Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 93 of 311
Found at i:30725250 original size:3 final size:3
Alignment explanation
Indices: 30725242--30725277 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
30725232 TATGAGTGGT
30725242 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30725278 GAAAAACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30725528 original size:6 final size:6
Alignment explanation
Indices: 30725517--30725541 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30725507 TTTAAAAAAA
30725517 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
30725542 TAATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:30728835 original size:16 final size:16
Alignment explanation
Indices: 30728814--30728849 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
30728804 TAATGAATGG
30728814 ATGCTCATAGTTATAA
1 ATGCTCATAGTTATAA
30728830 ATGCTCATAGTTATAA
1 ATGCTCATAGTTATAA
30728846 ATGC
1 ATGC
30728850 ATTTGTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (16 bp):
ATGCTCATAGTTATAA
Found at i:30749296 original size:18 final size:18
Alignment explanation
Indices: 30749275--30749309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30749265 GAGGCATTAA
30749275 CAAACAAAAACACATTTT
1 CAAACAAAAACACATTTT
**
30749293 CAAACAACCACACATTT
1 CAAACAAAAACACATTT
30749310 ATACAAGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (18 bp):
CAAACAAAAACACATTTT
Found at i:30751087 original size:40 final size:40
Alignment explanation
Indices: 30751043--30751228 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
30751033 GCTACTCGTT
*
30751043 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30751083 CAAATGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30751123 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
30751162 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30751203 CAAA-GCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
30751229 ATCATTCAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30751160 original size:79 final size:82
Alignment explanation
Indices: 30751043--30751227 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
30751033 GCTACTCGTT
* *
30751043 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCACAAATGCCTTCGGGAT-TTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
30751106 GGATTTAGTAAC-TCGCA
65 GAATATAGTAACTTAGCA
* **
30751123 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30751186 AATATGGTCACTTAGCA
66 AATATAGTAACTTAGCA
30751203 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30751228 TATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
AATATAGTAACTTAGCA
Found at i:30759061 original size:40 final size:40
Alignment explanation
Indices: 30759024--30759244 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 40
30759014 GCTACTCGTT
*
30759024 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30759064 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
30759104 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
30759143 CAAATGCCTTC-GG-CTTAG-CCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
30759180 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
30759221 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
30759245 ACATCATTCA
Statistics
Matches: 161, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
37 32 0.20
38 7 0.04
39 36 0.22
40 72 0.45
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30765463 original size:11 final size:11
Alignment explanation
Indices: 30765447--30765472 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30765437 ACAAATAATA
30765447 TAAATAAGTTT
1 TAAATAAGTTT
30765458 TAAATAAGTTT
1 TAAATAAGTTT
30765469 TAAA
1 TAAA
30765473 ATACTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (11 bp):
TAAATAAGTTT
Found at i:30765838 original size:40 final size:40
Alignment explanation
Indices: 30765794--30765968 Score: 145
Period size: 40 Copynumber: 4.4 Consensus size: 40
30765784 CATACTAGTT
* *
30765794 TGTGGACAAGCCACCAGTGTTGTAAATAAACT-ACAAGAAA
1 TGTGGACAAGCCACCAGTATTGCAAATAAACTGAC-AGAAA
* * * * *
30765834 TGTGGACAATCCACCAGTATTGCAAATAAACTGTCGGTAT
1 TGTGGACAAGCCACCAGTATTGCAAATAAACTGACAGAAA
* * * *
30765874 TGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAGTAT
1 TGTGGACAAGCCACCAGTATTGCAAATAAACTGACAGAAA
* * ** * * * * *
30765914 TGTGGATAAGCTATTAGTATTGTAAACAAGCTGCCAGTAA
1 TGTGGACAAGCCACCAGTATTGCAAATAAACTGACAGAAA
*
30765954 TGTGAACAAGCCACC
1 TGTGGACAAGCCACC
30765969 GGCGTTGCAG
Statistics
Matches: 109, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
40 108 0.99
41 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (40 bp):
TGTGGACAAGCCACCAGTATTGCAAATAAACTGACAGAAA
Found at i:30765893 original size:20 final size:20
Alignment explanation
Indices: 30765870--30765964 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 20
30765860 TAAACTGTCG
*
30765870 GTATTGTGGACAAGCCACCA
1 GTATTGTGGACAAGCTACCA
** * * *
30765890 GTATTGCAGATAAACTGCCA
1 GTATTGTGGACAAGCTACCA
* **
30765910 GTATTGTGGATAAGCTATTA
1 GTATTGTGGACAAGCTACCA
** *
30765930 GTATTGTAAACAAGCTGCCA
1 GTATTGTGGACAAGCTACCA
* *
30765950 GTAATGTGAACAAGC
1 GTATTGTGGACAAGC
30765965 CACCGGCGTT
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (20 bp):
GTATTGTGGACAAGCTACCA
Found at i:30765933 original size:80 final size:80
Alignment explanation
Indices: 30765793--30765986 Score: 190
Period size: 80 Copynumber: 2.4 Consensus size: 80
30765783 ACATACTAGT
* * * *
30765793 TTGTGGACAAGCCACCAGTGTTGTAAATAAACTACAAGAAATGTGGACAATCCACCAGTATTGCA
1 TTGTGGACAAGCCACCAGTGTTGCAGATAAACTGCAAGAAATGTGGACAAGCCACCAGTATTGCA
* * *
30765858 AATAAACTGTCGGTA
66 AACAAACTGCCAGTA
* * * * * * ** *
30765873 TTGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAGTATTGTGGATAAGCTATTAGTATTGTA
1 TTGTGGACAAGCCACCAGTGTTGCAGATAAACTGCAAGAAATGTGGACAAGCCACCAGTATTGCA
*
30765938 AACAAGCTGCCAGTA
66 AACAAACTGCCAGTA
* * * * *
30765953 ATGTGAACAAGCCACCGGCGTTGCAGACAAACTG
1 TTGTGGACAAGCCACCAGTGTTGCAGATAAACTG
30765987 TCAATACTTT
Statistics
Matches: 91, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 91 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (80 bp):
TTGTGGACAAGCCACCAGTGTTGCAGATAAACTGCAAGAAATGTGGACAAGCCACCAGTATTGCA
AACAAACTGCCAGTA
Found at i:30769597 original size:40 final size:40
Alignment explanation
Indices: 30769516--30769697 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
30769506 CAACCAAGTA
** * *
30769516 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
30769555 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
30769595 CCTTCGGGACTTAGCCCGGTTATCGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
30769635 CCTTCGGGACTTAGCCCGG-AATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
30769675 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
30769698 CATCCGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.11
40 111 0.88
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:30773134 original size:15 final size:15
Alignment explanation
Indices: 30773114--30773146 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
30773104 TTATTTATTT
30773114 TATATAATA-ATATAA
1 TATATAATATA-ATAA
30773129 TATATAATATAATAA
1 TATATAATATAATAA
30773144 TAT
1 TAT
30773147 TAAATATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:30775846 original size:21 final size:20
Alignment explanation
Indices: 30775799--30775862 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
30775789 CTAATTATTC
*
30775799 CATAAATCAATAATAATTAATA
1 CATAAAT-AAT-ATAATTAAAA
*
30775821 TATAAATAATATAATTAAAAA
1 CATAAATAATATAATT-AAAA
*
30775842 CATAAATAACATAATTCAAAA
1 CATAAATAATATAATT-AAAA
30775863 GAAGAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.17
21 24 0.67
22 6 0.17
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (20 bp):
CATAAATAATATAATTAAAA
Found at i:30778399 original size:38 final size:38
Alignment explanation
Indices: 30778350--30778425 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
30778340 CAAGTTAGTG
30778350 GTGGCATGATTTCGTTGAAATTAGTATATAAGTGTATA
1 GTGGCATGATTTCGTTGAAATTAGTATATAAGTGTATA
30778388 GTGGCATGATTTCGTTGAAATTAGTATATAAGTGTATA
1 GTGGCATGATTTCGTTGAAATTAGTATATAAGTGTATA
30778426 TTAGGATCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (38 bp):
GTGGCATGATTTCGTTGAAATTAGTATATAAGTGTATA
Found at i:30778806 original size:33 final size:34
Alignment explanation
Indices: 30778742--30778809 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
30778732 CGGCAGCAAT
* * *
30778742 TAGAGTTTTACTTTTATTTATTTTCTTTATTATA
1 TAGAGTTTTACGTTTACTTATTTTCTCTATTATA
30778776 TAGAGTTTTA-GTTTACTTATTTTCTCTATTATA
1 TAGAGTTTTACGTTTACTTATTTTCTCTATTATA
30778809 T
1 T
30778810 TAAGCTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 21 0.68
34 10 0.32
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (34 bp):
TAGAGTTTTACGTTTACTTATTTTCTCTATTATA
Found at i:30786851 original size:16 final size:17
Alignment explanation
Indices: 30786820--30786852 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30786810 TTCATAAGTA
30786820 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
30786837 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
30786853 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:30787201 original size:46 final size:46
Alignment explanation
Indices: 30787133--30787908 Score: 1055
Period size: 46 Copynumber: 16.9 Consensus size: 46
30787123 TTATTTTTGA
* * * * * * *
30787133 CATGATGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *** *
30787179 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
* ** ** * **
30787225 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
*
30787270 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
30787316 CCTGTTTCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
30787362 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
30787408 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
30787454 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* * *
30787500 CCTGTTGCCGTGGTATCTTTCAACCATGGTCTTACATA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
* *
30787546 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
30787592 CCTGTTGCCGTGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
30787638 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
30787684 CCTGTTGCCATGGTGTCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
30787730 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
30787776 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* * *
30787822 CCTGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
*
30787868 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
30787909 CATTTCAGAA
Statistics
Matches: 658, Mismatches: 60, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
45 54 0.08
46 589 0.90
47 15 0.02
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
Found at i:30787393 original size:92 final size:92
Alignment explanation
Indices: 30787138--30787911 Score: 1212
Period size: 92 Copynumber: 8.4 Consensus size: 92
30787128 TTTGACATGA
* * * * * * *
30787138 TGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
*** * * * *
30787202 CCATGGTCTTGTTCATTTCATGTTAC-AT
65 CCATGGTCTTACACATTTTAT-ATCCTGT
** ***
30787230 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787294 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
*
30787321 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
30787386 CATGGTCTTACACATTTTATATCCTAT
66 CATGGTCTTACACATTTTATATCCTGT
30787413 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787478 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
* * *
30787505 TGCCGTGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787570 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
*
30787597 TGCCGTGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787662 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
*
30787689 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
* *
30787754 CATGGTCTTACACATTTCATATCATGT
66 CATGGTCTTACACATTTTATATCCTGT
* * *
30787781 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTGTCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
30787846 CATGGTCTTACACATTTTATATCATGT
66 CATGGTCTTACACATTTTATATCCTGT
*
30787873 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
30787912 TTCAGAAAGC
Statistics
Matches: 640, Mismatches: 39, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
90 5 0.01
91 72 0.11
92 563 0.88
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTTATATCCTGT
Found at i:30787482 original size:138 final size:138
Alignment explanation
Indices: 30787138--30787911 Score: 1174
Period size: 138 Copynumber: 5.6 Consensus size: 138
30787128 TTTGACATGA
* * * * * * *
30787138 TGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
*** * * ** ** *
30787202 CCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTC
65 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT
*** *
30787266 CCGTCATGT
130 ATATCCTGT
* * *
30787275 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTTCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787340 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
*
30787405 TATCCTAT
131 TATCCTGT
30787413 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
* * * * *
30787478 CATGGTCTTACACATTTTATATCCTGTTGCCGTGGTATCTTTCAACCATGGTCTTACATATTTCA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
*
30787543 TATCATGT
131 TATCCTGT
* * * *
30787551 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCGTGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787616 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
30787681 TATCCTGT
131 TATCCTGT
*
30787689 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787754 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
66 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
30787819 TATCCTGT
131 TATCCTGT
* * *
30787827 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTGTCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
30787892 CATGGTCTTACACATTTCAT
66 CATGGTCTTACACATTTCAT
30787912 TTCAGAAAGC
Statistics
Matches: 583, Mismatches: 52, Indels: 3
0.91 0.08 0.00
Matches are distributed among these distances:
136 3 0.01
137 102 0.17
138 478 0.82
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTA
TATCCTGT
Found at i:30791962 original size:21 final size:24
Alignment explanation
Indices: 30791914--30791962 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 24
30791904 CTAAATAGGA
*
30791914 AACTCATAAGAGTTTTAATCAGGG
1 AACTCATAAGAGTCTTAATCAGGG
*
30791938 AACTCAT-AGAG-CTTAA-CAGGT
1 AACTCATAAGAGTCTTAATCAGGG
30791959 AACT
1 AACT
30791963 TCGAATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 4 0.17
23 4 0.17
24 7 0.30
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (24 bp):
AACTCATAAGAGTCTTAATCAGGG
Found at i:30804743 original size:184 final size:184
Alignment explanation
Indices: 30804406--30804760 Score: 419
Period size: 184 Copynumber: 1.9 Consensus size: 184
30804396 AAGAATAAAC
* * * *
30804406 TATAACGGTAACAACTAGAGTAATCCGAGGAGGATACGGCAGTCCCAGATTTAAATAATATTTTA
1 TATAACGGTAACAACTAAAGTAATCCAAGGAGGATACGGCAGTCCCAGAATTAAATAATAGTTTA
* * * *
30804471 CTCAAAGTCATGTAGAAAACAAATCCATGTATTTAAAAGGTCCTAATTCTCCCAATCATAATCAG
66 CACAAAGTCATGTAGAAAACAAATCCAAGTATTTAAAAGATCCTAATTCTCCCAATCATAACCAG
* * *
30804536 GTCCAAAATGTATGGAAAAATATATTTCCCCCTAATCATATCAAATAATAAAGT
131 GGCCAAAATCTAAGGAAAAATATATTTCCCCCTAATCATATCAAATAATAAAGT
* * * * *
30804590 TATAATGGTAACAATTAAAGTATTCCAAGGAGGATAGGGC-GTTCCAGAATTAAATAAT-GTTTA
1 TATAACGGTAACAACTAAAGTAATCCAAGGAGGATACGGCAGTCCCAGAATTAAATAATAGTTTA
* * * * **
30804653 GACAAAGTCACATGTAG-TAACAAATCCAAGTATTTAACAGAATCTTAATTCTCCTTATCATAAC
66 CACAAAGT--CATGTAGAAAACAAATCCAAGTATTTAAAAG-ATCCTAATTCTCCCAATCATAAC
* ** * *
30804717 CAGGGCTAAAATCTAAGGTCAAATATATTTTCTCCTAATCATAT
128 CAGGGCCAAAATCTAAGGAAAAATATATTTCCCCCTAATCATAT
30804761 TGAACATTTG
Statistics
Matches: 141, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
182 10 0.07
183 36 0.26
184 95 0.67
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (184 bp):
TATAACGGTAACAACTAAAGTAATCCAAGGAGGATACGGCAGTCCCAGAATTAAATAATAGTTTA
CACAAAGTCATGTAGAAAACAAATCCAAGTATTTAAAAGATCCTAATTCTCCCAATCATAACCAG
GGCCAAAATCTAAGGAAAAATATATTTCCCCCTAATCATATCAAATAATAAAGT
Found at i:30810008 original size:47 final size:47
Alignment explanation
Indices: 30809950--30810588 Score: 1057
Period size: 47 Copynumber: 13.6 Consensus size: 47
30809940 GATAATTGTG
30809950 ATGTG-AA-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
30809995 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
30810042 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
30810089 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
30810136 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
30810183 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
30810230 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
30810277 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
30810324 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
30810373 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
30810422 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
30810469 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
30810516 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
30810563 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
30810589 TCCCGAAGGG
Statistics
Matches: 558, Mismatches: 30, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
45 5 0.01
46 2 0.00
47 464 0.83
49 82 0.15
51 5 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:30814597 original size:47 final size:46
Alignment explanation
Indices: 30814511--30814610 Score: 123
Period size: 47 Copynumber: 2.2 Consensus size: 46
30814501 TATCTTAATC
*
30814511 TAAGACACATTAAAAAGCTATACCTATTATAACATATTAATTAAACT
1 TAAGACACATTAAAAAGCTATACCTAATATAACATATTAA-TAAACT
* * *
30814558 TAAGACACATTAAAATGCTTTA-CTAAT-TAACATGCATTAATAGACT
1 TAAGACACATTAAAAAGCTATACCTAATATAACAT--ATTAATAAACT
30814604 TAAGACA
1 TAAGACA
30814611 TATTTAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 6 0.13
46 16 0.34
47 25 0.53
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (46 bp):
TAAGACACATTAAAAAGCTATACCTAATATAACATATTAATAAACT
Found at i:30816368 original size:10 final size:9
Alignment explanation
Indices: 30816346--30816381 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
30816336 TAGGTTTTTT
30816346 GGTTGTTTAG
1 GGTT-TTTAG
30816356 GGTTTTTAG
1 GGTTTTTAG
*
30816365 GGGTTTTAG
1 GGTTTTTAG
30816374 GGTTTTTA
1 GGTTTTTA
30816382 ATTGATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.53
Consensus pattern (9 bp):
GGTTTTTAG
Found at i:30818161 original size:16 final size:16
Alignment explanation
Indices: 30818140--30818170 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30818130 TTCACTATTA
*
30818140 TGTCTTTCGTATTTTT
1 TGTCTTTCATATTTTT
30818156 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
30818171 GCATGAATAG
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:0.10, C:0.13, G:0.10, T:0.68
Consensus pattern (16 bp):
TGTCTTTCATATTTTT
Found at i:30821803 original size:38 final size:38
Alignment explanation
Indices: 30821749--30821957 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
30821739 GGAATGGAAA
* *
30821749 AACGTGGCGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
30821787 AACGTGGTGCTCAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* * * *
30821835 AACATGGTGCTATGTGGATATGCCACGGTTACATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GT
*
30821882 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
30821920 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
30821958 TAATTTGAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
38 62 0.46
40 2 0.01
41 1 0.01
42 4 0.03
43 5 0.04
44 1 0.01
45 1 0.01
46 1 0.01
47 28 0.21
48 30 0.22
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:30821908 original size:47 final size:48
Alignment explanation
Indices: 30821779--30821917 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
30821769 TACCACGGTT
* * * *
30821779 ATACGTGTAACGTGGTGCTCAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* * * *
30821827 ATACATGTAACATGGTGCTATGTGGATATGCCACGGTTACATATATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* *
30821875 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
30821918 GTAACGTGGT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 32 0.42
48 45 0.58
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
Found at i:30835672 original size:26 final size:26
Alignment explanation
Indices: 30835641--30835693 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
30835631 AACATACTAG
30835641 ATTCCTTATTTATTATTTATATACTT
1 ATTCCTTATTTATTATTTATATACTT
30835667 ATTCCTTATTTATTATTTATATACTT
1 ATTCCTTATTTATTATTTATATACTT
30835693 A
1 A
30835694 CTTACTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTCCTTATTTATTATTTATATACTT
Found at i:30839733 original size:49 final size:49
Alignment explanation
Indices: 30839672--30839846 Score: 224
Period size: 49 Copynumber: 3.5 Consensus size: 49
30839662 CTGGTGCGCA
* * *
30839672 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * * *
30839721 TAGTAGCTTGCACTTAGTACTACACATGTGATCACATTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACG
* *
30839772 TAATAGCCTGCACTTAGTACTACACTTGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
30839821 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
30839847 CGTGACCTCA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 65 0.62
50 2 0.02
51 37 0.36
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:30839791 original size:100 final size:100
Alignment explanation
Indices: 30839668--30839851 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
30839658 CTATCTGGTG
* * * *
30839668 CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACATGTAGTAGCTTGCA
1 CGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCA
*
30839733 CTTAGTACTACACATGTGATCACATTTTTCGGGTA
66 CTTAGTACTACACACGTGATCACATTTTTCGGGTA
* *
30839768 CGCATAATAGCCTGCACTTAGTACTACACTTGCGACCAATTATCCGGTACACGTAGTAGCCTGCA
1 CGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCA
30839833 CTTAGTACTACACACGTGA
66 CTTAGTACTACACACGTGA
30839852 CCTCACAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (100 bp):
CGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCTGCA
CTTAGTACTACACACGTGATCACATTTTTCGGGTA
Found at i:30842367 original size:15 final size:15
Alignment explanation
Indices: 30842347--30842375 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30842337 ATAGTAAAAC
30842347 CCAGAATAAAGAAAT
1 CCAGAATAAAGAAAT
30842362 CCAGAATAAAGAAA
1 CCAGAATAAAGAAA
30842376 CCCAAGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.10
Consensus pattern (15 bp):
CCAGAATAAAGAAAT
Found at i:30845968 original size:27 final size:27
Alignment explanation
Indices: 30845934--30846111 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30845924 TAAATTGTAC
*
30845934 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30845961 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30845987 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
30846015 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30846042 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
30846070 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30846097 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30846112 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30845995 original size:54 final size:55
Alignment explanation
Indices: 30845934--30846111 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
30845924 TAAATTGTAC
* **
30845934 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
30845989 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
30846042 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
30846097 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30846112 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:30854061 original size:27 final size:27
Alignment explanation
Indices: 30854027--30854203 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
30854017 TAAATTGTAC
*
30854027 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30854054 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30854079 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
30854107 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30854134 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
30854162 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30854189 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30854204 GACTTAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 81 0.64
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30854089 original size:53 final size:54
Alignment explanation
Indices: 30854027--30854177 Score: 198
Period size: 53 Copynumber: 2.8 Consensus size: 54
30854017 TAAATTGTAC
*
30854027 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGACAATGT
* * * ** *
30854079 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGACAATGT
*
30854134 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGA
30854178 GTTGATTATA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 41 0.49
54 18 0.21
55 24 0.29
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGACAATGT
Found at i:30854176 original size:55 final size:53
Alignment explanation
Indices: 30854027--30854203 Score: 221
Period size: 55 Copynumber: 3.3 Consensus size: 53
30854017 TAAATTGTAC
* ** *
30854027 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
* * *
30854079 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGA-TATGT
* *
30854134 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGA-TATGT
*
30854189 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30854204 GACTTAATAT
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.01
53 41 0.38
54 18 0.17
55 47 0.44
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
Found at i:30856663 original size:47 final size:47
Alignment explanation
Indices: 30856605--30857192 Score: 944
Period size: 47 Copynumber: 12.5 Consensus size: 47
30856595 ATTCAGCCAA
30856605 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
30856652 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
30856699 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
30856746 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
30856793 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
30856840 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
30856889 GAAAGTGTATATGTGTGATTAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGA-TAAGGCCTAATGGCCGATGTGATGAATGT
* *
30856937 GAAAGTGTATATATGTGATAAGGCCTAATAGCAGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
**
30856984 GAAAGTGTATATATGTGATAAGGCCTAACAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
30857031 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
30857078 GAAAGTGT-TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
30857124 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
30857171 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
30857193 TCCCGAAGAG
Statistics
Matches: 506, Mismatches: 31, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
46 44 0.09
47 372 0.74
48 44 0.09
49 46 0.09
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:30856952 original size:25 final size:25
Alignment explanation
Indices: 30856924--30857002 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
30856914 CTAATAGCCG
30856924 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** * *
30856949 ATGTGAT-AAGGCCTAA---TAGCAG
1 ATGTGATGAATGTGAAAGTGTA-TAT
30856971 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
30856996 ATGTGAT
1 ATGTGAT
30857003 AAGGCCTAAC
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
21 2 0.05
22 8 0.22
23 5 0.14
24 5 0.14
25 15 0.41
26 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:30856986 original size:238 final size:235
Alignment explanation
Indices: 30856605--30857192 Score: 980
Period size: 238 Copynumber: 2.5 Consensus size: 235
30856595 ATTCAGCCAA
30856605 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
30856670 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
66 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCAGAT
* *
30856735 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
131 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACAGCCGATGTGATGAATGTGAAAGTG
*
30856800 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
196 TATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
*
30856840 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATGTGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
30856905 GATTAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCA
64 GA-TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCA
30856970 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACAGCCGATGTGATGAATGTGAAA
128 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACAGCCGATGTGATGAATGTGAAA
30857035 GTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
193 GTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
* *
30857078 GAAAGTGT-TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * * * * * * *
30857142 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30857193 TCCCGAAGAG
Statistics
Matches: 331, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
234 41 0.12
235 60 0.18
236 1 0.00
237 57 0.17
238 172 0.52
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (235 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCAGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACAGCCGATGTGATGAATGTGAAAGTG
TATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:30857380 original size:36 final size:35
Alignment explanation
Indices: 30857313--30857389 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 35
30857303 CCGAGCTCTA
* *
30857313 AAGACCCGATGACTACGTGGGAATTTTGTCC-GGGT
1 AAGA-CCGATAACTACGTGGGAATTATGTCCGGGGT
*
30857348 AAGACCGATAACTTCGTGTGGAGATTATGTCCGGGGT
1 AAGACCGATAACTACGTG-GGA-ATTATGTCCGGGGT
30857385 AAGAC
1 AAGAC
30857390 TTCGTAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 12 0.33
35 7 0.19
36 8 0.22
37 9 0.25
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (35 bp):
AAGACCGATAACTACGTGGGAATTATGTCCGGGGT
Found at i:30858363 original size:39 final size:40
Alignment explanation
Indices: 30858286--30858481 Score: 284
Period size: 38 Copynumber: 5.1 Consensus size: 40
30858276 TTGAATGATG
*
30858286 TCCGGGCTAAGTCCCGAAG-GC-TT-GTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
30858323 T-CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
30858362 TCC-GGCTAAGTC-CGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
30858400 TCCGGGCTAAG--TCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
30858438 TCCGGGCTAA-CCTCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
30858477 TCCGG
1 TCCGG
30858482 CATCCCGAAG
Statistics
Matches: 147, Mismatches: 4, Indels: 14
0.89 0.02 0.08
Matches are distributed among these distances:
36 16 0.11
37 3 0.02
38 67 0.46
39 60 0.41
40 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:30858515 original size:115 final size:112
Alignment explanation
Indices: 30858286--30858508 Score: 283
Period size: 115 Copynumber: 2.0 Consensus size: 112
30858276 TTGAATGATG
*
30858286 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAGTGATGTATCGGGCTAAGTCTCGAAGAGCATTCGTG
1 TCCGGGCTAAGT-CCGAAGGCTTGTGCTAGTGATGTATCGGGCTAAGCCTCGAAGAGCATTCGTG
* * *
30858351 CTAGTGATGTATCCGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTA
65 CTAGTGATATATCCGGC-AAGTCCGAAGAGCAATCATGCTAGTGATGTA
30858400 TCCGGGCTAAGT-CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAA-CCTCGAAGAGCATTC
1 TCCGGGCTAAGTCCGAAG-GC-TT-GTGCTAGTGATGTAT-CGGGCTAAGCCTCGAAGAGCATTC
* * * *
30858463 GTGCTGGTGTTATATCCGGC-A-TCCCGAAGAGTAATCATGCTGGTGA
62 GTGCTAGTGATATATCCGGCAAGT-CCGAAGAGCAATCATGCTAGTGA
30858509 CGTGTATTCG
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
112 6 0.06
113 22 0.23
114 14 0.15
115 46 0.48
116 8 0.08
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (112 bp):
TCCGGGCTAAGTCCGAAGGCTTGTGCTAGTGATGTATCGGGCTAAGCCTCGAAGAGCATTCGTGC
TAGTGATATATCCGGCAAGTCCGAAGAGCAATCATGCTAGTGATGTA
Found at i:30862083 original size:47 final size:47
Alignment explanation
Indices: 30862021--30862601 Score: 1015
Period size: 47 Copynumber: 12.4 Consensus size: 47
30862011 TTCAGCCAAG
30862021 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
30862068 AAGTGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
30862114 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
30862161 AAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
30862208 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
30862255 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
30862302 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
30862349 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
30862396 AAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
30862442 AAGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
30862488 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
30862535 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
30862582 AAGTGCATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
30862602 TCCCGAAGGG
Statistics
Matches: 513, Mismatches: 18, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
45 12 0.02
46 111 0.22
47 390 0.76
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:30862496 original size:38 final size:40
Alignment explanation
Indices: 30862406--30862537 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 40
30862396 AAGTGTATAT
30862406 ATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
30862447 TATATATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 -----ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
30862493 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 -----ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
30862538 TGTATATATG
Statistics
Matches: 84, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
45 12 0.14
46 37 0.44
47 35 0.42
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (40 bp):
ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
Found at i:30862776 original size:37 final size:37
Alignment explanation
Indices: 30862720--30862798 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30862710 CCGAGCTCTA
* *
30862720 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
30862757 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30862794 AAGAC
1 AAGAC
30862799 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30865802 original size:24 final size:24
Alignment explanation
Indices: 30865748--30865828 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
30865738 GTCATGGTCG
* *
30865748 GTAAGCTCTTACTGAGCTGATAAACA
1 GTAAGCTC-TATTGAGATGA-AAACA
30865774 GTAAGCTCTATTGAGATGAAAACTA
1 GTAAGCTCTATTGAGATGAAAAC-A
* *
30865799 -TAAGCTTTATTGAGTTG--AACA
1 GTAAGCTCTATTGAGATGAAAACA
30865820 GTAAGCTCT
1 GTAAGCTCT
30865829 TTCGAGCTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.02
22 10 0.21
24 19 0.40
25 10 0.21
26 8 0.17
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (24 bp):
GTAAGCTCTATTGAGATGAAAACA
Found at i:30865879 original size:23 final size:22
Alignment explanation
Indices: 30865819--30865879 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 22
30865809 TGAGTTGAAC
*
30865819 AGTAAGCTCTT-TCGAGCTAAAT
1 AGTAAGCTCTTAT-GACCTAAAT
* **
30865841 CGATAAGCTCCAATGACCTGAAAT
1 AG-TAAGCTCTTATGACCT-AAAT
30865865 AGTAAGCTCTTATGA
1 AGTAAGCTCTTATGA
30865880 GCTATTGCGA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
22 1 0.03
23 22 0.76
24 6 0.21
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (22 bp):
AGTAAGCTCTTATGACCTAAAT
Found at i:30869427 original size:39 final size:39
Alignment explanation
Indices: 30869347--30869598 Score: 364
Period size: 39 Copynumber: 6.5 Consensus size: 39
30869337 CGAGACTTTA
* *
30869347 AGCCCGGATATAATACCAGCAC-AAAGCCTGT-GGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCT-TCGGGAC-TT
*
30869386 AGCCCGGATATAACACCGGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
30869425 AGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
30869464 AGCTCGGATATAACACCAGCACGACTGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
30869503 AGCCCGGATATAACACCAGCATGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
30869542 AGCCAGGATATAACACCAACACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
30869581 AGCCTGGATATAACACCA
1 AGCCCGGATATAACACCA
30869599 TTATAAAGTC
Statistics
Matches: 194, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 183 0.94
40 11 0.06
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:30869705 original size:28 final size:28
Alignment explanation
Indices: 30869673--30869752 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 28
30869663 TTAATAATTA
* *
30869673 AATATTTTGCACACTAAGTGTCATTCTC
1 AATATTTCGCACACTAAGTGCCATTCTC
* *
30869701 AATATCTCGCACATTAAGTGCCATTCTC
1 AATATTTCGCACACTAAGTGCCATTCTC
* * *
30869729 AATATTTCGTACACTGAGTACCAT
1 AATATTTCGCACACTAAGTGCCAT
30869753 ATTTGATTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
AATATTTCGCACACTAAGTGCCATTCTC
Found at i:30876124 original size:24 final size:24
Alignment explanation
Indices: 30876097--30876144 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
30876087 TATTGAGTCT
30876097 GTAAATCCGAAAGAAATTGTTAGA
1 GTAAATCCGAAAGAAATTGTTAGA
*
30876121 GTAAATCTGAAAGAAATTGTTAGA
1 GTAAATCCGAAAGAAATTGTTAGA
30876145 ATTATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (24 bp):
GTAAATCCGAAAGAAATTGTTAGA
Found at i:30878158 original size:64 final size:64
Alignment explanation
Indices: 30878077--30878260 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
30878067 AGACATTATG
* *
30878077 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGTGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30878141 ATGTAGCTAGGTCGCATGTGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
30878205 TAA
62 TAA
* * * *
30878208 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
30878261 CGAACTCTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 23 0.24
65 4 0.04
66 18 0.19
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30886036 original size:35 final size:35
Alignment explanation
Indices: 30885986--30886078 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
30885976 ATTATTATTG
* **
30885986 ATTTTGATTCACATGTTAAGCATGCCGTTATACTA
1 ATTTTGATTCGCATGTTAAGCATGCCACTATACTA
*
30886021 ATTTTGATTCGCATGTTAAGCATGCCACTATACTG
1 ATTTTGATTCGCATGTTAAGCATGCCACTATACTA
* *
30886056 ATTTCGAATT-GCATGTAAAGCAT
1 ATTTTG-ATTCGCATGTTAAGCAT
30886079 ACCTATTGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
35 48 0.94
36 3 0.06
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (35 bp):
ATTTTGATTCGCATGTTAAGCATGCCACTATACTA
Found at i:30891456 original size:30 final size:30
Alignment explanation
Indices: 30891422--30891504 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
30891412 TTTTTAACGT
* *
30891422 AGAACAGCCACAAAGGCTTCCACA-TATCAG
1 AGAACAACCACAAAGGCTTCCACATTA-CAA
30891452 AGAACAACCACAAAGGCTTCCACATTACAA
1 AGAACAACCACAAAGGCTTCCACATTACAA
*
30891482 AGAACATCCACAAAGGCTTCCAC
1 AGAACAACCACAAAGGCTTCCAC
30891505 TTTTTAGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 47 0.96
31 2 0.04
ACGTcount: A:0.42, C:0.31, G:0.13, T:0.13
Consensus pattern (30 bp):
AGAACAACCACAAAGGCTTCCACATTACAA
Found at i:30893201 original size:48 final size:48
Alignment explanation
Indices: 30893141--30893374 Score: 204
Period size: 48 Copynumber: 4.9 Consensus size: 48
30893131 AGTGGTGTTG
* * *
30893141 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGTATCGGCATTGATA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
* * * * **
30893189 TGTGCGCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCA-CAACA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGACA
* * * * *
30893237 TGAGAGCCAGTGTAAGACCATGACTAGGATATGGCATCGGTATTGAGA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
* * ** * **
30893285 CGAGAGCTAGAGTAAGACCATGTCCGGGACATGGCATCGGCCTCAACA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
* * *
30893333 TGTA-AGCCACTGTAAGACCATGT-TTGGAACATGGCATCGGCA
1 TG-AGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCA
30893375 ATTCACCCTC
Statistics
Matches: 143, Mismatches: 39, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
47 3 0.02
48 137 0.96
49 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
Found at i:30893241 original size:96 final size:96
Alignment explanation
Indices: 30893141--30893374 Score: 310
Period size: 96 Copynumber: 2.4 Consensus size: 96
30893131 AGTGGTGTTG
* * * * * *
30893141 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGTATCGGCATTGATATGTGCGCTAGTGTAAAA
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGAGTAAAA
*
30893206 CCATGTCTGGGACATGGCATCGGCCACAACA
66 CCATGTCCGGGACATGGCATCGGCCACAACA
* * * *
30893237 TGAGAGCCAGTGTAAGACCATGACTAGGATATGGCATCGGTATTGAGACGAGAGCTAGAGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGAGTAAAA
*
30893302 CCATGTCCGGGACATGGCATCGGCCTCAACA
66 CCATGTCCGGGACATGGCATCGGCCACAACA
* *
30893333 TGTA-AGCCACTGTAAGACCATGT-TTGGAACATGGCATCGGCA
1 TG-AGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCA
30893375 ATTCACCCTC
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 3 0.03
96 115 0.97
97 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGAGTAAAA
CCATGTCCGGGACATGGCATCGGCCACAACA
Found at i:30893303 original size:144 final size:143
Alignment explanation
Indices: 30893041--30893370 Score: 322
Period size: 144 Copynumber: 2.3 Consensus size: 143
30893031 GACATTTGGG
* * * * * *
30893041 TGATATGTGTGCCATTGTAAGACCATGTATGGGACATGGCGTCAGCCACGATATGACAGCAGTGT
1 TGATATGTGCGCCAGTGTAAAACCATGTATGGGACATGGCATCAGCCACAACATGACAGCAGTGT
* * * * * * *
30893106 AAGACCATGTTTGGAACATGGCATCAGTGGTGTTGTGAGAGCCAGTGTAAGACCATGTCTAGGAC
66 AAGACCATGCTAGGAACATGGCATCAGTAGTGTAGCGAGAGCCAGAGTAAGACCATGTCCAGGAC
*
30893171 ATGGTATCGGCAT
131 ATGGCATCGGCAT
* * * *
30893184 TGATATGTGCGCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTG
1 TGATATGTGCGCCAGTGTAAAACCATGTATGGGACATGGCATCAGCCACAACATGACAG-CAGTG
* * * * *
30893249 TAAGACCATGACTAGG-ATATGGCATCGGTATTG-AGACGAGAGCTAGAGTAAGACCATGTCCGG
65 TAAGACCATG-CTAGGAACATGGCATCAGTAGTGTAG-CGAGAGCCAGAGTAAGACCATGTCCAG
*
30893312 GACATGGCATCGGCCT
128 GACATGGCATCGGCAT
** * ** * * * *
30893328 CAACATGTAAGCCACTGTAAGACCATGTTTGGAACATGGCATC
1 TGATATGTGCGCCAGTGTAAAACCATGTATGGGACATGGCATC
30893371 GGCAATTCAC
Statistics
Matches: 150, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
143 50 0.33
144 97 0.65
145 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (143 bp):
TGATATGTGCGCCAGTGTAAAACCATGTATGGGACATGGCATCAGCCACAACATGACAGCAGTGT
AAGACCATGCTAGGAACATGGCATCAGTAGTGTAGCGAGAGCCAGAGTAAGACCATGTCCAGGAC
ATGGCATCGGCAT
Found at i:30896111 original size:53 final size:54
Alignment explanation
Indices: 30896031--30896234 Score: 205
Period size: 53 Copynumber: 3.8 Consensus size: 54
30896021 TTCCTTTTTA
* * * * * *
30896031 AACTTGCCATTGCCTTGTCTTGACATGGTCTTACGTGGTATCTTTACCTTATA-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* * *
30896084 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATCAG-ATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCTTTGCCTTATAG
** * * * * * *
30896138 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* *
30896193 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
30896235 CTTAAACCCT
Statistics
Matches: 121, Mismatches: 26, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
53 44 0.36
54 35 0.29
55 42 0.35
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
Found at i:30898681 original size:25 final size:23
Alignment explanation
Indices: 30898652--30898795 Score: 171
Period size: 24 Copynumber: 6.0 Consensus size: 23
30898642 GCTTTATCAT
* *
30898652 ATAACTGGAGGCCTAGCCTTTTTTA
1 ATAACTGG-GGCATAGCC-CTTTTA
*
30898677 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGC-ATAGCCCTTTTA
30898701 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCAT-AGCCCTTTTA
30898725 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCAT-AGCCCTTTTA
*
30898749 GTAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCAT-AGCCCTTTTA
* *
30898773 GTAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCAT-AGCCCTTTT
30898796 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 98 0.88
25 12 0.11
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
ATAACTGGGGCATAGCCCTTTTA
Found at i:30898704 original size:24 final size:24
Alignment explanation
Indices: 30898672--30898795 Score: 212
Period size: 24 Copynumber: 5.2 Consensus size: 24
30898662 GCCTAGCCTT
*
30898672 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
30898696 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
30898720 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
30898744 TTTTAGTAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
30898768 TTTTAGTAACTAGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
30898792 TTTT
1 TTTT
30898796 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 97 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:30898870 original size:20 final size:20
Alignment explanation
Indices: 30898845--30898911 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
30898835 TTATGAATAC
30898845 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
30898865 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
30898885 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
30898905 ACCATGT
1 ATCATGT
30898912 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30898876 original size:11 final size:11
Alignment explanation
Indices: 30898845--30898900 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
30898835 TTATGAATAC
30898845 ATCATGTGCAT
1 ATCATGTGCAT
*
30898856 ATCA--TACAT
1 ATCATGTGCAT
30898865 ATCATGTGCAT
1 ATCATGTGCAT
*
30898876 ATCA--TACAT
1 ATCATGTGCAT
*
30898885 GTCATGTGCAT
1 ATCATGTGCAT
30898896 ATCAT
1 ATCAT
30898901 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:30902597 original size:20 final size:19
Alignment explanation
Indices: 30902574--30902638 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
30902564 AAGCTCAAAC
30902574 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
30902594 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
30902614 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
30902634 GAGCT
1 GAGCT
30902639 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:30921911 original size:16 final size:16
Alignment explanation
Indices: 30921890--30921921 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30921880 ATTAGGGTGA
30921890 AACCTAATAAAGGGAT
1 AACCTAATAAAGGGAT
*
30921906 AACCTAATAAGGGGAT
1 AACCTAATAAAGGGAT
30921922 CCATAGATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (16 bp):
AACCTAATAAAGGGAT
Found at i:30985461 original size:16 final size:17
Alignment explanation
Indices: 30985431--30985463 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30985421 TTATGTGAAT
30985431 ATTATCATGTGCGAAAA
1 ATTATCATGTGCGAAAA
*
30985448 ATTA-CATGTTCGAAAA
1 ATTATCATGTGCGAAAA
30985464 TGTTGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
ATTATCATGTGCGAAAA
Found at i:30987471 original size:19 final size:20
Alignment explanation
Indices: 30987443--30987482 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
30987433 TACAGCACTT
30987443 ATTTTCTATTAA-TTTCAGA
1 ATTTTCTATTAATTTTCAGA
*
30987462 ATTTTTTATTAATTTTCAGA
1 ATTTTCTATTAATTTTCAGA
30987482 A
1 A
30987483 CTTTACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTTCTATTAATTTTCAGA
Found at i:30993175 original size:25 final size:25
Alignment explanation
Indices: 30993145--30993194 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30993135 CACCACACTT
30993145 ATCAACATGTCACCTTCATTTTAGG
1 ATCAACATGTCACCTTCATTTTAGG
30993170 ATCAACATGTCACCTTCATTTTAGG
1 ATCAACATGTCACCTTCATTTTAGG
30993195 TATTCTCCTT
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:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (25 bp):
ATCAACATGTCACCTTCATTTTAGG
Found at i:31028123 original size:46 final size:46
Alignment explanation
Indices: 31028040--31028208 Score: 141
Period size: 46 Copynumber: 3.6 Consensus size: 46
31028030 AACTCGATGC
* * *
31028040 CATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCCGAGA
1 CATGTCCCAAACATGGTCTTACACTGGCTTA-CGTCTCG-AGCCGAGA
*
31028087 CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCGAGCCCG-GTG
1 CATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGAG-CCGAG-A
* * * * * * *
31028133 CATGTCCTAGACAT-GTCTTACACTAGCTCT-TGTCTCAATGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTGGCT-TACGTCTCGA-GCCGA-GA
31028180 CATGTCCCAAACATGGTCTTACACTGGCT
1 CATGTCCCAAACATGGTCTTACACTGGCT
31028209 CACACTCAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
45 3 0.03
46 54 0.54
47 29 0.29
48 14 0.14
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGAGCCGAGA
Found at i:31032703 original size:15 final size:15
Alignment explanation
Indices: 31032683--31032733 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
31032673 ACCGTGTGTT
31032683 ACACACGGCCGAGAC
1 ACACACGGCCGAGAC
*
31032698 ACACAC--CCGTGTGAC
1 ACACACGGCC--GAGAC
31032713 ACACACGGCCGAGAC
1 ACACACGGCCGAGAC
31032728 ACACAC
1 ACACAC
31032734 CTGTGTGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.07
15 26 0.87
17 2 0.07
ACGTcount: A:0.33, C:0.41, G:0.22, T:0.04
Consensus pattern (15 bp):
ACACACGGCCGAGAC
Found at i:31032708 original size:30 final size:30
Alignment explanation
Indices: 31032674--31032742 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
31032664 ATGGGGAATA
*
31032674 CCGTGTGTTACACACGGCCGAGACACACAC
1 CCGTGTGTCACACACGGCCGAGACACACAC
*
31032704 CCGTGTGACACACACGGCCGAGACACACAC
1 CCGTGTGTCACACACGGCCGAGACACACAC
*
31032734 CTGTGTGTC
1 CCGTGTGTC
31032743 TACCCGTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.36, G:0.25, T:0.14
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCGAGACACACAC
Found at i:31033575 original size:46 final size:48
Alignment explanation
Indices: 31033438--31033669 Score: 171
Period size: 46 Copynumber: 5.0 Consensus size: 48
31033428 TGGGTAAGGT
* * * *
31033438 GCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCATATCTCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAG
* * * ** *
31033485 GTCGATGCCA-GTCCCAAACATCGTCTTACACTAAC-TATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTC-AAG
* *
31033532 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAG
* * * * * *
31033578 GCTGATG-CATGTCCCAGACAT-GTCTTGCACTAGATCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAAG
* *
31033624 GTCGATGCCATG-CCCTAGACATGGTCTTACACTGGCTCACA-CTCAA
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTTACATCTCAA
31033670 ATGACCCAAA
Statistics
Matches: 146, Mismatches: 29, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
45 2 0.01
46 88 0.60
47 44 0.30
48 12 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAG
Found at i:31043726 original size:20 final size:21
Alignment explanation
Indices: 31043698--31043737 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
31043688 ACAGCACTTA
31043698 TTTTCTATTAA-TTTCAGAAT
1 TTTTCTATTAATTTTCAGAAT
*
31043718 TTTTTTATTAATTTTCAGAA
1 TTTTCTATTAATTTTCAGAA
31043738 CTTTACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTCTATTAATTTTCAGAAT
Found at i:31051746 original size:21 final size:21
Alignment explanation
Indices: 31051708--31051747 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31051698 CAATAACACT
*
31051708 TAAAATGGTCTAATTATACTC
1 TAAAATGGCCTAATTATACTC
31051729 TAAAATGGCCTTAA-TATAC
1 TAAAATGGCC-TAATTATAC
31051748 CTCATTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
TAAAATGGCCTAATTATACTC
Found at i:31064399 original size:40 final size:40
Alignment explanation
Indices: 31064343--31064444 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 40
31064333 TCCCAGAGGC
31064343 GTTAAGTCCCGAAGGCATTTGTGCCGAGTTACTA-AATCCGG
1 GTTAA-TCCCGAAGGCATTTGTGCCGAGTTACTATAA-CCGG
*
31064384 GTTAATCCCGAAGGCATTTGTGGCGAGTTACTATAACCGG
1 GTTAATCCCGAAGGCATTTGTGCCGAGTTACTATAACCGG
* *
31064424 GCTATGTCCCGAAGGCATTTG
1 GTTA-ATCCCGAAGGCATTTG
31064445 AACGAGTAGC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 34 0.61
41 22 0.39
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GTTAATCCCGAAGGCATTTGTGCCGAGTTACTATAACCGG
Found at i:31072354 original size:39 final size:40
Alignment explanation
Indices: 31072207--31072467 Score: 268
Period size: 39 Copynumber: 6.7 Consensus size: 40
31072197 TTGAATGATG
* * *
31072207 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
31072246 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* * *
31072287 TCCGGACTAAGATCCGAAGCCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* *
31072327 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
31072366 TCCGGGTTAA-ATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* * *
31072405 TCCGGGTTAA-TCCCGAAGGCATTTGTGCGAGTTACTAA-
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* *
31072443 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
31072468 AACGAGTAGC
Statistics
Matches: 199, Mismatches: 17, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
37 7 0.04
38 15 0.08
39 96 0.48
40 69 0.35
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:31072498 original size:77 final size:78
Alignment explanation
Indices: 31072260--31072500 Score: 265
Period size: 78 Copynumber: 3.1 Consensus size: 78
31072250 GGACTAAGAT
* * * * ** *
31072260 CCGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGATCCGAAGCCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAA-ATCCGAAGGCATTTGAACGAGTTACTA
* * *
31072325 ATTCCGGGCTAAGC
65 AATCCGGGTTAATC
* **
31072339 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATCCGAAGGCATTTGAACGAGTTACTAA
31072404 ATCCGGGTTAATC
66 ATCCGGGTTAATC
**
31072417 CCGAAGGCATTTGTGCGAGTTACT-AA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAAT-CCGAAGGCATTTGAACGAGTTA-CT
* *
31072479 ATATCC-GGTTAAATT
64 AAATCCGGGTT-AATC
31072494 CCGAAGG
1 CCGAAGG
31072501 TACGTGATTT
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
76 14 0.10
77 36 0.25
78 60 0.42
79 33 0.23
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAATC
Found at i:31088439 original size:24 final size:24
Alignment explanation
Indices: 31088407--31088481 Score: 150
Period size: 24 Copynumber: 3.1 Consensus size: 24
31088397 GCTGAATAAA
31088407 ATATGGAATTAAATCTTATTGAGT
1 ATATGGAATTAAATCTTATTGAGT
31088431 ATATGGAATTAAATCTTATTGAGT
1 ATATGGAATTAAATCTTATTGAGT
31088455 ATATGGAATTAAATCTTATTGAGT
1 ATATGGAATTAAATCTTATTGAGT
31088479 ATA
1 ATA
31088482 GTTTCTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (24 bp):
ATATGGAATTAAATCTTATTGAGT
Found at i:31098457 original size:27 final size:27
Alignment explanation
Indices: 31098426--31098485 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
31098416 TTATTAAACC
*
31098426 ACCCCTAAGTATG-AAAATAACCATTTT
1 ACCCCTAAG-ATGCAAAATAACCATTAT
* *
31098453 ACCCCT-AGGTGCAAAATGACCATTAT
1 ACCCCTAAGATGCAAAATAACCATTAT
31098479 ACCCCTA
1 ACCCCTA
31098486 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.71
27 6 0.21
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.25
Consensus pattern (27 bp):
ACCCCTAAGATGCAAAATAACCATTAT
Found at i:31098832 original size:20 final size:21
Alignment explanation
Indices: 31098787--31098832 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
31098777 ACTGTTCTGT
31098787 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
* *
31098807 -ACGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
31098826 TATGGGC
1 TATGGGC
31098833 AAGGCCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:31100078 original size:53 final size:54
Alignment explanation
Indices: 31099870--31100077 Score: 233
Period size: 55 Copynumber: 3.9 Consensus size: 54
31099860 TTGGTAAGAT
* * *
31099870 AAGGATATCATGTAAGACCATGCCAA-AGCATGGCATTAATAAGTCCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCATTGATAAGTTCTATAAGGC
* * * *
31099924 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
31099979 AAAGG-TTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
31100032 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
31100078 AAAAAGGAAA
Statistics
Matches: 133, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
53 42 0.32
54 39 0.29
55 44 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:31100213 original size:17 final size:16
Alignment explanation
Indices: 31100180--31100213 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31100170 CTTATTTAAT
*
31100180 ATTGAGATTGTAAGTA
1 ATTGAGATTATAAGTA
31100196 ATTGAGATTATCAAGTA
1 ATTGAGATTAT-AAGTA
31100213 A
1 A
31100214 GTGATGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATTGAGATTATAAGTA
Found at i:31106974 original size:48 final size:47
Alignment explanation
Indices: 31106922--31107223 Score: 188
Period size: 48 Copynumber: 6.4 Consensus size: 47
31106912 CAATGTCCTA
* * *
31106922 TCCCAGATATGGTCTTACATATGACCACATAATAATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATAGGATCACATAAT-ATGCCAATGCCATG
* * *
31106970 TCCCAGACATGGTCTTACATGGGATCACA-CATAT-CGAAT-CCGATAG
1 TCCCAGACATGGTCTTACATAGGATCACATAATATGCCAATGCC-AT-G
* * * *
31107016 -CCCAG-CTATGGTCTTACACGATG-TCTCATTATCATGCCAATGCCATG
1 TCCCAGAC-ATGGTCTTACA-TAGGATCACATAAT-ATGCCAATGCCATG
* * * * *
31107063 TCCCGGACATGGTCTTACATGGGATCACATAACGATGCCAAAGCCATA
1 TCCCAGACATGGTCTTACATAGGATCACATAA-TATGCCAATGCCATG
* * * * ** * *
31107111 TCCCATACATCGTCTTACATGGGATCACATAACGATGAAAAAGTCATG
1 TCCCAGACATGGTCTTACATAGGATCACATAA-TATGCCAATGCCATG
* * * * *
31107159 TCCTAAACATGGTCTTACAT-GCGATCACAT-GTCACTGCCGATGCCATA
1 TCCCAGACATGGTCTTACATAG-GATCACATAAT-A-TGCCAATGCCATG
*
31107207 TCCCAGATATGGTCTTA
1 TCCCAGACATGGTCTTA
31107224 TACGGGAGCT
Statistics
Matches: 197, Mismatches: 42, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
44 3 0.02
45 26 0.13
46 6 0.03
47 8 0.04
48 151 0.77
49 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACATAGGATCACATAATATGCCAATGCCATG
Found at i:31117758 original size:48 final size:48
Alignment explanation
Indices: 31117717--31117894 Score: 293
Period size: 48 Copynumber: 3.7 Consensus size: 48
31117707 ATGCCAATTC
* * * *
31117717 CATGTCTCAGACATGGTCTTACATGGGATCACATAACGATGCCAAAGC
1 CATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGCTAAAGT
31117765 CATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGCTAAAGT
1 CATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGCTAAAGT
* *
31117813 CATATCCCAAACATTGTCTTACATGGGATCACATAACGATGCTAAAGT
1 CATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGCTAAAGT
*
31117861 CATGTCCCAAACATGGTCTTACATGCGATCACAT
1 CATGTCCCAAACATGGTCTTACATGGGATCACAT
31117895 GTCATTGCCG
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (48 bp):
CATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGCTAAAGT
Found at i:31117917 original size:48 final size:48
Alignment explanation
Indices: 31117574--31117929 Score: 267
Period size: 48 Copynumber: 7.5 Consensus size: 48
31117564 GGGTGTCAAT
* * * * *
31117574 GCCATATCCCAGATATGGTCTTACATGGGACCACATAATGATGCCAAT
1 GCCATATCCCAAACATGGTCTTACATGGGATCACATAACGATGCCAAA
* ** * * *
31117622 GCCATGTCCTGAACATGGTCTTACATGAGATCACACATA--TTG---AA
1 GCCATATCCCAAACATGGTCTTACATGGGATCACATA-ACGATGCCAAA
* * *** * * * * * *
31117666 GCTGATAGCCCAGTTATGGTCTTACACGATG-TCTCATTATGATGCCAAT
1 GC-CATATCCCAAACATGGTCTTACATG-GGATCACATAACGATGCCAAA
* * * *
31117715 TCCATGTCTCAGACATGGTCTTACATGGGATCACATAACGATGCCAAA
1 GCCATATCCCAAACATGGTCTTACATGGGATCACATAACGATGCCAAA
* *
31117763 GCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGCTAAA
1 GCCATATCCCAAACATGGTCTTACATGGGATCACATAACGATGCCAAA
* * *
31117811 GTCATATCCCAAACATTGTCTTACATGGGATCACATAACGATGCTAAA
1 GCCATATCCCAAACATGGTCTTACATGGGATCACATAACGATGCCAAA
* * * ** * *
31117859 GTCATGTCCCAAACATGGTCTTACATGCGATCACATGTC-ATTGCCGAT
1 GCCATATCCCAAACATGGTCTTACATGGGATCACATAACGA-TGCCAAA
* *
31117907 GCCATATCCCAGATATGGTCTTA
1 GCCATATCCCAAACATGGTCTTA
31117930 TACGGGAGCT
Statistics
Matches: 241, Mismatches: 57, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
44 4 0.02
45 20 0.08
46 3 0.01
47 4 0.02
48 207 0.86
49 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCATATCCCAAACATGGTCTTACATGGGATCACATAACGATGCCAAA
Found at i:31121061 original size:55 final size:56
Alignment explanation
Indices: 31120958--31121092 Score: 236
Period size: 55 Copynumber: 2.4 Consensus size: 56
31120948 TCCCAGACAG
*
31120958 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
* *
31121014 GGTCTTACTCGCACACATATAT-TGAATCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
31121069 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTCGCACACATATATCG
31121093 ATGCCATGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
55 52 0.70
56 22 0.30
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
Found at i:31122269 original size:14 final size:15
Alignment explanation
Indices: 31122252--31122280 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31122242 ACACAAAAAT
31122252 TTCACACAT-ATAAA
1 TTCACACATAATAAA
31122266 TTCACACATAATAAA
1 TTCACACATAATAAA
31122281 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:31124195 original size:16 final size:16
Alignment explanation
Indices: 31124166--31124199 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31124156 AAAATTCAAT
*
31124166 TATCATATAGTTATTC
1 TATCAAATAGTTATTC
*
31124182 TATCAAATATTTATTC
1 TATCAAATAGTTATTC
31124198 TA
1 TA
31124200 ATATATTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (16 bp):
TATCAAATAGTTATTC
Found at i:31128523 original size:31 final size:31
Alignment explanation
Indices: 31128488--31128550 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
31128478 CTTTAATTAA
*
31128488 ATGTATGAA-ATTGAATCAAAATTAAAGTTTC
1 ATGTATGAATA-TAAATCAAAATTAAAGTTTC
* *
31128519 ATGTATGTATATAAATCAAAATTCAAGTTTC
1 ATGTATGAATATAAATCAAAATTAAAGTTTC
31128550 A
1 A
31128551 AGTACATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (31 bp):
ATGTATGAATATAAATCAAAATTAAAGTTTC
Found at i:31130615 original size:27 final size:27
Alignment explanation
Indices: 31130584--31130638 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
31130574 CAAGAATTGA
* *
31130584 GTCAAAAATCCAATATATGAGGAAAAG
1 GTCAAAAAGCAAATATATGAGGAAAAG
31130611 GTCAAAAAGCAAATATATGAGGAAAAG
1 GTCAAAAAGCAAATATATGAGGAAAAG
31130638 G
1 G
31130639 GAAAATTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.53, C:0.09, G:0.22, T:0.16
Consensus pattern (27 bp):
GTCAAAAAGCAAATATATGAGGAAAAG
Found at i:31131065 original size:20 final size:20
Alignment explanation
Indices: 31131020--31131067 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
31131010 GCTTGTACAG
* *
31131020 GATTGCACTTCGGTGCATTT
1 GATTGCACTTAGGTGCATCT
* *
31131040 GTTTGCACTTAGGTGCCTCT
1 GATTGCACTTAGGTGCATCT
31131060 GATTGCAC
1 GATTGCAC
31131068 ATGTTCCTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (20 bp):
GATTGCACTTAGGTGCATCT
Found at i:31137495 original size:46 final size:46
Alignment explanation
Indices: 31137348--31137478 Score: 210
Period size: 46 Copynumber: 2.8 Consensus size: 46
31137338 TGTAACCCGC
* *
31137348 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
**
31137394 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
31137440 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
31137479 CTCAATCATC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.03
46 76 0.97
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:31139163 original size:20 final size:21
Alignment explanation
Indices: 31139124--31139163 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31139114 AAATTAATGG
31139124 CTACACGGGCGTGTTGCCCTT
1 CTACACGGGCGTGTTGCCCTT
*
31139145 CTACACGGGTGTG-TGCCCT
1 CTACACGGGCGTGTTGCCCT
31139164 GTTCCAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.30, T:0.28
Consensus pattern (21 bp):
CTACACGGGCGTGTTGCCCTT
Found at i:31141000 original size:20 final size:20
Alignment explanation
Indices: 31140977--31141023 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
31140967 GGTAAAGATA
31140977 AGCTAAAAACATGCTCATTG
1 AGCTAAAAACATGCTCATTG
*
31140997 AGCTGAAAACATGCTCATTG
1 AGCTAAAAACATGCTCATTG
31141017 AGCTAAA
1 AGCTAAA
31141024 CAAACTGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (20 bp):
AGCTAAAAACATGCTCATTG
Found at i:31145657 original size:20 final size:21
Alignment explanation
Indices: 31145634--31145683 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
31145624 AAGGTAAAGA
* *
31145634 TGAGCTCAAAATGAGCT-CAT
1 TGAGCTCAAAACGAGCTGAAT
*
31145654 TGAGCTAAAAACGAGCTGAAT
1 TGAGCTCAAAACGAGCTGAAT
31145675 TGAGCTCAA
1 TGAGCTCAA
31145684 CAAACTGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (21 bp):
TGAGCTCAAAACGAGCTGAAT
Found at i:31147257 original size:21 final size:20
Alignment explanation
Indices: 31147225--31147267 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
31147215 TTTTCCATGA
31147225 TTAGATTCAA-TTGTTATATG
1 TTAGATTCAATTTG-TATATG
*
31147245 TTAGCATTTAATTTGTATATG
1 TTAG-ATTCAATTTGTATATG
31147266 TT
1 TT
31147268 TTTCTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (20 bp):
TTAGATTCAATTTGTATATG
Found at i:31148895 original size:3 final size:3
Alignment explanation
Indices: 31148887--31148915 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31148877 AAACAGTAGA
31148887 GCG GCG GCG GCG GCG GCG GCG GCG GCG GC
1 GCG GCG GCG GCG GCG GCG GCG GCG GCG GC
31148916 ATCCCCCCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.66, T:0.00
Consensus pattern (3 bp):
GCG
Found at i:31155597 original size:3 final size:3
Alignment explanation
Indices: 31155589--31155639 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
31155579 AATATGGGTG
*
31155589 ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA ATA
31155637 ATA
1 ATA
31155640 GTCAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:31155719 original size:3 final size:3
Alignment explanation
Indices: 31155706--31155784 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
31155696 GAGGGTATAT
*
31155706 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATG ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA AT-A ATA ATA ATA
* *
31155753 ATAA ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
31155785 AAAAAATAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
2 6 0.10
3 40 0.65
4 16 0.26
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:31155726 original size:17 final size:18
Alignment explanation
Indices: 31155701--31155780 Score: 83
Period size: 17 Copynumber: 4.3 Consensus size: 18
31155691 ATGGAGAGGG
*
31155701 TATATATAAT-ATAATAA
1 TATAAATAATAATAATAA
31155718 TATAAATAATAATATATACA
1 TATAAATAATAATA-ATA-A
31155738 TGATAAATAATAATAATAA
1 T-ATAAATAATAATAATAA
* *
31155757 -ATAAATAATAGTAAAAA
1 TATAAATAATAATAATAA
31155774 TAATAAA
1 T-ATAAA
31155781 ATAAAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
17 24 0.44
18 3 0.06
19 9 0.17
20 5 0.09
21 13 0.24
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
TATAAATAATAATAATAA
Found at i:31155729 original size:20 final size:20
Alignment explanation
Indices: 31155706--31155784 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
31155696 GAGGGTATAT
31155706 ATAATATAATAATATAAATA
1 ATAATATAATAATATAAATA
31155726 ATAATAT-ATACATGATAAATA
1 ATAATATAATA-AT-ATAAATA
31155747 AT-A-ATAATAA-ATAAATA
1 ATAATATAATAATATAAATA
* *
31155764 ATAGTAAAAATAATA-AAATA
1 ATAAT-ATAATAATATAAATA
31155784 A
1 A
31155785 AAAAAATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
17 9 0.18
19 6 0.12
20 25 0.50
21 10 0.20
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (20 bp):
ATAATATAATAATATAAATA
Found at i:31155734 original size:14 final size:14
Alignment explanation
Indices: 31155711--31155793 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 14
31155701 TATATATAAT
31155711 ATAATAATATAAATA
1 ATAATAATATAAA-A
*
31155726 ATAATATATACATGATAA
1 ATAATA-AT--AT-AAAA
*
31155744 ATAATAATA-ATAA
1 ATAATAATATAAAA
31155757 ATAAATAATAGTAAAA
1 AT-AATAATA-TAAAA
*
31155773 ATAATAAAATAAAA
1 ATAATAATATAAAA
*
31155787 AAAATAA
1 ATAATAA
31155794 AACAAAGCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
13 6 0.11
14 18 0.32
15 13 0.23
16 7 0.12
17 2 0.04
18 9 0.16
19 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (14 bp):
ATAATAATATAAAA
Found at i:31155795 original size:14 final size:15
Alignment explanation
Indices: 31155742--31155793 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 15
31155732 TATACATGAT
31155742 AAATAATAATAATAAA
1 AAATAATAATAA-AAA
*
31155758 TAAATAATAGTAAAAA
1 -AAATAATAATAAAAA
*
31155774 TAATAA-AATAAAAA
1 AAATAATAATAAAAA
31155788 AAATAA
1 AAATAA
31155794 AACAAAGCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 12 0.39
15 5 0.16
16 3 0.10
17 11 0.35
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
AAATAATAATAAAAA
Found at i:31156325 original size:30 final size:30
Alignment explanation
Indices: 31156287--31156372 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
31156277 ATTTAATGGT
*
31156287 GTAGGTGCAAGTGGGAGACAAGGTGGTAGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTAGA
* *
31156317 GTATGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTAGA
31156347 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
31156373 CTAGGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTAGA
Found at i:31156370 original size:18 final size:18
Alignment explanation
Indices: 31156321--31156371 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
31156311 GGTAGAGTAT
31156321 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
31156339 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
31156351 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
31156369 GTG
1 GTG
31156372 GCTAGGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 3 0.12
15 4 0.16
16 3 0.12
17 1 0.04
18 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.53, T:0.16
Consensus pattern (18 bp):
GTGCAAGTGGGAGGCAAG
Found at i:31157045 original size:86 final size:87
Alignment explanation
Indices: 31156899--31157605 Score: 637
Period size: 86 Copynumber: 8.3 Consensus size: 87
31156889 TTCAGCTTGG
* * * *
31156899 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGTTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCTATCATCTTCGATCTGTTTCCCTACTGTTTAGGGGGTT
*
31156964 AAGATTTGTAAATTTAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* * *
31156986 TACCCTACTG-TCTAGGGG-TTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTA---GG-
1 TACCCTACTGCT-TAGGGGTTTAAGGCCTATCATCTTCGATCTGTTTCCCTACTGTTTAGGGGGT
*
31157045 ---G-TCTGTAAATTTAACCTGT
65 TAAGATCTGTAAATTTAGCCTGT
* * * * * *
31157064 TACCCTACTACTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCTATCATCTTCGATCTGTTTCCCTACTGTTTAGGGGGTT
*
31157129 AAGATCTGTAAATTCAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* * * * * *
31157151 TACCCTACTGCTTCGGGGTTTAAGGCCCATCATCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGGCCTATCATCTTCGATCTGTTTCC-CTACTGTTTAGGGGGT
* *
31157215 TAAGATC--TACAATTTGGTCTGT
65 TAAGATCTGTA-AATTTAGCCTGT
* * *
31157237 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGTATAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTATCATCTTCGATCTGTTTCCCTACTGTTTAGGGGGT
* * *
31157301 TAAGATCTG-GAATTTGGTCTGT
65 TAAGATCTGTAAATTTAGCCTGT
* * * * * *
31157323 TACCCTACTACTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAG
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTATCATCTTCGATCTGTTTCC-CTACTGTTTAGGGGG
* * ** *
31157386 ATAAGATCTG-CAATTCGGTCTGT
64 TTAAGATCTGTAAATTTAGCCTGT
* * * * * * * * * *
31157409 TACCCTACTACTTAGGGGTTTAAGACCCT-TCGTTTTCGATCTGCTGCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTATCATCTTCGATCTGTTTCCCTACTGTTTAGGGGGT
* ** *
31157473 TAAGATCTG-CAATTCGGTCTGT
65 TAAGATCTGTAAATTTAGCCTGT
* * * * *
31157495 TACCCTACTACTTAGGGGTTTAAGACCCT-TCGTCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTATCATCTTCGATCTGTTTCCCTACTGTTTAGGGGGT
* *
31157559 TAAGATCTGGAAATTCAGCCTGT
65 TAAGATCTGTAAATTTAGCCTGT
31157582 TACCCTACTGCTTAGGGGTTTAAG
1 TACCCTACTGCTTAGGGGTTTAAG
31157606 ATCTGTAAAT
Statistics
Matches: 536, Mismatches: 64, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
78 31 0.06
79 35 0.07
82 2 0.00
83 1 0.00
85 5 0.01
86 334 0.62
87 128 0.24
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (87 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCTATCATCTTCGATCTGTTTCCCTACTGTTTAGGGGGTT
AAGATCTGTAAATTTAGCCTGT
Found at i:31157297 original size:44 final size:44
Alignment explanation
Indices: 31157060--31157606 Score: 319
Period size: 44 Copynumber: 12.7 Consensus size: 44
31157050 TAAATTTAAC
* * * * *
31157060 CTGTTACCCTACTACTTAGGGGTTTAAG-GCTTATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTATTCGAT
* * * * *
31157104 CTGTTTCCCCACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT--ATTCGA-T
* * * * *
31157147 CTGTTACCCTACTGCTTCGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTATTCGAT
* * * * * * *
31157191 CTGCT-CCACTACTGCTTAGGGAG-ATAAGA-TCTAC-AATTTGGT
1 CTGTTACC-CTACTGCTTAGGG-GTTTAAGACCCTTCGTATTCGAT
*
31157233 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTATTCGAT
* * * * * * *
31157277 CTGTTTCCCTACTG-TATAGGGGGTTAAGA-TC-TGGAATTTGGT
1 CTGTTACCCTACTGCT-TAGGGGTTTAAGACCCTTCGTATTCGAT
* *
31157319 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTATTCGAT
* * * * * *
31157363 CTGCT-CCACTACTGCTTAGGGAG-ATAAGA-TCTGC-AATTCGGT
1 CTGTTACC-CTACTGCTTAGGG-GTTTAAGACCCTTCGTATTCGAT
* *
31157405 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTTTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTATTCGAT
* * * * * * * *
31157449 CTGCTGCACTACTGCTTAGGGAG-ATAAGA-TCTGC-AATTCGGT
1 CTGTTACCCTACTGCTTAGGG-GTTTAAGACCCTTCGTATTCGAT
* * *
31157491 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTATTCGAT
* * * * * *
31157535 CTGTTTCCCTACTGCTTAGGGGGTTAAGA-TC-TGGAAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCG-TATTCGA-T
31157578 CTGTTACCCTACTGCTTAGGGGTTTAAGA
1 CTGTTACCCTACTGCTTAGGGGTTTAAGA
31157607 TCTGTAAATT
Statistics
Matches: 371, Mismatches: 102, Indels: 61
0.69 0.19 0.11
Matches are distributed among these distances:
41 5 0.01
42 114 0.31
43 85 0.23
44 161 0.43
45 5 0.01
46 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTATTCGAT
Found at i:31157394 original size:172 final size:172
Alignment explanation
Indices: 31156889--31157606 Score: 755
Period size: 172 Copynumber: 4.2 Consensus size: 172
31156879 AGTTGTAATT
* * * * * *
31156889 TTCAGCTTGGTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGC
* * * * * *
31156954 TTAGGGTGTTAAGATTTGTAAATTTAGCCTGTTACCCTACT-GTCTAGGGG-TTAAG-GCTTGTC
66 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACT-TAGGGGTTTAAGACCCT-TC
* * * * *
31157016 ACCTTCGATCTGTTTCCCTACTGTTTA-GG-G-T---CTGTAAA
129 ATCTTCGATCTGTCTCCCTACTGCTTAGGGAGATAAGATCTAAA
* * * * * * *
31157054 TTTAACCTGTTACCCTACTACTTAGGGGTTTAAG-GCTTATCGTCTTTGATCTGTTTCCCCACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTG
* * * *
31157118 CTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTCGGGGTTTAAGGCCCATCA
65 CTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCA
31157183 TCTTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTACAA
130 TCTTCGATCTGTCTCC-CTACTGCTTAGGGAGATAAGATCTA-AA
** *
31157227 TTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGC
* ** * *
31157291 TATAGGGGGTTAAGATCTG-GAATTTGGTCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCG
66 T-TAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCA
*
31157355 TCTTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTGCAA
130 TCTTCGATCTGTCTCC-CTACTGCTTAGGGAGATAAGATCT-AAA
* * * * * * *
31157399 TTCGGTCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTTTTCGATCTGCTGCACTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGC
* * * * * *
31157464 TTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGT
66 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCAT
* * * *
31157528 CTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAA
131 CTTCGATCTGTCTCCCTACTGCTTAGGGAGATAAGATCT--AAA
31157572 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGA
31157607 TCTGTAAATT
Statistics
Matches: 474, Mismatches: 61, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
164 1 0.00
165 97 0.20
166 28 0.06
167 3 0.01
168 1 0.00
169 1 0.00
172 230 0.49
173 111 0.23
174 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (172 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGC
TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCAT
CTTCGATCTGTCTCCCTACTGCTTAGGGAGATAAGATCTAAA
Found at i:31157475 original size:258 final size:261
Alignment explanation
Indices: 31157059--31157606 Score: 811
Period size: 258 Copynumber: 2.1 Consensus size: 261
31157049 GTAAATTTAA
* * * *
31157059 CCTGTTACCCTACTACTTAGGGGTTTAAG-GCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAG
1 CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCCCCACTGCTTAG
* * * * *
31157123 GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTCGGGGTTTAAGGCCCATCATCTTC
66 GGAGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCATCATCTTC
* *
31157188 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTGGTCTGTTACCCTACTGCTTAGG
131 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTCGGTCTGTTACCCTACTACTTAGG
*
31157253 GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGGGGTTAAGATCTGG-AATTT
196 GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT-TAGGGGGTTAAGATCTGGAAATTC
*
31157316 GG
260 AG
* *
31157318 TCTGTTACCCTACTACTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTG-CTCCACTACTGCTTA
1 CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCC-CCACTGCTTA
* * * * * *
31157381 GGGAGATAAGATCTG-CAATTCGGTCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTTTT
65 GGGAGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCATCATCTT
* *
31157445 CGATCTGCTGCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTAG
130 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTCGGTCTGTTACCCTACTACTTAG
*
31157510 GGGTTTAAGACCCTTCGTCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTC
195 GGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTC
31157575 AG
260 AG
*
31157577 CCTGTTACCCTACTGCTTAGGGGTTTAAGA
1 CCTGTTACCCTACTACTTAGGGGTTTAAGA
31157607 TCTGTAAATT
Statistics
Matches: 259, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
258 160 0.62
259 97 0.37
260 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (261 bp):
CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCCCCACTGCTTAG
GGAGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCATCATCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTCGGTCTGTTACCCTACTACTTAGG
GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTCA
G
Found at i:31157631 original size:86 final size:86
Alignment explanation
Indices: 31157060--31157648 Score: 663
Period size: 86 Copynumber: 6.8 Consensus size: 86
31157050 TAAATTTAAC
* * * * *
31157060 CTGTTACCCTACTACTTAGGGGTTTAAG-GCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCT-TCATCTTCGATCTGTTTCCCTACTGCTTAGG
* *
31157124 GGGTTAAGATCTGTAAATTCAGC
65 GGGTTAAGATCTG-AAATTCGGT
* * * * *
31157147 CTGTTACCCTACTGCTTCGGGGTTTAAGGCCCATCATCTTCGATCTG-CTCCACTACTGCTTAGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCC-CTACTGCTTAGG
* * *
31157211 GAGATAAGATCT-ACAATTTGGT
65 GGGTTAAGATCTGA-AATTCGGT
* *
31157233 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCT-TAGG
* *
31157297 GGGTTAAGATCTGGAATTTGGT
65 GGGTTAAGATCTGAAATTCGGT
* *
31157319 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCC-CTACTGCTTAGG
* * *
31157383 GAGATAAGATCTGCAATTCGGT
65 GGGTTAAGATCTGAAATTCGGT
* * * * *
31157405 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTTTTCGATCTGCTGCACTACTGCTTAGGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
* * *
31157470 AGATAAGATCTGCAATTCGGT
66 GGTTAAGATCTGAAATTCGGT
* *
31157491 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTTGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
* *
31157556 GGTTAAGATCTGGAAATTCAGC
66 GGTTAAGATCT-GAAATTCGGT
* * * * * *
31157578 CTGTTACCCTACTGCTTAGGGGTTTAAGA-TCTGTAAAT-TTAG-CCTGTTACCCTACTGCTTAG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCT-T-CATCTTCGATCTGTTTCCCTACTGCTTAG
31157640 GGGGTTAAG
64 GGGGTTAAG
31157649 GCTTGTGGAT
Statistics
Matches: 441, Mismatches: 49, Indels: 25
0.86 0.10 0.05
Matches are distributed among these distances:
85 5 0.01
86 331 0.75
87 103 0.23
88 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (86 bp):
CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
GGTTAAGATCTGAAATTCGGT
Found at i:31157805 original size:64 final size:64
Alignment explanation
Indices: 31157725--31157848 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
31157715 GTATCTATGC
** * *
31157725 TTATGCCAAATAATTAGGACGTTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
1 TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
* * *
31157789 TTATGTCAAATAATTAGGATACTATCATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTG
31157849 TTATTATATG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
Found at i:31158617 original size:52 final size:53
Alignment explanation
Indices: 31158514--31158627 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 53
31158504 GCATAGCTCG
* * * *
31158514 AAATAAATAAATTAATCAAAGATTGCAAATGCCATAAGAAATAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
* * *
31158567 AAATGAATAAGTTAATCAAAGATAGC-GATGCAATAAGAAGGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
31158619 AAATGAATA
1 AAATGAATA
31158628 TAGCAAATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 31 0.57
53 23 0.43
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
Found at i:31159083 original size:196 final size:197
Alignment explanation
Indices: 31158749--31159141 Score: 675
Period size: 196 Copynumber: 2.0 Consensus size: 197
31158739 GATCCGAAGC
*
31158749 ACTTTGTTGATGCCCCAAGACGTAGCATACTTCTTCATTGTTAATTCAGGTATAGTAAGACTATT
1 ACTTTGTTGATGCCCCAAGACGTAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTATT
31158814 GTATGCCCCACTTGGATCCAAAGTTGAGCCATCCTTTCTGAGTTTTCAACTCAAATCCCCTTTGG
66 GTATGCCCCACTTGGATCCAAAGTTGAGCCATCCTTTCTGAGTTTTCAACTCAAATCCCCTTTGG
*
31158879 TCTCAAAGCGCCCTTTACGGGTTTTCGCTTTGGCCTCTCCTTTTTCTTCTCTTTCTTT-TTTTTT
131 TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTCTTTTTT
31158943 TT
196 TT
* *
31158945 ACTTTGTTGATGCCCCAAGACGTAGCATATTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
1 ACTTTGTTGATGCCCCAAGACGTAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTATT
* * *
31159010 GTATGCCCTACTTGGATCCAAATTTGAG-C-TGCCATTTCTGGGTTTTCAACTCAAATCCCCTTT
66 GTATGCCCCACTTGGATCCAAAGTTGAGCCAT-CC-TTTCTGAGTTTTCAACTCAAATCCCCTTT
*
31159073 GGTCTCAAAGCGCCCTTTGCGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTCTTTT
129 GGTCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTCTTTT
31159138 TTTT
194 TTTT
31159142 TGAAGGTCTC
Statistics
Matches: 186, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
194 1 0.01
195 3 0.02
196 174 0.94
197 8 0.04
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (197 bp):
ACTTTGTTGATGCCCCAAGACGTAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTATT
GTATGCCCCACTTGGATCCAAAGTTGAGCCATCCTTTCTGAGTTTTCAACTCAAATCCCCTTTGG
TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTCTTTTTT
TT
Found at i:31162284 original size:9 final size:10
Alignment explanation
Indices: 31162271--31162316 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
31162261 GGGAAAGTCT
31162271 AATGCAAAT-
1 AATGCAAATG
31162280 AATGC-AATG
1 AATGCAAATG
31162289 CAATGCAAATG
1 -AATGCAAATG
*
31162300 TATG-AAATG
1 AATGCAAATG
31162309 AATGCAAA
1 AATGCAAA
31162317 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (10 bp):
AATGCAAATG
Found at i:31162295 original size:19 final size:19
Alignment explanation
Indices: 31162271--31162316 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
31162261 GGGAAAGTCT
*
31162271 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
31162289 CAATGCAAATGTATGAAATG
1 -AATGCAAATGAATGAAATG
31162309 AATGCAAA
1 AATGCAAA
31162317 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:31164435 original size:20 final size:19
Alignment explanation
Indices: 31164410--31164447 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
31164400 ATAGCAAAAA
31164410 TAATAAAATATGAGTAATAT
1 TAATAAAATATGAG-AATAT
*
31164430 TAATAATATATGAGAATA
1 TAATAAAATATGAGAATA
31164448 CAAAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (19 bp):
TAATAAAATATGAGAATAT
Found at i:31164484 original size:3 final size:3
Alignment explanation
Indices: 31164476--31164690 Score: 76
Period size: 3 Copynumber: 69.3 Consensus size: 3
31164466 AATAGGGGTG
*
31164476 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* *
31164521 CATA TATA TATA ATA ATA GTA GTCA GA-A ATA A-A A-A ATA ATA GA-A
1 -ATA -ATA -ATA ATA ATA ATA AT-A -ATA ATA ATA ATA ATA ATA -ATA
* * * * **
31164565 GTA ACA ATA ATG ATA GTA ATA AT- ATAA ATA A-A TATGGA GAGG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA -AT--A -ATA ATA
31164610 TATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 -ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
31164655 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
31164691 AAAAATAAAA
Statistics
Matches: 164, Mismatches: 23, Indels: 50
0.69 0.10 0.21
Matches are distributed among these distances:
2 18 0.11
3 115 0.70
4 27 0.16
5 2 0.01
6 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:31166234 original size:15 final size:16
Alignment explanation
Indices: 31166214--31166252 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
31166204 TCAAACACGT
31166214 ATGTATGTAAAA-ATA
1 ATGTATGTAAAATATA
*
31166229 ATGTATTTAAAATATA
1 ATGTATGTAAAATATA
31166245 ATGT-TGTA
1 ATGTATGTA
31166253 TCCTAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (16 bp):
ATGTATGTAAAATATA
Found at i:31166960 original size:19 final size:21
Alignment explanation
Indices: 31166938--31167002 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
31166928 TCAATTTATT
31166938 TAAATATT-A-TATAAA-AATA
1 TAAATATTCATTA-AAATAATA
*
31166957 TAAAAATTCATTAAAATAATA
1 TAAATATTCATTAAAATAATA
* **
31166978 TAAATATTTAAGAAAA-AATA
1 TAAATATTCATTAAAATAATA
31166998 TAAAT
1 TAAAT
31167003 TAAATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.18
20 13 0.34
21 18 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAATATTCATTAAAATAATA
Found at i:31166999 original size:20 final size:20
Alignment explanation
Indices: 31166950--31167002 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
31166940 AATATTATAT
* **
31166950 AAAAATATAAAAATTCATTA
1 AAAAATATAAATATTCAAGA
*
31166970 AAATAATATAAATATTTAAGA
1 AAA-AATATAAATATTCAAGA
31166991 AAAAATATAAAT
1 AAAAATATAAAT
31167003 TAAATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAATATAAATATTCAAGA
Found at i:31172689 original size:44 final size:43
Alignment explanation
Indices: 31172615--31172776 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 43
31172605 CAATATGTGT
* * *
31172615 TTTCGTGTAAGACCACGTCTAGGACGTTGGCATCAAC-TTATAA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACATT-TAA
* * *
31172658 TTTACGTGTAAGACCATGTATGGGACATTGGCATC-GCATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATCAACATTTAA
* * * * *
31172701 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCAATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACATTTAA
* * * * *
31172744 TTACATGCAAGACTATGTCTGGGACGTTGGCAT
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCAT
31172777 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.28
43 40 0.42
44 29 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACATTTAA
Done.