Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 41 of 320
Found at i:11482829 original size:29 final size:31
Alignment explanation
Indices: 11482780--11482857 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
11482770 TATATATATT
* *
11482780 TTATACTATTT-TATGTATATATCTTTA-ATA
1 TTATATTATTTATATATATATA-CTTTACATA
* *
11482810 TTATATTATTTATATATATATATTTTACATG
1 TTATATTATTTATATATATATACTTTACATA
* *
11482841 TTATCTTATGTATATAT
1 TTATATTATTTATATAT
11482858 CTTAACTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 14 0.35
31 26 0.65
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (31 bp):
TTATATTATTTATATATATATACTTTACATA
Found at i:11482855 original size:31 final size:31
Alignment explanation
Indices: 11482795--11482857 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
11482785 CTATTTTATG
*
11482795 TATATATCTTTAATATTATATTATTTATATA
1 TATATATCTTTAATATTATATTATGTATATA
* *
11482826 TATATAT-TTTACATGTTATCTTATGTATATA
1 TATATATCTTTA-ATATTATATTATGTATATA
11482857 T
1 T
11482858 CTTAACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (31 bp):
TATATATCTTTAATATTATATTATGTATATA
Found at i:11482943 original size:19 final size:20
Alignment explanation
Indices: 11482889--11482943 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
11482879 TTTTTAACAC
11482889 TATATTATGTACATATTTTT
1 TATATTATGTACATATTTTT
* * *
11482909 AATATTAT-CACGTATTTTT
1 TATATTATGTACATATTTTT
11482928 TATA-TATGTACATATT
1 TATATTATGTACATATT
11482944 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 3 0.11
19 18 0.64
20 7 0.25
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATATTATGTACATATTTTT
Found at i:11483086 original size:16 final size:14
Alignment explanation
Indices: 11483067--11483100 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
11483057 TATTATTCTA
11483067 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
11483082 GATATTTTATATTTT
1 -ATATTTTATATTTT
11483097 ATAT
1 ATAT
11483101 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:11483095 original size:7 final size:8
Alignment explanation
Indices: 11483067--11483100 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
11483057 TATTATTCTA
11483067 ATATTTTG
1 ATATTTTG
11483075 ATATTTTG
1 ATATTTTG
11483083 ATATTTT-
1 ATATTTTG
11483090 ATATTTT-
1 ATATTTTG
11483097 ATAT
1 ATAT
11483101 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:11483102 original size:16 final size:15
Alignment explanation
Indices: 11483067--11483107 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
11483057 TATTATTCTA
11483067 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
11483083 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
11483099 ATATTTTAT
1 ATATTTTAT
11483108 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:11483916 original size:3 final size:3
Alignment explanation
Indices: 11483860--11483897 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11483850 TACTAATACG
11483860 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11483898 GAGATGGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11503241 original size:21 final size:21
Alignment explanation
Indices: 11503217--11503260 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11503207 TTCAGTTTTA
11503217 CTGTATTTATCTTTTATAAGT
1 CTGTATTTATCTTTTATAAGT
11503238 CTGTATTTATCTTTTATAAGT
1 CTGTATTTATCTTTTATAAGT
11503259 CT
1 CT
11503261 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (21 bp):
CTGTATTTATCTTTTATAAGT
Found at i:11505175 original size:14 final size:13
Alignment explanation
Indices: 11505156--11505185 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
11505146 CCAGAAAAGC
11505156 AAATCATTTTCCAG
1 AAATCATTTTCC-G
11505170 AAATCATTTTCCG
1 AAATCATTTTCCG
11505183 AAA
1 AAA
11505186 AACATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:11509296 original size:28 final size:28
Alignment explanation
Indices: 11509265--11509338 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
11509255 TCAATGCCTT
*
11509265 GCACACTATGTGCCATACTC-AATATCTC
1 GCACACTAAGTGCCATACTCGAA-ATCTC
*
11509293 GCACACTAAGTGCCACACTCGAAATCTC
1 GCACACTAAGTGCCATACTCGAAATCTC
*
11509321 GTACACTAAGTGCCATAC
1 GCACACTAAGTGCCATAC
11509339 ATAGCCGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCGAAATCTC
Found at i:11509371 original size:40 final size:40
Alignment explanation
Indices: 11509323--11509537 Score: 313
Period size: 40 Copynumber: 5.4 Consensus size: 40
11509313 GAAATCTCGT
* *
11509323 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* *
11509363 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
11509403 ACACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
11509443 ACACTAAGTGTCATATATAGCCGAAGCTATATCGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
11509483 ACACTAAGTGCCATTTATAGCCGAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
11509523 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
11509538 AATAACTGAT
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
Found at i:11509558 original size:80 final size:80
Alignment explanation
Indices: 11509323--11509537 Score: 358
Period size: 80 Copynumber: 2.7 Consensus size: 80
11509313 GAAATCTCGT
11509323 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
11509388 GCTATGTCGAATCAC
66 GCTATGTCGAATCAC
* *
11509403 ACACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGTCATATATAGCCGAA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
*
11509468 GCTATATCGAATCAC
66 GCTATGTCGAATCAC
** * **
11509483 ACACTAAGTGCCATTTATAGCCGAAGCTATGTCGTATCGCACACTAAGTGCCATA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATA
11509538 AATAACTGAT
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 125 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (80 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
GCTATGTCGAATCAC
Found at i:11511005 original size:7 final size:7
Alignment explanation
Indices: 11510984--11511020 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
11510974 CTTAAAATAA
11510984 ATTTA-C
1 ATTTACC
*
11510990 ATTTTCC
1 ATTTACC
11510997 ATTTACC
1 ATTTACC
11511004 ATTTACC
1 ATTTACC
11511011 ATTTACC
1 ATTTACC
11511018 ATT
1 ATT
11511021 GGTGTCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (7 bp):
ATTTACC
Found at i:11519417 original size:28 final size:28
Alignment explanation
Indices: 11519385--11519441 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11519375 AAAACATAGA
*
11519385 GGTAGAAAGGAATAGTTTCAATTGATAT
1 GGTAGAAAGGAATAATTTCAATTGATAT
11519413 GGTAGAAAGGAATAATTTCAATTGATAT
1 GGTAGAAAGGAATAATTTCAATTGATAT
11519441 G
1 G
11519442 AAAATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
GGTAGAAAGGAATAATTTCAATTGATAT
Found at i:11528514 original size:26 final size:26
Alignment explanation
Indices: 11528489--11528538 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11528479 CGTAATTATC
11528489 CCTT-ATCGATTTCTTTCCGTTCTAT
1 CCTTAATCGATTTCTTTCCGTTCTAT
11528514 CCTTAATCGATTTCTTTCCGTTCTA
1 CCTTAATCGATTTCTTTCCGTTCTA
11528539 GTCCAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.14, C:0.28, G:0.08, T:0.50
Consensus pattern (26 bp):
CCTTAATCGATTTCTTTCCGTTCTAT
Found at i:11528547 original size:26 final size:26
Alignment explanation
Indices: 11528493--11528547 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
11528483 ATTATCCCTT
*
11528493 ATCGATTTCTTTCCGTTCTATCCTTA
1 ATCGATTTCTTTCCGTTCTATCCTAA
11528519 ATCGATTTCTTTCCGTTCTAGTCC-AA
1 ATCGATTTCTTTCCGTTCTA-TCCTAA
11528545 ATC
1 ATC
11528548 TCGATTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (26 bp):
ATCGATTTCTTTCCGTTCTATCCTAA
Found at i:11544679 original size:17 final size:16
Alignment explanation
Indices: 11544637--11544675 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11544627 ATATATAACT
11544637 GTAATATTAA-TTAAA
1 GTAATATTAATTTAAA
11544652 -TAATACTTAATTTAAA
1 GTAATA-TTAATTTAAA
11544668 GTAATATT
1 GTAATATT
11544676 TAATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 4 0.19
16 7 0.33
17 5 0.24
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (16 bp):
GTAATATTAATTTAAA
Found at i:11545256 original size:19 final size:19
Alignment explanation
Indices: 11545208--11545262 Score: 103
Period size: 18 Copynumber: 2.9 Consensus size: 19
11545198 ATAATCTTCA
11545208 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11545227 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11545245 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
11545263 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 18 0.51
19 17 0.49
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11545577 original size:18 final size:17
Alignment explanation
Indices: 11545554--11545587 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11545544 TTTCCCAGAT
*
11545554 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
11545572 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
11545588 GTATCATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:11554218 original size:78 final size:78
Alignment explanation
Indices: 11554110--11554404 Score: 405
Period size: 78 Copynumber: 3.8 Consensus size: 78
11554100 TGAAGAAACA
* ** * * * * *
11554110 GATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACTTTCATTGAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
11554175 TCAGATCCAAGAT
66 TCAGATCCAAGAT
* *
11554188 AATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
11554253 GT-AGATCCAAGAT
66 -TCAGATCCAAGAT
*
11554266 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGA
* *
11554330 AGCAGATCTAAGAT
65 ATCAGATCCAAGAT
* * * *
11554344 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATGGCAGATCTGACATTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
11554405 GTGTTTACAT
Statistics
Matches: 193, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
77 1 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
TCAGATCCAAGAT
Found at i:11554497 original size:45 final size:45
Alignment explanation
Indices: 11554344--11554662 Score: 270
Period size: 45 Copynumber: 7.1 Consensus size: 45
11554334 GATCTAAGAT
* **
11554344 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATGGCA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAG--ATAACA
* * * * * * * * *
11554391 GATCTGACAT-TCATGTGTT-TACATCGAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGTATTAGACA-GGGAGCAAATCGAAGATAACA
* * *
11554436 GATTTGGCATCTCTGTATTAGTCAGTGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
*
11554481 GATTTGGCATCTCTGTATTAGAC-GGGAAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGG-AGCAAATCGAAGATAACA
* * *
11554526 GATTTGGCATCTCTGTATTAGA-TGTGGAGCAAATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACAG-GGAGCAAATCGAAGATAACA
* * * * * * *
11554570 AATTTGACGTCTCTATATTAGACGGGGTGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
* * * * *
11554615 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
11554660 GAT
1 GAT
11554663 ATCACCTTTC
Statistics
Matches: 223, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
44 35 0.16
45 152 0.68
46 11 0.05
47 25 0.11
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
Found at i:11554617 original size:89 final size:90
Alignment explanation
Indices: 11554416--11554656 Score: 281
Period size: 89 Copynumber: 2.7 Consensus size: 90
11554406 TGTTTACATC
* * *
11554416 GAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAG-TCAGT-GAGCAAATCGGAGATAA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAT--GTGGAGCAAATCGAAGATAA
* * *
11554479 CAGATTTGGCATCTCTGTATTAGACGG
64 CAAATTTGACATCTCTATATTAGACGG
* * * *
11554506 GAAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATTGAAGA-AGCA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATCGAAGATAACA
*
11554570 AATTTGACGTCTCTATATTAGACGG
66 AATTTGACATCTCTATATTAGACGG
** * * * * *
11554595 GGTGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATCGAAGATA
11554657 GCAGATATCA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
89 76 0.60
90 50 0.39
91 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (90 bp):
GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATCGAAGATAACA
AATTTGACATCTCTATATTAGACGG
Found at i:11555025 original size:17 final size:19
Alignment explanation
Indices: 11555003--11555080 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
11554993 ATGGAAATAT
11555003 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
11555020 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
11555039 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
11555056 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
11555074 AATCTTA
1 AATCTTA
11555081 GAAGATATGA
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 25 0.45
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:11555035 original size:19 final size:19
Alignment explanation
Indices: 11555011--11555082 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
11555001 ATAATCTTCA
11555011 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11555030 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11555049 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11555066 ATGAT-TGCAATCTTAGA
1 ATGATATGCAATCTTAGA
11555083 AGATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.31
18 10 0.20
19 25 0.49
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11555105 original size:23 final size:21
Alignment explanation
Indices: 11555011--11555092 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 21
11555001 ATAATCTTCA
11555011 ATGATATGCAATCTT---AGAT
1 ATGAT-TGCAATCTTAGAAGAT
11555030 ATGATATGCAATCTT---AGAT
1 ATGAT-TGCAATCTTAGAAGAT
*
11555049 ATGA-TACAATCTTAG---AT
1 ATGATTGCAATCTTAGAAGAT
11555066 ATGATTGCAATCTTAGAAGAT
1 ATGATTGCAATCTTAGAAGAT
11555087 ATGATT
1 ATGATT
11555093 TTGTAATCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 14 0.25
18 10 0.18
19 23 0.42
21 8 0.15
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
ATGATTGCAATCTTAGAAGAT
Found at i:11558882 original size:26 final size:26
Alignment explanation
Indices: 11558853--11558957 Score: 158
Period size: 26 Copynumber: 4.0 Consensus size: 26
11558843 TGATACAAAT
*
11558853 TGATAATTGG-TTACGTAAATGTTCCA
1 TGATAA-TGGATTAGGTAAATGTTCCA
*
11558879 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
11558905 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
11558931 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
11558957 T
1 T
11558958 AATGGGCATT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 3 0.04
26 70 0.96
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:11558910 original size:52 final size:52
Alignment explanation
Indices: 11558853--11558957 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
11558843 TGATACAAAT
*
11558853 TGATAATTGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
11558905 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
11558957 T
1 T
11558958 AATGGGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:11563262 original size:126 final size:126
Alignment explanation
Indices: 11563037--11563543 Score: 996
Period size: 126 Copynumber: 4.0 Consensus size: 126
11563027 TTTAGGTACC
11563037 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
11563102 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
11563163 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
11563228 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
11563289 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
11563354 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
*
11563415 TTAGAGATACCTAATCTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
*
11563480 AGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
11563541 TTA
1 TTA
11563544 TGCAACATGC
Statistics
Matches: 379, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 379 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (126 bp):
TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
Found at i:11567995 original size:19 final size:21
Alignment explanation
Indices: 11567956--11567995 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11567946 AAGACTTTCA
*
11567956 AATATCTTATAAAATATTTTG
1 AATATCTTAGAAAATATTTTG
11567977 AATA-CTTAGAAAA-ATTTTG
1 AATATCTTAGAAAATATTTTG
11567996 GACAAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (21 bp):
AATATCTTAGAAAATATTTTG
Found at i:11571500 original size:33 final size:32
Alignment explanation
Indices: 11571441--11571503 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11571431 CACACGCCCA
*
11571441 AAAATGGCCTAGCCCAGTAGCCCACACAACCC
1 AAAATGGCCTAGCCCAGTAGCACACACAACCC
** *
11571473 AAAATGGCCTAGCTCTTGTGGCACACACAAC
1 AAAATGGCCTAGC-CCAGTAGCACACACAAC
11571504 ATATCACACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.14
Consensus pattern (32 bp):
AAAATGGCCTAGCCCAGTAGCACACACAACCC
Found at i:11577104 original size:19 final size:19
Alignment explanation
Indices: 11577068--11577104 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11577058 TAATTGGGTT
* *
11577068 TTAATTAGGTGAATTTAGC
1 TTAATTAGGAGAAATTAGC
11577087 TTAATTAGGAGAAATTAG
1 TTAATTAGGAGAAATTAG
11577105 AAAAACGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (19 bp):
TTAATTAGGAGAAATTAGC
Found at i:11578928 original size:21 final size:21
Alignment explanation
Indices: 11578902--11578966 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
11578892 AGCTTTGCCA
11578902 ATTAGGCACTATATGTGTCGT
1 ATTAGGCACTATATGTGTCGT
* **
11578923 ATTAGGCACCACGTGTGTCGT
1 ATTAGGCACTATATGTGTCGT
* * *
11578944 -TTCAGGTACTTTATGTATCGT
1 ATT-AGGCACTATATGTGTCGT
11578965 AT
1 AT
11578967 ACTGCTTCTA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.06
21 30 0.91
22 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (21 bp):
ATTAGGCACTATATGTGTCGT
Found at i:11583736 original size:19 final size:20
Alignment explanation
Indices: 11583707--11583747 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11583697 TTTAAATAAG
*
11583707 AATATATTTAATAAATTATT
1 AATATATTTAATAAATAATT
*
11583727 AATATA-TTAATGAATAATT
1 AATATATTTAATAAATAATT
11583746 AA
1 AA
11583748 AAAGAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATATATTTAATAAATAATT
Found at i:11589177 original size:25 final size:26
Alignment explanation
Indices: 11589141--11589221 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
11589131 TGAAATGCCC
*
11589141 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11589167 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11589192 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11589218 ATCA
1 ATCA
11589222 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 24 0.45
26 29 0.55
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11594715 original size:25 final size:27
Alignment explanation
Indices: 11594678--11594731 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
11594668 TCAAACATGC
11594678 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
11594704 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
11594730 AT
1 AT
11594732 AACAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:11596249 original size:26 final size:26
Alignment explanation
Indices: 11596218--11596324 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
11596208 TGAAATGCCC
*
11596218 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11596244 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11596269 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11596295 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11596321 ATCA
1 ATCA
11596325 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11596288 original size:51 final size:52
Alignment explanation
Indices: 11596218--11596324 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
11596208 TGAAATGCCC
11596218 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
11596269 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
11596321 ATCA
1 ATCA
11596325 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 29 0.55
52 24 0.45
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:11602527 original size:50 final size:50
Alignment explanation
Indices: 11602472--11602572 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
11602462 TAAGTGTTAA
11602472 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
1 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
11602522 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
1 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
11602572 T
1 T
11602573 GTTTTTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (50 bp):
TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
Found at i:11602561 original size:21 final size:19
Alignment explanation
Indices: 11602536--11602585 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
11602526 CCCCTTTCTA
11602536 TTTTAATTCTTGTGTTTGTT
1 TTTTAATTCTT-TGTTTGTT
* *
11602556 CTTTTATTTATTTGTTTGTT
1 -TTTTAATTCTTTGTTTGTT
11602576 TTTTATATTC
1 TTTTA-ATTC
11602586 ACTATTCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.12, C:0.06, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTAATTCTTTGTTTGTT
Found at i:11602824 original size:3 final size:3
Alignment explanation
Indices: 11602800--11602959 Score: 82
Period size: 3 Copynumber: 52.7 Consensus size: 3
11602790 TCTATCGTCC
* * *
11602800 TTA TTA TAA TTA GTA TTA -TA TTA TTA TTA TTA CTT- TTA -TC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
11602843 TT- TAA TGTA TTA TT- TTC TTT TCTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * ** *
11602888 TTA TTA TTA TCA TCTA CATA ACA TTA TTA TTAA TGTA TTA TTT TTA TTA
1 TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
*
11602937 TCT- TCTA TT- TTA TCA TTA TTA TT
1 T-TA T-TA TTA TTA TTA TTA TTA TT
11602960 CTTACTATCT
Statistics
Matches: 122, Mismatches: 20, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
2 10 0.08
3 96 0.79
4 15 0.12
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11605200 original size:14 final size:14
Alignment explanation
Indices: 11605177--11605206 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11605167 ATAAACCCCG
11605177 AATCCAAAATCTTA
1 AATCCAAAATCTTA
*
11605191 AATCCCAAATCTTA
1 AATCCAAAATCTTA
11605205 AA
1 AA
11605207 CCCTAAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCCAAAATCTTA
Found at i:11605348 original size:21 final size:21
Alignment explanation
Indices: 11605324--11605381 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
11605314 TAGGGTTCAA
*
11605324 GTTTG-GGATTCGAGGTTTAGG
1 GTTTGAGG-TTCGAGGTTTAAG
*
11605345 GTTTGAGGTTTGAGGTTTAAG
1 GTTTGAGGTTCGAGGTTTAAG
*
11605366 GTTT-AAGTTCG-GGTTT
1 GTTTGAGGTTCGAGGTTT
11605382 GAAGTTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 5 0.16
21 20 0.62
22 2 0.06
ACGTcount: A:0.16, C:0.03, G:0.38, T:0.43
Consensus pattern (21 bp):
GTTTGAGGTTCGAGGTTTAAG
Found at i:11606006 original size:90 final size:91
Alignment explanation
Indices: 11605827--11606066 Score: 338
Period size: 90 Copynumber: 2.6 Consensus size: 91
11605817 GTACTTTTAT
* * * *
11605827 AAAATGTCCAATGTGATACTTGAACTATCAATTTATGTATTATTTGGTACTTGTACTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACTTGTAGTTTCATAAA
* *
11605892 ATGTCTAATACGGTACCTATACTTTG
66 ATGTCCAATACAGTACCTATACTTTG
11605918 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATT-TTTGGTACTTGTAGTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACTTGTAGTTTCATAAA
** *
11605982 ATGTCCAATGTAGTACTTATACTTTG
66 ATGTCCAATACAGTACCTATACTTTG
* * * * *
11606008 AAAATGTTCAATGTGGCACATGAACTATTAATCTGTGTATTATTATGGTACTTGGAGTT
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATT-TGGTACTTGTAGTT
11606067 AACACACATA
Statistics
Matches: 133, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
90 80 0.60
91 40 0.30
92 13 0.10
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (91 bp):
AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACTTGTAGTTTCATAAA
ATGTCCAATACAGTACCTATACTTTG
Found at i:11612008 original size:21 final size:22
Alignment explanation
Indices: 11611965--11612016 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
11611955 TATATATATA
*
11611965 TTATTCTACTTTGTTTTACTTAT
1 TTATT-TATTTTGTTTTACTTAT
*
11611988 TTATTTATTTTG-TTTAGTTAT
1 TTATTTATTTTGTTTTACTTAT
11612009 TTATTTAT
1 TTATTTAT
11612017 AATTAATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 16 0.59
22 6 0.22
23 5 0.19
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (22 bp):
TTATTTATTTTGTTTTACTTAT
Found at i:11614490 original size:20 final size:20
Alignment explanation
Indices: 11614451--11614504 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
11614441 ATTTTTTTAT
*
11614451 TAAATTTAATTATAAAATATG
1 TAAATTTAA-TATAAAATATA
11614472 TAAATATTAATAT-AAATATA
1 TAAAT-TTAATATAAAATATA
*
11614492 TAATTTTTAATAT
1 TAA-ATTTAATAT
11614505 TTTATTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 16 0.55
21 9 0.31
22 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TAAATTTAATATAAAATATA
Found at i:11614492 original size:22 final size:21
Alignment explanation
Indices: 11614451--11614492 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11614441 ATTTTTTTAT
11614451 TAAATTTAATTATAAAATATG
1 TAAATTTAATTATAAAATATG
11614472 TAAATATTAA-TATAAATATAT
1 TAAAT-TTAATTATAAA-ATAT
11614493 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATG
Found at i:11617173 original size:14 final size:14
Alignment explanation
Indices: 11617154--11617182 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11617144 AGGTCAACAG
11617154 AATGCTTGAAATTT
1 AATGCTTGAAATTT
11617168 AATGCTTGAAATTT
1 AATGCTTGAAATTT
11617182 A
1 A
11617183 TATTTCTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (14 bp):
AATGCTTGAAATTT
Found at i:11618439 original size:26 final size:26
Alignment explanation
Indices: 11618410--11618463 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11618400 TCACCAACAT
11618410 TGATCAAAACTCAAAAACAACTTCCA
1 TGATCAAAACTCAAAAACAACTTCCA
11618436 TGATCAAAACTCAAAAACAACTTCCA
1 TGATCAAAACTCAAAAACAACTTCCA
11618462 TG
1 TG
11618464 CCTATAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (26 bp):
TGATCAAAACTCAAAAACAACTTCCA
Found at i:11623909 original size:22 final size:21
Alignment explanation
Indices: 11623887--11623926 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11623877 CTAAATTATA
*
11623887 AATATTTTTAATATTTAAAAT
1 AATATTTTTAATAATTAAAAT
* *
11623908 AATTTTTTTTATAATTAAA
1 AATATTTTTAATAATTAAA
11623927 TGATTATGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTTTTAATAATTAAAAT
Found at i:11624130 original size:31 final size:31
Alignment explanation
Indices: 11624095--11624153 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
11624085 TATTTGAATT
*
11624095 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCAGATCAACTCGAATAAAA
* * *
11624126 AATTAAGTTTTTCAGTTTAACTCGAATA
1 AATTAAGTTATTCAGATCAACTCGAATA
11624154 TGAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCAGATCAACTCGAATAAAA
Found at i:11633278 original size:19 final size:19
Alignment explanation
Indices: 11633254--11633291 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11633244 GAGATTTTGA
*
11633254 TAAGAAGTACTTTGATGAC
1 TAAGAAGTACTTCGATGAC
11633273 TAAGAAGTACTTCGATGAC
1 TAAGAAGTACTTCGATGAC
11633292 ATTTCCCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (19 bp):
TAAGAAGTACTTCGATGAC
Found at i:11638810 original size:20 final size:21
Alignment explanation
Indices: 11638785--11638825 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11638775 ATGTGTTATG
11638785 AAAA-TTTTGATGCCATGGAA
1 AAAATTTTTGATGCCATGGAA
11638805 AAAATTTTTGATGCCATGGAA
1 AAAATTTTTGATGCCATGGAA
11638826 TGGCTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (21 bp):
AAAATTTTTGATGCCATGGAA
Found at i:11643237 original size:46 final size:45
Alignment explanation
Indices: 11643170--11643289 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 45
11643160 TGTGTGCTAT
11643170 TGTAAGACATGTCT-AGGACATGCATCGACCT-CGAGATGTAAGCCAG
1 TGTAAGACATGTCTGA-GACATGCATCGACCTACGAGATGT--GCCAG
* *
11643216 TGTAAGACATGTCTGAGACATGCATCG--TTACGAGATGTGTCAG
1 TGTAAGACATGTCTGAGACATGCATCGACCTACGAGATGTGCCAG
*
11643259 TGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGTAAGA-CATGTCTGAGACAT-GCATCGAC
11643290 ATAGATAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
43 11 0.17
44 14 0.22
45 14 0.22
46 25 0.38
47 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGAGACATGCATCGACCTACGAGATGTGCCAG
Found at i:11644608 original size:20 final size:21
Alignment explanation
Indices: 11644569--11644608 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11644559 GTTATAATGA
*
11644569 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
11644590 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
11644609 GTTTCAAGGG
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:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:11645303 original size:21 final size:22
Alignment explanation
Indices: 11645248--11645321 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
11645238 ATATATAAAT
* *
11645248 ATATTAT-TTAATTAGACTATA
1 ATATTATATTAATTACATTATA
* * *
11645269 TTATTAT-TTTATTACATTGTA
1 ATATTATATTAATTACATTATA
*
11645290 AT-TTATATTAATTATATTATA
1 ATATTATATTAATTACATTATA
11645311 ATATTATATTA
1 ATATTATATTA
11645322 TAAAATAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 4 0.10
21 30 0.71
22 8 0.19
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
ATATTATATTAATTACATTATA
Found at i:11645318 original size:13 final size:13
Alignment explanation
Indices: 11645300--11645324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11645290 ATTTATATTA
11645300 ATTATATTATAAT
1 ATTATATTATAAT
11645313 ATTATATTATAA
1 ATTATATTATAA
11645325 AATAAATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATTATAAT
Found at i:11646340 original size:20 final size:18
Alignment explanation
Indices: 11646315--11646353 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11646305 TTGTGACTGA
11646315 TATTAAATTGAATGAAAATG
1 TATTAAATTG--TGAAAATG
*
11646335 TATTAAGTTGTGAAAATG
1 TATTAAATTGTGAAAATG
11646353 T
1 T
11646354 GTGAATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (18 bp):
TATTAAATTGTGAAAATG
Found at i:11646364 original size:17 final size:18
Alignment explanation
Indices: 11646327--11646365 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11646317 TTAAATTGAA
*
11646327 TGAAAATGTATTAAGTTG
1 TGAAAATGTATGAAGTTG
*
11646345 TGAAAATGTGTGAA-TTG
1 TGAAAATGTATGAAGTTG
11646362 TGAA
1 TGAA
11646366 TTGAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (18 bp):
TGAAAATGTATGAAGTTG
Found at i:11647695 original size:31 final size:30
Alignment explanation
Indices: 11647651--11647733 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
11647641 TCAGTCTCGA
11647651 CATAT-ACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
*
11647681 CATATCACTGGGCCGACGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
*
11647712 CATATCACTGGCTGAAGCCTTT
1 CATATCACTGGCCGAAGCCTTT
11647734 ACTGTAAGCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.33
31 32 0.67
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:11647973 original size:24 final size:25
Alignment explanation
Indices: 11647946--11648022 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
11647936 GCCTAGCCTC
*
11647946 TTTTAAT-AACTGGGGTAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
11647970 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * *
11647995 TTTCAGTAAACTGGGGCATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
11648020 TTT
1 TTT
11648023 AGCACTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:11648862 original size:27 final size:27
Alignment explanation
Indices: 11648832--11648896 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
11648822 GGGCATATTC
11648832 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
11648859 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
11648886 GTCTTTTTACC
1 GTCATTTTACC
11648897 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:11648980 original size:27 final size:27
Alignment explanation
Indices: 11648954--11649083 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
11648944 ATCTACAAAC
*
11648954 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
11648981 CAATAGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
11649010 CAAGGGTGTTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
11649037 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
11649064 TAAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
11649084 CACAAACTAG
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 56 0.69
28 7 0.09
29 16 0.20
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:11649055 original size:56 final size:54
Alignment explanation
Indices: 11648947--11649083 Score: 141
Period size: 56 Copynumber: 2.5 Consensus size: 54
11648937 TTGGTAAATC
* *
11648947 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATAGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGAGTATTTCTATAA-TTT
* * * * * * *
11649002 TAGAAAGTCAAGGGTGTTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGAGTATTTCT-ATAATTT
* *
11649057 TACAAATTAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
11649084 CACAAACTAG
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 18 0.27
55 14 0.21
56 35 0.52
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGAGTATTTCTATAATTT
Found at i:11649088 original size:27 final size:27
Alignment explanation
Indices: 11649040--11649136 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
11649030 TGTAAATCAG
*
11649040 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
11649067 GGGTATTTCGGTAATTTCACAAACT-A
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
11649093 GTGGTACTTTGGTAATTTTACAAACTAG
1 G-GGTATTTTGGTAATTTTACAAACTAA
11649121 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
11649137 CTACCCTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.03
27 57 0.95
28 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:11649189 original size:26 final size:27
Alignment explanation
Indices: 11649158--11649208 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
11649148 GGGTATTTCA
11649158 GTAATTTCAT-AATCGAGGATAAAACG
1 GTAATTTCATAAATCGAGGATAAAACG
** *
11649184 GTAATTTTGTAAATCGAGGGTAAAA
1 GTAATTTCATAAATCGAGGATAAAA
11649209 TAATAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTTCATAAATCGAGGATAAAACG
Found at i:11649201 original size:27 final size:27
Alignment explanation
Indices: 11649168--11649255 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
11649158 GTAATTTCAT
* * *
11649168 AATCGAGGATAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
11649195 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
11649222 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
11649249 AATCGAG
1 AATCGAG
11649256 CGTACTTTGG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:11652982 original size:12 final size:12
Alignment explanation
Indices: 11652965--11652991 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11652955 TATGCTTCTT
11652965 AGTCAACAAGAA
1 AGTCAACAAGAA
11652977 AGTCAACAAGAA
1 AGTCAACAAGAA
11652989 AGT
1 AGT
11652992 TTAGTTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.11
Consensus pattern (12 bp):
AGTCAACAAGAA
Found at i:11653044 original size:17 final size:18
Alignment explanation
Indices: 11653024--11653057 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11653014 TTGTTTAGAT
11653024 TAATT-AGAGTTTTATTA
1 TAATTGAGAGTTTTATTA
11653041 TAATTGAGAGTTTTATT
1 TAATTGAGAGTTTTATT
11653058 TGGATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TAATTGAGAGTTTTATTA
Found at i:11658128 original size:13 final size:13
Alignment explanation
Indices: 11658110--11658134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11658100 TTTTATTATT
11658110 TTTAAAAAATAAA
1 TTTAAAAAATAAA
11658123 TTTAAAAAATAA
1 TTTAAAAAATAA
11658135 TATATCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAATAAA
Found at i:11671198 original size:23 final size:23
Alignment explanation
Indices: 11671146--11671221 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
11671136 GCTGAAAATG
** *
11671146 GTAAGCTCAATTGAGCT-GAACA
1 GTAAGCTCTTTTGAGCTGGATCA
*
11671168 GTAAGCTCTTTTGAGCTGGATCG
1 GTAAGCTCTTTTGAGCTGGATCA
*
11671191 GTAAGCTCTTTTGAGCTGAATCA
1 GTAAGCTCTTTTGAGCTGGATCA
11671214 GTAAGCTC
1 GTAAGCTC
11671222 CAATGAGCTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 15 0.32
23 32 0.68
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (23 bp):
GTAAGCTCTTTTGAGCTGGATCA
Found at i:11671228 original size:23 final size:23
Alignment explanation
Indices: 11671146--11671244 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 23
11671136 GCTGAAAATG
11671146 GTAAGCT-CAATTGAGCTGAA-CA
1 GTAAGCTCCAA-TGAGCTGAATCA
*** * *
11671168 GTAAGCTCTTTTGAGCTGGATCG
1 GTAAGCTCCAATGAGCTGAATCA
***
11671191 GTAAGCTCTTTTGAGCTGAATCA
1 GTAAGCTCCAATGAGCTGAATCA
11671214 GTAAGCTCCAATGAGCTGAAAT-A
1 GTAAGCTCCAATGAGCTG-AATCA
11671237 GTAAGCTC
1 GTAAGCTC
11671245 TTACGAGCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
22 15 0.23
23 46 0.72
24 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (23 bp):
GTAAGCTCCAATGAGCTGAATCA
Found at i:11671245 original size:46 final size:45
Alignment explanation
Indices: 11671118--11671246 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 45
11671108 TGAGCTGATA
* * **
11671118 AACAATAAGCTCTACTGAGCTGAAAATGGTAAGCTCAATTGAGCTG
1 AACAGTAAGCTCTAATGAGCTG-AAATGGTAAGCTCTTTTGAGCTG
** *
11671164 AACAGTAAGCTCTTTTGAGCTG-GATCGGTAAGCTCTTTTGAGCTG
1 AACAGTAAGCTCTAATGAGCTGAAAT-GGTAAGCTCTTTTGAGCTG
* *
11671209 AATCAGTAAGCTCCAATGAGCTGAAATAGTAAGCTCTT
1 AA-CAGTAAGCTCTAATGAGCTGAAATGGTAAGCTCTT
11671247 ACGAGCTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.03
45 19 0.28
46 46 0.67
47 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
AACAGTAAGCTCTAATGAGCTGAAATGGTAAGCTCTTTTGAGCTG
Found at i:11671253 original size:46 final size:45
Alignment explanation
Indices: 11671097--11671253 Score: 131
Period size: 46 Copynumber: 3.4 Consensus size: 45
11671087 TCATGGTCGA
* *
11671097 TAAGCTCTTACTGAGCTGATAAACAATAAGCTCTACTGAGCTGAAAATGG
1 TAAGCTCTTAC-GAGCTG---AACAGTAAGCTCTAATGAGCTG-AAATGG
** *
11671147 TAAGCTCAATT--GAGCTGAACAGTAAGCTCTTTTGAGCTG-GATCGG
1 TAAGCTC--TTACGAGCTGAACAGTAAGCTCTAATGAGCTGAAAT-GG
** * *
11671192 TAAGCTCTTTTGAGCTGAATCAGTAAGCTCCAATGAGCTGAAATAG
1 TAAGCTCTTACGAGCTGAA-CAGTAAGCTCTAATGAGCTGAAATGG
11671238 TAAGCTCTTACGAGCT
1 TAAGCTCTTACGAGCT
11671254 ATGGTGAGTC
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 17 0.19
46 51 0.57
47 2 0.02
49 6 0.07
50 7 0.08
52 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TAAGCTCTTACGAGCTGAACAGTAAGCTCTAATGAGCTGAAATGG
Found at i:11672538 original size:27 final size:27
Alignment explanation
Indices: 11672508--11672563 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
11672498 ACAACTACAA
11672508 GTTAGCCTATAAATTAGGCACAAATCT
1 GTTAGCCTATAAATTAGGCACAAATCT
*
11672535 GTTAGCTTATAAATTAGGCACAAATCT
1 GTTAGCCTATAAATTAGGCACAAATCT
11672562 GT
1 GT
11672564 GAATCCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (27 bp):
GTTAGCCTATAAATTAGGCACAAATCT
Found at i:11675114 original size:25 final size:25
Alignment explanation
Indices: 11675046--11675131 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
11675036 ATACATGTAT
* *
11675046 GCTCATACGAGCTATGAATCGGTAA
1 GCTCATACGAGCTATAAATCGGGAA
* * **
11675071 GCTCATATGAGTTGCAAATCGGGAA
1 GCTCATACGAGCTATAAATCGGGAA
*
11675096 GCTCATACGAGCTATAAATTGGGAA
1 GCTCATACGAGCTATAAATCGGGAA
*
11675121 GCTTATACGAG
1 GCTCATACGAG
11675132 TTGTGGTGTG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGGAA
Found at i:11678784 original size:16 final size:17
Alignment explanation
Indices: 11678750--11678790 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
11678740 AAAACTTGAC
*
11678750 ATAAATAATCTATATAA
1 ATAAATAATCTATAAAA
11678767 ATAAATAAT-TATAAAA
1 ATAAATAATCTATAAAA
*
11678783 ATATATAA
1 ATAAATAA
11678791 ATTGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAATAATCTATAAAA
Found at i:11685913 original size:19 final size:19
Alignment explanation
Indices: 11685859--11685916 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
11685849 AAATTAGATA
11685859 AATAATTATTTATATAAAT
1 AATAATTATTTATATAAAT
* *
11685878 AAT-ATTAAATTAGATAAAT
1 AATAATT-ATTTATATAAAT
**
11685897 TTTAATTATTTATATAAAT
1 AATAATTATTTATATAAAT
11685916 A
1 A
11685917 CTTTTTTTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AATAATTATTTATATAAAT
Found at i:11686881 original size:26 final size:26
Alignment explanation
Indices: 11686851--11686906 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
11686841 TGTTCTATTT
*
11686851 ATTATTTATTTCATAA-AATTTTTATA
1 ATTATTTA-TTAATAATAATTTTTATA
*
11686877 ATTATTTATTAATAATGATTTTTATA
1 ATTATTTATTAATAATAATTTTTATA
11686903 ATTA
1 ATTA
11686907 ATTTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTATTTATTAATAATAATTTTTATA
Found at i:11686911 original size:12 final size:12
Alignment explanation
Indices: 11686868--11686915 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
11686858 ATTTCATAAA
11686868 ATTTTTATAATT
1 ATTTTTATAATT
*
11686880 ATTTATTAATAATG
1 ATTT-TT-ATAATT
11686894 ATTTTTATAATT
1 ATTTTTATAATT
*
11686906 AATTTTATAA
1 ATTTTTATAA
11686916 AATTGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 18 0.58
13 4 0.13
14 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTTTTATAATT
Found at i:11686972 original size:18 final size:17
Alignment explanation
Indices: 11686928--11686974 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
11686918 TTGAAATTAG
*
11686928 ATAAATTTAA-TATTTT
1 ATAAATTAAATTATTTT
11686944 ATAAATTTTAAATTATTTAT
1 ATAAA--TTAAATTATTT-T
11686964 ATAAATTAAAT
1 ATAAATTAAAT
11686975 ACAATGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
18 10 0.38
19 5 0.19
20 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATAAATTAAATTATTTT
Found at i:11691168 original size:38 final size:38
Alignment explanation
Indices: 11691117--11691193 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
11691107 CGTGATTTAA
11691117 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
1 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
11691155 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
1 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
11691193 T
1 T
11691194 GTGGTTTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (38 bp):
TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
Found at i:11691882 original size:12 final size:12
Alignment explanation
Indices: 11691851--11691888 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11691841 ATTTACTTTT
11691851 ATTTTTAA-AAA
1 ATTTTTAATAAA
*
11691862 ATCTATTAATAAA
1 AT-TTTTAATAAA
11691875 ATTTTTAATAAA
1 ATTTTTAATAAA
11691887 AT
1 AT
11691889 ACAATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 16 0.70
13 5 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTTTAATAAA
Found at i:11691902 original size:25 final size:24
Alignment explanation
Indices: 11691851--11691900 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
11691841 ATTTACTTTT
*
11691851 ATTTTTAAAAAATCTATTAATAAA
1 ATTTTTAAAAAATCAATTAATAAA
*
11691875 ATTTTTAATAAAATACAATTCATAAA
1 ATTTTTAA-AAAAT-CAATTAATAAA
11691901 TTAAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 5 0.23
26 9 0.41
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTTTAAAAAATCAATTAATAAA
Found at i:11692055 original size:28 final size:30
Alignment explanation
Indices: 11692024--11692089 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
11692014 CAAAATATAT
*
11692024 AAAAAT-TAAT-GTAGTAAATTTTGATAAA
1 AAAAATATAATAGTAGTAAATTTTGAAAAA
**
11692052 AAAAATACTCCTAGTAGTAAATTTTGAAAAA
1 AAAAATA-TAATAGTAGTAAATTTTGAAAAA
11692083 AAAAATA
1 AAAAATA
11692090 CTCCTACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.19
30 2 0.06
31 24 0.75
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (30 bp):
AAAAATATAATAGTAGTAAATTTTGAAAAA
Found at i:11692072 original size:31 final size:31
Alignment explanation
Indices: 11692034--11692095 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11692024 AAAAATTAAT
*
11692034 GTAGTAAATTTTGATAAAAAAAATACTCCTA
1 GTAGTAAATTTTGAAAAAAAAAATACTCCTA
11692065 GTAGTAAATTTTGAAAAAAAAAATACTCCTA
1 GTAGTAAATTTTGAAAAAAAAAATACTCCTA
11692096 CTATGTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (31 bp):
GTAGTAAATTTTGAAAAAAAAAATACTCCTA
Found at i:11697937 original size:45 final size:45
Alignment explanation
Indices: 11697867--11697979 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
11697857 TAATCAGTAA
* *
11697867 CGGTAGCAGTAGCAGTAACAGTATTCAACACACAAAGTG-CTGAAT
1 CGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAAT
* * *
11697912 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAAT
1 CGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAAT
11697957 CGGTAACAGTAACAGTAACAGTA
1 CGGTAACAGTAACAGTAACAGTA
11697980 GTCGGCACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (45 bp):
CGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAAT
Found at i:11698768 original size:17 final size:17
Alignment explanation
Indices: 11698746--11698790 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
11698736 GCTTAGTTTA
11698746 CAATTCAATCCTTTATT
1 CAATTCAATCCTTTATT
11698763 CAATTCAATCCTTTATT
1 CAATTCAATCCTTTATT
11698780 CAATTCTAATC
1 CAATTC-AATC
11698791 AAAATTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (17 bp):
CAATTCAATCCTTTATT
Found at i:11699102 original size:3 final size:3
Alignment explanation
Indices: 11699094--11699124 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11699084 TATTAACTTT
*
11699094 ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11699125 ATATCTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11699397 original size:20 final size:20
Alignment explanation
Indices: 11699374--11699428 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
11699364 TTATTTTTAA
11699374 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
11699394 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
11699414 TAATAGAATAATAAT
1 TAAT--AATAATAAT
11699429 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:11704817 original size:20 final size:20
Alignment explanation
Indices: 11704792--11704848 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
11704782 TTTATTTATT
11704792 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
11704812 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
11704832 TTTAATAGAATAATAAT
1 TTTAAT--AATAATAAT
11704849 AAATAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
22 6 0.19
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:11712336 original size:27 final size:29
Alignment explanation
Indices: 11712285--11712348 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
11712275 GCTAATACCT
11712285 ATATATGCGTCGATTTTGTTATATATATA
1 ATATATGCGTCGATTTTGTTATATATATA
* *
11712314 ATATATGTGTGGATTTTGTTATATATATA
1 ATATATGCGTCGATTTTGTTATATATATA
*
11712343 AAATAT
1 ATATAT
11712349 ATACATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.48
Consensus pattern (29 bp):
ATATATGCGTCGATTTTGTTATATATATA
Found at i:11713048 original size:23 final size:23
Alignment explanation
Indices: 11713004--11713048 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11712994 TACAATGATT
* *
11713004 TATGTGAACTATGTCATGAATGA
1 TATGTAAACTATGTCATAAATGA
*
11713027 TATGTAAACTATGTTATAAATG
1 TATGTAAACTATGTCATAAATG
11713049 CAATTTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
TATGTAAACTATGTCATAAATGA
Found at i:11713609 original size:17 final size:17
Alignment explanation
Indices: 11713576--11713625 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
11713566 TATGATGTGC
* *
11713576 TATGAATGAATTATTA-
1 TATGAATGAACTGTTAT
11713592 TATTGAATGAACTGTTAT
1 TA-TGAATGAACTGTTAT
*
11713610 TATGCATGAACTGTTA
1 TATGAATGAACTGTTA
11713626 CTTTATACGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (17 bp):
TATGAATGAACTGTTAT
Found at i:11713637 original size:17 final size:17
Alignment explanation
Indices: 11713617--11713652 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11713607 TATTATGCAT
11713617 GAACTGTTACTTTATAC
1 GAACTGTTACTTTATAC
*
11713634 GAACTGTTATTTTATAC
1 GAACTGTTACTTTATAC
11713651 GA
1 GA
11713653 TCTGCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (17 bp):
GAACTGTTACTTTATAC
Found at i:11713667 original size:18 final size:17
Alignment explanation
Indices: 11713617--11713672 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
11713607 TATTATGCAT
11713617 GAACTGTTACTT-TATAC
1 GAACTGTTA-TTCTATAC
*
11713634 GAACTGTTATTTTATAC
1 GAACTGTTATTCTATAC
* *
11713651 GATCTGCTTATTCTATAT
1 GAACTG-TTATTCTATAC
11713669 GAAC
1 GAAC
11713673 CATTTAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 2 0.06
17 19 0.58
18 12 0.36
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (17 bp):
GAACTGTTATTCTATAC
Found at i:11724545 original size:15 final size:12
Alignment explanation
Indices: 11724510--11724541 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11724500 ACAAATAAAA
11724510 TAGTTGTTAAGG
1 TAGTTGTTAAGG
11724522 TAGTTGTTAAGG
1 TAGTTGTTAAGG
*
11724534 TATTTGTT
1 TAGTTGTT
11724542 GTTAGCAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (12 bp):
TAGTTGTTAAGG
Found at i:11724760 original size:2 final size:2
Alignment explanation
Indices: 11724753--11724784 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11724743 TGAACCTACT
*
11724753 CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11724785 TTCTGTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:11734362 original size:13 final size:13
Alignment explanation
Indices: 11734344--11734368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11734334 ATTTTCTCCA
11734344 AAATGAAAATGAT
1 AAATGAAAATGAT
11734357 AAATGAAAATGA
1 AAATGAAAATGA
11734369 CTTGGAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
AAATGAAAATGAT
Found at i:11736655 original size:37 final size:37
Alignment explanation
Indices: 11736590--11736919 Score: 358
Period size: 37 Copynumber: 9.0 Consensus size: 37
11736580 AGTACACAAG
* * * *
11736590 TAATCCAATCGA-AACACGTCGAACGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * *
11736626 TAATCTAACCAATAACATGCCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * * *
11736663 TAATCCAACCGGTAACATGCCCAATGCTCATAAGAGA
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
11736700 TAATCCAACCGATAATACGCCAAGTGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
11736737 AAATCCAACCGACAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * * ** *
11736774 TAATCCAACTGACAACATGTAAAATGATCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* ** * * *
11736811 TAATTCAACTAACAACACGCCAAATGCTTATAAGAGT
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
11736848 TAATCTAACAGATAACACGCCAAATGCTCA-AAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * *
11736884 TAATCCAACCGATAACAAGCCAAATGTTCCTAAGAG
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAG
11736920 TTATACATCC
Statistics
Matches: 244, Mismatches: 48, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
36 39 0.16
37 205 0.84
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:11740372 original size:17 final size:17
Alignment explanation
Indices: 11740346--11740379 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11740336 TCTTTTCTTT
*
11740346 TAGGCCTTATGAATAGA
1 TAGGCATTATGAATAGA
*
11740363 TAGGCATTATGAGTAGA
1 TAGGCATTATGAATAGA
11740380 ATAACTGTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (17 bp):
TAGGCATTATGAATAGA
Found at i:11748057 original size:26 final size:26
Alignment explanation
Indices: 11748021--11748072 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11748011 TTCTTGGAGA
11748021 AAGTTCGATGTATGCTATCCAATGCT
1 AAGTTCGATGTATGCTATCCAATGCT
11748047 AAGTTCGATGTATGCTATCCAATGCT
1 AAGTTCGATGTATGCTATCCAATGCT
11748073 GGATTAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
AAGTTCGATGTATGCTATCCAATGCT
Found at i:11759043 original size:93 final size:96
Alignment explanation
Indices: 11758944--11759143 Score: 284
Period size: 98 Copynumber: 2.1 Consensus size: 96
11758934 TATGTAAGCT
* *
11758944 AGTGTAAGACCTATCTAGGACATGGCATCGG-CTTGA-G-GTGT-A-TTAGTGTAAGACCTATCT
1 AGTGTAAGACCTATCTAGGACATGGCATCGGTCTTGATGTATGTAAGTCAGTGTAAGACCTATCT
11759004 GGGACATGGCATCGACACAGATAAGTGAGAGCC
66 GGGACATGGCATCGACACAGAT--GTGAGAGCC
* * *
11759037 AGTGTAAGACCTGTCTAGGACATGGCATCGGTTTTGATGTATGTAAGTCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTATCTAGGACATGGCATCGGTCTTGATGTATGTAAGTCAGTGTAAGACCTATCT
**
11759102 GGGACATGGCATCGACTTAGATGTGAGAGCC
66 GGGACATGGCATCGACACAGATGTGAGAGCC
11759133 AGTGTAAGACC
1 AGTGTAAGACC
11759144 ATGTTTGGAA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
93 30 0.32
94 4 0.04
95 1 0.01
96 23 0.24
97 1 0.01
98 36 0.38
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (96 bp):
AGTGTAAGACCTATCTAGGACATGGCATCGGTCTTGATGTATGTAAGTCAGTGTAAGACCTATCT
GGGACATGGCATCGACACAGATGTGAGAGCC
Found at i:11759058 original size:49 final size:49
Alignment explanation
Indices: 11758846--11759159 Score: 231
Period size: 49 Copynumber: 6.5 Consensus size: 49
11758836 TCTGTGTGCT
* *
11758846 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGAT-AGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAG-TGAGAGCC
* * ** *
11758895 AGTGTAAGACTTGTTTGGGACACAGCATCGGCCTCA-ATATA-TGTA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CTCAGATA-AGTG-AGAGCC
* * * * * **
11758944 AGTGTAAGACCTATCTAGGACATGGCATCGGCT-TG--AGGTG-TA-TT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* * *
11758988 AGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* * ** * *
11759037 AGTGTAAGACCTGTCTAGGACATGGCATCGGTTTTGATGTA-TGTA-AGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGAT-AAGTG-AGAGCC
* *
11759086 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGAT--GTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* *
11759133 AGTGTAAGACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
11759160 GTCAGCATCA
Statistics
Matches: 208, Mismatches: 40, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
44 31 0.15
45 2 0.01
46 4 0.02
47 20 0.10
48 16 0.08
49 129 0.62
50 5 0.02
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
Found at i:11759107 original size:142 final size:142
Alignment explanation
Indices: 11758845--11759115 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 142
11758835 ATCTGTGTGC
* * * * *
11758845 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAGAGCCAGTGTAAGACTTGTT
1 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGATGAGAGCCAGTGTAAGACCTGTC
*
11758910 TGGGACACAGCATCGGCCTCAATATATGTAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGG
66 TAGGACACAGCATCGGCCTCAATATATGTAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGG
11758975 CTTGAGGTGTAT
131 CTTGAGGTGTAT
11758987 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATA-AGTGAGAGCCAGTGTAAGACCTGT
1 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGA-TGAGAGCCAGTGTAAGACCTGT
** ** ** * * *
11759051 CTAGGACATGGCATCGGTTTTGATGTATGTAAG-TCAGTGTAAGACCTGTCTGGGACATGGCATC
65 CTAGGACACAGCATCGGCCTCAATATATGTAAGCT-AGTGTAAGACCTATCTAGGACATGGCATC
11759115 G
129 G
11759116 ACTTAGATGT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
141 2 0.02
142 110 0.98
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (142 bp):
TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGATGAGAGCCAGTGTAAGACCTGTC
TAGGACACAGCATCGGCCTCAATATATGTAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGG
CTTGAGGTGTAT
Found at i:11765294 original size:21 final size:21
Alignment explanation
Indices: 11765270--11765310 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11765260 AAACAAAGTC
*
11765270 AAAGAAAGAAGAAAA-AAATAT
1 AAAGAAA-AAAAAAAGAAATAT
11765291 AAAGAAAAAAAAAAGAAATA
1 AAAGAAAAAAAAAAGAAATA
11765311 AGAGGAACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAGAAAAAAAAAAGAAATAT
Found at i:11766734 original size:24 final size:23
Alignment explanation
Indices: 11766705--11766758 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
11766695 TAATTATATA
11766705 AAAATAATAATCAAAATTTTG-TTT
1 AAAATAA-AAT-AAAATTTTGCTTT
*
11766729 AAAATAAAATAAAGTTTTGTCTTT
1 AAAATAAAATAAAATTTTG-CTTT
11766753 AAAATA
1 AAAATA
11766759 TTAAAAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 3 0.11
24 16 0.59
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (23 bp):
AAAATAAAATAAAATTTTGCTTT
Found at i:11768894 original size:18 final size:20
Alignment explanation
Indices: 11768852--11768888 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11768842 ATATTTTATG
*
11768852 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
11768871 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
11768889 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:11771105 original size:46 final size:46
Alignment explanation
Indices: 11771053--11771371 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
11771043 AGTGTGCTCT
*
11771053 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
11771099 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11771145 CTGATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
11771190 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ***
11771236 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
11771282 GTGACATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
11771328 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
11771372 TCATGTCAAA
Statistics
Matches: 245, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 44 0.18
46 201 0.82
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11771307 original size:137 final size:137
Alignment explanation
Indices: 11771053--11771394 Score: 393
Period size: 137 Copynumber: 2.5 Consensus size: 137
11771043 AGTGTGCTCT
* * * * * ***
11771053 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* * **
11771118 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAAACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
11771183 ATGGCAC
131 ATGGCAC
*
11771190 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* * * *
11771255 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGATCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
11771320 ATGGCAAC
131 ATGGC-AC
* * * * ** * * * *
11771328 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATGTCA--AAGATAAATA
1 CTGATATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATAAATA
11771390 AGACC
64 AGACC
11771395 GTGGATGGGA
Statistics
Matches: 174, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
136 2 0.01
137 131 0.75
138 41 0.24
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (137 bp):
CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
ATGGCAC
Found at i:11773266 original size:24 final size:24
Alignment explanation
Indices: 11773245--11773298 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
11773235 AAATAAAACG
11773245 AAAAAGAAGATAGAAAAGAAAAAGA
1 AAAAAGAA-ATAGAAAAGAAAAAGA
*
11773270 AAAAAGAAATAGAAAA-AAGAAATA
1 AAAAAGAAATAGAAAAGAA-AAAGA
11773294 AAAAA
1 AAAAA
11773299 ATTTGAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.07
24 17 0.63
25 8 0.30
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (24 bp):
AAAAAGAAATAGAAAAGAAAAAGA
Found at i:11773267 original size:18 final size:18
Alignment explanation
Indices: 11773239--11773291 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
11773229 CAAAATAAAT
* *
11773239 AAAACGAAAAAGAAGATAG
1 AAAA-GAAAAAGAAAAAAG
11773258 AAAAGAAAAAGAAAAAAG
1 AAAAGAAAAAGAAAAAAG
11773276 AAATAGAAAAAAGAAA
1 AAA-AG-AAAAAGAAA
11773292 TAAAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 15 0.50
19 6 0.20
20 9 0.30
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAAAG
Found at i:11773286 original size:25 final size:25
Alignment explanation
Indices: 11773245--11773299 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
11773235 AAATAAAACG
11773245 AAAAAGAAGATAG-AAAAGAAAAAGA
1 AAAAAGAAGATAGAAAAAGAAAAA-A
*
11773270 AAAAAGAA-ATAGAAAAAAGAAATAA
1 AAAAAGAAGATAG-AAAAAGAAAAAA
11773295 AAAAA
1 AAAAA
11773300 TTTGAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 14 0.52
26 9 0.33
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (25 bp):
AAAAAGAAGATAGAAAAAGAAAAAA
Found at i:11773292 original size:13 final size:13
Alignment explanation
Indices: 11773245--11773299 Score: 71
Period size: 13 Copynumber: 4.4 Consensus size: 13
11773235 AAATAAAACG
11773245 AAAAAGAAGATAG-
1 AAAAAGAA-ATAGA
*
11773258 -AAAAGAAAAAGA
1 AAAAAGAAATAGA
11773270 AAAAAGAAATAGA
1 AAAAAGAAATAGA
11773283 AAAAAGAAATA-A
1 AAAAAGAAATAGA
11773295 AAAAA
1 AAAAA
11773300 TTTGAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
11 3 0.08
12 13 0.34
13 22 0.58
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (13 bp):
AAAAAGAAATAGA
Found at i:11782552 original size:46 final size:46
Alignment explanation
Indices: 11782321--11782545 Score: 308
Period size: 46 Copynumber: 4.9 Consensus size: 46
11782311 TTATCTTTGA
* * * * *
11782321 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
**
11782367 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
11782413 CACGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* **
11782459 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
11782505 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
11782546 TGTATCAGAG
Statistics
Matches: 157, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 153 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:11782552 original size:92 final size:92
Alignment explanation
Indices: 11782321--11782553 Score: 358
Period size: 92 Copynumber: 2.5 Consensus size: 92
11782311 TTATCTTTGA
* * * * * * * *
11782321 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTT
11782386 TCAACCATGGTCTTGTTCATTTCATAT
66 TCAACCATGGTCTTGTTCATTTCATAT
* * *
11782413 CACGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTT
11782478 TCAACCATGGTCTTGTTCATTTCATAT
66 TCAACCATGGTCTTGTTCATTTCATAT
*
11782505 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTGTATCAG
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
11782554 AGAGCACACT
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 126 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTGTTCATTTCATAT
Found at i:11784704 original size:11 final size:11
Alignment explanation
Indices: 11784688--11784715 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11784678 ACTAAATAAT
11784688 TAATAATAAAA
1 TAATAATAAAA
11784699 TAATAATAAAA
1 TAATAATAAAA
11784710 TAATAA
1 TAATAA
11784716 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:11784742 original size:20 final size:21
Alignment explanation
Indices: 11784689--11784764 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
11784679 CTAAATAATT
*
11784689 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
11784708 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
11784729 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
11784750 TAATCATAAAATATC
1 -AATAATAAAATATC
11784765 ATCAACATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:11791852 original size:14 final size:13
Alignment explanation
Indices: 11791832--11791863 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
11791822 AATATTTAAC
11791832 TTGTTCTTAATTA
1 TTGTTCTTAATTA
11791845 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
11791859 TTGTT
1 TTGTT
11791864 TTGATATCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:11792629 original size:29 final size:27
Alignment explanation
Indices: 11792568--11792633 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
11792558 TTTACAAGGA
*
11792568 AAGAGAGGTTGGTGGATAAAAGTTATG
1 AAGAGAGGTTGGTGGATAAAAGTGATG
*
11792595 AAGAGAGGTTGGTGGATTAGAAGTGGAT-
1 AAGAGAGGTTGGTGGA-TAAAAGT-GATG
11792623 AGAGAGAGGTT
1 A-AGAGAGGTT
11792634 TTCTAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.47
28 7 0.21
29 11 0.32
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (27 bp):
AAGAGAGGTTGGTGGATAAAAGTGATG
Found at i:11800848 original size:28 final size:30
Alignment explanation
Indices: 11800781--11800848 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
11800771 TTGAATAAAT
* * *
11800781 TGTATTGTTTATTTTGGATTTGGGTTTGGC
1 TGTACTGTATATTTTGGATTTGAGTTTGGC
*
11800811 TG-ACT-AATATTTTGGATTTGAGTTTGG-
1 TGTACTGTATATTTTGGATTTGAGTTTGGC
11800838 TGTA-TGTATAT
1 TGTACTGTATAT
11800849 ATATTGTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.10
28 24 0.77
29 2 0.06
30 2 0.06
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.53
Consensus pattern (30 bp):
TGTACTGTATATTTTGGATTTGAGTTTGGC
Done.