Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 143 of 186
Found at i:47186327 original size:20 final size:22
Alignment explanation
Indices: 47186302--47186341 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
47186292 TGTTTAAAGT
47186302 TTGATTTA-ATTTA-AAATATA
1 TTGATTTATATTTATAAATATA
47186322 TTGATTTATATTTATAAATA
1 TTGATTTATATTTATAAATA
47186342 ATTAACCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
TTGATTTATATTTATAAATATA
Found at i:47195307 original size:2 final size:2
Alignment explanation
Indices: 47195300--47195326 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47195290 GTAAAAGTAT
47195300 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
47195327 GAAAAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47202374 original size:19 final size:18
Alignment explanation
Indices: 47202352--47202387 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47202342 GTAAGAATTT
*
47202352 TAAAAATTAGTAAAAAAAA
1 TAAAAAGTA-TAAAAAAAA
47202371 TAAAAAGTATAAAAAAA
1 TAAAAAGTATAAAAAAA
47202388 TATTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
TAAAAAGTATAAAAAAAA
Found at i:47202562 original size:20 final size:21
Alignment explanation
Indices: 47202534--47202584 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
47202524 CTCTTTGTTA
*
47202534 TAATAATTTTTT-TACAATTT
1 TAATAATTTTTTATAAAATTT
*
47202554 TAATCATTTTTTATAAAATTT
1 TAATAATTTTTTATAAAATTT
*
47202575 TAATTATTTT
1 TAATAATTTT
47202585 CACACTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TAATAATTTTTTATAAAATTT
Found at i:47209833 original size:25 final size:25
Alignment explanation
Indices: 47209785--47209833 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
47209775 ACTGTTATTT
* * *
47209785 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
47209810 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
47209834 TTTATATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:47210232 original size:29 final size:29
Alignment explanation
Indices: 47210198--47210269 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
47210188 ATCAACCACA
* *
47210198 CACACTTAGTGCCATGTACTTT-AAACTCG
1 CACACTTAGTGCCATGCA-TTTCAAACCCG
*
47210227 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCG
47210256 CACACTTAGTGCCA
1 CACACTTAGTGCCA
47210270 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCG
Found at i:47212226 original size:37 final size:37
Alignment explanation
Indices: 47212176--47212254 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
47212166 TTATTACGAA
* *
47212176 GTCTTACCCGGACATAA-TCTCCACACG-ACGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGTA-GTCATCGG
47212213 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
47212250 GTCTT
1 GTCTT
47212255 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
Found at i:47212451 original size:47 final size:47
Alignment explanation
Indices: 47212373--47212676 Score: 419
Period size: 47 Copynumber: 6.5 Consensus size: 47
47212363 CCCTTCGGGA
* * * * * * * *
47212373 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47212420 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47212467 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47212514 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47212561 CTTATCACACATATACACTTTCACATTAATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47212608 CGTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47212655 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
47212677 TTGGCGGAAT
Statistics
Matches: 230, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47217315 original size:6 final size:6
Alignment explanation
Indices: 47217306--47217380 Score: 64
Period size: 6 Copynumber: 12.2 Consensus size: 6
47217296 AATAAAATTG
* *
47217306 AAATAA AAATAA AAATAA AAAT-A AAATAAA TAAATTA AATTAA ATAA-ATA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA -AAATAA AAATAA A-AATA-A
* *
47217356 AAATAA AAATAA GAATAA GAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
47217381 TAAAAAAAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 5 0.09
6 42 0.74
7 6 0.11
8 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:47217327 original size:18 final size:18
Alignment explanation
Indices: 47217306--47217380 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
47217296 AATAAAATTG
47217306 AAATAAAAATAAAAATAA
1 AAATAAAAATAAAAATAA
*
47217324 AAAT-AAAATAAATAAATTA
1 AAATAAAAAT-AA-AAATAA
*
47217343 AATTAAATAA-ATAAAATAA
1 AAATAAA-AATA-AAAATAA
* *
47217362 AAATAAGAATAAGAATAA
1 AAATAAAAATAAAAATAA
47217380 A
1 A
47217381 TAAAAAAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
17 5 0.11
18 15 0.33
19 20 0.44
20 3 0.07
21 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAATAAAAATAAAAATAA
Found at i:47224851 original size:26 final size:26
Alignment explanation
Indices: 47224822--47224881 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
47224812 TCCCTTTGAA
* * *
47224822 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
47224848 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
47224876 CCATTC
1 TCATTC
47224882 TCAATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:47224897 original size:28 final size:28
Alignment explanation
Indices: 47224829--47224907 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
47224819 GAATCATTCG
*
47224829 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTTGCACACTAAGTGCCATTCTCA
* *
47224857 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTTGCACACTAAGTGCCATTCTCA
* * *
47224885 ATATTTTGTACACTGAGTACCAT
1 ATATTTTGCACACTAAGTGCCAT
47224908 ATGTGATTGC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
ATATTTTGCACACTAAGTGCCATTCTCA
Found at i:47230211 original size:58 final size:58
Alignment explanation
Indices: 47230136--47230250 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
47230126 TATCAAATCA
* * *
47230136 AATATTGTGGTCTTGACATGCATAATCAGGCAAGTTCTATAATAACACATCGATATTG
1 AATAGTGTGGTCTTGACATGCATAATCAGACAAGTTCTAGAATAACACATCGATATTG
*
47230194 AATAGTGTGGTCTTGACATGCATAATCAGACAAGTTCTAGAATAACATATCGATATT
1 AATAGTGTGGTCTTGACATGCATAATCAGACAAGTTCTAGAATAACACATCGATATT
47230251 TACGCACTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (58 bp):
AATAGTGTGGTCTTGACATGCATAATCAGACAAGTTCTAGAATAACACATCGATATTG
Found at i:47241972 original size:27 final size:27
Alignment explanation
Indices: 47241942--47242091 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 27
47241932 ATATCGAGTC
* * *
47241942 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
47241969 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
** ** *
47241996 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
47242023 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * *
47242050 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACATAATCAAAT
47242077 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47242092 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 103 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:47242054 original size:81 final size:81
Alignment explanation
Indices: 47241942--47242090 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
47241932 ATATCGAGTC
*
47241942 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
47242007 TGCCGCATGGTCAATT
66 TGCCGCATGGTCAATT
* * ** * *
47242023 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
47242087 GTGC
65 GTGC
47242091 TGTACAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:47248860 original size:5 final size:5
Alignment explanation
Indices: 47248850--47248947 Score: 74
Period size: 6 Copynumber: 18.2 Consensus size: 5
47248840 TATGTCTTTC
* *
47248850 AAAAT AAAAT AATAAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AA-AAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
*
47248901 AAAAAT AAAAT -AAAG AAAAT AAAAAT AAGAAT -AAAT AAAAT AAAAT
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT
47248947 A
1 A
47248948 GGAGGATTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
4 6 0.08
5 31 0.41
6 39 0.51
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:47248917 original size:21 final size:20
Alignment explanation
Indices: 47248855--47248945 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
47248845 CTTTCAAAAT
*
47248855 AAAATAATAATAAAATTGAAATG
1 AAAATAAAAATAAAA-T-AAA-G
* *
47248878 AAAATAAAAATCAAA-AGA-
1 AAAATAAAAATAAAATAAAG
47248896 AAAATAAAAATAAAATAAAG
1 AAAATAAAAATAAAATAAAG
*
47248916 AAAATAAAAATAAGAATAAAT
1 AAAATAAAAATAA-AATAAAG
47248937 AAAATAAAA
1 AAAATAAAA
47248946 TAGGAGGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
18 14 0.24
19 2 0.03
20 15 0.25
21 15 0.25
23 13 0.22
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAATAAAAATAAAATAAAG
Found at i:47248926 original size:26 final size:25
Alignment explanation
Indices: 47248873--47248939 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 25
47248863 AATAAAATTG
* **
47248873 AAATGAAAATAAA-AATCAAAAGAA
1 AAATAAAAATAAATAAAGAAAAGAA
*
47248897 AAATAAAAATAAAATAAAGAAAATAA
1 AAATAAAAAT-AAATAAAGAAAAGAA
*
47248923 AAATAAGAATAAATAAA
1 AAATAAAAATAAATAAA
47248940 ATAAAATAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.25
25 10 0.28
26 17 0.47
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (25 bp):
AAATAAAAATAAATAAAGAAAAGAA
Found at i:47248931 original size:35 final size:37
Alignment explanation
Indices: 47248855--47248947 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 37
47248845 CTTTCAAAAT
*
47248855 AAAATAATAATAAAATTGAAATGAAAATAAAAATCAAAAGA
1 AAAATAAAAATAAAA-T-AAATGAAAATAAAAAT--AAAGA
47248896 AAAATAAAAATAAAATAAA-GAAAATAAAAAT-AAGA
1 AAAATAAAAATAAAATAAATGAAAATAAAAATAAAGA
47248931 ATAAAT-AAAATAAAATA
1 A-AAATAAAAATAAAATA
47248948 GGAGGATTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
35 16 0.32
36 4 0.08
38 12 0.24
39 3 0.06
40 1 0.02
41 14 0.28
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (37 bp):
AAAATAAAAATAAAATAAATGAAAATAAAAATAAAGA
Found at i:47257174 original size:28 final size:28
Alignment explanation
Indices: 47257143--47257200 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
47257133 ACTTATGGAT
47257143 TATTTTGAGATATTATTGATAGGGATTA
1 TATTTTGAGATATTATTGATAGGGATTA
47257171 TATTTTGAGATATTATTGATAGGGATTA
1 TATTTTGAGATATTATTGATAGGGATTA
47257199 TA
1 TA
47257201 AATTGAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (28 bp):
TATTTTGAGATATTATTGATAGGGATTA
Found at i:47257206 original size:28 final size:28
Alignment explanation
Indices: 47257147--47257208 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
47257137 ATGGATTATT
**
47257147 TTGAGATATTATTGATAGGGATTATATT
1 TTGAGATATTATTGATAGGGATTATAAA
47257175 TTGAGATATTATTGATAGGGATTATAAA
1 TTGAGATATTATTGATAGGGATTATAAA
47257203 TTGAGA
1 TTGAGA
47257209 AGAATTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (28 bp):
TTGAGATATTATTGATAGGGATTATAAA
Found at i:47262808 original size:25 final size:25
Alignment explanation
Indices: 47262774--47262823 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47262764 GGCAGGGGAG
47262774 CCTGAAATCACCCTGACTCTGTCTC
1 CCTGAAATCACCCTGACTCTGTCTC
*
47262799 CCTGAAATCACTCTGACTCTGTCTC
1 CCTGAAATCACCCTGACTCTGTCTC
47262824 ACAAAAGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.30
Consensus pattern (25 bp):
CCTGAAATCACCCTGACTCTGTCTC
Found at i:47264836 original size:27 final size:28
Alignment explanation
Indices: 47264806--47264948 Score: 98
Period size: 27 Copynumber: 5.3 Consensus size: 28
47264796 CAGTCCTGGT
* *
47264806 GGACCTTCT-ATATAGGATAGTCCTAAC
1 GGACCTTCTCACATAAGATAGTCCTAAC
47264833 GGACCTT-TCACATAAGATAGTCCTAAC
1 GGACCTTCTCACATAAGATAGTCCTAAC
* * * * *
47264860 GAACCTTC-CACATAATATAGTCTTGAT
1 GGACCTTCTCACATAAGATAGTCCTAAC
* * ** * *
47264887 GGACCCTC-CACATATGATAGTATTGAT
1 GGACCTTCTCACATAAGATAGTCCTAAC
* * *
47264914 GGACCTTC-CATACATGATAGTCCTAAC
1 GGACCTTCTCACATAAGATAGTCCTAAC
*
47264941 AGACCTTC
1 GGACCTTC
47264949 CACTTATATG
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 93 0.99
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
GGACCTTCTCACATAAGATAGTCCTAAC
Found at i:47267193 original size:13 final size:13
Alignment explanation
Indices: 47267171--47267203 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47267161 AAGGTTTTTT
47267171 TTAT-TAAACTAA
1 TTATCTAAACTAA
47267183 TTATCTAAACTAA
1 TTATCTAAACTAA
*
47267196 TTAACTAA
1 TTATCTAA
47267204 TTTAGTTAAA
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:47268308 original size:228 final size:228
Alignment explanation
Indices: 47267911--47268371 Score: 904
Period size: 228 Copynumber: 2.0 Consensus size: 228
47267901 TTATATTCCA
*
47267911 GAAAAGTTCTGGAAAGAGCGGCCTCCTTCTAGGTCACACTTAGGGTGTTTATATAGGCTTTCGAT
1 GAAAAGTTCTGGAAAGAGCGGCCTCCTTCTAGGTCACACTTAGGGTGGTTATATAGGCTTTCGAT
47267976 TGGCTTTCGTCCTCCCTAAGTACCATTTTTCAAGTAAAATACAACTATTTGAAAAAGGGACACGC
66 TGGCTTTCGTCCTCCCTAAGTACCATTTTTCAAGTAAAATACAACTATTTGAAAAAGGGACACGC
47268041 CCGTGTGCCACGACTGTGTAACGTGTTTACCAGACCGTGTTCGATCTGTTAAATTGCACACGGCC
131 CCGTGTGCCACGACTGTGTAACGTGTTTACCAGACCGTGTTCGATCTGTTAAATTGCACACGGCC
47268106 GTGTGGGCACAATGGCCAGGCCGTGTGAATCGT
196 GTGTGGGCACAATGGCCAGGCCGTGTGAATCGT
*
47268139 GAAAAGTTTTGGAAAGAGCGGCCTCCTTCTAGGTCACACTTAGGGTGGTTATATAGGCTTTCGAT
1 GAAAAGTTCTGGAAAGAGCGGCCTCCTTCTAGGTCACACTTAGGGTGGTTATATAGGCTTTCGAT
47268204 TGGCTTTCGTCCTCCCTAAGTACCATTTTTCAAGTAAAATACAACTATTTGAAAAAGGGACACGC
66 TGGCTTTCGTCCTCCCTAAGTACCATTTTTCAAGTAAAATACAACTATTTGAAAAAGGGACACGC
47268269 CCGTGTGCCACGACTGTGTAACGTGTTTACCAGACCGTGTTCGATCTGTTAAATTGCACACGGCC
131 CCGTGTGCCACGACTGTGTAACGTGTTTACCAGACCGTGTTCGATCTGTTAAATTGCACACGGCC
47268334 GTGTGGGCACAATGGCCAGGCCGTGTGAATCGT
196 GTGTGGGCACAATGGCCAGGCCGTGTGAATCGT
47268367 GAAAA
1 GAAAA
47268372 CCTTGGTCGA
Statistics
Matches: 231, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
228 231 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (228 bp):
GAAAAGTTCTGGAAAGAGCGGCCTCCTTCTAGGTCACACTTAGGGTGGTTATATAGGCTTTCGAT
TGGCTTTCGTCCTCCCTAAGTACCATTTTTCAAGTAAAATACAACTATTTGAAAAAGGGACACGC
CCGTGTGCCACGACTGTGTAACGTGTTTACCAGACCGTGTTCGATCTGTTAAATTGCACACGGCC
GTGTGGGCACAATGGCCAGGCCGTGTGAATCGT
Found at i:47270366 original size:6 final size:6
Alignment explanation
Indices: 47270333--47270391 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
47270323 AATAAAATTT
* * * * *
47270333 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA GAATAA GAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
47270381 ATAAAAA AAAT
1 A-AATAA AAAT
47270392 GAGGATTCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:47270381 original size:18 final size:18
Alignment explanation
Indices: 47270311--47270366 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
47270301 GATATGTCTT
*
47270311 TCAAAAGAAAATAATAAAAT
1 TCAAAAG-AAA-AATAAAAA
* *
47270331 TTAAATG-AAAATAAAAA
1 TCAAAAGAAAAATAAAAA
47270348 TCAAAAGAAAAATAAAAA
1 TCAAAAGAAAAATAAAAA
47270366 T
1 T
47270367 AAGAATAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 12 0.40
18 13 0.43
20 5 0.17
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (18 bp):
TCAAAAGAAAAATAAAAA
Found at i:47273224 original size:13 final size:13
Alignment explanation
Indices: 47273202--47273234 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47273192 AAGGGTTTGT
47273202 TTAT-TAAACTAA
1 TTATCTAAACTAA
47273214 TTATCTAAACTAA
1 TTATCTAAACTAA
*
47273227 TTAACTAA
1 TTATCTAA
47273235 TTTAATTAAA
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:47274809 original size:25 final size:24
Alignment explanation
Indices: 47274781--47274836 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
47274771 AAGCTCTTTC
* *
47274781 GAGCTAAATATCAGTAAGGTCCTAT
1 GAGCTAAA-ATCAGTAAGATCATAT
*
47274806 GAGCTGCAAATCAGTAAGATCATAT
1 GAGCT-AAAATCAGTAAGATCATAT
47274831 GAGCTA
1 GAGCTA
47274837 TGGTGAGTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (24 bp):
GAGCTAAAATCAGTAAGATCATAT
Found at i:47278198 original size:10 final size:10
Alignment explanation
Indices: 47278181--47278217 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
47278171 AACTTAATAA
47278181 AAGA-AAAAT
1 AAGATAAAAT
*
47278190 AAAATAAAAT
1 AAGATAAAAT
47278200 AAGATAAAAT
1 AAGATAAAAT
47278210 AAGATAAA
1 AAGATAAA
47278218 TAATTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 3 0.12
10 22 0.88
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (10 bp):
AAGATAAAAT
Found at i:47278206 original size:15 final size:14
Alignment explanation
Indices: 47278186--47278220 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
47278176 AATAAAAGAA
47278186 AAATAAAATAAAAT
1 AAATAAAATAAAAT
*
47278200 AAGATAAAATAAGAT
1 AA-ATAAAATAAAAT
47278215 AAATAA
1 AAATAA
47278221 TTGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:47291312 original size:28 final size:28
Alignment explanation
Indices: 47291252--47291313 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
47291242 ACTGATTTCA
*
47291252 CACACATAGTGCTCGATTAAAGAACTCG
1 CACACATAGTACTCGATTAAAGAACTCG
* * * * *
47291280 TACACATAGTACTCGGTTGAAGAGCTTG
1 CACACATAGTACTCGATTAAAGAACTCG
47291308 CACACA
1 CACACA
47291314 CAGTGCCTCA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (28 bp):
CACACATAGTACTCGATTAAAGAACTCG
Found at i:47291395 original size:40 final size:40
Alignment explanation
Indices: 47291351--47291529 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
47291341 CCTTCGAGGT
*
47291351 TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * *
47291391 TTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
47291431 TTAGCCCGGATATAACA-TCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACT-AGCACGAATGCTCTTCGGGAC
47291471 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
47291511 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
47291530 CTCAATTCTC
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 129 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:47291461 original size:80 final size:80
Alignment explanation
Indices: 47291329--47291529 Score: 291
Period size: 80 Copynumber: 2.5 Consensus size: 80
47291319 CCTCATAATT
* * * *
47291329 CCAGCATGAATGC-CTTCGAGG-TTTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGGACT
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGGACT
47291392 TAGCCCGGATATAACA
65 TAGCCCGGATATAACA
*
47291408 CCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAACA-TCAGCACGAATGCTCTTCGGGACT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT-AGCACGAATGCTCTTCGGGACT
*
47291472 TAGCCCGGATATATCA
65 TAGCCCGGATATAACA
* *
47291488 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
47291530 CTCAATTCTC
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
79 15 0.14
80 93 0.85
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGGACTT
AGCCCGGATATAACA
Found at i:47297329 original size:25 final size:25
Alignment explanation
Indices: 47297296--47297346 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
47297286 GTCTTCACAA
*
47297296 GTAAGTGATTTTAATGGCTTTTCTT
1 GTAAATGATTTTAATGGCTTTTCTT
47297321 GTAAATGATTTTAATGGCTTTTCTT
1 GTAAATGATTTTAATGGCTTTTCTT
47297346 G
1 G
47297347 AATATTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.51
Consensus pattern (25 bp):
GTAAATGATTTTAATGGCTTTTCTT
Found at i:47298226 original size:46 final size:44
Alignment explanation
Indices: 47298176--47298286 Score: 125
Period size: 46 Copynumber: 2.5 Consensus size: 44
47298166 GAGTGCTAGC
*
47298176 GTAAGACAAGTTTGGGACATGCATCGACCT-CGAGATGTAAGCCAGT
1 GTAAGACAAGTCTGGGACATGCATCG-CCTACGAGATGT--GCCAGT
* * *
47298222 GTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGT
1 GTAAGACAAGTCTGGGACATGCATCGCCTACGAGATGTGCCAGT
* *
47298266 GTAAGACCATGTCTAGGACAT
1 GTAAGA-CAAGTCTGGGACAT
47298287 CACATTAGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 11 0.19
45 15 0.26
46 32 0.55
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
GTAAGACAAGTCTGGGACATGCATCGCCTACGAGATGTGCCAGT
Found at i:47300162 original size:27 final size:27
Alignment explanation
Indices: 47300132--47300300 Score: 146
Period size: 27 Copynumber: 6.3 Consensus size: 27
47300122 TTTAGTTTAC
47300132 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
47300159 TAAAATTATTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * * *
47300186 TAAAATTAC-CAAAGTACCCCCGGTTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* ***
47300213 TAAAATTACCGAAATAGTGTCGA-TTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
47300239 TAAAATTACTAAAATGCCCTCAATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
47300266 TAAAATTAC-CAAAGTACCCTCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
*
47300293 CAAAATTA
1 TAAAATTA
47300301 TCGTTTTATC
Statistics
Matches: 109, Mismatches: 29, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
26 24 0.22
27 82 0.75
28 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:47300270 original size:53 final size:54
Alignment explanation
Indices: 47300132--47300288 Score: 167
Period size: 53 Copynumber: 2.9 Consensus size: 54
47300122 TTTAGTTTAC
* **
47300132 TAAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCTTCGACTTG
1 TAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCTTCGACTTG
* * * * * *
47300186 TAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAAATA-GTGTCGA-TTG
1 TAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCT-TCGACTTG
* * *
47300239 TAAAATTACTAAAATGCCCTCAATTTGTAAAATTACC-AAAGTACCCTCGA
1 TAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAA-TACCTTCGA
47300289 TTTACAAAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
52 3 0.04
53 40 0.49
54 39 0.48
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
TAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCTTCGACTTG
Found at i:47300272 original size:80 final size:81
Alignment explanation
Indices: 47300126--47300300 Score: 217
Period size: 80 Copynumber: 2.2 Consensus size: 81
47300116 GAATACTTTA
* * * * *
47300126 GTTTACTAAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAAATACCTTCGACTTGTAAAA
1 GTTTA-TAAAATTACCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAACTTGTAAAA
47300191 TTACCAAAGTACCCCCG
65 TTACCAAAGTACCCCCG
*** * *
47300208 GTTTATAAAATTACCGAAATAGTGTCGA-TTGTAAAATTACTAAAATGCCCTCAATTTGTAAAAT
1 GTTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAACTTGTAAAAT
*
47300272 TACCAAAGTACCCTCG
66 TACCAAAGTACCCCCG
* *
47300288 ATTTACAAAATTA
1 GTTTATAAAATTA
47300301 TCGTTTTATC
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 56 0.70
81 19 0.24
82 5 0.06
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (81 bp):
GTTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAACTTGTAAAAT
TACCAAAGTACCCCCG
Found at i:47300489 original size:54 final size:54
Alignment explanation
Indices: 47300280--47300479 Score: 262
Period size: 54 Copynumber: 3.7 Consensus size: 54
47300270 ATTACCAAAG
* * * *
47300280 TACCCTCGATTTAC-AAAATTATCGTTTTATCCTCGATTTACAGAATTATCATTT
1 TACCCTCGA-TTACTAGAATTACCGTTTTACCCTCGATTTATAGAATTATCATTT
* * *
47300334 TTCCCTCGATTCCTAGAATTACCATTTTACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTACTAGAATTACCGTTTTACCCTCGATTTATAGAATTATC-ATTT
* * *
47300388 TACCCTCGATTCCTAGAATTACTGTTTTACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTACTAGAATTACCGTTTTACCCTCGATTTATAGAATTATCATTT
47300442 TACCCTCGATTTAC-AGAATTACCGTTTTACCCTCGATT
1 TACCCTCGA-TTACTAGAATTACCGTTTTACCCTCGATT
47300480 AGGAAAATTA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 4 0.03
54 121 0.94
55 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTACTAGAATTACCGTTTTACCCTCGATTTATAGAATTATCATTT
Found at i:47300490 original size:27 final size:27
Alignment explanation
Indices: 47300280--47300479 Score: 238
Period size: 27 Copynumber: 7.4 Consensus size: 27
47300270 ATTACCAAAG
* * *
47300280 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
47300307 TATCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* ** *
47300334 TTCCCTCGATTCCTAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
**
47300361 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
** *
47300388 TACCCTCGATTCCTAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
47300415 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
47300442 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
47300469 TACCCTCGATT
1 TACCCTCGATT
47300480 AGGAAAATTA
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:47300499 original size:27 final size:28
Alignment explanation
Indices: 47300469--47300555 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 28
47300459 ATTACCGTTT
*
47300469 TACCCTC-GATTAGGAAAATTACAAAAA
1 TACCCTCTGATTAGCAAAATTACAAAAA
* * * *
47300496 TA-CCTCTGGTTTGTAAAATTACCAAAA
1 TACCCTCTGATTAGCAAAATTACAAAAA
*
47300523 TACCC-CTGATTTA-CAAAATTACAGAAA
1 TACCCTCTGA-TTAGCAAAATTACAAAAA
47300550 TACCCT
1 TACCCT
47300556 TGACTTTCTA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
26 4 0.09
27 39 0.83
28 4 0.09
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (28 bp):
TACCCTCTGATTAGCAAAATTACAAAAA
Found at i:47300605 original size:27 final size:27
Alignment explanation
Indices: 47300483--47300617 Score: 114
Period size: 27 Copynumber: 4.9 Consensus size: 27
47300473 CTCGATTAGG
* **
47300483 AAAATTACAAAAATA-CCTCTGGTTTGT
1 AAAATTACAGAAATACCCT-TGGTTTAC
* *
47300510 AAAATTACCA-AAATACCCCTGATTTAC
1 AAAATTA-CAGAAATACCCTTGGTTTAC
*
47300537 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACAGAAATACCCTTG-GTTTAC
* *
47300564 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTACAGAAATACCCTTGGTTTAC
* *
47300593 AAAATTACTGAAATACCCCTGGTTT
1 AAAATTACAGAAATACCCTTGGTTT
47300618 GTAGATTTAC
Statistics
Matches: 88, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
26 2 0.02
27 56 0.64
28 10 0.11
29 20 0.23
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTGGTTTAC
Found at i:47300701 original size:27 final size:27
Alignment explanation
Indices: 47300671--47300762 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
47300661 ACCCCTATTA
*
47300671 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * * *
47300698 GGTAAAGTGATCATAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
47300725 GGTAAAGTGACCGTAAAGCCCCTGTAT
1 GGTAAAATGACCGTAAAGCCCCTGTAG
47300752 GGTAAAATGAC
1 GGTAAAATGAC
47300763 AAATATGCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:47301592 original size:26 final size:26
Alignment explanation
Indices: 47301563--47301805 Score: 294
Period size: 26 Copynumber: 9.3 Consensus size: 26
47301553 GAGGAAGTGC
* *
47301563 AAAAGGGATTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
47301589 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
*
47301616 AAAATGGCTTATGCCCCAGTTTATTGG
1 AAAAGGGCTTATGCCCCAGTTTATT-G
* **
47301643 AAAGGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
47301669 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
47301695 GAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
47301721 ACTGGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
47301747 AAAAGGGCTTACGCCCCAGTTTA-CC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
47301772 AAAAGGGCTTTTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
47301796 AAAAGAGGCT
1 AAAAG-GGCT
47301806 AGGCCTCTAG
Statistics
Matches: 185, Mismatches: 28, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
24 8 0.04
25 21 0.11
26 110 0.59
27 46 0.25
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:47301651 original size:53 final size:53
Alignment explanation
Indices: 47301563--47301792 Score: 331
Period size: 53 Copynumber: 4.4 Consensus size: 53
47301553 GAGGAAGTGC
* * * **
47301563 AAAAGGGATTATGCCCTAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTGGAAAAGGGCTTATGCCCCAGTTTACCG
* *
47301616 AAAATGGCTTATGCCCCAGTTTATTGGAAAGGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGGAAAAGGGCTTATGCCCCAGTTTACCG
47301669 AAAAGGGCTTATGCCCCAGTTTATTGG-AAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGGAAAAGGGCTTATGCCCCAGTTTACCG
*** *
47301721 ACTGGGGCTTATGCCCCAGTTTATT-GAAAAGGGCTTACGCCCCAGTTTACC-
1 AAAAGGGCTTATGCCCCAGTTTATTGGAAAAGGGCTTATGCCCCAGTTTACCG
*
47301772 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
47301793 ATTAAAAGAG
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
51 18 0.11
52 69 0.43
53 72 0.45
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (53 bp):
AAAAGGGCTTATGCCCCAGTTTATTGGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:47301729 original size:52 final size:52
Alignment explanation
Indices: 47301563--47301805 Score: 330
Period size: 52 Copynumber: 4.7 Consensus size: 52
47301553 GAGGAAGTGC
* * **
47301563 AAAAGGGATTATGCCCTAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTACCG
* *
47301616 AAAATGGCTTATGCCCCAGTTTATTGGAAAGGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATT-GAAAAGGGCTTATGCCCCAGTTTACCG
*
47301669 AAAAGGGCTTATGCCCCAGTTTATTGGAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*** *
47301721 ACTGGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTACGCCCCAGTTTACC-
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
47301772 AAAAGGGCTTTTGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
47301806 AGGCCTCTAG
Statistics
Matches: 170, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
49 5 0.03
50 9 0.05
51 15 0.09
52 71 0.42
53 69 0.41
54 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:47307476 original size:43 final size:44
Alignment explanation
Indices: 47307413--47307601 Score: 244
Period size: 43 Copynumber: 4.4 Consensus size: 44
47307403 TTCAACGAAC
* *
47307413 TTGCACACTTAGTGCTAATTAATTAATC-GAAGCTATAATTGTA
1 TTGCACACTTAGTGCCAATTAATTAAGCGGAAGCTATAATTGTA
47307456 TTGCACACTTAGTGCCAATTAATT-AGCGGAAGCTATAATTGTA
1 TTGCACACTTAGTGCCAATTAATTAAGCGGAAGCTATAATTGTA
* * *
47307499 TCGCACACTTAGTGCCAATTAA-TAAGCTGAAGCTATAATTATA
1 TTGCACACTTAGTGCCAATTAATTAAGCGGAAGCTATAATTGTA
* * * *
47307542 TTGCACACTTAGTCCCAACTT-AGT-AGCCGAAACTATAATTGTA
1 TTGCACACTTAGTGCCAA-TTAATTAAGCGGAAGCTATAATTGTA
*
47307585 TCGCACACTTAGTGCCA
1 TTGCACACTTAGTGCCA
47307602 TTACGTTAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
42 3 0.02
43 124 0.95
44 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (44 bp):
TTGCACACTTAGTGCCAATTAATTAAGCGGAAGCTATAATTGTA
Found at i:47307578 original size:86 final size:86
Alignment explanation
Indices: 47307415--47307601 Score: 279
Period size: 86 Copynumber: 2.2 Consensus size: 86
47307405 CAACGAACTT
* * * * *
47307415 GCACACTTAGTGCTAATTAATTAATCGAAGCTATAATTGTATTGCACACTTAGTGCCAATTAATT
1 GCACACTTAGTGCCAATTAATTAAGCGAAGCTATAATTATATTGCACACTTAGTCCCAATTAAGT
* *
47307480 AGCGGAAGCTATAATTGTATC
66 AGCCGAAACTATAATTGTATC
47307501 GCACACTTAGTGCCAATTAA-TAAGCTGAAGCTATAATTATATTGCACACTTAGTCCCAACTT-A
1 GCACACTTAGTGCCAATTAATTAAGC-GAAGCTATAATTATATTGCACACTTAGTCCCAA-TTAA
47307564 GTAGCCGAAACTATAATTGTATC
64 GTAGCCGAAACTATAATTGTATC
47307587 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47307602 TTACGTTAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
85 4 0.04
86 86 0.93
87 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (86 bp):
GCACACTTAGTGCCAATTAATTAAGCGAAGCTATAATTATATTGCACACTTAGTCCCAATTAAGT
AGCCGAAACTATAATTGTATC
Found at i:47312172 original size:46 final size:46
Alignment explanation
Indices: 47312105--47312233 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
47312095 TGTAACCCGC
** * ***
47312105 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47312151 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
47312197 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47312234 TGCCCAAACA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47312252 original size:46 final size:45
Alignment explanation
Indices: 47312114--47312252 Score: 129
Period size: 46 Copynumber: 3.0 Consensus size: 45
47312104 CCCATAAGCA
* * ** *
47312114 AACTCGGACTCAACTCAACGAGCTCGGGTGTTC-GCATCCATAGGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC-TA-GTG
**** *
47312160 AACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC-T-AGTG
47312206 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCTAGTG
47312252 A
1 A
47312253 CATGTCACTT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
46 74 0.91
47 2 0.02
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCTAGTG
Found at i:47315793 original size:16 final size:16
Alignment explanation
Indices: 47315774--47315828 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
47315764 GAATAGAGAA
47315774 AGAGAAGAACAATCCT
1 AGAGAAGAACAATCCT
*
47315790 AGAGAATAACAA----
1 AGAGAAGAACAATCCT
47315802 AGAGAAGAACAATCCT
1 AGAGAAGAACAATCCT
*
47315818 AGAGAATAACA
1 AGAGAAGAACA
47315829 TCACTTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 11 0.34
16 21 0.66
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.11
Consensus pattern (16 bp):
AGAGAAGAACAATCCT
Found at i:47315810 original size:28 final size:28
Alignment explanation
Indices: 47315763--47315828 Score: 114
Period size: 28 Copynumber: 2.3 Consensus size: 28
47315753 TGATGAAGAA
*
47315763 AGAATAGAGAAAGAGAAGAACAATCCTAG
1 AGAATA-ACAAAGAGAAGAACAATCCTAG
47315792 AGAATAACAAAGAGAAGAACAATCCTAG
1 AGAATAACAAAGAGAAGAACAATCCTAG
47315820 AGAATAACA
1 AGAATAACA
47315829 TCACTTCCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 30 0.83
29 6 0.17
ACGTcount: A:0.58, C:0.12, G:0.20, T:0.11
Consensus pattern (28 bp):
AGAATAACAAAGAGAAGAACAATCCTAG
Found at i:47322188 original size:22 final size:19
Alignment explanation
Indices: 47322138--47322178 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
47322128 GACATCCATA
47322138 ATAAGCTTAAATGTTTATT
1 ATAAGCTTAAATGTTTATT
47322157 ATAAGCTTAAATGTTTATT
1 ATAAGCTTAAATGTTTATT
47322176 ATA
1 ATA
47322179 CTAAGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (19 bp):
ATAAGCTTAAATGTTTATT
Found at i:47324609 original size:26 final size:25
Alignment explanation
Indices: 47324555--47324606 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
47324545 TTGAATTTTA
*
47324555 TTTAATATTTTTTCATTTATGTAAT
1 TTTAATATTTTTTCATTTATATAAT
47324580 TTTAATTATTTTTT-ATTT-TATAAT
1 TTTAA-TATTTTTTCATTTATATAAT
47324604 TTT
1 TTT
47324607 TTATCATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 9 0.36
26 8 0.32
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTAATATTTTTTCATTTATATAAT
Found at i:47340248 original size:26 final size:26
Alignment explanation
Indices: 47340217--47340272 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
47340207 GAAGCTTCAG
47340217 AGAGCCATTAATTAAGAAGCTCACAA
1 AGAGCCATTAATTAAGAAGCTCACAA
* **
47340243 AGAGCCTTTAATTGGGAAGCTCACAA
1 AGAGCCATTAATTAAGAAGCTCACAA
47340269 AGAG
1 AGAG
47340273 ACATATAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATTAAGAAGCTCACAA
Found at i:47340294 original size:25 final size:26
Alignment explanation
Indices: 47340232--47340294 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
47340222 CATTAATTAA
* * *
47340232 GAAGCTCACAAAGAGCCTTTAATTGG
1 GAAGCTCACAAAGAGCATATAATCGG
47340258 GAAGCTCACAAAGAGACATATAA-CGG
1 GAAGCTCACAAAGAG-CATATAATCGG
47340284 G-AGCTCACAAA
1 GAAGCTCACAAA
47340295 AGTTGTGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.30
26 18 0.55
27 5 0.15
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCATATAATCGG
Found at i:47340334 original size:23 final size:23
Alignment explanation
Indices: 47340308--47340352 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47340298 TGTGGTGTGC
*
47340308 CCACAACAAATGCAAGATCACGG
1 CCACAACAAATGAAAGATCACGG
*
47340331 CCACAACACATGAAAGATCACG
1 CCACAACAAATGAAAGATCACG
47340353 ACCGATCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.31, G:0.16, T:0.09
Consensus pattern (23 bp):
CCACAACAAATGAAAGATCACGG
Found at i:47348041 original size:21 final size:20
Alignment explanation
Indices: 47348017--47348055 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
47348007 GGACTATACT
47348017 AGAAACTCAAAGAATTTTTTC
1 AGAAACTCAAA-AATTTTTTC
* *
47348038 AGAAATTCCAAAATTTTT
1 AGAAACTCAAAAATTTTT
47348056 CTTAAATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (20 bp):
AGAAACTCAAAAATTTTTTC
Found at i:47349639 original size:24 final size:25
Alignment explanation
Indices: 47349612--47349659 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
47349602 TATCAAGGGA
*
47349612 GCTCATAAGAGCTAT-TAACAGGAC
1 GCTCATAAGAACTATATAACAGGAC
*
47349636 GCTCGTAAGAACTATATAACAGGA
1 GCTCATAAGAACTATATAACAGGA
47349660 ACCTCGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (25 bp):
GCTCATAAGAACTATATAACAGGAC
Found at i:47349665 original size:25 final size:26
Alignment explanation
Indices: 47349612--47349689 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 26
47349602 TATCAAGGGA
* *
47349612 GCTCATAAGAGCTAT-TAACAGG-AC
1 GCTCGTAAGAACTATATAACAGGAAC
47349636 GCTCGTAAGAACTATATAACAGGAAC
1 GCTCGTAAGAACTATATAACAGGAAC
* * *
47349662 -CTCGCAAAAACCATATAACAGGAA-
1 GCTCGTAAGAACTATATAACAGGAAC
47349686 GCTC
1 GCTC
47349690 TAGAGGGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.28
25 31 0.67
26 2 0.04
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (26 bp):
GCTCGTAAGAACTATATAACAGGAAC
Found at i:47351209 original size:18 final size:18
Alignment explanation
Indices: 47351178--47351216 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
47351168 ATGCCATGTG
*
47351178 TGTATTCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
47351196 TGTATCCTATCCCTTATA
1 TGTATCCTAACCCTTATA
47351214 TGT
1 TGT
47351217 TTCTTTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:47367936 original size:62 final size:60
Alignment explanation
Indices: 47367820--47367936 Score: 137
Period size: 62 Copynumber: 1.9 Consensus size: 60
47367810 TTGTACAAAC
* * ****
47367820 TATTTTTATATTATTTCATTTAATAAAATAAAATTTGTTTTGAATATTTTAATAGTCAAT
1 TATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGTCAAT
*
47367880 TATTTTTATATT-TTGTCCTATTTAATAAAATAGAAGTTCTTTTGAATAAGGCAATAG
1 TATTTTTATATTATT-T-C-ATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
47367937 AAATTATGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.04
60 13 0.28
61 1 0.02
62 31 0.66
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.50
Consensus pattern (60 bp):
TATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGTCAAT
Found at i:47384792 original size:40 final size:40
Alignment explanation
Indices: 47384709--47384886 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
47384699 AAGCCAAGTA
* * * * * *
47384709 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
47384748 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47384788 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
47384828 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47384868 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47384887 TTATCATCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 13 0.10
40 112 0.90
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47387260 original size:41 final size:40
Alignment explanation
Indices: 47387133--47387277 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
47387123 CTCGCACAAG
* * * * * *
47387133 GCCTTTGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
47387173 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
47387213 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
47387254 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
47387278 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:47388508 original size:38 final size:38
Alignment explanation
Indices: 47388466--47388541 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
47388456 CAAGAACTCC
*
47388466 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
47388504 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
47388542 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
Found at i:47409059 original size:5 final size:5
Alignment explanation
Indices: 47409049--47409090 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
47409039 AATGCCAACC
47409049 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
47409091 TTTATTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:47410147 original size:125 final size:125
Alignment explanation
Indices: 47409790--47410305 Score: 510
Period size: 124 Copynumber: 4.1 Consensus size: 125
47409780 AAACAGGAAT
* * * * *
47409790 TACTGTAGAAAAAGAG-TGTCCACGTGGGATCTTTTTTCAGTATTTTTGCTGACAATGCATCCTG
1 TACTGTAGAAAAAAAGAT-T-CACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTG
* * * *** *
47409854 CTTGAAGCGTTTTTGACACT-GTTTTTTCATAACAGTCTTCTCAAAA-AAAAATTT-AGGAAC
64 CTTGAAGCGTTTTTGAAACTAG-TTTTTCATAACCGTCTTCTCAAAATTATTTTTTCAAGAAC
* ** * *
47409914 TACTGTAGAAAAAGAATATTCACGTGGGAGCTTTTTTCAGTAATTTCGCTAAAAGTGCATCCTGC
1 TACTGTAGAAAAA-AAGATTCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGC
** * * *
47409979 TTGAA--GTTTTTGGCATTATTTTTTCATAATCGTCTTCTCAAAATTATTTTTTCAAGAAC
65 TTGAAGCGTTTTTGAAACTAGTTTTTCATAACCGTCTTCTCAAAATTATTTTTTCAAGAAC
* * ** *
47410038 TACTGCAGAAAAAAAGAGTCTAAATGGGA-TTTTTTTCAGTAATTTTACTGACAGTGCATCCTGC
1 TACTGTAGAAAAAAAGATTC-ACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGC
* *
47410102 TTGAAGCGTTTTTGAAACTAGTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
65 TTGAAGCGTTTTTGAAACTAGTTTTTCATAACCGTCTTCTCAAAATTATTTTTTCAAGAAC
* * * * * *
47410163 TACAGTAGAAAAAGAGCTTCCACGTGGAAGCTTTTTTCAGTAATGTTACTGACAGTACATCCTGC
1 TACTGTAGAAAAAAAGATT-CACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGC
* * * * **
47410228 TTGAAGTGTTTTTGAAACATTA-TCTTTTCAGAATCGTTTTCTCAAAATTAATTTTTTTGA-AAC
65 TTGAAGCGTTTTTGAAAC--TAGT-TTTTCATAACCGTCTTCTCAAAATT-ATTTTTTCAAGAAC
47410291 TACTGTAGAAAAAAA
1 TACTGTAGAAAAAAA
47410306 AACAAAATCC
Statistics
Matches: 323, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
122 32 0.10
123 44 0.14
124 80 0.25
125 68 0.21
126 51 0.16
127 1 0.00
128 40 0.12
129 7 0.02
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (125 bp):
TACTGTAGAAAAAAAGATTCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGCT
TGAAGCGTTTTTGAAACTAGTTTTTCATAACCGTCTTCTCAAAATTATTTTTTCAAGAAC
Found at i:47410407 original size:34 final size:32
Alignment explanation
Indices: 47410360--47410494 Score: 117
Period size: 34 Copynumber: 4.0 Consensus size: 32
47410350 CTAAACACAA
*
47410360 AATTATTTTTTAAAAAAACTAGACCCTAATTT
1 AATTATTTTTTAAAAAAACTAAACCCTAATTT
** **
47410392 AATTAATTTTCTTAAAAACTCTAAACTATAATTT
1 AATT-ATTTT-TTAAAAAAACTAAACCCTAATTT
*** *
47410426 AATTTATTTATTTAAAACCCCTAAAACCTAATTT
1 AA-TTATTT-TTTAAAAAAACTAAACCCTAATTT
* *
47410460 AATTATTTTTAAAAAAAACCCTAAACCTTAATTT
1 AATTATTTTTTAAAAAAA--CTAAACCCTAATTT
47410494 A
1 A
47410495 TTTTTAAAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
32 10 0.12
33 11 0.14
34 57 0.70
35 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (32 bp):
AATTATTTTTTAAAAAAACTAAACCCTAATTT
Found at i:47412095 original size:270 final size:270
Alignment explanation
Indices: 47411614--47413073 Score: 2861
Period size: 270 Copynumber: 5.4 Consensus size: 270
47411604 ACCAGAAGTG
47411614 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
1 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
47411679 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
66 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
47411744 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
131 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
47411809 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
196 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
47411874 CACTGGGATA
261 CACTGGGATA
47411884 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
1 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
47411949 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
66 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
47412014 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
131 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
47412079 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
196 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
47412144 CACTGGGATA
261 CACTGGGATA
47412154 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
1 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
47412219 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
66 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
47412284 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
131 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
47412349 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
196 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
47412414 CACTGGGATA
261 CACTGGGATA
47412424 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
1 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
47412489 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
66 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
47412554 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
131 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
47412619 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
196 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
47412684 CACTGGGATA
261 CACTGGGATA
*
47412694 TATTTTTATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
1 TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
47412759 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAG--TATATATATAT
66 ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
47412822 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
131 ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
47412887 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
196 TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
*
47412952 CATTGGGATA
261 CACTGGGATA
* *
47412962 TATTTTATATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAACCGTA
1 TATTTT-CATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTA
47413027 AATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAG
65 AATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAG
47413074 ATGGACGACG
Statistics
Matches: 1186, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
268 156 0.13
269 104 0.09
270 926 0.78
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (270 bp):
TATTTTCATATATATATATAATATTATATTAGAGACTTTTAAATATATCTATAAAATAATCGTAA
ATTTAAAATATATATACACCATTTAATAAATTATAGATGAGTTTAGTTCAAGTATATATATATAT
ACACAATATATTTGATTTTTCAAATTCTTAAAATAAATTCAAGTATTTAGTTCTTTAAATCAATT
TCTAACACTTTTTTCTCTCATAAATATTTTTGTATATTTTTATTTTTATTTTAAAATATAAATGT
CACTGGGATA
Found at i:47413713 original size:25 final size:25
Alignment explanation
Indices: 47413681--47413728 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
47413671 TTATATGTAT
47413681 AAAATATA-TGT-TATTATGAAATTA
1 AAAATATATTGTATA-TATGAAATTA
47413705 AAAATTATATTGTATATATGAAAT
1 AAAA-TATATTGTATATATGAAAT
47413729 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 11 0.52
27 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (25 bp):
AAAATATATTGTATATATGAAATTA
Found at i:47421227 original size:24 final size:24
Alignment explanation
Indices: 47421200--47421300 Score: 130
Period size: 24 Copynumber: 4.2 Consensus size: 24
47421190 GAAGGCTGTC
47421200 AGGAGAAGATTTAGGAGCTGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* *
47421224 AGGAGAGGATTTAGGAGATGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* * *
47421248 GGGAGAGGATTTAGGAGCTAATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* * *
47421272 AGGAGAATATTTAAGAGCTGATCA
1 AGGAGAAGATTTAGGAGCTGATAA
47421296 AGGAG
1 AGGAG
47421301 CAGGAGTTGG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.21
Consensus pattern (24 bp):
AGGAGAAGATTTAGGAGCTGATAA
Found at i:47421239 original size:12 final size:12
Alignment explanation
Indices: 47421200--47421264 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
47421190 GAAGGCTGTC
*
47421200 AGGAGAAGATTT
1 AGGAGAGGATTT
** **
47421212 AGGAGCTGATAA
1 AGGAGAGGATTT
47421224 AGGAGAGGATTT
1 AGGAGAGGATTT
* *
47421236 AGGAGATGA-TA
1 AGGAGAGGATTT
47421247 AGGGAGAGGATTT
1 A-GGAGAGGATTT
47421260 AGGAG
1 AGGAG
47421265 CTAATAAAGG
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
11 2 0.05
12 35 0.90
13 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.40, T:0.20
Consensus pattern (12 bp):
AGGAGAGGATTT
Found at i:47426255 original size:33 final size:34
Alignment explanation
Indices: 47426178--47426258 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
47426168 TTACAGCCGT
* *
47426178 ACTGTCATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTAATCTGAATAAGGGGCTAAGGCCCAGTTC
* **
47426212 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTAATCTGAATAAGGGGCTAAGGCCCAGT-TC
*
47426245 ACTGTTATCTGAAT
1 ACTGTAATCTGAAT
47426259 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (34 bp):
ACTGTAATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:47426270 original size:32 final size:32
Alignment explanation
Indices: 47426184--47426270 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 32
47426174 CCGTACTGTC
* *
47426184 ATCTGAATAAGGGGCTAAGGCCCAGTTTAATGTA
1 ATCTGAA-AA-GGGCTTAGGCCCAGTTCAATGTA
* *
47426218 ATCTGAAAAGGGCTCT-GGCCCAGTATCACTGTT
1 ATCTGAAAAGGGCT-TAGGCCCAGT-TCAATGTA
*
47426251 ATCTG-AATGGGCTTAGGCCC
1 ATCTGAAAAGGGCTTAGGCCC
47426271 GATGGGCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
31 1 0.02
32 25 0.56
33 12 0.27
34 7 0.16
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (32 bp):
ATCTGAAAAGGGCTTAGGCCCAGTTCAATGTA
Found at i:47430667 original size:21 final size:21
Alignment explanation
Indices: 47430643--47430682 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47430633 CAATAATACG
* *
47430643 AGATAATCTATTTTAGGAAAT
1 AGATAATATATTGTAGGAAAT
47430664 AGATAATATATTGTAGGAA
1 AGATAATATATTGTAGGAA
47430683 GTCAAGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (21 bp):
AGATAATATATTGTAGGAAAT
Found at i:47435521 original size:22 final size:24
Alignment explanation
Indices: 47435496--47435551 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
47435486 ATAATTTTCA
*
47435496 ATATTATTATA-AATACA-TATTT
1 ATATTATTATATAATAAATTATTT
47435518 ATATTTAATTATATAATAAATTATTT
1 ATA-TT-ATTATATAATAAATTATTT
47435544 ACTATTAT
1 A-TATTAT
47435552 AATTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 3 0.11
23 2 0.07
24 6 0.21
25 7 0.25
26 8 0.29
27 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTATTATATAATAAATTATTT
Found at i:47435566 original size:28 final size:26
Alignment explanation
Indices: 47435501--47435555 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 26
47435491 TTTCAATATT
*
47435501 ATTATA-AATACA-TATTTATATTTA
1 ATTATATAATAAATTATTTATATTTA
47435525 ATTATATAATAAATTATTTACTATTATA
1 ATTATATAATAAATTATTTA-TATT-TA
47435553 ATT
1 ATT
47435556 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 5 0.19
26 6 0.23
27 4 0.15
28 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTATATAATAAATTATTTATATTTA
Found at i:47435571 original size:18 final size:18
Alignment explanation
Indices: 47435550--47435595 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
47435540 ATTTACTATT
*
47435550 ATAATTTTATTTTAAATA
1 ATAATTTTATTATAAATA
* * *
47435568 ATAAATTTAATATGAATA
1 ATAATTTTATTATAAATA
47435586 ATAATTTTAT
1 ATAATTTTAT
47435596 ATTCTGAGAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATAATTTTATTATAAATA
Found at i:47438416 original size:41 final size:41
Alignment explanation
Indices: 47438371--47438465 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
47438361 AAAAAATAAC
*
47438371 TTATATGTTATAAAAATGTTATAATATAATTATTTGTAAAT
1 TTATATGTTATAAAAATGTTATAATATAATTATTTGTAAAA
* *
47438412 TTATATGTTATACAAATGTTATAATATACTTATTTGTAAAA
1 TTATATGTTATAAAAATGTTATAATATAATTATTTGTAAAA
* *
47438453 ATAAATGTTATAA
1 TTATATGTTATAA
47438466 TTTTTTCCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (41 bp):
TTATATGTTATAAAAATGTTATAATATAATTATTTGTAAAA
Found at i:47438608 original size:22 final size:20
Alignment explanation
Indices: 47438572--47438611 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
47438562 GGTATATATA
47438572 TTATAAATTTTGTATTATTT
1 TTATAAATTTTGTATTATTT
47438592 TTATATAATTTTGGTATTAT
1 TTATA-AATTTT-GTATTAT
47438612 AAAAAGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTATAAATTTTGTATTATTT
Found at i:47440680 original size:43 final size:43
Alignment explanation
Indices: 47440615--47440870 Score: 309
Period size: 43 Copynumber: 6.0 Consensus size: 43
47440605 ATATCGTACA
*
47440615 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATAGTCTTACATGTAATCACATATCG
* *
47440658 ATGCTAACGTCCTAGACATAGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATAGTCTTACATGTAATCACATATCG
* ** *
47440701 ATGCC-ACTGTCTCAGACAGGGTCTTACATGTAATCACATATTG
1 ATGCCAAC-GTCCCAGACATAGTCTTACATGTAATCACATATCG
* * **
47440744 ATGCCAACGTCCCAGACGTAGTCTTATACATAATCACATATCG
1 ATGCCAACGTCCCAGACATAGTCTTACATGTAATCACATATCG
* * * *
47440787 ATGCCAACATCCCAAACTTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATAGTCTTACATGTAATCACATATCG
* ** *
47440830 ATGCC-ACTGTCCCAGAAAGGGTCTTACACGTAATCACATAT
1 ATGCCAAC-GTCCCAGACATAGTCTTACATGTAATCACATAT
47440871 TGAAAATCCT
Statistics
Matches: 180, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
42 4 0.02
43 174 0.97
44 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATAGTCTTACATGTAATCACATATCG
Found at i:47440851 original size:129 final size:129
Alignment explanation
Indices: 47440615--47440873 Score: 410
Period size: 129 Copynumber: 2.0 Consensus size: 129
47440605 ATATCGTACA
** * * * *
47440615 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCACATATCGATGCTAACGTCCTAGACATAGT
1 ATGCCAACGTCCCAGACGTAGTCTTACACATAATCACATATCGATGCCAACATCCCAAACATAGT
* * *
47440680 CTTACATGTAATCACATATCGATGCCACTGTCTCAGACAGGGTCTTACATGTAATCACATATTG
66 CTTACATGTAATCACATATCGATGCCACTGTCCCAGAAAGGGTCTTACACGTAATCACATATTG
* * *
47440744 ATGCCAACGTCCCAGACGTAGTCTTATACATAATCACATATCGATGCCAACATCCCAAACTTGGT
1 ATGCCAACGTCCCAGACGTAGTCTTACACATAATCACATATCGATGCCAACATCCCAAACATAGT
47440809 CTTACATGTAATCACATATCGATGCCACTGTCCCAGAAAGGGTCTTACACGTAATCACATATTG
66 CTTACATGTAATCACATATCGATGCCACTGTCCCAGAAAGGGTCTTACACGTAATCACATATTG
47440873 A
1 A
47440874 AAATCCTATG
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 118 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (129 bp):
ATGCCAACGTCCCAGACGTAGTCTTACACATAATCACATATCGATGCCAACATCCCAAACATAGT
CTTACATGTAATCACATATCGATGCCACTGTCCCAGAAAGGGTCTTACACGTAATCACATATTG
Found at i:47442283 original size:17 final size:17
Alignment explanation
Indices: 47442261--47442301 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
47442251 TTCGCCATTT
47442261 GGCGAACTCT-AGGATTC
1 GGCGAACTCTAAGG-TTC
*
47442278 GGCGAACTCTAAGGTTT
1 GGCGAACTCTAAGGTTC
47442295 GGCGAAC
1 GGCGAAC
47442302 CCTTCTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (17 bp):
GGCGAACTCTAAGGTTC
Found at i:47454061 original size:40 final size:40
Alignment explanation
Indices: 47454015--47454178 Score: 267
Period size: 40 Copynumber: 4.1 Consensus size: 40
47454005 CGGAATTTAA
* *
47454015 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
47454055 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47454095 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47454135 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
47454175 CCGG
1 CCGG
47454179 TTATCATCCG
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.01
40 117 0.99
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47465912 original size:40 final size:40
Alignment explanation
Indices: 47465814--47465983 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
47465804 TCCTCGTTCA
* * * *
47465814 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
47465853 AATGCCTTCGGGACATAACCCGGATTTAACAACTTGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
47465893 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
47465933 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
47465973 AAGGCCTTCGG
1 AATGCCTTCGG
47465984 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:47465915 original size:79 final size:80
Alignment explanation
Indices: 47465814--47465960 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
47465804 TCCTCGTTCA
* * *
47465814 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
47465878 TTAACAACTTGCACG
66 TTAACAACTTGCACG
* * *
47465893 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
47465958 TTA
66 TTA
47465961 GTATCTCGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 34 0.56
80 27 0.44
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTTGCACG
Found at i:47465980 original size:80 final size:79
Alignment explanation
Indices: 47465812--47466036 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
47465802 GCTCCTCGTT
* * * * *
47465812 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
*
47465877 TTTAACAACTTGCA
66 TTTAACAACTCGCA
* *
47465891 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
47465956 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * * *
47465971 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
47466035 GA
64 GA
47466037 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 38 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:47465996 original size:40 final size:40
Alignment explanation
Indices: 47465812--47466036 Score: 204
Period size: 40 Copynumber: 5.7 Consensus size: 40
47465802 GCTCCTCGTT
* * * * * *
47465812 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
47465852 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTTGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
47465891 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
47465931 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
47465971 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
47466012 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
47466037 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.22
40 113 0.71
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:47466036 original size:120 final size:119
Alignment explanation
Indices: 47465814--47466036 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
47465804 TCCTCGTTCA
* * * *
47465814 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
*
47465879 TAACAACTTGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTTGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
47465933 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
47465997 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAACTT-GCACGAAAGCCTTCGGGACTTAACCCGGA
47466037 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 45 0.52
121 5 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTTGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:47466045 original size:41 final size:41
Alignment explanation
Indices: 47465968--47466045 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
47465958 TTAGTATCTC
* * *
47465968 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
47466009 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
47466046 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:47466515 original size:127 final size:127
Alignment explanation
Indices: 47466289--47466541 Score: 479
Period size: 127 Copynumber: 2.0 Consensus size: 127
47466279 TTCCCCTTTT
47466289 CTCTTAAGCTTAATCAAACAAATAAATTGATTTCATCATTTAGGCATCAAAAAGATGAACAAAAG
1 CTCTTAAGCTTAATCAAACAAATAAATTGATTTCATCATTTAGGCATCAAAAAGATGAACAAAAG
47466354 GCACTTAGCCCATATTTATACATTAGACATTAAAGTCTCATACATGCAAAAATCATGCATCG
66 GCACTTAGCCCATATTTATACATTAGACATTAAAGTCTCATACATGCAAAAATCATGCATCG
* * *
47466416 CTCTTGAGCTTAATCAAACAAATAAATTGATTTCATCATTTTGGCATCAAAAAGATGAACACAAG
1 CTCTTAAGCTTAATCAAACAAATAAATTGATTTCATCATTTAGGCATCAAAAAGATGAACAAAAG
47466481 GCACTTAGCCCATATTTATACATTAGACATTAAAGTCTCATACATGCAAAAATCATGCATC
66 GCACTTAGCCCATATTTATACATTAGACATTAAAGTCTCATACATGCAAAAATCATGCATC
47466542 AACACAACAT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (127 bp):
CTCTTAAGCTTAATCAAACAAATAAATTGATTTCATCATTTAGGCATCAAAAAGATGAACAAAAG
GCACTTAGCCCATATTTATACATTAGACATTAAAGTCTCATACATGCAAAAATCATGCATCG
Found at i:47474208 original size:40 final size:40
Alignment explanation
Indices: 47474108--47474279 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
47474098 GCTCCTCGTT
* * *
47474108 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
47474148 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGTA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
47474187 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
47474227 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
47474267 CAAATGCCTTCGG
1 CAAATGCCTTCGG
47474280 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:47482161 original size:40 final size:40
Alignment explanation
Indices: 47482065--47482329 Score: 277
Period size: 40 Copynumber: 6.7 Consensus size: 40
47482055 GCTCCTCGTT
* * * *
47482065 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
47482105 C-AACGCCTTCGGGACTTAACCCAGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
47482144 CGAATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
47482184 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
47482224 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
47482264 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
47482305 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
47482330 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
39 37 0.19
40 141 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:47482289 original size:120 final size:119
Alignment explanation
Indices: 47482067--47482329 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
47482057 TCCTCGTTCA
* *
47482067 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAACGCCTTCGGGACTTAACCCAGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAACGCCTTCGGGACTTAACCCAGATT
* * *
47482132 TAATAACTCGCACGAATGCCTTCGAGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAATAACTTAGCAC
* * * * * *
47482185 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AACGCCTTCGGGACTTAACCCAG-
* * ** * *
47482250 ATTT-GTATCTCGCACAAATGCCTTCG-GATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGAGA-CTTAACCCGGATATAATAACTTAGCAC
*
47482306 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
47482330 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 36 0.30
120 76 0.63
121 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAACGCCTTCGGGACTTAACCCAGATT
TAATAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAATAACTTAGCAC
Found at i:47482338 original size:41 final size:41
Alignment explanation
Indices: 47482261--47482338 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
47482251 TTTGTATCTC
* * *
47482261 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
47482302 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
47482339 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:47484181 original size:48 final size:48
Alignment explanation
Indices: 47484112--47484304 Score: 264
Period size: 48 Copynumber: 4.0 Consensus size: 48
47484102 TAAGATTATG
* *
47484112 TGTGATCCCATGTAAGACCATGACTAGGACATGGCATTAGCATCGATA
1 TGTGATCCCATGTAAGACCATGACTGGGACATGGCATTGGCATCGATA
* * * *
47484160 TGTGATCCCATATAAGACCATGTCTGGGACATCGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGACTGGGACATGGCATTGGCATCGATA
**
47484208 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGACTGGGACATGGCATTGGCATCGATA
* * *
47484256 TGGGATCCCA-GTAAGACCAT-ATCTGTGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGA-CTGGGACATGGCATTGGCATCGATA
47484303 TG
1 TG
47484305 GGACATCGTG
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
47 34 0.26
48 95 0.74
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGACTGGGACATGGCATTGGCATCGATA
Found at i:47490777 original size:56 final size:56
Alignment explanation
Indices: 47490717--47491033 Score: 309
Period size: 56 Copynumber: 5.6 Consensus size: 56
47490707 CCCCAAACAA
* * * * * * *
47490717 GGTCTTACTCATAAACACATATCGGAATCACATTTTGATGCCAACGTACAAAACGT
1 GGTCTTACTCACACACATATATCAGAGTCACATATCGATGCCAACGTACAAAACGT
* * **
47490773 GGTCTTACTCACACACATATATAAGAGTCACATATCGATGCCAACATATGAAACGT
1 GGTCTTACTCACACACATATATCAGAGTCACATATCGATGCCAACGTACAAAACGT
* * * *
47490829 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAACCGTGGATGT
1 GGTCTTACTCACACACATATATCAGAGTCACATATCGATGCCAACGTA-CAA-----AACGT
* * **
47490891 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGT
1 GGTCTTACTCACACACATATATCAGAGTCACATATCGATGCCAACGTACAAAACGT
* * **
47490947 GG----ACTTACACACATATATCAGAGTAACATATCGATGCCAACGTATGAAACGT
1 GGTCTTACTCACACACATATATCAGAGTCACATATCGATGCCAACGTACAAAACGT
* * * *
47490999 TGACTTACTCGCACACATATATCGGAGTCACATAT
1 GGTCTTACTCACACACATATATCAGAGTCACATAT
47491034 ACTTCCAGGT
Statistics
Matches: 219, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
52 47 0.21
56 120 0.55
57 1 0.00
61 1 0.00
62 50 0.23
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAGAGTCACATATCGATGCCAACGTACAAAACGT
Found at i:47490902 original size:62 final size:59
Alignment explanation
Indices: 47490771--47491033 Score: 327
Period size: 56 Copynumber: 4.6 Consensus size: 59
47490761 CGTACAAAAC
* *
47490771 GTGGTCTTACTCACACACATATATAAGAGTCACATATCGATGCCAACATATGAAAC---
1 GTGGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGAT
* *
47490827 GTGGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAACCGTGGAT
1 GTGGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAAC---GAT
47490889 GTGGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAAC---
1 GTGGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGAT
* * *
47490945 GTGGACTTA----CACACATATATCAGAGTAACATATCGATGCCAACGTATGAAACG-T
1 GTGGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGAT
* *
47490999 -T-GACTTACTCGCACACATATATCGGAGTCACATAT
1 GTGGTCTTACTCGCACACATATATCAGAGTCACATAT
47491034 ACTTCCAGGT
Statistics
Matches: 184, Mismatches: 11, Indels: 24
0.84 0.05 0.11
Matches are distributed among these distances:
52 47 0.26
53 1 0.01
56 82 0.45
62 54 0.29
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (59 bp):
GTGGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGAT
Found at i:47493571 original size:27 final size:27
Alignment explanation
Indices: 47493482--47493654 Score: 175
Period size: 27 Copynumber: 6.4 Consensus size: 27
47493472 GGGGCAATAT
* * * *
47493482 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGAGGTATTTC
* * *
47493509 GATAATTCTACCCTACAGGGGTATGTC
1 GGTAATTCTACCCTACAGAGGTATTTC
* * * *
47493536 GATATTTCTACCCTACACAGGTATTTT
1 GGTAATTCTACCCTACAGAGGTATTTC
* * *
47493563 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATTTC
* *
47493590 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGAGGTATTTC
* * *
47493617 GGTATTTCTACCCTAGAAAGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATTTC
47493644 GGTAATTCTAC
1 GGTAATTCTAC
47493655 AACTTATCCA
Statistics
Matches: 119, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGAGGTATTTC
Found at i:47493598 original size:81 final size:81
Alignment explanation
Indices: 47493501--47493653 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
47493491 ACCCCACAAA
* *
47493501 GGTATCTCGATAATTCTACCCTACAGGGGTATGTCGATATTTCTACCCTACACAGGTATTTTAGT
1 GGTATCTCGATAATTCTACCCTACAGGGGTATGTCGATATTTCTACCCTACAAAGGTATTTCAGT
47493566 AATTCTATCCTACAGG
66 AATTCTATCCTACAGG
* * * * * * *
47493582 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTAGAAAGGTATTTCGGT
1 GGTATCTCGATAATTCTACCCTACAGGGGTATGTCGATATTTCTACCCTACAAAGGTATTTCAGT
47493647 AATTCTA
66 AATTCTA
47493654 CAACTTATCC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
GGTATCTCGATAATTCTACCCTACAGGGGTATGTCGATATTTCTACCCTACAAAGGTATTTCAGT
AATTCTATCCTACAGG
Found at i:47499645 original size:56 final size:56
Alignment explanation
Indices: 47499585--47499843 Score: 358
Period size: 56 Copynumber: 4.6 Consensus size: 56
47499575 TCCGAGACAG
* * * * * * * *
47499585 GGTCTTACTCGTAAACACATATCAGAATCACATATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGT
47499641 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGT
* * *
47499697 GGTCTTACTCCCACACGTATATCAGAGTCACATATCGATGCCAACGTATGAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGT
** *
47499753 GAACTTACTTGCACACATATATC-GAAGTCACATATCGATGCCAACATATGAAACGT
1 GGTCTTACTCGCACACATATATCAG-AGTCACATATCGATGCCAACATATGAAACGT
* *
47499809 GGACTTACTCGCACACATATATCGGAGTCACATAT
1 GGTCTTACTCGCACACATATATCAGAGTCACATAT
47499844 ACTTCCAGGT
Statistics
Matches: 182, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
55 1 0.01
56 180 0.99
57 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATGAAACGT
Found at i:47500159 original size:62 final size:60
Alignment explanation
Indices: 47500062--47500314 Score: 360
Period size: 62 Copynumber: 4.3 Consensus size: 60
47500052 TATATAGCTC
*
47500062 ATATCAGAGTCACATATCGATGCCAACGTATGAACCGTGGATGTGGTCTTACTCGCACACAT
1 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGAT-T-GTCTTACTCGCACACAT
*
47500124 ATATCAGAGTCACATATCGATGCCAACGTATGAACCGTGGATGTGGTCTTACTCGCACACAT
1 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGAT-T-GTCTTACTCGCACACAT
*
47500186 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA----CTTACTCACACACAT
1 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGATTGTCTTACTCGCACACAT
* *
47500242 ATATCAGAGTAACATATCGATGCCAACGTATGAAAC---G-TTGACTTACTCGCACACAT
1 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGATTGTCTTACTCGCACACAT
*
47500298 ATATCGGAGTCACATAT
1 ATATCAGAGTCACATAT
47500315 ACTTCCAGGT
Statistics
Matches: 181, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
53 1 0.01
56 78 0.43
62 102 0.56
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (60 bp):
ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGATTGTCTTACTCGCACACAT
Found at i:47500330 original size:118 final size:116
Alignment explanation
Indices: 47500062--47500314 Score: 352
Period size: 118 Copynumber: 2.1 Consensus size: 116
47500052 TATATAGCTC
* *
47500062 ATATCAGAGTCACATATCGATGCCAACGTATGAACCGTGGATGTGGTCTTACTCGCACACATATA
1 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA------CTTACTCACACACATATA
* * *
47500127 TCAGAGTCACATATCGATGCCAACGTATGAACCGTGGATGTGGTCTTACTCGCACACAT
60 TCAGAGTAACATATCGATGCCAACGTATGAAAC--GGATGTGGACTTACTCGCACACAT
47500186 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGACTTACTCACACACATATATCAGAG
1 ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGACTTACTCACACACATATATCAGAG
47500251 TAACATATCGATGCCAACGTATGAAAC-G-T-T-GACTTACTCGCACACAT
66 TAACATATCGATGCCAACGTATGAAACGGATGTGGACTTACTCGCACACAT
*
47500298 ATATCGGAGTCACATAT
1 ATATCAGAGTCACATAT
47500315 ACTTCCAGGT
Statistics
Matches: 123, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
112 32 0.26
113 1 0.01
114 1 0.01
115 1 0.01
118 48 0.39
124 40 0.33
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (116 bp):
ATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGACTTACTCACACACATATATCAGAG
TAACATATCGATGCCAACGTATGAAACGGATGTGGACTTACTCGCACACAT
Found at i:47500619 original size:56 final size:56
Alignment explanation
Indices: 47500533--47500650 Score: 236
Period size: 56 Copynumber: 2.1 Consensus size: 56
47500523 TATATAGCTC
47500533 ATATCAGAGTCACATATCGATGCCAACATATGAAACGTGGTCTTACTCCCACACGT
1 ATATCAGAGTCACATATCGATGCCAACATATGAAACGTGGTCTTACTCCCACACGT
47500589 ATATCAGAGTCACATATCGATGCCAACATATGAAACGTGGTCTTACTCCCACACGT
1 ATATCAGAGTCACATATCGATGCCAACATATGAAACGTGGTCTTACTCCCACACGT
47500645 ATATCA
1 ATATCA
47500651 CCGATTCACA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (56 bp):
ATATCAGAGTCACATATCGATGCCAACATATGAAACGTGGTCTTACTCCCACACGT
Found at i:47511056 original size:12 final size:13
Alignment explanation
Indices: 47511031--47511060 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
47511021 ATAGATACGA
47511031 TATTTAATTTTTT
1 TATTTAATTTTTT
47511044 TATTTAA-TTTTT
1 TATTTAATTTTTT
47511056 TATTT
1 TATTT
47511061 TTATTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTAATTTTTT
Found at i:47517707 original size:47 final size:47
Alignment explanation
Indices: 47517638--47517732 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
47517628 GCTTGGTTGG
*
47517638 AGCCATTCTATACGAAGCTATCGATACTAATGCAGTCCCCGATACTA
1 AGCCATTCTATACGAAGCTATCGATACTAATACAGTCCCCGATACTA
47517685 AGCCATTCTATACGAAGCTATCGATACTAATACAGTCCCCGATACTA
1 AGCCATTCTATACGAAGCTATCGATACTAATACAGTCCCCGATACTA
47517732 A
1 A
47517733 ATCAATAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (47 bp):
AGCCATTCTATACGAAGCTATCGATACTAATACAGTCCCCGATACTA
Found at i:47527055 original size:12 final size:10
Alignment explanation
Indices: 47527027--47527065 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
47527017 TATGAACATT
47527027 ATTAATTTTA
1 ATTAATTTTA
47527037 ATTAATTTTA
1 ATTAATTTTA
*
47527047 TAGTTAATTTTG
1 -A-TTAATTTTA
47527059 ATTAATT
1 ATTAATT
47527066 GGTTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:47529697 original size:53 final size:52
Alignment explanation
Indices: 47529635--47529739 Score: 174
Period size: 53 Copynumber: 2.0 Consensus size: 52
47529625 GATCGATTAG
* *
47529635 GGAAAGAGATGAAGGAAAATGTCTAATGAGAACTTCCCCAAAACCGAACACA
1 GGAAAGAGATGAAGGAAAAGGGCTAATGAGAACTTCCCCAAAACCGAACACA
*
47529687 NGGAAAGAGATGAAGGAGAAGGGCTAATGAGAACTTCCCCAAAACCGAACACA
1 -GGAAAGAGATGAAGGAAAAGGGCTAATGAGAACTTCCCCAAAACCGAACACA
47529740 AAAGCAATTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (52 bp):
GGAAAGAGATGAAGGAAAAGGGCTAATGAGAACTTCCCCAAAACCGAACACA
Found at i:47532102 original size:40 final size:40
Alignment explanation
Indices: 47532057--47532137 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
47532047 TGCTGCCTAA
*
47532057 GATTTAACTCCTTATGAGTGAGGAGATATTTAAGGCTCTT
1 GATTTAACTCATTATGAGTGAGGAGATATTTAAGGCTCTT
*
47532097 GATTTAACTCATTCTGAGTGAGGAGATATTTAAGGCTCTT
1 GATTTAACTCATTATGAGTGAGGAGATATTTAAGGCTCTT
47532137 G
1 G
47532138 TGATCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.37
Consensus pattern (40 bp):
GATTTAACTCATTATGAGTGAGGAGATATTTAAGGCTCTT
Found at i:47533513 original size:27 final size:27
Alignment explanation
Indices: 47533482--47533659 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47533472 TAAATTGTAC
47533482 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47533509 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47533535 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47533563 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47533591 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47533618 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47533645 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47533660 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47533596 original size:82 final size:81
Alignment explanation
Indices: 47533483--47533638 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47533473 AAATTGTACA
* *
47533483 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47533547 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47533564 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47533629 TGCGAGTTGA
65 TGCGAATTGA
47533639 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47533650 original size:82 final size:81
Alignment explanation
Indices: 47533479--47533659 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
47533469 GATTAAATTG
* *
47533479 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47533544 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47533560 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47533624 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47533642 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47533660 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47544284 original size:21 final size:21
Alignment explanation
Indices: 47544260--47544315 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
47544250 CTGACCACGG
* *
47544260 CCTCTCGGTGGCTGCTGAACA
1 CCTCTCGGTGGCTACTAAACA
47544281 CCTCTCGGTGGCTACTAAACA
1 CCTCTCGGTGGCTACTAAACA
47544302 CCTCTCGGTGGCTA
1 CCTCTCGGTGGCTA
47544316 AATAGTATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.34, G:0.25, T:0.25
Consensus pattern (21 bp):
CCTCTCGGTGGCTACTAAACA
Found at i:47545773 original size:29 final size:29
Alignment explanation
Indices: 47545712--47546614 Score: 1772
Period size: 29 Copynumber: 31.2 Consensus size: 29
47545702 TACATATATG
* *
47545712 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545740 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545769 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545798 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545827 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545856 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545885 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545914 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545943 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47545972 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546001 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546030 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546059 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546088 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546117 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546146 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546175 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546204 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546233 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546262 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546291 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546320 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546349 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546378 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546407 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546436 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546465 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546494 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546523 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
47546552 CATATGGCCCACTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546581 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
47546610 CATAT
1 CATAT
47546615 TCACGCTTTC
Statistics
Matches: 870, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
28 18 0.02
29 852 0.98
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:47546694 original size:17 final size:18
Alignment explanation
Indices: 47546672--47546705 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47546662 TGCCAATTAT
47546672 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
47546689 GGGCCCACTTAGCCCAT
1 GGGCCCACATAGCCCAT
47546706 TCTAGCTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:47549420 original size:40 final size:40
Alignment explanation
Indices: 47549372--47549558 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
47549362 GCAAACACAT
* *
47549372 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
47549412 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
47549452 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
47549492 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
47549532 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
47549559 ATCCAATGTT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:47549855 original size:42 final size:42
Alignment explanation
Indices: 47549795--47549878 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
47549785 CTCGAAGACT
*
47549795 TACCTCAAATGTCGTCGAACGACTTCAACGGCTATTCAATTA
1 TACCTCAAATGTCCTCGAACGACTTCAACGGCTATTCAATTA
47549837 TACCTCAAATGTCCTCGAACGACTTCAACGGCTATTCAATTA
1 TACCTCAAATGTCCTCGAACGACTTCAACGGCTATTCAATTA
47549879 CTTTTTCCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (42 bp):
TACCTCAAATGTCCTCGAACGACTTCAACGGCTATTCAATTA
Found at i:47552777 original size:49 final size:49
Alignment explanation
Indices: 47552720--47552817 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
47552710 AATTCTGAGA
47552720 AGACTCGCTCCCTTTATGTATCTATTAATACTTTGAGGCTATCCCTAAG
1 AGACTCGCTCCCTTTATGTATCTATTAATACTTTGAGGCTATCCCTAAG
47552769 AGACTCGCTCCCTTTATGTATCTATTAATACTTTGAGGCTATCCCTAAG
1 AGACTCGCTCCCTTTATGTATCTATTAATACTTTGAGGCTATCCCTAAG
47552818 TCCATTCTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (49 bp):
AGACTCGCTCCCTTTATGTATCTATTAATACTTTGAGGCTATCCCTAAG
Found at i:47553278 original size:45 final size:43
Alignment explanation
Indices: 47553190--47553278 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 43
47553180 CACACCAGCC
*
47553190 ACGCTCTTATAGATCTCAGCCCATTTGATCGAAGCCCCCCCGG
1 ACGCTCTTATAGATCTCAGCCCATTTGATCGAAGCCACCCCGG
* *
47553233 ANCGCTCTTATAGATCTCAGCCCCATTTGATCGAAGTCACTCCGG
1 A-CGCTCTTATAGATCTCAG-CCCATTTGATCGAAGCCACCCCGG
47553278 A
1 A
47553279 ATGGACCCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 1 0.02
44 18 0.44
45 22 0.54
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.25
Consensus pattern (43 bp):
ACGCTCTTATAGATCTCAGCCCATTTGATCGAAGCCACCCCGG
Done.