATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 81 0.57
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:51788579 original size:40 final size:40
Alignment explanation
Indices: 51788496--51788718 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
51788486 TTGAATGCTG
* * * * * *
51788496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
51788536 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
51788576 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
51788616 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
51788656 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
51788695 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51788719 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 119 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:51788738 original size:79 final size:80
Alignment explanation
Indices: 51788571--51788753 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
51788561 GTGCGAGATA
** * *
51788571 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
51788636 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
51788651 TTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
51788715 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
51788730 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
51788754 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 15 0.17
79 45 0.51
80 28 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:51806440 original size:40 final size:40
Alignment explanation
Indices: 51806410--51806619 Score: 260
Period size: 40 Copynumber: 5.3 Consensus size: 40
51806400 GGACTAAGAT
* *
51806410 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
51806450 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
51806490 CCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
51806530 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
51806570 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
51806609 CCGAAGGCATT
1 CCGAAGGCATT
51806620 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.22
40 123 0.78
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:51806494 original size:80 final size:80
Alignment explanation
Indices: 51806357--51806619 Score: 298
Period size: 80 Copynumber: 3.3 Consensus size: 80
51806347 TTGAATGCTG
* * * * * **
51806357 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
51806420 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
51806437 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
51806502 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * * * *
51806517 TCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
51806581 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
51806596 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
51806620 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 34 0.22
80 115 0.74
81 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:51810165 original size:23 final size:23
Alignment explanation
Indices: 51810139--51810197 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
51810129 CTTAGCTCTT
51810139 TATTAAAAATATACTGAAAATCA
1 TATTAAAAATATACTGAAAATCA
*
51810162 TATTAAAATTATACTGAAAATCA
1 TATTAAAAATATACTGAAAATCA
51810185 TATTAAAAATATA
1 TATTAAAAATATA
51810198 TCTTAGTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (23 bp):
TATTAAAAATATACTGAAAATCA
Found at i:51810198 original size:11 final size:11
Alignment explanation
Indices: 51810139--51810198 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
51810129 CTTAGCTCTT
51810139 TATTAAAAATA
1 TATTAAAAATA
* *
51810150 TACTGAAAATCA
1 TATTAAAAAT-A
*
51810162 TATTAAAATTA
1 TATTAAAAATA
* *
51810173 TACTGAAAATCA
1 TATTAAAAAT-A
51810185 TATTAAAAATA
1 TATTAAAAATA
51810196 TAT
1 TAT
51810199 CTTAGTTCTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
11 20 0.54
12 17 0.46
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:51819068 original size:84 final size:83
Alignment explanation
Indices: 51818960--51819126 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 83
51818950 TATTTGTTCC
* * *
51818960 CATACGAAGAAGGAACGATCCTAAGAAGCCAATGCCCTATACGTCGAATAATTCAATCTCTAAAA
1 CATACGAAGAAGGAACGATCCTAAGAAGCCAATGCCCCATACATCGAATAATTCAATCTCCAAAA
*
51819025 TGTTTGTCAAGGGCATCT
66 TGTTTATCAAGGGCATCT
* * *
51819043 CATACGAAGAAGGGAACGGTCCTAAGAAGTCAGTGCCCCATACATCGAATAATTCAATCTCCAAA
1 CATACGAAGAA-GGAACGATCCTAAGAAGCCAATGCCCCATACATCGAATAATTCAATCTCCAAA
51819108 ATGTTTATCAAGGGCATCT
65 ATGTTTATCAAGGGCATCT
51819127 AATTCCTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 11 0.14
84 65 0.86
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (83 bp):
CATACGAAGAAGGAACGATCCTAAGAAGCCAATGCCCCATACATCGAATAATTCAATCTCCAAAA
TGTTTATCAAGGGCATCT
Found at i:51825357 original size:13 final size:14
Alignment explanation
Indices: 51825336--51825368 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51825326 TTTATTAATG
51825336 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
51825350 AAATTATTAAATAT
1 AAATTATTAAATAT
51825364 AAATT
1 AAATT
51825369 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:51826304 original size:16 final size:16
Alignment explanation
Indices: 51826283--51826314 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51826273 CTAATTGATT
51826283 CTTCAAAAACACTGTC
1 CTTCAAAAACACTGTC
51826299 CTTCAAAAACACTGTC
1 CTTCAAAAACACTGTC
51826315 ACTCCCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (16 bp):
CTTCAAAAACACTGTC
Found at i:51836276 original size:14 final size:15
Alignment explanation
Indices: 51836253--51836281 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51836243 TGGAGGTATA
51836253 GTTTTATGTTGTTTT
1 GTTTTATGTTGTTTT
51836268 GTTTT-TGTTGTTTT
1 GTTTTATGTTGTTTT
51836282 AATTTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.03, C:0.00, G:0.21, T:0.76
Consensus pattern (15 bp):
GTTTTATGTTGTTTT
Found at i:51837080 original size:21 final size:21
Alignment explanation
Indices: 51837054--51837133 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
51837044 GTCCTTGGTC
*
51837054 CACACGGTTGTGTGCCTCAGT
1 CACACGGCTGTGTGCCTCAGT
* **
51837075 CACACGGCTATGTGCCTCTCCT
1 CACACGGCTGTGTGCCTC-AGT
* *
51837097 CACACGGGC-GTGTACCTCAGC
1 CACAC-GGCTGTGTGCCTCAGT
*
51837118 CACACGGCTCTGTGCC
1 CACACGGCTGTGTGCC
51837134 CCTCCTCATA
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
20 3 0.07
21 26 0.58
22 13 0.29
23 3 0.07
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (21 bp):
CACACGGCTGTGTGCCTCAGT
Found at i:51837115 original size:43 final size:43
Alignment explanation
Indices: 51837054--51837141 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
51837044 GTCCTTGGTC
** * * *
51837054 CACACGGTTGTGTGCCTCAGTCACACGGCTATGTGCCTCTCCT
1 CACACGGGCGTGTACCTCAGCCACACGGCTATGTGCCCCTCCT
*
51837097 CACACGGGCGTGTACCTCAGCCACACGGCTCTGTGCCCCTCCT
1 CACACGGGCGTGTACCTCAGCCACACGGCTATGTGCCCCTCCT
51837140 CA
1 CA
51837142 TACAGGCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (43 bp):
CACACGGGCGTGTACCTCAGCCACACGGCTATGTGCCCCTCCT
Found at i:51840075 original size:18 final size:18
Alignment explanation
Indices: 51840052--51840089 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
51840042 TGTATGAGGT
*
51840052 TAGTTTGATTATTATGTA
1 TAGTTTAATTATTATGTA
51840070 TAGTTTAATTATTATGTA
1 TAGTTTAATTATTATGTA
51840088 TA
1 TA
51840090 ATTAATCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
TAGTTTAATTATTATGTA
Found at i:51844475 original size:31 final size:31
Alignment explanation
Indices: 51844432--51844515 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
51844422 TTAGTCTTGA
51844432 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
51844462 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
51844493 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
51844516 ACTATAAACG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:51844598 original size:42 final size:42
Alignment explanation
Indices: 51844539--51844672 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
51844529 TGGCCCTTAG
*
51844539 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
51844581 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
51844623 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
51844665 GCCCATTT
1 GCCCATTT
51844673 GGGGAGACTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:51844853 original size:25 final size:25
Alignment explanation
Indices: 51844820--51844889 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
51844810 CTCTTTTAAT
51844820 AACTGGGGCAAAG-CCTTTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
51844845 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
51844870 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
51844890 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 36 0.84
26 7 0.16
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:51845729 original size:27 final size:27
Alignment explanation
Indices: 51845699--51845763 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
51845689 GGGCATATTC
51845699 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
51845726 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
51845753 GTCTTTTTACC
1 GTCATTTTACC
51845764 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:51845765 original size:26 final size:28
Alignment explanation
Indices: 51845721--51845772 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
51845711 TACAAGGGTA
51845721 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
51845748 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
51845773 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:51845847 original size:27 final size:27
Alignment explanation
Indices: 51845817--51845949 Score: 96
Period size: 27 Copynumber: 4.9 Consensus size: 27
51845807 GTAAATCTAC
*
51845817 AAACGAAGGGTATTTCAGTAATTTTGT
1 AAACGAAGGGTATTTTAGTAATTTTGT
* *
51845844 AAACCAATGGTATTTCTA-TAATTTTAG-
1 AAACGAAGGGTATTT-TAGTAATTTT-GT
*
51845871 AAA-GTCAAGGGTATTTTTGTAATTTTGT
1 AAACG--AAGGGTATTTTAGTAATTTTGT
* * **
51845899 AAATC-AGGGGTATTTTGGTAATTTTAC
1 AAA-CGAAGGGTATTTTAGTAATTTTGT
*
51845926 AAATTG-AGGGTATTTTAGTAATTT
1 AAA-CGAAGGGTATTTTAGTAATTT
51845950 CACAAACTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
27 63 0.75
28 21 0.25
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (27 bp):
AAACGAAGGGTATTTTAGTAATTTTGT
Found at i:51845886 original size:28 final size:27
Alignment explanation
Indices: 51845822--51845913 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
51845812 TCTACAAACG
*
51845822 AAGGGTATTTC-AGTAATTTTGTAAACC
1 AAGGGTATTTCTA-TAATTTTGTAAATC
*
51845849 AATGGTATTTCTATAATTTTAG-AAAGTC
1 AAGGGTATTTCTATAATTTT-GTAAA-TC
* *
51845877 AAGGGTATTTTTGTAATTTTGTAAATC
1 AAGGGTATTTCTATAATTTTGTAAATC
*
51845904 AGGGGTATTT
1 AAGGGTATTT
51845914 TGGTAATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
27 32 0.58
28 23 0.42
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTCTATAATTTTGTAAATC
Found at i:51845911 original size:55 final size:54
Alignment explanation
Indices: 51845794--51846002 Score: 156
Period size: 54 Copynumber: 3.9 Consensus size: 54
51845784 TTTCATCCTA
* * * * *
51845794 CAAGGGTGTTTTGGTAAATCTACAAA-CGAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAATC-AAGGGTATTTTAGTAATTTTGTAAAC
* * * *
51845848 CAATGGTATTTCT-ATAATTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGATAATTTTACAAA-TCAAGGGTATTTTAGTAATTTTGTAAAC
* * ** ***
51845903 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAAA-
1 CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAAC
* * * * *
51845956 CTAGTGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATT
1 CAAG-GGTATTTTGATAATTTTACAAATC-AAGGGTATTTTAGTAATT
51846003 CTATCCTACA
Statistics
Matches: 123, Mismatches: 26, Indels: 12
0.76 0.16 0.07
Matches are distributed among these distances:
53 2 0.02
54 76 0.62
55 44 0.36
56 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTTAGTAATTTTGTAAAC
Found at i:51845936 original size:109 final size:108
Alignment explanation
Indices: 51845797--51846002 Score: 243
Period size: 109 Copynumber: 1.9 Consensus size: 108
51845787 CATCCTACAA
* *** *
51845797 GGGTGTTTTGGTAAATCTACAAACGAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA
1 GGGTATTTTGGTAAATCTACAAACGAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCGA
* * *
51845862 TAATTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAG
66 TAATTTTACAAACT-AAGGGTATTTTGGTAATTTTGTAAATCAG
* * * * * *
51845906 GGGTATTTTGGTAATTTTACAAATTG-AGGGTATTTTAGTAATTTCACAAACTAGTGGTATTTCG
1 GGGTATTTTGGTAAATCTACAAA-CGAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCG
* *
51845970 GTAATTTTACAAACTAGGGGTATTTTGGTAATT
65 ATAATTTTACAAACTAAGGGTATTTTGGTAATT
51846003 CTATCCTACA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
108 16 0.20
109 63 0.79
110 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (108 bp):
GGGTATTTTGGTAAATCTACAAACGAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCGA
TAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAATCAG
Found at i:51845954 original size:27 final size:26
Alignment explanation
Indices: 51845878--51846002 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
51845868 TAGAAAGTCA
* **
51845878 AGGGTATTTTTGTAATTTTGTAAA-T
1 AGGGTATTTTGGTAATTTTACAAACT
*
51845903 CAGGGGTATTTTGGTAATTTTACAAATT
1 -A-GGGTATTTTGGTAATTTTACAAACT
* *
51845931 GAGGGTATTTTAGTAATTTCACAAACT
1 -AGGGTATTTTGGTAATTTTACAAACT
*
51845958 AGTGGTATTTCGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
51845985 AGGGGTATTTTGGTAATT
1 A-GGGTATTTTGGTAATT
51846003 CTATCCTACA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.04
27 78 0.93
28 3 0.04
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:51846069 original size:27 final size:27
Alignment explanation
Indices: 51846034--51846217 Score: 145
Period size: 27 Copynumber: 6.5 Consensus size: 27
51846024 GTAATTTCAC
*
51846034 AATCGAGGGTAAAACGGCAATTTTGTA
1 AATCGAGGGTAAAACGACAATTTTGTA
* *
51846061 AA-CTGAGGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAACGACAATTTTGTA
*
51846088 AATCGAGGGTAAAACTGTAATTCTGTAATTCTGTA
1 AATCGAGGGTAAAAC-G--A--C---AATTTTGTA
* ** * *
51846123 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGACAATTTTGTA
*
51846150 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGACAATTTTGTA
* ** * *
51846177 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGACAATTTTGTA
51846204 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
51846218 TGGTAATTCT
Statistics
Matches: 128, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
26 1 0.01
27 101 0.79
28 2 0.02
30 1 0.01
34 1 0.01
35 22 0.17
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGACAATTTTGTA
Found at i:51846115 original size:54 final size:54
Alignment explanation
Indices: 51846034--51846239 Score: 193
Period size: 54 Copynumber: 3.7 Consensus size: 54
51846024 GTAATTTCAC
* * * * * *
51846034 AATCGAGGGTAAAACGGCAATTTTGTAAA-CTGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACTGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATA
51846088 AATCGAGGGTAAAACTGTAATTCTGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGT--AA----AA--CTGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
51846150 AATCGAGGGTAAAAC-GATAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACTG-TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
**
51846204 AATCGAGGGTAAAA-TGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACT-GTAATTCTGTAAATCGAGGG
51846240 CATTTCAGTA
Statistics
Matches: 128, Mismatches: 12, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
53 1 0.01
54 75 0.59
55 1 0.01
56 4 0.03
60 4 0.03
62 42 0.33
63 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:51846123 original size:35 final size:35
Alignment explanation
Indices: 51846078--51846146 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
51846068 GGTAAAATGA
*
51846078 TAATTTTGTAAATCGAGGGTAAAACT-GTAATTCTG
1 TAATTCTGTAAATCGAGGGTAAAA-TGGTAATTCTG
51846113 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCT
1 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCT
51846147 ATAAATCGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (35 bp):
TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
Found at i:51846154 original size:62 final size:61
Alignment explanation
Indices: 51846052--51846227 Score: 208
Period size: 54 Copynumber: 3.0 Consensus size: 61
51846042 GTAAAACGGC
* * *
51846052 AATTTTGTAAA-CTGAGGGTAAAATGATAATTTTGTAAATCGAGGGTAAAACTGTAATTCTGT
1 AATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACTGTAATTCT-T
*
51846114 AATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC-G--A----T
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACTGTAATTCTT
* *
51846168 AATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAA-TGGTAATTCT
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACT-GTAATTCT
51846228 ACAAATCGAG
Statistics
Matches: 98, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
54 48 0.49
55 1 0.01
57 1 0.01
59 1 0.01
61 1 0.01
62 45 0.46
63 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (61 bp):
AATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACTGTAATTCTT
Found at i:51846222 original size:27 final size:27
Alignment explanation
Indices: 51846112--51846239 Score: 184
Period size: 27 Copynumber: 4.7 Consensus size: 27
51846102 CTGTAATTCT
* *
51846112 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
51846139 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
51846166 ATAATTTTGTAAATCGAGGGTGAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
51846193 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
51846220 GTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
51846240 CATTTCAGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:51855488 original size:25 final size:25
Alignment explanation
Indices: 51855432--51855480 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
51855422 AGACTCACCA
51855432 CAACTCGTATGAGCTTACCAATTTG
1 CAACTCGTATGAGCTTACCAATTTG
*
51855457 CAACTCGTATGAGCTTACCGATTT
1 CAACTCGTATGAGCTTACCAATTT
51855481 TAAGCTCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (25 bp):
CAACTCGTATGAGCTTACCAATTTG
Found at i:51856635 original size:64 final size:63
Alignment explanation
Indices: 51856535--51856657 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 63
51856525 CAGCCATATG
* *
51856535 TGACACACGGTGTGTCCCCTGATACTTCTATAGAAATCAAGTCAGTAGCTTCACACGGCTAGA
1 TGACACACCGTGTGTCCCCTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGCTAGA
*
51856598 TGACACATCCGTGTGTCCCTTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGC
1 TGACACA-CCGTGTGTCCCCTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGC
51856658 CTAGCACACG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 7 0.12
64 49 0.88
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (63 bp):
TGACACACCGTGTGTCCCCTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGCTAGA
Found at i:51857096 original size:34 final size:33
Alignment explanation
Indices: 51857047--51857132 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 33
51857037 ACCAACACAA
* * *
51857047 ATATATTATACATATAACATCCATGCACCCAAAT
1 ATATATTTTATATATAACACCCATGCACCC-AAT
*
51857081 ATATATTTTATATATAACACCCATGCACGCAAT
1 ATATATTTTATATATAACACCCATGCACCCAAT
51857114 ATATA--TTATATATAACACC
1 ATATATTTTATATATAACACC
51857133 AAAACCCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
31 14 0.29
33 8 0.17
34 26 0.54
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATATTTTATATATAACACCCATGCACCCAAT
Found at i:51873374 original size:28 final size:28
Alignment explanation
Indices: 51873335--51873397 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
51873325 ACACCAGGGG
51873335 ACACACGGCAGTGTACTTGACGTGTGTC
1 ACACACGGCAGTGTACTTGACGTGTGTC
51873363 ACACACGGCAGTGTACTTGACGTGTGTC
1 ACACACGGCAGTGTACTTGACGTGTGTC
51873391 ACACACG
1 ACACACG
51873398 ATTGAGACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (28 bp):
ACACACGGCAGTGTACTTGACGTGTGTC
Found at i:51878778 original size:5 final size:5
Alignment explanation
Indices: 51878763--51878829 Score: 125
Period size: 5 Copynumber: 13.4 Consensus size: 5
51878753 TGTTGATTAA
*
51878763 ATATT AAATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
51878813 ATATT ATATT ATATT AT
1 ATATT ATATT ATATT AT
51878830 TATAAATAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:51878861 original size:15 final size:16
Alignment explanation
Indices: 51878834--51878863 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51878824 TATTATTATA
51878834 AATAAACTATATGTGT
1 AATAAACTATATGTGT
51878850 AATAAA-TATATGTG
1 AATAAACTATATGTG
51878864 GACAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (16 bp):
AATAAACTATATGTGT
Found at i:51879348 original size:3 final size:3
Alignment explanation
Indices: 51879342--51879394 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
51879332 AATAATAATA
* *
51879342 ATT ATT ATT ATT ATT AGT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
51879390 ATT AT
1 ATT AT
51879395 AAGATATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:51880393 original size:21 final size:21
Alignment explanation
Indices: 51880314--51880394 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
51880304 GCATGGCTGA
51880314 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTTTATGTGTTGT-T
* * *
51880336 TCAAGCATTTTATGTGTCGTT
1 TCAGGCACTTTATGTGTTGTT
* * **
51880357 TTAGGCACCTCGTGTGTTGTT
1 TCAGGCACTTTATGTGTTGTT
51880378 TCAGGCACTTTATGTGT
1 TCAGGCACTTTATGTGT
51880395 CGTATACTGC
Statistics
Matches: 45, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 28 0.62
22 17 0.38
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (21 bp):
TCAGGCACTTTATGTGTTGTT
Found at i:51880752 original size:40 final size:40
Alignment explanation
Indices: 51880667--51880758 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
51880657 TCGTTAAGAT
* *** *
51880667 AAAAAACGCCGCTATAGATCTAGCATTAGCGGTGCTTTTT
1 AAAAAACGCCGCTATAGATCTACCATTAGCGACACTTTTC
* *
51880707 GAAAAACGCCGCTATAGGT-TGACCATTAGCGACACTTTTC
1 AAAAAACGCCGCTATAGATCT-ACCATTAGCGACACTTTTC
*
51880747 AAAAAATGCCGC
1 AAAAAACGCCGC
51880759 AAAAAAATTA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATCTACCATTAGCGACACTTTTC
Found at i:51880816 original size:75 final size:75
Alignment explanation
Indices: 51880730--51880908 Score: 223
Period size: 75 Copynumber: 2.4 Consensus size: 75
51880720 ATAGGTTGAC
* * *
51880730 CATTAGCGACACTTTTCAAAAAATGCCGCAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGA
1 CATTAGAGACACTTTTCAAAAAACGCCGCAAAAAAATTAAGCACAACGCCGTCATTTTATGTTGA
51880795 GCTTTAGTGG
66 GCTTTAGTGG
** * * * *
51880805 CATTAGAGACACTTTTTGAAAAACGCCTCAAAAAAATTAAGCACAATGTCGTTATTTTATGTTGA
1 CATTAGAGACACTTTTCAAAAAACGCCGCAAAAAAATTAAGCACAACGCCGTCATTTTATGTTGA
51880870 GCTTTAGTGG
66 GCTTTAGTGG
* * * * **
51880880 CACTAGCGGCGCTTTTTGAAAAACGCCGC
1 CATTAGAGACACTTTTCAAAAAACGCCGC
51880909 TATAGATCGA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (75 bp):
CATTAGAGACACTTTTCAAAAAACGCCGCAAAAAAATTAAGCACAACGCCGTCATTTTATGTTGA
GCTTTAGTGG
Found at i:51881274 original size:14 final size:14
Alignment explanation
Indices: 51881257--51881295 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
51881247 ATCATTATAG
51881257 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
51881271 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
51881285 TTTAAGGTTTA
1 TTTAGGGTTTA
51881296 AGGTTTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:51881332 original size:22 final size:20
Alignment explanation
Indices: 51881291--51881351 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
51881281 ATGATTTAAG
51881291 GTTTAAGGTTTAGGAGTTACTA
1 GTTTAAGGTTTAGGA-TTAC-A
*
51881313 TTTTAAGGTTTAGGGATTACA
1 GTTTAAGGTTTA-GGATTACA
*
51881334 GTTTATGGTTTAAGGATT
1 GTTTAAGGTTT-AGGATT
51881352 GTGGTTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 15 0.44
22 16 0.47
23 3 0.09
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (20 bp):
GTTTAAGGTTTAGGATTACA
Found at i:51883727 original size:39 final size:39
Alignment explanation
Indices: 51883645--51883740 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 39
51883635 AACTTAAGAT
* * * *
51883645 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGG
1 CCGCAGGCTACGTGCTGGAAATATAACCGGACTAAAGGC
** * *
51883684 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTC
1 CCGCAGGCTACGTGCTGGAAATATAACCGGACTAAAGGC
* *
51883723 CCGCAGGCTTCGAGCTGG
1 CCGCAGGCTACGTGCTGG
51883741 TATTATACCG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.21
Consensus pattern (39 bp):
CCGCAGGCTACGTGCTGGAAATATAACCGGACTAAAGGC
Found at i:51891666 original size:38 final size:37
Alignment explanation
Indices: 51891575--51891675 Score: 96
Period size: 38 Copynumber: 2.7 Consensus size: 37
51891565 ATGTTTATCC
* * *
51891575 GACTTAAGTCCGCA-GCTATGTGCTGGAATTATAACG
1 GACTAAAGTCCGCAGGCTACGTGCTGGAAATATAACG
* * **
51891611 GACTTAAGGCCGCAGGCTACGTGCTGGAAATATGTCCG
1 GACTAAAGTCCGCAGGCTACGTGCTGGAAATAT-AACG
* * *
51891649 GGCTAAAGTCCGCAGGCTTCGAGCTGG
1 GACTAAAGTCCGCAGGCTACGTGCTGG
51891676 TATTATACCG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 13 0.25
37 16 0.30
38 24 0.45
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (37 bp):
GACTAAAGTCCGCAGGCTACGTGCTGGAAATATAACG
Found at i:51900811 original size:15 final size:15
Alignment explanation
Indices: 51900761--51900814 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
51900751 GTGTTACAGG
51900761 TTAAGGTTTAGGGG-
1 TTAAGGTTTAGGGGT
* * *
51900775 TTGATGTTTA-AGGT
1 TTAAGGTTTAGGGGT
51900789 TTAGAGGTTTAGGGGT
1 TTA-AGGTTTAGGGGT
51900805 TTAAGGTTTA
1 TTAAGGTTTA
51900815 TATTTTATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 2 0.06
14 10 0.32
15 13 0.42
16 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (15 bp):
TTAAGGTTTAGGGGT
Found at i:51900996 original size:16 final size:16
Alignment explanation
Indices: 51900977--51901007 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51900967 ATATTAAATA
51900977 ATTTCAAATTCTAAAG
1 ATTTCAAATTCTAAAG
*
51900993 ATTTCAAATTTTAAA
1 ATTTCAAATTCTAAA
51901008 TAATTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTTCAAATTCTAAAG
Found at i:51901012 original size:26 final size:25
Alignment explanation
Indices: 51900983--51901039 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
51900973 AATAATTTCA
51900983 AATTCTAAAGATTTCAAATTTTAAAT
1 AATTCTAAAGATTTC-AATTTTAAAT
* * **
51901009 AATTTTCAAGATTTCAATTTTATCT
1 AATTCTAAAGATTTCAATTTTAAAT
51901034 AATTCT
1 AATTCT
51901040 TTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTCTAAAGATTTCAATTTTAAAT
Found at i:51901353 original size:17 final size:17
Alignment explanation
Indices: 51901315--51901353 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
51901305 TTTCCCCCTA
51901315 AAAATTTTCCCCAAACC
1 AAAATTTTCCCCAAACC
* * *
51901332 TAAATTTTCCCTAAATC
1 AAAATTTTCCCCAAACC
51901349 AAAAT
1 AAAAT
51901354 CCCAACCCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTTTCCCCAAACC
Found at i:51903357 original size:17 final size:18
Alignment explanation
Indices: 51903335--51903374 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
51903325 GACATAGGCT
51903335 AGAGTAGTTCATG-TCGA
1 AGAGTAGTTCATGCTCGA
*
51903352 AGAGTAGTTCATGCTCTA
1 AGAGTAGTTCATGCTCGA
51903370 AGAGT
1 AGAGT
51903375 GACAGTGACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (18 bp):
AGAGTAGTTCATGCTCGA
Found at i:51909568 original size:73 final size:73
Alignment explanation
Indices: 51909449--51909707 Score: 491
Period size: 73 Copynumber: 3.5 Consensus size: 73
51909439 TATTATTATT
**
51909449 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
51909514 ATTTTAAG
66 ATTTTAAG
51909522 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
51909587 ATTTTAAG
66 ATTTTAAG
51909595 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
51909660 ATTTTAAG
66 ATTTTAAG
*
51909668 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTT
51909708 GTCAAGTTGT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 183 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:51914066 original size:73 final size:73
Alignment explanation
Indices: 51913947--51914205 Score: 473
Period size: 73 Copynumber: 3.5 Consensus size: 73
51913937 TATTATTATT
**
51913947 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
51914012 ATTTTAAG
66 ATTTTAAG
*
51914020 TGGATGTAATGATAAAACTTATTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
51914085 ATTTTAAG
66 ATTTTAAG
51914093 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
51914158 ATTTTAAG
66 ATTTTAAG
* *
51914166 TGGATGTAACGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTT
51914206 GTCAAGTTGT
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 180 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:51916262 original size:35 final size:34
Alignment explanation
Indices: 51916223--51916288 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
51916213 TAATTGTGTT
*
51916223 ATTAATTTCTTAT-TTTAAGTTCTAAATTTAAATTC
1 ATTAATTT-TTATATTT-AGTTCTAAAGTTAAATTC
*
51916258 ATTAATTTTTATATTTAGTTTTAAAGTTAAA
1 ATTAATTTTTATATTTAGTTCTAAAGTTAAA
51916289 ATTTTAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (34 bp):
ATTAATTTTTATATTTAGTTCTAAAGTTAAATTC
Found at i:51916291 original size:35 final size:35
Alignment explanation
Indices: 51916223--51916291 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
51916213 TAATTGTGTT
*
51916223 ATTAATTTCTTATTTTAAGTTCTAAATTTAAATTC
1 ATTAATTTCTTATTTTAAGTTCTAAATTAAAATTC
*
51916258 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAAATT
1 ATTAATTTCTTAT-TTTAAGTTCTAAA-TTAAAATT
51916292 TTAATAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (35 bp):
ATTAATTTCTTATTTTAAGTTCTAAATTAAAATTC
Found at i:51916501 original size:43 final size:43
Alignment explanation
Indices: 51916425--51916656 Score: 333
Period size: 43 Copynumber: 5.4 Consensus size: 43
51916415 AATATTTTTT
*
51916425 TAAAGGTCATGTTCTTTAGC-GACGTTTGTGGAAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCAG-CGTTTGTGGGAAAAGCGCCGC
* * * *
51916468 TAAAGGT-ATGTTCTATAACAGCATTTGTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
*
51916510 TAAAGGTCATGCTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* * **
51916553 TAAAGGTCCTGTTCTTTAGCGGCGTTTGTGGGAAAAGTACCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
* *
51916596 TAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
51916639 TAAAGGTCATGTTCTTTA
1 TAAAGGTCATGTTCTTTA
51916657 ATGGCGCTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
42 35 0.21
43 132 0.79
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
Found at i:51919797 original size:85 final size:85
Alignment explanation
Indices: 51919606--51919802 Score: 252
Period size: 85 Copynumber: 2.3 Consensus size: 85
51919596 CTAAGACATT
* * *
51919606 GTGTAAGACTATGTCTGGGACACAGGCCTCGATTGAGATTTACTTATAAGACCATGTCTGGAACA
1 GTGTAAGACCATGTCTGGGACACAGGCCTCAATTGAGATTTACGTATAAGACCATGTCTGGAACA
*
51919671 TCAGCATTGTATCTGATTTC
66 TCAGCATCGTATCTGATTTC
* * * * *
51919691 GTGTAAGACCGTGTCTAGGACA-ATGGCCTCAATTGGGATTTACGTATAAGACCATGTCTGGGAG
1 GTGTAAGACCATGTCTGGGACACA-GGCCTCAATTGAGATTTACGTATAAGACCATGTCTGGAAC
* *
51919755 ATCGGTATCGTATCTGATTTC
65 ATCAGCATCGTATCTGATTTC
* * *
51919776 GTGTAAGACCCTGTTTGGGACAGAGGC
1 GTGTAAGACCATGTCTGGGACACAGGC
51919803 ATCGATATTG
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
84 1 0.01
85 94 0.98
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (85 bp):
GTGTAAGACCATGTCTGGGACACAGGCCTCAATTGAGATTTACGTATAAGACCATGTCTGGAACA
TCAGCATCGTATCTGATTTC
Found at i:51919826 original size:85 final size:84
Alignment explanation
Indices: 51919645--51919829 Score: 203
Period size: 85 Copynumber: 2.2 Consensus size: 84
51919635 CGATTGAGAT
* * *
51919645 TTACTTATAAGACCATGTCTGGAACATCAGCATTGTATCTGATTTCGTGTAAGACCGTGTCTAGG
1 TTACATATAAGACCATGTCTGGAACATCAGCATCGTATCTGATTTCGTGTAAGACCCTGTCTAGG
* *
51919710 ACAATGGCCTCAATTGGGAT
66 ACAATGGCATCAATT-GGAA
* * * * * * *
51919730 TTACGTATAAGACCATGTCTGGGAGATCGGTATCGTATCTGATTTCGTGTAAGACCCTGTTTGGG
1 TTACATATAAGACCATGTCTGGAACATCAGCATCGTATCTGATTTCGTGTAAGACCCTGTCTAGG
51919795 ACAGA-GGCATCGATATT-GAA
66 ACA-ATGGCATC-A-ATTGGAA
*
51919815 TTACATTTAAGACCA
1 TTACATATAAGACCA
51919830 CATCCGGGAC
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
85 79 0.94
86 2 0.02
87 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (84 bp):
TTACATATAAGACCATGTCTGGAACATCAGCATCGTATCTGATTTCGTGTAAGACCCTGTCTAGG
ACAATGGCATCAATTGGAA
Found at i:51927107 original size:42 final size:42
Alignment explanation
Indices: 51927006--51927158 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 42
51926996 AGACATCGTG
* * * * * *
51927006 TAAGACCATGTCTGGGTCACATGCCTCGATTGAGATTTACGTA
1 TAAGACCATGTCTGGGACATAGGCATCGA-TCAGATTTACATA
* * *
51927049 TAAGACCATGTCTGGGACATCGGCATCGTATCTGATTT-CATG
1 TAAGACCATGTCTGGGACATAGGCATCG-ATCAGATTTACATA
* * *
51927091 TAAGACCATGTCTGGGACATAGGCCTCGATGAGATTTACGTA
1 TAAGACCATGTCTGGGACATAGGCATCGATCAGATTTACATA
* *
51927133 TAAGACCATGGCTGGGACATTGGCAT
1 TAAGACCATGTCTGGGACATAGGCAT
51927159 TGTACTTGTT
Statistics
Matches: 90, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
41 7 0.08
42 53 0.59
43 29 0.32
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATAGGCATCGATCAGATTTACATA
Found at i:51927148 original size:84 final size:85
Alignment explanation
Indices: 51927004--51927158 Score: 258
Period size: 84 Copynumber: 1.8 Consensus size: 85
51926994 TGAGACATCG
* * *
51927004 TGTAAGACCATGTCTGGGTCACATGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGGCTGGGACAT
51927069 CGGCATCGTATCTGATTTCA
66 CGGCATCGTATCTGATTTCA
*
51927089 TGTAAGACCATGTCTGGGACATAGGCCTCGA-TGAGATTTACGTATAAGACCATGGCTGGGACAT
1 TGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGGCTGGGACAT
*
51927153 TGGCAT
66 CGGCAT
51927159 TGTACTTGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 37 0.57
85 28 0.43
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (85 bp):
TGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGGCTGGGACAT
CGGCATCGTATCTGATTTCA
Found at i:51931830 original size:28 final size:28
Alignment explanation
Indices: 51931776--51931830 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
51931766 AAGAATAAAC
* *
51931776 TATTTAAATAATAAAATGATATTTTTAT
1 TATTTAAAAAATAAAATGATAATTTTAT
*
51931804 TATTATAAAAAATAAAAT-TTAATTTTA
1 TATT-TAAAAAATAAAATGATAATTTTA
51931831 GACCTTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
TATTTAAAAAATAAAATGATAATTTTAT
Found at i:51932919 original size:14 final size:14
Alignment explanation
Indices: 51932901--51932947 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
51932891 GGTTATATGT
*
51932901 TTTAATTATTGTTT
1 TTTAATTATTGTTA
*
51932915 TTTAATAATT-TTA
1 TTTAATTATTGTTA
*
51932928 TTTAATATATCGTTA
1 TTTAAT-TATTGTTA
51932943 TTTAA
1 TTTAA
51932948 ATAACAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTAATTATTGTTA
Found at i:51933045 original size:18 final size:18
Alignment explanation
Indices: 51933024--51933058 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51933014 TTTCGAACAC
*
51933024 TTATTTATATTTTTTAAT
1 TTATTTATATCTTTTAAT
51933042 TTATTTATATCTTTTAA
1 TTATTTATATCTTTTAA
51933059 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTATATCTTTTAAT
Found at i:51933083 original size:139 final size:140
Alignment explanation
Indices: 51932940--51933226 Score: 350
Period size: 139 Copynumber: 2.1 Consensus size: 140
51932930 TAATATATCG
* * * *
51932940 TTATTTAAATAACAG-TTTTATAAAACATACGAGCAATCCATACATCACATAG-GATAAAAAACT
1 TTATTTAAATAA-AGATTTTATAAAACACACAAGCAACCCATACAACACA-AGAGATAAAAAACT
* * ** ** *
51933003 ACCATATTATATTTCGAACACTTATTTATATTTTTTAAT-TT-ATTTATATCTTTTAAATATTTT
64 ACCATATTATATTTCAAAAACTTAAGTATA-TTTCAAATATTGA-TTATATCTTTTAAATATTGT
*
51933066 TTTATC-AATAATT
127 TTAATCAAATAATT
* * * *
51933079 TTATTTAAATAATGATTTTATAAAACACACAAGCAACCCGTACAACACACGAGATAAAAAACTAG
1 TTATTTAAATAAAGATTTTATAAAACACACAAGCAACCCATACAACACAAGAGATAAAAAACTAC
*
51933144 TATATTATATTTCAAAAACTTAAGTATATTTCAAATATTGATTATATCTTTTAAATATTGTTTAA
66 CATATTATATTTCAAAAACTTAAGTATATTTCAAATATTGATTATATCTTTTAAATATTGTTTAA
51933209 TCAAATAATT
131 TCAAATAATT
51933219 TTATTTAA
1 TTATTTAA
51933227 CATAGAATTA
Statistics
Matches: 126, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
138 8 0.06
139 102 0.81
140 16 0.13
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (140 bp):
TTATTTAAATAAAGATTTTATAAAACACACAAGCAACCCATACAACACAAGAGATAAAAAACTAC
CATATTATATTTCAAAAACTTAAGTATATTTCAAATATTGATTATATCTTTTAAATATTGTTTAA
TCAAATAATT
Found at i:51936580 original size:126 final size:126
Alignment explanation
Indices: 51936355--51936605 Score: 369
Period size: 126 Copynumber: 2.0 Consensus size: 126
51936345 TCCAAGACTT
** * * *
51936355 TACTTCAGTAAGGCAGAGAAATAAATCATGTATTTGTAGACTATTGTGTTGCTTGTAAATTTAAT
1 TACTTCAACAAGGCAGAGAAATAAATCATGTATTTGCAAACTATTGTGTTGCTTGTAAACTTAAT
* * * * *
51936420 TGAACTACTGTTAAGTTTATTTCTATTTTTCAAGTGTCAAATCATTTTGGAACTATTTGAG
66 CGAACTACTGTTAAATTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATTTGAG
* * *
51936481 TACTTCAACAAGGCAGTGAAATATATTATGTATTTGCAAACTATTGTGTTGCTTGTAAACTTAAT
1 TACTTCAACAAGGCAGAGAAATAAATCATGTATTTGCAAACTATTGTGTTGCTTGTAAACTTAAT
51936546 CGAACTACT-TTCAAATTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATTTGA
66 CGAACTACTGTT-AAATTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATTTGA
51936606 ATTCAAAATT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 2 0.02
126 109 0.98
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (126 bp):
TACTTCAACAAGGCAGAGAAATAAATCATGTATTTGCAAACTATTGTGTTGCTTGTAAACTTAAT
CGAACTACTGTTAAATTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATTTGAG
Found at i:51937391 original size:18 final size:18
Alignment explanation
Indices: 51937370--51937408 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
51937360 TGAATTTTCG
*
51937370 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
*
51937388 AATTTGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
51937406 AAT
1 AAT
51937409 ATTTTACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:51938605 original size:25 final size:25
Alignment explanation
Indices: 51938572--51938628 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
51938562 TATCAACAAA
51938572 TTAAATAGAATAATTAATAATAAAT
1 TTAAATAGAATAATTAATAATAAAT
51938597 TTAAATAGAATAATTAATAATAAAT
1 TTAAATAGAATAATTAATAATAAAT
51938622 TTAAATA
1 TTAAATA
51938629 TGTGTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
TTAAATAGAATAATTAATAATAAAT
Found at i:51940144 original size:23 final size:23
Alignment explanation
Indices: 51940118--51940161 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
51940108 TTAAAATAAA
*
51940118 TATTATGATATGAATT-TATTTTC
1 TATTATGACAT-AATTATATTTTC
*
51940141 TATTGTGACATAATTATATTT
1 TATTATGACATAATTATATTT
51940162 AGTCCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (23 bp):
TATTATGACATAATTATATTTTC
Found at i:51942539 original size:49 final size:50
Alignment explanation
Indices: 51942463--51942592 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 50
51942453 TGTTGTGTGT
* *
51942463 CAGTGTAAGACTTGT-TGGGACATGGCATCGACACCGATAGATA-AGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAGAAAGC
* * * * *
51942511 CAGTGTAAGACCTGTCTAGGACATGGCATC-A-GCCTATATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATA-GAAAGC
**
51942560 CAGTGTAAGACCTGTCTGGGACACAGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
51942593 TTTAATGTGC
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
47 8 0.12
48 15 0.22
49 43 0.64
50 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (50 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAGAAAGC
Found at i:51946385 original size:35 final size:35
Alignment explanation
Indices: 51946346--51946416 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
51946336 AAATCCAAAA
*
51946346 ACCACAGTTTGTATAATCGCCTTACAAATAATCTT
1 ACCACAGTTTGTATAATCGACTTACAAATAATCTT
*
51946381 ACCACAGTTTGTATAATCGACTTAGAAATAATCTT
1 ACCACAGTTTGTATAATCGACTTACAAATAATCTT
51946416 A
1 A
51946417 AAACCAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (35 bp):
ACCACAGTTTGTATAATCGACTTACAAATAATCTT
Found at i:51951653 original size:47 final size:49
Alignment explanation
Indices: 51951583--51951705 Score: 144
Period size: 49 Copynumber: 2.5 Consensus size: 49
51951573 GCCGACAACA
* *
51951583 TGTCCCAGACATGGTCTTACACTGGCTAGCACAT-T-AAGGTCAATACT-G
1 TGTCCCAAACA-GGTCTTACACTGGCTAGCACATATCAAGGCCAAT-CTCG
** * * *
51951631 TGTCCCAAACAGGTCTTACACTGGCTTTCATATATCGAGGCCAATGTCG
1 TGTCCCAAACAGGTCTTACACTGGCTAGCACATATCAAGGCCAATCTCG
51951680 TGTCCCAAACAGGTCTTACACTGGCT
1 TGTCCCAAACAGGTCTTACACTGGCT
51951706 CTCATCTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
47 19 0.29
48 12 0.18
49 34 0.52
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
TGTCCCAAACAGGTCTTACACTGGCTAGCACATATCAAGGCCAATCTCG
Found at i:51951831 original size:48 final size:46
Alignment explanation
Indices: 51951766--51951891 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
51951756 ACAACAAGCT
* * * *
51951766 GATGCCATGTCTCAGACAGGTCTTATACTAGCT-TGCATATCTTGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATA--ATGAGGCC
* * *
51951815 GATGCATGTCCCAGACATGCCTTACACTGGCTCTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCC
*
51951861 GATACATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
51951892 ACACATATCA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 34 0.52
48 27 0.41
49 5 0.08
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCC
Found at i:51954301 original size:46 final size:46
Alignment explanation
Indices: 51954234--51954408 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
51954224 TGTAACCAGC
* *
51954234 CCATAAGCGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
* *
51954280 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT--TTGCAT
* * * * *
51954330 CTCA-CA---AACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
* *
51954373 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
51954409 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 2 0.02
46 61 0.56
47 25 0.23
48 3 0.03
50 7 0.06
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
Found at i:51954409 original size:93 final size:93
Alignment explanation
Indices: 51954243--51954413 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
51954233 CCCATAAGCG
* * *
51954243 AACTCGGGCTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
51954308 GAGCTCGGATGCCTAGTTACATCTCACA
66 GAGCTCGGATGCCTAGTTACATCTCACA
* * *
51954336 AACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
51954401 GAGTTCGGATGCC
66 GAGCTCGGATGCC
51954414 CAAATATCTG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:51963606 original size:23 final size:22
Alignment explanation
Indices: 51963580--51963628 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
51963570 CCTTTCTTGG
*
51963580 TTTCACATTTTGTTCCCTTTTTT
1 TTTCACATTTTCTT-CCTTTTTT
* *
51963603 TTTCTCATTTTCTTCTTTTTTT
1 TTTCACATTTTCTTCCTTTTTT
51963625 TTTC
1 TTTC
51963629 TTCTTTTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTCACATTTTCTTCCTTTTTT
Done.