Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 351 of 770
Found at i:107707596 original size:56 final size:55
Alignment explanation
Indices: 107707519--107707627 Score: 146
Period size: 56 Copynumber: 2.0 Consensus size: 55
107707509 CTGCCAGAAC
* * *
107707519 AGATATTGTGACAGAGTCACCAGATACAGATAATCGTGGCAGGGCCACCAGAAAT
1 AGATATTGTGACAGAGCCACCAGAAACAGATAATCGTGGCAGAGCCACCAGAAAT
* * * *
107707574 AGATATTTGTGATAGAGCCACCAGAAATAGATATTTGTGGCAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGAAACAGATAATCGTGGCAGAGCCACCAGAA
107707628 CACTTCCTCC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 5 0.11
56 41 0.89
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (55 bp):
AGATATTGTGACAGAGCCACCAGAAACAGATAATCGTGGCAGAGCCACCAGAAAT
Found at i:107708905 original size:18 final size:18
Alignment explanation
Indices: 107708858--107708914 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
107708848 TGCTATAGAG
107708858 GAAAAGAAGAAGA-AGAA
1 GAAAAGAAGAAGAGAGAA
* *
107708875 GAAATAGATGAAGAGAGGA
1 GAAA-AGAAGAAGAGAGAA
*
107708894 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
107708912 GAA
1 GAA
107708915 TTGTCAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 4 0.12
18 22 0.67
19 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:107713606 original size:49 final size:49
Alignment explanation
Indices: 107713488--107713768 Score: 208
Period size: 49 Copynumber: 5.6 Consensus size: 49
107713478 ATTGTGAGAA
* * * * *
107713488 CACATGTGTAGTACTATGTGCAGGCTACTATGGGTTTA-AGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA--CGTGTACCGATAG--TTAGGT
* * *
107713540 CACGTGGGTAGTACTAAGTGCAGACTACTACGTGTACCGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAGTTAGGT
* * * * * *
107713589 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGAAAACTTCA-GT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-G-ATAGTT-AGGT
* * * ** *
107713640 CATATGTGTAGTACTAAGTGTAGGCTACTACATGTATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAGTTAGGT
** * * * *
107713690 CATGTGTGTAGTACTAAGTGGAGGCTACTACGTGTACTGA-ATTGTCGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAGT-TAGGT
* *
107713739 CGCATGTGTAGTATTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
107713769 TGCGTACTAG
Statistics
Matches: 180, Mismatches: 42, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
48 1 0.01
49 69 0.38
50 43 0.24
51 40 0.22
52 27 0.15
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (49 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAGTTAGGT
Found at i:107713789 original size:150 final size:151
Alignment explanation
Indices: 107713491--107713775 Score: 396
Period size: 150 Copynumber: 1.9 Consensus size: 151
107713481 GTGAGAACAC
* **
107713491 ATGTGTAGTACTATGTGCAGGCTACTATGGGTTTAAGATGGTTTTAGGTCACGTGGGTAGTACTA
1 ATGTGTAGTACTAAGTGCAGGCTACTACAGGTTTAAGATGG-TTTAGGTCACGTGGGTAGTACTA
107713556 AGTGCAGACTACTACGTGTACCGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
65 AGTGCAGACTACTACGTGTACCGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
107713621 CGTACCTGAAAACTTCAGTCAT
130 CGTACCTGAAAACTTCAGTCAT
* * * *
107713643 ATGTGTAGTACTAAGTGTAGGCTACTACATGTATT-AGATGG-TTAGGTCATGTGTGTAGTACTA
1 ATGTGTAGTACTAAGTGCAGGCTACTACAGGT-TTAAGATGGTTTAGGTCACGTGGGTAGTACTA
* * * * * * *
107713706 AGTGGAGGCTACTACGTGTACTGA-ATTGTCGGTCGCATGTGTAGTATTAAGTGCAGGCTACTAT
65 AGTGCAGACTACTACGTGTACCGATAGT-TAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTAT
107713770 GCGTAC
129 GCGTAC
107713776 TAGATAGCTT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
149 2 0.02
150 80 0.68
152 33 0.28
153 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (151 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACAGGTTTAAGATGGTTTAGGTCACGTGGGTAGTACTAA
GTGCAGACTACTACGTGTACCGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGC
GTACCTGAAAACTTCAGTCAT
Found at i:107720111 original size:17 final size:17
Alignment explanation
Indices: 107720086--107720119 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
107720076 GATAAGTAAA
*
107720086 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
*
107720103 TATTTTCATTACATTTT
1 TATTGTCATTACATTTT
107720120 CATGTTGGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:107724400 original size:40 final size:40
Alignment explanation
Indices: 107724317--107724524 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
107724307 CGGGATTTAA
* * * * * *
107724317 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
107724357 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
107724397 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
107724437 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
107724477 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
107724517 CCGGATAT
1 CCGGATAT
107724525 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:107724437 original size:80 final size:80
Alignment explanation
Indices: 107724343--107724524 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
107724333 GCTCGATTGT
* * *** * * * **
107724343 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
107724408 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
107724423 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
107724488 TACTAGCATAATTGC
66 AACTAGCACAAATGC
107724503 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
107724525 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:107732218 original size:40 final size:40
Alignment explanation
Indices: 107732135--107732342 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
107732125 CGGGATTTAA
* * * * * *
107732135 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
107732175 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
107732215 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
107732255 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
107732295 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
107732335 CCGGATAT
1 CCGGATAT
107732343 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:107732255 original size:80 final size:80
Alignment explanation
Indices: 107732161--107732342 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
107732151 GCTCGATTGT
* * *** * * * **
107732161 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
107732226 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
107732241 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
107732306 TACTAGCATAATTGC
66 AACTAGCACAAATGC
107732321 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
107732343 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:107742164 original size:40 final size:40
Alignment explanation
Indices: 107742094--107742271 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
107742084 CAACCAAGTA
* * *
107742094 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
107742133 CCTTTGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
107742173 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
107742213 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
107742253 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
107742272 TTATCATCCG
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.10
40 113 0.90
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:107744874 original size:40 final size:40
Alignment explanation
Indices: 107744829--107744967 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
107744819 GGATATAACG
*
107744829 ACTCGCTCAAATGCCTTCGGGAC-AAAGCCC-GGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAA-CCCGGGTT-TAGTA
* *
107744869 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
* * * *
107744909 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
* * *
107744948 ACTCACACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
107744968 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.37
40 49 0.56
41 6 0.07
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTAAACCCGGGTTTAGTA
Found at i:107744950 original size:79 final size:81
Alignment explanation
Indices: 107744803--107745020 Score: 225
Period size: 79 Copynumber: 2.7 Consensus size: 81
107744793 GAATCACGTA
*** * **
107744803 CCTTCGAGAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTAT
1 CCTTCG-GATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAT
* *
107744865 AGTAACTCGCACGAATG
65 AGTAACTCACACGAACG
* *
107744882 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-T
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAT
*
107744944 ATTAACTCACACGAACG
65 AGTAACTCACACGAACG
** * *
107744961 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
107745021 CATCATTCAA
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 63 0.55
80 49 0.43
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATA
GTAACTCACACGAACG
Found at i:107751838 original size:26 final size:26
Alignment explanation
Indices: 107751800--107751935 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
107751790 TGATACAAAT
** *
107751800 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107751826 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
107751852 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107751878 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107751904 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107751930 TGATAA
1 TGATAA
107751936 GAATTCATGT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:107753961 original size:136 final size:137
Alignment explanation
Indices: 107753717--107754002 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
107753707 GAGTAGTCTC
107753717 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
107753782 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCT-GCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
107753846 ACTGTTA
131 ACTATTA
107753853 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
107753918 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
107753983 ACTATTA
131 ACTATTA
**
107753990 CCTGAATGGGCTT
1 CCCAAATGGGCTT
107754003 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 119 0.82
137 27 0.18
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:107755753 original size:15 final size:16
Alignment explanation
Indices: 107755733--107755764 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
107755723 TTAAAATATA
107755733 TAATAAAA-ATAAAAT
1 TAATAAAACATAAAAT
107755748 TAATAAAACATAAAAT
1 TAATAAAACATAAAAT
107755764 T
1 T
107755765 TTATCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
TAATAAAACATAAAAT
Found at i:107758431 original size:18 final size:18
Alignment explanation
Indices: 107758408--107758493 Score: 88
Period size: 18 Copynumber: 4.9 Consensus size: 18
107758398 CGTTTACGGT
*
107758408 ACTATTCACGTATATAGC
1 ACTATTCACGTATACAGC
*
107758426 ACTATTCA-GTATACAGT
1 ACTATTCACGTATACAGC
*
107758443 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGC
* * *
107758461 ACTATT--CGAATACGGT
1 ACTATTCACGTATACAGC
*
107758477 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
107758494 TAGTTGGGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
16 13 0.23
17 15 0.27
18 28 0.50
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:107758452 original size:35 final size:34
Alignment explanation
Indices: 107758406--107758493 Score: 122
Period size: 35 Copynumber: 2.6 Consensus size: 34
107758396 ACCGTTTACG
* *
107758406 GTACTATTCACGTATATAGCACTATTCAGTATACA
1 GTACTATTCACGTATACAGCACTATTC-GAATACA
* *
107758441 GTACTATTCACGTATACGGCACTATTCGAATACG
1 GTACTATTCACGTATACAGCACTATTCGAATACA
*
107758475 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
107758494 TAGTTGGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 22 0.47
35 25 0.53
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (34 bp):
GTACTATTCACGTATACAGCACTATTCGAATACA
Found at i:107775107 original size:40 final size:40
Alignment explanation
Indices: 107775052--107775323 Score: 440
Period size: 40 Copynumber: 6.8 Consensus size: 40
107775042 CGGATGATAA
* * *
107775052 CCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
107775092 CCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
107775132 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
107775172 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
107775212 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
**
107775252 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
107775292 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
107775324 AGCTATATCC
Statistics
Matches: 219, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 218 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:107788743 original size:20 final size:20
Alignment explanation
Indices: 107788706--107788744 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
107788696 TCAATCATAT
* *
107788706 AAAAATTTGAATTATATGAA
1 AAAAATTTAAATGATATGAA
*
107788726 AAAAATTTAAATGGTATGA
1 AAAAATTTAAATGATATGA
107788745 GAAACTGTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (20 bp):
AAAAATTTAAATGATATGAA
Found at i:107789872 original size:17 final size:17
Alignment explanation
Indices: 107789850--107789886 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
107789840 AGAGAAAAAT
107789850 TATCAAGTATGAGATTC
1 TATCAAGTATGAGATTC
107789867 TATCAAGTATGAGATTC
1 TATCAAGTATGAGATTC
107789884 TAT
1 TAT
107789887 GACCGATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (17 bp):
TATCAAGTATGAGATTC
Found at i:107793792 original size:7 final size:7
Alignment explanation
Indices: 107793784--107793818 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
107793774 AATTAGAGAG
107793784 AAAAGAGA
1 AAAAGA-A
107793792 AAAAGAA
1 AAAAGAA
107793799 AAAAGAA
1 AAAAGAA
107793806 AAAAGAA
1 AAAAGAA
107793813 AGAAAG
1 A-AAAG
107793819 GTTATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 16 0.62
8 10 0.38
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:107793804 original size:15 final size:14
Alignment explanation
Indices: 107793784--107793818 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
107793774 AATTAGAGAG
107793784 AAAAGAGAAAAAGAA
1 AAAAGA-AAAAAGAA
107793799 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
107793813 AGAAAG
1 A-AAAG
107793819 GTTATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:107796097 original size:2 final size:2
Alignment explanation
Indices: 107796090--107796133 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
107796080 TAAAAGAAAG
107796090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
107796132 TA
1 TA
107796134 AAATTAAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107798432 original size:19 final size:19
Alignment explanation
Indices: 107798410--107798450 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
107798400 TTATTAATAA
107798410 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTAAAAATTAT
**
107798429 TTTGAATTTTGGAAATTAT
1 TTTGAATTTTAAAAATTAT
107798448 TTT
1 TTT
107798451 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTGAATTTTAAAAATTAT
Found at i:107798640 original size:14 final size:14
Alignment explanation
Indices: 107798621--107798654 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
107798611 TTAACTCAAA
107798621 TAATTTGAATAACT
1 TAATTTGAATAACT
*
107798635 TAATTTGATTAACT
1 TAATTTGAATAACT
*
107798649 CAATTT
1 TAATTT
107798655 AAAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (14 bp):
TAATTTGAATAACT
Found at i:107817035 original size:40 final size:40
Alignment explanation
Indices: 107816980--107817251 Score: 449
Period size: 40 Copynumber: 6.8 Consensus size: 40
107816970 CGGATGATAA
* * *
107816980 CCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
107817020 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
107817060 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
107817100 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
107817140 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
**
107817180 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
107817220 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
107817252 AGCTATATCC
Statistics
Matches: 221, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 220 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:107827766 original size:20 final size:20
Alignment explanation
Indices: 107827729--107827767 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
107827719 TCAATCATAT
* *
107827729 AAAAATTTGAATTATATGAA
1 AAAAATTTAAATGATATGAA
*
107827749 AAAAATTTAAATGGTATGA
1 AAAAATTTAAATGATATGA
107827768 GAAACTGTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (20 bp):
AAAAATTTAAATGATATGAA
Found at i:107828895 original size:17 final size:17
Alignment explanation
Indices: 107828873--107828909 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
107828863 AGAGAAAAAT
107828873 TATCAAGTATGAGATTC
1 TATCAAGTATGAGATTC
107828890 TATCAAGTATGAGATTC
1 TATCAAGTATGAGATTC
107828907 TAT
1 TAT
107828910 GACCGATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (17 bp):
TATCAAGTATGAGATTC
Found at i:107832814 original size:7 final size:7
Alignment explanation
Indices: 107832806--107832840 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
107832796 AATTAGAGAG
107832806 AAAAGAGA
1 AAAAGA-A
107832814 AAAAGAA
1 AAAAGAA
107832821 AAAAGAA
1 AAAAGAA
107832828 AAAAGAA
1 AAAAGAA
107832835 AGAAAG
1 A-AAAG
107832841 GTTATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 16 0.62
8 10 0.38
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:107832826 original size:15 final size:14
Alignment explanation
Indices: 107832806--107832840 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
107832796 AATTAGAGAG
107832806 AAAAGAGAAAAAGAA
1 AAAAGA-AAAAAGAA
107832821 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
107832835 AGAAAG
1 A-AAAG
107832841 GTTATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:107835119 original size:2 final size:2
Alignment explanation
Indices: 107835112--107835155 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
107835102 TAAAAGAAAG
107835112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
107835154 TA
1 TA
107835156 AAATTAAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107837463 original size:20 final size:19
Alignment explanation
Indices: 107837415--107837455 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
107837405 TTATTAATAA
**
107837415 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTGGAAATTAT
107837434 TTTGAATTTTGGAAATTAT
1 TTTGAATTTTGGAAATTAT
107837453 TTT
1 TTT
107837456 TATATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTGAATTTTGGAAATTAT
Found at i:107837644 original size:14 final size:14
Alignment explanation
Indices: 107837625--107837658 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
107837615 TTAACTCAAA
107837625 TAATTTGAATAACT
1 TAATTTGAATAACT
*
107837639 TAATTTGATTAACT
1 TAATTTGAATAACT
*
107837653 CAATTT
1 TAATTT
107837659 AAAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (14 bp):
TAATTTGAATAACT
Found at i:107840711 original size:28 final size:28
Alignment explanation
Indices: 107840646--107840746 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
107840636 ATAGTGAATC
*
107840646 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
107840675 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
107840703 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
107840733 CGCACACTTAGTGC
1 CGCACACTTAGTGC
107840747 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:107848488 original size:28 final size:28
Alignment explanation
Indices: 107848423--107848523 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
107848413 ATAGTGAATC
*
107848423 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
107848452 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
107848480 CGCACACTTACTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
107848510 CGCACACTTAGTGC
1 CGCACACTTAGTGC
107848524 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.06
28 22 0.35
29 18 0.29
30 18 0.29
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:107852507 original size:39 final size:39
Alignment explanation
Indices: 107852423--107852657 Score: 251
Period size: 39 Copynumber: 6.0 Consensus size: 39
107852413 CAAATCCAAT
* * * *
107852423 CACCACCAC-AAAGCATGCGGGACTTTAAGCTCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* * *
107852463 TACCAGCAC-AAAGCCTGCGGGGCTCTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACT-TAGCCCGGATATAA
* * * *
107852502 CACCAGCACGAATGCCTTCGGGGCTTAACCTGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
** *
107852541 CACCAGCACGACTGCCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
* * *
107852580 CACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATTA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
*
107852619 CACCAGCAC-AAATGCCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAAA-GCCTTCGGGACTTAGCCCGGATATAA
107852658 TTCTCCATTA
Statistics
Matches: 169, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
38 2 0.01
39 134 0.79
40 33 0.20
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:107852584 original size:78 final size:78
Alignment explanation
Indices: 107852456--107852657 Score: 289
Period size: 78 Copynumber: 2.6 Consensus size: 78
107852446 TTTAAGCTCG
* * * *
107852456 GATATAATACCAGCACAAA-GCCTGCGGGGCTCTAGCCCGGATATAACACCAGCACGAATGCCTT
1 GATATAACACCAGCACAAATGCCTTCAGGACT-TAGCCCGGATATAACACCAGCACGAATGCCTT
* **
107852520 CGGGGCTTAACCTG
65 CGGGACTTAACCCA
* *
107852534 GATATAACACCAGCACGACTGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GATATAACACCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
107852599 GGGACTTAGCCCA
66 GGGACTTAACCCA
*
107852612 GATATTACACCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAA
1 GATATAACACCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAA
107852658 TTCTCCATTA
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 101 0.92
79 9 0.08
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (78 bp):
GATATAACACCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
GGGACTTAACCCA
Found at i:107853184 original size:109 final size:110
Alignment explanation
Indices: 107852992--107853316 Score: 616
Period size: 109 Copynumber: 3.0 Consensus size: 110
107852982 TGTGGATAGG
* *
107852992 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
107853057 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
107853102 CTACTCGATTGCTTTCACCTTT-CCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
107853166 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
107853211 CTACTCGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
*
107853276 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATT
107853317 ATAATAGTCA
Statistics
Matches: 211, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
109 108 0.51
110 103 0.49
ACGTcount: A:0.24, C:0.23, G:0.08, T:0.45
Consensus pattern (110 bp):
CTACTCGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
Found at i:107855308 original size:27 final size:27
Alignment explanation
Indices: 107855270--107855556 Score: 349
Period size: 27 Copynumber: 10.6 Consensus size: 27
107855260 TTAGTTTATC
107855270 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** * * *
107855297 TAATCAATAAAATACACTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107855324 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
107855351 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107855378 AAATTACCAAACTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
107855405 AAATTACTAAAATACCCTTTGCTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107855432 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107855459 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107855486 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
107855513 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
107855540 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
107855557 TCGACCTATA
Statistics
Matches: 225, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 225 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:107855569 original size:81 final size:79
Alignment explanation
Indices: 107855270--107855664 Score: 288
Period size: 81 Copynumber: 4.9 Consensus size: 79
107855260 TTAGTTTATC
* * * * ** *
107855270 AAATTACCAAAATACCCCTGGTTTGTATAATCAATAAAATACACTTGGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAAT-TACAAAATAC-CCCGATTTATAAAATTACCAAA
* * *
107855335 ATACCCTTGGTTTGTA
64 ATACCCCTAGCTTGTA
** * * * *
107855351 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAACTACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCC-GATTTATAAAATTACCAAA
* * *
107855416 ATACCCTTTGCTTATA
64 ATACCCCTAGCTTGTA
* *
107855432 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCCGA-TTTATAAAATTACCAAA
*
107855497 ATACCCCTAGTTTGTA
64 ATACCCCTAGCTTGTA
* ** * * ** ***
107855513 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTATAAAATTATTGAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTAC-AAAATACCC-CGATTTATAAAATTACCAAA
*
107855578 ATA-CCCTCGACTTGTA
64 ATACCCCTAG-CTTGTA
* * * ** * **** *
107855594 AAATTACCAAAGTACCATTGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCC-CGATTTATAAAATTACCAAA
107855659 ATACCC
64 ATACCC
107855665 TTGTAGGGTA
Statistics
Matches: 251, Mismatches: 55, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
80 8 0.03
81 238 0.95
82 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (79 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACAAAATACCCCGATTTATAAAATTACCAAAAT
ACCCCTAGCTTGTA
Found at i:107855609 original size:27 final size:27
Alignment explanation
Indices: 107855270--107855665 Score: 255
Period size: 27 Copynumber: 14.7 Consensus size: 27
107855260 TTAGTTTATC
*
107855270 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * ** * * * *
107855297 TAATCAATAAAATACACTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
107855324 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
107855351 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
107855378 AAATTACCAAACTACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
107855405 AAATTACTAAAATACCCTTTG-CTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
107855432 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
107855459 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
107855486 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
107855513 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** ** *
107855540 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
107855567 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * **
107855594 AAATTACCAAAGTACCATTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **** **
107855621 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
107855648 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
107855666 TGTAGGGTAG
Statistics
Matches: 296, Mismatches: 65, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
26 3 0.01
27 290 0.98
28 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:107855682 original size:27 final size:27
Alignment explanation
Indices: 107855649--107855898 Score: 295
Period size: 27 Copynumber: 9.3 Consensus size: 27
107855639 CGATTTACAA
*
107855649 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
107855676 AAATACCAAAATACCCCTGTAGAGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
107855703 AATTATCGAAATACCCCTCTAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * **
107855730 AATCATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
**
107855757 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
107855784 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
107855811 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
107855838 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * * *
107855865 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
107855891 AATTACCA
1 AATTACCA
107855899 TTTTGCCCCT
Statistics
Matches: 194, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
26 16 0.08
27 178 0.92
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:107856384 original size:22 final size:21
Alignment explanation
Indices: 107856324--107856388 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
107856314 TTAAAGCCTT
* *
107856324 CTGATTATGGCTTTGTGTCAAC
1 CTGA-TATGGCTCTGTGCCAAC
* *
107856346 CTACATATTGCTCTGTGCCAAC
1 CT-GATATGGCTCTGTGCCAAC
*
107856368 CTGATGATGGCTGTGTGCCAA
1 CTGAT-ATGGCTCTGTGCCAA
107856389 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.91
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
CTGATATGGCTCTGTGCCAAC
Found at i:107856591 original size:26 final size:27
Alignment explanation
Indices: 107856547--107856620 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
107856537 ATTCTGTTAA
* * *
107856547 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCTACAATATCTGTATCTG
107856573 GTGGCTCTGCTACAATATCTGTATCTG
1 GTGGCTCTGCTACAATATCTGTATCTG
* *
107856600 CTGACTCTG-TAACAATATCTG
1 GTGGCTCTGCT-ACAATATCTG
107856621 ATAACTTAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCTACAATATCTGTATCTG
Found at i:107856795 original size:6 final size:6
Alignment explanation
Indices: 107856757--107856848 Score: 89
Period size: 6 Copynumber: 14.8 Consensus size: 6
107856747 TTGCATTCAC
* * *
107856757 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
107856807 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
107856849 AGTTCTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.06
6 54 0.76
7 11 0.15
8 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:107856803 original size:31 final size:31
Alignment explanation
Indices: 107856757--107856837 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
107856747 TTGCATTCAC
107856757 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
107856789 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
107856820 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
107856838 ATTCTGATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 41 0.85
32 7 0.15
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:107858842 original size:27 final size:27
Alignment explanation
Indices: 107858804--107859090 Score: 367
Period size: 27 Copynumber: 10.6 Consensus size: 27
107858794 TTAGTTTATC
107858804 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** * *
107858831 TAATCAATAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107858858 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
107858885 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107858912 AAATTACCAAACTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
107858939 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
107858966 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107858993 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
107859020 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
107859047 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
107859074 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
107859091 TCGACCTATA
Statistics
Matches: 225, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 225 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:107859103 original size:81 final size:80
Alignment explanation
Indices: 107858795--107859150 Score: 322
Period size: 81 Copynumber: 4.4 Consensus size: 80
107858785 TAGAATACTT
* * * * * * * *
107858795 TAGTTTATCAAATTACCAAAATACCCCTGGTTTGTATAATCAATAAAATACCCTTGGTTTATAAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCC-CGATTTATAAA
107858860 ATTACCAAAATACCCC
65 ATTACCAAAATACCCC
* * ** * * * *
107858876 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAACTACCCCTGGTTTGTAAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCC-GATTTATAAA
* *
107858941 ATTACTAAAATACCCT
65 ATTACCAAAATACCCC
* * * * * *
107858957 TTGTTTATAAAATTACCAAAATA-CCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCCGA-TTTATAA
107859021 AATTACCAAAATACCCC
64 AATTACCAAAATACCCC
* * **
107859038 TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTATAAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCC-CGATTTATAAA
***
107859103 ATTA-TTGAATA-CCC
65 ATTACCAAAATACCCC
* * * *
107859117 TCGACTTGTAAAATTACCAAAGTACCCTTGATTT
1 TAG-TTTGTAAAATTACCAAAATACCCCTGATTT
107859151 ACAGAATTAT
Statistics
Matches: 226, Mismatches: 43, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
79 5 0.02
80 34 0.15
81 180 0.80
82 7 0.03
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (80 bp):
TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGATTTATAAAA
TTACCAAAATACCCC
Found at i:107859113 original size:26 final size:27
Alignment explanation
Indices: 107859074--107859133 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
107859064 CTGATTTGTG
107859074 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGACCTATA
* * *
107859101 AAATTATTG-AATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTATA
107859127 AAATTAC
1 AAATTAC
107859134 CAAAGTACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTATA
Found at i:107859158 original size:27 final size:27
Alignment explanation
Indices: 107858839--107859200 Score: 218
Period size: 27 Copynumber: 13.4 Consensus size: 27
107858829 TATAATCAAT
* *
107858839 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATACCCTTGATTTACAAAATTACC
* **
107858866 AAAATACCCCT-AGTTTGTAAAATTACC
1 AAAATACCCTTGA-TTTACAAAATTACC
*
107858893 AAAATACCCTTGGTTTACAAAATTACC
1 AAAATACCCTTGATTTACAAAATTACC
* * * ** *
107858920 AAACTACCCCTGGTTTGTAAAATTACT
1 AAAATACCCTTGATTTACAAAATTACC
*
107858947 AAAATACCCTTTG-TTTATAAAATTACC
1 AAAATACCC-TTGATTTACAAAATTACC
**
107858974 AAAATACCCTT-AGTTTGTAAAATTACC
1 AAAATACCCTTGA-TTTACAAAATTACC
* **
107859001 AAAATACCCCT-AGTTTGTAAAATTACC
1 AAAATACCCTTGA-TTTACAAAATTACC
* **
107859028 AAAATACCCCT-AGTTTGTAAAATTACC
1 AAAATACCCTTGA-TTTACAAAATTACC
* *** *
107859055 AAAATACCCCTGATTTGTGAAATTACT
1 AAAATACCCTTGATTTACAAAATTACC
* * ** * *
107859082 GAAATACCCTCGACCTATAAAATTA-T
1 AAAATACCCTTGATTTACAAAATTACC
** * * **
107859108 TGAATACCCTCGACTTGTAAAATTACC
1 AAAATACCCTTGATTTACAAAATTACC
* *
107859135 AAAGTACCCTTGATTTACAGAATTATCC
1 AAAATACCCTTGATTTACAAAATTA-CC
***
107859163 -TTTTA-CCTTCGATTTACAAAATTACC
1 AAAATACCCTT-GATTTACAAAATTACC
107859189 AAAATACCCTTG
1 AAAATACCCTTG
107859201 TAGGGTAGAA
Statistics
Matches: 277, Mismatches: 47, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
26 30 0.11
27 238 0.86
28 9 0.03
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATACCCTTGATTTACAAAATTACC
Found at i:107859215 original size:27 final size:27
Alignment explanation
Indices: 107859182--107859321 Score: 217
Period size: 27 Copynumber: 5.2 Consensus size: 27
107859172 CGATTTACAA
*
107859182 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
107859209 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
107859236 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
107859263 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
107859290 AATTACTAAAATACCCCTGTCGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
107859317 AATTA
1 AATTA
107859322 TCGAGATACC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:107859267 original size:81 final size:80
Alignment explanation
Indices: 107859180--107859350 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 80
107859170 TTCGATTTAC
*
107859180 AAAATTACCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGA
1 AAAATTACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGA
107859245 AATACCCCTGTAGGGT
66 AATA-CCCTGTAGGGT
* * * * * * *
107859261 AGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTCGGGTGGAATTATCGA
1 AAAATTACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGA
* * *
107859326 GATACCTTGTGGGGT
66 AATACCCTGTAGGGT
107859341 AAAATTACCA
1 AAAATTACCA
107859351 TTTTGCCCCT
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 17 0.22
81 60 0.78
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGA
AATACCCTGTAGGGT
Found at i:107859330 original size:27 final size:27
Alignment explanation
Indices: 107859182--107859349 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
107859172 CGATTTACAA
* *
107859182 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
107859209 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
107859236 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
107859263 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
107859290 AATTACTAAAATACCCCTGTCGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
107859317 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
107859343 AATTACC
1 AATTACC
107859350 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 15 0.12
27 109 0.88
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:107860043 original size:26 final size:27
Alignment explanation
Indices: 107859999--107860072 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
107859989 ATTCTGTTAA
* * *
107859999 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCTACAATATCTGTATCTG
107860025 GTGGCTCTGCTACAATATCTGTATCTG
1 GTGGCTCTGCTACAATATCTGTATCTG
* *
107860052 CTGACTCTG-TCACAATATCTG
1 GTGGCTCTGCT-ACAATATCTG
107860073 ATAACTTAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCTACAATATCTGTATCTG
Found at i:107860247 original size:6 final size:6
Alignment explanation
Indices: 107860209--107860300 Score: 89
Period size: 6 Copynumber: 14.8 Consensus size: 6
107860199 TTGCATTCAC
* * *
107860209 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
107860259 -TTGCCTG ATACTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
107860301 AGTTCTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.06
6 54 0.76
7 11 0.15
8 2 0.03
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:107860255 original size:31 final size:31
Alignment explanation
Indices: 107860209--107860289 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
107860199 TTGCATTCAC
107860209 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
107860241 ATTCTGATTTTGATTCTGTTGCCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
107860272 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
107860290 ATTCTGATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 40 0.85
32 7 0.15
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:107866862 original size:39 final size:39
Alignment explanation
Indices: 107866808--107866960 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
107866798 GAATGTTCGA
*
107866808 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
107866847 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
107866886 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
107866925 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
107866961 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:107866976 original size:40 final size:39
Alignment explanation
Indices: 107866809--107866990 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
107866799 AATGTTCGAG
* *
107866809 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
107866848 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
107866887 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
107866926 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
107866966 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
107866991 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:107874951 original size:39 final size:39
Alignment explanation
Indices: 107874897--107875049 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
107874887 GAATGTTCGA
*
107874897 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
107874936 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
107874975 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
107875014 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
107875050 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:107875065 original size:40 final size:39
Alignment explanation
Indices: 107874898--107875079 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
107874888 AATGTTCGAG
* *
107874898 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
107874937 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
107874976 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
107875015 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
107875055 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
107875080 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:107878114 original size:48 final size:48
Alignment explanation
Indices: 107878056--107878585 Score: 862
Period size: 48 Copynumber: 11.0 Consensus size: 48
107878046 ATATACACAC
* * *
107878056 ATCTCCTACATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
107878104 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* **
107878152 ATCTCATATATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
107878200 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
107878248 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
107878296 ATCTCATATATATTTCACATTAGCCATTCGGCTTAACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
107878344 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
107878392 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
107878440 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
107878488 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
107878536 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
107878584 AT
1 AT
107878586 ATTTATCTTG
Statistics
Matches: 452, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 452 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:107881352 original size:39 final size:39
Alignment explanation
Indices: 107881285--107881502 Score: 330
Period size: 39 Copynumber: 5.5 Consensus size: 39
107881275 ACAAAGCATA
* * *
107881285 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
107881325 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
107881365 CGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
107881404 CGGTACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
107881443 TGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
107881482 CAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
107881503 TTCTCCATTA
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 145 0.88
40 20 0.12
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:107882038 original size:110 final size:110
Alignment explanation
Indices: 107881845--107882064 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
107881835 TGTGGATAGG
107881845 CTACTCGATTGCTTTCTCCTTTCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
107881910 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
*
107881955 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
107882020 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
107882065 AATAGTCACA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (110 bp):
CTACTCGATTGCTTTCTCCTTTCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:107886167 original size:27 final size:28
Alignment explanation
Indices: 107886111--107886180 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
107886101 AAATTTGTAC
107886111 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
107886139 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
107886166 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
107886181 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:107886191 original size:27 final size:27
Alignment explanation
Indices: 107886111--107886192 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
107886101 AAATTTGTAC
* *
107886111 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
107886139 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
107886166 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
107886193 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:107893974 original size:27 final size:28
Alignment explanation
Indices: 107893918--107893987 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
107893908 AAATTTGTAC
107893918 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
107893946 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
107893973 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
107893988 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:107893998 original size:27 final size:27
Alignment explanation
Indices: 107893918--107893999 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
107893908 AAATTTGTAC
* *
107893918 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
107893946 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
107893973 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
107894000 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:107897701 original size:15 final size:15
Alignment explanation
Indices: 107897658--107897702 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
107897648 GTGTTTAGAA
107897658 AATATGAATGAGTCT
1 AATATGAATGAGTCT
* * *
107897673 AACATAAAGGAGTCT
1 AATATGAATGAGTCT
*
107897688 AATATGAATAAGTCT
1 AATATGAATGAGTCT
107897703 TTTATGAAAG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (15 bp):
AATATGAATGAGTCT
Found at i:107898086 original size:28 final size:27
Alignment explanation
Indices: 107898055--107898128 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 27
107898045 AAACACCATT
*
107898055 AAGGAAAGCCTTTGTGGCA-AACCTGTTA
1 AAGGAAA-CCTTTGTGG-AGAACCTATTA
*
107898083 AAGGACAACCATTGTGGAGAACCTATTA
1 AAGGA-AACCTTTGTGGAGAACCTATTA
*
107898111 AGGGAAAACCTTTGTGGA
1 AAGG-AAACCTTTGTGGA
107898129 AAAACTTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 1 0.03
28 35 0.90
29 3 0.08
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (27 bp):
AAGGAAACCTTTGTGGAGAACCTATTA
Found at i:107901004 original size:29 final size:29
Alignment explanation
Indices: 107900970--107901064 Score: 129
Period size: 29 Copynumber: 3.3 Consensus size: 29
107900960 TAATCAGCCG
*
107900970 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
107900999 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
* *
107901028 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
107901057 CGCACACT
1 CGCACACT
107901065 CAGTACCAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 3 0.05
29 59 0.95
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:107902693 original size:16 final size:16
Alignment explanation
Indices: 107902674--107902704 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107902664 CCGAAATACC
107902674 AAAAAGTCGAAAAGCT
1 AAAAAGTCGAAAAGCT
*
107902690 AAAATGTCGAAAAGC
1 AAAAAGTCGAAAAGC
107902705 CGAAAGTTGG
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:0.55, C:0.13, G:0.19, T:0.13
Consensus pattern (16 bp):
AAAAAGTCGAAAAGCT
Found at i:107902966 original size:29 final size:30
Alignment explanation
Indices: 107902925--107903010 Score: 115
Period size: 29 Copynumber: 2.9 Consensus size: 30
107902915 GCATGAGTAT
*
107902925 AATATGATTTGGGCCTAATGGGCCATATAG
1 AATATGAATTGGGCCTAATGGGCCATATAG
* *
107902955 -ATGTGAATTGGGCCTATTGGGCCATA-AG
1 AATATGAATTGGGCCTAATGGGCCATATAG
107902983 AATATGAATTGGG-CTAGATGGGCCATAT
1 AATATGAATTGGGCCTA-ATGGGCCATAT
107903011 GCATGTATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 5 0.10
29 43 0.90
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (30 bp):
AATATGAATTGGGCCTAATGGGCCATATAG
Found at i:107904281 original size:28 final size:28
Alignment explanation
Indices: 107904198--107904347 Score: 85
Period size: 28 Copynumber: 5.3 Consensus size: 28
107904188 ACTCTAGAAA
*
107904198 AAGCCATTGTGGTGAACCTGTTAAAGG-
1 AAGCCTTTGTGGTGAACCTGTTAAAGGT
* * * * *
107904225 ACAACCTTTTTTGTAAAACCT-TGGAAAGGT
1 A-AGCCTTTGTGGT-GAACCTGT-TAAAGGT
107904255 AAGCCTTTGTGGTGAACCTGTTAAAGGAT
1 AAGCCTTTGTGGTGAACCTGTTAAAGG-T
** * * *
107904284 AA-CCTTTGTGGAAAAACTCTAGAAAGGT
1 AAGCCTTTGTGGTGAACCTGT-TAAAGGT
* *
107904312 AACCCTTTGCTAG-GAACCTGTTAAAGG-
1 AAGCCTTTG-TGGTGAACCTGTTAAAGGT
107904339 ATAGCCTTT
1 A-AGCCTTT
107904348 ATGGAAAAAC
Statistics
Matches: 91, Mismatches: 22, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
27 2 0.02
28 47 0.52
29 39 0.43
30 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (28 bp):
AAGCCTTTGTGGTGAACCTGTTAAAGGT
Found at i:107904319 original size:29 final size:29
Alignment explanation
Indices: 107904248--107904466 Score: 121
Period size: 29 Copynumber: 7.7 Consensus size: 29
107904238 TAAAACCTTG
** * *
107904248 GAAAGGTAAGCCTTTGTGGTGAACCTGT-
1 GAAAGGTAAGCCTTTGTGGAAAAACTCTA
*
107904276 TAAAGGATAA-CCTTTGTGGAAAAACTCTA
1 GAAAGG-TAAGCCTTTGTGGAAAAACTCTA
* * *
107904305 GAAAGGTAACCCTTTGCTAGG--AACCTGT-
1 GAAAGGTAAGCCTTTG-T-GGAAAAACTCTA
* * * *
107904333 TAAAGG-ATAGCCTTTATGGAAAAACTTTG
1 GAAAGGTA-AGCCTTTGTGGAAAAACTCTA
* *
107904362 GAAAGGTAAGCCGTTGTGGAAAAACTGT-
1 GAAAGGTAAGCCTTTGTGGAAAAACTCTA
* * * *
107904390 TACAGG-ACAACCTTTGTGGCAAAACTCTA
1 GAAAGGTA-AGCCTTTGTGGAAAAACTCTA
* * *
107904419 GAAAGGTGAGCCTTTCTGGAAAAACCCTA
1 GAAAGGTAAGCCTTTGTGGAAAAACTCTA
* * *
107904448 AAAAGGTGAGCTTTTGTGG
1 GAAAGGTAAGCCTTTGTGG
107904467 CGAACCCCTC
Statistics
Matches: 145, Mismatches: 33, Indels: 25
0.71 0.16 0.12
Matches are distributed among these distances:
26 2 0.01
27 3 0.02
28 58 0.40
29 78 0.54
30 2 0.01
31 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (29 bp):
GAAAGGTAAGCCTTTGTGGAAAAACTCTA
Found at i:107904414 original size:57 final size:57
Alignment explanation
Indices: 107904185--107904443 Score: 233
Period size: 57 Copynumber: 4.6 Consensus size: 57
107904175 GGGGTTTTAC
* ** * * * *
107904185 AAAACTCTAGAAA---AAGCCATTGTGGTGAACCTGTTAAAGGACAACCTTTTTTGT
1 AAAACTCTAGAAAGGTAAGCCTTTGTGGAAAAACTGTTAAAGGACAACCTTTGTGGA
* ** * *
107904239 AAAAC-CTTGGAAAGGTAAGCCTTTGTGGTGAACCTGTTAAAGGATAACCTTTGTGGA
1 AAAACTC-TAGAAAGGTAAGCCTTTGTGGAAAAACTGTTAAAGGACAACCTTTGTGGA
* * * * *
107904296 AAAACTCTAGAAAGGTAACCCTTTGCTAGG--AACCTGTTAAAGGATAGCCTTTATGGA
1 AAAACTCTAGAAAGGTAAGCCTTTG-T-GGAAAAACTGTTAAAGGACAACCTTTGTGGA
* * * * *
107904353 AAAACTTTGGAAAGGTAAGCCGTTGTGGAAAAACTGTTACAGGACAACCTTTGTGGC
1 AAAACTCTAGAAAGGTAAGCCTTTGTGGAAAAACTGTTAAAGGACAACCTTTGTGGA
* *
107904410 AAAACTCTAGAAAGGTGAGCCTTTCTGGAAAAAC
1 AAAACTCTAGAAAGGTAAGCCTTTGTGGAAAAAC
107904444 CCTAAAAAGG
Statistics
Matches: 171, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 10 0.06
55 2 0.01
56 1 0.01
57 153 0.89
58 2 0.01
59 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (57 bp):
AAAACTCTAGAAAGGTAAGCCTTTGTGGAAAAACTGTTAAAGGACAACCTTTGTGGA
Found at i:107904433 original size:114 final size:114
Alignment explanation
Indices: 107904211--107904425 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
107904201 CCATTGTGGT
* * * * ** *
107904211 GAACCTGTTAAAGGACAACCTTTTTTGTAAAACCTTGGAAAGGTAAGCCTTTGTGGTGAACCTGT
1 GAACCTGTTAAAGGACAACCTTTATGGAAAAACCTTGGAAAGGTAAGCCGTTGTGGAAAAACTGT
*
107904276 TAAAGGATAACCTTTGTGGAAAAACTCTAGAAAGGTAACCCTTTGCTAG
66 TAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAACCCTTTGCTAG
* * *
107904325 GAACCTGTTAAAGGATAGCCTTTATGGAAAAACTTTGGAAAGGTAAGCCGTTGTGGAAAAACTGT
1 GAACCTGTTAAAGGACAACCTTTATGGAAAAACCTTGGAAAGGTAAGCCGTTGTGGAAAAACTGT
* *
107904390 TACAGGACAACCTTTGTGGCAAAACTCTAGAAAGGT
66 TAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGT
107904426 GAGCCTTTCT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 88 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (114 bp):
GAACCTGTTAAAGGACAACCTTTATGGAAAAACCTTGGAAAGGTAAGCCGTTGTGGAAAAACTGT
TAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAACCCTTTGCTAG
Found at i:107906111 original size:25 final size:25
Alignment explanation
Indices: 107906060--107906112 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
107906050 GTACAATTTT
*
107906060 ATATATGTATATGTTATGATAGTTA
1 ATATATGTATATGTTATGATAGATA
107906085 ATATATGTATATATGTTAT-ATA-ATA
1 ATATATG--TATATGTTATGATAGATA
107906110 ATA
1 ATA
107906113 ATAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 12 0.48
26 3 0.12
27 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (25 bp):
ATATATGTATATGTTATGATAGATA
Found at i:107906112 original size:3 final size:3
Alignment explanation
Indices: 107906104--107906164 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
107906094 TATATGTTAT
107906104 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
107906152 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
107906165 AAGAAAGAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:107908311 original size:17 final size:18
Alignment explanation
Indices: 107908289--107908322 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
107908279 AATTTGGTTT
*
107908289 TATTTTA-TTTTATTTTA
1 TATTTTACTTTAATTTTA
107908306 TATTTTACTTTAATTTT
1 TATTTTACTTTAATTTT
107908323 TTGTGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTACTTTAATTTTA
Found at i:107909784 original size:34 final size:34
Alignment explanation
Indices: 107909728--107909818 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
107909718 TCTGGGCCTA
* * *
107909728 AGCCCATATCAGTCGCATTATCAGTGTGAGCATT
1 AGCCCATATCAGTAGCAGTATCAGTATGAGCATT
*
107909762 AGCCCATTAT-AGTAGCAGTATCAGTATGAGCCTT
1 AGCCCA-TATCAGTAGCAGTATCAGTATGAGCATT
*
107909796 AGCCCA-ATTCAATA-CAGTATCAG
1 AGCCCATA-TCAGTAGCAGTATCAG
107909819 AAATGCATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
32 1 0.02
33 10 0.20
34 35 0.71
35 3 0.06
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (34 bp):
AGCCCATATCAGTAGCAGTATCAGTATGAGCATT
Found at i:107917097 original size:40 final size:40
Alignment explanation
Indices: 107917039--107917206 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
107917029 CAATTGAATG
* *
107917039 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
107917080 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
107917119 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
107917159 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
107917199 ATATCCGG
1 ATATCCGG
107917207 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:107917177 original size:80 final size:79
Alignment explanation
Indices: 107917039--107917206 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
107917029 CAATTGAATG
* * *
107917039 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
107917104 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
107917119 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
107917183 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
107917199 ATATCCGG
1 ATATCCGG
107917207 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:107925096 original size:40 final size:39
Alignment explanation
Indices: 107925034--107925176 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 39
107925024 CAATTGAATG
* *
107925034 ATATCCGGGTTAAGACCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGCAAGTG-CTT
*
107925074 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGA-CCGAAGGCAATT-GTGCAAG-TGCTT
* * *
107925113 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGA-CCGAAGGCAATTGTGCAAGTGC-TT
107925153 ATATCCGGGCTAAGACCGAAGGCA
1 ATATCCGGGCTAAGACCGAAGGCA
107925177 TTCGTGTGGT
Statistics
Matches: 90, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
39 27 0.30
40 59 0.66
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCGAAGGCAATTGTGCAAGTGCTT
Found at i:107931792 original size:2 final size:2
Alignment explanation
Indices: 107931785--107931812 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
107931775 ACGTATATTC
107931785 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
107931813 TTAACTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107932098 original size:42 final size:41
Alignment explanation
Indices: 107932011--107932116 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
107932001 AACGCCAACA
* * *
107932011 TCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACTG
1 TCCCAGACAG-GGTCTTACACG-AA-CTCATATCGATGCCAATG
* *
107932054 TCCTAGATAGGGTCTTACACGAACTCATATACGATGCCAATG
1 TCCCAGACAGGGTCTTACACGAACTCATAT-CGATGCCAATG
*
107932096 TCCCAGACATGGTCTTACACG
1 TCCCAGACAGGGTCTTACACG
107932117 CAAATCACAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 6 0.11
42 30 0.57
43 16 0.30
44 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (41 bp):
TCCCAGACAGGGTCTTACACGAACTCATATCGATGCCAATG
Found at i:107937118 original size:37 final size:37
Alignment explanation
Indices: 107937068--107937139 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
107937058 TTTAGCTCGA
*
107937068 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
107937105 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
107937140 AATATATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:107937333 original size:48 final size:48
Alignment explanation
Indices: 107937273--107937378 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
107937263 CGGCCACAAT
* *
107937273 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
107937321 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
107937369 ACATATATAT
1 ATATACATAT
107937379 TTTATCTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:107940814 original size:28 final size:28
Alignment explanation
Indices: 107940783--107940862 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
107940773 ACTGACCGAT
107940783 CTCGCACACATAGTGCTCGGTTGA-AGAA
1 CTCGCACACATAGTGCTCGGTT-ACAGAA
* ** * *
107940811 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTG-CTCGGTTACAGAA
107940840 CTCGCACACATAGTGCTCGGTTA
1 CTCGCACACATAGTGCTCGGTTA
107940863 ACGGAATTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGGTTACAGAA
Found at i:107941102 original size:43 final size:43
Alignment explanation
Indices: 107941041--107941254 Score: 401
Period size: 43 Copynumber: 5.0 Consensus size: 43
107941031 CCTTGCTCGA
** *
107941041 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
107941084 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
107941127 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
107941170 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
107941213 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
107941255 CATACCGAGT
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 168 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:107943009 original size:37 final size:37
Alignment explanation
Indices: 107942959--107943030 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
107942949 TTTAGCTCGA
*
107942959 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
107942996 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
107943031 AATATATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:107943224 original size:48 final size:48
Alignment explanation
Indices: 107943164--107943269 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
107943154 CGGCCACAAT
* *
107943164 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
107943212 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
107943260 ACATATATAT
1 ATATACATAT
107943270 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:107946150 original size:31 final size:31
Alignment explanation
Indices: 107946073--107946153 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 31
107946063 CAGTCTCGAG
*
107946073 ATATACTGGGCCGAAGCC-TTTCATTAAATG
1 ATATACTGGGCCGAAGCCTTTTCATTAAATC
* *
107946103 AT-TACTGGGCCAAAGCCTTTTCA-TAATTC
1 ATATACTGGGCCGAAGCCTTTTCATTAAATC
*
107946132 ATATCACTGGGCTGAAGCCTTT
1 ATAT-ACTGGGCCGAAGCCTTT
107946154 GCTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 20 0.47
30 8 0.19
31 15 0.35
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (31 bp):
ATATACTGGGCCGAAGCCTTTTCATTAAATC
Found at i:107946427 original size:26 final size:26
Alignment explanation
Indices: 107946375--107946445 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
107946365 CTCTTATAAT
107946375 AACTGGGGCAAAGCCC-TTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTTGATA
*
107946400 AACTGGGGCAAAGCCCTTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTTGATA
*
107946426 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
107946446 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 16 0.37
26 27 0.63
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTTGATA
Found at i:107952735 original size:31 final size:30
Alignment explanation
Indices: 107952660--107952737 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
107952650 AATATCAGCA
107952660 TACTGGGCCGAAGCC-TTTCATTAAACGAT
1 TACTGGGCCGAAGCCTTTTCATTAAACGAT
*
107952689 TACTGAGCCGAAGCCTTTTCA-TAAATC-AT
1 TACTGGGCCGAAGCCTTTTCATTAAA-CGAT
*
107952718 ATCACTGGGCTGAAGCCTTT
1 -T-ACTGGGCCGAAGCCTTT
107952738 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 20 0.48
30 7 0.17
31 15 0.36
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (30 bp):
TACTGGGCCGAAGCCTTTTCATTAAACGAT
Found at i:107952984 original size:25 final size:26
Alignment explanation
Indices: 107952956--107953026 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
107952946 CTCTTATAAT
107952956 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
107952981 AACTGGGGCAAAGCCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* * *
107953007 AATTGGGGCATATCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
107953027 GCACTTTCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 21 0.51
26 20 0.49
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:107959831 original size:42 final size:42
Alignment explanation
Indices: 107959772--107959926 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
107959762 TGAGATTTAC
*
107959772 GTGTAAGGCCATATCTGGGATATGGCATCGATATGAGCCTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGCCTTT
107959814 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGCCTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGCCTTT
* * * * * **
107959856 GTGTAAGACCATAGCTGGGCTATTTGCATCAATATGAG-ATCAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGCCT-TT
*
107959899 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
107959927 TGGTACAGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 67 0.68
43 32 0.32
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGCCTTT
Found at i:107962394 original size:43 final size:42
Alignment explanation
Indices: 107962300--107962394 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 42
107962290 TATGTGTTTT
* * *
107962300 CATGTAAGACCACGTCTCGGACATTGGCATCGTACTTCATTT
1 CATGTAAGACCACGTCTCGGACAGTGGCATCATACTTCATTA
* *
107962342 CATGTAAGACC-CTGTCT-GGTACAGTGGCATCAATATTTGATTA
1 CATGTAAGACCAC-GTCTCGG-ACAGTGGCATC-ATACTTCATTA
107962385 CATGTAAGAC
1 CATGTAAGAC
107962395 TACATCTGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.07
42 25 0.56
43 17 0.38
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTCGGACAGTGGCATCATACTTCATTA
Found at i:107966911 original size:28 final size:28
Alignment explanation
Indices: 107966842--107966942 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
107966832 GACAAGATTG
* * * *
107966842 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
107966872 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
107966900 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
107966929 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
107966943 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:107974844 original size:28 final size:28
Alignment explanation
Indices: 107974775--107974875 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
107974765 GACAAGATTG
* * * *
107974775 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
107974805 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
107974833 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
107974862 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
107974876 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:107984473 original size:21 final size:22
Alignment explanation
Indices: 107984460--107984500 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
107984450 ATATATTTAG
107984460 ATCAAGAAAAAATAGAATTCAA
1 ATCAAGAAAAAATAGAATTCAA
107984482 ATCAAG-AAAAATAGAATTC
1 ATCAAGAAAAAATAGAATTC
107984501 GGATTAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.20
Consensus pattern (22 bp):
ATCAAGAAAAAATAGAATTCAA
Found at i:107984720 original size:40 final size:40
Alignment explanation
Indices: 107984675--107984858 Score: 173
Period size: 40 Copynumber: 4.6 Consensus size: 40
107984665 GATTCAGATA
107984675 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCCGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCCGC
* *
107984715 TATATATGGCACTTAGTGTGCAATTC-AGAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAG-ATAGCTTCCGC
** *
107984755 TATATATGGCA---AGGTGTGCGAGACTGAGATAGCTTCGGC
1 TATATATGGCACTTA-GTGTGCGATTC-GAGATAGCTTCCGC
* * **
107984794 TATGTAAGGCACTTAGTGTGCGAAATTATA-ATAGCTT-CGAC
1 TATATATGGCACTTAGTGTGCG--ATTCGAGATAGCTTCCG-C
*
107984835 TATGTATTGGCACTTAGTGTGCGA
1 TATATA-TGGCACTTAGTGTGCGA
107984859 GATATCGAGT
Statistics
Matches: 120, Mismatches: 13, Indels: 22
0.77 0.08 0.14
Matches are distributed among these distances:
37 1 0.01
38 8 0.07
39 22 0.18
40 50 0.42
41 21 0.17
42 17 0.14
43 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCCGC
Found at i:107991744 original size:25 final size:26
Alignment explanation
Indices: 107991706--107991754 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
107991696 TCGAGCCATA
* *
107991706 ATCAGTAAGCCTCTCTTGAGCTGATG
1 ATCAATAAGCCTCTATTGAGCTGATG
107991732 ATCAATAAG-CTCTATTGAGCTGA
1 ATCAATAAGCCTCTATTGAGCTGA
107991755 AACGGTAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (26 bp):
ATCAATAAGCCTCTATTGAGCTGATG
Found at i:107991795 original size:22 final size:23
Alignment explanation
Indices: 107991737--107991797 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
107991727 TGATGATCAA
* * *
107991737 TAAGCTCTATTGAGCTGAAACGG
1 TAAGATCTATCGAGCTGAAACAG
*
107991760 TAAGCTCTATCGAGCTG-AACAG
1 TAAGATCTATCGAGCTGAAACAG
107991782 TAAGATC-ATACGAGCT
1 TAAGATCTAT-CGAGCT
107991798 AAAAAGGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.06
22 16 0.47
23 16 0.47
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (23 bp):
TAAGATCTATCGAGCTGAAACAG
Found at i:107991984 original size:67 final size:67
Alignment explanation
Indices: 107991875--107992011 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
107991865 TGAGCTGTGG
* *
107991875 TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGGTAACCCTAGTGACAAGTCACTCGTATCC
1 TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGGAAACCCTAGTCACAAGTCACTCGTATCC
107991940 TA
66 TA
*
107991942 TGAGTCCGCAACAAATGCAGGAGCTCGACCAAATCGGAAACCCTAGTCACAAGTCACTCGTATCC
1 TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGGAAACCCTAGTCACAAGTCACTCGTATCC
107992007 TA
66 TA
107992009 TGA
1 TGA
107992012 ATTCAAATAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (67 bp):
TGAGTCCGCAACAAATGCAGGAGCTCAACCAAATCGGAAACCCTAGTCACAAGTCACTCGTATCC
TA
Found at i:107996104 original size:24 final size:24
Alignment explanation
Indices: 107996076--107996123 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
107996066 TGTTTAATGA
*
107996076 TAGAAAATAAATCTTTGATGGTAG
1 TAGAAAATAAACCTTTGATGGTAG
107996100 TAGAAAATAAACCTTTGATGGTAG
1 TAGAAAATAAACCTTTGATGGTAG
107996124 ATTATTGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (24 bp):
TAGAAAATAAACCTTTGATGGTAG
Found at i:108000377 original size:53 final size:54
Alignment explanation
Indices: 108000296--108000500 Score: 171
Period size: 53 Copynumber: 3.8 Consensus size: 54
108000286 TTTCCTTTTT
* * * * *
108000296 GAACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
108000349 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGTCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCCTTATA
* * ** * * *
108000403 GTAACTCATCAATGCCATGTCTTGATGTGGTCTTACACGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * * *
108000458 GAACTTATCAATGCCCTGCCTTGGCATGGCCTTATATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
108000501 ATTATCTTAC
Statistics
Matches: 118, Mismatches: 30, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
52 1 0.01
53 42 0.36
54 33 0.28
55 41 0.35
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:108000421 original size:55 final size:53
Alignment explanation
Indices: 108000339--108000491 Score: 148
Period size: 55 Copynumber: 2.8 Consensus size: 53
108000329 ACGTGGTATC
* *
108000339 CTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACAT
1 CTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACA--CGACAT
* * *** **
108000393 -TTGTCTTATAGTAACTCATCAATGCCATGTCTTGATGTGGTCTTACACGATTT
1 CTTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACACGACAT
* * *
108000446 CCTTGCCTTATAGAACTTATCAATGCCCTGCCTTGGCATGGCCTTA
1 -CTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTA
108000492 TATGATATCA
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
53 11 0.14
54 27 0.35
55 40 0.51
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACACGACAT
Found at i:108000629 original size:47 final size:46
Alignment explanation
Indices: 108000466--108000736 Score: 210
Period size: 47 Copynumber: 5.8 Consensus size: 46
108000456 TAGAACTTAT
* * * * * * * *
108000466 CAATGCCCTGCCTTGGCATGGCCTTATATGATATCATTATCTTA-C
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTAGC
***
108000511 CAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGTCTTAGC
* ***
108000559 AAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATGC
1 CAATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGTCTTA-GC
** ** * *
108000607 CAATGCCACATCTTGATGTGGTCTTACATGG-AGTCCTTAATC-AATGC
1 CAATGCCATGTCTTGACATGGTCTTACATGGTA-TCCTT-GTCTTA-GC
** *
108000654 CAATGCCATGTCTTGACATGGTCTTACACAAG-ATCCTTGCCTTA-C
1 CAATGCCATGTCTTGACATGGTCTTACA-TGGTATCCTTGTCTTAGC
*
108000699 CGATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
108000737 AACAGTCAAT
Statistics
Matches: 183, Mismatches: 34, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
44 1 0.01
45 35 0.19
46 10 0.05
47 123 0.67
48 14 0.08
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (46 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTAGC
Found at i:108000790 original size:44 final size:44
Alignment explanation
Indices: 108000741--108000825 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
108000731 ATCCTTAACA
* *
108000741 GTCAATTC-CTCCTTAAATGCCATGTTATGAA-CATGGAATTTTCC
1 GTCAATTCTC-CCTTAAATGCCATGGTA-CAACCATGGAATTTTCC
*
108000785 GTCAATTCTCCCTTAATTGCCATGGTACAACCATGGAATTT
1 GTCAATTCTCCCTTAAATGCCATGGTACAACCATGGAATTT
108000826 GAGATATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.06
44 33 0.92
45 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (44 bp):
GTCAATTCTCCCTTAAATGCCATGGTACAACCATGGAATTTTCC
Found at i:108001405 original size:30 final size:31
Alignment explanation
Indices: 108001362--108001419 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
108001352 CTAACCCAAA
108001362 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
* **
108001393 CTTT-GCAGAATTATGATTTTGCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
108001420 GTCTCGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:108003678 original size:40 final size:40
Alignment explanation
Indices: 108003583--108003800 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
108003573 TGGATGATAA
* * *
108003583 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCAAGTTACTA-TAT
* *
108003624 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
108003664 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
108003704 CCGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
108003744 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
* *
108003783 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
108003801 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 108 0.68
41 21 0.13
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:108006893 original size:93 final size:93
Alignment explanation
Indices: 108006781--108006952 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
108006771 TGCCCATAAG
* *
108006781 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
108006846 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
108006874 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
108006939 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
108006953 TCAACCATCC
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:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:108006949 original size:46 final size:46
Alignment explanation
Indices: 108006774--108006949 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
108006764 TGTAACCTGC
* * *
108006774 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
108006820 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
108006870 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
108006913 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
108006950 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:108008978 original size:21 final size:22
Alignment explanation
Indices: 108008948--108008988 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
108008938 ATTCTACCAA
108008948 TGGTAAGTACCTTTCCCAACAT
1 TGGTAAGTACCTTTCCCAACAT
108008970 TGGT-AGTACCTTTCCCAAC
1 TGGTAAGTACCTTTCCCAAC
108008989 TATCTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (22 bp):
TGGTAAGTACCTTTCCCAACAT
Found at i:108010623 original size:93 final size:93
Alignment explanation
Indices: 108010511--108010681 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
108010501 GCCCATAAGT
* *
108010511 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
108010576 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
108010604 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
108010669 CGAGTTCGGATGC
66 CGAGTTCGGATGC
108010682 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:108010678 original size:46 final size:46
Alignment explanation
Indices: 108010503--108010678 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
108010493 TGTAACCCGC
* * *
108010503 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
108010549 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
108010599 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
108010642 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
108010679 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:108013093 original size:30 final size:30
Alignment explanation
Indices: 108013049--108013137 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
108013039 CAAAGATAAC
108013049 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
108013078 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
108013108 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
108013138 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:108013097 original size:15 final size:15
Alignment explanation
Indices: 108013049--108013128 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
108013039 CAAAGATAAC
*
108013049 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
108013063 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
108013078 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
108013093 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
108013108 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
108013123 AAGAAA
1 AAGAAA
108013129 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:108013137 original size:15 final size:15
Alignment explanation
Indices: 108013060--108013137 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
108013050 AGAAAACCGA
108013060 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
108013075 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
108013089 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
108013104 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
108013120 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
108013135 ATA
1 ATA
108013138 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:108015674 original size:21 final size:21
Alignment explanation
Indices: 108015630--108015674 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
108015620 TTATGTGAAA
*
108015630 TGATGTATGGTGTATGATTAT
1 TGATGTATGGTGTATGAGTAT
*
108015651 TGATTTATGTGTGTATGAGT-T
1 TGATGTATG-GTGTATGAGTAT
108015672 TGA
1 TGA
108015675 ATGATACCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (21 bp):
TGATGTATGGTGTATGAGTAT
Done.