Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 239 of 378
Found at i:70978940 original size:43 final size:43
Alignment explanation
Indices: 70978879--70979034 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
70978869 TGTGTTTTCG
* *
70978879 TGTAAGACCACATCTGGGACGTTGGCATCGACT-TATAATTACA
1 TGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGATTACA
* * *
70978922 TGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTTCG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACA
***
70978964 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACATCTGGGAC-GTTGGCATCGATATTTGATTACA
* *
70979007 TGTAACACCACATCTGGGATGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
70979035 TGTAGGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 33 0.35
43 61 0.64
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:70979017 original size:85 final size:85
Alignment explanation
Indices: 70978874--70979034 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 85
70978864 CGATATGTGT
* *
70978874 TTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACTTATAATTACATGTAAGACCACGTCTGG
1 TTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACTTATAATTACATGTAACACCACATCTGG
70978939 GACGTTGGCATCATATTTGA
66 GACGTTGGCATCATATTTGA
*** * *
70978959 TTTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGA-TATTTGATTACATGTAACACCACATCT
1 TTTCGTGTAAGACCACATCTGGGAC-GTTGGCATCGACT-TATAATTACATGTAACACCACATCT
*
70979022 GGGATGTTGGCAT
64 GGGACGTTGGCAT
70979035 TGTAGGAGCT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 1 0.02
85 64 0.97
86 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (85 bp):
TTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACTTATAATTACATGTAACACCACATCTGG
GACGTTGGCATCATATTTGA
Found at i:70981437 original size:40 final size:40
Alignment explanation
Indices: 70981392--70981559 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
70981382 CGGAATACAA
70981392 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
70981432 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
70981472 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
70981512 CCGGATA-AAGTCACTA-GCAC-AACTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
70981552 CCGGATAT
1 CCGGATAT
70981560 CATTCAATTT
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:70981532 original size:80 final size:80
Alignment explanation
Indices: 70981392--70981559 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
70981382 CGGAATACAA
* *
70981392 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
70981457 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
70981472 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAC
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
70981535 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
70981552 CCGGATAT
1 CCGGATAT
70981560 CATTCAATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:70984993 original size:46 final size:47
Alignment explanation
Indices: 70984903--70985014 Score: 174
Period size: 46 Copynumber: 2.4 Consensus size: 47
70984893 AGTAGCTCCT
*
70984903 TTAATGCTGTCCATGCATGCTTTTTCTTTAAGGCTTCAGCAGCATCA
1 TTAATGCCGTCCATGCATGCTTTTTCTTTAAGGCTTCAGCAGCATCA
*
70984950 TTAATGCCGTCCATGCTTGC-TTTTCTTTAAGGCTTCA-CTAGCATCA
1 TTAATGCCGTCCATGCATGCTTTTTCTTTAAGGCTTCAGC-AGCATCA
*
70984996 TTAATGCCGCCCATGCATG
1 TTAATGCCGTCCATGCATG
70985015 TTAGCTGCAC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.02
46 41 0.68
47 18 0.30
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (47 bp):
TTAATGCCGTCCATGCATGCTTTTTCTTTAAGGCTTCAGCAGCATCA
Found at i:70990304 original size:2 final size:2
Alignment explanation
Indices: 70990297--70990331 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
70990287 ATAATTTGTG
70990297 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70990332 AGTTAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70995053 original size:2 final size:2
Alignment explanation
Indices: 70995046--70995076 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70995036 GTTAAATCTA
70995046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70995077 CATAAGTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70995596 original size:29 final size:29
Alignment explanation
Indices: 70995554--70995683 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
70995544 AAAATTGTAC
70995554 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
70995583 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
70995612 AGCACTAAGTGTGCG-ACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
70995640 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
70995669 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70995684 GATTCACTAT
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
28 28 0.28
29 71 0.72
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:70995642 original size:57 final size:58
Alignment explanation
Indices: 70995554--70995683 Score: 244
Period size: 57 Copynumber: 2.3 Consensus size: 58
70995544 AAAATTGTAC
70995554 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
*
70995612 AGCACTAAGTGTGCG-ACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
70995669 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70995684 GATTCACTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
57 56 0.79
58 15 0.21
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:70999001 original size:17 final size:17
Alignment explanation
Indices: 70998979--70999012 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
70998969 CATCATCTTT
70998979 TCAAGTTCTTTGGAATA
1 TCAAGTTCTTTGGAATA
*
70998996 TCAAGTTGTTTGGAATA
1 TCAAGTTCTTTGGAATA
70999013 GATAGATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (17 bp):
TCAAGTTCTTTGGAATA
Found at i:71004911 original size:46 final size:47
Alignment explanation
Indices: 71004848--71005260 Score: 565
Period size: 46 Copynumber: 9.0 Consensus size: 47
71004838 TTCGACATGA
* * * * * * **
71004848 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
* * ** *** *
71004894 TGCCATGGTATCATTCAACCAAGGTCTTATTCA-TTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTT-CATATCAGGT
* * *
71004941 TGCCATGGTATCTTTCAACCATGGTCTTAAACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
71004987 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
71005033 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
71005079 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
71005125 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
71005171 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
71005217 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAG
71005261 AGAGCACACT
Statistics
Matches: 342, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
45 3 0.01
46 298 0.87
47 41 0.12
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
Found at i:71007421 original size:11 final size:11
Alignment explanation
Indices: 71007405--71007456 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
71007395 TATACTAAAT
71007405 AAATAATAATA
1 AAATAATAATA
*
71007416 AAATAAT-ATT
1 AAATAATAATA
* *
71007426 AAATATCTCATA
1 AAATA-ATAATA
*
71007438 AAATATTAATA
1 AAATAATAATA
71007449 AAATAATA
1 AAATAATA
71007457 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:71008771 original size:3 final size:3
Alignment explanation
Indices: 71008763--71008808 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
71008753 ATTAACTTTT
71008763 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
71008809 TACATTTAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:71009241 original size:19 final size:19
Alignment explanation
Indices: 71009217--71009258 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
71009207 ATAAGTCCAG
71009217 TGATGTAATGTTAATTTGA
1 TGATGTAATGTTAATTTGA
71009236 TGATGTAATGTTAATTTGA
1 TGATGTAATGTTAATTTGA
71009255 TGAT
1 TGAT
71009259 CAAAGGGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (19 bp):
TGATGTAATGTTAATTTGA
Found at i:71010357 original size:17 final size:17
Alignment explanation
Indices: 71010335--71010369 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
71010325 TGCCAACTAA
*
71010335 ATTATTAGACTTTTTTT
1 ATTATTAGACTTCTTTT
*
71010352 ATTATTTGACTTCTTTT
1 ATTATTAGACTTCTTTT
71010369 A
1 A
71010370 ACCATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.63
Consensus pattern (17 bp):
ATTATTAGACTTCTTTT
Found at i:71010753 original size:5 final size:5
Alignment explanation
Indices: 71010734--71010778 Score: 72
Period size: 5 Copynumber: 8.6 Consensus size: 5
71010724 TTGTTTGTTC
71010734 TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
71010779 TACAAATTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
5 29 0.74
6 10 0.26
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:71015181 original size:6 final size:6
Alignment explanation
Indices: 71015170--71015201 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
71015160 ATTTATGTGT
71015170 TTTTTA TTTTTA TTTTTA -TTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
71015202 CACACCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:71021612 original size:13 final size:13
Alignment explanation
Indices: 71021594--71021621 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
71021584 TCTTTTTTTG
71021594 TTATTTATCATCT
1 TTATTTATCATCT
71021607 TTATTTATCATCT
1 TTATTTATCATCT
71021620 TT
1 TT
71021622 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:71029265 original size:19 final size:19
Alignment explanation
Indices: 71029241--71029280 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
71029231 TAGATTAAAG
71029241 TTTATTTTTCTACATTTAC
1 TTTATTTTTCTACATTTAC
71029260 TTTATTTTTCTACATTTAC
1 TTTATTTTTCTACATTTAC
71029279 TT
1 TT
71029281 CTTGTTCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATTTTTCTACATTTAC
Found at i:71032833 original size:29 final size:29
Alignment explanation
Indices: 71032785--71032881 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
71032775 ATTCAAATAT
*
71032785 AAAAATTGTAAAATTTTATAAAAATCGTAA
1 AAAAATTATAAAA-TTTATAAAAATCGTAA
* * **
71032815 AAAAATTATAAAATATAT-AGAATTATAA
1 AAAAATTATAAAATTTATAAAAATCGTAA
* *
71032843 AAAAATTAT-AAATTTTTATAAAGTCGTAA
1 AAAAATTATAAAATTTATA-AAAATCGTAA
*
71032872 GAAAATTATA
1 AAAAATTATA
71032882 CAAAATGTAA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
27 6 0.12
28 16 0.31
29 18 0.35
30 12 0.23
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAAATTATAAAATTTATAAAAATCGTAA
Found at i:71033133 original size:17 final size:17
Alignment explanation
Indices: 71033111--71033143 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
71033101 TTTTATAAAA
71033111 AAATTCTAATTTTTATT
1 AAATTCTAATTTTTATT
71033128 AAATTCTAATTTTTAT
1 AAATTCTAATTTTTAT
71033144 ATTTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATTCTAATTTTTATT
Found at i:71033389 original size:84 final size:84
Alignment explanation
Indices: 71033229--71033382 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
71033219 GAGCAAGGGA
* *
71033229 TTAATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCACTTTGAAAGTTCAAGTACCCAAT
1 TTAATTGCTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGCACTTTGAAAGTTCAAGTACCCAAT
71033294 TGAGTGAAAAAATAGGGGC
66 TGAGTGAAAAAATAGGGGC
* * * * * *
71033313 TTAATTG-TTTTTTGAAGAAGTTTGAGAGTCTTTTTTTATGTATTTTGAAAGTTTAAGTACTCAA
1 TTAATTGCTTTTTTGAAAAAGTTTGAGAGTC-TTTTTGATGCACTTTGAAAGTTCAAGTACCCAA
71033377 TTGAGT
65 TTGAGT
71033383 ACAAAAAGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 20 0.33
84 41 0.67
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (84 bp):
TTAATTGCTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGCACTTTGAAAGTTCAAGTACCCAAT
TGAGTGAAAAAATAGGGGC
Found at i:71034767 original size:21 final size:19
Alignment explanation
Indices: 71034724--71034773 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
71034714 GGTACCATAA
* *
71034724 TAAATATATATTGATAGTT
1 TAAATATATATTAATACTT
71034743 TAAATATCATATTAAATACTT
1 TAAATAT-ATATT-AATACTT
*
71034764 TAAAAATATA
1 TAAATATATA
71034774 GGTACCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (19 bp):
TAAATATATATTAATACTT
Found at i:71036235 original size:9 final size:9
Alignment explanation
Indices: 71036223--71036263 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
71036213 AAAAAACTAT
71036223 TAAAAATTA
1 TAAAAATTA
*
71036232 TAAAAATAA
1 TAAAAATTA
*
71036241 TTAAAATTA
1 TAAAAATTA
71036250 TAAAAAATTA
1 T-AAAAATTA
71036260 TAAA
1 TAAA
71036264 TTTTGGCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:71036237 original size:10 final size:10
Alignment explanation
Indices: 71036213--71036263 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
71036203 TGAACAGAAC
*
71036213 AAAAAACTAT
1 AAAAAATTAT
*
71036223 TAAAAATTAT
1 AAAAAATTAT
*
71036233 -AAAAATAAT
1 AAAAAATTAT
*
71036242 -TAAAATTAT
1 AAAAAATTAT
71036251 AAAAAATTAT
1 AAAAAATTAT
71036261 AAA
1 AAA
71036264 TTTTGGCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 15 0.44
10 19 0.56
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:71037207 original size:57 final size:57
Alignment explanation
Indices: 71037118--71037254 Score: 197
Period size: 57 Copynumber: 2.4 Consensus size: 57
71037108 TATACAATAG
* *
71037118 GATTA-CCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAGGAACTTGATCT-
1 GATTACCCA-TCCAGGCTAAATCCTTTTAATGACATATGCTCTAAGGAACTTAATCTA
*
71037174 GAATTACCCATCTAGGCTAAATCCTTTTAATGACATATGCTCTAAGGAACTTAATCTA
1 G-ATTACCCATCCAGGCTAAATCCTTTTAATGACATATGCTCTAAGGAACTTAATCTA
* *
71037232 GATTACCCGTCCGGGCTAAATCC
1 GATTACCCATCCAGGCTAAATCC
71037255 AATCCATAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
56 1 0.01
57 67 0.93
58 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (57 bp):
GATTACCCATCCAGGCTAAATCCTTTTAATGACATATGCTCTAAGGAACTTAATCTA
Found at i:71037267 original size:57 final size:57
Alignment explanation
Indices: 71037149--71037267 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 57
71037139 CCTTTTTATG
* * ** * *
71037149 ACATATGCTCTAAGGAACTTGATCTGAATTACCCATCTAGGCTAAATCCTTTTAATG
1 ACATATGCTCTAAGGAACTTAATCTGAATTACCCATCCAGGCTAAATCCAATCAATA
* * *
71037206 ACATATGCTCTAAGGAACTTAATCT-AGATTACCCGTCCGGGCTAAATCCAATCCATA
1 ACATATGCTCTAAGGAACTTAATCTGA-ATTACCCATCCAGGCTAAATCCAATCAATA
71037263 ACATA
1 ACATA
71037268 ACCTCGAGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 1 0.02
57 51 0.98
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (57 bp):
ACATATGCTCTAAGGAACTTAATCTGAATTACCCATCCAGGCTAAATCCAATCAATA
Found at i:71039008 original size:24 final size:24
Alignment explanation
Indices: 71038978--71039148 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
71038968 GAATGTGACT
* *
71038978 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
71039002 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71039026 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
**
71039050 ATAGTGTATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71039074 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71039098 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71039122 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71039146 ATA
1 ATA
71039149 TGGTCTTTGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:71046935 original size:24 final size:24
Alignment explanation
Indices: 71046905--71047075 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
71046895 GAATGTGACT
* *
71046905 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
71046929 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71046953 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
**
71046977 ATAGTGTATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71047001 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71047025 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71047049 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71047073 ATA
1 ATA
71047076 TGGTCTTTGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:71048688 original size:2 final size:2
Alignment explanation
Indices: 71048683--71048720 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
71048673 ACACACACAC
*
71048683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A
71048721 CAATCCACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71061571 original size:96 final size:95
Alignment explanation
Indices: 71061394--71061673 Score: 314
Period size: 96 Copynumber: 2.9 Consensus size: 95
71061384 ACTAGGGTTA
* * * *
71061394 TATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAGTATGTGAGCCAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTGA-TATGTGAGCCAGTGTAA
** *
71061459 GACCACATTTGAAACATGGC-CTCAGCATTGT
65 GACCATGTTTGGAACATGGCAC-CAGCATTGT
* *
71061490 TATGAGAGCTAGTGTAAGATCATCTCTAGGACATGGCATCGGCCTTGATATGTGAGCCAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCC-TGATATGTGAGCCAGTGTAA
*
71061555 GACCATGTTTGGAACATGGCACCGGCATTGT
65 GACCATGTTTGGAACATGGCACCAGCATTGT
* * * * * * *
71061586 TGT-ATGAGCCAGTATAAGACCATGTCCAGGACATGGCATCAGCACCGATATATGAGAGCCAGTG
1 TATGA-GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTG--ATATGTGAGCCAGTG
71061650 TAAGACCATGTTTGGGAA-ATGGCA
62 TAAGACCATGTTT-GGAACATGGCA
71061674 ACGGCATCTT
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
95 1 0.01
96 116 0.73
97 4 0.03
98 33 0.21
99 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (95 bp):
TATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTGATATGTGAGCCAGTGTAAG
ACCATGTTTGGAACATGGCACCAGCATTGT
Found at i:71061608 original size:48 final size:48
Alignment explanation
Indices: 71061398--71061680 Score: 225
Period size: 48 Copynumber: 5.9 Consensus size: 48
71061388 GGGTTATATG
* * * * *
71061398 TGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAG-TATG
1 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT-TGTTATA
** * * *
71061446 TGAGCCAGTGTAAGACCACATTTGAAACATGGCCTCAGCATTGTTATGA
1 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTAT-A
* * * * * * *
71061495 -GAGCTAGTGTAAGATCATCTCTAGG-ACATGGCATCGGCCTTGATATG
1 TGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTGTTATA
* *
71061542 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTGTTGTA
1 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATA
* ** * ** *
71061590 TGAGCCAGTATAAGACCATGTCCAGG-ACATGGCATCAGCACCGATATA
1 TGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTGTTATA
*
71061638 TGAGAGCCAGTGTAAGACCATGTTTGGGAA-ATGGCAACGGCAT
1 T--GAGCCAGTGTAAGACCATGTTT-GGAACATGGCATCGGCAT
71061681 CTTACCCTTT
Statistics
Matches: 180, Mismatches: 45, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
47 4 0.02
48 140 0.78
49 4 0.02
50 31 0.17
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATA
Found at i:71062469 original size:30 final size:30
Alignment explanation
Indices: 71062435--71062495 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
71062425 AATGCTTGGT
71062435 AAATAGCCTTGTTTTTATCCACACGGGTAG
1 AAATAGCCTTGTTTTTATCCACACGGGTAG
71062465 AAATAGCCTTGTTTTTATCCACACGGGTAG
1 AAATAGCCTTGTTTTTATCCACACGGGTAG
71062495 A
1 A
71062496 CACATGAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (30 bp):
AAATAGCCTTGTTTTTATCCACACGGGTAG
Found at i:71076446 original size:41 final size:41
Alignment explanation
Indices: 71076401--71076569 Score: 148
Period size: 41 Copynumber: 4.1 Consensus size: 41
71076391 GCACAAACAT
* *
71076401 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * * *
71076442 CCTTC-GAGACCAAGCTCGGATTA-GACCACTGGCTCGAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * *
71076483 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
* ** * *
71076523 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
71076564 CCTTCG
1 CCTTCG
71076570 AGACCAAGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
40 42 0.40
41 56 0.53
42 7 0.07
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (41 bp):
CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:71076570 original size:41 final size:41
Alignment explanation
Indices: 71076423--71076570 Score: 176
Period size: 41 Copynumber: 3.6 Consensus size: 41
71076413 AGCCCGATTC
* * *
71076423 TTAGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* * * *
71076462 TTAGACCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTA
1 TTAG--CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* *
71076505 TGA-CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
71076545 TTAGCACTGGCTCAAAAGCCCTTCGA
1 TTAGCACTGGCTCAAAAGCCCTTCGA
71076571 GACCAAGCTC
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 35 0.39
41 48 0.53
43 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
Found at i:71084903 original size:40 final size:41
Alignment explanation
Indices: 71084859--71085026 Score: 157
Period size: 40 Copynumber: 4.1 Consensus size: 41
71084849 GCACAAACAT
* *
71084859 CCTTCGGAA-TCAAG-CCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGTCCGATTATGAGCACTGGCTCAAAAGC
* * * * *
71084899 CCTTC-GAGACCAAGCTCGGATTA-GACCACTGGCTCGAAGGC
1 CCTTCGGA-ACTAAG-TCCGATTATGAGCACTGGCTCAAAAGC
* *
71084940 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGGAACTAAGTCCGATTATGAGCACTGGCTCAAAAGC
* * * *
71084980 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGTCCGATTATGAGCACTGGCTCAAAAGC
71085021 CCTTCG
1 CCTTCG
71085027 AGACCAAGCT
Statistics
Matches: 105, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.02
40 50 0.48
41 46 0.44
42 7 0.07
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
CCTTCGGAACTAAGTCCGATTATGAGCACTGGCTCAAAAGC
Found at i:71084942 original size:41 final size:40
Alignment explanation
Indices: 71084880--71085047 Score: 175
Period size: 41 Copynumber: 4.2 Consensus size: 40
71084870 AAGCCGATTC
71084880 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
71084919 TTAGACCACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
71084959 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
71085002 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
71085041 TTTAGAC
1 -TTAGAC
71085048 CCGATTAGCA
Statistics
Matches: 107, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
39 5 0.05
40 37 0.35
41 61 0.57
42 1 0.01
43 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:71088721 original size:68 final size:69
Alignment explanation
Indices: 71088649--71088846 Score: 274
Period size: 71 Copynumber: 2.8 Consensus size: 69
71088639 ACACCCTGTA
* * * * *
71088649 GTAGCTAGGTCACATGTGTGAT-ATGAGATGTATC-CCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCGCATGCGTGATCAAGAGAAGGA-CACCATGTAGACAAGAGAGCTACGTGAAAGA
71088712 TAAAT
65 TAAAT
*
71088717 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGA-T-CAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
71088782 ATAAAT
64 ATAAAT
*
71088788 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGA-T-CAAGAGAAGGACACCATGTAGACAAGAGAGCTACG
71088847 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 19 0.16
69 1 0.01
70 1 0.01
71 99 0.82
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (69 bp):
GTAGCTAGGTCGCATGCGTGATCAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGAT
AAAT
Found at i:71088760 original size:41 final size:41
Alignment explanation
Indices: 71088715--71088832 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
71088705 TGAAAGATAA
71088715 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
71088756 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
71088786 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
71088827 ATGTAG
1 ATGTAG
71088833 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:71088771 original size:71 final size:71
Alignment explanation
Indices: 71088683--71088846 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
71088673 GAGATGTATC
71088683 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
71088748 AGGACA
66 AGGACA
71088754 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
71088819 AGGACA
66 AGGACA
71088825 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
71088847 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:71093191 original size:15 final size:15
Alignment explanation
Indices: 71093152--71093184 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
71093142 TAAAAAATTC
*
71093152 AAAGACAGCACATAT
1 AAAGACAACACATAT
71093167 AAAGACAACACATAT
1 AAAGACAACACATAT
71093182 AAA
1 AAA
71093185 TCCAACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAGACAACACATAT
Found at i:71104959 original size:27 final size:26
Alignment explanation
Indices: 71104915--71104966 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
71104905 CTCGCTGCAA
*
71104915 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
71104942 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
71104967 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:71105063 original size:27 final size:26
Alignment explanation
Indices: 71105011--71105070 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
71105001 ATATATATAT
*
71105011 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
71105037 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
71105064 ATATCTG
1 ATATCTG
71105071 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:71112422 original size:2 final size:2
Alignment explanation
Indices: 71112415--71112441 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71112405 GCTTCGCCAC
71112415 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
71112442 CTGTTCTGGT
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:71112490 original size:27 final size:26
Alignment explanation
Indices: 71112438--71112497 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
71112428 ATATATATAT
*
71112438 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
71112464 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
71112491 ATATCTG
1 ATATCTG
71112498 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:71114100 original size:14 final size:15
Alignment explanation
Indices: 71114071--71114105 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
71114061 TTCAACTCAG
*
71114071 AATTTTTTTAAAAAA
1 AATTATTTTAAAAAA
71114086 AATTATTTTAAAAAA
1 AATTATTTTAAAAAA
71114101 AATTA
1 AATTA
71114106 GTTAGAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTATTTTAAAAAA
Found at i:71125062 original size:43 final size:42
Alignment explanation
Indices: 71124973--71125086 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
71124963 TATGATTACA
* *
71124973 TGTAAGACCATGTTTGGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATT-AGATTATG
71125016 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATT-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-T-ATTAGATTAT-G
* *
71125059 TGTAAGGCCCA-GTCTGGGACAGTGGCAT
1 TGTAA-GACCATGTCTGGGACATTGGCAT
71125087 TTATATGTGA
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
42 1 0.02
43 54 0.86
44 5 0.08
45 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTAGATTATG
Found at i:71126148 original size:19 final size:19
Alignment explanation
Indices: 71126124--71126188 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
71126114 CAATTTACCC
71126124 TTCACTTAAACTTTATAAA
1 TTCACTTAAACTTTATAAA
***
71126143 TTCACTTACCAA-TTTA-CCC
1 TTCACTTA--AACTTTATAAA
71126162 TTCACTTAAACTTTATAAA
1 TTCACTTAAACTTTATAAA
71126181 TTCACTTA
1 TTCACTTA
71126189 CTTTATGCCC
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.06
18 4 0.11
19 24 0.67
20 4 0.11
21 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (19 bp):
TTCACTTAAACTTTATAAA
Found at i:71126153 original size:38 final size:38
Alignment explanation
Indices: 71126110--71126189 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
71126100 TTTACAAAAA
71126110 TTACCAATTTACCCTTCACTTAAACTTTATAAATTCAC
1 TTACCAATTTACCCTTCACTTAAACTTTATAAATTCAC
71126148 TTACCAATTTACCCTTCACTTAAACTTTATAAATTCAC
1 TTACCAATTTACCCTTCACTTAAACTTTATAAATTCAC
71126186 TTAC
1 TTAC
71126190 TTTATGCCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (38 bp):
TTACCAATTTACCCTTCACTTAAACTTTATAAATTCAC
Found at i:71126541 original size:21 final size:21
Alignment explanation
Indices: 71126516--71126571 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
71126506 TGTGGTCCAA
*
71126516 GGGACACGCCCGTGTGACCTT
1 GGGACACGCCCGTGTAACCTT
* *
71126537 GGGACATGCTCGTGTAACCTT
1 GGGACACGCCCGTGTAACCTT
*
71126558 GGGACACGTCCGTG
1 GGGACACGCCCGTG
71126572 CTACAGGCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGACACGCCCGTGTAACCTT
Found at i:71130963 original size:48 final size:48
Alignment explanation
Indices: 71130881--71131168 Score: 308
Period size: 48 Copynumber: 6.0 Consensus size: 48
71130871 ACTAGGGTTA
*
71130881 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCAT
** ** * * **
71130929 TATGTGAGCCAGTGTAAGACCACATTTGAAACATGGCCTCGACATTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCAT
* * * * *
71130977 TATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA-
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC-AT
* * *
71131025 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTTTAT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCAT
* * * *
71131073 TGTATGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATCGAT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC-AT
* * * * *
71131122 ATATGAGAGCTAGTGTAAGAACATGTCTGGGACATGACATCGGCATC
1 -TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
71131169 TTACCCTTTT
Statistics
Matches: 193, Mismatches: 43, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
47 1 0.01
48 151 0.78
49 2 0.01
50 39 0.20
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCAT
Found at i:71140330 original size:38 final size:38
Alignment explanation
Indices: 71140286--71140358 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
71140276 ATTATCTTTT
* *
71140286 TATTTATTAGTTGGGGAGAGACTTTGAGTAGTTTTTCC
1 TATTTATAAGTTGGGAAGAGACTTTGAGTAGTTTTTCC
*
71140324 TATTTATAAGTTGGGAAGGGACTTTGAGTAGTTTT
1 TATTTATAAGTTGGGAAGAGACTTTGAGTAGTTTT
71140359 AAGTATTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.44
Consensus pattern (38 bp):
TATTTATAAGTTGGGAAGAGACTTTGAGTAGTTTTTCC
Found at i:71143745 original size:92 final size:93
Alignment explanation
Indices: 71143633--71143802 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
71143623 GCCCCTAAGT
* * *
71143633 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCGTCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71143697 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
71143726 GAACT-GGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71143790 CGAGTTCGGATGC
66 CGAGTTCGGATGC
71143803 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
91 2 0.03
92 66 0.90
93 5 0.07
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:71143799 original size:46 final size:46
Alignment explanation
Indices: 71143628--71143799 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
71143618 AACCCGCCCC
* * *
71143628 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCGTCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCA
* *
71143674 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
71143722 TCA-CGAACT-GGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
71143766 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71143800 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 1 0.01
44 2 0.02
45 7 0.07
46 76 0.73
47 5 0.05
48 2 0.02
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:71144253 original size:30 final size:29
Alignment explanation
Indices: 71144219--71144277 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
71144209 ATTTAATACG
71144219 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTT-CCCCTA
* * *
71144249 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
71144278 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTCCCCTA
Found at i:71150349 original size:46 final size:46
Alignment explanation
Indices: 71150282--71150407 Score: 180
Period size: 46 Copynumber: 2.7 Consensus size: 46
71150272 AACCCGCCCC
* * *
71150282 TAAGTGAACTCGAACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCA
* * *
71150328 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCA
* *
71150374 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGA
71150408 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCA
Found at i:71150862 original size:30 final size:30
Alignment explanation
Indices: 71150828--71150887 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71150818 ATTTAATATG
*
71150828 AACTTTGGGAAAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
71150858 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
71150888 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:71156762 original size:15 final size:15
Alignment explanation
Indices: 71156723--71156755 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
71156713 TAAAAAATTC
*
71156723 AAAGACAACATATAT
1 AAAGACAACACATAT
71156738 AAAGACAACACATAT
1 AAAGACAACACATAT
71156753 AAA
1 AAA
71156756 TCCAACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.15, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAGACAACACATAT
Found at i:71165459 original size:268 final size:268
Alignment explanation
Indices: 71164982--71165515 Score: 951
Period size: 268 Copynumber: 2.0 Consensus size: 268
71164972 ATAGGGCCGG
**
71164982 TTGCTTATAGATTGGTTCGGCCACATGAACTCGCAAAGATTCATAATGTATTCCATGTATTGATG
1 TTGCTTATAGATTGGTTCGGCCACATGAACTCGCAAAGATTCATAATGTATTCCATGTATCAATG
* *
71165047 CTTAGATGGTATAGATCTGATCCTTCACATGTGGTTAGTCCATCTGAAATTGAGATTCAATCGAA
66 CTTAGACGGTATAGATCTAATCCTTCACATGTGGTTAGTCCATCTGAAATTGAGATTCAATCGAA
* * *
71165112 TTTTAGCTATGAAGAAGAACCGATCCGTATCTTAGCTCAGGAAGTGAAAGACATGCGGAATAAGA
131 TTTGAGCTACGAAGAAGAACCGATCCGTATCTTAGCTCAGGAAGTGAAAGAAATGCGGAATAAGA
* * *
71165177 AGATTTCTTTAGTAAAATTATTATGGGTCAAACATGGAGTAGAAGAGGCTACTTGGGAGATAGAA
196 AAATTTCTTTAGTAAAAGTATTATGGGTCAAACATGGAGTAAAAGAGGCTACTTGGGAGATAGAA
71165242 GACTCTTT
261 GACTCTTT
*
71165250 TTGCTTATAGATTGGTTCTGCCACATGAACTCGCAAAGATTCATAATGTATTCCATGTATCAATG
1 TTGCTTATAGATTGGTTCGGCCACATGAACTCGCAAAGATTCATAATGTATTCCATGTATCAATG
*
71165315 CTTAGACGGTATAGATCTAATCCTTCACATGTGGTTAGTCCATCTGAAATTGAGATTCAATCGGA
66 CTTAGACGGTATAGATCTAATCCTTCACATGTGGTTAGTCCATCTGAAATTGAGATTCAATCGAA
71165380 TTTGAGCTACGAAGAAGAACCGATCCGTATCTTAGCTCAGGAAGTGAAAGAAATGCGGAATAAGA
131 TTTGAGCTACGAAGAAGAACCGATCCGTATCTTAGCTCAGGAAGTGAAAGAAATGCGGAATAAGA
*
71165445 AAATTTCTTTAGTAAAAGTATTATGGGTCAAACATGGAGTAAAAGAGGCTACTTGGGAGCTAGAA
196 AAATTTCTTTAGTAAAAGTATTATGGGTCAAACATGGAGTAAAAGAGGCTACTTGGGAGATAGAA
71165510 GACTCT
261 GACTCT
71165516 ATGAAAGAAC
Statistics
Matches: 253, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
268 253 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (268 bp):
TTGCTTATAGATTGGTTCGGCCACATGAACTCGCAAAGATTCATAATGTATTCCATGTATCAATG
CTTAGACGGTATAGATCTAATCCTTCACATGTGGTTAGTCCATCTGAAATTGAGATTCAATCGAA
TTTGAGCTACGAAGAAGAACCGATCCGTATCTTAGCTCAGGAAGTGAAAGAAATGCGGAATAAGA
AAATTTCTTTAGTAAAAGTATTATGGGTCAAACATGGAGTAAAAGAGGCTACTTGGGAGATAGAA
GACTCTTT
Found at i:71169615 original size:209 final size:209
Alignment explanation
Indices: 71169255--71169676 Score: 756
Period size: 209 Copynumber: 2.0 Consensus size: 209
71169245 CTCTATCAGC
* * *
71169255 CAATTCTTGCAACTGAGACTTTAATTCTTTCAGTTCGGTCGAAGCCATTCTATATAGAGCTATTG
1 CAATTCTTGCAACTGAGACTTTAATTCTATCAGTTCGATCGAAGCCATTCTATACAGAGCTATTG
*
71169320 AAACCGGAGTAGTACCAGGTACCAATTCAATGTCAAACTCTACTTCTCTAATCAGAGGTAAACCC
66 AAACCAGAGTAGTACCAGGTACCAATTCAATGTCAAACTCTACTTCTCTAATCAGAGGTAAACCC
*
71169385 AGAAGTTCTTCAGGATATACATCAGGGAACTCATACACAATAAGCACTGATTCAACTTTCTTTTC
131 AGAAGTTCTTCAGGATATACATCAGGGAACTCACACACAATAAGCACTGATTCAACTTTCTTTTC
71169450 TGACACTCTCGAAT
196 TGACACTCTCGAAT
71169464 CAATTCTTGCAACTGAGACTTTAATTCTATCAGTTCGATCGAAGCCATTCTATACAGAGCTATTG
1 CAATTCTTGCAACTGAGACTTTAATTCTATCAGTTCGATCGAAGCCATTCTATACAGAGCTATTG
71169529 AAACCAGAGTAGTACCAGGTACCAATTCAATGTCAAACTCTACTTCTCTAATC-GAAGGTAAACC
66 AAACCAGAGTAGTACCAGGTACCAATTCAATGTCAAACTCTACTTCTCTAATCAG-AGGTAAACC
* * *
71169593 CAGAAGTTCTTCAGGATATACATTAGGGAACTCACACACAATAGGGACTGATTCAACTTTCTTTT
130 CAGAAGTTCTTCAGGATATACATCAGGGAACTCACACACAATAAGCACTGATTCAACTTTCTTTT
71169658 CTGACACTCTCGAAT
195 CTGACACTCTCGAAT
71169673 CAAT
1 CAAT
71169677 CACATATGTA
Statistics
Matches: 204, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
208 1 0.00
209 203 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (209 bp):
CAATTCTTGCAACTGAGACTTTAATTCTATCAGTTCGATCGAAGCCATTCTATACAGAGCTATTG
AAACCAGAGTAGTACCAGGTACCAATTCAATGTCAAACTCTACTTCTCTAATCAGAGGTAAACCC
AGAAGTTCTTCAGGATATACATCAGGGAACTCACACACAATAAGCACTGATTCAACTTTCTTTTC
TGACACTCTCGAAT
Found at i:71175406 original size:47 final size:48
Alignment explanation
Indices: 71175333--71175511 Score: 181
Period size: 47 Copynumber: 3.8 Consensus size: 48
71175323 AGGGTAAGGT
* *
71175333 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCTCAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
* * * * *
71175380 GTCGATGCCATGTCCCATACATGGTCTTAC-TTTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTC-AA
* * *
71175428 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-CCTCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
* *
71175473 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
71175512 TAACAAATGA
Statistics
Matches: 106, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 24 0.23
47 60 0.57
48 20 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
Found at i:71177031 original size:27 final size:29
Alignment explanation
Indices: 71177001--71177111 Score: 111
Period size: 30 Copynumber: 3.9 Consensus size: 29
71176991 ATGCAAGAGC
*
71177001 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
71177028 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
71177057 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
**
71177087 ATATAT-TTCAGCTCGCACACTTAGT
1 ATATATGTGAAGCTCGCACACTTAGT
71177112 CAGCTCGCAC
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
27 5 0.06
28 22 0.29
29 21 0.27
30 29 0.38
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:71177098 original size:28 final size:29
Alignment explanation
Indices: 71177013--71177111 Score: 182
Period size: 30 Copynumber: 3.4 Consensus size: 29
71177003 ATAGTGAATC
71177013 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71177042 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
71177072 CGCACACTTAGTGCTATATA-TTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71177100 CGCACACTTAGT
1 CGCACACTTAGT
71177112 CAGCTCGCAC
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
28 20 0.29
29 20 0.29
30 29 0.42
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:71177116 original size:17 final size:17
Alignment explanation
Indices: 71177094--71177128 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71177084 GCTATATATT
71177094 TCAGCTCGCACACTTAG
1 TCAGCTCGCACACTTAG
71177111 TCAGCTCGCACACTTAG
1 TCAGCTCGCACACTTAG
71177128 T
1 T
71177129 GCTATATAAT
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:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (17 bp):
TCAGCTCGCACACTTAG
Found at i:71177130 original size:45 final size:45
Alignment explanation
Indices: 71177066--71177156 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
71177056 TATATAATTT
* *
71177066 TCAGCTCGCACACTTAGTGCTATATATTTC-AGCTCGCACACTTAG
1 TCAGCTCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAG
71177111 TCAGCTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAG
1 TCAGCTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAG
71177156 T
1 T
71177157 GCTGTACAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (45 bp):
TCAGCTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAG
Found at i:71177155 original size:28 final size:29
Alignment explanation
Indices: 71177115--71177188 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
71177105 ACTTAGTCAG
*
71177115 CTCGCACACTTAGTGCTATATAA-TCAAA
1 CTCGCACACTTAGTGCTATACAATTCAAA
* *
71177143 CTCGCACACTTAGTGCTGTACAATTTTAAA
1 CTCGCACACTTAGTGCTATACAA-TTCAAA
*
71177173 CCCGCACACTTAGTGC
1 CTCGCACACTTAGTGC
71177189 CAATCTTGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 21 0.52
30 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
CTCGCACACTTAGTGCTATACAATTCAAA
Found at i:71177179 original size:75 final size:73
Alignment explanation
Indices: 71177036--71177186 Score: 196
Period size: 75 Copynumber: 2.0 Consensus size: 73
71177026 CTATATATTT
* * * * *
71177036 TCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATATTTCAGCTC
1 TCAGCTCGCACACTTAGTGCTATATAA--TTCAACTCGCACACTTAGTGCTATAAATTTAAACCC
71177101 GCACACTTAG
64 GCACACTTAG
*
71177111 TCAGCTCGCACACTTAGTGCTATATAA-TCAAACTCGCACACTTAGTGCTGTACAATTTTAAACC
1 TCAGCTCGCACACTTAGTGCTATATAATTC-AACTCGCACACTTAGTGCTATA-AA-TTTAAACC
71177175 CGCACACTTAG
63 CGCACACTTAG
71177186 T
1 T
71177187 GCCAATCTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
72 2 0.03
73 20 0.30
74 1 0.01
75 44 0.66
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (73 bp):
TCAGCTCGCACACTTAGTGCTATATAATTCAACTCGCACACTTAGTGCTATAAATTTAAACCCGC
ACACTTAG
Found at i:71184908 original size:28 final size:28
Alignment explanation
Indices: 71184823--71184974 Score: 201
Period size: 28 Copynumber: 5.5 Consensus size: 28
71184813 ATAGTGAATC
71184823 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA-TTTCAGCT
71184852 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-A-TTTCAGCT
71184882 CGCACACTTAGTGCTATATATTTCAGCT
1 CGCACACTTAGTGCTATATATTTCAGCT
71184910 CGCACA-TTA-TGC--TATA--TCAGCT
1 CGCACACTTAGTGCTATATATTTCAGCT
* *
71184932 CGCACACTTAGTGCTATATA-ATCAAACT
1 CGCACACTTAGTGCTATATATTTC-AGCT
71184960 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71184975 GTACAATTTT
Statistics
Matches: 115, Mismatches: 1, Indels: 15
0.88 0.01 0.11
Matches are distributed among these distances:
22 12 0.10
23 3 0.03
24 7 0.06
26 7 0.06
27 5 0.04
28 32 0.28
29 20 0.17
30 29 0.25
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATTTCAGCT
Found at i:71184962 original size:50 final size:52
Alignment explanation
Indices: 71184823--71184974 Score: 175
Period size: 50 Copynumber: 2.8 Consensus size: 52
71184813 ATAGTGAATC
* *
71184823 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGC--TAT-A---TCAGCT
* *
71184882 CGCACACTTAGTGCTATATATTTCAGCTCGCACA-TTA-TGCTATATCAGCT
1 CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATATCAGCT
71184932 CGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCT
71184975 GTACAATTTT
Statistics
Matches: 88, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
49 2 0.02
50 35 0.40
51 3 0.03
52 4 0.05
53 1 0.01
54 3 0.03
56 3 0.03
57 3 0.03
58 14 0.16
59 20 0.23
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (52 bp):
CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATATCAGCT
Found at i:71184994 original size:80 final size:78
Alignment explanation
Indices: 71184846--71184995 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 78
71184836 CTATATATTT
* * * * *
71184846 TCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATATTTCAGCTC
1 TCAGCTCGCACACTTAGTGCTATATAA--TTCAACTCGCACACTTAGTGCTATAAATTTAAACCC
71184911 GCACATTATGCTATA
64 GCACATTATGCTATA
*
71184926 TCAGCTCGCACACTTAGTGCTATATAA-TCAAACTCGCACACTTAGTGCTGTACAATTTTAAACC
1 TCAGCTCGCACACTTAGTGCTATATAATTC-AACTCGCACACTTAGTGCTATA-AA-TTTAAACC
71184990 CGCACA
63 CGCACA
71184996 CTTAGTGCCA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
77 2 0.03
78 20 0.33
79 1 0.02
80 38 0.62
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (78 bp):
TCAGCTCGCACACTTAGTGCTATATAATTCAACTCGCACACTTAGTGCTATAAATTTAAACCCGC
ACATTATGCTATA
Found at i:71184996 original size:30 final size:28
Alignment explanation
Indices: 71184932--71185003 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
71184922 TATATCAGCT
* *
71184932 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACC
* *
71184960 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAA--TCAAACC
71184990 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71185004 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 19 0.50
30 19 0.50
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACC
Found at i:71190841 original size:40 final size:40
Alignment explanation
Indices: 71190782--71190923 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
71190772 AAATTGAATG
* * *
71190782 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
71190822 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
71190862 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
71190902 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
71190924 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:71190947 original size:40 final size:39
Alignment explanation
Indices: 71190820--71190949 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
71190810 ATGCTGGAAA
* * *
71190820 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
71190861 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
71190899 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
71190940 TTATATCCGG
1 TTATATCCGG
71190950 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:71198863 original size:40 final size:40
Alignment explanation
Indices: 71198797--71198947 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
71198787 AAATTGAATG
* *
71198797 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
71198836 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
**
71198876 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
71198916 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
71198948 ACATGCTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:71198961 original size:40 final size:39
Alignment explanation
Indices: 71198834--71198963 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
71198824 ATGCTGGAAA
* * *
71198834 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
71198875 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
71198913 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
71198954 TTATATCCGG
1 TTATATCCGG
71198964 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:71201230 original size:39 final size:39
Alignment explanation
Indices: 71201149--71201246 Score: 126
Period size: 39 Copynumber: 2.4 Consensus size: 39
71201139 TTATTGAGAT
*
71201149 TATGTGTAAGACCATATCTGGGATATGGCATCAATATGAGAC
1 TATGTGTAAGACCATA---GGGATATGGCATCAATATAAGAC
* *
71201191 TATGTGAAAGACCATAGGGATATGGCATCGATATAAGAC
1 TATGTGTAAGACCATAGGGATATGGCATCAATATAAGAC
71201230 T-TCGTGTAAGACCATAG
1 TAT-GTGTAAGACCATAG
71201247 CTGGGCTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 35 0.69
42 15 0.29
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (39 bp):
TATGTGTAAGACCATAGGGATATGGCATCAATATAAGAC
Found at i:71207031 original size:21 final size:21
Alignment explanation
Indices: 71207006--71207049 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
71206996 TTTAGAGATA
71207006 GTGAGATTGCATGGGGTATTG
1 GTGAGATTGCATGGGGTATTG
71207027 GTGAGATTGCATGGGGTATTG
1 GTGAGATTGCATGGGGTATTG
71207048 GT
1 GT
71207050 ATCTATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.05, G:0.43, T:0.34
Consensus pattern (21 bp):
GTGAGATTGCATGGGGTATTG
Found at i:71208839 original size:43 final size:43
Alignment explanation
Indices: 71208778--71208868 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
71208768 GGATATCATC
71208778 AACTTTTCCTAACTCTTAAAGAGATGATCGAATGTAATATTCT
1 AACTTTTCCTAACTCTTAAAGAGATGATCGAATGTAATATTCT
71208821 AACTTTTCCTAACTCTTAAAGAGATGATCGAATGTAATATTCT
1 AACTTTTCCTAACTCTTAAAGAGATGATCGAATGTAATATTCT
71208864 AACTT
1 AACTT
71208869 CGTATTGTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (43 bp):
AACTTTTCCTAACTCTTAAAGAGATGATCGAATGTAATATTCT
Found at i:71210881 original size:13 final size:13
Alignment explanation
Indices: 71210863--71210888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71210853 CTGGACAAAC
71210863 GCCCATGTCCTTT
1 GCCCATGTCCTTT
71210876 GCCCATGTCCTTT
1 GCCCATGTCCTTT
71210889 CACACGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.15, T:0.38
Consensus pattern (13 bp):
GCCCATGTCCTTT
Found at i:71212062 original size:46 final size:44
Alignment explanation
Indices: 71211977--71212140 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 44
71211967 TCAACGCTAT
* *
71211977 GTCCCAGACATGGTCTTACACTGACATGTCTTGTAGCCGATGCAA
1 GTCCCAGACAT-GTCTTACACTGGCATGTCTCGTAGCCGATGCAA
* *
71212022 GTCTCAGACATGTCTTACACTGGCTTATGTCTCG-AGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTGGC--ATGTCTCGTA-GCCGATGCAA
* * * *
71212068 GTCCCGGACATGTCTTACACTGGCACTCGTCTC-AATGTCGATGCCAT
1 GTCCCAGACATGTCTTACACTGGCA-T-GTCTCGTA-GCCGATG-CAA
*
71212115 GTCCCGGACATGGTCTTACACTGGCA
1 GTCCCAGACAT-GTCTTACACTGGCA
71212141 AACAAATTAC
Statistics
Matches: 103, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
44 13 0.13
45 12 0.12
46 50 0.49
47 14 0.14
48 14 0.14
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (44 bp):
GTCCCAGACATGTCTTACACTGGCATGTCTCGTAGCCGATGCAA
Found at i:71214649 original size:30 final size:29
Alignment explanation
Indices: 71214555--71214656 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
71214545 TATAGTGAAT
* * *
71214555 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
71214584 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
71214612 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
71214642 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71214657 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:71222510 original size:30 final size:29
Alignment explanation
Indices: 71222416--71222517 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
71222406 TATAGTGAAT
* * *
71222416 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
71222445 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
71222473 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
71222503 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71222518 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:71228927 original size:23 final size:25
Alignment explanation
Indices: 71228891--71228938 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
71228881 TCCAAATGAA
*
71228891 AATATATTCATTAATCTTA-AATTC
1 AATATATTCATTAATCATATAATTC
*
71228915 AATAT-TTTATTAATCATATAATTC
1 AATATATTCATTAATCATATAATTC
71228939 TATCTCTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATATTCATTAATCATATAATTC
Found at i:71230944 original size:29 final size:27
Alignment explanation
Indices: 71230910--71231012 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 27
71230900 TACTCGATCA
*
71230910 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
** *
71230939 CGCACACATT-GTGCCATATAGTCCAAACT
1 CGCACAC-TTAGTGCCAT-TA-TTTAAGCT
*
71230968 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
71230997 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
71231013 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
28 4 0.07
29 54 0.90
30 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:71232357 original size:20 final size:22
Alignment explanation
Indices: 71232320--71232360 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
71232310 TCCACACACA
71232320 TTTTTTTTCATCATTTTCTTTTT
1 TTTTTTTTCA-CATTTTCTTTTT
71232343 TTTTTTTTC-CA-TTTCTTT
1 TTTTTTTTCACATTTTCTTT
71232361 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
23 9 0.50
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTTTCACATTTTCTTTTT
Found at i:71233013 original size:47 final size:47
Alignment explanation
Indices: 71232944--71233113 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 47
71232934 GGCCCATAAG
*
71232944 CGAACTCGGACTCAACTTAACGAGCTCAGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCA
* * * * *
71232991 CGAACTCAGACTCAACTCAACGAGTTC-G--GGC-A-TTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT-C-TCA
* * * *
71233036 GTGAAATCGGACTCAATTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCA
71233084 CGAACTCGGACTCAACTCAACGAGCTCAGA
1 CGAACTCGGACTCAACTCAACGAGCTCAGA
71233114 CATTCGCATC
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 23 0.24
47 51 0.53
48 2 0.02
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:71233096 original size:93 final size:93
Alignment explanation
Indices: 71232937--71233163 Score: 348
Period size: 93 Copynumber: 2.4 Consensus size: 93
71232927 TGTAACCGGC
* *
71232937 CCATAAGCGAACTCGGACTCAACTT-AACGAGCTCAGATGCCTAGTTACATCTCACGAACTCAGA
1 CCATAAGTGAACTCGGACTCAA-TTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGA
* * *
71233001 CTCAACTCAACGAGTTCGGGCATTCGCAT
65 CTCAACTCAACGAGCTCAGACATTCGCAT
* *
71233030 CCATAAGTGAAATCGGACTCAATTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAATTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
71233095 TCAACTCAACGAGCTCAGACATTCGCAT
66 TCAACTCAACGAGCTCAGACATTCGCAT
* * *
71233123 CCATAAGTGAACTCAGACTCGACTCAACGAGCTCGGATGCC
1 CCATAAGTGAACTCGGACTCAATTCAACGAGCTCGGATGCC
71233164 CAAATATCCT
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
92 2 0.02
93 120 0.98
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAATTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGAC
TCAACTCAACGAGCTCAGACATTCGCAT
Found at i:71233148 original size:46 final size:46
Alignment explanation
Indices: 71232992--71233156 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 46
71232982 TACATCTCAC
* * *
71232992 GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGT
* * * * * * *
71233038 GAAATCGGACTCAATTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCAGACTCAACTCAACGAGCTC--A-GAC-A-TTCGCATCCATAAGT
*
71233085 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGT
*
71233131 GAACTCAGACTCGACTCAACGAGCTC
1 GAACTCAGACTCAACTCAACGAGCTC
71233157 GGATGCCCAA
Statistics
Matches: 93, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 46 0.49
47 24 0.26
48 2 0.02
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGT
Found at i:71237667 original size:43 final size:43
Alignment explanation
Indices: 71237606--71237694 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
71237596 GTCATTTGGA
71237606 ATTTAAATGAAATAAAATGGGAAAAATGAACCAAAAATCAGCC
1 ATTTAAATGAAATAAAATGGGAAAAATGAACCAAAAATCAGCC
71237649 ATTTAAATGAAATAAAATGGGAAAAATGAACCAAAAATCAGCC
1 ATTTAAATGAAATAAAATGGGAAAAATGAACCAAAAATCAGCC
71237692 ATT
1 ATT
71237695 CTTCTTCTCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.20
Consensus pattern (43 bp):
ATTTAAATGAAATAAAATGGGAAAAATGAACCAAAAATCAGCC
Found at i:71241754 original size:48 final size:48
Alignment explanation
Indices: 71241690--71241815 Score: 189
Period size: 48 Copynumber: 2.6 Consensus size: 48
71241680 CAAGGTAAAT
* * *
71241690 ATATATATGTGTGGTAAAGCCGAATGGCTAATATGAGACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
71241738 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
71241786 AGATGTATATTTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
71241816 TTGTGCAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
Found at i:71241841 original size:48 final size:47
Alignment explanation
Indices: 71241701--71241844 Score: 173
Period size: 48 Copynumber: 3.0 Consensus size: 47
71241691 TATATATGTG
* * *
71241701 TGGTAAAGCCGAATGGCTAATATGAGACATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATATGA-ATATGTATGAGATGTGTATATT
*
71241749 TGGTAAAGCCAAATGGCTAATATGAAATATGTATGAGA-GATGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATG-TGTATATT
* * * *
71241797 TGGTAAAGCCGAATGGCTATTGTGCAATACGTAGGAGATGTGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATGTGTATATT
71241845 GTGGCCGAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
48 81 0.98
49 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (47 bp):
TGGTAAAGCCGAATGGCTAATATGAATATGTATGAGATGTGTATATT
Found at i:71242021 original size:36 final size:37
Alignment explanation
Indices: 71241974--71242053 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
71241964 GGAAATATAT
* *
71241974 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
*
71242010 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
71242047 TCCGGGT
1 TCCGGGT
71242054 TAAAACCCCG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 11 0.28
37 29 0.73
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
Found at i:71244104 original size:46 final size:45
Alignment explanation
Indices: 71244051--71244226 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
71244041 TATTTGGGCA
71244051 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
** * *
71244097 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATAT-AACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAAG
*
71244144 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * **
71244190 CCCGAGCTTATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71244227 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 7 0.06
45 1 0.01
46 63 0.58
47 28 0.26
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:71244206 original size:93 final size:93
Alignment explanation
Indices: 71244047--71244218 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
71244037 AGGATATTTG
* * *
71244047 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
71244112 TTGAGTCCGAGTTCGAGAGATATAACTA
66 TTGAGTCCGAGTTCGAGAGATATAACTA
* * *
71244140 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
71244205 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
71244219 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATATAACTA
Found at i:71244357 original size:21 final size:21
Alignment explanation
Indices: 71244332--71244375 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
71244322 CTACTCAAAT
71244332 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
71244353 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
71244374 GG
1 GG
71244376 GACGTATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.36, T:0.14
Consensus pattern (21 bp):
GGAGGAATACTCGAGATGAAA
Found at i:71248598 original size:31 final size:30
Alignment explanation
Indices: 71248563--71248652 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 30
71248553 ATTTTAGAGG
*
71248563 GTTAAAGTGATAAATTTTGTAAATATTAAAA
1 GTTAAATTGATAAATTTT-TAAATATTAAAA
* * *
71248594 GTTAAATTTATTAAATTTTTTATATAATAAAA
1 GTTAAATTGA-TAAA-TTTTTAAATATTAAAA
*
71248626 -TTAAATTGATAGAATATTTAAATATTA
1 GTTAAATTGATA-AATTTTTAAATATTA
71248653 GAGGATTAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
30 12 0.25
31 18 0.38
32 14 0.29
33 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (30 bp):
GTTAAATTGATAAATTTTTAAATATTAAAA
Found at i:71248610 original size:32 final size:31
Alignment explanation
Indices: 71248573--71248632 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
71248563 GTTAAAGTGA
*
71248573 TAAATTTTGTAAATATTAAAAGTTAAATTTAT
1 TAAATTTTGTAAATAATAAAA-TTAAATTTAT
* *
71248605 TAAATTTTTTATATAATAAAATTAAATT
1 TAAATTTTGTAAATAATAAAATTAAATT
71248633 GATAGAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TAAATTTTGTAAATAATAAAATTAAATTTAT
Found at i:71253614 original size:20 final size:20
Alignment explanation
Indices: 71253591--71253665 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
71253581 TATACAAAAA
71253591 ATAAATAATATAAATTATTT
1 ATAAATAATATAAATTATTT
*
71253611 AT-AA-AATATAATTTAAATATT
1 ATAAATAATATAAATT--AT-TT
** *
71253632 -TAAATAATATTTATTTTTT
1 ATAAATAATATAAATTATTT
*
71253651 ATAATTAATATAAAT
1 ATAAATAATATAAAT
71253666 GAAAACTAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
18 9 0.22
19 4 0.10
20 17 0.41
21 4 0.10
22 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAATAATATAAATTATTT
Found at i:71253627 original size:23 final size:22
Alignment explanation
Indices: 71253589--71253641 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
71253579 TATATACAAA
71253589 AAATAA-ATAATATAAATTATTT
1 AAATAATATAATATAAA-TATTT
*
71253611 ATAA-AATATAATTTAAATATTT
1 A-AATAATATAATATAAATATTT
71253633 AAATAATAT
1 AAATAATAT
71253642 TTATTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.07
22 14 0.52
23 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATAATATAATATAAATATTT
Found at i:71254569 original size:24 final size:25
Alignment explanation
Indices: 71254524--71254570 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
71254514 CTTGTACTTC
* * *
71254524 AATTTAGTCATTTTCAATTTTTATA
1 AATTTAGTAATTTTAAAATTTTATA
71254549 AATTTAG-AATTTTAAAATTTTA
1 AATTTAGTAATTTTAAAATTTTA
71254571 GTCTTGACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (25 bp):
AATTTAGTAATTTTAAAATTTTATA
Found at i:71254860 original size:36 final size:36
Alignment explanation
Indices: 71254811--71254885 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
71254801 ATTAGATAGC
*
71254811 ATTTGTCATTTTGTCTGTAATTTTAACATGAGCGAA
1 ATTTGTCAATTTGTCTGTAATTTTAACATGAGCGAA
71254847 ATTTGTCAATTTGTCTGTAATTTTAACATGAGCGAA
1 ATTTGTCAATTTGTCTGTAATTTTAACATGAGCGAA
71254883 ATT
1 ATT
71254886 AGTAAAGCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (36 bp):
ATTTGTCAATTTGTCTGTAATTTTAACATGAGCGAA
Found at i:71255331 original size:125 final size:125
Alignment explanation
Indices: 71255106--71255355 Score: 428
Period size: 125 Copynumber: 2.0 Consensus size: 125
71255096 AAGGTAAGAG
* *
71255106 CTTTTGTTGTGGTGAGACCAAATATTAGAAGATGAACTGACTTGTCTACCTTGAAGAGGTTAGGA
1 CTTTTGTTGTGGTGAGACCAAACATTAGAAGATGAACTGACTTCTCTACCTTGAAGAGGTTAGGA
* *
71255171 AGGCGGAAGAAAGTAAGGTGCCTACTTCAGATCTTTATGTTATTGATATTAGAGTGTAAT
66 AGGCGAAAGAAAGTAAGGTGCCTACTTAAGATCTTTATGTTATTGATATTAGAGTGTAAT
*
71255231 CTTTTGTTGTGGTGAGACCAAACATTAGAAGATGAACTGGCTTCTCTACCTTGAAGAGGTTAGGA
1 CTTTTGTTGTGGTGAGACCAAACATTAGAAGATGAACTGACTTCTCTACCTTGAAGAGGTTAGGA
* * *
71255296 AGGCGAAAGAAAGTACGGTGTCTACTTAAGGTCTTTATGTTATTGATATTAGAGTGTAAT
66 AGGCGAAAGAAAGTAAGGTGCCTACTTAAGATCTTTATGTTATTGATATTAGAGTGTAAT
71255356 TATGATTTAT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 117 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (125 bp):
CTTTTGTTGTGGTGAGACCAAACATTAGAAGATGAACTGACTTCTCTACCTTGAAGAGGTTAGGA
AGGCGAAAGAAAGTAAGGTGCCTACTTAAGATCTTTATGTTATTGATATTAGAGTGTAAT
Found at i:71267449 original size:21 final size:20
Alignment explanation
Indices: 71267415--71267453 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
71267405 GAGTATTTTG
71267415 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
* *
71267436 ATGTTTGATTATAGTTAT
1 ATGTTTAATGATAGTTAT
71267454 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:71267526 original size:25 final size:25
Alignment explanation
Indices: 71267497--71267546 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
71267487 CAAATTGGGG
71267497 ATTAAATTGTGAAATGTGGAAACTT
1 ATTAAATTGTGAAATGTGGAAACTT
71267522 ATTAAATTGTGAAATGTGGAAACTT
1 ATTAAATTGTGAAATGTGGAAACTT
71267547 TGTAGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (25 bp):
ATTAAATTGTGAAATGTGGAAACTT
Found at i:71270234 original size:40 final size:40
Alignment explanation
Indices: 71270190--71270380 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 40
71270180 TTATAGTGAT
* ** *
71270190 TCGCACAATTGCCTTCGGGAATTTTCCCGAATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* * * *
71270230 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* * *
71270270 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* * *
71270310 TAGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
* * * *
71270350 TTAGCA-AAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTAACCCGGA
71270381 CACCATTCGA
Statistics
Matches: 131, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 126 0.96
41 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAAC
Found at i:71280458 original size:40 final size:39
Alignment explanation
Indices: 71280414--71280526 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 39
71280404 AAGTGACTAT
*
71280414 ATCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGGGCTA-GATCCGAAGGCATTCGTGCGAGTTAATAA
* * * *
71280454 ATCCGGGCTA-AGCCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGGCTAGA-TCCGAAGGCATTCGTGCGAGTTAATAA
* * * *
71280493 ACCCGGGTTAAATCCCGAAGGCATTCGTGTGAGT
1 ATCCGGGCTAGAT-CCGAAGGCATTCGTGCGAGT
71280527 CACTATAACC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.02
39 31 0.53
40 27 0.46
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:71280475 original size:39 final size:38
Alignment explanation
Indices: 71280428--71280566 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 38
71280418 GGACTAGGAT
*
71280428 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGC
* * * *
71280467 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAATC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCT-AAGC
* * **
71280507 CCGAAGGCATTCGTGTGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGCTAAG-C
* *
71280547 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
71280567 CGTTATATCC
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
39 30 0.38
40 48 0.60
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (38 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGCTAAGC
Found at i:71280512 original size:79 final size:81
Alignment explanation
Indices: 71280378--71280559 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
71280368 AATGATGTCT
* * *
71280378 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGAATCCGAAGGCATTCGT
*
71280442 GCGAGTTAATA-AATCC
66 GCGAGTCAATATAA-CC
* **
71280458 GGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTA-AATCCCGAAGGCATTCG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGAAT-CCGAAGGCATTCG
* *
71280520 TGTGAGTCACTATAACC
65 TGCGAGTCAATATAACC
**
71280537 GGGCTTCGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
71280560 AGCGAGTCGT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.02
79 54 0.62
80 31 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGAATCCGAAGGCATTCGT
GCGAGTCAATATAACC
Found at i:71280590 original size:79 final size:79
Alignment explanation
Indices: 71280427--71280592 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
71280417 CGGACTAGGA
* * *
71280427 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
71280492 AACCCGGGTTAAAT
66 AACCCGGGTTAAAT
* * * ** * **
71280506 CCCGAAGGCATTCGTGTGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
71280570 TATATCC-GGTTAAAT
64 TAAACCCGGGTTAAAT
71280585 TCCGAAGG
1 TCCGAAGG
71280593 TACGTGATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 45 0.63
80 26 0.37
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGGGTTAAAT
Found at i:71288455 original size:40 final size:40
Alignment explanation
Indices: 71288397--71288581 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
71288387 CGGATGATAA
* *
71288397 CCGGGCTAAGTCCTGAAGGCATTTGAGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
71288437 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
71288477 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
71288517 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
71288557 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
71288582 AGTGAGTAGC
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 131 0.99
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:71291147 original size:47 final size:46
Alignment explanation
Indices: 71291001--71291169 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 46
71290991 GTGTCGATTC
* * * *
71291001 CATGTCCCAGACACGATCTTACACT-GACTATCATCTCGTAGCCGATG
1 CATGTCCCAGACATG-TCTTACACTAG-CTCTCATCTCGTGGCTGATG
* * * * *
71291048 CATGTCCCAGACATGTCATACACTGGCT-TACGTCTCGGGGCTGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTGGCTGATG
** *
71291094 CATGTCCCAGACATGGTCTTACACTAGCTCTCATAGCGTGGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCGTGGCTGATG
71291141 CATGTCCCAGACATGTCTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
71291170 ACAAACAAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 50 0.49
47 51 0.50
48 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTGGCTGATG
Found at i:71294184 original size:10 final size:11
Alignment explanation
Indices: 71294166--71294240 Score: 66
Period size: 10 Copynumber: 7.1 Consensus size: 11
71294156 TTGTTATTAT
71294166 ACATGATATG-
1 ACATGATATGC
*
71294176 ACATAATATGC
1 ACATGATATGC
71294187 ACATGATATG-
1 ACATGATATGC
***
71294197 TTTTGATATGC
1 ACATGATATGC
71294208 ACATGATATGC
1 ACATGATATGC
*
71294219 -CATGATATAC
1 ACATGATATGC
* *
71294229 TCATTATATGC
1 ACATGATATGC
71294240 A
1 A
71294241 TGGGTTGGGT
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
10 25 0.50
11 25 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (11 bp):
ACATGATATGC
Found at i:71294191 original size:21 final size:21
Alignment explanation
Indices: 71294166--71294226 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
71294156 TTGTTATTAT
*
71294166 ACATGATATGACATAATATGC
1 ACATGATATGACATGATATGC
***
71294187 ACATGATATGTTTTGATATGC
1 ACATGATATGACATGATATGC
*
71294208 ACATGATATGCCATGATAT
1 ACATGATATGACATGATAT
71294227 ACTCATTATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (21 bp):
ACATGATATGACATGATATGC
Found at i:71294309 original size:25 final size:25
Alignment explanation
Indices: 71294271--71294342 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
71294261 GGAGGAAGTG
71294271 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* * *
71294296 CGAAAAGGGATTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
*
71294321 CAAAAAGGGCTTTGTCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
71294343 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:71295970 original size:43 final size:43
Alignment explanation
Indices: 71295923--71296020 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
71295913 TAGCCTAGCT
** * * *
71295923 ATGGTCTTACTTGAAATCAAATAATGATGCCAATGTTCTAGAC
1 ATGGTCTTACACGAAATCAAACAATGATGCCAATGTCCCAGAC
* * *
71295966 ATGGTCTTACACGTAATCACACAATTATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAACAATGATGCCAATGTCCCAGAC
71296009 ATGGTCTTACAC
1 ATGGTCTTACAC
71296021 ATAATCACGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAACAATGATGCCAATGTCCCAGAC
Found at i:71301723 original size:53 final size:53
Alignment explanation
Indices: 71301541--71301773 Score: 253
Period size: 55 Copynumber: 4.4 Consensus size: 53
71301531 ATTAGGGTTT
*
71301541 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
71301596 AAGGAAATCATGTAAGACGATGTCAAGGCATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-C-ATAAGGC
* *
71301651 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
* * * *
71301704 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TTAA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
*
71301753 AAGGATACCACGTAAGACCAT
1 AAGGATACCATGTAAGACCAT
71301774 TACAAGTCAT
Statistics
Matches: 153, Mismatches: 20, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 20 0.13
52 9 0.06
53 44 0.29
54 8 0.05
55 68 0.44
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:71301747 original size:108 final size:110
Alignment explanation
Indices: 71301548--71301748 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
71301538 TTTAAGGATA
*
71301548 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* * *
71301613 CGATGTCAAGGCATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
71301658 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
71301720 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
71301749 TTAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:71307534 original size:54 final size:53
Alignment explanation
Indices: 71307428--71307680 Score: 257
Period size: 54 Copynumber: 4.8 Consensus size: 53
71307418 ATTAGGGTTT
* *
71307428 AAGGATACCATGTAAGACCATGCCAAG-CATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTATAAGGC
* * * *
71307482 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-TATAAGGC
* * * *
71307536 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * *
71307589 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * * * * *
71307638 AAGGATACCACGTAAAACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
71307681 GTACCCGCAT
Statistics
Matches: 169, Mismatches: 26, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
49 38 0.22
52 6 0.04
53 45 0.27
54 71 0.42
55 9 0.05
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
Found at i:71307622 original size:107 final size:108
Alignment explanation
Indices: 71307435--71307633 Score: 305
Period size: 107 Copynumber: 1.9 Consensus size: 108
71307425 TTTAAGGATA
*
71307435 CCATGTAAGACCATGCCAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGAC
1 CCATGTAAGACCATGCCAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
*
71307500 CATGTCAAGACATGGCATTGATAAGTTATATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAAGTTATATAAGGCAAAGGTC
* * *
71307543 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAA-GCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
71307605 ACCATGTCAAGACATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
71307634 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
106 3 0.04
107 48 0.58
108 26 0.31
109 6 0.07
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (108 bp):
CCATGTAAGACCATGCCAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTATATAAGGCAAAGGTC
Found at i:71307870 original size:16 final size:16
Alignment explanation
Indices: 71307849--71307879 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71307839 ATAAATTTGA
71307849 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
71307865 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
71307880 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Done.