Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 120 of 214
Found at i:36407396 original size:45 final size:45
Alignment explanation
Indices: 36407346--36407432 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 45
36407336 GGCCTACACG
* *
36407346 CCCAAAATTGCCTA-GCC-TGTGTGGCCTACACGGCCTAGCACATGA
1 CCCAAAATGGCCTAGGCCATGTGTCG-C-ACACGGCCTAGCACATGA
*
36407391 CCCAAAATGGCCTAGGCCATGTGTCGCACACGGCCTATCACA
1 CCCAAAATGGCCTAGGCCATGTGTCGCACACGGCCTAGCACA
36407433 CAGCTTGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 27 0.73
46 4 0.11
47 6 0.16
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.18
Consensus pattern (45 bp):
CCCAAAATGGCCTAGGCCATGTGTCGCACACGGCCTAGCACATGA
Found at i:36409475 original size:40 final size:40
Alignment explanation
Indices: 36409428--36409631 Score: 173
Period size: 40 Copynumber: 5.1 Consensus size: 40
36409418 CGGGATTTAA
* * *
36409428 CCGGATATAGCT-ACTCACTCGAATATCTTCGGGACATAGC
1 CCGGATATAG-TAACTCACACAAATACCTTCGGGACATAGC
* * *
36409468 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATACCTTCGGGACATAGC
* * * *
36409508 CCGGA-ACTAGTAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGTAACTCACACAAATACCTTCGGGACATAGC
* * * *
36409548 CCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATACCTTCGGGACATAGC
* * * * *
36409588 CCGGA-ACTAGTCACT-AGCGCAAATGCCTTCAGGACTTAGC
1 CCGGATA-TAGTAACTCA-CACAAATACCTTCGGGACATAGC
36409628 CCGG
1 CCGG
36409632 TTATCATCCA
Statistics
Matches: 145, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.02
40 141 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCACACAAATACCTTCGGGACATAGC
Found at i:36409548 original size:80 final size:80
Alignment explanation
Indices: 36409454--36409631 Score: 293
Period size: 80 Copynumber: 2.2 Consensus size: 80
36409444 ACTCGAATAT
*
36409454 CTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
*
36409519 AACTCGCACAAATGC
66 AACTAGCACAAATGC
* *
36409534 CTTTGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
* *
36409599 CACTAGCGCAAATGC
66 AACTAGCACAAATGC
*
36409614 CTTCAGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
36409632 TTATCATCCA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 90 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
AACTAGCACAAATGC
Found at i:36413853 original size:27 final size:26
Alignment explanation
Indices: 36413823--36413887 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
36413813 ATATTTAAGT
36413823 ATTATAAAATAATTAAATTTTACTTAA
1 ATTATAAAATAATTAAATTTTACTT-A
* * *
36413850 ATTATTAACAT-GTTTAATTTTACTTA
1 ATTA-TAAAATAATTAAATTTTACTTA
*
36413876 ATTTTAAAATAA
1 ATTATAAAATAA
36413888 ATTTTGATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 5 0.17
26 4 0.13
27 16 0.53
28 5 0.17
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATAAAATAATTAAATTTTACTTA
Found at i:36414489 original size:24 final size:25
Alignment explanation
Indices: 36414443--36414490 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
36414433 AAACACATCA
36414443 CTTCACTCCTCTCTCATTTTTCTCT
1 CTTCACTCCTCTCTCATTTTTCTCT
36414468 CTTCACTCC-CT-TCCATTTTTCTC
1 CTTCACTCCTCTCT-CATTTTTCTC
36414491 CATTTTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 12 0.55
25 9 0.41
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (25 bp):
CTTCACTCCTCTCTCATTTTTCTCT
Found at i:36422199 original size:43 final size:43
Alignment explanation
Indices: 36422141--36422292 Score: 241
Period size: 43 Copynumber: 3.5 Consensus size: 43
36422131 CATTATAGCA
* * *
36422141 TGCTAGGCTCAAAGGCCCGAATACACATCACCGGTACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
36422184 TGCTAGGCACGAAGGCCCGAATAAACATCACCGGCACGAAGCT
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
36422227 TGCTAGGCACGAAGGCCCGAATACACATCACCAGCACAAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
36422270 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
36422293 TAATACCAGC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:36431374 original size:41 final size:41
Alignment explanation
Indices: 36431304--36431398 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
36431294 GTCAGCCTCG
* * *
36431304 AAGCTTGATATAACACACTAGCACAAAGCCTGCTAGGCACA
1 AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
* * *
36431345 AAGCCTGATATAATACACCGGCACGAAGCCTACTAGGCACA
1 AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
* *
36431386 GAGCCCGA-ATAAC
1 AAGCCTGATATAAC
36431399 GTTACGTTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 4 0.09
41 41 0.91
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (41 bp):
AAGCCTGATATAACACACCAGCACAAAGCCTACTAGGCACA
Found at i:36446250 original size:12 final size:12
Alignment explanation
Indices: 36446235--36446267 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36446225 TATATTAGAA
36446235 TTTTATTATATT
1 TTTTATTATATT
*
36446247 TTTTAATATATT
1 TTTTATTATATT
36446259 TTTT-TTATA
1 TTTTATTATA
36446268 ACTTTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTATATT
Found at i:36447090 original size:9 final size:9
Alignment explanation
Indices: 36447024--36447091 Score: 50
Period size: 10 Copynumber: 7.3 Consensus size: 9
36447014 CATATAGTTC
36447024 TTATAATTT
1 TTATAATTT
*
36447033 TCTATTAATAT
1 T-TA-TAATTT
*
36447044 TTAT-TTTT
1 TTATAATTT
36447052 TTAT-ATTT
1 TTATAATTT
*
36447060 TGTACAATTT
1 T-TATAATTT
36447070 TCTATAATTT
1 T-TATAATTT
*
36447080 TTATGATTT
1 TTATAATTT
36447089 TTA
1 TTA
36447092 AGAAATTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
8 10 0.21
9 14 0.30
10 17 0.36
11 6 0.13
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:36447537 original size:12 final size:11
Alignment explanation
Indices: 36447519--36447552 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
36447509 AATAGATAAG
36447519 TTTTAGTTTTT
1 TTTTAGTTTTT
36447530 TGTTTAGTTTTT
1 T-TTTAGTTTTT
36447542 TTTTAAGTTTT
1 TTTT-AGTTTT
36447553 GTTTATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (11 bp):
TTTTAGTTTTT
Found at i:36452303 original size:23 final size:25
Alignment explanation
Indices: 36452277--36452322 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36452267 TTGTATATCA
36452277 TGTATGTTT-T-TTTAACATGTTTG
1 TGTATGTTTGTCTTTAACATGTTTG
*
36452300 TGTATGTTTGTCTTTATCATGTT
1 TGTATGTTTGTCTTTAACATGTT
36452323 ATTCTTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.61
Consensus pattern (25 bp):
TGTATGTTTGTCTTTAACATGTTTG
Found at i:36457888 original size:23 final size:22
Alignment explanation
Indices: 36457836--36457888 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
36457826 ATGCATATTT
* *
36457836 GTATGATTTATTAATGCATGAT
1 GTATCATTTATTAATGCATGAA
* *
36457858 GATTTCATTTATTATTGGCATGAA
1 G-TATCATTTATTAAT-GCATGAA
36457882 GTATCAT
1 GTATCAT
36457889 AGAAATGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (22 bp):
GTATCATTTATTAATGCATGAA
Found at i:36466663 original size:44 final size:44
Alignment explanation
Indices: 36466599--36466758 Score: 136
Period size: 44 Copynumber: 3.7 Consensus size: 44
36466589 AGTTGGTATT
*
36466599 GATTTGAA-TTATAGTGTAAGACCGTGTCTGGGACACAGGCATC
1 GATTTGAATTTATAGTGTAAGACCATGTCTGGGACACAGGCATC
*
36466642 GATTTGAAATTTAT-GTGTAAGACCATGTCTAGGACATC-GGCATC
1 GATTTG-AATTTATAGTGTAAGACCATGTCTGGGACA-CAGGCATC
* ** * * * *
36466686 -ATATCTATTT-TCGTATAAGACCCTGTCTGGGACAGAGGCATC
1 GATTTGAATTTATAGTGTAAGACCATGTCTGGGACACAGGCATC
* * *
36466728 GATACTGAA-TTACA-TGTAAGACCACGTCTGG
1 GAT-TTGAATTTATAGTGTAAGACCATGTCTGG
36466759 CACGTCGGCA
Statistics
Matches: 92, Mismatches: 17, Indels: 16
0.74 0.14 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.32
43 27 0.29
44 30 0.33
45 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
GATTTGAATTTATAGTGTAAGACCATGTCTGGGACACAGGCATC
Found at i:36466726 original size:42 final size:44
Alignment explanation
Indices: 36466615--36466736 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 44
36466605 AATTATAGTG
* * *
36466615 TAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTATGTG
1 TAAGACCATGTCTGGGACACAGGCATCGATATGAAATTTATGTA
* **
36466659 TAAGACCATGTCTAGGACATC-GGCATC-ATAT-CTATTT-TCGTA
1 TAAGACCATGTCTGGGACA-CAGGCATCGATATGAAATTTAT-GTA
* *
36466701 TAAGACCCTGTCTGGGACAGAGGCATCGATACTGAA
1 TAAGACCATGTCTGGGACACAGGCATCGATA-TGAA
36466737 TTACATGTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
41 1 0.02
42 29 0.48
43 6 0.10
44 24 0.39
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACACAGGCATCGATATGAAATTTATGTA
Found at i:36469100 original size:60 final size:60
Alignment explanation
Indices: 36469007--36469146 Score: 280
Period size: 60 Copynumber: 2.3 Consensus size: 60
36468997 TAGGGTTTGA
36469007 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTGAGAGTGTTTGTCGTTATAAGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTGAGAGTGTTTGTCGTTATAAGGG
36469067 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTGAGAGTGTTTGTCGTTATAAGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTGAGAGTGTTTGTCGTTATAAGGG
36469127 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
36469147 CCTGACATCA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 80 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (60 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTGAGAGTGTTTGTCGTTATAAGGG
Found at i:36486123 original size:20 final size:20
Alignment explanation
Indices: 36486098--36486144 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
36486088 GTTTTGATAT
36486098 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
36486118 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
36486138 AAATGAT
1 ACATGAT
36486145 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:36486271 original size:25 final size:25
Alignment explanation
Indices: 36486193--36486273 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
36486183 GGAAGTGCAA
* * *
36486193 AAAGGGC-TATGCCCTAGTTTACCG
1 AAAGGGCTTTTGCCCCAGTTTATCG
**
36486217 AAAAGGGCTTTTGCCCCAGTTTATTA
1 -AAAGGGCTTTTGCCCCAGTTTATCG
36486243 AAAGGGCTTTTGCCCCAGTTTATCG
1 AAAGGGCTTTTGCCCCAGTTTATCG
36486268 AAAGGG
1 AAAGGG
36486274 ATTTGTCCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 36 0.75
26 12 0.25
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTTGCCCCAGTTTATCG
Found at i:36486543 original size:31 final size:31
Alignment explanation
Indices: 36486508--36486602 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
36486498 CATTTACAGT
**
36486508 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
* *
36486539 AAAGGCTTCAGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
* *
36486570 AAAGGCTTCGACCCGGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
36486601 AA
1 AA
36486603 TATGAAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGTTATGAAATATGA
Found at i:36495594 original size:39 final size:39
Alignment explanation
Indices: 36495535--36495652 Score: 218
Period size: 39 Copynumber: 3.0 Consensus size: 39
36495525 TATGTTACCG
*
36495535 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
36495574 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
*
36495613 GCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
36495652 G
1 G
36495653 TGTCTTGCTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
Found at i:36499066 original size:47 final size:47
Alignment explanation
Indices: 36499003--36499319 Score: 580
Period size: 47 Copynumber: 6.7 Consensus size: 47
36498993 ATGATAGTAT
36499003 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36499050 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36499097 AGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36499144 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36499191 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36499238 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
36499287 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
36499320 CCCGAAGGGC
Statistics
Matches: 262, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 217 0.83
49 41 0.16
50 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:36499493 original size:37 final size:37
Alignment explanation
Indices: 36499437--36499515 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
36499427 CTGAGCTCTA
* * * *
36499437 AAGACCCAATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
* *
36499474 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
36499511 AAGAC
1 AAGAC
36499516 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36501425 original size:43 final size:43
Alignment explanation
Indices: 36501377--36501479 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
36501367 TTGGTTTTCA
36501377 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
36501420 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
36501463 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
36501480 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:36501496 original size:29 final size:29
Alignment explanation
Indices: 36501461--36501534 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
36501451 GTTGTGAGAT
* *
36501461 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
36501490 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
36501519 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36501535 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:36501968 original size:40 final size:40
Alignment explanation
Indices: 36501845--36502200 Score: 369
Period size: 40 Copynumber: 8.9 Consensus size: 40
36501835 TCGAATGATG
** *
36501845 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* * ** * * *
36501885 TCCGGACTAAGAT-CTGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
36501925 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
36501965 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
36502005 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
36502045 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
36502085 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * * *
36502125 TCCGTGCTAAACCCCAAAGAGCATTCGTGATGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
36502165 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
36502201 CGTGTATTCG
Statistics
Matches: 268, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.00
40 249 0.93
41 18 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:36502058 original size:120 final size:120
Alignment explanation
Indices: 36501845--36502195 Score: 413
Period size: 120 Copynumber: 2.9 Consensus size: 120
36501835 TCGAATGATG
* * * *
36501845 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAGATCCGAAGAGCA
* * * *
36501907 TTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
64 TTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
* * *
36501965 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAGAGCATT
* * * *
36502030 CATGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
* * * *
36502085 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCCAAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGA-TCCGAAGAGCAT
* * * * * *
36502149 TCGTGATGGTGTTATATCCGGGCTAGGTCCCGAAGAGTAATCATGCT
65 TCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
36502196 GGTGACGTGT
Statistics
Matches: 196, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
120 171 0.87
121 19 0.10
122 6 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAGAGCATT
CGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
Found at i:36505772 original size:47 final size:47
Alignment explanation
Indices: 36505709--36506121 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
36505699 ATGATAGTAT
36505709 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36505756 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36505803 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36505850 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36505897 GGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36505944 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
36505991 GGCCTAATGGCCGATGTGATGAATTTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
36506040 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
36506089 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
36506122 CTCGAAGGGC
Statistics
Matches: 354, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 261 0.74
49 89 0.25
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:36506295 original size:37 final size:37
Alignment explanation
Indices: 36506239--36506317 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36506229 CTGAGCTCTA
* * *
36506239 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
36506276 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
36506313 AAGAC
1 AAGAC
36506318 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36512375 original size:37 final size:37
Alignment explanation
Indices: 36512325--36512403 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36512315 TTATTACGAA
* * *
36512325 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
36512362 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
36512399 GTCTT
1 GTCTT
36512404 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:36512641 original size:38 final size:42
Alignment explanation
Indices: 36512589--36512822 Score: 243
Period size: 49 Copynumber: 5.0 Consensus size: 42
36512579 ATATACACTT
36512589 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
36512633 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
36512680 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACA--TATATA-A
36512729 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACA--TATATA-A
36512778 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
36512823 CACATATATA
Statistics
Matches: 185, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
47 89 0.48
49 96 0.52
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (42 bp):
TCACATTATCACATCGGCCATTAGGCCTTATCACATATATAA
Found at i:36512744 original size:49 final size:48
Alignment explanation
Indices: 36512522--36513044 Score: 754
Period size: 47 Copynumber: 10.8 Consensus size: 48
36512512 CCCTTCGGGA
* * * * *
36512522 CTTATCACATT-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36512569 CCTGTCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
36512616 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
36512663 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
36512710 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
36512759 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36512808 CTTATCACATATATACACATATATACACTTTCACATTCATCACATCGGCTATTAAGC
1 CTTATCAC----AT-----TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36512865 CTTATCACATATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
36512914 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
36512961 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36513010 CTTATCTCA-TATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATTATATACACT-TTCACATTCATCACAT
36513045 AGAATCCTAA
Statistics
Matches: 443, Mismatches: 19, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
46 2 0.00
47 207 0.47
49 186 0.42
53 4 0.01
57 44 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36512752 original size:96 final size:94
Alignment explanation
Indices: 36512522--36513044 Score: 742
Period size: 96 Copynumber: 5.4 Consensus size: 94
36512512 CCCTTCGGGA
* * * * * * * *
36512522 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
36512587 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
36512616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
36512681 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
36512710 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATAT
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TATAT
36512775 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
62 ACACTTTCACATTCATCACATCGGCCATTAGG------C
* *
36512814 ACATATATACACATATATACACTTTCACATTCATCACATCGGCTATTAAGCCTTATCACATATAT
1 -C-T-TAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
*
36512879 ATACAGTTTCACATTCATCACATCGGCCATTAGGC
60 ATACACTTTCACATTCATCACATCGGCCATTAGGC
36512914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
36512979 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36513010 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
36513045 AGAATCCTAA
Statistics
Matches: 395, Mismatches: 17, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
94 95 0.24
95 1 0.00
96 165 0.42
97 3 0.01
98 38 0.10
99 1 0.00
100 1 0.00
104 1 0.00
105 1 0.00
106 81 0.21
107 3 0.01
108 5 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:36517531 original size:40 final size:40
Alignment explanation
Indices: 36517340--36517524 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
36517330 TTGAATGATG
* * * * *
36517340 TCCGGGCTAAGTCCCGAAGGC-TTTGT-CTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
36517379 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
36517419 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36517459 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
36517500 -CCGGGCTATGTCCCGAGGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
36517525 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 19 0.15
40 107 0.83
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36517531 original size:80 final size:79
Alignment explanation
Indices: 36517392--36517556 Score: 208
Period size: 80 Copynumber: 2.1 Consensus size: 79
36517382 GGACTAAGAT
* * **
36517392 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGACATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
36517456 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
36517472 CCGAAGACATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAGGGCATTTGAACGAGTAGCT
1 CCGAAGACATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
36517536 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
36517551 CCGAAG
1 CCGAAG
36517557 GTACGTGATT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 15 0.20
80 57 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGACATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:36520430 original size:39 final size:39
Alignment explanation
Indices: 36520381--36520498 Score: 218
Period size: 39 Copynumber: 3.0 Consensus size: 39
36520371 TATGTTACCG
*
36520381 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
36520420 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
*
36520459 GCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
36520498 G
1 G
36520499 TGTCTTGCTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
Found at i:36522822 original size:26 final size:26
Alignment explanation
Indices: 36522797--36522846 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
36522787 ATTAAAAATA
* *
36522797 ATAAATATT-TTAATTATATTTTAAT
1 ATAAATATTATTAAATATAATTTAAT
*
36522822 ATAATTATTATTAAATATAATTTAA
1 ATAAATATTATTAAATATAATTTAA
36522847 CATCATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAATATTATTAAATATAATTTAAT
Found at i:36524814 original size:79 final size:80
Alignment explanation
Indices: 36524718--36524873 Score: 260
Period size: 79 Copynumber: 2.0 Consensus size: 80
36524708 TTAGGCTCAG
* * * *
36524718 GGACTACATTGAAGAAAAGTAAAATTTTAGGGGTAATTTTGTAAAAATATCAAAA-ATGACTAAT
1 GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
36524782 TTGCATAAAATATAT
66 TTGCATAAAATATAT
36524797 GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
1 GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
*
36524862 TTGCGTAAAATA
66 TTGCATAAAATA
36524874 CATTATTTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
79 53 0.75
80 18 0.25
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (80 bp):
GGACTAAATTGAAGAAAAGTAAAATTTTAGGAGTAATTTTGTAAAAATATCAAAAGATAACTAAA
TTGCATAAAATATAT
Found at i:36526431 original size:15 final size:15
Alignment explanation
Indices: 36526411--36526493 Score: 84
Period size: 15 Copynumber: 5.5 Consensus size: 15
36526401 GACACACGGC
36526411 TGTGTCACCTAACCG
1 TGTGTCACCTAACCG
*
36526426 TGTGTCA-C-ACACGG
1 TGTGTCACCTA-ACCG
36526440 CTGTGTCACCTAACCG
1 -TGTGTCACCTAACCG
*
36526456 TGTGTCA-C-ACACGG
1 TGTGTCACCTA-ACCG
36526470 CTGTGTCACCTAACCG
1 -TGTGTCACCTAACCG
36526486 TGTGTCAC
1 TGTGTCAC
36526494 ACACGACTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
13 2 0.04
14 8 0.14
15 36 0.64
16 8 0.14
17 2 0.04
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (15 bp):
TGTGTCACCTAACCG
Found at i:36526437 original size:30 final size:30
Alignment explanation
Indices: 36526402--36526498 Score: 194
Period size: 30 Copynumber: 3.2 Consensus size: 30
36526392 GTGCCAAGGG
36526402 ACACACGGCTGTGTCACCTAACCGTGTGTC
1 ACACACGGCTGTGTCACCTAACCGTGTGTC
36526432 ACACACGGCTGTGTCACCTAACCGTGTGTC
1 ACACACGGCTGTGTCACCTAACCGTGTGTC
36526462 ACACACGGCTGTGTCACCTAACCGTGTGTC
1 ACACACGGCTGTGTCACCTAACCGTGTGTC
36526492 ACACACG
1 ACACACG
36526499 ACTGAGACAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.22
Consensus pattern (30 bp):
ACACACGGCTGTGTCACCTAACCGTGTGTC
Found at i:36541439 original size:17 final size:17
Alignment explanation
Indices: 36541419--36541452 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36541409 TGACTTGAGA
36541419 TCTTGCATGTGTTGAAG
1 TCTTGCATGTGTTGAAG
36541436 TCTTGCATGTGTTGAAG
1 TCTTGCATGTGTTGAAG
36541453 AAAGGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (17 bp):
TCTTGCATGTGTTGAAG
Found at i:36557637 original size:27 final size:27
Alignment explanation
Indices: 36557607--36557758 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
36557597 ATATTAAGTC
* *
36557607 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
36557634 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
36557662 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
36557689 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
36557716 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
36557744 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36557759 GTACAATTTA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 70 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:36557675 original size:55 final size:54
Alignment explanation
Indices: 36557607--36557758 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
36557597 ATATTAAGTC
* *
36557607 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
36557662 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
36557716 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
36557759 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:36557744 original size:82 final size:82
Alignment explanation
Indices: 36557607--36557758 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
36557597 ATATTAAGTC
* *
36557607 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
36557672 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
36557689 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
36557754 GTGCT
66 GTGCT
36557759 GTACAATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:36557777 original size:55 final size:54
Alignment explanation
Indices: 36557609--36557786 Score: 205
Period size: 55 Copynumber: 3.2 Consensus size: 54
36557599 ATTAAGTCCG
* * *
36557609 CACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC-CA
* * * ** *
36557664 CACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATTCG
1 CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACCA
* *
36557718 CACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCTGTACA-ATTTAAACCCA
1 CACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGC--TACATAATCAAA-CCA
36557775 CACACTTAGTGC
1 CACACTTAGTGC
36557787 CAATCTCATG
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
54 22 0.21
55 63 0.60
56 4 0.04
57 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (54 bp):
CACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACCA
Found at i:36557777 original size:82 final size:84
Alignment explanation
Indices: 36557609--36557786 Score: 220
Period size: 82 Copynumber: 2.1 Consensus size: 84
36557599 ATTAAGTCCG
* * *
36557609 CACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
1 CACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
* *
36557674 GCTACATAGTCAAT--TCG
66 GCTACATAGTCAATACCCA
* * *
36557691 CACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGT
1 CACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
* *
36557756 GCTGTACA-ATTTAA-ACCCA
66 GC--TACATAGTCAATACCCA
36557775 CACACTTAGTGC
1 CACACTTAGTGC
36557787 CAATCTCATG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
82 61 0.74
83 4 0.05
84 17 0.21
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (84 bp):
CACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
GCTACATAGTCAATACCCA
Found at i:36560995 original size:28 final size:28
Alignment explanation
Indices: 36560962--36561033 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
36560952 TGTGAATCTT
* *
36560962 GCACTAAGTGTGCAAATGTGATTATTGA
1 GCACTAAGTGTGCAAATGTAAATATTGA
* * *
36560990 GCACTAAGTGTGCGAGTTTAAATATTGA
1 GCACTAAGTGTGCAAATGTAAATATTGA
36561018 GCACTAAGTGTGCAAA
1 GCACTAAGTGTGCAAA
36561034 ATCGATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCAAATGTAAATATTGA
Found at i:36562840 original size:27 final size:27
Alignment explanation
Indices: 36562810--36562940 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
36562800 AATTGTAAAA
*
36562810 TACCTTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
36562837 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
36562864 TACCATCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
36562891 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
36562918 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
36562941 AAAATACCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:36562948 original size:27 final size:27
Alignment explanation
Indices: 36562918--36563191 Score: 175
Period size: 27 Copynumber: 10.2 Consensus size: 27
36562908 ATTACTGTTT
* *
36562918 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
36562945 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
36562972 TACCCTTGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
36562999 TACCCTAG-TCTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
36563025 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * *
36563052 TACCTTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
36563079 TACCCATAG-TTTGTAAAATTACCGAAA
1 TACCC-TCGATTTATAAAATTACCAAAA
* * * * * *
36563106 TGCCACT-GGTTTGTGAAATTATCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
36563133 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
36563160 TACCC-CTAATTTACAAAGTTA-CAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
36563186 TACCCT
1 TACCCT
36563192 TGACTTTCTA
Statistics
Matches: 201, Mismatches: 35, Indels: 22
0.78 0.14 0.09
Matches are distributed among these distances:
26 35 0.17
27 163 0.81
28 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:36562976 original size:54 final size:54
Alignment explanation
Indices: 36562918--36563275 Score: 233
Period size: 54 Copynumber: 6.6 Consensus size: 54
36562908 ATTACTGTTT
** * *
36562918 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* ** * ** *
36562972 TACCCTTGATCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * **
36563025 TACCC-CTGGTTTGTAAAATTACCGAAATA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCTT-AGTTTACAAAATTACCAAAA
* * * * *** * *
36563079 TACCCATAG-TTTGTAAAATTACCGAAATGCCAC-TGGTTTGTGAAATTATCGAAA
1 TACCC-TCGATTTGTAAAATTACCAAAATACC-CTTAGTTTACAAAATTACCAAAA
* * * *
36563133 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * *** * * **
36563186 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * *
36563242 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTT
36563276 GTAGGATGAA
Statistics
Matches: 233, Mismatches: 59, Indels: 24
0.74 0.19 0.08
Matches are distributed among these distances:
52 2 0.01
53 53 0.23
54 133 0.57
55 33 0.14
56 12 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
Found at i:36563132 original size:81 final size:80
Alignment explanation
Indices: 36562932--36563164 Score: 297
Period size: 81 Copynumber: 2.9 Consensus size: 80
36562922 CTCGATTTAC
* ** * ** **
36562932 AAAATTACTAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCTTGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
36562996 AAATACCCTAGTCTGT
65 AAATACCCTAGTCTGT
* * *
36563012 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
36563077 AATACCCATAGTTTGT
66 AATACCC-TAGTCTGT
* * * *
36563093 AAAATTACCGAAATGCCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
36563158 AATACCC
66 AATACCC
36563165 CTAATTTACA
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 62 0.46
81 73 0.54
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:36563235 original size:27 final size:27
Alignment explanation
Indices: 36563202--36563253 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
36563192 TGACTTTCTA
36563202 AAAATTA-TGGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
36563229 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
36563254 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:36563398 original size:27 final size:27
Alignment explanation
Indices: 36563307--36563398 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
36563297 ACCCCAATTA
*
36563307 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
36563334 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
36563361 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
36563388 GGTAAAATGAC
1 GGTAAAATGAC
36563399 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:36564261 original size:26 final size:26
Alignment explanation
Indices: 36564199--36564346 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
36564189 GACGACGTGC
36564199 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* * *
36564225 -AAAGGGCTTATGTCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
36564250 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
36564276 AAAAGGGGTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
**
36564302 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
36564327 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
36564347 ATTAAAGAGG
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
25 53 0.49
26 55 0.51
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:36564275 original size:51 final size:51
Alignment explanation
Indices: 36564199--36564346 Score: 219
Period size: 51 Copynumber: 2.9 Consensus size: 51
36564189 GACGACGTGC
*
36564199 AAAAGGGCTTATGCCCCAGTTTACTGAAAGGGCTTATGTCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTGAAAGGGCTTATGCCCTAGTTTATTG
* *
36564250 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGGTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG-AAAGGGCTTATGCCCTAGTTTATTG
**
36564302 AAAAGGGCTT-TGCCCCAGTTTACCAAAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTTTA-CTGAAAGGGCTTATGCCCTAGTT
36564347 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
50 9 0.10
51 46 0.52
52 33 0.38
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACTGAAAGGGCTTATGCCCTAGTTTATTG
Found at i:36564550 original size:42 final size:42
Alignment explanation
Indices: 36564491--36564582 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
36564481 TAGTCTCCCC
* ** * *
36564491 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
36564533 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
36564575 AAATGGGC
1 AAATGGGC
36564583 CTAACGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
Found at i:36564641 original size:31 final size:31
Alignment explanation
Indices: 36564606--36564682 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
36564596 CGTTTACAGT
36564606 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* * *
36564637 AAAGGCTTCAGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
36564668 AAAGGCTTCGCCCCA
1 AAAGGCTTCGGCCCA
36564683 GTATATGTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:36569471 original size:5 final size:5
Alignment explanation
Indices: 36569461--36569485 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36569451 TTTTCTTGCA
36569461 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
36569486 TTATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:36571375 original size:263 final size:262
Alignment explanation
Indices: 36570909--36571436 Score: 995
Period size: 263 Copynumber: 2.0 Consensus size: 262
36570899 TAATACTGAA
36570909 CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGAA
1 CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGAA
36570974 GCCAAAATTATAGCAAGACAACGCGATGAACAAAGTCGAGAAGAGGTAAATGACGGTGATCCTAA
66 GCCAAAATTATAGCAAGACAACGCGATGAACAAAGTCGAGAAGAGGTAAATGACGGTGATCCTAA
*
36571039 TCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAATAG
131 TCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAACAG
*
36571104 AAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAGGAAATTACATATTAACTTACCCTTTATTGAA
196 AAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTGAA
36571169 GT
261 GT
*
36571171 CCTAATCAAAGGGAACACCTCAATGCAATTAGTACTCAAAATAAGGAAGGATTCATTGCACC-AG
1 CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGA-
*
36571235 AGCCAGAATTATAGCAAGACAACGCGATGAACAAAGGTCGAGAAGAGGTAAATGACGGTGATCCT
65 AGCCAAAATTATAGCAAGACAACGCGATGAACAAA-GTCGAGAAGAGGTAAATGACGGTGATCCT
36571300 AATCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAAC
129 AATCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAAC
36571365 AGAAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTG
194 AGAAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTG
36571430 AAGT
259 AAGT
36571434 CCT
1 CCT
36571437 GTCGCAGATG
Statistics
Matches: 260, Mismatches: 4, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
261 1 0.00
262 95 0.37
263 164 0.63
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (262 bp):
CCTAATCAAAGGGAACACCTCAATGCAAGTAGTACTCAAAATAAGGAAGGATTCATTGCACCGAA
GCCAAAATTATAGCAAGACAACGCGATGAACAAAGTCGAGAAGAGGTAAATGACGGTGATCCTAA
TCAGGTAAGTACGTATTATGAACCTCGTGTGCCATATCCTAAAGCGATGAAGAAAGATAGAACAG
AAGAGCAATTCGGTAAGTTTGTCAAACTCTTAAAGAAATTACATATTAACTTACCCTTTATTGAA
GT
Found at i:36574675 original size:11 final size:11
Alignment explanation
Indices: 36574661--36574709 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
36574651 CTTTTTATTC
36574661 TTATTTTTTAT
1 TTATTTTTTAT
*
36574672 TTATTTTAT-T
1 TTATTTTTTAT
36574682 TTA-TTTTTAT
1 TTATTTTTTAT
*
36574692 TTTTCTTTTTAT
1 TTAT-TTTTTAT
36574704 TT-TTTT
1 TTATTTT
36574710 ATTTCAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
9 4 0.12
10 10 0.31
11 9 0.28
12 9 0.28
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (11 bp):
TTATTTTTTAT
Found at i:36574691 original size:6 final size:6
Alignment explanation
Indices: 36574652--36574707 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
36574642 TCCTCCTATC
* * *
36574652 TTTTTA TTCTTA TTTTT- TATTTA -TTTTA -TTTTA TTTTTA TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
36574697 TTTTTA TTTTT
1 TTTTTA TTTTT
36574708 TTATTTCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
5 13 0.31
6 29 0.69
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:36574691 original size:27 final size:26
Alignment explanation
Indices: 36574652--36574713 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
36574642 TCCTCCTATC
*
36574652 TTTTTATTCTTATTTTT-TATTTATTT
1 TTTTTATTTTTATTTTTCTATTTA-TT
*
36574678 TATTTTATTTTTATTTTTCTTTTTATT
1 T-TTTTATTTTTATTTTTCTATTTATT
36574705 TTTTTATTT
1 TTTTTATTT
36574714 CAATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.28
27 18 0.56
28 5 0.16
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTATTTTTATTTTTCTATTTATT
Found at i:36574708 original size:20 final size:20
Alignment explanation
Indices: 36574653--36574723 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
36574643 CCTCCTATCT
36574653 TTTTATTCTTATTTTTTATTTA
1 TTTTATT-TT-TTTTTTATTTA
*
36574675 TTTTATTTTATTTTTATTT-
1 TTTTATTTTTTTTTTATTTA
36574694 TTCTT-TTTATTTTTTTATTTCAA
1 TT-TTATTT-TTTTTTTATTT--A
36574717 TTTTATT
1 TTTTATT
36574724 ACTTTAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.12
20 21 0.51
21 2 0.05
22 9 0.22
23 4 0.10
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTTTTTTTATTTA
Found at i:36574719 original size:26 final size:27
Alignment explanation
Indices: 36574663--36574729 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 27
36574653 TTTTATTCTT
**
36574663 ATTTTTTATTTATTTTATTTTATTTTT
1 ATTTTTTATTTATTTTATTTTATTTCA
*
36574690 ATTTTTCTTTTTA-TTT-TTTTATTTCA
1 ATTTTT-TATTTATTTTATTTTATTTCA
36574716 ATTTTATTACTTTA
1 ATTTT-TTA-TTTA
36574730 ATTTGAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 14 0.42
27 14 0.42
28 5 0.15
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (27 bp):
ATTTTTTATTTATTTTATTTTATTTCA
Found at i:36579068 original size:13 final size:13
Alignment explanation
Indices: 36579052--36579084 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36579042 TTTAATTAAA
*
36579052 TTAGTTAATTAGT
1 TTAGATAATTAGT
36579065 TTAGATAATTAGT
1 TTAGATAATTAGT
36579078 TTA-ATAA
1 TTAGATAA
36579085 ACAAACCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:36582596 original size:53 final size:53
Alignment explanation
Indices: 36582515--36582665 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
36582505 CTTACACGGT
* * * *
36582515 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATATGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTACACGGAATCACATTA
*
36582570 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATTA
** * *
36582623 TCACATTGCACCGATGCCATAGCCTAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTACACGG
36582666 GCGCACTTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 78 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATTA
Found at i:36586252 original size:45 final size:45
Alignment explanation
Indices: 36586187--36586274 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
36586177 CTATGTGATT
*
36586187 TGAACTCATTGAGTTGTGGTCTGAGTTCATGATATACGTGACATC
1 TGAACTCATTGAGTTGTGGTCTGAATTCATGATATACGTGACATC
* * *
36586232 TGAACTCATTGAGTTTTGGTCTGAATTCGTGATATATGTGACA
1 TGAACTCATTGAGTTGTGGTCTGAATTCATGATATACGTGACA
36586275 CATGGTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (45 bp):
TGAACTCATTGAGTTGTGGTCTGAATTCATGATATACGTGACATC
Found at i:36587849 original size:9 final size:9
Alignment explanation
Indices: 36587837--36587865 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
36587827 TGCAACTAAG
36587837 CTTTCAATT
1 CTTTCAATT
36587846 CTTTCAATT
1 CTTTCAATT
36587855 CTTTCAATT
1 CTTTCAATT
36587864 CT
1 CT
36587866 GTTGGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (9 bp):
CTTTCAATT
Found at i:36588048 original size:9 final size:9
Alignment explanation
Indices: 36588034--36588062 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
36588024 TGGCTCCAAC
36588034 AGAATTGAA
1 AGAATTGAA
36588043 AGAATTGAA
1 AGAATTGAA
36588052 AGAATTGAA
1 AGAATTGAA
36588061 AG
1 AG
36588063 CTTAGTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (9 bp):
AGAATTGAA
Found at i:36591946 original size:17 final size:18
Alignment explanation
Indices: 36591915--36591948 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36591905 CCATAATGCG
36591915 GCCCATGTAGGCCCACAC
1 GCCCATGTAGGCCCACAC
36591933 GCCCATGT-GGCCCACA
1 GCCCATGTAGGCCCACA
36591949 TAGCCCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTAGGCCCACAC
Found at i:36591954 original size:18 final size:18
Alignment explanation
Indices: 36591915--36591955 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
36591905 CCATAATGCG
*
36591915 GCCCATGTAGGCCCACAC
1 GCCCATGTAGGCCCACAA
36591933 GCCCATGT-GGCCCACATA
1 GCCCATGTAGGCCCACA-A
36591951 GCCCA
1 GCCCA
36591956 GAAATGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.12
Consensus pattern (18 bp):
GCCCATGTAGGCCCACAA
Found at i:36599926 original size:40 final size:40
Alignment explanation
Indices: 36599882--36600050 Score: 252
Period size: 40 Copynumber: 4.2 Consensus size: 40
36599872 GCTACTCGTT
* * *
36599882 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
36599922 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
36599962 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
36600002 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
36600041 CAAATGCCTT
1 CAAATGCCTT
36600051 TGGATCTTAG
Statistics
Matches: 120, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 31 0.26
40 87 0.73
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36600066 original size:79 final size:80
Alignment explanation
Indices: 36599882--36600106 Score: 267
Period size: 80 Copynumber: 2.8 Consensus size: 80
36599872 GCTACTCGTT
* * * * * *
36599882 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
36599947 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
*
36599962 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
36600026 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* ** * * * *
36600041 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTGGCA-CAAGGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCC
36600104 GGA
64 GGA
36600107 CATCATTCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
78 3 0.02
79 59 0.47
80 63 0.50
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:36600066 original size:119 final size:120
Alignment explanation
Indices: 36599884--36600106 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
36599874 TACTCGTTCA
*
36599884 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* *
36599949 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTCGCAC-AAGGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * * **
36600004 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTT-TGGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
36600066 ATATGGTCACTTGGCACAAGGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTCGCACAAGGCCTTCGGGACTTAACCCGGA
36600107 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 66 0.76
120 17 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTCGCACAAGGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:36608253 original size:47 final size:47
Alignment explanation
Indices: 36608191--36608456 Score: 292
Period size: 47 Copynumber: 5.7 Consensus size: 47
36608181 ATCCATAAGT
36608191 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * *
36608238 GAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-C
* * *
36608284 GAACTCGGACTCAACTCAATGAGTTTGGATGCCTAGTTACATTTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * * *
36608331 GAACTCGGACTCAACTCAATGAGTTCGGACG-TTCGCATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-C
*
36608377 GAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
36608424 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
36608457 CAAATATCCA
Statistics
Matches: 177, Mismatches: 32, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.02
46 67 0.38
47 102 0.58
48 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:36608257 original size:93 final size:93
Alignment explanation
Indices: 36608144--36608452 Score: 537
Period size: 93 Copynumber: 3.3 Consensus size: 93
36608134 CACCCAAAAG
* * *
36608144 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
36608209 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
36608237 CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
36608302 ATGAGTTTGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
36608330 AGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
36608395 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
36608423 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
36608453 TGCCCAAATA
Statistics
Matches: 202, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 202 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:36608405 original size:46 final size:46
Alignment explanation
Indices: 36608145--36608407 Score: 257
Period size: 46 Copynumber: 5.7 Consensus size: 46
36608135 ACCCAAAAGC
* * **
36608145 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
* * * * * *
36608191 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCA--TAAGT
36608238 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
* * * * * *
36608284 GAACTCGGACTCAACTCAATGAGTTTGGATGCCTAG-TTACATTTCAA--
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCA--T-AAGT
* *
36608331 GAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
*
36608377 GAACTCGGACTCAACTTAACGAGTTCGGATG
1 GAACTCGGACTCAACTCAACGAGTTCGGATG
36608408 CCTAGTTACA
Statistics
Matches: 174, Mismatches: 31, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 94 0.54
47 70 0.40
48 3 0.02
49 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
Found at i:36610850 original size:17 final size:17
Alignment explanation
Indices: 36610828--36610863 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
36610818 ACAATATAGC
* *
36610828 AAAAAAGAAAAATAATA
1 AAAAAAAAAAAAGAATA
36610845 AAAAAAAAAAAAGAATA
1 AAAAAAAAAAAAGAATA
36610862 AA
1 AA
36610864 GATAACAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAAAAAAAAAAGAATA
Found at i:36611070 original size:23 final size:23
Alignment explanation
Indices: 36611043--36611087 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36611033 AAGGGGCTAC
36611043 AGCAT-AAA-TAACAAAATTAAAAG
1 AGCATGAAATTAA-AAAA-TAAAAG
36611066 AGCATGAAATTAAAAAATAAAA
1 AGCATGAAATTAAAAAATAAAA
36611088 TAGTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.50
24 7 0.35
25 3 0.15
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.18
Consensus pattern (23 bp):
AGCATGAAATTAAAAAATAAAAG
Found at i:36617285 original size:40 final size:40
Alignment explanation
Indices: 36617227--36617404 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
36617217 TGGATGATAA
*
36617227 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGCTGCGAGTTACTATAT
* *
36617267 CCAGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGCTGCGAGTTACTATAT
* *
36617307 CTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGCTGCGAGTTACTATAT
* *
36617347 CCGGGCTATGTCCCGAAGGCATT-CGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGC-TGCGAGTTA-CTATAT
* *
36617387 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36617405 TACTTGTCTT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 15 0.12
40 109 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGCTGCGAGTTACTATAT
Found at i:36625263 original size:40 final size:40
Alignment explanation
Indices: 36625207--36625370 Score: 267
Period size: 40 Copynumber: 4.1 Consensus size: 40
36625197 TGGATGATAA
*
36625207 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
36625247 TCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
36625287 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* * *
36625327 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
36625367 CCGG
1 CCGG
36625371 TTAAATCCTG
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
39 2 0.02
40 115 0.98
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:36627115 original size:59 final size:59
Alignment explanation
Indices: 36627044--36627221 Score: 356
Period size: 59 Copynumber: 3.0 Consensus size: 59
36627034 ATTGAATATT
36627044 ATTGAAATGATGTCTAAGTATGTGCACATATGAGACCATGTATATTCGGTCACATATCA
1 ATTGAAATGATGTCTAAGTATGTGCACATATGAGACCATGTATATTCGGTCACATATCA
36627103 ATTGAAATGATGTCTAAGTATGTGCACATATGAGACCATGTATATTCGGTCACATATCA
1 ATTGAAATGATGTCTAAGTATGTGCACATATGAGACCATGTATATTCGGTCACATATCA
36627162 ATTGAAATGATGTCTAAGTATGTGCACATATGAGACCATGTATATTCGGTCACATATCA
1 ATTGAAATGATGTCTAAGTATGTGCACATATGAGACCATGTATATTCGGTCACATATCA
36627221 A
1 A
36627222 GCTTAGGTAT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 119 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (59 bp):
ATTGAAATGATGTCTAAGTATGTGCACATATGAGACCATGTATATTCGGTCACATATCA
Found at i:36629198 original size:46 final size:46
Alignment explanation
Indices: 36629134--36629227 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
36629124 AGGAAAGGCT
* *
36629134 AAATTTGAAGTTTAAGTTACCTTTGAGGTTGACAGGTGAGTCTCTA
1 AAATTTGAAGTTTAAGTTACCTTTGAGGCTAACAGGTGAGTCTCTA
*
36629180 AAATTTGAAGTTTAAGTTACTTTTGAGGCTAACAGGTGAGTCTCTA
1 AAATTTGAAGTTTAAGTTACCTTTGAGGCTAACAGGTGAGTCTCTA
36629226 AA
1 AA
36629228 CTAACACTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (46 bp):
AAATTTGAAGTTTAAGTTACCTTTGAGGCTAACAGGTGAGTCTCTA
Found at i:36653912 original size:42 final size:42
Alignment explanation
Indices: 36653848--36653932 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
36653838 GCAGAGACAC
*
36653848 GGGCGTGTGTCTCAGCCGTGTGAAGGACACAGCTTCAGGCAT
1 GGGCGTGTGTCTCAGCCATGTGAAGGACACAGCTTCAGGCAT
36653890 GGGCGTGTGTCTC-GACCATGTGAAGGACACAGCTTCAGGCAT
1 GGGCGTGTGTCTCAG-CCATGTGAAGGACACAGCTTCAGGCAT
36653932 G
1 G
36653933 CGGGCAGAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.21
Consensus pattern (42 bp):
GGGCGTGTGTCTCAGCCATGTGAAGGACACAGCTTCAGGCAT
Found at i:36654999 original size:20 final size:20
Alignment explanation
Indices: 36654958--36655000 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
36654948 CCTTTCAAAT
* *
36654958 TTTCCTTATTTTCATTTTCA
1 TTTCATTATTTTCATTTGCA
36654978 TTTCATTATTTTCCA-TTGCA
1 TTTCATTATTTT-CATTTGCA
36654998 TTT
1 TTT
36655001 AGTCTCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.16, C:0.19, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTCATTATTTTCATTTGCA
Found at i:36658466 original size:25 final size:25
Alignment explanation
Indices: 36658438--36658514 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
36658428 GGTATGATCC
*
36658438 TACGAGCCATGAATCGATAAGCTCA
1 TACGAGCCAAGAATCGATAAGCTCA
* *
36658463 TACGAGCTAAGAATCGATAAGCTTA
1 TACGAGCCAAGAATCGATAAGCTCA
* *
36658488 TACGAGCTAAAAATC-AGTAAGCTCA
1 TACGAGCCAAGAATCGA-TAAGCTCA
36658513 TA
1 TA
36658515 AGAGTTTTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.02
25 45 0.98
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (25 bp):
TACGAGCCAAGAATCGATAAGCTCA
Found at i:36661869 original size:43 final size:43
Alignment explanation
Indices: 36661808--36661960 Score: 252
Period size: 43 Copynumber: 3.6 Consensus size: 43
36661798 GGCATTACGT
* * *
36661808 CTGCTAGGCACGAAGGCCCGAATACACATCACTGGTACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
* *
36661851 CTGCTAGGCACGAAGGCCCAAATAGACATCACCGGCACAAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
*
36661894 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
36661937 CTGCTAGGCACGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
36661961 TAATACTAGC
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGC
Found at i:36665288 original size:51 final size:51
Alignment explanation
Indices: 36665228--36665330 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
36665218 TAACGTAGCA
*
36665228 AGTAAGAGTCTAGCTATACATGCCATGTATATAAACTGTGATAGTGTGATG
1 AGTAAGAGTCTAGCTATACATGCCATATATATAAACTGTGATAGTGTGATG
36665279 AGTAAGAGTCTAGCTATACATGCCATATATATAAACTGTGATAGTGTGATG
1 AGTAAGAGTCTAGCTATACATGCCATATATATAAACTGTGATAGTGTGATG
36665330 A
1 A
36665331 TTCCTGAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (51 bp):
AGTAAGAGTCTAGCTATACATGCCATATATATAAACTGTGATAGTGTGATG
Found at i:36673233 original size:25 final size:25
Alignment explanation
Indices: 36673205--36673295 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
36673195 ATGAGTTATA
* * *
36673205 AATCGGTATGATCTTACGAGCTATG
1 AATCGGTAAGATCATACGAGCTAAG
* *
36673230 AATCAGTAAGCTCATACGAGCTAAG
1 AATCGGTAAGATCATACGAGCTAAG
* * * *
36673255 AATCGATAAGCTTATACGAGCTAAA
1 AATCGGTAAGATCATACGAGCTAAG
* *
36673280 AATCAGTAAGCTCATA
1 AATCGGTAAGATCATA
36673296 AGATTTGTGG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (25 bp):
AATCGGTAAGATCATACGAGCTAAG
Found at i:36675827 original size:30 final size:30
Alignment explanation
Indices: 36675759--36675828 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
36675749 AGTGTCTAAT
*
36675759 GGTCGTGTAAGGCACACGGCACGTTCACAC
1 GGTCGTGTGAGGCACACGGCACGTTCACAC
* *
36675789 GGTCGTGTGAGGCACACGGCATGTTCATAC
1 GGTCGTGTGAGGCACACGGCACGTTCACAC
36675819 AGGT-GTGTGA
1 -GGTCGTGTGA
36675829 CCCTTAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.21
Consensus pattern (30 bp):
GGTCGTGTGAGGCACACGGCACGTTCACAC
Found at i:36677993 original size:56 final size:53
Alignment explanation
Indices: 36677870--36678020 Score: 131
Period size: 56 Copynumber: 2.8 Consensus size: 53
36677860 ATAGTAAAAG
*
36677870 GACCATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATATAAGGATAAGA
1 GACCATATAGTGTAAGACCTAGTATGGGACTATGGCATCATATAAGGATAAGA
* * ** ** *
36677923 GAACCATATGGTGTAAGATCTAGTCATGGTGGTTATGGCATCATATGGGGATATGAA
1 G-ACCATATAGTGTAAGACCTAGT-ATGG-GACTATGGCATCATATAAGGATAAG-A
* * * * ** *
36677980 GACCACATAGTGTAGGACATAGTCTAAGATTATGGCATCAT
1 GACCATATAGTGTAAGACCTAGTATGGGACTATGGCATCAT
36678021 GTGGGGAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 33 0.43
55 4 0.05
56 37 0.48
57 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (53 bp):
GACCATATAGTGTAAGACCTAGTATGGGACTATGGCATCATATAAGGATAAGA
Found at i:36678196 original size:30 final size:30
Alignment explanation
Indices: 36678131--36678216 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
36678121 TTATCGAAAT
* * * *
36678131 GTGGAAGCCTTTGTGGCTATTCT-TAAATAC
1 GTGGAAACCTTTATGGTTATTCTCT-AATAA
*
36678161 TTGGAAACCTTTATGGTTATTCTCTAATAA
1 GTGGAAACCTTTATGGTTATTCTCTAATAA
* *
36678191 GTGGAAGA-CTCTATGGTTTTTCTCTA
1 GTGGAA-ACCTTTATGGTTATTCTCTA
36678217 TCATATTTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 44 0.96
31 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (30 bp):
GTGGAAACCTTTATGGTTATTCTCTAATAA
Found at i:36679432 original size:20 final size:21
Alignment explanation
Indices: 36679407--36679451 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
36679397 ATTTCTTTAC
36679407 AATTTAGTACTTCCACC-AAA
1 AATTTAGTACTTCCACCTAAA
* * *
36679427 AATTTATTATTTTCACCTAAA
1 AATTTAGTACTTCCACCTAAA
36679448 AATT
1 AATT
36679452 GAAAGAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTTAGTACTTCCACCTAAA
Found at i:36681198 original size:46 final size:46
Alignment explanation
Indices: 36681146--36681419 Score: 345
Period size: 46 Copynumber: 6.0 Consensus size: 46
36681136 AGTGTACTCT
*
36681146 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
36681192 CTGATATGAAATGTGTAACACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
36681238 CTGATATGAAA-CATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
36681284 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
36681330 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
36681376 ATGA-CTGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
36681420 TCATGTTAAA
Statistics
Matches: 203, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 200 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:36681405 original size:138 final size:138
Alignment explanation
Indices: 36681161--36681424 Score: 388
Period size: 138 Copynumber: 1.9 Consensus size: 138
36681151 ATGAAATGTG
* **
36681161 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAACACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAACACCATGGTTGAAAGA
* * *
36681226 TACCATGGCAACCTGATATGAAACATGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGATATGAAACATGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
36681291 GAAATAAA
131 GAAATAAA
* * *
36681299 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAACACCATGGTTGAAAGA
* * *
36681364 TACCATGGCAACATGA-CTGAAA-ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAACATGATATGAAACAT--GTAAGACCATAGTTGAAAGACACCATGGCAACATG
36681425 TTAAAGATAA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
136 2 0.02
137 5 0.04
138 105 0.94
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAACACCATGGTTGAAAGA
TACCATGGCAACATGATATGAAACATGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATAAA
Found at i:36681526 original size:13 final size:13
Alignment explanation
Indices: 36681508--36681550 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
36681498 TTAGATGACG
36681508 AATGGTTATATGA
1 AATGGTTATATGA
36681521 AATGGTTATATGA
1 AATGGTTATATGA
* *
36681534 AATGGTTGTGTGA
1 AATGGTTATATGA
36681547 AATG
1 AATG
36681551 TTTACAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:36692912 original size:50 final size:47
Alignment explanation
Indices: 36692851--36693035 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 47
36692841 GCCACATTAT
* * *
36692851 GAGAGCCAGTGTAAGACCATGTCTGGGATATTGCATCGGCATGGATAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TGGAT-G-C
* * * *
36692901 GAGAGCTAGTGTAAAACCATGTCTGGGACATGGCGTCGACCTGGATTTC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTGGA-TGC
* * *
36692950 GATAGTCAGTGTAAGACCATGTCTGGGACATGGCA-CGACTTGATG-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGGATGC
*
36692995 GATGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGAC
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
36693036 ATTCTACCCC
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.02
46 31 0.27
47 8 0.07
48 3 0.03
49 31 0.27
50 37 0.32
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGGATGC
Found at i:36693029 original size:95 final size:98
Alignment explanation
Indices: 36692857--36693035 Score: 240
Period size: 95 Copynumber: 1.8 Consensus size: 98
36692847 TTATGAGAGC
* * * *
36692857 CAGTGTAAGACCATGTCTGGGATATTGCATCGGCATGGATAGACGAGAGCTAGTGTAAAACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATAGA-GAGAGCCAGTGTAAAACCATG
*
36692922 TCTGGGACATGGCGTCGACCTGGATTTCGATAGT
65 TCTGGGACATGGCATCGACCTGGATTTCGATAGT
* *
36692956 CAGTGTAAGACCATGTCTGGGACATGGCA-CGAC-TTGAT-G-GATGAGCCAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATAGAGA-GAGCCAGTGTAAAACCATG
*
36693017 TCTGGGATATGGCATCGAC
65 TCTGGGACATGGCATCGAC
36693036 ATTCTACCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 2 0.03
95 34 0.48
96 1 0.01
97 4 0.06
98 3 0.04
99 27 0.38
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (98 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGATAGAGAGAGCCAGTGTAAAACCATGT
CTGGGACATGGCATCGACCTGGATTTCGATAGT
Found at i:36706496 original size:40 final size:40
Alignment explanation
Indices: 36706402--36706546 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
36706392 TACTCGAATG
* *
36706402 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* *
36706443 ACATCCGGACTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
36706483 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* *
36706523 ATATCCAGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
36706547 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 62 0.68
41 29 0.32
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:36711920 original size:29 final size:28
Alignment explanation
Indices: 36711881--36711957 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 28
36711871 CTTAATAATC
36711881 AACCGCGCACACTTAGTGTCATGTAC-TTTA
1 AACC-CGCACACTTAGTG-C-TGTACATTTA
*
36711911 AACTCGCACACTTAGTGCTGTACAATTTA
1 AACCCGCACACTTAGTGCTGTAC-ATTTA
36711940 AACCCGCACACTTAGTGC
1 AACCCGCACACTTAGTGC
36711958 CAATCTCATG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 34 0.79
30 3 0.07
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
AACCCGCACACTTAGTGCTGTACATTTA
Found at i:36719914 original size:29 final size:29
Alignment explanation
Indices: 36719851--36719918 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
36719841 TAATCAACCG
*
36719851 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36719880 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36719909 CGCACACTTA
1 CGCACACTTA
36719919 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36720233 original size:29 final size:29
Alignment explanation
Indices: 36720199--36720272 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
36720189 TAATCAACCA
36720199 CGCACACTTAGTGCCATGTAC-TTTAAAC
1 CGCACACTTAGTGCCATGTACATTTAAAC
36720227 TCGCACACTTAGTG-C-TGTACAATTTAAAC
1 -CGCACACTTAGTGCCATGTAC-ATTTAAAC
36720256 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
36720273 ATCTCATGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.12
28 2 0.05
29 32 0.80
30 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGTACATTTAAAC
Found at i:36720266 original size:174 final size:174
Alignment explanation
Indices: 36719740--36720241 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
36719730 AACTCAAGGT
* *
36719740 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
36719805 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
36719870 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
36719914 ACTTACCTTTTCCGCTGTCGAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
36719979 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
36720044 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
36720088 ACTTACCTTTTCCGCTGTCCAAAATCGACTCTGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
36720153 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
36720218 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
36720242 TGTACAATTT
Statistics
Matches: 317, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 317 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:36722780 original size:19 final size:19
Alignment explanation
Indices: 36722756--36722800 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
36722746 TATATGACAC
*
36722756 ATAACAAAATATCCTC-TAA
1 ATAACAAAATAT-CTCACAA
*
36722775 ATAACAAACTATCTCACAA
1 ATAACAAAATATCTCACAA
36722794 ATAACAA
1 ATAACAA
36722801 TATTCTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAACAAAATATCTCACAA
Found at i:36723162 original size:19 final size:19
Alignment explanation
Indices: 36723138--36723186 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
36723128 TACTTGTTAA
36723138 TTATTATTTGTGAGATATT
1 TTATTATTTGTGAGATATT
36723157 TTATTATTTAG-GAGATATT
1 TTATTATTT-GTGAGATATT
36723176 TTATTATTTGT
1 TTATTATTTGT
36723187 TACAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 26 0.93
20 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (19 bp):
TTATTATTTGTGAGATATT
Found at i:36725232 original size:27 final size:27
Alignment explanation
Indices: 36725195--36725425 Score: 277
Period size: 27 Copynumber: 8.6 Consensus size: 27
36725185 TATTTTACCA
36725195 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
36725222 AATGATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
36725249 AATTACTGAAATA-CCCTGTAAGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
36725275 AATTACAGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* * * *
36725302 AATTATTGAAATTA-CCTTGTAAGGTAG
1 AATTACTGAAA-TACCCCTATAGGGTAG
* * *
36725329 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
36725356 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
36725383 AATTACTGAAATGCCCCTATAGGGTAT
1 AATTACTGAAATACCCCTATAGGGTAG
**
36725410 AATTACCAAAATACCC
1 AATTACTGAAATACCC
36725426 TTAGTTTGTA
Statistics
Matches: 174, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.14
27 147 0.84
28 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAGGGTAG
Found at i:36725414 original size:81 final size:80
Alignment explanation
Indices: 36725195--36725426 Score: 315
Period size: 81 Copynumber: 2.9 Consensus size: 80
36725185 TATTTTACCA
* * *
36725195 AATTACTGAAATACCCCTATAGGGTAGAATGATTGAAATACCCCTATAGGGTAGAATTACTGAAA
1 AATTACTAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATTACCGAAA
36725260 TACCCTGTAAGGTAG
66 TACCCTGTAAGGTAG
* * * *
36725275 AATTAC-AGAAATACCCCTGTAGGGTAGAATTATTGAAATTA-CCTTGTAAGGTAGAATTACCGA
1 AATTACTA-AAATACCCCTATAGGGTAGAATTATTGAAA-TACCCCTATAGGGTAGAATTACCGA
*
36725338 AATACCTCTGTAGGGTAG
64 AATACC-CTGTAAGGTAG
* * * *
36725356 AATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATGCCCCTATAGGGTATAATTACCAAAA
1 AATTACTAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATTACCGAAA
36725421 TACCCT
66 TACCCT
36725427 TAGTTTGTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
80 61 0.47
81 69 0.53
82 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (80 bp):
AATTACTAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATTACCGAAA
TACCCTGTAAGGTAG
Found at i:36725440 original size:27 final size:28
Alignment explanation
Indices: 36725410--36725479 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 28
36725400 TATAGGGTAT
* *
36725410 AATTACCAAAATACCCTTAG-TTTGTAA
1 AATTACCAAAATACCCTTAGACTTATAA
*
36725437 AATTACCAAAATA-CCTTCGACTTATAA
1 AATTACCAAAATACCCTTAGACTTATAA
*
36725464 AATTACCAAAGTACCC
1 AATTACCAAAATACCC
36725480 CCCGATTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.14
27 30 0.81
28 2 0.05
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (28 bp):
AATTACCAAAATACCCTTAGACTTATAA
Found at i:36725441 original size:54 final size:54
Alignment explanation
Indices: 36725203--36725451 Score: 200
Period size: 54 Copynumber: 4.6 Consensus size: 54
36725193 CAAATTACTG
* * ** **
36725203 AAATACCCCTATAGGGTAGAATGATTGAAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCA
* * * * * **
36725257 AAATA-CCCTGTAAGGTAGAATTACAGAAATACCCCTGTAGGGTAGAATTATTGA
1 AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTA-CCA
* * * * * * * *
36725311 AATTA-CCTTGTAAGGTAGAATTACCGAAATACCTCTGTAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCA
* * * *
36725364 AAATACCCCTATAGGGTAGAATTACTGAAATGCCCCTATAGGGTATAATTACCA
1 AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCA
* *
36725418 AAATA-CCCT-TAGTTTGTAAAATTACCAAAATACC
1 AAATACCCCTATAG--GGTAAAATTACCGAAATACC
36725452 TTCGACTTAT
Statistics
Matches: 161, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
52 3 0.02
53 48 0.30
54 110 0.68
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (54 bp):
AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCA
Found at i:36725441 original size:81 final size:79
Alignment explanation
Indices: 36725194--36725451 Score: 297
Period size: 81 Copynumber: 3.2 Consensus size: 79
36725184 TTATTTTACC
* * *
36725194 AAATTACTGAAATACCCCTATAGGGTAGAATGATTGAAATACCCCTATAGGGTAGAATTACTGAA
1 AAATTACTAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATTACCGAA
36725259 ATACCCTGTAAGGTA
66 ATACCCTGT-AGGTA
* * * * *
36725274 GAATTAC-AGAAATACCCCTGTAGGGTAGAATTATTGAAATTA-CCTTGTAAGGTAGAATTACCG
1 AAATTACTA-AAATACCCCTATAGGGTAGAATTATTGAAA-TACCCCTATAGGGTAGAATTACCG
36725337 AAATACCTCTGTAGGGTA
64 AAATACC-CTGTA-GGTA
* * * * *
36725355 GAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATGCCCCTATAGGGTATAATTACCAAA
1 AAATTACTAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATTACCGAA
36725420 ATACCCT-TAGTTTGTA
66 ATACCCTGTAG---GTA
*
36725436 AAATTACCAAAATACC
1 AAATTACTAAAATACC
36725452 TTCGACTTAT
Statistics
Matches: 151, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 2 0.01
80 62 0.41
81 85 0.56
82 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (79 bp):
AAATTACTAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAATTACCGAA
ATACCCTGTAGGTA
Found at i:36725614 original size:54 final size:55
Alignment explanation
Indices: 36725516--36725632 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 55
36725506 CTTCGATTTA
* * * * *
36725516 CAAAATTATTGAAATACCCCTGTAGGTTAGAGTTACTGAAATACCCTTGTAGGGC
1 CAAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGC
* *
36725571 CAAAA-TACTGAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGT-GGGG
1 CAAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGC
*
36725624 TAAAATTAC
1 CAAAATTAC
36725633 CATTTTGCCC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 7 0.13
54 41 0.77
55 5 0.09
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (55 bp):
CAAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGC
Found at i:36726199 original size:22 final size:21
Alignment explanation
Indices: 36726150--36726211 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
36726140 AATTATTCTA
* *
36726150 ATTATGGCTTTGCGCCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
36726171 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
36726193 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
36726212 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:36726578 original size:6 final size:6
Alignment explanation
Indices: 36726569--36726667 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
36726559 TTGCATTTAC
* * *
36726569 ATTCTG ATTCTA ATTTTG -TTACTTG A-TCTC ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
36726617 ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
36726666 AT
1 AT
36726668 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 18
0.71 0.12 0.18
Matches are distributed among these distances:
5 6 0.08
6 58 0.81
7 7 0.10
8 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:36726646 original size:37 final size:36
Alignment explanation
Indices: 36726569--36726658 Score: 108
Period size: 37 Copynumber: 2.5 Consensus size: 36
36726559 TTGCATTTAC
* * * *
36726569 ATTCTGATTCTAATTTTGTTACTTGATCTCATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATCTCATTCTG
*
36726605 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGA-TCTCATTCTG
* *
36726642 ATTCTCATTTTGATTCT
1 ATTCTGATTCTGATTCT
36726659 AGTTCTGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 22 0.48
37 24 0.52
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.51
Consensus pattern (36 bp):
ATTCTGATTCTGATTCTGTCACCTGATCTCATTCTG
Found at i:36729501 original size:13 final size:13
Alignment explanation
Indices: 36729483--36729514 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
36729473 TTTAACAAAA
36729483 ATTATAAAAAATT
1 ATTATAAAAAATT
36729496 ATTAT--AAAATT
1 ATTATAAAAAATT
36729507 ATTATAAA
1 ATTATAAA
36729515 TGTAACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATAAAAAATT
Found at i:36730635 original size:53 final size:53
Alignment explanation
Indices: 36730555--36730659 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
36730545 GCGAGAGCCC
36730555 GATTTTCATTGTTATAAATAGACATATTATCTCGAATTTGGTAAAAATAACAT
1 GATTTTCATTGTTATAAATAGACATATTATCTCGAATTTGGTAAAAATAACAT
36730608 GATTTTCATTGTTATAAATAGACATATTATCTCGAATTTGGTAAAAATAACA
1 GATTTTCATTGTTATAAATAGACATATTATCTCGAATTTGGTAAAAATAACA
36730660 AAAAAATTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (53 bp):
GATTTTCATTGTTATAAATAGACATATTATCTCGAATTTGGTAAAAATAACAT
Found at i:36730652 original size:27 final size:27
Alignment explanation
Indices: 36730569--36730652 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 27
36730559 TTCATTGTTA
36730569 TAAATAGACATATTATCTCGAATTTGG
1 TAAATAGACATATTATCTCGAATTTGG
**
36730596 TAAAAATA-ACATGATT-T-TC--ATTGTTA
1 T--AAATAGACAT-ATTATCTCGAATT-TGG
36730622 TAAATAGACATATTATCTCGAATTTGG
1 TAAATAGACATATTATCTCGAATTTGG
36730649 TAAA
1 TAAA
36730653 AATAACAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
24 8 0.18
25 8 0.18
26 4 0.09
27 8 0.18
28 8 0.18
29 8 0.18
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (27 bp):
TAAATAGACATATTATCTCGAATTTGG
Found at i:36731233 original size:25 final size:27
Alignment explanation
Indices: 36731204--36731260 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
36731194 GTTTAATTTG
36731204 ATATATG-AACTTTGATT-TGGTGCAA
1 ATATATGAAACTTTGATTGTGGTGCAA
* *
36731229 TTATA-GAAACTTTGATTGTGGTTCAA
1 ATATATGAAACTTTGATTGTGGTGCAA
36731255 ATATAT
1 ATATAT
36731261 ATATATATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 14 0.54
26 11 0.42
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
ATATATGAAACTTTGATTGTGGTGCAA
Found at i:36731259 original size:26 final size:25
Alignment explanation
Indices: 36731211--36731259 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
36731201 TTGATATATG
*
36731211 AACTTTGATTTGGTGCAATTATAGA
1 AACTTTGATTTGGTGCAAATATAGA
*
36731236 AACTTTGATTGTGGTTCAAATATA
1 AACTTTGATT-TGGTGCAAATATA
36731260 TATATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (25 bp):
AACTTTGATTTGGTGCAAATATAGA
Found at i:36731295 original size:35 final size:34
Alignment explanation
Indices: 36731230--36731296 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
36731220 TTGGTGCAAT
* *
36731230 TATAGAAACTTTGATTGTGGTTCAAATATATATA
1 TATAGAAACTTTAATTGTGATTCAAATATATATA
* * *
36731264 TATATGAAACTTTAATTTTGATTTAATTATATA
1 TATA-GAAACTTTAATTGTGATTCAAATATATA
36731297 CATTTAAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 4 0.15
35 23 0.85
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.46
Consensus pattern (34 bp):
TATAGAAACTTTAATTGTGATTCAAATATATATA
Found at i:36733266 original size:17 final size:18
Alignment explanation
Indices: 36733246--36733306 Score: 76
Period size: 17 Copynumber: 3.6 Consensus size: 18
36733236 TGTCTCACAC
* *
36733246 CTTTTTGTTTTC-TTTTT
1 CTTTTTATTTTCATATTT
36733263 C-TTTTATTTTCATATTT
1 CTTTTTATTTTCATATTT
36733280 C-TTTTATTTTCATATTT
1 CTTTTTATTTTCATATTT
36733297 C-TTTTATTTT
1 CTTTTTATTTT
36733307 TACTTTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.22
17 32 0.78
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (18 bp):
CTTTTTATTTTCATATTT
Found at i:36733357 original size:9 final size:8
Alignment explanation
Indices: 36733333--36733403 Score: 54
Period size: 8 Copynumber: 8.2 Consensus size: 8
36733323 CCTTAATAAA
*
36733333 TTTATCTT
1 TTTATTTT
36733341 TTTATTTT
1 TTTATTTT
36733349 TTTACTTTT
1 TTTA-TTTT
*
36733358 TTGATTTT
1 TTTATTTT
36733366 TTT-TCTTAT
1 TTTAT-TT-T
*
36733375 TTCATTTT
1 TTTATTTT
36733383 GTTTATTTTGT
1 -TTTA-TTT-T
36733394 TTTATTTT
1 TTTATTTT
36733402 TT
1 TT
36733404 ATTATTAACT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
7 1 0.02
8 23 0.45
9 18 0.35
10 8 0.16
11 1 0.02
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (8 bp):
TTTATTTT
Done.