Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 76 of 318
Found at i:22152894 original size:119 final size:119
Alignment explanation
Indices: 22152648--22152905 Score: 310
Period size: 119 Copynumber: 2.2 Consensus size: 119
22152638 TCGAATGATG
* *
22152648 TCCGGGATAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
* **
22152713 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
22152767 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
* * *
22152830 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
22152887 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22152906 TACGTGATTC
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 86 0.72
120 31 0.26
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:22160061 original size:28 final size:28
Alignment explanation
Indices: 22159996--22160096 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
22159986 ATAGTGAATC
*
22159996 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
22160025 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
22160053 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
22160083 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22160097 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22164075 original size:40 final size:39
Alignment explanation
Indices: 22163886--22164068 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
22163876 CGAATGATGT
* * *
22163886 CCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
22163925 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
** *
22163965 CCGGGCTAAG-CCCGAAATCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22164003 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22164044 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22164069 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 42 0.34
40 72 0.59
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22164090 original size:79 final size:77
Alignment explanation
Indices: 22163918--22164101 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 77
22163908 GTGCTAAGTG
* * *
22163918 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAAT
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAAG
**
22163983 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* *
22163997 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
* *
22164061 GGCATTTGAACGAG-T
62 AGCATTGGAACGAGTT
*
22164076 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
22164102 TACGTGATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 27 0.31
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAAGCA
TTGGAACGAGTT
Found at i:22169447 original size:28 final size:28
Alignment explanation
Indices: 22169382--22169482 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
22169372 ATAGTGAATC
*
22169382 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
22169411 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
22169439 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
22169469 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22169483 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22171528 original size:39 final size:40
Alignment explanation
Indices: 22171427--22171664 Score: 264
Period size: 40 Copynumber: 6.1 Consensus size: 40
22171417 TCGAATGATG
* *
22171427 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
22171467 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
22171506 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
22171546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
22171586 ACC-GG-T-AGT--CGAAGG-ATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
22171620 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
22171660 TCCGG
1 TCCGG
22171665 TTAAATTCCG
Statistics
Matches: 172, Mismatches: 13, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
34 22 0.13
35 8 0.05
36 1 0.01
37 5 0.03
38 1 0.01
39 45 0.26
40 82 0.48
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:22171563 original size:79 final size:79
Alignment explanation
Indices: 22171427--22171664 Score: 253
Period size: 79 Copynumber: 3.1 Consensus size: 79
22171417 TCGAATGATG
* * * *
22171427 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
22171490 TTGTGCGAGTTACTA-A
63 TTGTGCGAGTTACTATA
* *
22171506 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
22171571 GTGCGAGTTACTATA
65 GTGCGAGTTACTATA
* * *
22171586 ACC-GG-T-AG-TCGAAGG-ATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
**
22171645 GAACGAG-TAGCTATA
65 GTGCGAGTTA-CTATA
22171660 TCCGG
1 TCCGG
22171665 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
73 2 0.01
74 50 0.36
75 9 0.07
76 2 0.01
77 1 0.01
78 3 0.02
79 53 0.38
80 18 0.13
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:22171652 original size:74 final size:75
Alignment explanation
Indices: 22171520--22171665 Score: 199
Period size: 74 Copynumber: 2.0 Consensus size: 75
22171510 GGGCTAAGCC
* **
22171520 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTA
22171584 TAACCGGTAGT
65 TAACCGGTAGT
* *
22171595 CGAAGG-ATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTA
1 CGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
*
22171658 TATCCGGT
65 TAACCGGT
22171666 TAAATTCCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
73 2 0.03
74 53 0.84
75 8 0.13
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (75 bp):
CGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAT
AACCGGTAGT
Found at i:22178850 original size:28 final size:28
Alignment explanation
Indices: 22178785--22178885 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
22178775 ATAGTGAATC
*
22178785 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
22178814 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
22178842 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
22178872 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22178886 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22182765 original size:40 final size:40
Alignment explanation
Indices: 22182681--22182865 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
22182671 TCGAATGATG
* *
22182681 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
22182720 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
** * *
22182761 TCCGGGCTAAG-CCCGAAATCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22182800 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22182839 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22182866 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:22182887 original size:79 final size:78
Alignment explanation
Indices: 22182682--22182898 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 78
22182672 CGAATGATGT
* *
22182682 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
22182745 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
** * *
22182762 CCGGGCTAAG-CCCGAAATCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
22182825 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
22182841 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
22182899 TACGTGATTC
Statistics
Matches: 113, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.58
80 44 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:22186049 original size:18 final size:18
Alignment explanation
Indices: 22186026--22186085 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
22186016 TTAATAGTAA
22186026 AACCATTAAATCACATTC
1 AACCATTAAATCACATTC
*
22186044 AACCATTCACCAAGCA-A---
1 AACCATT-A--AATCACATTC
22186061 AACCATTAAATCACATTC
1 AACCATTAAATCACATTC
22186079 AACCATT
1 AACCATT
22186086 CACCAATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 1 0.03
17 7 0.21
18 14 0.42
19 1 0.03
20 1 0.03
21 4 0.12
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (18 bp):
AACCATTAAATCACATTC
Found at i:22186067 original size:35 final size:35
Alignment explanation
Indices: 22186024--22186091 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
22186014 ATTTAATAGT
22186024 AAAACCATTAAATCACATTCAACCATTCACCAAGC
1 AAAACCATTAAATCACATTCAACCATTCACCAAGC
22186059 AAAACCATTAAATCACATTCAACCATTCACCAA
1 AAAACCATTAAATCACATTCAACCATTCACCAA
22186092 TCATATGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (35 bp):
AAAACCATTAAATCACATTCAACCATTCACCAAGC
Found at i:22193829 original size:18 final size:16
Alignment explanation
Indices: 22193796--22193840 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
22193786 CATTCAACCA
22193796 TTCACCAATCATATAT
1 TTCACCAATCATATAT
22193812 TTCACCAATCATATAT
1 TTCACCAATCATATAT
*
22193828 AT-ACCACATCATA
1 TTCACCA-ATCATA
22193841 AAGAAGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
TTCACCAATCATATAT
Found at i:22196339 original size:63 final size:63
Alignment explanation
Indices: 22196260--22196388 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
22196250 TGACAAGTCG
* * **
22196260 TGTAACTCATTGTTTGTGAATCAGAGTCACACGGACCA-AGGACACGGGTGTGTGTCCAAGCCA
1 TGTAACTCACTATTTGTGAATCAGAGTCACACGGACCAGA-GACACAAGTGTGTGTCCAAGCCA
* ** *
22196323 TGTAACTCACTATTTGTGAATCAGAGTCACATGGGTCAGAGACACAAGTGTGTGTCCAGGCCA
1 TGTAACTCACTATTTGTGAATCAGAGTCACACGGACCAGAGACACAAGTGTGTGTCCAAGCCA
22196386 TGT
1 TGT
22196389 GAGAGATATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 56 0.98
64 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (63 bp):
TGTAACTCACTATTTGTGAATCAGAGTCACACGGACCAGAGACACAAGTGTGTGTCCAAGCCA
Found at i:22204894 original size:93 final size:93
Alignment explanation
Indices: 22204785--22204955 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
22204775 GCCCCTAAGT
*
22204785 GAACTCGGACTCAACTCAACAAGCTC-GAGCGTTTGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAGCTCGGA-CATTTGCATCCATAAATGAACTCGGACTCAACTCA
22204849 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
22204878 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
22204943 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22204956 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22204945 original size:46 final size:47
Alignment explanation
Indices: 22204780--22204952 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 47
22204770 AACCCGCCCC
* * *
22204780 TAAGTGAACTCGGACTCAACTCAACAAGCTC-GAGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * *
22204826 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
22204874 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
22204919 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22204953 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.53
47 31 0.29
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:22204971 original size:46 final size:45
Alignment explanation
Indices: 22204830--22204971 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
22204820 CATCCATAAA
22204830 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
22204877 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
22204923 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
22204969 TGA
1 TGA
22204972 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:22210268 original size:40 final size:40
Alignment explanation
Indices: 22210213--22210401 Score: 301
Period size: 40 Copynumber: 4.8 Consensus size: 40
22210203 GAATATAGCT
*
22210213 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
22210253 ACTCGCACAATTGCCTTCGGGACTTAGTCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
22210293 ACTCGCACAATTGCCTTCGGGACTT-GTCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAG-CCCGGTTATAGTA
* *
22210333 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
22210373 ACTCGCACAAATGCCTTCGGG-CTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
22210402 ATTATCAATC
Statistics
Matches: 139, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
39 9 0.06
40 129 0.93
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:22210342 original size:80 final size:80
Alignment explanation
Indices: 22210187--22210401 Score: 303
Period size: 80 Copynumber: 2.7 Consensus size: 80
22210177 AAACCAAGTA
** * *
22210187 CCTTCGGGGTTTAG-CCGAATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
* *
22210250 GTAACTCGCACAATTG
65 GTAACTCACACAAATG
* * *
22210266 CCTTCGGGACTTAGTCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTT-GTCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG-CCCGGTTATA
22210330 GTAACTCACACAAATG
65 GTAACTCACACAAATG
22210346 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
22210402 ATTATCAATC
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
79 20 0.17
80 101 0.83
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCACACAAATG
Found at i:22211005 original size:2 final size:2
Alignment explanation
Indices: 22210998--22211027 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22210988 TTAAAATACC
22210998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22211028 TCATAAGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22213539 original size:23 final size:23
Alignment explanation
Indices: 22213509--22213554 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22213499 AATTTTAGGC
22213509 TGAATCTCTCAACAAAGATGTAG
1 TGAATCTCTCAACAAAGATGTAG
22213532 TGAATCTCTCAACAAAGATGTAG
1 TGAATCTCTCAACAAAGATGTAG
22213555 CACATTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (23 bp):
TGAATCTCTCAACAAAGATGTAG
Found at i:22215588 original size:93 final size:93
Alignment explanation
Indices: 22215429--22215599 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
22215419 ACCCCTAAGT
* *
22215429 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
22215494 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
22215522 GAACTCGGACTCAGCTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
22215587 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22215600 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22215596 original size:46 final size:46
Alignment explanation
Indices: 22215424--22215596 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
22215414 AACCCACCCC
* * * *
22215424 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
22215470 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
22215518 TCA-CGAACTCGGACTCAGCTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
22215563 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22215597 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:22217849 original size:63 final size:63
Alignment explanation
Indices: 22217777--22217961 Score: 244
Period size: 63 Copynumber: 2.9 Consensus size: 63
22217767 GTGTCAGGTG
* * * * * *
22217777 GTGTAACTCATTGTTTATGAATCAGAGTCACACAGGCCAGGGACACAGACGTGTGTCGAGGCC
1 GTGTAACTCATTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCAGGCC
* * * * * *
22217840 GTGTAACTCACTGTTTGTAAATCAGAGTTACATGGGTTAGGGACACAGATGTGTGTCCAGGCT
1 GTGTAACTCATTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCAGGCC
* *
22217903 GTGTAACTCATTGTTTGTAAATTAGAGTCACACGGGCTAAGGACACAGAAGTGTGTCCA
1 GTGTAACTCATTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCA
22217962 AACCATATAA
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 104 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (63 bp):
GTGTAACTCATTGTTTGTAAATCAGAGTCACACGGGCTAGGGACACAGAAGTGTGTCCAGGCC
Found at i:22217973 original size:63 final size:63
Alignment explanation
Indices: 22217777--22218030 Score: 226
Period size: 63 Copynumber: 4.1 Consensus size: 63
22217767 GTGTCAGGTG
* * * * * *
22217777 GTGTAACTCATTGTTTATGAATCAGAGTCACACAGGCCAGGGACACAGACGTGTGTCGAGGCC
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACAGGCCAAGGACACAGAAGTGTGTCCAGGCC
* ** ** * * *
22217840 GTGTAACTCACTGTTTGTAAATCAGAGTTACATGGGTTAGGGACACAGATGTGTGTCCAGGCT
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACAGGCCAAGGACACAGAAGTGTGTCCAGGCC
* * * * **
22217903 GTGTAACTCATTGTTTGTAAATTAGAGTCACACGGGCTAAGGACACAGAAGTGTGTCCAAACC
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACAGGCCAAGGACACAGAAGTGTGTCCAGGCC
* * * * * * * *
22217966 ATATAACTTACTGTTTGTGAAT--TAGTCACACAGGCCAAGGACATGAGCA-TGTGTCTAGGCC
1 GTGTAACTCACTGTTTGTAAATCAGAGTCACACAGGCCAAGGACA-CAGAAGTGTGTCCAGGCC
22218027 GTGT
1 GTGT
22218031 GAGAGATATT
Statistics
Matches: 154, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
61 29 0.19
62 3 0.02
63 122 0.79
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (63 bp):
GTGTAACTCACTGTTTGTAAATCAGAGTCACACAGGCCAAGGACACAGAAGTGTGTCCAGGCC
Found at i:22219385 original size:15 final size:15
Alignment explanation
Indices: 22219365--22219393 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22219355 TTTGAAAGTT
22219365 GAATTACTTTTTCAG
1 GAATTACTTTTTCAG
22219380 GAATTACTTTTTCA
1 GAATTACTTTTTCA
22219394 CCCTCATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (15 bp):
GAATTACTTTTTCAG
Found at i:22225448 original size:24 final size:21
Alignment explanation
Indices: 22225421--22225544 Score: 67
Period size: 20 Copynumber: 5.9 Consensus size: 21
22225411 ACTAAAAGCA
22225421 TTGTTGTTTATATGAATCGATTGT
1 TTGTTGTTT-TA--AATCGATTGT
*
22225445 TTGTTGTTTTAAATCGATTTT
1 TTGTTGTTTTAAATCGATTGT
* * *
22225466 TTGCTT-CTTTGAATCGATTGC
1 TTG-TTGTTTTAAATCGATTGT
* * * * **
22225487 TTATTG-TTTGAATTGGTTCA
1 TTGTTGTTTTAAATCGATTGT
* *
22225507 TTATTG-TTTAAATCGATTCT
1 TTGTTGTTTTAAATCGATTGT
*
22225527 TTGTTG-TTTAACTCGATT
1 TTGTTGTTTTAAATCGATT
22225545 CAAACTCCAA
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
20 44 0.54
21 25 0.30
22 2 0.02
23 2 0.02
24 9 0.11
ACGTcount: A:0.19, C:0.09, G:0.17, T:0.55
Consensus pattern (21 bp):
TTGTTGTTTTAAATCGATTGT
Found at i:22225459 original size:21 final size:20
Alignment explanation
Indices: 22225435--22225545 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 20
22225425 TGTTTATATG
*
22225435 AATCGATTGTTTGTTGTTTTA
1 AATCGATTCTTTGTTG-TTTA
* * *
22225456 AATCGATTTTTTGCTTCTTTG
1 AATCGATTCTTTG-TTGTTTA
* *
22225477 AATCGATTGC-TTATTGTTTG
1 AATCGATT-CTTTGTTGTTTA
* * * *
22225497 AATTGGTTCATTATTGTTTA
1 AATCGATTCTTTGTTGTTTA
22225517 AATCGATTCTTTGTTGTTTA
1 AATCGATTCTTTGTTGTTTA
*
22225537 ACTCGATTC
1 AATCGATTC
22225546 AAACTCCAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.01
20 45 0.62
21 25 0.34
22 2 0.03
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.53
Consensus pattern (20 bp):
AATCGATTCTTTGTTGTTTA
Found at i:22231383 original size:3 final size:3
Alignment explanation
Indices: 22231369--22231401 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
22231359 GACAAATGAC
*
22231369 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22231402 TACCTTCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22232985 original size:3 final size:3
Alignment explanation
Indices: 22232961--22233013 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
22232951 CGTCACTATT
* * * *
22232961 TCC TCC TCT TCG TCC TCT TCC TCC TCC TCC TCC TCC ACC TCTC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC-C TCC
*
22233007 TAC TCC T
1 TCC TCC T
22233014 ACCGCCACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.04, C:0.57, G:0.02, T:0.38
Consensus pattern (3 bp):
TCC
Found at i:22235566 original size:17 final size:18
Alignment explanation
Indices: 22235544--22235582 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22235534 TTAAAAATTA
*
22235544 TTTTATCGT-ACTAATAT
1 TTTTATAGTAACTAATAT
*
22235561 TTTTATAGTAATTAATAT
1 TTTTATAGTAACTAATAT
22235579 TTTT
1 TTTT
22235583 TAAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTATAGTAACTAATAT
Found at i:22235772 original size:4 final size:4
Alignment explanation
Indices: 22235765--22235803 Score: 60
Period size: 4 Copynumber: 9.2 Consensus size: 4
22235755 TAAATGCTCA
22235765 ATTT ATTT CCATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT --ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
22235804 AACAGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 29 0.88
6 4 0.12
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:22248124 original size:24 final size:25
Alignment explanation
Indices: 22248097--22248143 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
22248087 GTTATAATAT
*
22248097 TTAACTTATATTAAT-AAATAAAGG
1 TTAACTTATAATAATAAAATAAAGG
* *
22248121 TTAATTTTTAATAATAAAATAAA
1 TTAACTTATAATAATAAAATAAA
22248144 CAAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (25 bp):
TTAACTTATAATAATAAAATAAAGG
Found at i:22249467 original size:2 final size:2
Alignment explanation
Indices: 22249460--22249496 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
22249450 ACGTGAGCTT
*
22249460 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22249497 TTTCATTGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:22251193 original size:34 final size:34
Alignment explanation
Indices: 22251150--22251252 Score: 206
Period size: 34 Copynumber: 3.0 Consensus size: 34
22251140 ATAAATGAAG
22251150 ATTTCATACTCTTCTCCAAGTCTTTGAGATGTGA
1 ATTTCATACTCTTCTCCAAGTCTTTGAGATGTGA
22251184 ATTTCATACTCTTCTCCAAGTCTTTGAGATGTGA
1 ATTTCATACTCTTCTCCAAGTCTTTGAGATGTGA
22251218 ATTTCATACTCTTCTCCAAGTCTTTGAGATGTGA
1 ATTTCATACTCTTCTCCAAGTCTTTGAGATGTGA
22251252 A
1 A
22251253 GAGATTGATC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (34 bp):
ATTTCATACTCTTCTCCAAGTCTTTGAGATGTGA
Found at i:22252217 original size:29 final size:29
Alignment explanation
Indices: 22252184--22252243 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
22252174 GTTGAATAAA
22252184 TATGGAAATGGTAATGTAATGTGTGTATG
1 TATGGAAATGGTAATGTAATGTGTGTATG
22252213 TATGGAAATGGTAATGTAATGTGTGTATG
1 TATGGAAATGGTAATGTAATGTGTGTATG
22252242 TA
1 TA
22252244 AGTTCTATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (29 bp):
TATGGAAATGGTAATGTAATGTGTGTATG
Found at i:22252710 original size:21 final size:21
Alignment explanation
Indices: 22252686--22252726 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22252676 CATGCGGCAT
*
22252686 GCCAAAGCGATTAGTGCGCAC
1 GCCAAAGCAATTAGTGCGCAC
*
22252707 GCCATAGCAATTAGTGCGCA
1 GCCAAAGCAATTAGTGCGCA
22252727 TGCTTGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (21 bp):
GCCAAAGCAATTAGTGCGCAC
Found at i:22253161 original size:47 final size:47
Alignment explanation
Indices: 22253092--22253187 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
22253082 AGATAAGTTT
22253092 ATAAAAGAGCCCAAAAAAGATGAGAAGAGATTTCAATTTGTGTGTCC
1 ATAAAAGAGCCCAAAAAAGATGAGAAGAGATTTCAATTTGTGTGTCC
**
22253139 ATAAAAGAGCCCCCAAAAGATGAGAAGAGATTTCAATTTGTGTGTCC
1 ATAAAAGAGCCCAAAAAAGATGAGAAGAGATTTCAATTTGTGTGTCC
22253186 AT
1 AT
22253188 TATGAGCATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (47 bp):
ATAAAAGAGCCCAAAAAAGATGAGAAGAGATTTCAATTTGTGTGTCC
Found at i:22254200 original size:29 final size:29
Alignment explanation
Indices: 22254166--22254224 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22254156 TCCACCTTGA
* * * *
22254166 CACGAATTCTCAATGAACAAGTTCTTCAT
1 CACGAACTCTCAACGAACAACTTCTCCAT
*
22254195 CACGAACTCTTAACGAACAACTTCTCCAT
1 CACGAACTCTCAACGAACAACTTCTCCAT
22254224 C
1 C
22254225 TCTTCCATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.27
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAACTTCTCCAT
Found at i:22255428 original size:19 final size:19
Alignment explanation
Indices: 22255404--22255442 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22255394 TTTCTGAGAC
22255404 TATAAAACCCTCTGGTTGT
1 TATAAAACCCTCTGGTTGT
*
22255423 TATAAAACCCTTTGGTTGT
1 TATAAAACCCTCTGGTTGT
22255442 T
1 T
22255443 GCATGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (19 bp):
TATAAAACCCTCTGGTTGT
Found at i:22260020 original size:28 final size:28
Alignment explanation
Indices: 22259989--22260048 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
22259979 TAAAAGAAAA
* *
22259989 AATCAT-TACATTGTTTATGTAGTTAAAT
1 AATCATGTACATTGTCTA-CTAGTTAAAT
* *
22260017 AATCTTGTACTTTGTCTACTAGTTAAAT
1 AATCATGTACATTGTCTACTAGTTAAAT
22260045 AATC
1 AATC
22260049 GGTTCATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (28 bp):
AATCATGTACATTGTCTACTAGTTAAAT
Found at i:22262258 original size:30 final size:30
Alignment explanation
Indices: 22262219--22262308 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
22262209 AATTTTTACA
*
22262219 CCAATTTTG-AATTCAGACAGATTTGGAAAT
1 CCAATTTTGAAATT-AGACGGATTTGGAAAT
* * *
22262249 CCAAATTTGAAATTAGATGGATATGGAAAT
1 CCAATTTTGAAATTAGACGGATTTGGAAAT
22262279 CCAATTTTGAAATTAGACGGATTTGGAAAT
1 CCAATTTTGAAATTAGACGGATTTGGAAAT
22262309 TTAAAAGACT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (30 bp):
CCAATTTTGAAATTAGACGGATTTGGAAAT
Found at i:22265783 original size:13 final size:13
Alignment explanation
Indices: 22265767--22265791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22265757 GCCTACACGG
22265767 GTATGCCACACAA
1 GTATGCCACACAA
22265780 GTATGCCACACA
1 GTATGCCACACA
22265792 GGCGAGTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (13 bp):
GTATGCCACACAA
Found at i:22266118 original size:31 final size:33
Alignment explanation
Indices: 22266038--22266119 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 33
22266028 AACCTAAAAA
* *
22266038 AAGTTTGGGTACTAAATTAGGGAAAAGAATGCC
1 AAGTTTAGGTACCAAATTAGGGAAAAGAATGCC
* * * * *
22266071 AAGCTCAAGTATCAAATTA-GGAGAA-AATGCC
1 AAGTTTAGGTACCAAATTAGGGAAAAGAATGCC
22266102 AAGTTTAGGTACCAAATT
1 AAGTTTAGGTACCAAATT
22266120 CGGCCAAAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
31 20 0.53
32 5 0.13
33 13 0.34
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.24
Consensus pattern (33 bp):
AAGTTTAGGTACCAAATTAGGGAAAAGAATGCC
Found at i:22266291 original size:13 final size:13
Alignment explanation
Indices: 22266273--22266299 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22266263 TTCTTTTCAA
22266273 ATATTTTATTTTT
1 ATATTTTATTTTT
22266286 ATATTTTATTTTT
1 ATATTTTATTTTT
22266299 A
1 A
22266300 AAATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATATTTTATTTTT
Found at i:22266357 original size:22 final size:22
Alignment explanation
Indices: 22266302--22266364 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
22266292 TATTTTTAAA
*
22266302 ATTTTTTA-AAA-TTTATGT-T
1 ATTTTTTATAAATTTTATATAT
* * *
22266321 TTTTTTTCTAGATTTTATATAT
1 ATTTTTTATAAATTTTATATAT
22266343 ATTTTTTATAAATTTTATATAT
1 ATTTTTTATAAATTTTATATAT
22266365 TTATTTCATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 6 0.18
22 20 0.59
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (22 bp):
ATTTTTTATAAATTTTATATAT
Found at i:22267241 original size:86 final size:86
Alignment explanation
Indices: 22267132--22267293 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 86
22267122 CCTCTTTTTT
** ** * *
22267132 TTTTTGCACTCAATTGATCACTTAAACTTTCAAAATGTATCAAAAAGGCCCT-CAAACTTCTTCA
1 TTTTTGCACTCAATTGATCACTTAAACTTTCAAAATCCATCAAAAAAACCCTAAAAAATT-TTC-
22267196 AAAAAAGCAATTAGGCCCCTATA
64 AAAAAAGCAATTAGGCCCCTATA
22267219 TTTTT-CACTCAATTAGAT-ACTTAAACTTTCAAAATCCATCAAAAAAACCCTAAAAAATTTTCA
1 TTTTTGCACTCAATT-GATCACTTAAACTTTCAAAATCCATCAAAAAAACCCTAAAAAATTTTCA
22267282 AAAAAGCAATTA
65 AAAAAGCAATTA
22267294 AATTCCTGCT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
85 13 0.19
86 41 0.61
87 13 0.19
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (86 bp):
TTTTTGCACTCAATTGATCACTTAAACTTTCAAAATCCATCAAAAAAACCCTAAAAAATTTTCAA
AAAAGCAATTAGGCCCCTATA
Found at i:22267333 original size:10 final size:10
Alignment explanation
Indices: 22267305--22267435 Score: 67
Period size: 10 Copynumber: 13.3 Consensus size: 10
22267295 ATTCCTGCTC
*
22267305 TTATTAAAAA
1 TTATAAAAAA
*
22267315 TTAGAAAAAAA
1 TTA-TAAAAAA
22267326 TTATAAAAAA
1 TTATAAAAAA
22267336 -TA-AAAAAA
1 TTATAAAAAA
*
22267344 -T-T-AAAAT
1 TTATAAAAAA
22267351 TTATTAAAAAA
1 TTA-TAAAAAA
*
22267362 TTATTTAAAAA
1 TTA-TAAAAAA
* ***
22267373 TTAGAAATTTT
1 TTATAAA-AAA
*
22267384 TTATAAAAAT
1 TTATAAAAAA
*
22267394 TTAAAAAAAA
1 TTATAAAAAA
**
22267404 TTATAAAATT
1 TTATAAAAAA
22267414 TTAT-AAAAA
1 TTATAAAAAA
*
22267423 TCATAAAAAA
1 TTATAAAAAA
22267433 TTA
1 TTA
22267436 ATGACCCCTA
Statistics
Matches: 90, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
7 4 0.04
8 8 0.09
9 8 0.09
10 39 0.43
11 31 0.34
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:22267402 original size:30 final size:29
Alignment explanation
Indices: 22267326--22267436 Score: 104
Period size: 30 Copynumber: 3.8 Consensus size: 29
22267316 TAGAAAAAAA
*
22267326 TTATAAAAA-ATAAAAAAATTAAAATTTA
1 TTATAAAAATATAAAAAAATTAAAATTTT
**
22267354 TTA-AAAAATTATTTAAAAATTAGAAATTTT
1 TTATAAAAA-TATAAAAAAATTA-AAATTTT
* *
22267384 TTATAAAAATTTAAAAAAAATTATAAA-ATT
1 TTATAAAAATAT-AAAAAAATTA-AAATTTT
22267414 TTATAAAAATCAT-AAAAAATTAA
1 TTATAAAAAT-ATAAAAAAATTAA
22267437 TGACCCCTAG
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
27 5 0.07
28 4 0.06
29 19 0.28
30 23 0.34
31 17 0.25
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
TTATAAAAATATAAAAAAATTAAAATTTT
Found at i:22267416 original size:20 final size:21
Alignment explanation
Indices: 22267309--22267422 Score: 75
Period size: 20 Copynumber: 5.8 Consensus size: 21
22267299 CTGCTCTTAT
*
22267309 TAAAAA-TTAGAAAAAAATTA
1 TAAAAATTTATAAAAAAATTA
22267329 TAAAAA---ATAAAAAAA-T-
1 TAAAAATTTATAAAAAAATTA
*
22267345 T-AAAATTTATTAAAAAATTA
1 TAAAAATTTATAAAAAAATTA
* ****
22267365 TTTAAAAA-TTAGAAATTTTTTA
1 --TAAAAATTTATAAAAAAATTA
22267387 TAAAAATTTA-AAAAAAATTA
1 TAAAAATTTATAAAAAAATTA
*
22267407 TAAAATTTTATAAAAA
1 TAAAAATTTATAAAAA
22267423 TCATAAAAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
15 4 0.06
16 1 0.01
17 1 0.01
18 16 0.23
19 1 0.01
20 27 0.38
21 8 0.11
22 9 0.13
23 4 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAATTTATAAAAAAATTA
Found at i:22276251 original size:23 final size:25
Alignment explanation
Indices: 22276202--22276252 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
22276192 AATTAATAGA
*
22276202 TAAATTAATATAATAAAGTCTTAAT
1 TAAACTAATATAATAAAGTCTTAAT
*
22276227 TAAACTAAT-TAATTAAG-CTTAAT
1 TAAACTAATATAATAAAGTCTTAAT
22276250 TAA
1 TAA
22276253 GGTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 7 0.29
25 8 0.33
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (25 bp):
TAAACTAATATAATAAAGTCTTAAT
Found at i:22277867 original size:28 final size:28
Alignment explanation
Indices: 22277835--22277903 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
22277825 GCGTAGATCA
22277835 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
22277863 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
22277891 CGATA-TACCCCTA
1 CGAAATTACCCCTA
22277904 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:22286721 original size:13 final size:13
Alignment explanation
Indices: 22286705--22286768 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
22286695 TAAACCAAAT
22286705 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
22286718 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
22286731 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
22286744 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
22286757 TTTTCAAAAGCA
1 TTTTCAAAAGCA
22286769 TTGCCAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:22286721 original size:26 final size:26
Alignment explanation
Indices: 22286692--22286768 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
22286682 AACACTTAAA
*
22286692 TTTTAAACCA-AATTTTTCAAAAGCAC
1 TTTTAAA-CAGAACTTTTCAAAAGCAC
** *
22286718 TTTTCCACAGCACTTTTCAAAAGCAC
1 TTTTAAACAGAACTTTTCAAAAGCAC
*
22286744 TTTTCAAA-AGCACTTTTCAAAAGCA
1 TTTT-AAACAGAACTTTTCAAAAGCA
22286769 TTGCCAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.05
26 40 0.93
27 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (26 bp):
TTTTAAACAGAACTTTTCAAAAGCAC
Found at i:22289955 original size:26 final size:26
Alignment explanation
Indices: 22289883--22289941 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
22289873 TATTTTCTCG
* * * *
22289883 AAATCTTACTAAAGGCAAAATTGTTA
1 AAATTTTACTAAGGGTAAAATTGTCA
22289909 AAATTTTACTAAGGGTAAAATTGTCA
1 AAATTTTACTAAGGGTAAAATTGTCA
22289935 AAATTTT
1 AAATTTT
22289942 GTCAGGGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (26 bp):
AAATTTTACTAAGGGTAAAATTGTCA
Found at i:22290456 original size:39 final size:39
Alignment explanation
Indices: 22290413--22290490 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
22290403 CCAAAAGGAA
*
22290413 AGAAAACTTTTTCTAGTTCTGTGTTTCAATTCAATTGGT
1 AGAAAACTTTTTCTAGTTCAGTGTTTCAATTCAATTGGT
22290452 AGAAAACTTTTTCTAGTTCAGTGTTTCAATTCAATTGGT
1 AGAAAACTTTTTCTAGTTCAGTGTTTCAATTCAATTGGT
22290491 TCGAGCCCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (39 bp):
AGAAAACTTTTTCTAGTTCAGTGTTTCAATTCAATTGGT
Found at i:22297594 original size:23 final size:23
Alignment explanation
Indices: 22297551--22297594 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22297541 AATATATTAC
*
22297551 AATTATTTTATAATTTTATATAA
1 AATTATTTTATAATTTAATATAA
22297574 AATTAATTTTATAA-TTAATAT
1 AATT-ATTTTATAATTTAATAT
22297595 TATAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTATTTTATAATTTAATATAA
Found at i:22301306 original size:46 final size:46
Alignment explanation
Indices: 22301254--22301345 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
22301244 CCTATTCAAA
22301254 CAGTTTAAGGCCAAATTTTTAATTTTTTTTCCCTTTCACGTCAGAT
1 CAGTTTAAGGCCAAATTTTTAATTTTTTTTCCCTTTCACGTCAGAT
* * *
22301300 CAGTTTAAGGCCAATTTTTTTATTTTTTTTCTCTTTCACGTCAGAT
1 CAGTTTAAGGCCAAATTTTTAATTTTTTTTCCCTTTCACGTCAGAT
22301346 TCTTTGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (46 bp):
CAGTTTAAGGCCAAATTTTTAATTTTTTTTCCCTTTCACGTCAGAT
Found at i:22301540 original size:19 final size:20
Alignment explanation
Indices: 22301513--22301551 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22301503 AAATATATAT
22301513 ATTTGAAAT-TATTTTTTAA
1 ATTTGAAATATATTTTTTAA
*
22301532 ATTTTAAATATATTTTTTAA
1 ATTTGAAATATATTTTTTAA
22301552 TAATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTGAAATATATTTTTTAA
Found at i:22301564 original size:20 final size:20
Alignment explanation
Indices: 22301518--22301566 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22301508 TATATATTTG
* *
22301518 AAAT-TATTTTTTAAATTTT
1 AAATATATTTTTTAAAATAT
22301537 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAA-AATAT
22301558 AAA-ATATTT
1 AAATATATTT
22301567 AAATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATATTTTTTAAAATAT
Found at i:22301797 original size:20 final size:20
Alignment explanation
Indices: 22301772--22301817 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
22301762 AATTAATTAG
22301772 AAAAATAAAAAAATTTGTTA
1 AAAAATAAAAAAATTTGTTA
***
22301792 AAAAAT-AATTTATTTGTTA
1 AAAAATAAAAAAATTTGTTA
22301811 AAAAATA
1 AAAAATA
22301818 TGACTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAATAAAAAAATTTGTTA
Found at i:22301854 original size:21 final size:21
Alignment explanation
Indices: 22301828--22301868 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22301818 TGACTTTATT
*
22301828 TAAAAATATATATTAAAAAAG
1 TAAAAATATAAATTAAAAAAG
*
22301849 TAAAAATTTAAATTAAAAAA
1 TAAAAATATAAATTAAAAAA
22301869 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAATATAAATTAAAAAAG
Found at i:22304265 original size:34 final size:34
Alignment explanation
Indices: 22304209--22304294 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
22304199 CTATCTCAAT
*
22304209 ACAGTATCAAATATGCAGTAGGGACTTAGCCCATC
1 ACAGTATC-AGTATGCAGTAGGGACTTAGCCCATC
* * *
22304244 ACAGTATCAGTATGCATTAGGGCCTTAGCCTATC
1 ACAGTATCAGTATGCAGTAGGGACTTAGCCCATC
*
22304278 ACAGTATTAGTA-GCAGT
1 ACAGTATCAGTATGCAGT
22304295 CATGCAGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 4 0.09
34 33 0.73
35 8 0.18
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (34 bp):
ACAGTATCAGTATGCAGTAGGGACTTAGCCCATC
Found at i:22307278 original size:20 final size:20
Alignment explanation
Indices: 22307253--22307290 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22307243 CTTGCATCTC
22307253 ACCATAATCTTTCACAACAT
1 ACCATAATCTTTCACAACAT
* *
22307273 ACCATAGTCTTTCCCAAC
1 ACCATAATCTTTCACAAC
22307291 TTTAACATTG
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:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (20 bp):
ACCATAATCTTTCACAACAT
Found at i:22307483 original size:42 final size:42
Alignment explanation
Indices: 22307376--22307487 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 42
22307366 TACCATACCA
**
22307376 ATGTCATATCCCAGATATGGTCTTACATGGGATATCATATCG
1 ATGTCATATCCCAGATATGGTCTTACATGAAATATCATATCG
* * *
22307418 ATGCCAATATCCCAGCTATGGTCTTACATGAAATCTCATATCG
1 ATGTC-ATATCCCAGATATGGTCTTACATGAAATATCATATCG
* *
22307461 ATTTCATATCCCAAATATGGTCTTACA
1 ATGTCATATCCCAGATATGGTCTTACA
22307488 CGTAATTTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACATGAAATATCATATCG
Found at i:22309427 original size:30 final size:30
Alignment explanation
Indices: 22309391--22309492 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
22309381 CGTAGAGCAT
* * *
22309391 TTCATATCACCCGGACATTGGCAGTTCAAG
1 TTCATATCACCCGGACATAGGCGGTTCGAG
**
22309421 TTCATATCACTTGGACATAGGCGGTTCGAG
1 TTCATATCACCCGGACATAGGCGGTTCGAG
*
22309451 TTCATATCACCCGAACATAGGCGGTTCGAG
1 TTCATATCACCCGGACATAGGCGGTTCGAG
*
22309481 TTCATTTCACCC
1 TTCATATCACCC
22309493 AGAGCAACCA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (30 bp):
TTCATATCACCCGGACATAGGCGGTTCGAG
Found at i:22320050 original size:15 final size:16
Alignment explanation
Indices: 22320030--22320060 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22320020 TTGAAAGGTC
22320030 ATATA-TTTAAAAATA
1 ATATATTTTAAAAATA
22320045 ATATATTTTAAAAATA
1 ATATATTTTAAAAATA
22320061 TTAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATTTTAAAAATA
Found at i:22320066 original size:9 final size:9
Alignment explanation
Indices: 22320052--22320127 Score: 62
Period size: 9 Copynumber: 7.8 Consensus size: 9
22320042 ATAATATATT
22320052 TTAAAAATA
1 TTAAAAATA
22320061 TTAAAAATA
1 TTAAAAATA
22320070 TTATAAAATAAA
1 TTA-AAAAT--A
22320082 TTAAAAATA
1 TTAAAAATA
* *
22320091 TTTAAAATT
1 TTAAAAATA
*
22320100 TTAAATATACA
1 TTAAA-A-ATA
*
22320111 TTTAAAATA
1 TTAAAAATA
22320120 TTATAAAA
1 TTA-AAAA
22320128 CTAATAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
9 28 0.53
10 11 0.21
11 10 0.19
12 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAAATA
Found at i:22320086 original size:30 final size:29
Alignment explanation
Indices: 22320052--22320127 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
22320042 ATAATATATT
22320052 TTAAAAATATTAAAAATATTATAAA-ATAAA
1 TTAAAAATATTAAAAAT-TT-TAAATATAAA
* *
22320082 TTAAAAATATTTAAAATTTTAAATATACA
1 TTAAAAATATTAAAAATTTTAAATATAAA
*
22320111 TTTAAAATATTATAAAA
1 TTAAAAATATTA-AAAA
22320128 CTAATAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.10
29 16 0.40
30 20 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
TTAAAAATATTAAAAATTTTAAATATAAA
Found at i:22320125 original size:119 final size:123
Alignment explanation
Indices: 22319938--22320161 Score: 334
Period size: 120 Copynumber: 1.9 Consensus size: 123
22319928 TTAATTAATA
* * *
22319938 ATTAATAATTTATAAAAATTATATTTAAAATTTTAAAAATATTTAAAATATACATTTAAAATATT
1 ATTAAAAATTTATAAAAATTAAATTAAAAATTTTAAAAATATTTAAAATATACATTTAAAATATT
*
22320003 AT-AAACAAATAATAAATTTGAAAGGTCATATATTTAAAAATAATATATTTTAAAAAT
66 ATAAAACAAATAATAAATTTGAAAGGTCACATATTTAAAAATAATATATTTTAAAAAT
22320060 ATTAAAAATATTAT-AAAA-TAAATTAAAAATATTT-AAAAT-TTT-AAATATACATTTAAAATA
1 ATTAAAAAT-TTATAAAAATTAAATTAAAAAT-TTTAAAAATATTTAAAATATACATTTAAAATA
* *
22320120 TTATAAAACTAATAATAAATTTGAAAGGTCACATCTTTAAAA
64 TTATAAAACAAATAATAAATTTGAAAGGTCACATATTTAAAA
22320162 TATTTAAATG
Statistics
Matches: 93, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
119 22 0.24
120 37 0.40
121 15 0.16
122 15 0.16
123 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (123 bp):
ATTAAAAATTTATAAAAATTAAATTAAAAATTTTAAAAATATTTAAAATATACATTTAAAATATT
ATAAAACAAATAATAAATTTGAAAGGTCACATATTTAAAAATAATATATTTTAAAAAT
Found at i:22320299 original size:12 final size:12
Alignment explanation
Indices: 22320282--22320357 Score: 59
Period size: 12 Copynumber: 6.0 Consensus size: 12
22320272 TCAAGTTTTT
*
22320282 TAAAATTAATAA
1 TAAAATAAATAA
22320294 TAAAATAAATAA
1 TAAAATAAATAA
22320306 TTAAAATAAATAA
1 -TAAAATAAATAA
22320319 -ATAAATAAGGATAAA
1 TA-AAATAA--AT-AA
22320334 TAAAA-AAATTAA
1 TAAAATAAA-TAA
22320346 -AAAAGTAAATAA
1 TAAAA-TAAATAA
22320358 ATATAAACTT
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
11 5 0.09
12 23 0.43
13 16 0.30
14 4 0.07
15 5 0.09
16 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:22320305 original size:4 final size:4
Alignment explanation
Indices: 22320296--22320360 Score: 60
Period size: 4 Copynumber: 15.2 Consensus size: 4
22320286 ATTAATAATA
* *
22320296 AAAT AAAT AATT AAAAT AAAT AAAT AAAT AAGGAT AAAT AAAA AAATT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AA--AT AAAT AAAT AAA-T
22320344 AAA- AAAGT AAAT AAAT A
1 AAAT AAA-T AAAT AAAT A
22320361 TAAACTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 35 0.69
5 9 0.18
6 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22320312 original size:13 final size:13
Alignment explanation
Indices: 22320281--22320323 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
22320271 TTCAAGTTTT
*
22320281 TTAAAATTAATAA
1 TTAAAATAAATAA
22320294 -TAAAATAAATAA
1 TTAAAATAAATAA
22320306 TTAAAATAAATAA
1 TTAAAATAAATAA
*
22320319 ATAAA
1 TTAAA
22320324 TAAGGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TTAAAATAAATAA
Found at i:22320332 original size:18 final size:17
Alignment explanation
Indices: 22320296--22320360 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
22320286 ATTAATAATA
*
22320296 AAATAAATAATTAAAAT
1 AAATAAATAAATAAAAT
*
22320313 AAATAAATAAATAAGGAT
1 AAATAAATAAATAA-AAT
*
22320331 AAATAAAAAAATTAAAA-
1 AAATAAATAAA-TAAAAT
*
22320348 AAGTAAATAAATA
1 AAATAAATAAATA
22320361 TAAACTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 2 0.05
17 22 0.55
18 13 0.32
19 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAATAAATAAATAAAAT
Found at i:22320336 original size:31 final size:31
Alignment explanation
Indices: 22320298--22320357 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
22320288 TAATAATAAA
*
22320298 ATAAATAATTAAAA-TAAATAAA-TAAATAAGG
1 ATAAATAA-AAAAATTAAA-AAAGTAAATAAGG
22320329 ATAAATAAAAAAATTAAAAAAGTAAATAA
1 ATAAATAAAAAAATTAAAAAAGTAAATAA
22320358 ATATAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (31 bp):
ATAAATAAAAAAATTAAAAAAGTAAATAAGG
Found at i:22320364 original size:31 final size:29
Alignment explanation
Indices: 22320292--22320387 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 29
22320282 TAAAATTAAT
*
22320292 AATAAAATAAATAATTAAAATAAATAAA-TA
1 AATAAAATAAATAA-AAAAATAAA-AAAGTA
*
22320322 AATAAGGATAAATAAAAAAATTAAAAAAGTA
1 AATAA-AATAAATAAAAAAA-TAAAAAAGTA
*
22320353 AATAAATATAAACTTAAAAAGAAAGAAAAAAGTA
1 AATAAA-ATAAA--T-AAAA-AAATAAAAAAGTA
22320387 A
1 A
22320388 TAAGACAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
30 12 0.22
31 24 0.44
33 1 0.02
34 14 0.26
35 3 0.06
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (29 bp):
AATAAAATAAATAAAAAAATAAAAAAGTA
Found at i:22322432 original size:13 final size:13
Alignment explanation
Indices: 22322414--22322456 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
22322404 TAGATTTTTC
22322414 CTAAATATTATCA
1 CTAAATATTATCA
22322427 CTAAATA--ATC-
1 CTAAATATTATCA
22322437 CTAAATATTATCA
1 CTAAATATTATCA
22322450 CTAAATA
1 CTAAATA
22322457 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:22322439 original size:23 final size:23
Alignment explanation
Indices: 22322412--22322458 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22322402 GCTAGATTTT
22322412 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
22322435 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
22322458 T
1 T
22322459 TCAAAATTTA
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:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:22322465 original size:23 final size:23
Alignment explanation
Indices: 22322416--22322465 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
22322406 GATTTTTCCT
*
22322416 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
22322439 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
22322462 AAAT
1 AAAT
22322466 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:22329169 original size:20 final size:18
Alignment explanation
Indices: 22329121--22329169 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 18
22329111 AATAAAAAAT
22329121 AAAATAAAAAAAGATTTG
1 AAAATAAAAAAAGATTTG
*
22329139 AAAATACAAAAATAAATTTAAG
1 AAAATA-AAAAA-AGATTT--G
22329161 AAAATAAAA
1 AAAATAAAA
22329170 TATTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 5 0.19
20 5 0.19
21 3 0.12
22 7 0.27
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (18 bp):
AAAATAAAAAAAGATTTG
Found at i:22329976 original size:23 final size:23
Alignment explanation
Indices: 22329943--22329989 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
22329933 GCTAGATTTT
*
22329943 TCCTAAGTATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
22329966 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
22329989 T
1 T
22329990 TCAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:22329986 original size:13 final size:13
Alignment explanation
Indices: 22329945--22329987 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
22329935 TAGATTTTTC
*
22329945 CTAAGTATTATCA
1 CTAAATATTATCA
22329958 CTAAATA--ATC-
1 CTAAATATTATCA
22329968 CTAAATATTATCA
1 CTAAATATTATCA
22329981 CTAAATA
1 CTAAATA
22329988 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:22329996 original size:23 final size:23
Alignment explanation
Indices: 22329950--22329996 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
22329940 TTTTCCTAAG
*
22329950 TATTATCACTAAATAATCCTAAA
1 TATTATCACTAAATAATCCAAAA
*
22329973 TATTATCACTAAATAATTCAAAA
1 TATTATCACTAAATAATCCAAAA
22329996 T
1 T
22329997 TTAAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (23 bp):
TATTATCACTAAATAATCCAAAA
Found at i:22330577 original size:11 final size:11
Alignment explanation
Indices: 22330557--22330640 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
22330547 GAATTTAGTG
*
22330557 TATTAAAATTT
1 TATTAGAATTT
*
22330568 TATTAGAATTA
1 TATTAGAATTT
22330579 TATTAAGATAATTAT
1 TATT-AG--AATT-T
*
22330594 AATT-G-ATTT
1 TATTAGAATTT
*
22330603 TATTAGGATTT
1 TATTAGAATTT
22330614 TATTAAGAA-TT
1 TATT-AGAATTT
22330625 T-TTAGAATTTT
1 TATTAGAA-TTT
22330636 TATTA
1 TATTA
22330641 TGATAATTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
9 8 0.14
10 6 0.11
11 27 0.47
12 8 0.14
13 1 0.02
14 4 0.07
15 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
TATTAGAATTT
Found at i:22335363 original size:39 final size:40
Alignment explanation
Indices: 22335309--22335446 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
22335299 CAACCAAGTA
* *
22335309 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGACATAG-TAACTCGCACAAATG
22335348 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
* *
22335388 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACA-TAGTAACTCGCACAAATG
22335428 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22335447 TTATCATCTG
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 15 0.16
40 77 0.84
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
Found at i:22340959 original size:20 final size:18
Alignment explanation
Indices: 22340925--22340961 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
22340915 GCAACTCATA
22340925 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
22340943 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
22340962 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:22346417 original size:40 final size:40
Alignment explanation
Indices: 22346373--22346677 Score: 454
Period size: 40 Copynumber: 7.6 Consensus size: 40
22346363 GCTAATCGCT
*
22346373 CAAATGCCTTCGGGACTTAGCCCGGACA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTAGCA
* *
22346413 CAAATGCCTTCGAGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCA
*
22346453 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
* *
22346493 CAAATGCCTTCGGGACTTAGCCCAG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCA
*
22346533 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
* *
22346573 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
* * *
22346613 CAAATGCCTTCGGGATTTAGCCCGAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
22346653 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
22346678 TTATCATCCG
Statistics
Matches: 246, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 239 0.97
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
Found at i:22346472 original size:80 final size:80
Alignment explanation
Indices: 22346340--22346677 Score: 504
Period size: 80 Copynumber: 4.2 Consensus size: 80
22346330 CAACCAAGTA
* * * *
22346340 CCTTCGGGATTTAG-CTGGACATAGCTAA-TCGCTCAAATGCCTTCGGGACTTAGCCCGGACA-T
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATT
* *
22346402 AGTAACTCGCACAAATG
64 AGTCACTAGCACAAATG
*
22346419 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
22346484 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
22346499 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
22346564 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* * * * *
22346579 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGATTTAGCCCGAAATTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
22346643 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
22346659 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22346678 TTATCATCCG
Statistics
Matches: 240, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
79 19 0.08
80 220 0.92
81 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TCACTAGCACAAATG
Found at i:22351972 original size:3 final size:3
Alignment explanation
Indices: 22351901--22351958 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
22351891 ATATATTCAT
22351901 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22351949 TTA TTA TTA T
1 TTA TTA TTA T
22351959 ATGTAGATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22352041 original size:20 final size:19
Alignment explanation
Indices: 22352010--22352051 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
22352000 ATACTATAAG
22352010 ATTATTTTTATCATACATT
1 ATTATTTTTATCATACATT
* *
22352029 ATTATTATTTATCGTATATT
1 ATTATT-TTTATCATACATT
22352049 ATT
1 ATT
22352052 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTATTTTTATCATACATT
Found at i:22352091 original size:22 final size:20
Alignment explanation
Indices: 22352061--22352103 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
22352051 TTTTCACAAA
22352061 TTATTATTATTAACATTATTT
1 TTATTATTATTAACA-TATTT
*
22352082 TTATATATTATTAATATATTT
1 TTAT-TATTATTAACATATTT
22352103 T
1 T
22352104 ACTTGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTAACATATTT
Found at i:22352226 original size:23 final size:22
Alignment explanation
Indices: 22352200--22352264 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 22
22352190 TTATTTCCTA
22352200 TATAA-TTAAATTATGTTTTATTC
1 TATAACTT-AATTAT-TTTTATTC
*
22352223 TATAACGTTTATTATTTTTATTC
1 TATAAC-TTAATTATTTTTATTC
22352246 TATATTACTT-ATTATTTTT
1 TATA--ACTTAATTATTTTT
22352265 TTATATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 26 0.70
24 7 0.19
25 4 0.11
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (22 bp):
TATAACTTAATTATTTTTATTC
Found at i:22352277 original size:20 final size:23
Alignment explanation
Indices: 22352209--22352306 Score: 76
Period size: 23 Copynumber: 4.2 Consensus size: 23
22352199 ATATAATTAA
***
22352209 ATTATGTTTTATTCTATAACGTTT
1 ATTAT-TTTTATTCTATATTATTT
*
22352233 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTCTATATTATTT
*
22352256 ATTA-TTTT-TT-TATATTTTTT
1 ATTATTTTTATTCTATATTATTT
* *
22352276 ATATATATGTTATGTATATATTATTT
1 AT-TAT-TTTTAT-TCTATATTATTT
22352302 ATTAT
1 ATTAT
22352307 ATTATTTGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
20 10 0.17
21 4 0.07
22 4 0.07
23 21 0.35
24 6 0.10
25 4 0.07
26 11 0.18
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (23 bp):
ATTATTTTTATTCTATATTATTT
Found at i:22356215 original size:14 final size:14
Alignment explanation
Indices: 22356196--22356225 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22356186 AAGATATTCT
22356196 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
*
22356210 TTTTCTAAATGAAA
1 TTTTCTAAATAAAA
22356224 TT
1 TT
22356226 AAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:22364699 original size:210 final size:210
Alignment explanation
Indices: 22364337--22365332 Score: 1643
Period size: 210 Copynumber: 4.7 Consensus size: 210
22364327 CATTATCAGG
* * * *
22364337 GCAGATCCAAGGTGACAGATCTTATCTTTCTGTATTCGGTGGGGAGCAGATCGAATATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
22364402 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* *
22364467 GAACATATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGAAAATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAAATCTCACCTTCA
*
22364532 GATGTTTATGCTGAA
196 GATGTTTACGCTGAA
*
22364547 GCAGATCCATGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * * *
22364612 ATTTGGATTTCACGTGTTTACGATGAAGCAAATCTAATATGATTTGTCATCTCTTTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
*
22364677 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAAATCTCACCTTCA
22364742 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
22364757 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCAAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
22364822 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* * *
22364887 AAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACCCATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAAATCTCACCTTCA
22364952 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * * *
22364967 GCAGATCCAAGATGACAGATATTATCTCTCTGTATTCGGCGGGAAGCAGATCGAAGATATGGCTA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* *
22365032 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTTTGTAT-GTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* * *
22365096 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACCCATAGCAAATCTCACCATCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAAATCTCACCTTCA
*
22365161 GATGTTTACACTGAA
196 GATGTTTACGCTGAA
* * *
22365176 GCAGATCCAATATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * * * *
22365241 ATTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAAATGATTTGTCATTTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* * *
22365306 GAACAAATTGAAGTCTAGCATCTCCAC
131 GAACAAATCGAAGTCTGGCATTTCCAC
22365333 ATTCAATGGG
Statistics
Matches: 735, Mismatches: 50, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
209 191 0.26
210 544 0.74
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAAATCTCACCTTCA
GATGTTTACGCTGAA
Found at i:22367044 original size:3 final size:3
Alignment explanation
Indices: 22367036--22367078 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
22367026 ATATATTCAT
22367036 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22367079 ATGTAGATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22369073 original size:20 final size:20
Alignment explanation
Indices: 22369023--22369073 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
22369013 AGAAATAAAA
*
22369023 AAAATAAAAAAAAAGATTCG
1 AAAATAAAAAAAAAGATTAG
22369043 AAAATACAAAAAAAA-ATTTAAG
1 AAAATA-AAAAAAAAGA-TT-AG
22369065 AAAATAAAA
1 AAAATAAAA
22369074 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 13 0.48
22 7 0.26
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.16
Consensus pattern (20 bp):
AAAATAAAAAAAAAGATTAG
Found at i:22369900 original size:23 final size:23
Alignment explanation
Indices: 22369856--22369900 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22369846 TTCCCAAGTA
*
22369856 TTATCACTAAATAATCCTAAATG
1 TTATCACTAAATAATCCAAAATG
*
22369879 TTATCACTAAATAATTCAAAAT
1 TTATCACTAAATAATCCAAAAT
22369901 TTAAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (23 bp):
TTATCACTAAATAATCCAAAATG
Found at i:22370539 original size:10 final size:11
Alignment explanation
Indices: 22370462--22370546 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 11
22370452 GAATTTAGTG
*
22370462 TATTAAAATTT
1 TATTAGAATTT
*
22370473 TATTAGAATTA
1 TATTAGAATTT
22370484 TATTAAGATAATTAT
1 TATT-AG--AATT-T
*
22370499 AATT-G-ATTT
1 TATTAGAATTT
*
22370508 TATTAGGATTT
1 TATTAGAATTT
22370519 TATTAAGAATTT
1 TATT-AGAATTT
22370531 T-TTAGAATTTT
1 TATTAGAA-TTT
22370542 TATTA
1 TATTA
22370547 TGATAATTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
9 4 0.07
10 8 0.14
11 27 0.46
12 12 0.20
13 1 0.02
14 4 0.07
15 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (11 bp):
TATTAGAATTT
Found at i:22373139 original size:5 final size:5
Alignment explanation
Indices: 22373129--22373153 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22373119 TATTGGGGTT
22373129 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
22373154 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:22381627 original size:13 final size:14
Alignment explanation
Indices: 22381585--22381629 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
22381575 TAATAATGAT
22381585 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
22381600 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
22381613 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
22381626 TAAA
1 TAAA
22381630 ACAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:22381715 original size:16 final size:19
Alignment explanation
Indices: 22381674--22381716 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
22381664 AAAACAGAGC
22381674 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
22381693 AATGGAAAG-AA-AAAG-AA
1 AA-GGAAAGAAAGAAAGAAA
22381710 AAGGAAA
1 AAGGAAA
22381717 ATTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 4 0.17
19 4 0.17
20 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:22386899 original size:48 final size:48
Alignment explanation
Indices: 22386824--22386966 Score: 241
Period size: 48 Copynumber: 3.0 Consensus size: 48
22386814 ACTCGGGAGT
* *
22386824 CTCACACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAA
1 CTCACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTAA
* *
22386872 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGTAA
1 CTCACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTAA
*
22386920 CTCACACCCGAAGTGCCAATAACATGGCCCGAAGCCAACTCAATGTA
1 CTCACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTA
22386967 TCCTCTAATG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.17
Consensus pattern (48 bp):
CTCACACCCGAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGTAA
Found at i:22400866 original size:46 final size:46
Alignment explanation
Indices: 22400809--22400984 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
22400799 TATTTGGGCA
22400809 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
22400855 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
22400902 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
22400948 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22400985 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:22400964 original size:93 final size:93
Alignment explanation
Indices: 22400805--22400976 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
22400795 GGGATATTTG
* *
22400805 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
22400870 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
22400898 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
22400963 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
22400977 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:22411905 original size:26 final size:26
Alignment explanation
Indices: 22411874--22411981 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22411864 TGAAATGCCC
*
22411874 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22411900 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22411926 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22411952 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22411978 ATCA
1 ATCA
22411982 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22413484 original size:5 final size:5
Alignment explanation
Indices: 22413476--22413517 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
22413466 ATTTTATTTA
*
22413476 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AATAAT CTAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT A
22413518 ATATATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:22413509 original size:8 final size:8
Alignment explanation
Indices: 22413474--22413522 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
22413464 TTATTTTATT
22413474 TAATAATA
1 TAATAATA
22413482 TAAT-ATA
1 TAATAATA
22413489 -ATATAATA
1 TA-ATAATA
22413497 TAAT-ATAA
1 TAATAAT-A
*
22413505 TAATAATC
1 TAATAATA
22413513 TAATAATA
1 TAATAATA
22413521 TA
1 TA
22413523 TTTTAACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
6 1 0.03
7 7 0.21
8 23 0.68
9 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:22419036 original size:127 final size:127
Alignment explanation
Indices: 22418886--22419141 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 127
22418876 TATCTCTCTA
*
22418886 TATTTGTTTTATGATTCATAAAAAAACTAATCTTTTCAGGGTTTATAGTTATCTCTCTTACCAAT
1 TATTCGTTTTATGATTCATAAAAAAACTAATCTTTTCAGGGTTTATAGTTATCTCTCTTACCAAT
22418951 ATTATTTCCAAGATTTTAACTTTAATTATATTTTAATATTTAAATCAAATAAGTAGAATGAC
66 ATTATTTCCAAGATTTTAACTTTAATTATATTTTAATATTTAAATCAAATAAGTAGAATGAC
22419013 TATTCGTTTTATGATTCATAAAAAAACTAATCTTTTCAGGGTTTATAGTTATCTCTCTTACCAAT
1 TATTCGTTTTATGATTCATAAAAAAACTAATCTTTTCAGGGTTTATAGTTATCTCTCTTACCAAT
22419078 ATTATTTCCAAGATTTTAACTTTAATTATATTTTAATATTTAAATCAAATAAGTAGAATGAC
66 ATTATTTCCAAGATTTTAACTTTAATTATATTTTAATATTTAAATCAAATAAGTAGAATGAC
22419140 TA
1 TA
22419142 AATTACTAAA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (127 bp):
TATTCGTTTTATGATTCATAAAAAAACTAATCTTTTCAGGGTTTATAGTTATCTCTCTTACCAAT
ATTATTTCCAAGATTTTAACTTTAATTATATTTTAATATTTAAATCAAATAAGTAGAATGAC
Found at i:22432630 original size:30 final size:30
Alignment explanation
Indices: 22432596--22432679 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
22432586 TGAACTAAAA
*
22432596 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
22432626 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
*
22432656 TGAG-TAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGATTTAGCTCGTGAGCT
22432680 GAATATGAGC
Statistics
Matches: 41, Mismatches: 13, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
29 14 0.34
30 27 0.66
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:22434852 original size:42 final size:42
Alignment explanation
Indices: 22434806--22434888 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
22434796 TGTTTCAATT
*
22434806 TCTTTTTC-ATCTTCTTTTTCACTCTCAAATTTC-TTTTCTTTC
1 TCTTTTTCAATC-TCTTTTTCAATCTC-AATTTCTTTTTCTTTC
*
22434848 TCTTTTTCAATCTCTTTTTCAATCTCATTTTCTTTTTCTTT
1 TCTTTTTCAATCTCTTTTTCAATCTCAATTTCTTTTTCTTT
22434889 TTCGTTTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 5 0.14
42 29 0.78
43 3 0.08
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (42 bp):
TCTTTTTCAATCTCTTTTTCAATCTCAATTTCTTTTTCTTTC
Found at i:22434861 original size:12 final size:12
Alignment explanation
Indices: 22434846--22434879 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
22434836 TTCTTTTCTT
22434846 TCTCTTTTTCAA
1 TCTCTTTTTCAA
22434858 TCTCTTTTTCAA
1 TCTCTTTTTCAA
*
22434870 TCTCATTTTC
1 TCTCTTTTTC
22434880 TTTTTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTCTTTTTCAA
Found at i:22434890 original size:12 final size:12
Alignment explanation
Indices: 22434839--22434891 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
22434829 CTCAAATTTC
22434839 TTTTCTTTCTCT
1 TTTTCTTTCTCT
**
22434851 TTTTCAATCTCT
1 TTTTCTTTCTCT
** *
22434863 TTTTCAATCTCA
1 TTTTCTTTCTCT
*
22434875 TTTTCTTTTTCT
1 TTTTCTTTCTCT
22434887 TTTTC
1 TTTTC
22434892 GTTTTGCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTTCTCT
Found at i:22434914 original size:12 final size:12
Alignment explanation
Indices: 22434899--22434929 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22434889 TTCGTTTTGC
22434899 TTTTCAAAGGCT
1 TTTTCAAAGGCT
22434911 TTTTCAAAGGCT
1 TTTTCAAAGGCT
22434923 TTTTCAA
1 TTTTCAA
22434930 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:22435000 original size:16 final size:14
Alignment explanation
Indices: 22434977--22435040 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 14
22434967 CTCTTGCCTC
22434977 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
22434992 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
22435007 TCTTTTTCCTTTTCTTT
1 TC-TTTT-CTTTT-TTT
*
22435024 TCTTTTCTTTATTT
1 TCTTTTCTTTTTTT
22435038 TCT
1 TCT
22435041 CTTTACAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.14
15 13 0.31
16 19 0.45
17 4 0.10
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:22435006 original size:6 final size:5
Alignment explanation
Indices: 22434977--22435033 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
22434967 CTCTTGCCTC
*
22434977 TCTTT TCTTT T-TATT TCATTT TCTTTT TCTTCT T-TTT CCTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TC-TTT TCTT-T TCTTT TCTTT TCTTT
22435024 TCTTT TCTTT
1 TCTTT TCTTT
22435034 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 2 0.05
5 30 0.68
6 11 0.25
7 1 0.02
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:22435043 original size:21 final size:20
Alignment explanation
Indices: 22434975--22435044 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
22434965 GCCTCTTGCC
22434975 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
22434998 TCT-TTTTCTTCTTTTTCCTT
1 TCTCTTTTCTT-TTTTTATTT
22435018 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
22435038 TCTCTTT
1 TCTCTTT
22435045 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 16 0.41
21 10 0.26
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:22437650 original size:30 final size:30
Alignment explanation
Indices: 22437565--22437652 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
22437555 TAAACTAAAA
* * * *
22437565 TGAGCTAAGCTTTAGCTCGTGTGCTAAAGT
1 TGAGTTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
22437595 TGAGTTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGTTAAGATTTAGCTCGTGAGCTGAAGT
*
22437625 TGAGTTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGTTAAGATTTAGCTCGTGAGCTGAA
22437653 TATGAGCTAG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (30 bp):
TGAGTTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:22438964 original size:14 final size:14
Alignment explanation
Indices: 22438945--22438977 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
22438935 TAAGTTTTCC
22438945 TAACTCTAATGGAA
1 TAACTCTAATGGAA
22438959 TAACTCTAATGGAA
1 TAACTCTAATGGAA
22438973 TAACT
1 TAACT
22438978 AACATGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (14 bp):
TAACTCTAATGGAA
Done.