Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 128 of 438
Found at i:37996351 original size:40 final size:40
Alignment explanation
Indices: 37996286--37996362 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
37996276 GACTATGTTC
* * * *
37996286 AGCACTAAGTGTGCGATTTGAAATAGTTTCGGCTATAAAT
1 AGCACTAAGAGTGCCAATTGAAATAGCTTCGGCTATAAAT
*
37996326 AGCACTAAGAGTGCCAATTGGAATAGCTTCGGCTATA
1 AGCACTAAGAGTGCCAATTGAAATAGCTTCGGCTATA
37996363 TGAGGTACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (40 bp):
AGCACTAAGAGTGCCAATTGAAATAGCTTCGGCTATAAAT
Found at i:37999229 original size:126 final size:126
Alignment explanation
Indices: 37998938--37999679 Score: 940
Period size: 126 Copynumber: 5.9 Consensus size: 126
37998928 GGCCAAGCAT
* * *
37998938 GAACTACTGTAGA-AAAAGAGCGTCCACGTGGGAGCTTTCTTCAAAAATTTGGATGACATTGCAT
1 GAACTACTGTA-ACAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCAT
* * *
37999002 CATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATC-T-T-AAAATTATTTTTTCAG
65 CCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* *
37999061 GAGCTACTGTAACAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCATC
1 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCATC
37999126 CTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* *
37999187 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCCTTTTTCAAAAAGTTTGACGACATTGCATC
1 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCATC
* * * * *
37999252 TTGA-TTGAAGCATTTTTGACACTATTTGTTCAGAAACATTTTCTCAAAATTATTTTTTTTAG
66 CT-ACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTTCAG
* * * * * *
37999314 GAACTACTTTAGCAAAAGAGCGTCCACGTGGGAGCATTTTTCAGAAATTTTGATGACATTGTATC
1 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCATC
* * *
37999379 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGACACGTCTTCTCAAAATTATTTTTTCAA
66 CTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * *** * *
37999440 GAACTACTGTAGCGAAAGAGCGTCCACGTGGTAGCTTTTTTC-TGTATTTTTACTGACAGTGCAT
1 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGAC-GACATTGCAT
* * *
37999504 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
65 CCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * ** * * * * *
37999566 AAACAACTGTAGCAAAAGAATGTACACGTGGTAGCTTTTTTCTATATTTTTG-CTGACATTGCAT
1 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGAC-GACATTGCAT
* * * * *
37999630 CTTACTTGAAGTGTTTCTGACACTATTTGCTCAAAAACGTCTTCTCAAAA
65 CCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAA
37999680 AAAATTTTAT
Statistics
Matches: 548, Mismatches: 62, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
122 1 0.00
123 95 0.17
124 1 0.00
125 7 0.01
126 328 0.60
127 116 0.21
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (126 bp):
GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCATC
CTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:37999423 original size:253 final size:249
Alignment explanation
Indices: 37998938--37999679 Score: 961
Period size: 253 Copynumber: 3.0 Consensus size: 249
37998928 GGCCAAGCAT
*
37998938 GAACTACTGTAGA-AAAAGAGCGTCCACGTGGGAG-CTTTCTTCAAAAATTTGGATGACATTGCA
1 GAACTACTGTA-ACAAAAGAGCGTCCACGTGGGAGCCTTT-TTCAAAAATTT-GACGACATTGCA
* *
37999001 TCATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACA--TCTTAAAATTATTTTTTCAGGAG
63 TCATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATTTCTCAAAATTATTTTTTCAGGAA
* * *
37999064 CTACTGTAACAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCATCCTA
128 CTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTC-AAAATTTTGATGACATTGCATCCTA
*
37999129 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
192 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
37999187 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCCTTTTTCAAAAAGTTTGACGACATTGCATC
1 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCCTTTTTCAAAAA-TTTGACGACATTGCATC
* * * *
37999252 TTGATTGAAGCATTTTTGACACTATTTGTTCAGAAACATTTTCTCAAAATTATTTTTTTTAGGAA
65 ATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACA-TTTCTCAAAATTA-TTTTTTCAGGAA
* * * *
37999317 CTACTTTAGCAAAAGAGCGTCCACGTGGGAGCATTTTTCAGAAATTTTGATGACATTGTATCCTG
128 CTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-AAATTTTGATGACATTGCATCCTA
*
37999382 CTTGAAGCGTTTTTGACACTATTTGTTCAGACACGTCTTCTCAAAATTATTTTTTCAA
192 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
* * * * *** * * *
37999440 GAACTACTGTAGCGAAAGAGCGTCCACGTGGTAGCTTTTTTCTGTATTTTTACTGACAGTGCATC
1 GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCCTTTTTCAAAAATTTGAC-GACATTGCATC
* * * **
37999505 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAAAAAC
65 ATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACAT-TTCTCAAAATTATTTTTTCAGGAAC
* ** * * * * * *
37999570 AACTGTAGCAAAAGAATGTACACGTGGTAGCTTTTTTCTATATTTTTGCTGACATTGCATCTTAC
129 TACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTC-AAAATTTTGATGACATTGCATCCTAC
* * * *
37999635 TTGAAGTGTTTCTGACACTATTTGCTCAAAAACGTCTTCTCAAAA
193 TTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAA
37999680 AAAATTTTAT
Statistics
Matches: 430, Mismatches: 52, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
248 1 0.00
249 88 0.20
250 7 0.02
252 117 0.27
253 217 0.50
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (249 bp):
GAACTACTGTAACAAAAGAGCGTCCACGTGGGAGCCTTTTTCAAAAATTTGACGACATTGCATCA
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATTTCTCAAAATTATTTTTTCAGGAACTA
CTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAATTTTGATGACATTGCATCCTACTTG
AAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:37999653 original size:379 final size:376
Alignment explanation
Indices: 37998938--37999679 Score: 1024
Period size: 379 Copynumber: 2.0 Consensus size: 376
37998928 GGCCAAGCAT
37998938 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAAAAATTTGGATGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAAAAATTTGGATGACATTGCATC
* *
37999003 ATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTAAAATTATTTTTTCAGGAGCTAC
66 ATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTAAAATTATTTTTTCAAGAACTAC
*
37999068 TGTAACAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACATTGCATCCTACTTG
131 TGTAACAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACAGTGCATCCTACTTG
* ** *
37999133 AAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTA
196 AAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAAAAACAACTGTA
* *
37999198 ACAAAAGAGCGTCCACGTGGGAGCCTTTTTCAAAAAGTTTGACGACATTGCATCTTGATTGAAGC
261 ACAAAAGAACGTACACGTGGGAGCCTTTTTCAAAAAGTTTGACGACATTGCATCTTGATTGAAGC
* * * *
37999263 ATTTTTGACACTATTTGTTCAGAAACATTTTCTCAAAATTATTTTTTTTAG
326 ATTTCTGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTTTAG
* * * * *
37999314 GAACTACTTTAGCAAAAGAGCGTCCACGTGGGAGCATTT-TTCAGAAATTTTGATGACATTGTAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTCTTCAAAAATTTGGATGACATTGCAT
* * *
37999378 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGACACGTCTTCTCAAAATTATTTTTTCAAGAA
65 CATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATC-T-T-AAAATTATTTTTTCAAGAA
* * * * *** *
37999443 CTACTGTAGCGAAAGAGCGTCCACGTGGTAGCTTTTTTC-TGTATTTTTACTGACAGTGCATCCT
127 CTACTGTAACAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGAC-GACAGTGCATCCT
*
37999507 GCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAAAAACAA
191 ACTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAAAAACAA
* * * * * * **
37999572 CTGTAGCAAAAGAATGTACACGTGGTAGCTTTTTTCTATATTTTTG-CTGACATTGCATCTT-AC
256 CTGTAACAAAAGAACGTACACGTGGGAGCCTTTTTCAAAAAGTTTGAC-GACATTGCATCTTGA-
** *
37999635 TTGAAGTGTTTCTGACACTATTTGCTCAAAAACGTCTTCTCAAAA
319 TTGAAGCATTTCTGACACTATTTGCTCAAAAACATCTTCTCAAAA
37999680 AAAATTTTAT
Statistics
Matches: 318, Mismatches: 41, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
376 93 0.29
377 4 0.01
378 10 0.03
379 211 0.66
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (376 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAAAAATTTGGATGACATTGCATC
ATGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTAAAATTATTTTTTCAAGAACTAC
TGTAACAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTGACGACAGTGCATCCTACTTG
AAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAAAAACAACTGTA
ACAAAAGAACGTACACGTGGGAGCCTTTTTCAAAAAGTTTGACGACATTGCATCTTGATTGAAGC
ATTTCTGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTTTAG
Found at i:37999790 original size:24 final size:22
Alignment explanation
Indices: 37999762--37999805 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
37999752 CATAATTTAA
37999762 TTAATTTTAATCCAAAACCCTAAT
1 TTAA-TTT-ATCCAAAACCCTAAT
*
37999786 TTAATTTATCTAAAACCCTA
1 TTAATTTATCCAAAACCCTA
37999806 TAACCCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 3 0.16
24 4 0.21
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAATTTATCCAAAACCCTAAT
Found at i:37999813 original size:30 final size:30
Alignment explanation
Indices: 37999777--38000012 Score: 116
Period size: 30 Copynumber: 7.9 Consensus size: 30
37999767 TTTAATCCAA
37999777 AACCCTAATTTAATTTATCTAAAACCCTAT
1 AACCCTAATTTAATTTATCTAAAACCCTAT
* * **
37999807 AACCCTAATTTACTTAATCTATTTAAAAACTAT
1 AACCCTAATTTAATTTATCTA---AAACCCTAT
* *
37999840 AAAGCCTAATTTAATTTAT-T------TTA-
1 -AACCCTAATTTAATTTATCTAAAACCCTAT
*
37999863 AACCCTAATTTAATTTATCTAAAACCCTAA
1 AACCCTAATTTAATTTATCTAAAACCCTAT
** * * * ** *
37999893 AACTTTAGTCTAATTAAT-TTTAACCC-AA
1 AACCCTAATTTAATTTATCTAAAACCCTAT
*
37999921 AACCCTAATTTAATTTATCTAAAACCCTAG
1 AACCCTAATTTAATTTATCTAAAACCCTAT
* * * *
37999951 AACTCTAATTTACTTAATCTATTTAAAAACC-AT
1 AACCCTAA--T--TTAATTTATCTAAAACCCTAT
* *
37999984 AAACCCTAATTTAATTTATTTTAAACCCT
1 -AACCCTAATTTAATTTATCTAAAACCCT
38000013 TATTTAATTT
Statistics
Matches: 152, Mismatches: 34, Indels: 39
0.68 0.15 0.17
Matches are distributed among these distances:
22 17 0.11
23 1 0.01
24 2 0.01
28 15 0.10
29 14 0.09
30 55 0.36
32 2 0.01
33 9 0.06
34 37 0.24
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.39
Consensus pattern (30 bp):
AACCCTAATTTAATTTATCTAAAACCCTAT
Found at i:37999834 original size:34 final size:34
Alignment explanation
Indices: 37999786--37999852 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
37999776 AAACCCTAAT
* *
37999786 TTAATTTATCTAAAACCCTAT-AACCCTAATTTAC
1 TTAATCTATCTAAAA-ACTATAAACCCTAATTTAC
* *
37999820 TTAATCTATTTAAAAACTATAAAGCCTAATTTA
1 TTAATCTATCTAAAAACTATAAACCCTAATTTA
37999853 ATTTATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (34 bp):
TTAATCTATCTAAAAACTATAAACCCTAATTTAC
Found at i:37999869 original size:22 final size:22
Alignment explanation
Indices: 37999839--37999892 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
37999829 TTAAAAACTA
* *
37999839 TAAAGCCTAATTTAATTTATTT
1 TAAACCCTAATTTAATTTATCT
37999861 TAAACCCTAATTTAATTTATCT
1 TAAACCCTAATTTAATTTATCT
*
37999883 AAAACCCTAA
1 TAAACCCTAA
37999893 AACTTTAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAACCCTAATTTAATTTATCT
Found at i:37999947 original size:22 final size:22
Alignment explanation
Indices: 37999919--38000040 Score: 69
Period size: 22 Copynumber: 5.6 Consensus size: 22
37999909 ATTTTAACCC
37999919 AAAACCCTAATTTAATTTATCT
1 AAAACCCTAATTTAATTTATCT
*
37999941 AAAACCCTAGAACTCTAATTTA-CT
1 AAAACCCT--AA-TTTAATTTATCT
* * ** *
37999965 -TAA-TCT-ATTTAA-AAACCAT
1 AAAACCCTAATTTAATTTATC-T
*
37999984 AA-ACCCTAATTTAATTTATTT
1 AAAACCCTAATTTAATTTATCT
* *
38000005 TAAACCCTTATTTAATTTAT-T
1 AAAACCCTAATTTAATTTATCT
38000026 GAAAACCCTAATTTA
1 -AAAACCCTAATTTA
38000041 TGTAACCTAT
Statistics
Matches: 73, Mismatches: 16, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
17 1 0.01
18 5 0.07
19 3 0.04
20 2 0.03
21 9 0.12
22 39 0.53
23 2 0.03
24 4 0.05
25 8 0.11
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAACCCTAATTTAATTTATCT
Found at i:37999947 original size:144 final size:140
Alignment explanation
Indices: 37999759--38000139 Score: 525
Period size: 144 Copynumber: 2.7 Consensus size: 140
37999749 AACCATAATT
* *
37999759 TAATTAATTTTAATCCAAAACCCTAATTTAATTTATCTAAAACCCTATAACCCTAATTTACTTAA
1 TAATTAATTTTAACCCAAAACCCTAATTTAATTTATCTAAAACCCTAAAACCCTAATTTACTTAA
*
37999824 TCTATTTAAAAACTATAAAGCCTAATTTAATTTATTTTAAACCCTAATTTAATTTATCT-AAAAC
66 TCTATTTAAAAACTATAAACCCTAATTTAATTTATTTTAAACCCTAATTTAATTTAT-TGAAAAC
37999888 CCTAAAACTTTAGTC
130 CCT--AA-TTTA-TC
* *
37999903 TAATTAATTTTAACCCAAAACCCTAATTTAATTTATCTAAAACCCTAGAACTCTAATTTACTTAA
1 TAATTAATTTTAACCCAAAACCCTAATTTAATTTATCTAAAACCCTAAAACCCTAATTTACTTAA
* *
37999968 TCTATTTAAAAACCATAAACCCTAATTTAATTTATTTTAAACCCTTATTTAATTTATTGAAAACC
66 TCTATTTAAAAACTATAAACCCTAATTTAATTTATTTTAAACCCTAATTTAATTTATTGAAAACC
*
38000033 CTAATTTATG
131 CTAATTTATC
* * * * * * *
38000043 TAACCT-ATTTAAAAACTCTAAACCCTAATTTAATTTATTTTAAACCCTAAAACCCTAATTTACA
1 TAA-TTAATTT--TAACCCAAAACCCTAATTTAATTTATCTAAAACCCTAAAACCCTAATTTACT
38000107 TAATCTATTTAAAAACCT-TAAACCCTAATTTAA
63 TAATCTATTTAAAAA-CTATAAACCCTAATTTAA
38000140 ATAATTTTTA
Statistics
Matches: 215, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
140 8 0.04
141 5 0.02
142 76 0.35
143 2 0.01
144 124 0.58
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.39
Consensus pattern (140 bp):
TAATTAATTTTAACCCAAAACCCTAATTTAATTTATCTAAAACCCTAAAACCCTAATTTACTTAA
TCTATTTAAAAACTATAAACCCTAATTTAATTTATTTTAAACCCTAATTTAATTTATTGAAAACC
CTAATTTATC
Found at i:37999968 original size:34 final size:34
Alignment explanation
Indices: 37999930--37999996 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
37999920 AAACCCTAAT
* * *
37999930 TTAATTTATCT-AAAACCCTAGAACTCTAATTTAC
1 TTAATCTATCTAAAAACCATA-AACCCTAATTTAC
*
37999964 TTAATCTATTTAAAAACCATAAACCCTAATTTA
1 TTAATCTATCTAAAAACCATAAACCCTAATTTA
37999997 ATTTATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.37
Consensus pattern (34 bp):
TTAATCTATCTAAAAACCATAAACCCTAATTTAC
Found at i:37999968 original size:58 final size:62
Alignment explanation
Indices: 37999861--38000012 Score: 186
Period size: 58 Copynumber: 2.5 Consensus size: 62
37999851 TAATTTATTT
* * *
37999861 TAAACCCTAATTTAATTTATCTAAAACCCTAAAACTTTAGTCTAATTAA-T-TTT-AACCCA
1 TAAACCCTAATTTAATTTATCTAAAACCCTAAAACTCTAATCTAATTAACTATTTAAAACCA
* * *
37999920 -AAACCCTAATTTAATTTATCTAAAACCCTAGAACTCTAATTTACTTAATCTATTTAAAAACCA
1 TAAACCCTAATTTAATTTATCTAAAACCCTAAAACTCTAATCTAATTAA-CTATTT-AAAACCA
* *
37999983 TAAACCCTAATTTAATTTATTTTAAACCCT
1 TAAACCCTAATTTAATTTATCTAAAACCCT
38000013 TATTTAATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 43 0.54
60 1 0.01
61 3 0.04
63 5 0.06
64 27 0.34
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.38
Consensus pattern (62 bp):
TAAACCCTAATTTAATTTATCTAAAACCCTAAAACTCTAATCTAATTAACTATTTAAAACCA
Found at i:38000144 original size:34 final size:34
Alignment explanation
Indices: 38000028--38000144 Score: 127
Period size: 34 Copynumber: 3.6 Consensus size: 34
38000018 AATTTATTGA
** *
38000028 AAACCCTAATTTATGTAACCTATTTAAAAA-CTCT
1 AAACCCTAATTTAAATAATCTATTTAAAAACCT-T
* * *
38000062 AAACCCTAATTT-AAT--T-TATTTTAAACCCTA
1 AAACCCTAATTTAAATAATCTATTTAAAAACCTT
*
38000092 AAACCCTAATTTACATAATCTATTTAAAAACCTT
1 AAACCCTAATTTAAATAATCTATTTAAAAACCTT
38000126 AAACCCTAATTTAAATAAT
1 AAACCCTAATTTAAATAAT
38000145 TTTTATAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
30 20 0.30
31 4 0.06
33 2 0.03
34 41 0.61
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.36
Consensus pattern (34 bp):
AAACCCTAATTTAAATAATCTATTTAAAAACCTT
Found at i:38000147 original size:64 final size:64
Alignment explanation
Indices: 38000027--38000147 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
38000017 TAATTTATTG
** * *
38000027 AAAACCCTAATTTATGTAACCTATTTAAAAACTCTAAACCCTAATTTAATTTATTTTAAACCCT
1 AAAACCCTAATTTACATAACCTATTTAAAAACTCTAAACCCTAATTTAAATAATTTTAAACCCT
*
38000091 AAAACCCTAATTTACATAATCTATTTAAAAAC-CTTAAACCCTAATTTAAATAATTTT
1 AAAACCCTAATTTACATAACCTATTTAAAAACTC-TAAACCCTAATTTAAATAATTTT
38000148 TATAAAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 1 0.02
64 50 0.98
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (64 bp):
AAAACCCTAATTTACATAACCTATTTAAAAACTCTAAACCCTAATTTAAATAATTTTAAACCCT
Found at i:38000549 original size:38 final size:38
Alignment explanation
Indices: 38000494--38000570 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
38000484 TTAATCTTTG
* * * *
38000494 TTTAAAAATTTTCATGAAATTCTTTAAAAAATAATTAA
1 TTTAAAAATTTTAATGAAAATATTTAAAAAAAAATTAA
*
38000532 TTTAAAATTTTTAATGAAAATATTTAAAAAAAAATTAA
1 TTTAAAAATTTTAATGAAAATATTTAAAAAAAAATTAA
38000570 T
1 T
38000571 GAATTGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (38 bp):
TTTAAAAATTTTAATGAAAATATTTAAAAAAAAATTAA
Found at i:38013991 original size:41 final size:42
Alignment explanation
Indices: 38013928--38014076 Score: 158
Period size: 41 Copynumber: 3.5 Consensus size: 42
38013918 TAAGATTACG
* *
38013928 TGTAACACCATATCTGGGATATGGCATCGATATGAGGCTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGGCTTCA
* **
38013970 TGT-AGACCATATCTGGGATATGACATCGATATGAGACTTTT
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGGCTTCA
* * * * * * *
38014011 TTTAAGACTATAGCTGGGGTATTGACATTGATAGGA-GATTACA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGGCTT-CA
38014054 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
38014077 GCATTAGTAT
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
41 35 0.41
42 21 0.25
43 29 0.34
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGGCTTCA
Found at i:38023923 original size:90 final size:90
Alignment explanation
Indices: 38023770--38023955 Score: 363
Period size: 90 Copynumber: 2.1 Consensus size: 90
38023760 CTTGATAACC
38023770 ATACCATGTTCTAAGTTACATTTTCTTCATTTTACCCTATCACATCATATGCATATATCCTATCA
1 ATACCATGTTCTAAGTTACATTTTCTTCATTTTACCCTATCACATCATATGCATATATCCTATCA
38023835 TGGAAATGAATTAATATACATATAT
66 TGGAAATGAATTAATATACATATAT
*
38023860 ATACCATGTTCTAAGTTACATTTTCTTTATTTTACCCTATCACATCATATGCATATATCCTATCA
1 ATACCATGTTCTAAGTTACATTTTCTTCATTTTACCCTATCACATCATATGCATATATCCTATCA
38023925 TGGAAATGAATTAATATACATATAT
66 TGGAAATGAATTAATATACATATAT
38023950 ATACCA
1 ATACCA
38023956 ACCATAATTT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 95 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (90 bp):
ATACCATGTTCTAAGTTACATTTTCTTCATTTTACCCTATCACATCATATGCATATATCCTATCA
TGGAAATGAATTAATATACATATAT
Found at i:38025305 original size:43 final size:45
Alignment explanation
Indices: 38025255--38025420 Score: 230
Period size: 45 Copynumber: 3.7 Consensus size: 45
38025245 CAATGCTGAT
* * * *
38025255 GTCCTAGACATGGTCTTACTCGTAATCACATAT-T-GATGCCAAC
1 GTCCTAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
* *
38025298 GTCCTAGATGTGGTCTTACACGAAAACACATATATCAATGCCAAC
1 GTCCTAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
38025343 GT-CTCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
1 GTCCT-AGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
* *
38025388 GTCCCAGATGTGGTCTTACACGAAAACACATAT
1 GTCCTAGACGTGGTCTTACACGAAAACACATAT
38025421 CAGAATCCTA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
43 28 0.26
44 3 0.03
45 77 0.71
46 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (45 bp):
GTCCTAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
Found at i:38025566 original size:30 final size:29
Alignment explanation
Indices: 38025511--38025568 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
38025501 ATCACATTCG
38025511 AATTTCACATATATAATCTCTTATAATTT
1 AATTTCACATATATAATCTCTTATAATTT
38025540 AATTTCAGCATAT-TAA-CTCGTATATAATT
1 AATTTCA-CATATATAATCTC-T-TATAATT
38025569 AGAATTAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 3 0.12
29 11 0.42
30 12 0.46
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (29 bp):
AATTTCACATATATAATCTCTTATAATTT
Found at i:38026536 original size:14 final size:15
Alignment explanation
Indices: 38026519--38026547 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38026509 TCACAAAAAT
38026519 TTCACACAT-ATAAA
1 TTCACACATAATAAA
38026533 TTCACACATAATAAA
1 TTCACACATAATAAA
38026548 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:38030433 original size:10 final size:11
Alignment explanation
Indices: 38030414--38030443 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
38030404 AATTTAATAA
38030414 AATTCACATTC
1 AATTCACATTC
38030425 AATTC-CATTC
1 AATTCACATTC
38030435 AATTCACAT
1 AATTCACAT
38030444 CTTAGGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTCACATTC
Found at i:38032053 original size:67 final size:67
Alignment explanation
Indices: 38031942--38032105 Score: 256
Period size: 67 Copynumber: 2.4 Consensus size: 67
38031932 GTCTTCTTGT
* * *
38031942 TTACACCTGTAACCCTATGTTTAATGTCCTGGCAAACTCCTCATGTTGCCATAATTGAGCTAAGG
1 TTACACATGTAACCCTATGTTTAATGTCCTAGCAAACTCCTCATGTTGCCATAACTGAGCTAAGG
38032007 TC
66 TC
* * *
38032009 TTACACATGTAACCCTATGTTTAATGTTCTAGCAAACTCTTCATGTTGCCATAGCTGAGCTAAGG
1 TTACACATGTAACCCTATGTTTAATGTCCTAGCAAACTCCTCATGTTGCCATAACTGAGCTAAGG
38032074 TC
66 TC
* *
38032076 TTACACATGTAACCTTATATTTAATGTCCT
1 TTACACATGTAACCCTATGTTTAATGTCCT
38032106 TCCGGACTAC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 88 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (67 bp):
TTACACATGTAACCCTATGTTTAATGTCCTAGCAAACTCCTCATGTTGCCATAACTGAGCTAAGG
TC
Found at i:38036737 original size:43 final size:43
Alignment explanation
Indices: 38036687--38036946 Score: 362
Period size: 43 Copynumber: 6.1 Consensus size: 43
38036677 ATGCCGCTAA
* * * *
38036687 AAAGAACATGACTTTTAGCGGCGCTTTTCCCACAAATC-CCGCT
1 AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAA-CGCCGCT
38036730 AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAACGCCGCT
1 AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAACGCCGCT
* * *
38036773 AAAGAACATGATCTTTAGCAGCACTTTTCCCACAAAC-CCGCT
1 AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAACGCCGCT
* *
38036815 GAAGAACATGACCTTTAGCGGCCCCTTTCCCACAAACGCCGCT
1 AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAACGCCGCT
* *
38036858 AAAGAACATGATCTTTAGCGGCCCCTTTCCCACAAACGCCGCT
1 AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAACGCCGCT
* * * *
38036901 AAAGAACATGACCTTTAGCAACGCTTTTCCCACAAACGCTGCT
1 AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAACGCCGCT
38036944 AAA
1 AAA
38036947 AGTTGCATTC
Statistics
Matches: 195, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
42 38 0.19
43 157 0.81
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (43 bp):
AAAGAACATGACCTTTAGCAGCCCCTTTCCCACAAACGCCGCT
Found at i:38036840 original size:85 final size:85
Alignment explanation
Indices: 38036687--38036946 Score: 396
Period size: 85 Copynumber: 3.0 Consensus size: 85
38036677 ATGCCGCTAA
*
38036687 AAAGAACATGA-CTTTTAGCGGCGCTTTTCCCACAAATCCCGCTAAAGAACATGACCTTTAGCAG
1 AAAGAACATGATC-TTTAGCGGCACTTTTCCCACAAA-CCCGCTAAAGAACATGACCTTTAGCAG
38036751 CCCCTTTCCCACAAACGCCGCT
64 CCCCTTTCCCACAAACGCCGCT
* * *
38036773 AAAGAACATGATCTTTAGCAGCACTTTTCCCACAAACCCGCTGAAGAACATGACCTTTAGCGGCC
1 AAAGAACATGATCTTTAGCGGCACTTTTCCCACAAACCCGCTAAAGAACATGACCTTTAGCAGCC
38036838 CCTTTCCCACAAACGCCGCT
66 CCTTTCCCACAAACGCCGCT
* * *
38036858 AAAGAACATGATCTTTAGCGGCCCCTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAAC
1 AAAGAACATGATCTTTAGCGGCACTTTTCCCACAAAC-CCGCTAAAGAACATGACCTTTAGCAGC
* * *
38036923 GCTTTTCCCACAAACGCTGCT
65 CCCTTTCCCACAAACGCCGCT
38036944 AAA
1 AAA
38036947 AGTTGCATTC
Statistics
Matches: 159, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
85 81 0.51
86 77 0.48
87 1 0.01
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (85 bp):
AAAGAACATGATCTTTAGCGGCACTTTTCCCACAAACCCGCTAAAGAACATGACCTTTAGCAGCC
CCTTTCCCACAAACGCCGCT
Found at i:38036917 original size:128 final size:128
Alignment explanation
Indices: 38036688--38036937 Score: 412
Period size: 128 Copynumber: 2.0 Consensus size: 128
38036678 TGCCGCTAAA
* * *
38036688 AAGAACATGACTTTTAGCGGCGCTTTTCCCACAAATCCCGCTAAAGAACATGACCTTTAGCAGCC
1 AAGAACATGACCTTTAGCGGCCCCTTTCCCACAAATCCCGCTAAAGAACATGACCTTTAGCAGCC
* *
38036753 CCTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCAGCACTTTTCCCACAAACCCGCTG
66 CCTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAACACTTTTCCCACAAACCCGCTG
* *
38036816 AAGAACATGACCTTTAGCGGCCCCTTTCCCACAAA-CGCCGCTAAAGAACATGATCTTTAGCGGC
1 AAGAACATGACCTTTAGCGGCCCCTTTCCCACAAATC-CCGCTAAAGAACATGACCTTTAGCAGC
*
38036880 CCCTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAACGCTTTTCCCACAAAC
65 CCCTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAACACTTTTCCCACAAAC
38036938 GCTGCTAAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
127 1 0.01
128 112 0.99
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.22
Consensus pattern (128 bp):
AAGAACATGACCTTTAGCGGCCCCTTTCCCACAAATCCCGCTAAAGAACATGACCTTTAGCAGCC
CCTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAACACTTTTCCCACAAACCCGCTG
Found at i:38038580 original size:27 final size:27
Alignment explanation
Indices: 38038550--38038641 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
38038540 ATTACCAAAG
* * *
38038550 TACCCTCAATTTATAGAATCACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
38038577 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
38038604 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
38038631 TACCCTCGATT
1 TACCCTCGATT
38038642 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:38038663 original size:27 final size:27
Alignment explanation
Indices: 38038633--38038739 Score: 106
Period size: 27 Copynumber: 4.0 Consensus size: 27
38038623 TACCGTTTTA
* * *
38038633 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* **
38038660 CCCTATAGGGTAAAATTACCAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
*
38038687 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * * * *
38038714 CACTGGTTTGTGAAATTACCGAAATA
1 CCCTAGATTGTAAAATTACCAAAATA
38038740 AAATTACCAA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (27 bp):
CCCTAGATTGTAAAATTACCAAAATAC
Found at i:38038842 original size:27 final size:27
Alignment explanation
Indices: 38038739--38038845 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
38038729 TTACCGAAAT
* * *
38038739 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCTTGGTTTAC
*
38038766 AAAATTAC-AAAATACCCTTGACTTT-C
1 AAAATTACTAAAATACCCTTG-GTTTAC
*
38038792 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTTGGTTTAC
*
38038821 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTAAAATACCCTTGGTTT
38038846 GTAGATTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
26 12 0.18
27 32 0.48
28 12 0.18
29 11 0.16
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTAC
Found at i:38038945 original size:27 final size:27
Alignment explanation
Indices: 38038898--38038961 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
38038888 ACCCCTAATA
*
38038898 GGTAAAA-AACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
38038924 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
38038951 GGTAAAATGAC
1 GGTAAAATGAC
38038962 GAATATGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.19
27 25 0.78
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:38039828 original size:24 final size:25
Alignment explanation
Indices: 38039771--38039839 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
38039761 AGGAAGTGCT
*
38039771 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
38039796 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
38039820 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38039840 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:38044882 original size:18 final size:18
Alignment explanation
Indices: 38044859--38044893 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38044849 GAGAATGGTT
38044859 GAGAAAGAAAAGGAAATC
1 GAGAAAGAAAAGGAAATC
*
38044877 GAGAAAGAAGAGGAAAT
1 GAGAAAGAAAAGGAAAT
38044894 TGGGGGGAGA
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:0.60, C:0.03, G:0.31, T:0.06
Consensus pattern (18 bp):
GAGAAAGAAAAGGAAATC
Found at i:38045173 original size:20 final size:20
Alignment explanation
Indices: 38045131--38045173 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38045121 TAAATATTTT
*
38045131 TTTAAAAAAATTAAGTAATA
1 TTTAAAAAAATTAAGTAAAA
*
38045151 TTTAAAAGAATT-AGATAAAA
1 TTTAAAAAAATTAAG-TAAAA
38045171 TTT
1 TTT
38045174 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
TTTAAAAAAATTAAGTAAAA
Found at i:38046205 original size:40 final size:40
Alignment explanation
Indices: 38046161--38046350 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 40
38046151 AATATTTTTT
* * * *
38046161 GCGGCATTTTTGATAAAGCGCCGCTAAAGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * *
38046201 GCGGCGTTTTTCAAAATGTGCTGCTAATGGTCG-TCTTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATA
* * * *
38046241 GCGGCG-TTTCCTAAAAAGCGCTGCTAGTGCTCAATCTATA
1 GCGGCGTTTTTC-AAAAAGCGCCGCTAATGCTCGATCTATA
* * *
38046281 GCGGAGTTTTTCAAAAAGCACCGCTAACGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*
38046321 GCGGCGTTTTTCAAAAAGCACCGCTAATGC
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGC
38046351 CACTAAATCT
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 6 0.05
40 111 0.90
41 6 0.05
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:38046487 original size:40 final size:40
Alignment explanation
Indices: 38046397--38046488 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
38046387 AATTTTTTTA
* *
38046397 CGGCGTTTTTTAACAAGCGTCGCTAATACTAGATCTATAG
1 CGGCGTTTTTTAACAAACGCCGCTAATACTAGATCTATAG
* * * *
38046437 CGGC-TCTTTTTGAA-AAACGCCGCTAATGCTCGTTCTGTAG
1 CGGCGT-TTTTT-AACAAACGCCGCTAATACTAGATCTATAG
38046477 CGGCGTTTTTTA
1 CGGCGTTTTTTA
38046489 TCCAAATGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
39 2 0.05
40 38 0.88
41 3 0.07
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (40 bp):
CGGCGTTTTTTAACAAACGCCGCTAATACTAGATCTATAG
Found at i:38047009 original size:22 final size:22
Alignment explanation
Indices: 38046977--38047021 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38046967 TCAAAGGTGT
38046977 TTGTCGAGACTAAAATCATGAA
1 TTGTCGAGACTAAAATCATGAA
*
38046999 TTGTCGGGACTAAAATCATGAA
1 TTGTCGAGACTAAAATCATGAA
38047021 T
1 T
38047022 CTCTGAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (22 bp):
TTGTCGAGACTAAAATCATGAA
Found at i:38047318 original size:29 final size:29
Alignment explanation
Indices: 38047276--38047380 Score: 84
Period size: 29 Copynumber: 3.4 Consensus size: 29
38047266 TACCAGGAGA
* *
38047276 AGGAAAGTCTTTGTGGCAATACTCTGGAC
1 AGGAAAGCCTTTGTGGCAATACTATGGAC
* * * *
38047305 AGGAAAGCCTTTGTAGCGAGTACTAAATGTAA
1 AGGAAAGCCTTTGTGGC-AATACT--ATGGAC
* *
38047337 AGGAAAGCATTTGTGGCAATACTTTGGAC
1 AGGAAAGCCTTTGTGGCAATACTATGGAC
*
38047366 AAGAAAAGCCCTTTG
1 -AGGAAAG-CCTTTG
38047381 CCGAGTACTA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
29 18 0.32
30 11 0.19
31 10 0.18
32 18 0.32
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (29 bp):
AGGAAAGCCTTTGTGGCAATACTATGGAC
Found at i:38047448 original size:61 final size:61
Alignment explanation
Indices: 38047275--38047449 Score: 194
Period size: 61 Copynumber: 2.9 Consensus size: 61
38047265 TTACCAGGAG
* *
38047275 AAGGAAAGTCTTTGTGGCAATACTCTGGACAGGAAAGCCTTTGT-AGCGAGTACTAAATGTA
1 AAGGAAAGCCTTTGTGGCAATACTCTGGACAAGAAAGCCTTTGTGA-CGAGTACTAAATGTA
* * * * *
38047336 AAGGAAAGCATTTGTGGCAATACTTTGGACAAGAAAAGCCCTT-TGCCGAGTACTAGATGTA
1 AAGGAAAGCCTTTGTGGCAATACTCTGGACAAG-AAAGCCTTTGTGACGAGTACTAAATGTA
* * * * *
38047397 AATGACAA-CCTTTGTAGCAATACTCTAGATAAGAAAGCCTTTGTGATGAGTAC
1 AAGGA-AAGCCTTTGTGGCAATACTCTGGACAAGAAAGCCTTTGTGACGAGTAC
38047450 AGGATATAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
60 8 0.09
61 76 0.81
62 10 0.11
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (61 bp):
AAGGAAAGCCTTTGTGGCAATACTCTGGACAAGAAAGCCTTTGTGACGAGTACTAAATGTA
Found at i:38049046 original size:2 final size:2
Alignment explanation
Indices: 38049039--38049065 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38049029 ATCTTTCACC
38049039 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
38049066 TCTATACACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38050978 original size:22 final size:22
Alignment explanation
Indices: 38050914--38050981 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 22
38050904 ATTGGCATTG
38050914 ATACGAGATTACATGTAAGACC
1 ATACGAGATTACATGTAAGACC
*
38050936 ATATCTGGGATATGACATGTAAGACC
1 ATA-C-GAGAT-T-ACATGTAAGACC
38050962 ATACGAGATTACATGTAAGA
1 ATACGAGATTACATGTAAGA
38050982 TCATTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 13 0.32
23 2 0.05
24 8 0.20
25 2 0.05
26 15 0.38
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (22 bp):
ATACGAGATTACATGTAAGACC
Found at i:38053452 original size:20 final size:21
Alignment explanation
Indices: 38053413--38053452 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
38053403 AAGGGCTATT
*
38053413 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTGTGTAAAATAAG
*
38053434 TTGTAAA-TGTGTGAAATAA
1 TTGTAAAGTGTGTAAAATAA
38053453 TTGAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTGTGTAAAATAAG
Found at i:38054188 original size:46 final size:45
Alignment explanation
Indices: 38054114--38054335 Score: 182
Period size: 46 Copynumber: 4.7 Consensus size: 45
38054104 TGATATGTGT
* *
38054114 GCTAGTGTAAGACATATTTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGA
* * * *
38054160 GCTAATGTAAGACATGTTTGGGAAATGCATCGG--CATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATT---ATGAGA
* *
38054206 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATG-AGA
* *
38054254 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCC-C-AT-TATGAGA
* *
38054303 G-TCAGTGTAAGACCTGTCTGGGAGATGGCATCG
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCG
38054336 ACTTAGATAC
Statistics
Matches: 149, Mismatches: 14, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.03
46 64 0.43
48 29 0.19
49 50 0.34
50 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGA
Found at i:38054310 original size:49 final size:48
Alignment explanation
Indices: 38054208--38054335 Score: 195
Period size: 49 Copynumber: 2.6 Consensus size: 48
38054198 AGACGAGAGC
* *
38054208 CAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCAAG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATGAAAG
*
38054255 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAG
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATGAAAG
*
38054304 TCAGTGTAAGACCTGTCTGGGAGATGGCATCG
1 -CAGTGTAAGACCTGTCTGGGACATGGCATCG
38054336 ACTTAGATAC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
47 1 0.01
48 22 0.30
49 50 0.68
50 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATGAAAG
Found at i:38057685 original size:63 final size:62
Alignment explanation
Indices: 38057617--38057812 Score: 245
Period size: 63 Copynumber: 3.1 Consensus size: 62
38057607 TCACACGGCT
** * *
38057617 TGAACACATGCCCATGTCTCTCACCCATGTGAACCTAATTCCAAAACAGTGAGTAACACGACC
1 TGAACACATG-CCATGTCTCTGGCCCGTGTGAACCTAATTCCAAAACAGTGAGTTACACGACC
*
38057680 TGAACACACGTCCATGTCTCTGGCCCGTGT-AACTCTAATTCCAAAACAGTGAGTTACACGACC
1 TGAACACATG-CCATGTCTCTGGCCCGTGTGAAC-CTAATTCCAAAACAGTGAGTTACACGACC
* ** *
38057743 TGGACATACAT-CTGTGTCTCTGGCCCGTGTGAACCTAATTCTAAAACAGTGAGTTACACGACC
1 T-GA-ACACATGCCATGTCTCTGGCCCGTGTGAACCTAATTCCAAAACAGTGAGTTACACGACC
38057806 T-AACACA
1 TGAACACA
38057813 CGGCCATGGG
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
60 4 0.03
61 1 0.01
62 3 0.03
63 100 0.85
64 5 0.04
65 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (62 bp):
TGAACACATGCCATGTCTCTGGCCCGTGTGAACCTAATTCCAAAACAGTGAGTTACACGACC
Found at i:38068569 original size:11 final size:12
Alignment explanation
Indices: 38068546--38068578 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38068536 AAATATTAAA
38068546 AATATAATAATT
1 AATATAATAATT
*
38068558 AAT-TAATTATT
1 AATATAATAATT
38068569 AATATAATAA
1 AATATAATAA
38068579 AATTTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATAATAATT
Found at i:38075686 original size:5 final size:5
Alignment explanation
Indices: 38075676--38075708 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
38075666 ATTAAAAATT
*
38075676 AATAA AATAA AATAA AATAA AATAA ACTAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT
38075709 TGATTGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:38080845 original size:12 final size:12
Alignment explanation
Indices: 38080828--38080852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38080818 GGGTTGATCC
38080828 AAGAGAGAGAGA
1 AAGAGAGAGAGA
38080840 AAGAGAGAGAGA
1 AAGAGAGAGAGA
38080852 A
1 A
38080853 GGCAATGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AAGAGAGAGAGA
Found at i:38082573 original size:19 final size:19
Alignment explanation
Indices: 38082551--38082588 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38082541 AAAAAAAGGG
*
38082551 CAAAAAGGAAATTTTGTCA
1 CAAAAAGGAAATTTGGTCA
*
38082570 CAAAAAGGTAATTTGGTCA
1 CAAAAAGGAAATTTGGTCA
38082589 ATTCTTGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (19 bp):
CAAAAAGGAAATTTGGTCA
Found at i:38085301 original size:15 final size:15
Alignment explanation
Indices: 38085281--38085311 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38085271 ATGAGGTATG
*
38085281 ACGAAAGTGATGGTT
1 ACGAAAGGGATGGTT
38085296 ACGAAAGGGATGGTT
1 ACGAAAGGGATGGTT
38085311 A
1 A
38085312 TGATGTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.23
Consensus pattern (15 bp):
ACGAAAGGGATGGTT
Found at i:38089859 original size:47 final size:44
Alignment explanation
Indices: 38089788--38090003 Score: 200
Period size: 47 Copynumber: 4.6 Consensus size: 44
38089778 TGATTTGTGT
* *
38089788 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTTAG-CATA-AATGAGA
* * * *
38089834 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCCAAACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTTAGCAT--AAATGAGA
* * *
38089882 GCTAGTGTAAGACATGTCTGGGACATGCTTCAAGCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTT-TAGCATA-AATGAGA
* *
38089928 GCCAGTGTAAGACCATGTCTGGGACATGGCATCTGTA-CAGAAATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GC-T-T-TAGCATAAATGAGA
*
38089976 GCCAGAGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
38090004 ATCGACCTCG
Statistics
Matches: 141, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 32 0.23
47 64 0.45
48 37 0.26
49 5 0.04
50 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTTAGCATAAATGAGA
Found at i:38089952 original size:94 final size:91
Alignment explanation
Indices: 38089791--38090146 Score: 325
Period size: 94 Copynumber: 3.8 Consensus size: 91
38089781 TTTGTGTGCC
***
38089791 AGTGTAAGACATGTCTGGGACATGCTTTGGCCAT-ATTATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGC-TTCAACATCATTATGAGAGCCAGTGTAAGACCATGTCTG
*
38089855 GGACATGGCATCAGCATCCAAACGAGGGCT
65 GGACATGGCATCTG-AT-CAAA-GAGGGCT
38089885 AGTGTAAGACATGTCTGGGACATGCTTCAAGCAT-ATTATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCTTCAA-CATCATTATGAGAGCCAGTGTAAGACCATGTCTG
* *
38089949 GGACATGGCATCTG-TACAGAAATGAGTGCC
65 GGACATGGCATCTGAT-C--AAA-GAGGGCT
* * * * * *
38089979 AGAGTAAGACATGTCTGGGACATGCATCGACCTCGA-TA-GAGATAGCTAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCTTCAACATC-ATTATGAG--AGCCAGTGTAAGACCATGTC
* * *
38090041 TGGGACA-CGCAT-TGGT-TAAGAGTTGTGCT
63 TGGGACATGGCATCTGATCAAAGAG--G-GCT
* * * *
38090070 AGTGTAAGACATGTTTTGTACATGCTTCAACATGCATGTATGAAAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCTTCAACAT-CAT-TATGAGAGCCAGTGTAAGACCATGTCT
38090135 GGGACATGGCAT
64 GGGACATGGCAT
38090147 TGACAATTTA
Statistics
Matches: 216, Mismatches: 29, Indels: 34
0.77 0.10 0.12
Matches are distributed among these distances:
88 3 0.01
89 2 0.01
91 29 0.13
92 17 0.08
93 26 0.12
94 126 0.58
95 13 0.06
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCTTCAACATCATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCTGATCAAAGAGGGCT
Found at i:38090033 original size:47 final size:46
Alignment explanation
Indices: 38089788--38090052 Score: 181
Period size: 47 Copynumber: 5.7 Consensus size: 46
38089778 TGATTTGTGT
* * *
38089788 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCAT-ATTATGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACC-TGA-TATGAGTA
* * *
38089834 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCC--AAACGAG-G
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-G-A-CCTGATATGAGTA
* * * *
38089882 GCTAGTGTAAGACATGTCTGGGACATGCTTCAAGCAT-ATTATGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGA-CCTGA-TATGAGTA
* *
38089928 GCCAGTGTAAGACCATGTCTGGGACATGGCATCTGTA-CAGAAATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-G-ACCTGATATGAGTA
*
38089976 GCCAGAGTAAGACATGTCTGGGACATGCATCGACCTCGATA-GAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCT-GATATGAG-TA
* * *
38090023 GCTAGTGTAAGACGTGTCTGGGACACGCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCAT
38090053 TGGTTAAGAG
Statistics
Matches: 175, Mismatches: 27, Indels: 33
0.74 0.11 0.14
Matches are distributed among these distances:
44 3 0.02
45 6 0.03
46 40 0.23
47 82 0.47
48 38 0.22
49 3 0.02
50 1 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTGATATGAGTA
Found at i:38090041 original size:141 final size:140
Alignment explanation
Indices: 38089788--38090047 Score: 323
Period size: 141 Copynumber: 1.9 Consensus size: 140
38089778 TGATTTGTGT
* * * * *
38089788 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCATATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCTCTGGACAGATAATGAGAGCCAGAGTAAGACCATGTC
*
38089853 TGGGACATGGCATCAGCATCCAAACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAAGCA
66 TGGGACATGGCATCAGCATCCAAACGAGAGCTAGTGTAAGACATGTCTGGGACATGCTTCAAGCA
38089918 TATTATGAGA
131 TATTATGAGA
* *
38089928 GCCAGTGTAAGACCATGTCTGGGACATGGCATCTGTACAGA-AATGAGTGCCAGAGTAAGA-CAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GC-TCTGGACAGATAATGAGAGCCAGAGTAAGACCAT
* * * *
38089991 GTCTGGGACAT-GCATC-GACCTCGATAGA-GATAGCTAGTGTAAGACGTGTCTGGGACA
63 GTCTGGGACATGGCATCAG-CATCCA-A-ACGAGAGCTAGTGTAAGACATGTCTGGGACA
38090048 CGCATTGGTT
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
139 1 0.01
140 21 0.21
141 55 0.54
142 19 0.19
143 6 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTCTGGACAGATAATGAGAGCCAGAGTAAGACCATGTC
TGGGACATGGCATCAGCATCCAAACGAGAGCTAGTGTAAGACATGTCTGGGACATGCTTCAAGCA
TATTATGAGA
Found at i:38095527 original size:20 final size:20
Alignment explanation
Indices: 38095502--38095562 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
38095492 AATTTTGGTA
* * *
38095502 AGTACTTCATTCGTTTAAAC
1 AGTACTTCATCCATATAAAC
*
38095522 AGTACTCCATCCATATAAAC
1 AGTACTTCATCCATATAAAC
* **
38095542 AGTAATTCATCTGTATAAAC
1 AGTACTTCATCCATATAAAC
38095562 A
1 A
38095563 CATAACTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (20 bp):
AGTACTTCATCCATATAAAC
Found at i:38099469 original size:43 final size:42
Alignment explanation
Indices: 38099379--38099501 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 42
38099369 GTTACCGAGA
* * * * * *
38099379 TGTGATTACATATAAGACCATGTCTGGAACATTGGTATTGTAT
1 TGTGATAACATGTAAGACCATGTCTGGGATA-TGGCATCGTAT
*
38099422 TGTGACT-ACGTGTAAGACCATGTCTGGGATAGTGGCATCG-AT
1 TGTGA-TAACATGTAAGACCATGTCTGGGATA-TGGCATCGTAT
* *
38099464 ATGTGATAACATGTAAGACCATATTTGGGATATGGCAT
1 -TGTGATAACATGTAAGACCATGTCTGGGATATGGCAT
38099502 TGTACGAGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 9 0.13
43 57 0.85
44 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTGATAACATGTAAGACCATGTCTGGGATATGGCATCGTAT
Found at i:38101178 original size:30 final size:29
Alignment explanation
Indices: 38101142--38101244 Score: 138
Period size: 30 Copynumber: 3.5 Consensus size: 29
38101132 TAACTTGGGT
38101142 CACATGCTCATGTGTGTTGCCCGTGTGTGA
1 CACATGC-CATGTGTGTTGCCCGTGTGTGA
* *
38101172 CACATGCCTATGTGTGTTACCCTTGTGTGA
1 CACATGCC-ATGTGTGTTGCCCGTGTGTGA
38101202 CACATGCCCATGTGTGTTG-CCGTGTGTGA
1 CACATG-CCATGTGTGTTGCCCGTGTGTGA
*
38101231 TACATGCC-TGTGTG
1 CACATGCCATGTGTG
38101245 GCTAGGCCGC
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.09
28 2 0.03
29 15 0.23
30 41 0.62
31 2 0.03
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (29 bp):
CACATGCCATGTGTGTTGCCCGTGTGTGA
Found at i:38101185 original size:17 final size:17
Alignment explanation
Indices: 38101165--38101217 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
38101155 GTGTTGCCCG
38101165 TGTGTGACACATGCCTA
1 TGTGTGACACATGCCTA
**
38101182 TGTGTGTTAC---CCT-
1 TGTGTGACACATGCCTA
*
38101195 TGTGTGACACATGCCCA
1 TGTGTGACACATGCCTA
38101212 TGTGTG
1 TGTGTG
38101218 TTGCCGTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 8 0.30
14 3 0.11
16 2 0.07
17 14 0.52
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (17 bp):
TGTGTGACACATGCCTA
Found at i:38101494 original size:17 final size:17
Alignment explanation
Indices: 38101472--38101506 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38101462 AGACTTTCAT
38101472 TCATATCACATTTACCA
1 TCATATCACATTTACCA
38101489 TCATATCACATTTACCA
1 TCATATCACATTTACCA
38101506 T
1 T
38101507 AATTGAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATATCACATTTACCA
Found at i:38102126 original size:43 final size:43
Alignment explanation
Indices: 38102064--38102149 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
38102054 TCATATCTCA
38102064 TTTCTCATAGCATAATCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATAGCATAATCATTTATCATATTTGCCATTTCAATAT
** * * * *
38102107 TTTCTCATCTCATATTCATTTCTCATCTTTTCCATTTCAATAT
1 TTTCTCATAGCATAATCATTTATCATATTTGCCATTTCAATAT
38102150 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTCTCATAGCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:38103576 original size:17 final size:17
Alignment explanation
Indices: 38103549--38103582 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
38103539 CCTTAAAACC
38103549 TACTAAATTCACAAAATT
1 TACTAAATTCA-AAAATT
38103567 TACT-AATTCAAAAATT
1 TACTAAATTCAAAAATT
38103583 AATTAGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (17 bp):
TACTAAATTCAAAAATT
Found at i:38104943 original size:42 final size:43
Alignment explanation
Indices: 38104837--38104977 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 43
38104827 TCTGAGATAT
** * * * *
38104837 CGTGTAAGACTGTGTCTGGGACACAGGCCTCGAT-TTGAGATTTA
1 CGTGTAAGACCATCTCTGGGACAGAGGCATCGATACTGA-A-TTA
* * * *
38104881 TGTGTAAGACCATGTCTGGGACATAGGCATCG-TATCTG-ATTT
1 CGTGTAAGACCATCTCTGGGACAGAGGCATCGATA-CTGAATTA
* * *
38104923 CGTGTAAGACCTTCTTTGGGATAGAGGCATCGATACTGAATTA
1 CGTGTAAGACCATCTCTGGGACAGAGGCATCGATACTGAATTA
*
38104966 CATGTAAGACCA
1 CGTGTAAGACCA
38104978 CGTTCGGGAC
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
42 31 0.40
43 17 0.22
44 27 0.35
45 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATCTCTGGGACAGAGGCATCGATACTGAATTA
Found at i:38110240 original size:40 final size:40
Alignment explanation
Indices: 38110113--38110242 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
38110103 TTGCTGGATA
* * *
38110113 TTATATCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGG-CATTCGTGCGAGTGG
* * *
38110153 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
38110193 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
38110233 TTATATCCGG
1 TTATATCCGG
38110243 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 5 0.06
40 72 0.94
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:38121277 original size:2 final size:2
Alignment explanation
Indices: 38121270--38121297 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38121260 GCTCTTGCAC
38121270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38121298 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38122102 original size:40 final size:40
Alignment explanation
Indices: 38122001--38122181 Score: 260
Period size: 40 Copynumber: 4.5 Consensus size: 40
38121991 TGGATGATAA
* * * *
38122001 CCGGGCTAAGTCTCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
38122041 CCGGGC-AAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38122080 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
* *
38122120 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38122160 CCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCAT
38122182 CTGAGCAGTA
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 34 0.27
40 91 0.71
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38132353 original size:11 final size:11
Alignment explanation
Indices: 38132326--38132361 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
38132316 AAAAATAGGA
38132326 TATTTT-ATTT
1 TATTTTGATTT
38132336 TATTTTTGATTT
1 TA-TTTTGATTT
38132348 TATTTTGATTT
1 TATTTTGATTT
38132359 TAT
1 TAT
38132362 ATTAAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.08
11 16 0.67
12 6 0.25
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (11 bp):
TATTTTGATTT
Found at i:38133230 original size:12 final size:12
Alignment explanation
Indices: 38133213--38133238 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38133203 AACCCGAATA
38133213 TAATTTCAAATT
1 TAATTTCAAATT
38133225 TAATTTCAAATT
1 TAATTTCAAATT
38133237 TA
1 TA
38133239 TTTAGTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATTTCAAATT
Found at i:38144566 original size:42 final size:43
Alignment explanation
Indices: 38144459--38144568 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 43
38144449 GAGTGCCAAA
* *
38144459 GCCATGTCCCAGACATGGTCTTACA-TGGGTCCGCATATCGAT
1 GCCATGTCCCAGACATGGTCTTATACTGGGACCGCATATCGAT
* * * *
38144501 GCCATATCTCAGAAATGGTCTTATACT-GGACCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTATACTGGGACCGCATATCGAT
38144543 GCCATGTCCCAGACATGGTCTTATAC
1 GCCATGTCCCAGACATGGTCTTATAC
38144569 GAAATCACTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 57 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (43 bp):
GCCATGTCCCAGACATGGTCTTATACTGGGACCGCATATCGAT
Found at i:38144614 original size:48 final size:48
Alignment explanation
Indices: 38144543--38144661 Score: 157
Period size: 48 Copynumber: 2.5 Consensus size: 48
38144533 TCATATCGAT
** *
38144543 GCCATGTCCCAGACATGGTCTTATACGAAATCACTTAATGTTGCCGAA
1 GCCATGTCCCAGACATGGTCTTATACGAAATCAAATAATGGTGCCGAA
* * * * * *
38144591 GCCATATCCCTGATATGGTCTTATACGAGATCAAATATTGGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTATACGAAATCAAATAATGGTGCCGAA
38144639 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
38144662 CACTAGCACA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTATACGAAATCAAATAATGGTGCCGAA
Found at i:38144757 original size:49 final size:49
Alignment explanation
Indices: 38144628--38144809 Score: 199
Period size: 49 Copynumber: 3.8 Consensus size: 49
38144618 AGATCAAATA
* * *
38144628 TTGG-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-
1 TTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC
* ** * * *
38144675 ATCAACGTCTATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC
1 TTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC
* *
38144724 TTGGATGCCGATGCCATGTCCCAAACATGGTCTTACAC-GAGATCTCATC
1 TTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCTCATC
* * * *
38144773 TCGGATGCCAATGCCATGTCCTAGATATGGTCTTACA
1 TTGGATGCCGATGCCATGTCCCAGACATGGTCTTACA
38144810 TGGGATCTCA
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 38 0.35
49 71 0.65
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
TTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC
Found at i:38148159 original size:40 final size:40
Alignment explanation
Indices: 38148078--38148255 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
38148068 AAACCAAGTA
* * * * *
38148078 CCTTCGGGATTTAG-CCGGATATAGCT-AGTCACTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
38148117 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38148157 CCTTCGGGACGTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38148197 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38148237 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38148256 TTATCATCCG
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 114 0.90
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38157702 original size:15 final size:15
Alignment explanation
Indices: 38157679--38157712 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38157669 TTATATTATA
* *
38157679 ACATCCAAATAATTC
1 ACATACAAATAAATC
38157694 ACATACAAATAAATC
1 ACATACAAATAAATC
38157709 ACAT
1 ACAT
38157713 TCTATATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
ACATACAAATAAATC
Found at i:38164106 original size:38 final size:35
Alignment explanation
Indices: 38164047--38164164 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
38164037 TCAATCATGC
*
38164047 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
38164086 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38164117 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38164148 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
38164165 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:38164108 original size:31 final size:31
Alignment explanation
Indices: 38164070--38164164 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
38164060 CCTTTTCATA
*
38164070 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38164101 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38164132 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38164163 TT
1 TT
38164165 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:38164407 original size:24 final size:24
Alignment explanation
Indices: 38164356--38164498 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
38164346 GCTTTATCAT
*
38164356 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
38164381 ATAACTGGGGAAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
38164405 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
38164428 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38164452 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
38164476 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38164499 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 74 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38164435 original size:47 final size:48
Alignment explanation
Indices: 38164356--38164497 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
38164346 GCTTTATCAT
* * *
38164356 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
38164405 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
38164452 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
38164498 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:38164456 original size:71 final size:72
Alignment explanation
Indices: 38164355--38164498 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
38164345 TGCTTTATCA
*
38164355 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCATAA
38164420 GCCCTTT
66 GCCCTTT
* * * **
38164427 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCATA
38164490 AGCCCTTT
65 AGCCCTTT
38164498 T
1 T
38164499 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:38164574 original size:20 final size:20
Alignment explanation
Indices: 38164549--38164608 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
38164539 TATGATTACC
38164549 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
38164569 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
38164589 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38164609 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:38164579 original size:11 final size:11
Alignment explanation
Indices: 38164549--38164603 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
38164539 TATGATTACC
38164549 TCATGTGCATA
1 TCATGTGCATA
*
38164560 TCA--TACATA
1 TCATGTGCATA
38164569 TCATGTGCATA
1 TCATGTGCATA
* *
38164580 TCA--TACATT
1 TCATGTGCATA
38164589 TCATGTGCATA
1 TCATGTGCATA
38164600 TCAT
1 TCAT
38164604 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:38164678 original size:24 final size:25
Alignment explanation
Indices: 38164651--38164697 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
38164641 ATACATAAAC
* *
38164651 CCTAGGGGTATAA-GGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
38164675 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
38164698 CATGGTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:38170004 original size:48 final size:47
Alignment explanation
Indices: 38169882--38170171 Score: 255
Period size: 48 Copynumber: 6.0 Consensus size: 47
38169872 ACCATGGCGA
* *
38169882 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGT
1 TATGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGACA-TTGT
* * *
38169931 ATATGCGAGCCAGTGTAAGATCATGTTTGGAACATGGCATCGACATTGT
1 -TATGAGAGCCAGTGTAAGACCATGTCTGG-ACATGGCATCGACATTGT
* * ***
38169980 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-AGCCTCAA
1 TATGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGA-CATTGT
* * * *
38170028 TATGCGAGCCAGTGTAAGACCATGTTTGGAGTATGGCATCGGCATTGT
1 TATGAGAGCCAGTGTAAGACCATGTCTGGA-CATGGCATCGACATTGT
* * * *
38170076 TA-CATGTGCCAGTGTAAGACCATGCCCAGGACATGGCATCAGCACCGA-TG-
1 TATGA-GAGCCAGTGTAAGACCATG-TCTGGACATGGCATC-G-A-C-ATTGT
*
38170126 TATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
1 TATGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGACATT
38170172 TTACCCTTTT
Statistics
Matches: 193, Mismatches: 33, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
46 1 0.01
47 6 0.03
48 100 0.52
49 13 0.07
50 68 0.35
51 4 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (47 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGACATTGT
Found at i:38170064 original size:96 final size:98
Alignment explanation
Indices: 38169882--38170171 Score: 374
Period size: 96 Copynumber: 3.0 Consensus size: 98
38169872 ACCATGGCGA
* * *
38169882 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-AGTATATGCGAGCCAGTG
1 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTCA-TATATGCGAGCCAGTG
* *
38169946 TAAGATCATGTTTGGAACATGGCATCGACATTGT
65 TAAGACCATGTTTGGAGCATGGCATCGACATTGT
38169980 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTCA-ATATGCGAGCCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTCATATATGCGAGCCAGTGT
* *
38170043 AAGACCATGTTTGGAGTATGGCATCGGCATTGT
66 AAGACCATGTTTGGAGCATGGCATCGACATTGT
** * * * * **
38170076 TACATGTGCCAGTGTAAGACCATGCCCAGGACATGGCATCAGCAC-CGATGTATGAAAGCCAGTG
1 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTC-ATATATGCGAGCCAGTG
*
38170140 TAAGACCATGTCTGG-GACATGGCATCGACATT
65 TAAGACCATGTTTGGAG-CATGGCATCGACATT
38170172 TTACCCTTTT
Statistics
Matches: 169, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
96 84 0.50
97 5 0.03
98 80 0.47
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (98 bp):
TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTCATATATGCGAGCCAGTGT
AAGACCATGTTTGGAGCATGGCATCGACATTGT
Found at i:38178926 original size:37 final size:37
Alignment explanation
Indices: 38178884--38178955 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
38178874 TTAAGCTTGG
*
38178884 ACTCCATTTATTTCTTGCATTTAGATTAGGATTTTGA
1 ACTCCATTTATTTCTTGCATTTAGATTAAGATTTTGA
38178921 ACTCCATTTATTTCTTGCATTTAGATTAAGATTTT
1 ACTCCATTTATTTCTTGCATTTAGATTAAGATTTT
38178956 AATTTATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (37 bp):
ACTCCATTTATTTCTTGCATTTAGATTAAGATTTTGA
Found at i:38183940 original size:2 final size:2
Alignment explanation
Indices: 38183933--38183964 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
38183923 ATGTGCAAAC
38183933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38183965 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38191160 original size:40 final size:40
Alignment explanation
Indices: 38191116--38191274 Score: 128
Period size: 40 Copynumber: 4.0 Consensus size: 40
38191106 CTTCAGGACA
* *
38191116 TTGCCCAG-TTATAGTGATTCGCAC-AATTGCCTTCGGGAAT
1 TTGCCCAGATT-TAGTAACTCGCACGAA-TGCCTTCGGGAAT
* *
38191156 TTGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACT
1 TTGCCCAGATTTAGTAACTCGCACGAATGCCTTCGGGAAT
** * * *
38191196 TAACCC-GGTTTTGATAACTCGCACAAATGCCTTCGGGAA-
1 TTGCCCAGATTTAG-TAACTCGCACGAATGCCTTCGGGAAT
* * * *
38191235 TTGACCCAGATTTAGTCACTTAGCACAAAAGCCTTCGGGA
1 TTG-CCCAGATTTAGTAAC-TCGCACGAATGCCTTCGGGA
38191275 CTTAGCCCGG
Statistics
Matches: 96, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
39 6 0.06
40 63 0.66
41 27 0.28
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (40 bp):
TTGCCCAGATTTAGTAACTCGCACGAATGCCTTCGGGAAT
Found at i:38191227 original size:80 final size:81
Alignment explanation
Indices: 38191134--38191284 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 81
38191124 TTATAGTGAT
* * * * *
38191134 TCGCACAATTGCCTTCGGGAATTTG-CCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAA-TTGACCCAGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTT
38191197 AACCCGGTTTTGATAAC
65 AACCCGGTTTTGATAAC
*
38191214 TCGCACAAATGCCTTCGGGAATTGACCCAGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCAGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
38191279 GCCCGG
66 ACCCGG
38191285 ATACCATTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 3 0.05
80 33 0.53
81 26 0.42
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCAGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGGTTTTGATAAC
Found at i:38213071 original size:18 final size:18
Alignment explanation
Indices: 38213048--38213084 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
38213038 ATACAGTAAC
38213048 ATCAAAAAGATAGAATGT
1 ATCAAAAAGATAGAATGT
38213066 ATCAAAAAGATAGAATGT
1 ATCAAAAAGATAGAATGT
38213084 A
1 A
38213085 CTAGCAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (18 bp):
ATCAAAAAGATAGAATGT
Found at i:38214811 original size:21 final size:21
Alignment explanation
Indices: 38214785--38214832 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
38214775 TCAAACATGG
38214785 TTGTGTGGCTACCCCACACGC
1 TTGTGTGGCTACCCCACACGC
*
38214806 TTGTGTGGCTACTCCACACGC
1 TTGTGTGGCTACCCCACACGC
*
38214827 TCGTGT
1 TTGTGT
38214833 TCTCAAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.25, T:0.29
Consensus pattern (21 bp):
TTGTGTGGCTACCCCACACGC
Found at i:38220645 original size:42 final size:42
Alignment explanation
Indices: 38220558--38220730 Score: 125
Period size: 42 Copynumber: 4.1 Consensus size: 42
38220548 TAAGATGCCA
* * * * *
38220558 ATGCCATGTCCCAAATGTGGTCTTACA-TAGGATCTCA-AATCG
1 ATGCCATGTCCCAGATATGGTCTTACACGA-AAACTCATAA-CG
* ***
38220600 ATGCCATGTCCCAGATATGGTCTTATACGAAAACTCATTTTG
1 ATGCCATGTCCCAGATATGGTCTTACACGAAAACTCATAACG
* ** * * *
38220642 ATGCCATGTCCCAAACGTAGTCTTACACGAAATCTCATAACA
1 ATGCCATGTCCCAGATATGGTCTTACACGAAAACTCATAACG
* * * * * *
38220684 ACGCCATATCCCAGATATGGTCTTACATGATAACACATATCG
1 ATGCCATGTCCCAGATATGGTCTTACACGAAAACTCATAACG
38220726 ATGCC
1 ATGCC
38220731 GATGGCATAT
Statistics
Matches: 97, Mismatches: 32, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
42 96 0.99
43 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAGATATGGTCTTACACGAAAACTCATAACG
Found at i:38220729 original size:84 final size:84
Alignment explanation
Indices: 38220558--38220730 Score: 197
Period size: 84 Copynumber: 2.1 Consensus size: 84
38220548 TAAGATGCCA
* * * * * * *
38220558 ATGCCATGTCCCAAATGTGGTCTTACATAGGATCTCAAATCGATGCCATGTCCCAGATATGGTCT
1 ATGCCATGTCCCAAACGTAGTCTTACAGAGAATCTCAAATCAACGCCATATCCCAGATATGGTCT
* * * *
38220623 TATACGAAAACTCATTTTG
66 TACACGAAAACACATATCG
38220642 ATGCCATGTCCCAAACGTAGTCTTACACGA-AATCTCATAA-CAACGCCATATCCCAGATATGGT
1 ATGCCATGTCCCAAACGTAGTCTTACA-GAGAATCTCA-AATCAACGCCATATCCCAGATATGGT
* *
38220705 CTTACATGATAACACATATCG
64 CTTACACGAAAACACATATCG
38220726 ATGCC
1 ATGCC
38220731 GATGGCATAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
84 71 0.96
85 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (84 bp):
ATGCCATGTCCCAAACGTAGTCTTACAGAGAATCTCAAATCAACGCCATATCCCAGATATGGTCT
TACACGAAAACACATATCG
Found at i:38225112 original size:88 final size:88
Alignment explanation
Indices: 38224963--38225138 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
38224953 ATTCTTTGAT
*
38224963 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGACTTTCCTGAATATCTTTTACG
1 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
38225028 AAATTCTCCAGTTTTGACATCAG
66 AAATTCTCCAGTTTTGACATCAG
38225051 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
1 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
38225116 AAATTCTCCAGTTTTGACATCAG
66 AAATTCTCCAGTTTTGACATCAG
38225139 CTTTCTTTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (88 bp):
TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
AAATTCTCCAGTTTTGACATCAG
Found at i:38232591 original size:39 final size:39
Alignment explanation
Indices: 38232522--38232719 Score: 243
Period size: 39 Copynumber: 5.0 Consensus size: 39
38232512 TTGCTAAGTG
* *
38232522 AATTGTGCAAATTATGAATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATG-ATATCCGGGCTAAGCCCGAAGGC
38232562 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
*
38232601 AATTGGGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
* * * *
38232640 AATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
** * ** * *
38232680 CTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
38232720 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 86 0.62
40 52 0.38
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
Found at i:38235156 original size:27 final size:27
Alignment explanation
Indices: 38235140--38235335 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
38235130 CGACTTGTAA
38235140 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38235167 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
38235194 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
**
38235221 AATTACTGTTTT-CCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
38235247 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
38235274 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
38235301 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38235328 AATTACCA
1 AATTACCA
38235336 AAATACCCTT
Statistics
Matches: 154, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
25 1 0.01
26 24 0.16
27 127 0.82
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:38235245 original size:80 final size:81
Alignment explanation
Indices: 38235140--38235335 Score: 288
Period size: 80 Copynumber: 2.4 Consensus size: 81
38235130 CGACTTGTAA
* * *
38235140 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTACTGTT
1 AATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGA-TTTACAGAATTACCGTT
*
38235204 TTACCCTCGATTTACAG
65 TTACCCTCAATTTACAG
* * * *
38235221 AATTACTGTTTT-CCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
1 AATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
38235285 TACCCTCAATTTACAG
66 TACCCTCAATTTACAG
*
38235301 AATTACCGTTTTACCTTCAATTTACAGAATTACCA
1 AATTACCGTTTTACCCTCAATTTACAGAATTACCA
38235336 AAATACCCTT
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
80 71 0.70
81 30 0.30
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
TACCCTCAATTTACAG
Found at i:38235264 original size:107 final size:107
Alignment explanation
Indices: 38235140--38235333 Score: 325
Period size: 107 Copynumber: 1.8 Consensus size: 107
38235130 CGACTTGTAA
* *
38235140 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTT
*
38235205 TACCCTCGATTTACAGAATTACTGTTTTCCCTCAGTTTACAG
66 TACCCTCAATTTACAGAATTACTGTTTTCCCTCAGTTTACAG
* * *
38235247 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTT
*
38235312 TACCTTCAATTTACAGAATTAC
66 TACCCTCAATTTACAGAATTAC
38235334 CAAAATACCC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 80 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (107 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTT
TACCCTCAATTTACAGAATTACTGTTTTCCCTCAGTTTACAG
Found at i:38235342 original size:27 final size:27
Alignment explanation
Indices: 38235151--38235424 Score: 95
Period size: 27 Copynumber: 10.2 Consensus size: 27
38235141 ATTACCATTT
* ***
38235151 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* *****
38235178 TACCCTCAGTTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
38235205 TACCCTCGATTTACAGAATTA-CTGTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
38235231 TTCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ****
38235258 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
****
38235285 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
38235312 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
38235339 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** *
38235366 TACCCCTGGTTTGTA-A-AATTACTAAAA
1 TA-CCCTCAATT-TACAGAATTACCAAAA
*** *
38235393 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
38235420 TACCC
1 TACCC
38235425 CTGGTTTGTA
Statistics
Matches: 200, Mismatches: 42, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
25 2 0.01
26 28 0.14
27 160 0.80
28 8 0.04
29 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:38235344 original size:54 final size:54
Alignment explanation
Indices: 38235140--38235335 Score: 286
Period size: 54 Copynumber: 3.6 Consensus size: 54
38235130 CGACTTGTAA
38235140 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
** **
38235194 AATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTT-CCCTCAGTTTACAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* * * *
38235247 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* * *
38235301 AATTACCGTTTTACCTTCAATTTACAGAATTACCA
1 AATTACCATTTTACCCTCGATTTACAGAATTACCA
38235336 AAATACCCTT
Statistics
Matches: 127, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
53 50 0.39
54 77 0.61
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
Found at i:38235370 original size:81 final size:80
Alignment explanation
Indices: 38235205--38235370 Score: 179
Period size: 81 Copynumber: 2.1 Consensus size: 80
38235195 ATTACTGTTT
* * * * ***
38235205 TACCCTCGATTTACAGAATTACTGTTTTCCCTCAGTTTACAGAATTACTATTTTACCCTCGATTT
1 TACCCTCAATTTACAGAATTACCGTTTTCCCTCAATTTACAGAATTACCAAAATACCCTCGATTT
* * ****
38235270 ATAGAATTACCGTTT
66 ATAAAATCACCAAAA
* * *
38235285 TACCCTCAATTTACAGAATTACCGTTTTACCTTCAATTTACAGAATTACCAAAATACCCTTGGTT
1 TACCCTCAATTTACAGAATTACCGTTTT-CCCTCAATTTACAGAATTACCAAAATACCCTCGATT
38235350 TATAAAATCACCAAAA
65 TATAAAATCACCAAAA
38235366 TACCC
1 TACCC
38235371 CTGGTTTGTA
Statistics
Matches: 69, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
80 26 0.38
81 43 0.62
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (80 bp):
TACCCTCAATTTACAGAATTACCGTTTTCCCTCAATTTACAGAATTACCAAAATACCCTCGATTT
ATAAAATCACCAAAA
Found at i:38235386 original size:54 final size:54
Alignment explanation
Indices: 38235328--38235478 Score: 257
Period size: 54 Copynumber: 2.8 Consensus size: 54
38235318 CAATTTACAG
* *
38235328 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
38235382 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
38235436 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
38235479 TGTAGGGTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:38235429 original size:27 final size:27
Alignment explanation
Indices: 38235328--38235479 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
38235318 CAATTTACAG
38235328 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
38235355 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38235382 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38235409 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38235436 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38235463 AATTACCGAAATACCCT
1 AATTACCAAAATACCCT
38235480 GTAGGGTAGA
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:38238941 original size:27 final size:27
Alignment explanation
Indices: 38238925--38239175 Score: 312
Period size: 27 Copynumber: 9.3 Consensus size: 27
38238915 CGACTTGTAA
38238925 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38238952 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
38238979 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
38239006 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
38239033 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
38239060 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
38239087 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
38239114 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
38239141 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38239168 AATTACCA
1 AATTACCA
38239176 AAATACCCTT
Statistics
Matches: 199, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.02
27 191 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:38239191 original size:27 final size:27
Alignment explanation
Indices: 38239168--38239314 Score: 164
Period size: 27 Copynumber: 5.7 Consensus size: 27
38239158 CAATTTACAG
38239168 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
38239195 AATCACCAAAATACCCCT--TTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38239220 AATTA-C----TACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38239242 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
38239269 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
38239296 AATTACCGAAATACCCTTG
1 AATTACCAAAATACCCTTG
38239315 TAGGGTAGAA
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
20 6 0.06
22 10 0.10
23 1 0.01
24 1 0.01
25 10 0.10
27 68 0.71
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:38239191 original size:54 final size:54
Alignment explanation
Indices: 38238925--38239174 Score: 401
Period size: 54 Copynumber: 4.6 Consensus size: 54
38238915 CGACTTGTAA
* *
38238925 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
38238979 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
38239033 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
38239087 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
38239141 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
38239175 AAAATACCCT
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:38239193 original size:81 final size:81
Alignment explanation
Indices: 38238925--38239175 Score: 371
Period size: 81 Copynumber: 3.1 Consensus size: 81
38238915 CGACTTGTAA
38238925 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
38238990 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* * *
38239006 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTGT
* *
38239069 TTTCCCCTCAGTTTACAG
64 TTTACCCTCAATTTACAG
* * * *
38239087 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
38239152 TACCTTCAATTTACAG
66 TACCCTCAATTTACAG
38239168 AATTACCA
1 AATTACCA
38239176 AAATACCCTT
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 145 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:38239244 original size:47 final size:48
Alignment explanation
Indices: 38239179--38239276 Score: 162
Period size: 47 Copynumber: 2.0 Consensus size: 48
38239169 ATTACCAAAA
*
38239179 TACCCTTGGTTTATAAAATCACCAAAATACCCCT-TTTGTAAAATTAC
1 TACCCTTGGTTTACAAAATCACCAAAATACCCCTGTTTGTAAAATTAC
*
38239226 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC
1 TACCCTTGGTTTACAAAATCACCAAAATACCCCT-GTTTGTAAAATTAC
38239275 TA
1 TA
38239277 AAATACCCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 32 0.68
49 15 0.32
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (48 bp):
TACCCTTGGTTTACAAAATCACCAAAATACCCCTGTTTGTAAAATTAC
Found at i:38239327 original size:54 final size:54
Alignment explanation
Indices: 38239226--38239328 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
38239216 GTAAAATTAC
**
38239226 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
* * * * *
38239280 TACCCTTTGTTTATAAAATTACCGAAATA-CCCTTGTAGGGTAGAATTAC
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGGT-GGGTAAAATTAC
38239329 CATTTTGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 6 0.15
54 35 0.85
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
Found at i:38244286 original size:87 final size:87
Alignment explanation
Indices: 38244140--38244313 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
38244130 ATTCTTTGAT
*
38244140 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGACTTTCCTGAATATCTTTTACG
1 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
38244205 AAA-TCTCCAGTTTTGACATCAG
66 AAATTCT-CAGTTTTGACATCAG
38244227 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
1 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
38244292 AAATTCTCAGTTTTGACATCAG
66 AAATTCTCAGTTTTGACATCAG
38244314 CTTTCTTTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
87 82 0.96
88 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (87 bp):
TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGAATTTCCTGAATATCTTTTACG
AAATTCTCAGTTTTGACATCAG
Found at i:38251751 original size:39 final size:39
Alignment explanation
Indices: 38251697--38251893 Score: 232
Period size: 39 Copynumber: 5.0 Consensus size: 39
38251687 TTGCTAAGTG
* * *
38251697 AATTGTGCAAATTATGATATCCGGGCTAAGCCCAAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
38251736 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
* *
38251775 AATTGGGCGAGTTATGATATCTGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
* * * *
38251814 AATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
** * ** * *
38251854 CTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
38251894 GTTTGAACGA
Statistics
Matches: 135, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 97 0.72
40 38 0.28
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
Found at i:38255082 original size:40 final size:38
Alignment explanation
Indices: 38254952--38255083 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 38
38254942 CTAGGTTTCA
* * *
38254952 TAACCCGAATCTAGTTACTAGCACAAAGCCTGCGGGACTT
1 TAACCCGGATATA-TTACCAGCACAAAGCCTGCGGGA-TT
* * *
38254992 TAGGCCCGGATATAGTACCAGCACTAAGCCTGCGGGATT
1 TA-ACCCGGATATATTACCAGCACAAAGCCTGCGGGATT
* *
38255031 TAACCCAGATATATTTTACCAGCACGAAGCCTGCGGGATT
1 TAACCCGGATATA--TTACCAGCACAAAGCCTGCGGGATT
*
38255071 TAACCTGGATATA
1 TAACCCGGATATA
38255084 CAATATATCG
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 9 0.12
39 4 0.05
40 56 0.73
41 8 0.10
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
TAACCCGGATATATTACCAGCACAAAGCCTGCGGGATT
Found at i:38259592 original size:40 final size:40
Alignment explanation
Indices: 38259507--38259657 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
38259497 AATTGAATGA
* * *
38259507 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
38259547 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
38259588 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
38259627 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
38259658 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:38259671 original size:40 final size:40
Alignment explanation
Indices: 38259543--38259673 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
38259533 TATGCTGGAA
* * *
38259543 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
38259583 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
38259623 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
38259663 ATTATATCCGG
1 ATTATATCCGG
38259674 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:38278486 original size:42 final size:42
Alignment explanation
Indices: 38278439--38278612 Score: 132
Period size: 42 Copynumber: 4.0 Consensus size: 42
38278429 GGGATCTCAC
* *
38278439 ATCGATGTCATATCCCAGATATGGTCTTATACGAAATATCAT
1 ATCGATGCCATATCCCAGATATGGTCTTACACGAAATATCAT
* * * * ** *
38278481 TTCGATGCCATGTGCTAGACGTGGTCTTACACGAAATCTCAT
1 ATCGATGCCATATCCCAGATATGGTCTTACACGAAATATCAT
* * * * *
38278523 ATCAACGCCATATCCCAGATATGGTCTTACATGATAACACTTACT
1 ATCGATGCCATATCCCAGATATGGTCTTACACGA-AATA-TCA-T
* ** *
38278568 GATGCTGATGCCATATTCCAGATATGGTCTTTTACGAGATATCAT
1 -AT-C-GATGCCATATCCCAGATATGGTCTTACACGAAATATCAT
38278613 CAACCCAAAT
Statistics
Matches: 96, Mismatches: 30, Indels: 9
0.71 0.22 0.07
Matches are distributed among these distances:
42 58 0.60
43 2 0.02
44 2 0.02
45 2 0.02
46 4 0.04
47 3 0.03
48 25 0.26
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
ATCGATGCCATATCCCAGATATGGTCTTACACGAAATATCAT
Found at i:38283839 original size:47 final size:45
Alignment explanation
Indices: 38283772--38284037 Score: 189
Period size: 47 Copynumber: 5.7 Consensus size: 45
38283762 ATTGTTGGCT
* * *
38283772 AGTGTAACACATGTCCGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACA-GATGA-AGCC
* * *
38283818 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCA--CAGATG-AAGCC
* * * *
38283866 AGTGTAAGACATGTCTAGGACAT-GTATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-AGATG-AAGCC
* * * * *
38283912 AGTGTAAGACATGTCTGGGACAT-GCATTGACTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCA-CAGATGA-AGCC
* * ***
38283958 AGTGTAAGACCATGTCTAGGACATGGAATCGGCTTGAGATGTAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAGATG-AAGCC
* *
38284005 AGTATAAGACCATGCCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
38284038 ACCTTACCCA
Statistics
Matches: 177, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 66 0.37
47 80 0.45
48 28 0.16
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACAGATGAAGCC
Found at i:38283916 original size:46 final size:47
Alignment explanation
Indices: 38283814--38284037 Score: 233
Period size: 47 Copynumber: 4.8 Consensus size: 47
38283804 ACATTATGAG
* *
38283814 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAA
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGACGTA
* * * *
38283862 AGCTAGTGTAAGA-CATGTCTAGGACATGTATCGGCCTCGAGACGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACGTA
* * *
38283908 AGCCAGTGTAAGA-CATGTCTGGGACATGCAT-TGACTATGAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGACGTA
* * * *
38283953 TAGTCAGTGTAAGACCATGTCTAGGACATGGAATCGG-CTTGAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGACGTA
* *
38284001 AGCCAGTATAAGACCATGCCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC
38284038 ACCTTACCCA
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 4 0.03
46 60 0.41
47 64 0.44
48 18 0.12
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACGTA
Found at i:38283980 original size:93 final size:93
Alignment explanation
Indices: 38283814--38284035 Score: 281
Period size: 93 Copynumber: 2.4 Consensus size: 93
38283804 ACATTATGAG
*
38283814 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAAAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACATTGAGACGAAAGCTAGTGTAAGACATG
*
38283879 TCTAGGACAT-GTATCGGCCTCGAGACGTA
65 TCTAGGACATGGAATCGG-CTCGAGACGTA
* * *
38283908 AGCCAGTGTAAGA-CATGTCTGGGACATGCATTGAC-TATGAGATGATAG-TCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACAT-TGAGACGAAAGCT-AGTGTAAGA-CA
* *
38283970 TGTCTAGGACATGGAATCGGCTTGAGATGTA
63 TGTCTAGGACATGGAATCGGCTCGAGACGTA
* *
38284001 AGCCAGTATAAGACCATGCCTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCG
38284036 GCACCTTACC
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 24 0.21
93 49 0.44
94 32 0.29
95 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACATTGAGACGAAAGCTAGTGTAAGACATGT
CTAGGACATGGAATCGGCTCGAGACGTA
Found at i:38286846 original size:35 final size:36
Alignment explanation
Indices: 38286792--38286920 Score: 129
Period size: 36 Copynumber: 3.6 Consensus size: 36
38286782 GCTGGTTAGT
* * *
38286792 TAAACCGACAATGTTTTGTGCCCAGCGCTGGTTGGA
1 TAAACCGACAATATGTTGTGCCCAGCGCTGGTTGAA
* * *
38286828 TAAACCGACAAT-TGTTGTGCCCTA-CACTGATCGAA
1 TAAACCGACAATATGTTGTGCCC-AGCGCTGGTTGAA
* * **
38286863 TAAACCTACAATATTTTGCACCCAGCGCTGGTTGAA
1 TAAACCGACAATATGTTGTGCCCAGCGCTGGTTGAA
*
38286899 TAAACTGACAATA-GTTGTGCCC
1 TAAACCGACAATATGTTGTGCCC
38286921 TTCAATGGTT
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
35 34 0.47
36 39 0.53
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (36 bp):
TAAACCGACAATATGTTGTGCCCAGCGCTGGTTGAA
Found at i:38293202 original size:11 final size:11
Alignment explanation
Indices: 38293188--38293227 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
38293178 TGTTTTCTCT
38293188 CTATTTTACTA
1 CTATTTTACTA
38293199 CTATTTTACTA
1 CTATTTTACTA
* * *
38293210 TTATATTGCTA
1 CTATTTTACTA
38293221 CTATTTT
1 CTATTTT
38293228 GTTGTTATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:38293468 original size:12 final size:12
Alignment explanation
Indices: 38293447--38293480 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
38293437 ATATATATTT
38293447 AAAATT-ATATA
1 AAAATTAATATA
38293458 AAAATTAATATA
1 AAAATTAATATA
38293470 AAAATTAATAT
1 AAAATTAATAT
38293481 GGGCGAGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:38296938 original size:2 final size:2
Alignment explanation
Indices: 38296931--38296957 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38296921 TCATAATTTA
38296931 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
38296958 AATACAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38297253 original size:21 final size:22
Alignment explanation
Indices: 38297200--38297253 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
38297190 TATTTTAATA
* *
38297200 TTAATTTAATAAATATATATAT
1 TTAATTTAAAAAATATATAAAT
* **
38297222 TTAGTCGAAAAAAT-TATAAAT
1 TTAATTTAAAAAATATATAAAT
38297243 TTAATTTAAAA
1 TTAATTTAAAA
38297254 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (22 bp):
TTAATTTAAAAAATATATAAAT
Found at i:38297266 original size:32 final size:34
Alignment explanation
Indices: 38297229--38297293 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 34
38297219 TATTTAGTCG
38297229 AAAAAATTATAAAT-TTAATT-TAA-AATATTTTT
1 AAAAAATTATAAATATT-ATTATAATAATATTTTT
38297261 AAAAAATTATAAATATTATTATAATAATATTTT
1 AAAAAATTATAAATATTATTATAATAATATTTT
38297294 ATTTTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 17 0.57
33 5 0.17
34 8 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (34 bp):
AAAAAATTATAAATATTATTATAATAATATTTTT
Found at i:38301795 original size:25 final size:26
Alignment explanation
Indices: 38301757--38301834 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 26
38301747 GTCATTAGGG
* *
38301757 TTACCGAT-TTCAGCTCGAGA-GAGC
1 TTACCGTTATTCAGCTCGACATGAGC
38301781 TTACCGTTATTCAGCTC-ACATGAGC
1 TTACCGTTATTCAGCTCGACATGAGC
* *
38301806 TTACCGTTACTCAGCTCG-TATGAGC
1 TTACCGTTATTCAGCTCGACATGAGC
38301831 TTAC
1 TTAC
38301835 TGATTACAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 9 0.19
25 38 0.81
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (26 bp):
TTACCGTTATTCAGCTCGACATGAGC
Done.