Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 63 of 235
Found at i:21429691 original size:31 final size:31
Alignment explanation
Indices: 21429638--21429720 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
21429628 CGCTTACAGT
* *
21429638 AAAGGCTTCGG-CCAGTGCTATGATTTATTA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21429668 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21429699 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21429721 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 16 0.32
31 34 0.68
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21432093 original size:27 final size:27
Alignment explanation
Indices: 21432063--21432154 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
21432053 ATTATCAAAG
* * *
21432063 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
21432090 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
21432117 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
21432144 TGCCCTTGATT
1 TACCCTCGATT
21432155 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:21432219 original size:27 final size:27
Alignment explanation
Indices: 21432189--21432284 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
21432179 AGGGTAGAAG
21432189 TACCAAAATACCCCTAGTTTGTAAAAT
1 TACCAAAATACCCCTAGTTTGTAAAAT
** * *
21432216 TACCAAAATACGACTAGTTTATGAAAT
1 TACCAAAATACCCCTAGTTTGTAAAAT
*
21432243 TA-CAGAAATA-CCCTCAATTTGTAAAAT
1 TACCA-AAATACCCCT-AGTTTGTAAAAT
21432270 TACCAAAATACCCCT
1 TACCAAAATACCCCT
21432285 GATTAACACA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.07
27 46 0.82
28 6 0.11
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
TACCAAAATACCCCTAGTTTGTAAAAT
Found at i:21432298 original size:54 final size:54
Alignment explanation
Indices: 21432206--21432310 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
21432196 ATACCCCTAG
* * **
21432206 TTTGTAAAATTACCAAAATACGACTAGTTTATGAAATTACAGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTAGATTAACAAATTACAGAAATACCCTCAA
* *
21432260 TTTGTAAAATTACCAAAATACCCCT-GATTAACACAATTATAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTAGATTAACA-AATTACAGAAATACCCT
21432311 TGACTTTCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 5 0.11
54 39 0.89
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAGATTAACAAATTACAGAAATACCCTCAA
Found at i:21432360 original size:27 final size:27
Alignment explanation
Indices: 21432294--21432372 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
21432284 TGATTAACAC
* *
21432294 AATTATAGAAATACCCTTGACTTT-CTAAA
1 AATTATAGAAATACCATTG-GTTTAC--AA
21432323 AATTATAGAAATACCATTGGTTTACAA
1 AATTATAGAAATACCATTGGTTTACAA
*
21432350 AATTACT-GAAATACCCTTGGTTT
1 AATTA-TAGAAATACCATTGGTTT
21432373 GTAGATTTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 22 0.49
28 4 0.09
29 19 0.42
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (27 bp):
AATTATAGAAATACCATTGGTTTACAA
Found at i:21433336 original size:25 final size:25
Alignment explanation
Indices: 21433298--21433367 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
21433288 AGGAAGTGCT
* *
21433298 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
21433323 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
21433348 AAAAGGGCTTTGCGCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
21433368 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:21433380 original size:24 final size:24
Alignment explanation
Indices: 21433298--21433394 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 24
21433288 AGGAAGTGCT
* *
21433298 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
21433322 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAG-TTATC
* *
21433347 AAAA-AGGGCTTTGCGCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
*
21433371 AAAAGAGGCTATGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
21433395 ATGATAAAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
24 19 0.31
25 43 0.69
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:21433636 original size:31 final size:31
Alignment explanation
Indices: 21433587--21433670 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
21433577 CGCTTACAGT
21433587 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
21433617 AAAGGCTTCGGCCCAGTGATGTGTTTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
21433648 AAAGGCTTCAGCCCAGT-ATATGA
1 AAAGGCTTCGGCCCAGTGATATGA
21433671 CGAGACTGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 15 0.31
31 33 0.69
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21439584 original size:96 final size:94
Alignment explanation
Indices: 21439429--21439712 Score: 255
Period size: 96 Copynumber: 2.9 Consensus size: 94
21439419 ACGACATGTG
* * * * * ** *
21439429 AGTATTGAGATCCCGTATAAGATCATATATGTGATATGGCATCGACATCGAGATGAGATCCCGTG
1 AGTA-TGAGATCCCATGTAAGACCATATCTG-GATATGGCATCG-CATCGATAAAAGATCCCGTA
* * * *
21439494 TAAGACCATAGT-TGGGATATGGCATCGGTATC
63 TAAGACCA-AGTCTAGGACATGGCATCAGCATC
*
21439526 AGTATGAGATCCCATGTAAGTCCATATCTTGGATATGGCATCAGCATCGATAAAAGATCCCGTAT
1 AGTATGAGATCCCATGTAAGACCATATC-TGGATATGGCATC-GCATCGATAAAAGATCCCGTAT
* *
21439591 AAGATCACGTCTAGGACATGGCATCAGCATC
64 AAGACCAAGTCTAGGACATGGCATCAGCATC
* * * ** * **
21439622 AGTATGAGATCCCTTGTAAGACCATATCTGGAAAATGGCATTGGCATCGATAGGAGGTCCTATAT
1 AGTATGAGATCCCATGTAAGACCATATCTGG-ATATGGCA-TCGCATCGATAAAAGATCCCGTAT
* * *
21439687 AAGACCATGTATGGGACATGGCATCA
64 AAGACCAAGTCTAGGACATGGCATCA
21439713 ACACCGTTAT
Statistics
Matches: 154, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
95 5 0.03
96 141 0.92
97 8 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (94 bp):
AGTATGAGATCCCATGTAAGACCATATCTGGATATGGCATCGCATCGATAAAAGATCCCGTATAA
GACCAAGTCTAGGACATGGCATCAGCATC
Found at i:21439669 original size:48 final size:47
Alignment explanation
Indices: 21439429--21439669 Score: 209
Period size: 48 Copynumber: 5.0 Consensus size: 47
21439419 ACGACATGTG
* * * *
21439429 AGTATTGAGATCCCGTATAAGATCATATATGTGATATGGCATCGACATC
1 AGTA-TGAGATCCCGTGTAAGACCATATCTG-GATATGGCATCGGCATC
*
21439478 GAG-ATGAGATCCCGTGTAAGACCATAGT-TGGGATATGGCATCGGTATC
1 -AGTATGAGATCCCGTGTAAGACCATA-TCT-GGATATGGCATCGGCATC
* * *
21439526 AGTATGAGATCCCATGTAAGTCCATATCTTGGATATGGCATCAGCATC
1 AGTATGAGATCCCGTGTAAGACCATATC-TGGATATGGCATCGGCATC
** * * ** * *
21439574 -GATAAAAGATCCCGTATAAGATCACGTCTAGGACATGGCATCAGCATC
1 AG-TATGAGATCCCGTGTAAGACCATATCT-GGATATGGCATCGGCATC
* * *
21439622 AGTATGAGATCCCTTGTAAGACCATATCTGGAAAATGGCATTGGCATC
1 AGTATGAGATCCCGTGTAAGACCATATCTGG-ATATGGCATCGGCATC
21439670 GATAGGAGGT
Statistics
Matches: 155, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
47 7 0.05
48 141 0.91
49 5 0.03
50 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (47 bp):
AGTATGAGATCCCGTGTAAGACCATATCTGGATATGGCATCGGCATC
Found at i:21439708 original size:144 final size:144
Alignment explanation
Indices: 21439436--21439712 Score: 314
Period size: 144 Copynumber: 1.9 Consensus size: 144
21439426 GTGAGTATTG
*
21439436 AGATCCCGTATAAGATCATATATGTGATATGGCATCGACATCGAGATGAGATCCCGTGTAAGACC
1 AGATCCCGTATAAGATCATATATGTGACATGGCATCGACATCGAGATGAGATCCCGTGTAAGACC
* * * * * * * * *
21439501 ATAGTTGGGATATGGCATCGGTATCAGTATGAGATCCCATGTAAGTCCATATCTTGGATATGGCA
66 ATAGTTGGAAAATGGCATCGGCATCAGTAGGAGATCCCATATAAGACCATATATGGGACATGGCA
21439566 TCAGCATCGATAAA
131 TCAGCATCGATAAA
* *
21439580 AGATCCCGTATAAGATCACGTCTA-G-GACATGGCATC-AGCATC-AGTATGAGATCCCTTGTAA
1 AGATCCCGTATAAGATCA--TATATGTGACATGGCATCGA-CATCGAG-ATGAGATCCCGTGTAA
* * * *
21439641 GACCATA-TCTGGAAAATGGCATTGGCATC-GATAGGAGGTCCTATATAAGACCATGTATGGGAC
62 GACCATAGT-TGGAAAATGGCATCGGCATCAG-TAGGAGATCCCATATAAGACCATATATGGGAC
21439704 ATGGCATCA
125 ATGGCATCA
21439713 ACACCGTTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
143 5 0.05
144 102 0.92
145 1 0.01
146 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (144 bp):
AGATCCCGTATAAGATCATATATGTGACATGGCATCGACATCGAGATGAGATCCCGTGTAAGACC
ATAGTTGGAAAATGGCATCGGCATCAGTAGGAGATCCCATATAAGACCATATATGGGACATGGCA
TCAGCATCGATAAA
Found at i:21444145 original size:25 final size:25
Alignment explanation
Indices: 21444111--21444162 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
21444101 TAAGATGTTT
21444111 AAACAATTAGGTCTTGGGAAACCCA
1 AAACAATTAGGTCTTGGGAAACCCA
21444136 AAACAATTAGGTCTTGGGAAACCCA
1 AAACAATTAGGTCTTGGGAAACCCA
21444161 AA
1 AA
21444163 CAGACTAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (25 bp):
AAACAATTAGGTCTTGGGAAACCCA
Found at i:21444171 original size:25 final size:25
Alignment explanation
Indices: 21444111--21444171 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
21444101 TAAGATGTTT
*
21444111 AAACAATTAGGTCTTGGGAAACCCA
1 AAACAACTAGGTCTTGGGAAACCCA
*
21444136 AAACAATTAGGTCTTGGGAAACCC-
1 AAACAACTAGGTCTTGGGAAACCCA
21444160 AAACAGACTAGG
1 AAACA-ACTAGG
21444172 ATGAGCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 5 0.15
25 29 0.85
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (25 bp):
AAACAACTAGGTCTTGGGAAACCCA
Found at i:21445233 original size:55 final size:55
Alignment explanation
Indices: 21445169--21445287 Score: 148
Period size: 55 Copynumber: 2.2 Consensus size: 55
21445159 CTGCCAAAAC
* ** *
21445169 AACATGGGCGTGCGACACGGCCATGCCTTGAAACCGTGGCCAAACCTGTCAAATT
1 AACACGGGCGTGCGACACGGCCATGCCAAGAAACCGTGGCCAAACCTATCAAATT
* * * * * *
21445224 AACACGGGCGTGCGACACGTCCGTGCCAAGCAACTGTGGTCAAACCTATTAAATT
1 AACACGGGCGTGCGACACGGCCATGCCAAGAAACCGTGGCCAAACCTATCAAATT
21445279 AACACGGGC
1 AACACGGGC
21445288 ATGGGAGAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.18
Consensus pattern (55 bp):
AACACGGGCGTGCGACACGGCCATGCCAAGAAACCGTGGCCAAACCTATCAAATT
Found at i:21451393 original size:27 final size:27
Alignment explanation
Indices: 21451352--21451405 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21451342 TGTCATGTGA
* *
21451352 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
21451379 AATTGAAT-GCTAAATTACTATTACATG
1 AATTGAATGGC-AAATTACTATTACATG
21451406 GTTGTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:21451710 original size:49 final size:49
Alignment explanation
Indices: 21451638--21451818 Score: 229
Period size: 49 Copynumber: 3.7 Consensus size: 49
21451628 TCTATAGTGA
* *
21451638 GGTCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
21451687 GGTCACATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * **
21451737 CGATCACGTGTGTAGTACTAA-TATAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
21451786 GGTCGCATGTTTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
21451819 TGCATACCAG
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
48 16 0.15
49 53 0.49
50 22 0.20
51 18 0.17
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:21451812 original size:99 final size:100
Alignment explanation
Indices: 21451640--21451833 Score: 309
Period size: 99 Copynumber: 1.9 Consensus size: 100
21451630 TATAGTGAGG
*
21451640 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACAAAGTACAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
* * *
21451705 AAGTGCAGGCTATTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
* * * *
21451740 TCACGTGTGTAGTACTAA-TATAGGCTACTACGTGTACCGGATAATTGGTCGCATGTTTAGTACT
1 TCACGTGTGTAGTACAAAGTACAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
21451804 AAGTGCAGGCTACTATGCATACCAGATAAC
66 AAGTGCAGGCTACTATGCATACCAGATAAC
21451834 CTTGTCTACA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 69 0.80
100 17 0.20
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACAAAGTACAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
Found at i:21454364 original size:22 final size:23
Alignment explanation
Indices: 21454326--21454368 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21454316 AAATCCTACA
*
21454326 CATCCATCCTCTACACTCCATTC
1 CATCCAGCCTCTACACTCCATTC
21454349 CATCCAGCC-CTACACTCCAT
1 CATCCAGCCTCTACACTCCAT
21454369 GTGGGGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.23, C:0.49, G:0.02, T:0.26
Consensus pattern (23 bp):
CATCCAGCCTCTACACTCCATTC
Found at i:21454460 original size:21 final size:21
Alignment explanation
Indices: 21454435--21454478 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21454425 CACTATTCAA
*
21454435 TAATTGTAGAAGAGC-ATCCAG
1 TAATTGCAGAAGAGCTA-CCAG
*
21454456 TAATTGCAGGAGAGCTACCAG
1 TAATTGCAGAAGAGCTACCAG
21454477 TA
1 TA
21454479 CGGTACACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (21 bp):
TAATTGCAGAAGAGCTACCAG
Found at i:21465255 original size:46 final size:45
Alignment explanation
Indices: 21465188--21465360 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 45
21465178 TGTAACCCGC
* ** *
21465188 CCATAAGCGAACTCGGACTCAACTCAACGAACTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCAT
* * *
21465234 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTAGCAT
* *** * *
21465280 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCAT
21465327 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
21465361 AGATGCTCAA
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 65 0.63
47 35 0.34
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTAGCAT
Found at i:21465354 original size:93 final size:93
Alignment explanation
Indices: 21465195--21465366 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
21465185 CGCCCATAAG
* * *
21465195 CGAACTCGGACTCAACTCAACGAACTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
21465260 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCAGATGCCTAGTTACATCTCT
** *
21465288 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21465353 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
21465367 TCAACAATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCT
Found at i:21465382 original size:46 final size:45
Alignment explanation
Indices: 21465196--21465382 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 45
21465186 GCCCATAAGC
** ** * *
21465196 GAACTCGGACTCAACTCAACGAACTCGGGCGTTC-GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-TA-GT
*
21465242 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATC-CTAGT
***
21465289 GAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACATCC-T-AGT
*
21465335 GAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACAATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC-ATCCTAGT
21465381 GA
1 GA
21465383 CATGTCACTT
Statistics
Matches: 111, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
45 2 0.02
46 60 0.54
47 32 0.29
48 5 0.05
50 5 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCTAGT
Found at i:21471349 original size:13 final size:13
Alignment explanation
Indices: 21471331--21471355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21471321 AGGCCGTGTA
21471331 AGGGACACGGGCT
1 AGGGACACGGGCT
21471344 AGGGACACGGGC
1 AGGGACACGGGC
21471356 GTGTGCTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:21476653 original size:27 final size:27
Alignment explanation
Indices: 21476383--21476640 Score: 446
Period size: 27 Copynumber: 9.6 Consensus size: 27
21476373 ATATTGAGTC
* * *
21476383 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
21476410 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
21476437 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
21476464 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
21476491 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
21476518 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
21476545 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
21476572 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
21476599 CGCACACTTAGTGCTACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
21476626 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21476641 GTACAATTTA
Statistics
Matches: 223, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
27 221 0.99
28 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:21483889 original size:57 final size:58
Alignment explanation
Indices: 21483744--21483891 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 58
21483734 ATTGATCTTG
* * ** *
21483744 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCCGATAAAATACCTCTTGAGCATACA
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCCAAATAAAATACCTCTTAAGCATACA
* * * * * ** *
21483802 TTATGAT-TAGGGTTTAGCCTTGACTAGTAATCTAAATCAAGCT-CCTC-TAAGCTTACA
1 TTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCAAAT-AAAATACCTCTTAAGCATACA
21483859 TTATATAAAGGATTTAGCCTGGACTGGTAATCC
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCC
21483892 TGTTATATGA
Statistics
Matches: 69, Mismatches: 18, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
56 2 0.03
57 33 0.48
58 30 0.43
59 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (58 bp):
TTATATAAAGGATTTAGCCTGGACTGGTAATCCAAATAAAATACCTCTTAAGCATACA
Found at i:21496177 original size:20 final size:20
Alignment explanation
Indices: 21496149--21496192 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21496139 AACTAACTTG
* *
21496149 CAACTTACCATAATCTTTCA
1 CAACATACCATAAGCTTTCA
*
21496169 CAACATACCATAGGCTTTCA
1 CAACATACCATAAGCTTTCA
21496189 CAAC
1 CAAC
21496193 TTAAACATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.27
Consensus pattern (20 bp):
CAACATACCATAAGCTTTCA
Found at i:21496387 original size:41 final size:42
Alignment explanation
Indices: 21496278--21496398 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
21496268 TACCATACTA
* *
21496278 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
21496320 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
21496363 AT-TCATATCCCAGATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
21496399 ACTAACCCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
41 27 0.39
42 8 0.12
43 33 0.48
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:21499836 original size:70 final size:70
Alignment explanation
Indices: 21499704--21499836 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 70
21499694 ATGAATATAG
* * * * *
21499704 TGATTGGTAGTAATTCCACATATGTTGTGGACTATCGTAGCTCTGTGTGAGCATCGAGGTATAAG
1 TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATAAG
21499769 CTTAA
66 CTTAA
** *
21499774 TGATTGGTAGTAATTCTGCATATGTTATGGATTACCGTAGCTCTATGTGAGCATCAAAGTATA
1 TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATA
21499837 TGATTTTCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (70 bp):
TGATTGGTAGTAATTCCACATATGTTATGGACTACCGTAGCTCTATGTGAGCATCAAAGTATAAG
CTTAA
Found at i:21506110 original size:92 final size:94
Alignment explanation
Indices: 21505978--21506148 Score: 231
Period size: 92 Copynumber: 1.8 Consensus size: 94
21505968 ATATCAAGCT
* *
21505978 GATGCCATGTCCCAGACATGGTCTTACGCTAGCTTGCACAACG-CGACTGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTGCACAACGTCGACT-ATACATGTCCCAGAC
*
21506042 ATCTCTTCCACTGGCTCTCGTCTCAAAGTC
65 ATCTCTTACACTGGCTCTCGTCTCAAAGTC
* * * * *
21506072 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTTCACAATGTGGCCTATACATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTGCACAACGTCGACTATACATGTCCCAGACA
*
21506135 TGTCTTACACTGGC
66 TCTCTTACACTGGC
21506149 ACACATATCA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 46 0.69
93 17 0.25
94 4 0.06
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTGCACAACGTCGACTATACATGTCCCAGACA
TCTCTTACACTGGCTCTCGTCTCAAAGTC
Found at i:21510257 original size:42 final size:41
Alignment explanation
Indices: 21510177--21510326 Score: 144
Period size: 41 Copynumber: 3.6 Consensus size: 41
21510167 GAGCTTGGTC
21510177 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
21510218 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * * *
21510260 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--TCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
* *
21510301 TCGAAGGGCTTTTGATCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
21510327 GAGTCGAACT
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
39 4 0.05
40 9 0.10
41 35 0.40
42 28 0.32
43 12 0.14
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:21515414 original size:53 final size:53
Alignment explanation
Indices: 21515346--21515450 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
21515336 TTCCTTTTTA
* *
21515346 AACTTACCATTTCCATGTCTTCACATGGTCTTACAT-GGTATCCTTGCCTTATG
1 AACTCACCATTTCCATGCCTTCACATGGTCTTACATAGG-ATCCTTGCCTTATG
** *
21515399 AACTCACCATTTCCATGCCTTGGCATGGTCTTACATAGGATCTTTGCCTTAT
1 AACTCACCATTTCCATGCCTTCACATGGTCTTACATAGGATCCTTGCCTTAT
21515451 AGTAGTTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 44 0.96
54 2 0.04
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (53 bp):
AACTCACCATTTCCATGCCTTCACATGGTCTTACATAGGATCCTTGCCTTATG
Found at i:21521838 original size:163 final size:163
Alignment explanation
Indices: 21521639--21521961 Score: 531
Period size: 163 Copynumber: 2.0 Consensus size: 163
21521629 GCCAATCCCC
* * *
21521639 TCGGTACTCCAGGTGCAGTGCACTGACTATGAATAATACAGACTTAACATGCCGCC-AGTACTCC
1 TCGGTACGCCAGGTGCAGTGCACTGACTACGAATAATACAGACTTAACATGCCACCGA-TACTCC
* * * *
21521703 ATGGAACTCCTCTGTCAACCACAAAATCCCAACCCATTGCATATGCAATATGTCACACAATCTCA
65 ACGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCA
*
21521768 TACATAATCATGTCTCAATACTTTTCACATTTGA
130 TACATAATCATGTCTCAAGACTTTTCACATTTGA
* * *
21521802 TCGGTACGCTAGGTGCAGTGCACTGACTACGAATAATACGGACTTAATATGCCACCGATACTCCA
1 TCGGTACGCCAGGTGCAGTGCACTGACTACGAATAATACAGACTTAACATGCCACCGATACTCCA
21521867 CGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCAT
66 CGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCAT
21521932 ACATAATCATGTCTCAAGACTTTTCACATT
131 ACATAATCATGTCTCAAGACTTTTCACATT
21521962 CATTTGACAT
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
163 147 0.99
164 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (163 bp):
TCGGTACGCCAGGTGCAGTGCACTGACTACGAATAATACAGACTTAACATGCCACCGATACTCCA
CGGAACTCCTCCGTCAACCAAAAAATCCCAACCCAATGCATATGCAATATGTCACACAATCTCAT
ACATAATCATGTCTCAAGACTTTTCACATTTGA
Found at i:21526586 original size:31 final size:31
Alignment explanation
Indices: 21526550--21526659 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
21526540 TTTAATGGTT
*
21526550 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
21526581 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
21526612 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
21526643 ATTGGCCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
21526660 ATTATAAACG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:21526755 original size:42 final size:42
Alignment explanation
Indices: 21526683--21526774 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
21526673 TGGCCCATAG
* ** *
21526683 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
21526725 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21526767 GCCCATTT
1 GCCCATTT
21526775 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:21526947 original size:25 final size:26
Alignment explanation
Indices: 21526919--21527015 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
21526909 CCTCTTTAAT
21526919 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
21526944 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
21526969 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
21526995 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21527016 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.49
26 34 0.51
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:21526990 original size:51 final size:51
Alignment explanation
Indices: 21526919--21527015 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
21526909 CCTCTTTAAT
21526919 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
21526969 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
21527016 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 10 0.22
51 25 0.56
52 10 0.22
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:21527090 original size:20 final size:20
Alignment explanation
Indices: 21527065--21527139 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
21527055 TTATGAATAC
*
21527065 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
21527085 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21527105 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
21527125 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
21527140 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21527096 original size:11 final size:11
Alignment explanation
Indices: 21527065--21527120 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
21527055 TTATGAATAC
21527065 ATCATGTGCAT
1 ATCATGTGCAT
* *
21527076 TTCA--TACAT
1 ATCATGTGCAT
21527085 ATCATGTGCAT
1 ATCATGTGCAT
*
21527096 ATCA--TACAT
1 ATCATGTGCAT
21527105 ATCATGTGCAT
1 ATCATGTGCAT
21527116 ATCAT
1 ATCAT
21527121 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:21527137 original size:9 final size:10
Alignment explanation
Indices: 21527082--21527138 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
21527072 GCATTTCATA
21527082 CATATCATGT
1 CATATCATGT
*
21527092 GCATATCAT-A
1 -CATATCATGT
21527102 CATATCATGT
1 CATATCATGT
*
21527112 GCATATCATAT
1 -CATATCATGT
21527123 CA-ATCATGT
1 CATATCATGT
21527132 -ATATCAT
1 CATATCAT
21527139 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:21527900 original size:27 final size:27
Alignment explanation
Indices: 21527838--21527915 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
21527828 GGGCATATTC
21527838 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
21527865 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
21527892 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
21527916 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:21527986 original size:27 final size:27
Alignment explanation
Indices: 21527956--21528007 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
21527946 GTAAATCTAC
21527956 AAACCAAGGGTATTT-CAGTAATTTTGT
1 AAACCAAGGGTATTTCCA-TAATTTTGT
*
21527983 AAACCAATGGTATTTCCATAATTTT
1 AAACCAAGGGTATTTCCATAATTTT
21528008 TANNNNNNNN
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCCATAATTTTGT
Found at i:21530105 original size:20 final size:20
Alignment explanation
Indices: 21530071--21530115 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21530061 AGAGACTAAA
* *
21530071 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
21530091 ATGAAAAATTCTAAATTTTT
1 ATGAAAAATTCTAAAATTTG
21530111 ATGAA
1 ATGAA
21530116 TACATGTGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:21534146 original size:16 final size:16
Alignment explanation
Indices: 21534127--21534157 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21534117 CTTCTTCACT
21534127 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
21534143 TACTTACTTACTTAA
1 TACTCACTTACTTAA
21534158 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:21534163 original size:20 final size:20
Alignment explanation
Indices: 21534124--21534163 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21534114 AAACTTCTTC
* *
21534124 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
21534144 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
21534164 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:21534274 original size:23 final size:24
Alignment explanation
Indices: 21534236--21534280 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
21534226 TTTGCTCTTC
*
21534236 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
21534260 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
21534281 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:21534594 original size:55 final size:56
Alignment explanation
Indices: 21534447--21534594 Score: 178
Period size: 55 Copynumber: 2.7 Consensus size: 56
21534437 GGTATCCTTG
* * * *
21534447 CAATGCCATGCCTTGGCATTGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTAT
1 CAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTGCCTTATAGAAACTTAC
* * * *
21534502 CAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTT-CC-T-TAGAAACCTTAC
1 CAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTGCCTTATAGAAA-CTTAC
21534556 CAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
21534595 AAACCCTAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
53 5 0.06
54 8 0.10
55 60 0.77
56 5 0.06
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (56 bp):
CAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTGCCTTATAGAAACTTAC
Found at i:21541191 original size:43 final size:42
Alignment explanation
Indices: 21541110--21541222 Score: 102
Period size: 43 Copynumber: 2.7 Consensus size: 42
21541100 CACACGATAT
* * **
21541110 CCCAGATATGGTCTTACATGGGATCTCATATCAATGCCAATAG
1 CCCAAATATGGTCTTACACGAAATCTCATATCAATGCC-ATAG
* ** * ** *
21541153 CCTATCTATGGTCTTACACGAAATCTCGTATCGGTGCCATAT
1 CCCAAATATGGTCTTACACGAAATCTCATATCAATGCCATAG
21541195 CCCAAATATGGTCTTACACGTAAA-CTCA
1 CCCAAATATGGTCTTACACG-AAATCTCA
21541223 AATAACCCTA
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CCCAAATATGGTCTTACACGAAATCTCATATCAATGCCATAG
Found at i:21547053 original size:19 final size:20
Alignment explanation
Indices: 21547023--21547060 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21547013 TTTAAGAGCC
21547023 ACACGTCCATGTGGCTAGGG
1 ACACGTCCATGTGGCTAGGG
*
21547043 ACACG-CCATGTGGGTAGG
1 ACACGTCCATGTGGCTAGG
21547061 CTGTGTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.18
Consensus pattern (20 bp):
ACACGTCCATGTGGCTAGGG
Found at i:21548116 original size:43 final size:42
Alignment explanation
Indices: 21548047--21548167 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
21548037 CATACAATAC
* *
21548047 CATACCAATGCC-ATATCCCAAATATGGTCTTACATGGGATCT
1 CATATCAATGCCAATATCCC-AATATGGTCTTACATGAGATCT
* * * * *
21548089 CATATCAATGCCAATAGCCCAACTATGGTGTTAAACGAGTTCT
1 CATATCAATGCCAATATCCCAA-TATGGTCTTACATGAGATCT
**
21548132 CATATTGATG-CAATATCCCAGATATGGTCTTACATG
1 CATATCAATGCCAATATCCCA-ATATGGTCTTACATG
21548168 TAATCTTAGT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 33 0.52
43 30 0.48
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCAATATCCCAATATGGTCTTACATGAGATCT
Found at i:21548159 original size:42 final size:41
Alignment explanation
Indices: 21548047--21548163 Score: 108
Period size: 43 Copynumber: 2.8 Consensus size: 41
21548037 CATACAATAC
* * * * *
21548047 CATACCAATGCCATATCCCAAATATGGTCTTACATGGGATCT
1 CATATCAATGCAATATCCC-AATATGGTCTTAAACGAGATCT
* * *
21548089 CATATCAATGCCAATAGCCCAACTATGGTGTTAAACGAGTTCT
1 CATATCAATG-CAATATCCCAA-TATGGTCTTAAACGAGATCT
**
21548132 CATATTGATGCAATATCCCAGATATGGTCTTA
1 CATATCAATGCAATATCCCA-ATATGGTCTTA
21548164 CATGTAATCT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (41 bp):
CATATCAATGCAATATCCCAATATGGTCTTAAACGAGATCT
Found at i:21558857 original size:23 final size:23
Alignment explanation
Indices: 21558831--21558910 Score: 142
Period size: 23 Copynumber: 3.5 Consensus size: 23
21558821 CCCCAAGCAC
21558831 ACGGGCGTGTGCATTGCCTCCAT
1 ACGGGCGTGTGCATTGCCTCCAT
*
21558854 ACGGGTGTGTGCATTGCCTCCAT
1 ACGGGCGTGTGCATTGCCTCCAT
*
21558877 ACGGGCGTGTGCATTGCCTCCAC
1 ACGGGCGTGTGCATTGCCTCCAT
21558900 ACGGGCGTGTG
1 ACGGGCGTGTG
21558911 AGGCTTTAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.12, C:0.29, G:0.34, T:0.25
Consensus pattern (23 bp):
ACGGGCGTGTGCATTGCCTCCAT
Found at i:21563624 original size:23 final size:23
Alignment explanation
Indices: 21563598--21563677 Score: 142
Period size: 23 Copynumber: 3.5 Consensus size: 23
21563588 CCCCAAGCAC
21563598 ACGGGCGTGTGCATTGCCTCCAT
1 ACGGGCGTGTGCATTGCCTCCAT
*
21563621 ACGGGTGTGTGCATTGCCTCCAT
1 ACGGGCGTGTGCATTGCCTCCAT
*
21563644 ACGGGCGTGTGCATTGCCTCCAC
1 ACGGGCGTGTGCATTGCCTCCAT
21563667 ACGGGCGTGTG
1 ACGGGCGTGTG
21563678 AGGCTTTAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.12, C:0.29, G:0.34, T:0.25
Consensus pattern (23 bp):
ACGGGCGTGTGCATTGCCTCCAT
Found at i:21579512 original size:30 final size:30
Alignment explanation
Indices: 21579478--21579538 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
21579468 TTCCCGAGCC
21579478 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
21579508 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
21579538 T
1 T
21579539 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:21584733 original size:27 final size:27
Alignment explanation
Indices: 21584703--21584759 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
21584693 TTCCCAAATT
21584703 CTATTTTCTGTGAATTCTTAGCTTAGG
1 CTATTTTCTGTGAATTCTTAGCTTAGG
21584730 CTATTTTCTGTGAATTCTTAGCTTAGG
1 CTATTTTCTGTGAATTCTTAGCTTAGG
21584757 CTA
1 CTA
21584760 GATAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (27 bp):
CTATTTTCTGTGAATTCTTAGCTTAGG
Found at i:21605429 original size:27 final size:27
Alignment explanation
Indices: 21605399--21605576 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21605389 ATATTGAGTC
* * * *
21605399 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21605426 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21605453 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21605481 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21605508 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21605535 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21605562 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21605577 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21605538 original size:82 final size:81
Alignment explanation
Indices: 21605420--21605575 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21605410 TGCTATATAA
* *
21605420 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21605485 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21605502 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21605566 CACTTAGTGC
65 CACTTAGTGC
21605576 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21616719 original size:20 final size:21
Alignment explanation
Indices: 21616684--21616723 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
21616674 TAACTCAAAG
21616684 TATAAATATATTTTCAATTTT
1 TATAAATATATTTTCAATTTT
21616705 TATAAATAT-TTTTCAATTT
1 TATAAATATATTTTCAATTT
21616724 AAAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TATAAATATATTTTCAATTTT
Found at i:21616731 original size:20 final size:21
Alignment explanation
Indices: 21616687--21616732 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
21616677 CTCAAAGTAT
** *
21616687 AAATATATTTTCAATTTTTAT
1 AAATATATTTTCAATTTAAAA
21616708 AAATAT-TTTTCAATTTAAAA
1 AAATATATTTTCAATTTAAAA
21616728 AAATA
1 AAATA
21616733 ATATAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATATATTTTCAATTTAAAA
Found at i:21623406 original size:27 final size:26
Alignment explanation
Indices: 21623375--21623552 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 26
21623365 TAAATTGTAC
21623375 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
21623402 TGCACTAAGTGTGCGAATTGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
21623428 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
21623456 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
21623484 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
21623511 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
21623538 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21623553 GGCTCAATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:21623491 original size:82 final size:81
Alignment explanation
Indices: 21623376--21623531 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21623366 AAATTGTACA
* *
21623376 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAATTGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGTA-GCACTAAGTG
21623440 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * *
21623457 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGTAGCACTAAGTG
*
21623522 TGCGAGTTGA
65 TGCGAATTGA
21623532 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21623543 original size:82 final size:81
Alignment explanation
Indices: 21623372--21623552 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21623362 GATTAAATTG
* *
21623372 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAATTGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGATGCACTAA
21623437 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * *
21623453 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGAT-GCACT
* **
21623517 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21623535 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21623553 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21623563 original size:27 final size:27
Alignment explanation
Indices: 21623457--21623563 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
21623447 TGACCATGCG
* * * *
21623457 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
21623485 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
21623512 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
21623539 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
21623564 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:21631441 original size:27 final size:26
Alignment explanation
Indices: 21631411--21631587 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
21631401 AAATTGTACA
* *
21631411 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
21631438 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
21631465 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
21631492 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
21631520 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
21631547 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
21631574 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21631588 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:21631534 original size:82 final size:81
Alignment explanation
Indices: 21631411--21631566 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
21631401 AAATTGTACA
* * * *
21631411 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
21631475 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21631492 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
21631557 TGCGAGTTGA
65 TGCGAATTGA
21631567 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21631578 original size:82 final size:81
Alignment explanation
Indices: 21631407--21631587 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
21631397 GATTAAATTG
* * * *
21631407 TACAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21631472 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21631488 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21631552 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21631570 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21631588 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21647853 original size:49 final size:49
Alignment explanation
Indices: 21647781--21647968 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 49
21647771 TGTTACAACG
*
21647781 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * * *
21647830 TGTGTAGTACTAAGTACCGGCTACTATGCGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
21647881 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
21647930 TGTGTAGTACTGAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
21647969 GCTTCGGCTA
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 73 0.65
50 2 0.02
51 37 0.33
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:21647952 original size:100 final size:100
Alignment explanation
Indices: 21647778--21647963 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
21647768 GGATGTTACA
**
21647778 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAA
*
21647843 GTACCGGCTACTATGCGTACCCGAAAACTATGATC
66 GTACAGGCTACTATGCGTACCCGAAAACTATGATC
* *
21647878 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATTGGTCGCATGTGTAGTACTGA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAA
*
21647943 GTGCAGGCTACTATGCGTACC
66 GTACAGGCTACTATGCGTACC
21647964 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAA
GTACAGGCTACTATGCGTACCCGAAAACTATGATC
Found at i:21665687 original size:536 final size:536
Alignment explanation
Indices: 21664675--21665746 Score: 2072
Period size: 536 Copynumber: 2.0 Consensus size: 536
21664665 TTACCATTTC
21664675 TGTGACACCCCTAATTTGACCCTAGTCGAAAAATGGTTTCGGGACCACAAAATCGAGTCATAAAA
1 TGTGACACCCCTAATTTGACCCTAGTCGAAAAATGGTTTCGGGACCACAAAATCGAGTCATAAAA
*
21664740 ATAATTAGCAGTCATATTTTATGTTTATTATATGTGAATATGAATGTGTGAAAGTTTTAAGCTTT
66 ATAATTAGCAGTCATATTTTATGTTTATTATATGTGAATATGAATGTGTGAAAGTTTTAAGCTTC
*
21664805 GATTTAGTCGATTGCATGAGAATTTAGTAATAAGACTTATATGTGACACTTTTGGAATGCGATAG
131 GATTTAGTCGATTGCATGAGAATTTAGTAATAAGACTTATATGTGACACTTTTGAAATGCGATAG
21664870 GTTAATCTATAAGGACCTATTAATGCATGTTGTATAAAAGAAGGGTTTGCATGTCAAATTAGCCA
196 GTTAATCTATAAGGACCTATTAATGCATGTTGTATAAAAGAAGGGTTTGCATGTCAAATTAGCCA
*
21664935 AAAATCTAGATGGTGGCCGGCGATGCTATGGGGTAAAACATATTATAGACATTTTATGCTAATAT
261 AAAATCTAGATGGTGACCGGCGATGCTATGGGGTAAAACATATTATAGACATTTTATGCTAATAT
21665000 GTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAGGAGAAACCAAAGTTGTCTCCCCCTTACT
326 GTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAGGAGAAACCAAAGTTGTCTCCCCCTTACT
21665065 CCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAACAAAGTTCTTTCTTTGTTGTTCAACTTGG
391 CCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAACAAAGTTCTTTCTTTGTTGTTCAACTTGG
21665130 CCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGGGTCACTTGAGTCATTAAAAAGGTTAGTA
456 CCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGGGTCACTTGAGTCATTAAAAAGGTTAGTA
21665195 TATTATGTCAAATTGT
521 TATTATGTCAAATTGT
*
21665211 TGTGACACCCCTAATTTGACCCTAGTTGAAAAATGGTTTCGGGACCACAAAATCGAGTCATAAAA
1 TGTGACACCCCTAATTTGACCCTAGTCGAAAAATGGTTTCGGGACCACAAAATCGAGTCATAAAA
*
21665276 ATAATTAGCCGTCATATTTTATGTTTATTATATGTGAATATGAATGTGTGAAAGTTTTAAGCTTC
66 ATAATTAGCAGTCATATTTTATGTTTATTATATGTGAATATGAATGTGTGAAAGTTTTAAGCTTC
* * *
21665341 GATTTAGTCGATTGCATGTGAATTTAGTAATAGGACTTATGTGTGACACTTTTGAAATGCGATAG
131 GATTTAGTCGATTGCATGAGAATTTAGTAATAAGACTTATATGTGACACTTTTGAAATGCGATAG
21665406 GTTAATCTATAAGGACCTATTAATGCATGTTGTATAAAAGAAGGGTTTGCATGTCAAATTAGCCA
196 GTTAATCTATAAGGACCTATTAATGCATGTTGTATAAAAGAAGGGTTTGCATGTCAAATTAGCCA
21665471 AAAATCTAGATGGTGACCGGCGATGCTATGGGGTAAAACATATTATAGACATTTTATGCTAATAT
261 AAAATCTAGATGGTGACCGGCGATGCTATGGGGTAAAACATATTATAGACATTTTATGCTAATAT
21665536 GTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAGGAGAAACCAAAGTTGTCTCCCCCTTACT
326 GTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAGGAGAAACCAAAGTTGTCTCCCCCTTACT
21665601 CCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAACAAAGTTCTTTCTTTGTTGTTCAACTTGG
391 CCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAACAAAGTTCTTTCTTTGTTGTTCAACTTGG
21665666 CCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGGGTCACTTGAGTCATTAAAAAGGTTAGTA
456 CCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGGGTCACTTGAGTCATTAAAAAGGTTAGTA
21665731 TATTATGTCAAATTGT
521 TATTATGTCAAATTGT
21665747 GAAATTTTAA
Statistics
Matches: 528, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
536 528 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (536 bp):
TGTGACACCCCTAATTTGACCCTAGTCGAAAAATGGTTTCGGGACCACAAAATCGAGTCATAAAA
ATAATTAGCAGTCATATTTTATGTTTATTATATGTGAATATGAATGTGTGAAAGTTTTAAGCTTC
GATTTAGTCGATTGCATGAGAATTTAGTAATAAGACTTATATGTGACACTTTTGAAATGCGATAG
GTTAATCTATAAGGACCTATTAATGCATGTTGTATAAAAGAAGGGTTTGCATGTCAAATTAGCCA
AAAATCTAGATGGTGACCGGCGATGCTATGGGGTAAAACATATTATAGACATTTTATGCTAATAT
GTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAGGAGAAACCAAAGTTGTCTCCCCCTTACT
CCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAACAAAGTTCTTTCTTTGTTGTTCAACTTGG
CCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGGGTCACTTGAGTCATTAAAAAGGTTAGTA
TATTATGTCAAATTGT
Found at i:21667530 original size:629 final size:629
Alignment explanation
Indices: 21666333--21667589 Score: 2478
Period size: 629 Copynumber: 2.0 Consensus size: 629
21666323 TAATAGGACT
21666333 TATGTGTGACACTTTTGAAATGCGATAGGTTAATCTATAAGGACCTATTAATGCATGTTGTATAA
1 TATGTGTGACACTTTTGAAATGCGATAGGTTAATCTATAAGGACCTATTAATGCATGTTGTATAA
21666398 AAGAAGGGTTTGCATGTCAAATTAGCCAAAAATCTAGATGGTGGCCGGCCATGCTATGGGGTAAA
66 AAGAAGGGTTTGCATGTCAAATTAGCCAAAAATCTAGATGGTGGCCGGCCATGCTATGGGGTAAA
21666463 ACATATTATAGACATTTTATGCTAATATGTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAG
131 ACATATTATAGACATTTTATGCTAATATGTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAG
* *
21666528 GAGAAACCAAAGTTGTCTCCCCTTTGCTCCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAAC
196 GAGAAACCAAAGTTGTCTCCCCCTTACTCCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAAC
21666593 AAAGTTCTTTCTTTGTTGTTCAACTTGGCCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGG
261 AAAGTTCTTTCTTTGTTGTTCAACTTGGCCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGG
21666658 GTCACTTGAGTCATTAAAAAGGTTAGTATATTATGTCAAATTGTGAAATTTTAACTTGTGTTAGG
326 GTCACTTGAGTCATTAAAAAGGTTAGTATATTATGTCAAATTGTGAAATTTTAACTTGTGTTAGG
21666723 TAAATAATCATGGTTCTTACTTAGCCCATGCTAAAATTTGTAATTTTGATGGATGATTGGAGCAT
391 TAAATAATCATGGTTCTTACTTAGCCCATGCTAAAATTTGTAATTTTGATGGATGATTGGAGCAT
*
21666788 TCGGCTAGGGTATAAAGGAAGGGATTTTGGTTGTTTCATCTAAGTATTGATGATGAATGTGTTAT
456 TCGGCTAGGGTATAAAGGAAGGGATTTTGGTTGTTTCATCTAAGTATTGATGATGAACGTGTTAT
21666853 GGAAAGAAATCGGTCTTCCTAAGAATATGATTTGTGAATGTTTATATTAGTAATAGCCGAAATTA
521 GGAAAGAAATCGGTCTTCCTAAGAATATGATTTGTGAATGTTTATATTAGTAATAGCCGAAATTA
21666918 AAGAGGTTTGATGTCTTGAACAAATGTTGTTTATATGTTTTGAA
586 AAGAGGTTTGATGTCTTGAACAAATGTTGTTTATATGTTTTGAA
21666962 TATGTGTGACACTTTTGAAATGCGATAGGTTAATCTATAAGGACCTATTAATGCATGTTGTATAA
1 TATGTGTGACACTTTTGAAATGCGATAGGTTAATCTATAAGGACCTATTAATGCATGTTGTATAA
21667027 AAGAAGGGTTTGCATGTCAAATTAGCCAAAAATCTAGATGGTGGCCGGCCATGCTATGGGGTAAA
66 AAGAAGGGTTTGCATGTCAAATTAGCCAAAAATCTAGATGGTGGCCGGCCATGCTATGGGGTAAA
21667092 ACATATTATAGACATTTTATGCTAATATGTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAG
131 ACATATTATAGACATTTTATGCTAATATGTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAG
*
21667157 GAGAAACCAAAGTTGTCTCCCCCTTACTCCCCATTGCCGTGACTAGAGAAATGGGAGGAAAAAAC
196 GAGAAACCAAAGTTGTCTCCCCCTTACTCCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAAC
21667222 AAAGTTCTTTCTTTGTTGTTCAACTTGGCCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGG
261 AAAGTTCTTTCTTTGTTGTTCAACTTGGCCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGG
21667287 GTCACTTGAGTCATTAAAAAGGTTAGTATATTATGTCAAATTGTGAAATTTTAACTTGTGTTAGG
326 GTCACTTGAGTCATTAAAAAGGTTAGTATATTATGTCAAATTGTGAAATTTTAACTTGTGTTAGG
21667352 TAAATAATCATGGTTCTTACTTAGCCCATGCTAAAATTTGTAATTTTGATGGATGATTGGAGCAT
391 TAAATAATCATGGTTCTTACTTAGCCCATGCTAAAATTTGTAATTTTGATGGATGATTGGAGCAT
21667417 TCGGCTAGGGTATAAAGGAAGGGATTTTGGTTGTTTCATCTAAGTATTGATGATGAACGTGTTAT
456 TCGGCTAGGGTATAAAGGAAGGGATTTTGGTTGTTTCATCTAAGTATTGATGATGAACGTGTTAT
21667482 GGAAAGAAATCGGTCTTCCTAAGAATATGATTTGTGAATGTTTATATTAGTAATAGCCGAAATTA
521 GGAAAGAAATCGGTCTTCCTAAGAATATGATTTGTGAATGTTTATATTAGTAATAGCCGAAATTA
21667547 AAGAGGTTTGATGTCTTGAACAAATGTTGTTTATATGTTTTGA
586 AAGAGGTTTGATGTCTTGAACAAATGTTGTTTATATGTTTTGA
21667590 GTTAAGTAAA
Statistics
Matches: 624, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
629 624 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (629 bp):
TATGTGTGACACTTTTGAAATGCGATAGGTTAATCTATAAGGACCTATTAATGCATGTTGTATAA
AAGAAGGGTTTGCATGTCAAATTAGCCAAAAATCTAGATGGTGGCCGGCCATGCTATGGGGTAAA
ACATATTATAGACATTTTATGCTAATATGTGTGGGAAGAATAATAAAATATGAGGGGAGTGGGAG
GAGAAACCAAAGTTGTCTCCCCCTTACTCCCCATTGCCGTGACTAGAGAAAGGGGAGGAAAAAAC
AAAGTTCTTTCTTTGTTGTTCAACTTGGCCGAATAGAAGAAACAAAGGAGGGGAAGAATTTTTGG
GTCACTTGAGTCATTAAAAAGGTTAGTATATTATGTCAAATTGTGAAATTTTAACTTGTGTTAGG
TAAATAATCATGGTTCTTACTTAGCCCATGCTAAAATTTGTAATTTTGATGGATGATTGGAGCAT
TCGGCTAGGGTATAAAGGAAGGGATTTTGGTTGTTTCATCTAAGTATTGATGATGAACGTGTTAT
GGAAAGAAATCGGTCTTCCTAAGAATATGATTTGTGAATGTTTATATTAGTAATAGCCGAAATTA
AAGAGGTTTGATGTCTTGAACAAATGTTGTTTATATGTTTTGAA
Found at i:21668798 original size:47 final size:47
Alignment explanation
Indices: 21668744--21668929 Score: 264
Period size: 47 Copynumber: 4.0 Consensus size: 47
21668734 TTAGGATTTT
** * *
21668744 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21668791 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
21668838 ATGCGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
21668885 ATGTGGTGAATATGAACATACATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
21668930 TAGTCTGAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21670574 original size:16 final size:15
Alignment explanation
Indices: 21670549--21670582 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21670539 AAAGTTGATA
*
21670549 ATAATTAATATATATT
1 ATAATAAATATA-ATT
21670565 ATAATAAATATAATT
1 ATAATAAATATAATT
21670580 ATA
1 ATA
21670583 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:21672151 original size:24 final size:24
Alignment explanation
Indices: 21672124--21672191 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
21672114 CTATCCGGAG
21672124 CTTCCCAATATGGTTCTTTCTCAA
1 CTTCCCAATATGGTTCTTTCTCAA
* * * * *
21672148 CTTCCCGATAAGATTCTTTGTGAA
1 CTTCCCAATATGGTTCTTTCTCAA
* *
21672172 CTTCCCGATTATGGCTCTTT
1 CTTCCC-AATATGGTTCTTT
21672192 ACAAGCTTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
24 25 0.76
25 8 0.24
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.41
Consensus pattern (24 bp):
CTTCCCAATATGGTTCTTTCTCAA
Found at i:21673458 original size:12 final size:12
Alignment explanation
Indices: 21673441--21673521 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
21673431 CATGAGTAAG
21673441 GACACGGGCTAA
1 GACACGGGCTAA
*
21673453 GACACGGGCTAG
1 GACACGGGCTAA
* *
21673465 GGCACAGGCTAA
1 GACACGGGCTAA
21673477 GACACGGGCTAA
1 GACACGGGCTAA
21673489 GACACGGGCT-A
1 GACACGGGCTAA
* *
21673500 GAACACGGCCTGA
1 G-ACACGGGCTAA
*
21673513 GACATGGGC
1 GACACGGGC
21673522 ATACCACATG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
11 2 0.03
12 54 0.93
13 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.36, T:0.09
Consensus pattern (12 bp):
GACACGGGCTAA
Found at i:21690459 original size:18 final size:18
Alignment explanation
Indices: 21690436--21690470 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21690426 CTCAAATCTG
*
21690436 TTTTGACTCAGGTTCCTA
1 TTTTGACACAGGTTCCTA
21690454 TTTTGACACAGGTTCCT
1 TTTTGACACAGGTTCCT
21690471 GTTCTGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (18 bp):
TTTTGACACAGGTTCCTA
Found at i:21690482 original size:18 final size:18
Alignment explanation
Indices: 21690439--21690482 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21690429 AAATCTGTTT
* *
21690439 TGACTCAGGTTCCTATTT
1 TGACACAGGTTCCTATTC
*
21690457 TGACACAGGTTCCTGTTC
1 TGACACAGGTTCCTATTC
*
21690475 TGATACAG
1 TGACACAG
21690483 CCTAAATCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (18 bp):
TGACACAGGTTCCTATTC
Found at i:21697622 original size:38 final size:38
Alignment explanation
Indices: 21697571--21697649 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
21697561 TTATAATTGG
21697571 TGACTAATCATGACAACATGAATAGATAGATTCTGATT
1 TGACTAATCATGACAACATGAATAGATAGATTCTGATT
21697609 TGACTAATCATGACAACATGAATAGATAGATTCTGATT
1 TGACTAATCATGACAACATGAATAGATAGATTCTGATT
21697647 TGA
1 TGA
21697650 AGTCCACGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (38 bp):
TGACTAATCATGACAACATGAATAGATAGATTCTGATT
Found at i:21698878 original size:19 final size:19
Alignment explanation
Indices: 21698834--21698880 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
21698824 CTCTTTAAGA
*
21698834 AGAAAGACAACTTATGTAT
1 AGAAAGTCAACTTATGTAT
21698853 AGAAAGTCAACTTATGTAT
1 AGAAAGTCAACTTATGTAT
*
21698872 GGAAAGTCA
1 AGAAAGTCA
21698881 TTAGTTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (19 bp):
AGAAAGTCAACTTATGTAT
Found at i:21701348 original size:49 final size:48
Alignment explanation
Indices: 21701291--21701478 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 48
21701281 TAGCTGAAGC
*
21701291 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * *
21701339 TAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CA-A
* * **
21701391 TTTCGGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * *
21701439 CTATCCGGTACACGTAGTAGCCTGCACTTAATACTACACA
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
21701479 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 74 0.64
50 2 0.02
51 38 0.33
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:21701410 original size:100 final size:100
Alignment explanation
Indices: 21701296--21701483 Score: 333
Period size: 100 Copynumber: 1.9 Consensus size: 100
21701286 GAAGCTATCT
*
21701296 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACT-ATCCGGTACACGTAGTAGC
*
21701360 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
65 CTGCACTTAATACTACACACGTGATCACAGTTTTCG
*
21701396 GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCCGGTACACGTAGTAGCC
21701461 TGCACTTAATACTACACACGTGA
66 TGCACTTAATACTACACACGTGA
21701484 CCTCACAATA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
100 83 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCCGGTACACGTAGTAGCC
TGCACTTAATACTACACACGTGATCACAGTTTTCG
Found at i:21712909 original size:30 final size:30
Alignment explanation
Indices: 21712875--21712935 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21712865 TTCCCGAGCC
21712875 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
21712905 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
21712935 T
1 T
21712936 GAGTTAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:21714129 original size:18 final size:17
Alignment explanation
Indices: 21714106--21714140 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21714096 ACTATCAGAA
21714106 AGTGAAACAGGGGAAAT
1 AGTGAAACAGGGGAAAT
*
21714123 NAGTGAAATAGGGGAAAT
1 -AGTGAAACAGGGGAAAT
21714141 TTTATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.34, T:0.14
Consensus pattern (17 bp):
AGTGAAACAGGGGAAAT
Found at i:21722284 original size:40 final size:39
Alignment explanation
Indices: 21722094--21722277 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
21722084 CGAATGATGT
* * * *
21722094 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
21722134 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
21722174 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21722212 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21722253 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21722278 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21722300 original size:79 final size:79
Alignment explanation
Indices: 21722146--21722310 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
21722136 GGACTAAGAT
* **
21722146 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
21722211 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * *
21722225 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
21722288 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
21722304 CCGAAGG
1 CCGAAGG
21722311 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:21729271 original size:28 final size:28
Alignment explanation
Indices: 21729240--21729295 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
21729230 GAAAAAAAGT
*
21729240 AAATCAAATA-TGGTTGTAAAATAAAATA
1 AAATCAAATATTGCTT-TAAAATAAAATA
* *
21729268 AAATTAAATATTGCTTTAAAATTAAATA
1 AAATCAAATATTGCTTTAAAATAAAATA
21729296 TGGTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (28 bp):
AAATCAAATATTGCTTTAAAATAAAATA
Found at i:21729329 original size:51 final size:52
Alignment explanation
Indices: 21729266--21729398 Score: 198
Period size: 53 Copynumber: 2.6 Consensus size: 52
21729256 TAAAATAAAA
*
21729266 TAAAATTAAATATTGCTT-TAAAATTAAATATGGTTTT-AAAATATTTAATTT
1 TAAAATTAAATA-TGGTTGTAAAATTAAATATGGTTTTAAAAATATTTAATTT
*
21729317 TAAAATTCAATATGGTTGTAAAATTAAATATGGTTTTAAAAAATATTTAATTT
1 TAAAATTAAATATGGTTGTAAAATTAAATATGGTTTT-AAAAATATTTAATTT
* *
21729370 TAGATTTAAATATGGTTGTAAAATTAAAT
1 TAAAATTAAATATGGTTGTAAAATTAAAT
21729399 GAATTAAACT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 4 0.05
51 30 0.41
53 40 0.54
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (52 bp):
TAAAATTAAATATGGTTGTAAAATTAAATATGGTTTTAAAAATATTTAATTT
Found at i:21729398 original size:18 final size:18
Alignment explanation
Indices: 21729266--21729398 Score: 105
Period size: 18 Copynumber: 7.6 Consensus size: 18
21729256 TAAAATAAAA
* *
21729266 TAAAATTAAATATTGCTT
1 TAAAATTAAATATGGTTT
21729284 TAAAATTAAATATGGTTT
1 TAAAATTAAATATGGTTT
* **
21729302 TAAAA-T--ATTTAATTT
1 TAAAATTAAATATGGTTT
* *
21729317 TAAAATTCAATATGGTTG
1 TAAAATTAAATATGGTTT
21729335 TAAAATTAAATATGGTTT
1 TAAAATTAAATATGGTTT
* **
21729353 TAAAA--AATATTTAATTT
1 TAAAATTAA-ATATGGTTT
* * *
21729370 TAGATTTAAATATGGTTG
1 TAAAATTAAATATGGTTT
21729388 TAAAATTAAAT
1 TAAAATTAAAT
21729399 GAATTAAACT
Statistics
Matches: 87, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
15 11 0.13
16 3 0.03
17 10 0.11
18 61 0.70
19 2 0.02
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (18 bp):
TAAAATTAAATATGGTTT
Found at i:21729512 original size:21 final size:22
Alignment explanation
Indices: 21729480--21729534 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
21729470 ATTATTTTTA
21729480 AAAAATC-A-AAATT-AAATTT
1 AAAAATCAAGAAATTAAAATTT
* *
21729499 CAAAATTAAGAAATTAAAATTT
1 AAAAATCAAGAAATTAAAATTT
21729521 AAAAATCAAGAAAT
1 AAAAATCAAGAAAT
21729535 AAGTTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 1 0.03
21 5 0.17
22 18 0.62
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATCAAGAAATTAAAATTT
Found at i:21745763 original size:42 final size:42
Alignment explanation
Indices: 21745704--21745867 Score: 139
Period size: 42 Copynumber: 3.8 Consensus size: 42
21745694 GGGTTATGTG
* * *
21745704 TGATTTCATTTAAGACCATATTTGGGATATGACATCGATATT
1 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
* ** **
21745746 TGATTTCATGTAAGACCATGTCTGGGGCATGGCATCGATACG
1 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * * *
21745788 AGATATCGTGTAAGACCATAGCTGGGCTATCGGCATTGATATATT
1 TGATTTCATGTAAGACCATATCTGGGATAT-GGCATCG--ATATT
* ** *
21745833 TAATCCCATGTAAGACCATATTTGGGATATGGCAT
1 TGATTTCATGTAAGACCATATCTGGGATATGGCAT
21745868 TGTCATCTTA
Statistics
Matches: 93, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
42 57 0.61
43 6 0.06
44 5 0.05
45 25 0.27
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
Found at i:21763795 original size:48 final size:48
Alignment explanation
Indices: 21763635--21763965 Score: 260
Period size: 48 Copynumber: 6.9 Consensus size: 48
21763625 GACATTTGGG
* ** * * *
21763635 TGATATGTGTGCCAGTGTAAGACCACATCTGGGACATGGCATTGCCA-
1 TGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAT
* * * * * *
21763682 CGATATGAGAGCCAATGTAAGACCATGTTTGGAACATGACATCGGCGA-
1 TGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAC-AT
* * * * *
21763730 TGTTGTGAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATCGATAT
1 TGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAT
** * * *
21763778 TGATATGTCCGCTAGTGTAGGACCATTTTTGGGACATGGCATCGACCA-
1 TGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGA-CAT
* * *
21763826 -CATTATGGGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
1 TGA-TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAT
* * * ** * * *
21763874 TGAGACGAGAGTTAGTGTAAAACTATGTCTGGGACATGGCATC-A-AT
1 TGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAT
* *
21763920 CTCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 -T-GATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
21763966 GCAACTCACC
Statistics
Matches: 220, Mismatches: 55, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
46 2 0.01
47 41 0.19
48 175 0.80
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TGATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAT
Found at i:21763910 original size:144 final size:143
Alignment explanation
Indices: 21763645--21763965 Score: 333
Period size: 144 Copynumber: 2.2 Consensus size: 143
21763635 TGATATGTGT
** * *
21763645 GCCAGTGTAAGACCACATCTGGGACATGGCATTGCCACGATATGAGAGCCAATGTAAGACCATGT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGCCACGATATGAGAGCCAATGTAAGACCATGT
* * * * * * *
21763710 TTGGAACATGACATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATCGA
66 CTGGAACATGACATCGACGATGTAGCGAGAGCCAGTGTAAAACCATGTCTGAGACATGGCATCAA
* * *
21763775 TATTGATATGTCC
131 TATCGACATGTCA
* * * * *
21763788 GCTAGTGTAGGACCATTTTTGGGACATGGCATCGACCAC-ATTATGGGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG-CCACGA-TATGAGAGCCAATGTAAGACCAT
* * ** * *
21763852 GTCTGGGACATGGCATCGAC-AT-TGAGACGAGAGTTAGTGTAAAACTATGTCTGGGACATGGCA
64 GTCTGGAACATGACATCGACGATGT-AG-CGAGAGCCAGTGTAAAACCATGTCTGAGACATGGCA
* *
21763915 TCAATCTCGACATGTGA
127 TCAATATCGACATGTCA
*
21763932 GCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
21763966 GCAACTCACC
Statistics
Matches: 144, Mismatches: 30, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
142 1 0.01
143 32 0.22
144 111 0.77
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (143 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGCCACGATATGAGAGCCAATGTAAGACCATGT
CTGGAACATGACATCGACGATGTAGCGAGAGCCAGTGTAAAACCATGTCTGAGACATGGCATCAA
TATCGACATGTCA
Found at i:21778686 original size:1 final size:1
Alignment explanation
Indices: 21778680--21778800 Score: 242
Period size: 1 Copynumber: 121.0 Consensus size: 1
21778670 GAATGAACTC
21778680 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21778745 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21778801 CTTTCTTCAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 120 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21788755 original size:48 final size:48
Alignment explanation
Indices: 21788695--21788946 Score: 208
Period size: 48 Copynumber: 5.2 Consensus size: 48
21788685 GCCACATCTA
* *
21788695 GGACATGGCATCGGCCACGATATTAGAGCAAGTGTAAGACCATATTTG
1 GGACATGGCATCGGCCACGATATTAGAGCAAGTGTAAGACCATGTCTG
* ** * * * * * *
21788743 GAACATGGCATCGGGGATGTTGTGAGAGCCAGTGTAAGACCATGTGTG
1 GGACATGGCATCGGCCACGATATTAGAGCAAGTGTAAGACCATGTCTG
* * * *
21788791 GGATATGGCATCGG-CATTGATATGT-GTGCTAGTGTAAGACCATGTCTG
1 GGACATGGCATCGGCCA-CGATAT-TAGAGCAAGTGTAAGACCATGTCTG
* * *
21788839 GGACATGGCATCGACCAC-ATTATGAGAGCTAGTGTAAGACCATGTCTG
1 GGACATGGCATCGGCCACGA-TATTAGAGCAAGTGTAAGACCATGTCTG
* * * * *
21788887 GGACATGGCATTGGGCTCGACATGT-GAGCCAA-TGTAAGACCATGTTTG
1 GGACATGGCATCGGCCACGATAT-TAGAG-CAAGTGTAAGACCATGTCTG
*
21788935 GAACATGGCATC
1 GGACATGGCATC
21788947 AGCAACTCAC
Statistics
Matches: 162, Mismatches: 34, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
47 2 0.01
48 155 0.96
49 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
GGACATGGCATCGGCCACGATATTAGAGCAAGTGTAAGACCATGTCTG
Found at i:21788825 original size:96 final size:96
Alignment explanation
Indices: 21788695--21788946 Score: 267
Period size: 96 Copynumber: 2.6 Consensus size: 96
21788685 GCCACATCTA
* * * * **
21788695 GGACATGGCA-TCGGCCACGATAT-TAGAGCAAGTGTAAGACCATATTTGGAACATGGCATCGGG
1 GGACATGGCATTCGG-CTCGACATGT-GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAC
* ** * *
21788758 GATGTTGTGAGAGCCAGTGTAAGACCATGTGTG
64 CACATTATGAGAGCCAGTGTAAGACCATGTCTG
* * * * * * *
21788791 GGATATGGCA-TCGGCATTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACC
1 GGACATGGCATTCGGC-TCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACC
*
21788855 ACATTATGAGAGCTAGTGTAAGACCATGTCTG
65 ACATTATGAGAGCCAGTGTAAGACCATGTCTG
* *
21788887 GGACATGGCATTGGGCTCGACATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATC
1 GGACATGGCATTCGGCTCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
21788947 AGCAACTCAC
Statistics
Matches: 128, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
95 1 0.01
96 122 0.95
97 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (96 bp):
GGACATGGCATTCGGCTCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCA
CATTATGAGAGCCAGTGTAAGACCATGTCTG
Found at i:21794934 original size:147 final size:147
Alignment explanation
Indices: 21794667--21794965 Score: 467
Period size: 147 Copynumber: 2.0 Consensus size: 147
21794657 TATCTTGAAT
* * * *
21794667 TAAAACATAAGGATTTATGCATTGATTATTTTAACTTTAAGACATTAGAGAATCAAGCATGATAA
1 TAAAACATAAGGATTCATGCATTAATTATTTAAACTTTAAGACAATAGAGAATCAAGCATGATAA
*
21794732 GTTGATTTTTAAGAAATTAAAATTATAGGCAGTTTCCCCAAGTCTAGTTATTACTTTGAATTAGA
66 GTTGATTTTTAAGAAATTAAAATTATAGGCAGTTTCCCCAAGTCTAGATATTACTTTGAATTAGA
*
21794797 ATTCACGAGTTTAAACA
131 ATTCACGAGTCTAAACA
* * *
21794814 TAAAACATAGGGATTCATGCATTAATTATTTAAACTTTAAGATAATAGAGAATCAAGCATGATGA
1 TAAAACATAAGGATTCATGCATTAATTATTTAAACTTTAAGACAATAGAGAATCAAGCATGATAA
* *
21794879 GTTGATTTTTAAG-AATTCAAAATCT-TAGGCTGTTTCCCCAAGTCTAGATATTACTTTGAATTG
66 GTTGATTTTTAAGAAATT-AAAAT-TATAGGCAGTTTCCCCAAGTCTAGATATTACTTTGAATTA
21794942 GAATTCACGAGTCTAAACA
129 GAATTCACGAGTCTAAACA
21794961 TAAAA
1 TAAAA
21794966 AAGCCATACT
Statistics
Matches: 139, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
146 4 0.03
147 134 0.96
148 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (147 bp):
TAAAACATAAGGATTCATGCATTAATTATTTAAACTTTAAGACAATAGAGAATCAAGCATGATAA
GTTGATTTTTAAGAAATTAAAATTATAGGCAGTTTCCCCAAGTCTAGATATTACTTTGAATTAGA
ATTCACGAGTCTAAACA
Found at i:21821750 original size:39 final size:41
Alignment explanation
Indices: 21821655--21821838 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
21821645 TTGAATGATG
*
21821655 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
21821694 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
21821734 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
21821773 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
21821813 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21821839 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:21821790 original size:79 final size:81
Alignment explanation
Indices: 21821655--21821838 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
21821645 TTGAATGATG
21821655 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
21821718 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
21821733 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
21821794 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
21821813 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21821839 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:21821860 original size:79 final size:79
Alignment explanation
Indices: 21821707--21821871 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
21821697 GGACTAAGAT
* ** *
21821707 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
21821772 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
21821786 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
21821848 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
21821865 CCGAAGG
1 CCGAAGG
21821872 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:21830999 original size:40 final size:40
Alignment explanation
Indices: 21830944--21831097 Score: 290
Period size: 40 Copynumber: 3.9 Consensus size: 40
21830934 TTATTTGATG
21830944 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
21830984 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
21831024 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
21831064 TGGAATTGTATCCGGCCTTAAAGACCTGCAGGCT
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCT
21831098 GTGCTAGATA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:21842298 original size:40 final size:40
Alignment explanation
Indices: 21842241--21842382 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
21842231 ACCCAAGCAT
* *
21842241 CTTCGAGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
21842280 CTTCGGGTCTTGGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATGC
* *
21842320 CTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATA-ACAACTCGCACAAATGC
21842360 CTTCGGGACTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATA
21842383 GTCACTAGCA
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 9 0.10
40 80 0.87
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:21842383 original size:40 final size:40
Alignment explanation
Indices: 21842270--21842396 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
21842260 ATAACAACTC
* * *
21842270 GCACAAATGCCTTCGGGTCTTGGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAA-TA
21842310 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
*
21842350 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
21842390 GCACAAA
1 GCACAAA
21842397 NNNNNNNNNN
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 79 0.96
41 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
Found at i:21848638 original size:40 final size:40
Alignment explanation
Indices: 21848561--21848818 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
21848551 AAACCAAGTA
* *
21848561 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
21848600 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
21848640 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21848680 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21848720 CCTTCGGGGCTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
21848760 CCTTCGGGGCTTAGCCCAGA-ATTAGTCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21848800 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21848819 TTATCATCTG
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.07
40 186 0.93
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21862054 original size:42 final size:42
Alignment explanation
Indices: 21861954--21862098 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
21861944 AGCTCGTACA
***
21861954 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACAAAATCAAATA-CG
*
21861997 ATGCC-ACAATCCCAGACAGGGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACAAAATCAAATACG
* * *
21862039 ATGCCAATGTCCCAGACATGGTCTTACACGTAACTATCAAAT-CG
1 ATGCCAACGTCCCAGACAGGGTCTTACAC--AA-AATCAAATACG
21862083 ATGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
21862099 TGTGGACTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
42 28 0.32
43 32 0.37
44 20 0.23
45 7 0.08
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACAAAATCAAATACG
Found at i:21862765 original size:17 final size:18
Alignment explanation
Indices: 21862740--21862779 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
21862730 TTAACATCTC
*
21862740 AAAACATAGAAATT-TCA
1 AAAATATAGAAATTATCA
21862757 AAAATATAGAAATTATCA
1 AAAATATAGAAATTATCA
21862775 AAAAT
1 AAAAT
21862780 CGAGCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAATATAGAAATTATCA
Found at i:21865229 original size:27 final size:27
Alignment explanation
Indices: 21865199--21865264 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
21865189 GGAGGAAGTG
* *
21865199 TACTGTTACTGGTGGCTTTGTCACATA
1 TACTATTACTGGTGGCTTTGCCACATA
*
21865226 TACTATTATTGGTGGCTTTGCCACATA
1 TACTATTACTGGTGGCTTTGCCACATA
* *
21865253 TATTAATACTGG
1 TACTATTACTGG
21865265 CAGCTTTGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (27 bp):
TACTATTACTGGTGGCTTTGCCACATA
Found at i:21865270 original size:27 final size:27
Alignment explanation
Indices: 21865213--21865272 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
21865203 GTTACTGGTG
* * * **
21865213 GCTTTGTCACATATACTATTATTGGTG
1 GCTTTGCCACATATACTAATACTGGCA
*
21865240 GCTTTGCCACATATATTAATACTGGCA
1 GCTTTGCCACATATACTAATACTGGCA
21865267 GCTTTG
1 GCTTTG
21865273 GTGGGTTACT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (27 bp):
GCTTTGCCACATATACTAATACTGGCA
Found at i:21868475 original size:16 final size:15
Alignment explanation
Indices: 21868454--21868497 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
21868444 TGTAGAATGG
21868454 AAAAAGCTGAAAAGTC
1 AAAAAGCTGAAAAG-C
* *
21868470 AAAAAGCCGACAAGC
1 AAAAAGCTGAAAAGC
21868485 AGAAAAGCTGAAA
1 A-AAAAGCTGAAA
21868498 GAATGGCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.57, C:0.16, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAAGCTGAAAAGC
Found at i:21869104 original size:27 final size:27
Alignment explanation
Indices: 21869065--21869123 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
21869055 GGAGGAAGTG
* *
21869065 TACTGTTATTGGTGGCTTTGTCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
*
21869092 TACTGTTACTGGTGGCTTTGCCGCATA
1 TACTGTTACTGGTGGCTTTGCCACATA
21869119 TACTG
1 TACTG
21869124 ATATGGCAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.41
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATA
Found at i:21875597 original size:64 final size:64
Alignment explanation
Indices: 21875492--21875699 Score: 170
Period size: 67 Copynumber: 3.2 Consensus size: 64
21875482 CATCATGTGT
*
21875492 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
21875557 TAG
62 TAG
** * * * * * * * *
21875560 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACTATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
21875625 AG
63 AG
* * * * *
21875627 ACAAGAGAGCTACAAGATAAACTG--GCTAGGTCACATGGATGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
21875689 TACAAGAGAGC
1 -ACAAGAGAGC
21875700 CGAACTATAT
Statistics
Matches: 111, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 21 0.19
65 10 0.09
66 16 0.14
67 29 0.26
68 16 0.14
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:21883937 original size:40 final size:39
Alignment explanation
Indices: 21883900--21884157 Score: 263
Period size: 40 Copynumber: 6.5 Consensus size: 39
21883890 ATATCCGGAC
21883900 TAAGATCCGAAGGCATTTGTGCGAGATACAAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACAAATTCCGGGT
*
21883940 TAAGCCCCGAAGGCATTTGTGCGAGATACAAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACAAATTCCGGGT
* *
21883980 TAAGCCCCGAAGGCATTTGTACGAGATACAAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACAAATTCCGGGT
* *
21884020 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA-ACCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
* * **
21884060 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGT
* * * * *
21884100 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
*
21884139 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
21884158 AACGAGGAGC
Statistics
Matches: 193, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
39 32 0.17
40 158 0.82
41 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACAAATTCCGGGT
Found at i:21883990 original size:80 final size:80
Alignment explanation
Indices: 21883906--21884157 Score: 339
Period size: 80 Copynumber: 3.2 Consensus size: 80
21883896 GGACTAAGAT
*
21883906 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATAC-A
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
* *
21883970 AATTCCGGGTTAAGCC
66 AA-ACCGGGTTAAGTC
* *
21883986 CCGAAGGCATTTGTACGAGATACAAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
21884051 AAACCGGGTTAAGTC
66 AAACCGGGTTAAGTC
* * ** * * *
21884066 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACT
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
* *
21884129 AAAACCGGGCTATGTC
65 AAAACCGGGTTAAGTC
21884145 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21884158 AACGAGGAGC
Statistics
Matches: 153, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 38 0.25
80 109 0.71
81 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
AAACCGGGTTAAGTC
Found at i:21885857 original size:100 final size:100
Alignment explanation
Indices: 21885684--21885885 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
21885674 GGCCTATCTG
21885684 TATGCCAAATGATTAGGATGTCATGATCAGAATGAATTAAATGCTCTTAACTAGATGTGCATGAA
1 TATGCCAAATGATTAGGATGTCATGATCAGAATGAATTAAATGCTCTTAACTAGATGTGCATGAA
21885749 TGCAGCATGTCATTTTGCGAAAATGATCCCATTTT
66 TGCAGCATGTCATTTTGCGAAAATGATCCCATTTT
21885784 TATGCCAAATGATTAGGATGTCATGATCAGAATGAATTAAATGCTCTTAACTAGATGTGCATGAA
1 TATGCCAAATGATTAGGATGTCATGATCAGAATGAATTAAATGCTCTTAACTAGATGTGCATGAA
21885849 TGCAGCATGTCATTTTGCGAAAATGATCCCATTTT
66 TGCAGCATGTCATTTTGCGAAAATGATCCCATTTT
21885884 TA
1 TA
21885886 ATGCTTAGGT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (100 bp):
TATGCCAAATGATTAGGATGTCATGATCAGAATGAATTAAATGCTCTTAACTAGATGTGCATGAA
TGCAGCATGTCATTTTGCGAAAATGATCCCATTTT
Found at i:21895048 original size:23 final size:23
Alignment explanation
Indices: 21895021--21895066 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21895011 CATATAATGT
21895021 AACATA-ATATCATACATGG-ATGC
1 AACATACATAT-A-ACATGGCATGC
21895044 AACATACATATAACATGGCATGC
1 AACATACATATAACATGGCATGC
21895067 TCAAATACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
23 11 0.52
24 4 0.19
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (23 bp):
AACATACATATAACATGGCATGC
Found at i:21895147 original size:27 final size:26
Alignment explanation
Indices: 21895101--21895217 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 26
21895091 GAACAAATTT
* *
21895101 GTCATTTTACCT-TACCGGGGTATTACA
1 GTCATTTTACCTATA--GGGGTATTTCG
21895128 GTCATTTTATCCTATAGGGGTATTTCG
1 GTCATTTTA-CCTATAGGGGTATTTCG
*
21895155 GTCATTCTACCATATAGGGGTATTTCG
1 GTCATTTTACC-TATAGGGGTATTTCG
* *
21895182 ATCATTTTACCCTAT-GAGGGCATTTCG
1 GTCATTTTA-CCTATAG-GGGTATTTCG
21895209 GTCATTTTA
1 GTCATTTTA
21895218 TCACATAAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.04
27 68 0.87
28 5 0.06
29 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTTCG
Found at i:21895228 original size:27 final size:27
Alignment explanation
Indices: 21895128--21895257 Score: 86
Period size: 27 Copynumber: 4.8 Consensus size: 27
21895118 GGGTATTACA
* *
21895128 GTCATTTTATC-CTATAGGGGTATTTCG
1 GTCATTTTATCAC-ATAAGGGCATTTCG
* * * * *
21895155 GTCATTCTACCATATAGGGGTATTTCG
1 GTCATTTTATCACATAAGGGCATTTCG
* * *
21895182 ATCATTTTA-CCCTATGAGGGCATTTCG
1 GTCATTTTATCAC-ATAAGGGCATTTCG
* **
21895209 GTCATTTTATCACATAAGGGAAAAATC-
1 GTCATTTTATCACATAAGGG-CATTTCG
*
21895236 GTCATTTTATCATATAAGGGCA
1 GTCATTTTATCACATAAGGGCA
21895258 AAATCTTTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.02
27 74 0.91
28 5 0.06
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCATTTCG
Found at i:21895256 original size:54 final size:53
Alignment explanation
Indices: 21895128--21895257 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 53
21895118 GGGTATTACA
* * ** **
21895128 GTCATTTTATCCTATAGGGGTATTTCGGTCATTCTACCATATAGGGGTATTTC
1 GTCATTTTATCCTATAAGGGCATTTCGGTCATTCTACCATATAGGGAAAAATC
* * *
21895181 GATCATTTTACCCTATGAGGGCATTTCGGTCATTTTATCACATA-AGGGAAAAATC
1 G-TCATTTTATCCTATAAGGGCATTTCGGTCATTCTA-C-CATATAGGGAAAAATC
*
21895236 GTCATTTTATCATATAAGGGCA
1 GTCATTTTATCCTATAAGGGCA
21895258 AAATCTTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
53 1 0.02
54 48 0.77
55 9 0.15
56 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (53 bp):
GTCATTTTATCCTATAAGGGCATTTCGGTCATTCTACCATATAGGGAAAAATC
Found at i:21895260 original size:27 final size:27
Alignment explanation
Indices: 21895209--21895273 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
21895199 GGGCATTTCG
21895209 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
* *
21895236 GTCATTTTATCATATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
* *
21895263 TTTATTTTATC
1 GTCATTTTATC
21895274 GCAAAAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGAAAAATC
Found at i:21896637 original size:12 final size:11
Alignment explanation
Indices: 21896605--21896648 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
21896595 TTCCTCTTAA
21896605 AATCCCTCCTC
1 AATCCCTCCTC
*
21896616 ATATCTCTCCTC
1 A-ATCCCTCCTC
21896628 AACTCCCTCCTAC
1 AA-TCCCTCCT-C
21896641 AATCCCTC
1 AATCCCTC
21896649 AATGACCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 23 0.82
13 3 0.11
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (11 bp):
AATCCCTCCTC
Found at i:21899152 original size:20 final size:23
Alignment explanation
Indices: 21899119--21899159 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
21899109 AAACCAAAAT
21899119 GATGAAGATCGCAAC-AAAGATA
1 GATGAAGATCGCAACGAAAGATA
21899141 GATGAA-AT-GCAACGAAAGA
1 GATGAAGATCGCAACGAAAGA
21899160 ATCGTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.51, C:0.12, G:0.24, T:0.12
Consensus pattern (23 bp):
GATGAAGATCGCAACGAAAGATA
Found at i:21900083 original size:16 final size:15
Alignment explanation
Indices: 21900050--21900109 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
21900040 TATAAATAAC
*
21900050 AATAATAAAAGACAA
1 AATAATAAAAAACAA
*
21900065 AATAATAAAAAAGATA
1 AATAATAAAAAACA-A
*
21900081 AATAAT-AAAAA-GA
1 AATAATAAAAAACAA
*
21900094 AATAAAAAAAAACAA
1 AATAATAAAAAACAA
21900109 A
1 A
21900110 CCAGTTAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 6 0.16
14 5 0.14
15 19 0.51
16 7 0.19
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.13
Consensus pattern (15 bp):
AATAATAAAAAACAA
Found at i:21900098 original size:17 final size:17
Alignment explanation
Indices: 21900050--21900099 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
21900040 TATAAATAAC
*
21900050 AATAAT-AAAAGACA-A
1 AATAATAAAAAGAAATA
*
21900065 AATAATAAAAA-AGATA
1 AATAATAAAAAGAAATA
21900081 AATAATAAAAAGAAATA
1 AATAATAAAAAGAAATA
21900098 AA
1 AA
21900100 AAAAAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.27
16 16 0.53
17 6 0.20
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (17 bp):
AATAATAAAAAGAAATA
Done.