Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 35 of 284
Found at i:12315685 original size:22 final size:22
Alignment explanation
Indices: 12315657--12315711 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
12315647 CTAAATTGTG
*
12315657 AAATGTGTAAATTTAGTGGTTA
1 AAATGTGTAAATTTAATGGTTA
12315679 AAATGTGTAAATTTAATGGTTA
1 AAATGTGTAAATTTAATGGTTA
12315701 AAATGTG-AAAT
1 AAATGTGTAAAT
12315712 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (22 bp):
AAATGTGTAAATTTAATGGTTA
Found at i:12316328 original size:77 final size:77
Alignment explanation
Indices: 12316190--12316336 Score: 181
Period size: 77 Copynumber: 1.9 Consensus size: 77
12316180 TAGGGGATAC
* ** * * *
12316190 ATTGAGTTGGCTTTGGGCCATGATATTAGCACTTTGGGTGTGAGTTATACCAATTTAGCTTCGGG
1 ATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCAGATATAAGTTATACCAATTTAGCTTCGGG
12316255 CCATGAATATTG
66 CCATGAATATTG
* * *
12316267 ATTGATTTGGCTTCGGGCCATGATATTAGTACTTCAGATATAAG-T-TACCATGATTTGGCTTCG
1 ATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCAGATATAAGTTATACCA--ATTTAGCTTCG
12316330 GGCCATG
64 GGCCATG
12316337 GTATAGGTAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
75 5 0.08
76 1 0.02
77 53 0.90
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (77 bp):
ATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCAGATATAAGTTATACCAATTTAGCTTCGGG
CCATGAATATTG
Found at i:12316559 original size:23 final size:23
Alignment explanation
Indices: 12316494--12316548 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
12316484 AATTTTTGAG
12316494 CTATTAGCAGCTTTGCTGCGTTA
1 CTATTAGCAGCTTTGCTGCGTTA
*
12316517 CTACTAGCAGCTTTGCTGCGTTA
1 CTATTAGCAGCTTTGCTGCGTTA
12316540 CTATTAGCA
1 CTATTAGCA
12316549 ACTACGCTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTGCGTTA
Found at i:12322038 original size:20 final size:20
Alignment explanation
Indices: 12322013--12322050 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12322003 GTCACATATA
12322013 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
12322033 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
12322051 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:12322177 original size:25 final size:24
Alignment explanation
Indices: 12322149--12322200 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
12322139 CTAGAGGACC
* *
12322149 AATCATATAACTCATGATAATGACT
1 AATCACATAACTCATCATAATGA-T
* *
12322174 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
12322198 AAT
1 AAT
12322201 AATAAAGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (24 bp):
AATCACATAACTCATCATAATGAT
Found at i:12330324 original size:45 final size:45
Alignment explanation
Indices: 12330274--12330361 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
12330264 AAACATGTGC
**
12330274 CACATACATCATGAACCCAGACCACAACTCAATGAGTTCAGATGT
1 CACATACATCATGAACCCAGACCACAACTCAACAAGTTCAGATGT
* **
12330319 CACATATATCATGAACTTAGACCACAACTCAACAAGTTCAGAT
1 CACATACATCATGAACCCAGACCACAACTCAACAAGTTCAGAT
12330362 CACATAGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (45 bp):
CACATACATCATGAACCCAGACCACAACTCAACAAGTTCAGATGT
Found at i:12334745 original size:27 final size:26
Alignment explanation
Indices: 12334728--12334797 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
12334718 ATATTAAGTC
12334728 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
12334755 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
12334783 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
12334798 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:12334791 original size:28 final size:28
Alignment explanation
Indices: 12334728--12334825 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
12334718 ATATTAAGTC
*
12334728 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
12334755 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
12334783 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
12334812 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12334826 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:12347262 original size:11 final size:9
Alignment explanation
Indices: 12347235--12347283 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
12347225 GTATTATATG
12347235 AAAATAAAA
1 AAAATAAAA
12347244 AAAATAAAA
1 AAAATAAAA
12347253 AAAATCTAAAA
1 AAAA--TAAAA
*
12347264 AATTATAAAA
1 AA-AATAAAA
*
12347274 ACAATAAAA
1 AAAATAAAA
12347283 A
1 A
12347284 TCTAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 20 0.59
10 6 0.18
11 7 0.21
12 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAATAAAA
Found at i:12347266 original size:27 final size:27
Alignment explanation
Indices: 12347235--12347293 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
12347225 GTATTATATG
*
12347235 AAAATAAAAAAAATAAAAAAAATCTAA
1 AAAATAAAAAAAACAAAAAAAATCTAA
* * *
12347262 AAAATTATAAAAACAATAAAAATCTAA
1 AAAATAAAAAAAACAAAAAAAATCTAA
*
12347289 TAAAT
1 AAAAT
12347294 GGAAATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (27 bp):
AAAATAAAAAAAACAAAAAAAATCTAA
Found at i:12347677 original size:9 final size:9
Alignment explanation
Indices: 12347663--12347748 Score: 120
Period size: 9 Copynumber: 9.6 Consensus size: 9
12347653 ATAAGTATAA
12347663 AATTAACCG
1 AATTAACCG
12347672 AATTAACCG
1 AATTAACCG
*
12347681 AATTAATCG
1 AATTAACCG
12347690 AATTAACCG
1 AATTAACCG
12347699 AATT-ACCTG
1 AATTAACC-G
* *
12347708 AATTACCCA
1 AATTAACCG
*
12347717 AATTAATCG
1 AATTAACCG
12347726 AATTAACCG
1 AATTAACCG
12347735 AATTAACCG
1 AATTAACCG
12347744 AATTA
1 AATTA
12347749 TTTTTATAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
8 3 0.04
9 62 0.93
10 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:12347780 original size:6 final size:6
Alignment explanation
Indices: 12347769--12347821 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
12347759 ATTATATGTT
* *
12347769 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
12347819 TTT
1 TTT
12347822 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:12349138 original size:56 final size:56
Alignment explanation
Indices: 12349052--12349163 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
12349042 TCCCTAATTG
*
12349052 ATAGGACTTCATTTCTTTTCTAGAGTTAACTCTTTTAAGAATCAATTCATCAGGAA
1 ATAGGACTTCATTCCTTTTCTAGAGTTAACTCTTTTAAGAATCAATTCATCAGGAA
* *
12349108 ATAGGACTTCATTCCTTTTCTAGAGTTAACTCTTTTAAGAATCGATTCGTCAGGAA
1 ATAGGACTTCATTCCTTTTCTAGAGTTAACTCTTTTAAGAATCAATTCATCAGGAA
12349164 TGCCTTCTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (56 bp):
ATAGGACTTCATTCCTTTTCTAGAGTTAACTCTTTTAAGAATCAATTCATCAGGAA
Found at i:12352955 original size:14 final size:14
Alignment explanation
Indices: 12352936--12352965 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12352926 CATTCCCAAG
12352936 TTTTTAGCTTAAAT
1 TTTTTAGCTTAAAT
12352950 TTTTTAGCTTAAAT
1 TTTTTAGCTTAAAT
12352964 TT
1 TT
12352966 AAACCTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTTTAGCTTAAAT
Found at i:12354335 original size:24 final size:23
Alignment explanation
Indices: 12354307--12354380 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 23
12354297 TTGTAAATTA
12354307 AATTATACTTATTTTTAATTATAT
1 AATTATACTTATTTTTAA-TATAT
**
12354331 AATTAT-CAAAATTTTT-AT-TA-
1 AATTATAC-TTATTTTTAATATAT
*
12354351 AATTATAATTATTTTTAAATATAT
1 AATTATACTTATTTTT-AATATAT
12354375 AATTAT
1 AATTAT
12354381 CACAATTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
20 12 0.31
21 2 0.05
22 3 0.08
23 4 0.10
24 18 0.46
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
AATTATACTTATTTTTAATATAT
Found at i:12354354 original size:44 final size:44
Alignment explanation
Indices: 12354303--12354393 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
12354293 TTAGTTGTAA
* * *
12354303 ATTAAATTATACTTATTTTTAATTATATAATTATCAAAATTTTT
1 ATTAAATTATAATTATTTTTAAATATATAATTATCAAAATTTCT
*
12354347 ATTAAATTATAATTATTTTTAAATATATAATTATCACAATTTCT
1 ATTAAATTATAATTATTTTTAAATATATAATTATCAAAATTTCT
12354391 ATT
1 ATT
12354394 TTATGTCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTTAAATATATAATTATCAAAATTTCT
Found at i:12354364 original size:20 final size:20
Alignment explanation
Indices: 12354303--12354367 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 20
12354293 TTAGTTGTAA
*
12354303 ATTAAATTATACTTATTTTT
1 ATTAAATTATAATTATTTTT
*
12354323 AATTATATAATTATCAA-AATTTTT
1 -A-T-TA-AATTAT-AATTATTTTT
12354347 ATTAAATTATAATTATTTTT
1 ATTAAATTATAATTATTTTT
12354367 A
1 A
12354368 AATATATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
19 2 0.06
20 13 0.36
21 3 0.08
22 2 0.06
23 3 0.08
24 12 0.33
25 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAAATTATAATTATTTTT
Found at i:12354388 original size:24 final size:24
Alignment explanation
Indices: 12354317--12354388 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
12354307 AATTATACTT
*
12354317 ATTTTTAATTATATAATTATCAAA
1 ATTTTTAAATATATAATTATCAAA
*
12354341 ATTTTT--AT-TA-AATTAT-AATT
1 ATTTTTAAATATATAATTATCAA-A
*
12354361 ATTTTTAAATATATAATTATCACA
1 ATTTTTAAATATATAATTATCAAA
12354385 ATTT
1 ATTT
12354389 CTATTTTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 2 0.05
20 12 0.32
21 2 0.05
22 3 0.08
23 2 0.05
24 16 0.42
25 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTTAAATATATAATTATCAAA
Found at i:12357762 original size:38 final size:38
Alignment explanation
Indices: 12357698--12357777 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
12357688 GATGTGTATT
* * * *
12357698 CGGGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
12357736 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
12357774 CGGG
1 CGGG
12357778 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:12359534 original size:40 final size:41
Alignment explanation
Indices: 12359445--12359594 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
12359435 CGCTGACTCA
* *
12359445 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
12359486 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
12359526 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
12359567 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
12359595 TAAACCCCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 32 0.34
41 61 0.66
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:12367509 original size:50 final size:50
Alignment explanation
Indices: 12367450--12367550 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
12367440 AAAGTGGACA
12367450 TACATAGGTAGAAATAACCAAAGTTTTTAATGAAGGGGATTTTAGTCATT
1 TACATAGGTAGAAATAACCAAAGTTTTTAATGAAGGGGATTTTAGTCATT
*
12367500 TACATAGGTAGAAATAACCAAAGTTTTTAATGAAGGGTATTTTAGTCATT
1 TACATAGGTAGAAATAACCAAAGTTTTTAATGAAGGGGATTTTAGTCATT
12367550 T
1 T
12367551 GGTAATTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.36
Consensus pattern (50 bp):
TACATAGGTAGAAATAACCAAAGTTTTTAATGAAGGGGATTTTAGTCATT
Found at i:12369285 original size:17 final size:17
Alignment explanation
Indices: 12369263--12369295 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12369253 ATCACTAAAA
12369263 ATATTA-GAGATAGAATT
1 ATATTATGA-ATAGAATT
12369280 ATATTATGAATAGAAT
1 ATATTATGAATAGAAT
12369296 ATGTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATATTATGAATAGAATT
Found at i:12375171 original size:64 final size:64
Alignment explanation
Indices: 12375070--12375195 Score: 234
Period size: 64 Copynumber: 2.0 Consensus size: 64
12375060 CTCTGATACG
12375070 ACTAAATGTAAAAGCCGTTACTCATATTCGATGCTAGAATAGGGTACGTGTAACACCCCTTAGC
1 ACTAAATGTAAAAGCCGTTACTCATATTCGATGCTAGAATAGGGTACGTGTAACACCCCTTAGC
* *
12375134 ACTAAATGTAAAAGCTGTTACTCATATTCGATTCTAGAATAGGGTACGTGTAACACCCCTTA
1 ACTAAATGTAAAAGCCGTTACTCATATTCGATGCTAGAATAGGGTACGTGTAACACCCCTTA
12375196 CCCATACCCG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (64 bp):
ACTAAATGTAAAAGCCGTTACTCATATTCGATGCTAGAATAGGGTACGTGTAACACCCCTTAGC
Found at i:12377891 original size:30 final size:30
Alignment explanation
Indices: 12377857--12377917 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
12377847 TCCTTAACTC
12377857 AAACTTTAGAAAAATTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACACTTTTGCCCCT
* * * *
12377887 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACACTTTTGCCCCT
12377917 A
1 A
12377918 GGCTCGGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACACTTTTGCCCCT
Found at i:12380250 original size:42 final size:42
Alignment explanation
Indices: 12380124--12380252 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
12380114 CACATAGTAC
* * * * **
12380124 CATACCAATGCCATATCCCACATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCTAGATATGGTCTTACACGAAATCT
* * * * * *
12380166 CATATCGATGCCAAAAGCGTAGCTATGGTCTTACACAAAATCT
1 CATATCAATGCC-ATATCCTAGATATGGTCTTACACGAAATCT
* *
12380209 CATATCAATGCCATATCCTAGATATGGTCTTATACGTAATCT
1 CATATCAATGCCATATCCTAGATATGGTCTTACACGAAATCT
12380251 CA
1 CA
12380253 ACTAACCCTA
Statistics
Matches: 66, Mismatches: 20, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
42 35 0.53
43 31 0.47
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCTAGATATGGTCTTACACGAAATCT
Found at i:12385327 original size:48 final size:47
Alignment explanation
Indices: 12385048--12385314 Score: 399
Period size: 48 Copynumber: 5.6 Consensus size: 47
12385038 TGCCTCATGC
* *
12385048 CGATGCGATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
* *
12385095 TCGATGCCATGTCCCAAACATGGTCTTACACCGGCTCACATAACAATG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
12385143 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
* * *
12385191 CCAATGCCATGTCCCAGGCACGGTCTTACACTGGCTCACATAACAATG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
* * *
12385239 CTGATGCCATGTCCCACACATGGTCTTACACTGGCTCACATAAAAATAT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAT-G
12385288 CGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
12385315 TACAGGATCA
Statistics
Matches: 199, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
47 2 0.01
48 195 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATG
Found at i:12387990 original size:26 final size:27
Alignment explanation
Indices: 12387935--12387995 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 27
12387925 TCATCATCCT
12387935 AAGCCAACTCACATGGCTATATATATAC
1 AAGCCAACTCACATGGC-ATATATATAC
12387963 AAGCCAACTCACATGGC-TATATATAC
1 AAGCCAACTCACATGGCATATATATAC
*
12387989 AAACCAA
1 AAGCCAA
12387996 AATATATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 15 0.47
28 17 0.53
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (27 bp):
AAGCCAACTCACATGGCATATATATAC
Found at i:12390583 original size:19 final size:19
Alignment explanation
Indices: 12390555--12390593 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
12390545 AAAAACAAGG
12390555 TATTGATTACAAGGAAACC
1 TATTGATTACAAGGAAACC
*
12390574 TATTGCTTACAAGGAAACC
1 TATTGATTACAAGGAAACC
12390593 T
1 T
12390594 TCTCTCTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (19 bp):
TATTGATTACAAGGAAACC
Found at i:12394157 original size:96 final size:95
Alignment explanation
Indices: 12393913--12394179 Score: 371
Period size: 96 Copynumber: 2.8 Consensus size: 95
12393903 TAAAGTACTA
* * *
12393913 ATGCCATGTCCCAGACATGGTCTTACA-ATGGCACATATATCATCACCGATGCCATGTACCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACA-GACACATATATCATCGCC-ATGCCATGTCCCAGAC
12393977 ATGGTCTTACACAGGCACATATATCATCGCTG
64 ATGGTCTTACACAGGCACATATATCATCGCTG
* *
12394009 ATGCCATGTCCCAGACATGGTCTTACACA-AGCACATATATCATCGCTGATGCCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACAGA-CACATATATCATCGC-CATGCCATGTCCCAGAC
12394073 ATGGTCTTACACAGGCACATATATCATCGCTG
64 ATGGTCTTACACAGGCACATATATCATCGCTG
* *
12394105 ATGCCATGTCCCAGACATGGTCTTACACAGACACACT-TCTCGAAT-GCCATGCCATGTCCTAGA
1 ATGCCATGTCCCAGACATGGTCTTACACAGACACA-TATATC--ATCGCCATGCCATGTCCCAGA
*
12394168 CATGGACTTACA
63 CATGGTCTTACA
12394180 TGGAATCTCA
Statistics
Matches: 154, Mismatches: 10, Indels: 14
0.87 0.06 0.08
Matches are distributed among these distances:
96 147 0.95
97 5 0.03
98 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGACACATATATCATCGCCATGCCATGTCCCAGACAT
GGTCTTACACAGGCACATATATCATCGCTG
Found at i:12394163 original size:48 final size:48
Alignment explanation
Indices: 12393913--12394139 Score: 384
Period size: 48 Copynumber: 4.7 Consensus size: 48
12393903 TAAAGTACTA
* *
12393913 ATGCCATGTCCCAGACATGGTCTTACA-ATGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACATATATCATCGCTG
*
12393961 ATGCCATGTACCAGACATGGTCTTACACAGGCACATATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCTG
*
12394009 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCTG
*
12394057 ATGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCTG
*
12394105 ATGCCATGTCCCAGACATGGTCTTACACAGACACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
12394140 CTTCTCGAAT
Statistics
Matches: 169, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 168 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCTG
Found at i:12394178 original size:144 final size:144
Alignment explanation
Indices: 12393913--12394179 Score: 389
Period size: 144 Copynumber: 1.9 Consensus size: 144
12393903 TAAAGTACTA
*
12393913 ATGCCATGTCCCAGACATGGTCTTACAATGGCACATATATCATCACCGATGCCATGTACCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACAATGGCACATATATCATCACCGATGCCATGTACCAGACA
* * *
12393978 TGGTCTTACACAGGCACATATATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAAGCAC
66 TGGTCTTACACAGACACATATATCATCGCTCATGCCATGTCCCAGACATGGACTTACACAAGCAC
12394043 ATATATCATCGCTG
131 ATATATCATCGCTG
* * *
12394057 ATGCCATGTCCCAAACATGGTCTTACACA-GGCACATATATCATCGCTGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACA-ATGGCACATATATCATCACCGATGCCATGTACCAGAC
* *
12394121 ATGGTCTTACACAGACACACT-TCTCGAAT-GC-CATGCCATGTCCTAGACATGGACTTACA
65 ATGGTCTTACACAGACACA-TATATC--ATCGCTCATGCCATGTCCCAGACATGGACTTACA
12394180 TGGAATCTCA
Statistics
Matches: 110, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
144 104 0.95
145 4 0.04
146 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (144 bp):
ATGCCATGTCCCAAACATGGTCTTACAATGGCACATATATCATCACCGATGCCATGTACCAGACA
TGGTCTTACACAGACACATATATCATCGCTCATGCCATGTCCCAGACATGGACTTACACAAGCAC
ATATATCATCGCTG
Found at i:12399710 original size:45 final size:45
Alignment explanation
Indices: 12399609--12399735 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 45
12399599 TTTTCTCAAA
* *
12399609 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
* *
12399651 TCACCAGCATTATAGCCTGCTAGGCTCGAAGGACCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
12399695 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
12399736 ATCAAGTCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
42 10 0.14
43 14 0.20
44 7 0.10
45 38 0.54
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:12400113 original size:43 final size:43
Alignment explanation
Indices: 12400065--12400262 Score: 351
Period size: 43 Copynumber: 4.6 Consensus size: 43
12400055 CCGGCATTAC
*
12400065 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
12400108 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
12400151 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
12400194 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
12400237 GCCTACTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
12400263 TAATACCAGC
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 150 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:12400303 original size:38 final size:38
Alignment explanation
Indices: 12400255--12400338 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
12400245 GGCACGAAGG
* * *
12400255 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCACCACGAAGCCTGCGGGATTTAT
* *
12400293 CCCGGATATAATACCACCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCACCACGAAGCCTGCGGGATTTAT
*
12400331 CCCAAATA
1 CCCGAATA
12400339 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCACCACGAAGCCTGCGGGATTTAT
Found at i:12400306 original size:129 final size:129
Alignment explanation
Indices: 12400052--12400283 Score: 351
Period size: 129 Copynumber: 1.8 Consensus size: 129
12400042 ACATATCATT
* * * *
12400052 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAG
* * *
12400117 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCTCGAATACACA
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGATAGAATACACA
*
12400181 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTACTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAG
* * *
12400246 GCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGC
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGC
12400284 GGGATTTATC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
127 14 0.15
128 2 0.02
129 78 0.83
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.13
Consensus pattern (129 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAG
GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGATAGAATACACA
Found at i:12404846 original size:48 final size:48
Alignment explanation
Indices: 12404775--12405089 Score: 384
Period size: 48 Copynumber: 6.6 Consensus size: 48
12404765 AATGTTCTTA
* * * * * *
12404775 TGTAACACCATGTTTGGGGCATGGCATCGGTGGTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
* * *
12404823 TGTAAGACCATGTCTGGGACATGGCATCGACGATAATATATGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
* * *
12404871 TGTAAGACTATGTCTGGGACATGGCATCGACGATGATATATGTGCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
*
12404919 TGTAAGACCATGTGTGGGACATGGCATCGGCGATGATATATGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
* *
12404967 TGTAAGACCA-GATGTGGGACATGGCATCGGCGATGATATGTGTGCCAG
1 TGTAAGACCATG-TCTGGGACATGGCATCGGCGATGATATATGTGCCAG
* * * * *
12405015 TATAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTG-GATTCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTG--CCAG
* *
12405063 TATAAGACCATGTCAGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
12405090 TGGTACTTTA
Statistics
Matches: 241, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.01
48 236 0.98
49 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAG
Found at i:12406823 original size:31 final size:32
Alignment explanation
Indices: 12406788--12406864 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
12406778 ATGATGCTAG
* *
12406788 AGATATTTTGA-TATTTTA-TAATTATTTAATT
1 AGATATTTT-ATTATTTTATTAATAATTTAATA
**
12406819 AGATA-AATATTATTTTATTAATAATTTAATA
1 AGATATTTTATTATTTTATTAATAATTTAATA
12406850 AGATATTTTATTATT
1 AGATATTTTATTATT
12406865 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 8 0.22
31 21 0.57
32 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (32 bp):
AGATATTTTATTATTTTATTAATAATTTAATA
Found at i:12409065 original size:38 final size:40
Alignment explanation
Indices: 12409012--12409181 Score: 157
Period size: 46 Copynumber: 4.0 Consensus size: 40
12409002 CTGATATGAA
*
12409012 ATGTGTAAGATCATGGTTGAAAGATACCATGGCAACC-T-
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
12409050 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT--G
* *
12409096 ATGTGTAAGACCATGGTTGAAAGATACCATAGCAATGTGACATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAA----CCATG
* **
12409140 AAAAGAATAAGACCATGGTTGAAAGATACCATGGCAA-CATG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
12409181 A
1 A
12409182 CAGAAAATGA
Statistics
Matches: 111, Mismatches: 7, Indels: 27
0.77 0.05 0.19
Matches are distributed among these distances:
38 36 0.32
39 1 0.01
41 4 0.04
43 1 0.01
44 1 0.01
46 67 0.60
50 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:12409117 original size:46 final size:46
Alignment explanation
Indices: 12409054--12409221 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 46
12409044 CAACCTATGT
* * * *
12409054 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* ** *
12409100 GTAAGACCATGGTTGAAAGATACCATAGCAATGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
12409146 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
12409192 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
12409222 TCACGTCAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 104 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:12409527 original size:23 final size:25
Alignment explanation
Indices: 12409482--12409528 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12409472 AATAAATATA
*
12409482 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
12409507 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
12409529 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:12416587 original size:15 final size:15
Alignment explanation
Indices: 12416567--12416596 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12416557 GATGATGTCA
12416567 TAAACACACGGGTAG
1 TAAACACACGGGTAG
12416582 TAAACACACGGGTAG
1 TAAACACACGGGTAG
12416597 AGACACGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (15 bp):
TAAACACACGGGTAG
Found at i:12418084 original size:40 final size:40
Alignment explanation
Indices: 12418001--12418220 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
12417991 ACCCAAGTAT
** * *
12418001 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGTCCGGATATAGTCACTAGCACAAATGC
* *
12418039 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGTCCGGATATAGTCACTAGCACAAATGC
* *
12418079 CTTCGGGACTTA-TCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGT-CCGGATATAGTCACTAGCACAAATGC
* *
12418119 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGTCCGGATATAGTC-ACTAGCACAAATGC
* * *
12418159 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGTCCGGATATAGTCACTAGCACAAATGC
* *
12418199 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGTCCGGATAT
12418221 CATTAGAATA
Statistics
Matches: 153, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 123 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGTCCGGATATAGTCACTAGCACAAATGC
Found at i:12424789 original size:41 final size:41
Alignment explanation
Indices: 12424732--12424881 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
12424722 TCGGGGTTTA
12424732 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
12424773 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
12424814 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
12424854 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
12424882 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:12430314 original size:60 final size:59
Alignment explanation
Indices: 12430221--12430333 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 59
12430211 TAGGGAAAGT
12430221 AAAATCTTCGGGGTTGATTTGATTAAAGATGCTGAGCAGAAAGTAAAAATAATTCNAAGA
1 AAAATCTTCGGGGTTGATTTGATTAAAGATGCTGAGCAGAAAGTAAAAATAATTC-AAGA
*
12430281 AAAATCTTCGGGGTTGATTTGATTAAAGATGCTGAGCAGAAAGTAAAAGTAAT
1 AAAATCTTCGGGGTTGATTTGATTAAAGATGCTGAGCAGAAAGTAAAAATAAT
12430334 CAGGGAAAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.27
Consensus pattern (59 bp):
AAAATCTTCGGGGTTGATTTGATTAAAGATGCTGAGCAGAAAGTAAAAATAATTCAAGA
Found at i:12437045 original size:28 final size:28
Alignment explanation
Indices: 12436980--12437075 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
12436970 GAGATTGGCG
* * * *
12436980 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
12437009 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
12437037 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
12437065 CTGAGTGTGCG
1 CTAAGTGTGCG
12437076 GACTTAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 45 0.75
29 15 0.25
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:12438798 original size:49 final size:47
Alignment explanation
Indices: 12438627--12438797 Score: 179
Period size: 49 Copynumber: 3.6 Consensus size: 47
12438617 CATACAAGCT
* * *
12438627 AGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTG-T-TATG-TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTGATATATGAAGTC
* * * *
12438671 AGTGTAAGACCTATTTGGGACATGGCATCAACACTGATAGATG-AGATCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGC-CTGATATATGAAG-T-C
* *
12438720 AGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCT-GATATATG-AAGTC
*
12438769 AGTGTAAGACCTGTTTGGGACATGGCATC
1 AGTGTAAGACCTGTCTGGGACATGGCATC
12438798 GACTTTGATG
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
44 28 0.27
45 2 0.02
46 1 0.01
47 4 0.04
48 3 0.03
49 63 0.61
50 1 0.01
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTGATATATGAAGTC
Found at i:12441276 original size:19 final size:19
Alignment explanation
Indices: 12441252--12441291 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
12441242 TTTCCTATTC
12441252 AATTCTTAAATCATAATTG
1 AATTCTTAAATCATAATTG
12441271 AATTCTTAAATCATAATTG
1 AATTCTTAAATCATAATTG
12441290 AA
1 AA
12441292 CTTTTATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (19 bp):
AATTCTTAAATCATAATTG
Found at i:12443609 original size:154 final size:149
Alignment explanation
Indices: 12443231--12443672 Score: 522
Period size: 154 Copynumber: 2.9 Consensus size: 149
12443221 AATCAAAGTT
* * * * * *
12443231 TTCTTTAAAAAAATA-ATTATTTTTCTTAAAAATCAAAACCTTATTTTGAAATAGTT-AAAAAAA
1 TTCTTTAAAAAAAAACACTATTTTTCTTAAAGAT-TAAAGCTTTTTTTGAAATAGTTGAAAAAAA
* * *
12443294 TCAAAACTTCGTTTTAAAATTTTAAATTTTCCTTTAAAATGACTTAAAAAAACTTATTTTTATTT
65 TCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTT-AAAAAATTTATTTTTATTT
12443359 TTCAAAATCTAAATTCTTTCA
129 TTCAAAATCTAAATTCTTTCA
*
12443380 TTCTTT--AAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAGTAGTTGAAAAAA
1 TTCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGC-TTT-TTTTGAAATAGTTGAAAAAA
*
12443443 ATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGAC-T-AAAAATTTTTTTTTATTT
64 ATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTTAAAAAATTTATTTTTATTT
**
12443506 TTCAAAATCTAAACTTTCTCCTTTT
129 TTCAAAATCTAAA--TTCT--TTCA
*
12443531 TTTTGTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTCTTTGAAATAGTTGAAAAAA
1 TTCT-TTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTT-TTTGAAATAGTTG-AAAAA
* * ** * * **
12443596 AATTAAAATTTTG-TTTAAAAAATTAAACTTTTCTTTAAAATAACTTAAAAAATAGATTTTTATT
63 AATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTTAAAAAATTTATTTTTATT
12443660 TGTT-AAAATCTAA
128 T-TTCAAAATCTAA
12443673 TTTTTTATTT
Statistics
Matches: 253, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
147 39 0.15
148 18 0.07
149 23 0.09
150 48 0.19
151 5 0.02
152 3 0.01
153 42 0.17
154 49 0.19
155 24 0.09
156 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (149 bp):
TTCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTTTTGAAATAGTTGAAAAAAAT
CAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTTAAAAAATTTATTTTTATTTTT
CAAAATCTAAATTCTTTCA
Found at i:12443635 original size:19 final size:20
Alignment explanation
Indices: 12443592--12443645 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
12443582 AATAGTTGAA
*
12443592 AAAAAATTAAAATTTTGTTT
1 AAAAAATTAAAATTTTCTTT
*
12443612 AAAAAATTAAACTTTTCTTT
1 AAAAAATTAAAATTTTCTTT
12443632 AAAATAACTTAAAA
1 AAAA-AA-TTAAAA
12443646 AATAGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 22 0.76
21 2 0.07
22 5 0.17
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAAATTAAAATTTTCTTT
Found at i:12445689 original size:50 final size:49
Alignment explanation
Indices: 12445567--12445796 Score: 241
Period size: 50 Copynumber: 4.6 Consensus size: 49
12445557 CCGATATGCA
* * * *
12445567 TAGTAGCCTGCACTTAGTACTACACATGCGA-TCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAAC-ATCTGATACACG
*
12445616 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACATCTGATACACG
* * *
12445666 TAGTAGCCTGCACTTAGTGCTACACACGTGA-TCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC-AA--CATCTGA-TACACG
* * * * * *
12445717 TAGTAGCCTACACTTAGTACCACACATGCGACTTAACAGTATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACA-TCTGATACACG
*
12445767 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
12445797 TATTCACAAT
Statistics
Matches: 152, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
48 2 0.01
49 32 0.21
50 75 0.49
51 42 0.28
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACATCTGATACACG
Found at i:12446266 original size:266 final size:266
Alignment explanation
Indices: 12445792--12446322 Score: 1044
Period size: 266 Copynumber: 2.0 Consensus size: 266
12445782 AGTACTACAC
12445792 ACGTGTATTCACAATGGGTCATTCATATTGTTCCTATTCTGAAGGTTCAACCGGAAAATCTTTCC
1 ACGTGTATTCACAATGGGTCATTCATATTGTTCCTATTCTGAAGGTTCAACCGGAAAATCTTTCC
12445857 TTTTTCACTGTTAACACTTATTCATAGTCTAATTAAATTTGCAAATTCCATCATTTAATCATTCT
66 TTTTTCACTGTTAACACTTATTCATAGTCTAATTAAATTTGCAAATTCCATCATTTAATCATTCT
12445922 ATGGACAGTCACCAATTCATATGATAACAACATAAAATAACATAAAAAAATCGATAAATTATTCA
131 ATGGACAGTCACCAATTCATATGATAACAACATAAAATAACATAAAAAAATCGATAAATTATTCA
12445987 TGTACGAACTTACTTCGGTGCAAACTTTAGAAATGTTATAATTTAGTCCAAAAGCTTTTCTTTTC
196 TGTACGAACTTACTTCGGTGCAAACTTTAGAAATGTTATAATTTAGTCCAAAAGCTTTTCTTTTC
12446052 CCCGAT
261 CCCGAT
12446058 ACGTGTATTCACAATGGGTCATTCATATTGTTCCTATTCTGAAGGTTCAACCGGAAAATCTTTCC
1 ACGTGTATTCACAATGGGTCATTCATATTGTTCCTATTCTGAAGGTTCAACCGGAAAATCTTTCC
12446123 TTTTTCACTGTTAACACTTATTCATAGTCTAATTAAATTTGCAAATTCCATCATTTAATCATTCT
66 TTTTTCACTGTTAACACTTATTCATAGTCTAATTAAATTTGCAAATTCCATCATTTAATCATTCT
12446188 ATGGACAGTCACCAATTCATATGATAACAACATAAAATAACATAAAAAAATCGATAAATTATTCA
131 ATGGACAGTCACCAATTCATATGATAACAACATAAAATAACATAAAAAAATCGATAAATTATTCA
* *
12446253 TGTACGAACTTACTTCGGTGCAAACTTTAGAAATGTTATAATTTAGTTCGAAAGCTTTTCTTTTC
196 TGTACGAACTTACTTCGGTGCAAACTTTAGAAATGTTATAATTTAGTCCAAAAGCTTTTCTTTTC
12446318 CCCGA
261 CCCGA
12446323 CCACGATCGA
Statistics
Matches: 263, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
266 263 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (266 bp):
ACGTGTATTCACAATGGGTCATTCATATTGTTCCTATTCTGAAGGTTCAACCGGAAAATCTTTCC
TTTTTCACTGTTAACACTTATTCATAGTCTAATTAAATTTGCAAATTCCATCATTTAATCATTCT
ATGGACAGTCACCAATTCATATGATAACAACATAAAATAACATAAAAAAATCGATAAATTATTCA
TGTACGAACTTACTTCGGTGCAAACTTTAGAAATGTTATAATTTAGTCCAAAAGCTTTTCTTTTC
CCCGAT
Found at i:12448046 original size:31 final size:31
Alignment explanation
Indices: 12448003--12448066 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
12447993 CCTTTTCAGA
12448003 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
12448034 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
12448065 TT
1 TT
12448067 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:12448305 original size:23 final size:24
Alignment explanation
Indices: 12448259--12448420 Score: 226
Period size: 23 Copynumber: 6.8 Consensus size: 24
12448249 GCTTTATCAT
*
12448259 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
12448284 GTGACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
12448308 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
12448331 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
12448355 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
12448378 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
12448401 ATAACTGGGGCATAAGCCCT
1 ATAACTGGGGCATAAGCCCT
12448421 CTTTCACTTC
Statistics
Matches: 125, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
23 69 0.55
24 44 0.35
25 12 0.10
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:12448341 original size:47 final size:47
Alignment explanation
Indices: 12448287--12448420 Score: 236
Period size: 47 Copynumber: 2.9 Consensus size: 47
12448277 TCTTTTAGTG
12448287 ACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTAATA
1 ACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCCTTTAATA
*
12448334 ACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATA
1 ACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATA
12448381 ACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCT
1 ACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
12448421 CTTTCACTTC
Statistics
Matches: 84, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
46 23 0.27
47 55 0.65
48 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (47 bp):
ACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATA
Found at i:12448390 original size:70 final size:70
Alignment explanation
Indices: 12448287--12448420 Score: 243
Period size: 70 Copynumber: 1.9 Consensus size: 70
12448277 TCTTTTAGTG
12448287 ACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTT
1 ACTGGGGCAAAGCCC-TTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTT
12448352 TTGATA
65 TTGATA
12448358 ACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCT
1 ACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCT
12448421 CTTTCACTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
70 47 0.76
71 9 0.15
72 6 0.10
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (70 bp):
ACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
TGATA
Found at i:12448498 original size:20 final size:20
Alignment explanation
Indices: 12448473--12448539 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
12448463 TTATGAATAC
12448473 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
12448493 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
12448513 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
12448533 ACCATGT
1 ATCATGT
12448540 TTTTCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:12448504 original size:11 final size:11
Alignment explanation
Indices: 12448473--12448528 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
12448463 TTATGAATAC
12448473 ATCATGTGCAT
1 ATCATGTGCAT
*
12448484 ATCA--TACAT
1 ATCATGTGCAT
12448493 ATCATGTGCAT
1 ATCATGTGCAT
*
12448504 ATCA--TACAT
1 ATCATGTGCAT
*
12448513 GTCATGTGCAT
1 ATCATGTGCAT
12448524 ATCAT
1 ATCAT
12448529 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:12448608 original size:25 final size:25
Alignment explanation
Indices: 12448576--12448623 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12448566 ATAATTAAAC
* * *
12448576 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
12448601 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
12448624 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:12449763 original size:18 final size:18
Alignment explanation
Indices: 12449740--12449774 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12449730 TAGGGAAGAA
12449740 AAAACAAAAGAGAAAACT
1 AAAACAAAAGAGAAAACT
*
12449758 AAAACAAAGGAGAAAAC
1 AAAACAAAAGAGAAAAC
12449775 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.11, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAACAAAAGAGAAAACT
Found at i:12451556 original size:26 final size:27
Alignment explanation
Indices: 12451502--12451556 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
12451492 TTGTCGTAAA
*
12451502 TTCAAATCTTTTTGATTCATCAAATAT
1 TTCAAATCTTTTTGATTCATCAAAGAT
12451529 TTCAAA-CTTTTGTGA-TCAGT-AAAGAT
1 TTCAAATCTTTT-TGATTCA-TCAAAGAT
12451555 TT
1 TT
12451557 GGCATTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (27 bp):
TTCAAATCTTTTTGATTCATCAAAGAT
Found at i:12455966 original size:49 final size:48
Alignment explanation
Indices: 12455888--12456124 Score: 219
Period size: 49 Copynumber: 4.8 Consensus size: 48
12455878 AGCCGAAGCT
* *
12455888 ATCTGATACACATAGTAGTCTGCACTTAGTACTACACATGCAATCAAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCAATCAAC
* * * *
12455936 AATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATG-ACCTCATC
1 -ATCTGATACACGTAGTAGCCTGCACTTAGTACT--ACACATGCA-ATCAAC
* **
12455987 ATCTGATACACGTAGTTGCCTGCACTTAGTACTACACATGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCAATC-AA--C
** * * *
12456038 AT-TGAGTATGCATAGTAGCCTGCACTTAGTACTA-ACATGCTACTTAAC
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACATGC-AATCAAC
* *
12456086 AGTATGATACACGTAGTAGCCTACACTTAGTACTACACA
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
12456125 CGTGTATTCG
Statistics
Matches: 152, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
48 11 0.07
49 55 0.36
50 47 0.31
51 39 0.26
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (48 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCAATCAAC
Found at i:12457022 original size:16 final size:16
Alignment explanation
Indices: 12457001--12457031 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12456991 TGGGCCTCTA
12457001 AATGCAATGAAAAGTC
1 AATGCAATGAAAAGTC
12457017 AATGCAATGAAAAGT
1 AATGCAATGAAAAGT
12457032 AAGCTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGCAATGAAAAGTC
Found at i:12457149 original size:42 final size:42
Alignment explanation
Indices: 12457101--12457247 Score: 188
Period size: 42 Copynumber: 3.5 Consensus size: 42
12457091 CCTCCATAGT
* *
12457101 TGGGTCTCTAGATGCAATGAAAAGTGAATGGACCTCCACACC
1 TGGGTCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACC
* *
12457143 TGGGTCTCTAAATGCAATGAAAAGTAAATGGACCTTCACATC
1 TGGGTCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACC
* * *
12457185 TGAG-CTTTTAAATGCAATGAAAAGTAAATGGACCTCCACTCC
1 TGGGTC-TCTAAATGCAATGAAAAGTAAATGGACCTCCACACC
* * *
12457227 TCGGCCTCTAAATGCGATGAA
1 TGGGTCTCTAAATGCAATGAA
12457248 TGTTTTCCTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (42 bp):
TGGGTCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACC
Found at i:12457520 original size:20 final size:21
Alignment explanation
Indices: 12457495--12457534 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12457485 CCCTTGAAAC
*
12457495 AGGGC-ACACATCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
12457515 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
12457535 CCATTATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:12458899 original size:98 final size:96
Alignment explanation
Indices: 12458690--12458914 Score: 235
Period size: 98 Copynumber: 2.3 Consensus size: 96
12458680 AGGTATAATA
* * * *
12458690 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGCCATATCCCAGA
* *
12458755 TATGGTCTTACACTGACTATCAAAATCGAGG
66 CATGGTCTTACACTAACTATCAAAATCGAGG
* * *
12458786 CCGACGCCAT-TCCCAGACATGGTCTTACACTAGCTC-TCACATATCCATGCCGATGTCATATCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C--AT-CAAGCCGATGCCATATCC
* * *
12458849 CAGACATGGTCTTACACTAAC-ACCTCTATA-CG-TG
62 CAGACATGGTCTTACACTAACTA--TCAAAATCGAGG
* *
12458883 CCGATGCCATGCCCCAGACATGGTTTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
12458915 GGCACATCTC
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
94 2 0.02
95 25 0.23
96 9 0.08
97 13 0.12
98 54 0.50
99 4 0.04
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGCCATATCCCAGA
CATGGTCTTACACTAACTATCAAAATCGAGG
Found at i:12458904 original size:48 final size:50
Alignment explanation
Indices: 12458738--12458914 Score: 141
Period size: 48 Copynumber: 3.6 Consensus size: 50
12458728 TCCATCAAGT
** * * * *
12458738 CGATGCCATGTCCCAGATATGGTCTTACACTGACTA-TCA-AAAT-CGAGGC
1 CGATGCCATACCCCAGACATGGTCTTACACTAAC-ACTCACATATAC-ATGC
* * * * *
12458787 CGACGCCAT-TCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGC
1 CGATGCCATACCCCAGACATGGTCTTACACTAACACTCACATATACATGC
* * * *
12458836 CGATGTCATATCCCAGACATGGTCTTACACTAACAC-CTC-TATACGTGC
1 CGATGCCATACCCCAGACATGGTCTTACACTAACACTCACATATACATGC
* *
12458884 CGATGCCATGCCCCAGACATGGTTTTACACT
1 CGATGCCATACCCCAGACATGGTCTTACACT
12458915 GGCACATCTC
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
48 58 0.55
49 23 0.22
50 25 0.24
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (50 bp):
CGATGCCATACCCCAGACATGGTCTTACACTAACACTCACATATACATGC
Found at i:12463965 original size:40 final size:40
Alignment explanation
Indices: 12463910--12464032 Score: 196
Period size: 40 Copynumber: 3.1 Consensus size: 40
12463900 GATGATAATG
* *
12463910 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAACT-ACTATA-TCC
12463950 GGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCC
12463990 GGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCC
12464030 GGG
1 GGG
12464033 AGTTACTAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
40 76 0.96
41 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCC
Found at i:12464090 original size:40 final size:40
Alignment explanation
Indices: 12464032--12464221 Score: 253
Period size: 40 Copynumber: 4.8 Consensus size: 40
12464022 CTATATCCGG
*
12464032 GAGTTACTA-ATTCCGGGCTAAGTACCGAAGGCATTTGTGC
1 GAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
12464072 GAGTTACTA-ATTCTGGGCTAAGTCCCGAAGGCATTTGTGC
1 GAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
12464112 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* ** *
12464152 AAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGC
1 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* *
12464192 GAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 GAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
12464222 TACTTGGTTT
Statistics
Matches: 137, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.12
40 120 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
Found at i:12464105 original size:96 final size:96
Alignment explanation
Indices: 12463941--12464128 Score: 288
Period size: 96 Copynumber: 2.0 Consensus size: 96
12463931 TGTGCTAGTG
*
12463941 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCCGGGCTAAGTCCCGAAG
1 ACTAATTCCGGGCTAAGTACCGAAGGCATTTGTGCAAACTACTATATCCGGGCTAAGTCCCGAAG
12464006 GCATTTGTGCAAACTACTATATCCGGGAGTT
66 GCATTTGTGCAAACTACTATATCCGGGAGTT
* ** *
12464037 ACTAATTCCGGGCTAAGTACCGAAGGCATTTGTGCGAGTTACTA-ATTCTGGGCTAAGTCCCGAA
1 ACTAATTCCGGGCTAAGTACCGAAGGCATTTGTGCAAACTACTATA-TCCGGGCTAAGTCCCGAA
* **
12464101 GGCATTTGTGCGAGTTACTATATCCGGG
65 GGCATTTGTGCAAACTACTATATCCGGG
12464129 CTAAGTCCCG
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 1 0.01
96 82 0.99
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (96 bp):
ACTAATTCCGGGCTAAGTACCGAAGGCATTTGTGCAAACTACTATATCCGGGCTAAGTCCCGAAG
GCATTTGTGCAAACTACTATATCCGGGAGTT
Found at i:12464154 original size:136 final size:136
Alignment explanation
Indices: 12463910--12464168 Score: 455
Period size: 136 Copynumber: 1.9 Consensus size: 136
12463900 GATGATAATG
* *
12463910 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTACCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
12463975 CAAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCCGGGAGTTACT
66 CAAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCCGGGAGTTACT
12464040 AATTCC
131 AATTCC
* *
12464046 GGGCTAAGTACCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTACCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
* **
12464111 CGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCCGGG
66 CAAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCCGGG
12464169 CTAAGTCCCG
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 116 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (136 bp):
GGGCTAAGTACCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CAAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAACTACTATATCCGGGAGTTACT
AATTCC
Found at i:12471815 original size:40 final size:39
Alignment explanation
Indices: 12471760--12471935 Score: 230
Period size: 40 Copynumber: 4.4 Consensus size: 39
12471750 GATGATAACG
*
12471760 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-TCC
*
12471800 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCC
* *
12471840 GAGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACTATATCC
*
12471880 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTATATCC
* *
12471920 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
12471936 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
39 17 0.14
40 103 0.84
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATCC
Found at i:12471895 original size:80 final size:79
Alignment explanation
Indices: 12471761--12471935 Score: 257
Period size: 80 Copynumber: 2.2 Consensus size: 79
12471751 ATGATAACGG
* *
12471761 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
12471826 GAGTTA-CTATATCC
66 GAG-TAGCTATATCC
12471840 GAGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 G-GCTAAGTCCCGAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
12471903 TGCGAGTAGCTATATCC
63 TGCGAGTAGCTATATCC
* *
12471920 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
12471936 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
79 18 0.20
80 68 0.77
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGTAGCTATATCC
Found at i:12474352 original size:42 final size:43
Alignment explanation
Indices: 12474291--12474373 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 43
12474281 CCTAGACATA
**
12474291 TCTTACACTAGCTTACGTCTCGAGGCCGATG-CATGTCCCATG
1 TCTTACACTAGCACACGTCTCGAGGCCGATGCCATGTCCCATG
* * * *
12474333 TCTTACACTAGCACCCGTCTTGATGTCGATGCCATGTCCCA
1 TCTTACACTAGCACACGTCTCGAGGCCGATGCCATGTCCCA
12474374 GACATGGCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.74
43 9 0.26
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (43 bp):
TCTTACACTAGCACACGTCTCGAGGCCGATGCCATGTCCCATG
Found at i:12475960 original size:46 final size:46
Alignment explanation
Indices: 12475887--12476006 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
12475877 AACTAGGCAT
*
12475887 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
12475933 CCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
12475979 CCGAACTCGTTGAGCTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
12476007 GAGAAATGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:12490374 original size:13 final size:13
Alignment explanation
Indices: 12490358--12490383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12490348 ATATGTTTCA
12490358 TGATTGTTTTGGT
1 TGATTGTTTTGGT
12490371 TGATTGTTTTGGT
1 TGATTGTTTTGGT
12490384 ATGGATTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:12495732 original size:27 final size:27
Alignment explanation
Indices: 12495702--12495829 Score: 172
Period size: 26 Copynumber: 4.8 Consensus size: 27
12495692 AAGACCCAGA
* * *
12495702 TTGTAAAATTATCAAAATACCCCCAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
12495729 TTGTAAAATTACCAAAACA-CCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
12495755 TTGTAAAATTA-CAGAAATACCCCTAGT
1 TTGTAAAATTACCA-AAATACCCCTAGT
*
12495782 TTGTAAAATTGCCAAAATA-CCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
12495808 TTGTAAAATTACCGAAATACCC
1 TTGTAAAATTACCAAAATACCC
12495830 TTGTAGTATA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.02
26 44 0.49
27 41 0.46
28 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:12495785 original size:53 final size:53
Alignment explanation
Indices: 12495702--12495829 Score: 195
Period size: 53 Copynumber: 2.4 Consensus size: 53
12495692 AAGACCCAGA
12495702 TTGTAAAATTATCA-AAATACCCCCAATTTGTAAAATTACCAAAACACCCTAGT
1 TTGTAAAATTA-CAGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTAGT
* * * *
12495755 TTGTAAAATTACAGAAATACCCCTAGTTTGTAAAATTGCCAAAATACCCTAGT
1 TTGTAAAATTACAGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTAGT
*
12495808 TTGTAAAATTACCGAAATACCC
1 TTGTAAAATTACAGAAATACCC
12495830 TTGTAGTATA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
52 2 0.03
53 67 0.97
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (53 bp):
TTGTAAAATTACAGAAATACCCCCAATTTGTAAAATTACCAAAACACCCTAGT
Found at i:12495857 original size:53 final size:53
Alignment explanation
Indices: 12495702--12495845 Score: 166
Period size: 53 Copynumber: 2.7 Consensus size: 53
12495692 AAGACCCAGA
* * * * *
12495702 TTGTAAAATTATCA-AAATACCCCCAATTTGTAAAATTACCAAAACACCCTAGT
1 TTGTAAAATTA-CAGAAATACCCCTAGTGTATAAAATTACCAAAATACCCTAGT
* * *
12495755 TTGTAAAATTACAGAAATACCCCTAGTTTGTAAAATTGCCAAAATACCCTAGT
1 TTGTAAAATTACAGAAATACCCCTAGTGTATAAAATTACCAAAATACCCTAGT
* *
12495808 TTGTAAAATTACCGAAATA-CCCTTGTAGTATAAAATTA
1 TTGTAAAATTACAGAAATACCCCTAGT-GTATAAAATTA
12495846 TTGAAATACC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 8 0.10
53 72 0.90
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
TTGTAAAATTACAGAAATACCCCTAGTGTATAAAATTACCAAAATACCCTAGT
Found at i:12522189 original size:13 final size:13
Alignment explanation
Indices: 12522171--12522195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12522161 GCCAATTCAG
12522171 TTCATTTAAACTT
1 TTCATTTAAACTT
12522184 TTCATTTAAACT
1 TTCATTTAAACT
12522196 CCTGCTGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TTCATTTAAACTT
Found at i:12525151 original size:19 final size:20
Alignment explanation
Indices: 12525128--12525174 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
12525118 AAAAATGATA
12525128 AAAGAAAATGAGAAA-AAGAC
1 AAAGAAAA-GAGAAAGAAGAC
12525148 -AAGAAAAGAGAAAGAAGAC
1 AAAGAAAAGAGAAAGAAGAC
12525167 AAAGAAAA
1 AAAGAAAA
12525175 AGATTGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.24
19 12 0.48
20 7 0.28
ACGTcount: A:0.72, C:0.04, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAAAAGAGAAAGAAGAC
Found at i:12528944 original size:13 final size:13
Alignment explanation
Indices: 12528926--12528950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12528916 ACCAATTCAG
12528926 TTCATTTAAACTT
1 TTCATTTAAACTT
12528939 TTCATTTAAACT
1 TTCATTTAAACT
12528951 CCAACTGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TTCATTTAAACTT
Found at i:12535654 original size:29 final size:29
Alignment explanation
Indices: 12535591--12535658 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
12535581 TAATCAACCG
12535591 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
12535620 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
12535649 CGCACACTTA
1 CGCACACTTA
12535659 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:12535772 original size:174 final size:174
Alignment explanation
Indices: 12535480--12535807 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
12535470 AACTCAAGGT
* * *
12535480 ACTTACCTTTTCCGCTGTCTAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
12535545 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
12535610 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
12535654 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
12535719 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCATGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
12535784 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
12535808 AGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:12535800 original size:29 final size:29
Alignment explanation
Indices: 12535766--12535838 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 29
12535756 AATCAACCAT
*
12535766 GCACACTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCA-GTACATTTAAACCC
12535795 GCACACTTAGTG-CAGTACAATTTAAACCC
1 GCACACTTAGTGCCAGTAC-ATTTAAACCC
12535824 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
12535839 ATCTCATGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 32 0.80
30 2 0.05
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCAGTACATTTAAACCC
Found at i:12543940 original size:28 final size:28
Alignment explanation
Indices: 12543872--12543982 Score: 102
Period size: 28 Copynumber: 3.9 Consensus size: 28
12543862 TGAATATAAT
* * *
12543872 ATGATTTGGGTCTAATGGGCCATATGAATA
1 ATGAATTGGGCCTAGTGGGCCATATG-A-A
*
12543902 AT-AATTGGGCCTAGTGGGCCATAAGAA
1 ATGAATTGGGCCTAGTGGGCCATATGAA
* *
12543929 ATGAATTGGGCC-AGATGAGCCATTTG-A
1 ATGAATTGGGCCTAG-TGGGCCATATGAA
*
12543956 ATAAGATTGGGCCTAGTGGGCCATATG
1 ATGA-ATTGGGCCTAGTGGGCCATATG
12543983 CATATGTAGG
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
27 9 0.13
28 35 0.52
29 21 0.31
30 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ATGAATTGGGCCTAGTGGGCCATATGAA
Found at i:12545063 original size:17 final size:18
Alignment explanation
Indices: 12545031--12545064 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12545021 TTTAAGAAGG
12545031 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
12545049 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
12545065 TTCAATGTAA
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:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:12548810 original size:16 final size:16
Alignment explanation
Indices: 12548789--12548826 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
12548779 CCTTAATGAA
12548789 ATAATAATAAAGTTAT
1 ATAATAATAAAGTTAT
12548805 ATAATAATAAAGTTAT
1 ATAATAATAAAGTTAT
12548821 ATAATA
1 ATAATA
12548827 TATGTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
ATAATAATAAAGTTAT
Found at i:12550378 original size:450 final size:450
Alignment explanation
Indices: 12549530--12550431 Score: 1617
Period size: 450 Copynumber: 2.0 Consensus size: 450
12549520 CGACCAAATC
*
12549530 TGAGTATTTTCTGTCAGGTAAGACTTTCAAGAAGACTTTATCTCCAATCTGAAACTCTATATCTT
1 TGAGTATTTTCTGCCAGGTAAGACTTTCAAGAAGACTTTATCTCCAATCTGAAACTCTATATCTT
* *
12549595 TACATTTCAAGTCCGTATATGATTTCTGACGATCAAATGTTGCATAATAGCCTAAATTCAAGGTT
66 TACATTTCAAGTCCGCATATGATTTCTGACGATCAAATGCTGCATAATAGCCTAAATTCAAGGTT
12549660 ATCGGAACAATGGTTTCGTAACCAAAAATCTGATTTAAAGAGAAATTTATTTTAATATTTTTGCA
131 ATCGGAACAATGGTTTCGTAACCAAAAATCTGATTTAAAGAGAAATTTATTTTAATATTTTTGCA
*
12549725 TGAATATTTATATGATAGGAAAATCGTATTAAAATATCAATAGAAAAATTTTATCGATTTAGTGG
196 TGAATATTTATATGATAGGAAAATCATATTAAAATATCAATAGAAAAATTTTATCGATTTAGTGG
* * * *
12549790 TTAGTTAGAAAAAAGGAATTATTAAAGGAATTGGATAAAAATAAGGTATCGAGACCTTGATCTCG
261 TTAGTTAAAAAAAAGGAATTATTAAAGAAATTGGATAAAAACAAGGTATCAAGACCTTGATCTCG
*
12549855 TAAAACTGAGTAGGAAATATTTTTATAAATATTTATAAAATGTTAGTAATTTGGTATTAAAATTT
326 TAAAACAGAGTAGGAAATATTTTTATAAATATTTATAAAATGTTAGTAATTTGGTATTAAAATTT
12549920 CATTAGAAATTTTTAACGTTTGGGTAATTAATTAAATGAAAAGAACTAAATTGAAAAGGG
391 CATTAGAAATTTTTAACGTTTGGGTAATTAATTAAATGAAAAGAACTAAATTGAAAAGGG
*
12549980 TGAGTATTTTCTGCCAGGTAAGACTTTCAAGAAGACTTTATCTCCAATCTGAAATTCTATATCTT
1 TGAGTATTTTCTGCCAGGTAAGACTTTCAAGAAGACTTTATCTCCAATCTGAAACTCTATATCTT
* * * *
12550045 TACTTTTCAAGTCCGCATATGATTTCTGATGATCAGATGCTGTATAATAGCCTAAATTCAAGGTT
66 TACATTTCAAGTCCGCATATGATTTCTGACGATCAAATGCTGCATAATAGCCTAAATTCAAGGTT
* * *
12550110 ATCGGAACAGTGGTTTCGTAACCACAAATTTGATTTAAAGAGAAATTTATTTTAATATTTTTGCA
131 ATCGGAACAATGGTTTCGTAACCAAAAATCTGATTTAAAGAGAAATTTATTTTAATATTTTTGCA
*
12550175 TGAATATTTATATGATAGGAAAATCATATTAAAATATCGATAGAAAAATTTTATCGATTTAGTGG
196 TGAATATTTATATGATAGGAAAATCATATTAAAATATCAATAGAAAAATTTTATCGATTTAGTGG
12550240 TTAGTTAAAAAAAAGGAATTATTAAAGAAATTGGATAAAAACAAGGTATCAAGACCTTGATCTCG
261 TTAGTTAAAAAAAAGGAATTATTAAAGAAATTGGATAAAAACAAGGTATCAAGACCTTGATCTCG
12550305 TAAAACAGAGTAGGAAATATTTTTATAAATATTTATAAAATGTTAGTAATTTGGTATTAAAATTT
326 TAAAACAGAGTAGGAAATATTTTTATAAATATTTATAAAATGTTAGTAATTTGGTATTAAAATTT
*
12550370 -ATTTAGAAATTTTTAACGTTTGGGTAATTAATTAAATGAAAAGGACTAAATTGAAAAGGG
391 CA-TTAGAAATTTTTAACGTTTGGGTAATTAATTAAATGAAAAGAACTAAATTGAAAAGGG
12550430 TG
1 TG
12550432 TAAAAGTTAC
Statistics
Matches: 432, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
449 1 0.00
450 431 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (450 bp):
TGAGTATTTTCTGCCAGGTAAGACTTTCAAGAAGACTTTATCTCCAATCTGAAACTCTATATCTT
TACATTTCAAGTCCGCATATGATTTCTGACGATCAAATGCTGCATAATAGCCTAAATTCAAGGTT
ATCGGAACAATGGTTTCGTAACCAAAAATCTGATTTAAAGAGAAATTTATTTTAATATTTTTGCA
TGAATATTTATATGATAGGAAAATCATATTAAAATATCAATAGAAAAATTTTATCGATTTAGTGG
TTAGTTAAAAAAAAGGAATTATTAAAGAAATTGGATAAAAACAAGGTATCAAGACCTTGATCTCG
TAAAACAGAGTAGGAAATATTTTTATAAATATTTATAAAATGTTAGTAATTTGGTATTAAAATTT
CATTAGAAATTTTTAACGTTTGGGTAATTAATTAAATGAAAAGAACTAAATTGAAAAGGG
Found at i:12558200 original size:4 final size:4
Alignment explanation
Indices: 12558191--12558224 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
12558181 GGTTTGTATT
12558191 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
12558225 AGTATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:12559307 original size:28 final size:28
Alignment explanation
Indices: 12559233--12559310 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 28
12559223 CTGTAAAAGT
*
12559233 GATTGGGCCTAGTGGGCCATATAAATGT
1 GATTGGGCCTAGTGGGCCATATAAATGA
* * *
12559261 GATTTAGGCCTAATGGGCCATATGAATGA
1 GA-TTGGGCCTAGTGGGCCATATAAATGA
*
12559290 GATTGGGCCTAGTAGGCCATA
1 GATTGGGCCTAGTGGGCCATA
12559311 GGCATGTATG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATAAATGA
Found at i:12560552 original size:18 final size:18
Alignment explanation
Indices: 12560529--12560563 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12560519 TTTAAAGAAG
12560529 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
12560547 GGTTTTCAATGAAAACA
1 GGTTTTCAATGAAAACA
12560564 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:12573663 original size:52 final size:52
Alignment explanation
Indices: 12573585--12573686 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
12573575 TTGAGCTTGA
*
12573585 ATATATGTCGAACCCTAGCTTGGTTTCTTTCTTTTTCTTTTATTAAGTTTCG
1 ATATATGTCGAACCCTAGCTTGGTTTCTGTCTTTTTCTTTTATTAAGTTTCG
12573637 ATATATGTCGAACCCTAGCTTGGTTTCTGTCTTTTTCTTTTATTAAGTTT
1 ATATATGTCGAACCCTAGCTTGGTTTCTGTCTTTTTCTTTTATTAAGTTT
12573687 TGGCAATGGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.52
Consensus pattern (52 bp):
ATATATGTCGAACCCTAGCTTGGTTTCTGTCTTTTTCTTTTATTAAGTTTCG
Found at i:12579804 original size:47 final size:47
Alignment explanation
Indices: 12579714--12579878 Score: 240
Period size: 47 Copynumber: 3.5 Consensus size: 47
12579704 ATTCAGCCAA
12579714 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAAGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCC-A-ATGTGATGAATGT
12579763 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* * * * * *
12579810 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* *
12579857 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
12579879 TCCCGAAGGG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 72 0.68
48 1 0.01
49 33 0.31
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
Found at i:12580053 original size:37 final size:37
Alignment explanation
Indices: 12579997--12580075 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
12579987 CCGAGCTCTA
* *
12579997 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
12580034 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
12580071 AAGAC
1 AAGAC
12580076 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:12587368 original size:20 final size:20
Alignment explanation
Indices: 12587343--12587384 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12587333 TTTCTAAAAA
* *
12587343 AACAAATGAATGAATAAGTG
1 AACAAATGAATCAATAAATG
12587363 AACAAATGAATCAATAAATG
1 AACAAATGAATCAATAAATG
12587383 AA
1 AA
12587385 ATTGGGGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (20 bp):
AACAAATGAATCAATAAATG
Found at i:12596534 original size:3 final size:3
Alignment explanation
Indices: 12596526--12596558 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12596516 TTATTCAATC
12596526 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12596559 AAAGATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12598031 original size:147 final size:146
Alignment explanation
Indices: 12597835--12598246 Score: 462
Period size: 150 Copynumber: 2.8 Consensus size: 146
12597825 GCTGAAATTT
* * * * *
12597835 TTTTTACAAAATC-AAAGTTT-TC-TTTAGAAAAAAATCATTAATTTTCTTAAAAATCAAAAC-T
1 TTTTT-CAAAATCTAAACTTTCTCTTTTA-AAAAAAAT-ACT-ATTTTCTTAAAGATTAAAGCTT
* *
12597896 TTATTTTGAAATTGTT-AAAACAAATCAAAATTTTATTTTAAAAATTTAAACTTTCCTTTAAAAT
62 TTATTTTGAAGTAGTTGAAAA-AAATCAAAATTTTATTTTAAAAATTTAAACTTTCCTTTAAAAT
* * *
12597960 GACT-TAAAAAAGAGATTTTTA
126 -ACTAAAAAAAACAAATTTTTA
* *
12597981 TTTTTTAAAATCTAAACTTTCTCATTCTTTAAAAAAA-ACTATTTTCCTTAAAGATTAAAGCTTT
1 TTTTTCAAAATCTAAACTTTCTC-TT-TTAAAAAAAATACTATTTT-CTTAAAGATTAAAGCTTT
** **
12598045 TATTTTGAAGTAGTTGAAAAAAATCAAAA-CATATTTTAAAGTTTTAAACTTTCCTTTAAAATAC
63 TATTTTGAAGTAGTTGAAAAAAATCAAAATTTTATTTTAAAAATTTAAACTTTCCTTTAAAATAC
12598109 TAAAAAAAAAAAACAAATTTTTA
128 T----AAAAAAAACAAATTTTTA
* *
12598132 TTTTTCAAAATCTAACCTTTTTCTTTTAAAAAAAATACTATTTTTCTTAAAGATTAAAGCTTTTA
1 TTTTTCAAAATCTAAACTTTCTCTTTTAAAAAAAATACTA-TTTTCTTAAAGATTAAAGCTTTTA
*
12598197 TTTTGAAGTAGTTGAAAAAGAATCAAAATTTTGTTTTAAAAATTTAAACT
65 TTTTGAAGTAGTTGAAAAA-AATCAAAATTTTATTTTAAAAATTTAAACT
12598247 AACTTTCTCT
Statistics
Matches: 224, Mismatches: 25, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
145 6 0.03
146 19 0.08
147 45 0.20
148 24 0.11
149 21 0.09
150 47 0.21
151 46 0.21
152 16 0.07
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (146 bp):
TTTTTCAAAATCTAAACTTTCTCTTTTAAAAAAAATACTATTTTCTTAAAGATTAAAGCTTTTAT
TTTGAAGTAGTTGAAAAAAATCAAAATTTTATTTTAAAAATTTAAACTTTCCTTTAAAATACTAA
AAAAAACAAATTTTTA
Found at i:12598239 original size:97 final size:94
Alignment explanation
Indices: 12598128--12598333 Score: 256
Period size: 98 Copynumber: 2.1 Consensus size: 94
12598118 AAAACAAATT
* *
12598128 TTTATTTTTCAAAATCT-AAC-CTTTTTCTTTTAAAAAAAATACTATTTTTCTTAAAGATTAAAG
1 TTTA-TTTTAAAAATCTAAACACTTTCTCTTTT-AAAAAAA-A-TATTTTTCTTAAAGATTAAAG
* *
12598191 CTTTT-ATTTTGAAGTAGTTGAAAAAGAATCAAAAT
62 CTTTTAATTTT-AAATAGTTG-AAAA-AATCAAAAC
* *
12598226 TTTGTTTTAAAAATTTAAACTAACTTTCTCTTTTAAAAAAAATATTTTTCTTAAAGATTAAAGCT
1 TTTATTTTAAAAATCTAAAC--ACTTTCTCTTTTAAAAAAAATATTTTTCTTAAAGATTAAAGCT
12598291 TTTAATTTTAAATAGTTGAAAAAATCAAAAC
64 TTTAATTTTAAATAGTTGAAAAAATCAAAAC
12598322 TTTATTTTAAAA
1 TTTATTTTAAAA
12598334 TTTTAGAATT
Statistics
Matches: 96, Mismatches: 7, Indels: 12
0.83 0.06 0.10
Matches are distributed among these distances:
96 19 0.20
97 14 0.15
98 40 0.42
99 6 0.06
100 7 0.07
101 10 0.10
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (94 bp):
TTTATTTTAAAAATCTAAACACTTTCTCTTTTAAAAAAAATATTTTTCTTAAAGATTAAAGCTTT
TAATTTTAAATAGTTGAAAAAATCAAAAC
Found at i:12605301 original size:30 final size:30
Alignment explanation
Indices: 12605256--12605316 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
12605246 ATTTAATACG
*
12605256 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
* *
12605286 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
12605316 A
1 A
12605317 GCTCGGGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:12607858 original size:40 final size:40
Alignment explanation
Indices: 12607810--12608001 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
12607800 ATAACAACTC
12607810 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
12607850 GCATAAATGCCTTCGGGTCTTAGCCCGGATATAGTCGCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
*
12607890 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTA
* **
12607930 GCACAAATGCCTTCGGATCTTAGTTCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
12607970 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
12608002 CATTCGAATA
Statistics
Matches: 136, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:12607897 original size:80 final size:80
Alignment explanation
Indices: 12607781--12608001 Score: 297
Period size: 80 Copynumber: 2.8 Consensus size: 80
12607771 ACCCAAGTAT
* *
12607781 CTTCGAGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CTTCG-GATCTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
*
12607843 GTC-ACTAGCATAAATGC
64 G-CAACTAGCACAAATGC
* *
12607860 CTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
*
12607925 AACTCGCACAAATGC
66 AACTAGCACAAATGC
** * *
12607940 CTTCGGATCTTAGTTCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
12608002 CATTCGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 113 0.90
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:12616330 original size:30 final size:30
Alignment explanation
Indices: 12616285--12616344 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
12616275 ATTTAATACG
12616285 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
12616315 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
12616345 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:12617511 original size:27 final size:27
Alignment explanation
Indices: 12617470--12617608 Score: 163
Period size: 27 Copynumber: 5.2 Consensus size: 27
12617460 GACAACTAAA
*
12617470 AATAGCCTTTCTGGTGAACTCTGAAAG
1 AATAGCCTTTTTGGTGAACTCTGAAAG
* *
12617497 AATAGCATTTTTGGTGAACTTTGAAAG
1 AATAGCCTTTTTGGTGAACTCTGAAAG
* * *
12617524 AATAGCCATTGTGGTGAACTCTTAAAG
1 AATAGCCTTTTTGGTGAACTCTGAAAG
* *
12617551 AATAGCCTTTTTGGTGAACTTTG-AAT
1 AATAGCCTTTTTGGTGAACTCTGAAAG
* * * *
12617577 AATGGCCTTTATGGCGAACTCTGAAGG
1 AATAGCCTTTTTGGTGAACTCTGAAAG
12617604 AATAG
1 AATAG
12617609 TCTGTGTGGT
Statistics
Matches: 91, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
26 21 0.23
27 70 0.77
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (27 bp):
AATAGCCTTTTTGGTGAACTCTGAAAG
Found at i:12617619 original size:53 final size:53
Alignment explanation
Indices: 12617470--12617608 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 53
12617460 GACAACTAAA
*
12617470 AATAGCCTTTCTGGTGAACTCTGAAAGAATAGCATTTTTGGTGAACTTTGAAAG
1 AATAGCCTTTATGGTGAACTCTGAAAGAATAGC-TTTTTGGTGAACTTTGAAAG
* * * *
12617524 AATAGCCATTGTGGTGAACTCTTAAAGAATAGCCTTTTTGGTGAACTTTG-AAT
1 AATAGCCTTTATGGTGAACTCTGAAAGAATAG-CTTTTTGGTGAACTTTGAAAG
* * *
12617577 AATGGCCTTTATGGCGAACTCTGAAGGAATAG
1 AATAGCCTTTATGGTGAACTCTGAAAGAATAG
12617609 TCTGTGTGGT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
53 28 0.38
54 45 0.61
55 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (53 bp):
AATAGCCTTTATGGTGAACTCTGAAAGAATAGCTTTTTGGTGAACTTTGAAAG
Found at i:12625986 original size:38 final size:38
Alignment explanation
Indices: 12625912--12626101 Score: 209
Period size: 38 Copynumber: 4.9 Consensus size: 38
12625902 GAATCCAGTC
* * * * *
12625912 ACCAGCACAAAACCTGTGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
** * *
12625952 ACCAATACTAAGCCTCCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
12625990 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
12626028 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * * * *
12626066 TCCAGCATGTAGCCTGGGGGTCTTTAAGCCCGGATA
1 ACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATA
12626102 CACATCAAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 96 0.74
39 10 0.08
40 23 0.18
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:12633280 original size:39 final size:40
Alignment explanation
Indices: 12633196--12633273 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
12633186 ACTTAATTCA
* * *
12633196 CCAGCATTAAGCCTGCGGGACTTTAAACCCAGATACAATT
1 CCAGCATGAAGCCAGCGGGACTGTAAACCCAGATACAATT
* *
12633236 CCAGCATGAAGCCAGCGGGTCTGT-AACCCGGATACAAT
1 CCAGCATGAAGCCAGCGGGACTGTAAACCCAGATACAAT
12633274 CTCAGCACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 13 0.39
40 20 0.61
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTGTAAACCCAGATACAATT
Found at i:12633447 original size:47 final size:47
Alignment explanation
Indices: 12633351--12634305 Score: 1790
Period size: 47 Copynumber: 20.3 Consensus size: 47
12633341 TGCACACTTT
* * *
12633351 TCACAATTGGTCATTCGGCCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
** * * **
12633397 TCACATTAACCATTCGGCCTTATCTCATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633444 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633491 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633538 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633585 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633632 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633679 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633726 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633773 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633820 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633867 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633914 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12633961 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12634008 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12634055 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12634102 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12634149 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12634196 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12634243 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
12634290 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
12634306 ATCTTAAGCT
Statistics
Matches: 893, Mismatches: 13, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
45 21 0.02
46 5 0.01
47 867 0.97
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:12637663 original size:43 final size:43
Alignment explanation
Indices: 12637605--12637693 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
12637595 TAGTCAATTA
*
12637605 GGATTACCCACCCGGGCTAAATCCTTTCTATA-TCGAAATCAAT
1 GGATTACCCACCCGGGCTAAATCCTTTCTATACT-AAAATCAAT
*
12637648 GGATTACCCATCCGGGCTAAATCCTTTCTATACTAAAATCAAT
1 GGATTACCCACCCGGGCTAAATCCTTTCTATACTAAAATCAAT
12637691 GGA
1 GGA
12637694 ATGTGTTCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
GGATTACCCACCCGGGCTAAATCCTTTCTATACTAAAATCAAT
Found at i:12644808 original size:46 final size:45
Alignment explanation
Indices: 12644704--12644918 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 45
12644694 ATATCTGTGT
* ** *
12644704 CGATGCCATGTCCCAGACATGGTCTTATACTAAC-ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGC
* *
12644750 TGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGC
* * * * **
12644796 CGAAGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATTC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGC
* * * *
12644842 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAAT-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGC
12644890 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
12644919 ATCTCACACA
Statistics
Matches: 136, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 61 0.45
47 29 0.21
48 20 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGC
Found at i:12644868 original size:94 final size:92
Alignment explanation
Indices: 12644751--12644919 Score: 234
Period size: 94 Copynumber: 1.8 Consensus size: 92
12644741 TCTCGTAGCT
* * *
12644751 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACGT-CTCGAGGCCGAAGCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTAAACTGGCTCT-CATAAT-GAGGCCGAAGCATGTCCCAGACA
12644814 TGTCTTACACTAGCACTCATCTCAATTCC
64 TGTCTTACACTAGCACTCATCTCAATTCC
* * *
12644843 GATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAATGTGGTCGATGCATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTAAACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACA
12644908 TGTCTTACACTA
64 TGTCTTACACTA
12644920 TCTCACACAA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
92 4 0.06
93 14 0.21
94 47 0.70
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTAAACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACATG
TCTTACACTAGCACTCATCTCAATTCC
Found at i:12646918 original size:27 final size:27
Alignment explanation
Indices: 12646880--12646933 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
12646870 CAACACCGCA
*
12646880 ACATGTCTTCTAGAATCTGAATCACTC
1 ACATGTCTTCTAAAATCTGAATCACTC
*
12646907 ACATGTCTTCTAAAATCTGAATTACTC
1 ACATGTCTTCTAAAATCTGAATCACTC
12646934 TTTCCGACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (27 bp):
ACATGTCTTCTAAAATCTGAATCACTC
Found at i:12654701 original size:40 final size:40
Alignment explanation
Indices: 12654594--12654810 Score: 185
Period size: 40 Copynumber: 5.5 Consensus size: 40
12654584 CGGATGATAA
* * * ***
12654594 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA-ATT
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATA-T
* * *
12654634 TCGGGCTAA-GCCCGAAGGCAATT-GTGCGAGTTATTATAC
1 CCGGGCTAATTCCCGAAGGC-ATTCGTGCGAGTTATTATAT
* * *
12654673 CCGGGCTAATTCTCGAAGGCATTCGTGCGGGTTATTATGT
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATAT
* * *
12654713 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATAT
* *
12654753 CCGGGCT-ATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATAT
* *
12654793 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAATTCCCGAAGG
12654811 TACTTGGCTT
Statistics
Matches: 146, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
39 44 0.30
40 102 0.70
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATAT
Found at i:12654796 original size:80 final size:80
Alignment explanation
Indices: 12654594--12654810 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 80
12654584 CGGATGATAA
* * * * *
12654594 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA-ATTTCGGGCTAAG-CCCGAAGGCAATT
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATA-TCCGGGCTAAGTCCCGAAGGCAATT
*
12654657 GTGCGAGTTATTATAC
65 GTGCGAGTTACTATAC
* * * *
12654673 CCGGGCTAAT-TCTCGAAGGCATTCGTGCGGGTTA-TTATGTCCGGGCTAAGTCCCGAAGGC-AT
1 CCGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCAAT
*
12654735 TGGTGCGAGTTACTATAT
64 T-GTGCGAGTTACTATAC
* * *
12654753 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
12654811 TACTTGGCTT
Statistics
Matches: 113, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
79 57 0.50
80 56 0.50
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGCAATTG
TGCGAGTTACTATAC
Found at i:12654809 original size:119 final size:119
Alignment explanation
Indices: 12654594--12654810 Score: 262
Period size: 119 Copynumber: 1.8 Consensus size: 119
12654584 CGGATGATAA
* * * * *
12654594 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATTTCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
* * *
12654659 GCGAGTTATTATACCCGGGCTAATTCTCGAAGGCATTCGTGCGGGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGGGTTATTATGT
* *
12654713 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGCAATT
* *
12654776 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
12654811 TACTTGGCTT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
118 2 0.02
119 59 0.72
120 21 0.26
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGGGTTATTATGT
Found at i:12667798 original size:16 final size:16
Alignment explanation
Indices: 12667777--12667828 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
12667767 TTTGGTTCGC
12667777 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12667793 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
12667809 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
12667825 TGTA
1 TGTA
12667829 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12667875 original size:45 final size:44
Alignment explanation
Indices: 12667809--12667903 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
12667799 GGATTAGAGG
* *
12667809 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
12667854 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
12667898 TGTAAT
1 TGTAAT
12667904 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:12668086 original size:18 final size:17
Alignment explanation
Indices: 12668065--12668099 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12668055 TTATTATTTA
*
12668065 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12668083 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12668100 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12668093 original size:28 final size:27
Alignment explanation
Indices: 12668023--12668095 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
12668013 TTTATTATCA
*
12668023 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
12668051 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
12668078 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
12668096 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:12668643 original size:12 final size:12
Alignment explanation
Indices: 12668628--12668657 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12668618 AATACAAACA
12668628 ACAGAAGCTGCT
1 ACAGAAGCTGCT
12668640 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
12668652 AAAGAA
1 ACAGAA
12668658 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:12674383 original size:4 final size:4
Alignment explanation
Indices: 12674374--12674398 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12674364 AATGTCATAT
12674374 TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC T
12674399 CTTTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Done.