Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 104 of 425
Found at i:30171938 original size:17 final size:19
Alignment explanation
Indices: 30171896--30171939 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30171886 ATGAAATTTT
*
30171896 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
30171915 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
30171933 AA-TATTA
1 AATTATTA
30171940 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:30175194 original size:54 final size:54
Alignment explanation
Indices: 30175122--30175258 Score: 247
Period size: 54 Copynumber: 2.5 Consensus size: 54
30175112 ATTGTCGTTG
*
30175122 CAGGGGATTTAGCTTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
*
30175176 CAGGGGATTTAGCCTGGACTGATAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
*
30175230 CATGGGATTTAGCCTGGACTGGTAATCCC
1 CAGGGGATTTAGCCTGGACTGGTAATCCC
30175259 ACTGTAAGGA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
Found at i:30175344 original size:46 final size:46
Alignment explanation
Indices: 30175292--30175649 Score: 509
Period size: 46 Copynumber: 8.0 Consensus size: 46
30175282 AGTGTGCTCT
30175292 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
30175338 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
30175384 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
30175422 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
30175468 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
30175514 CTGATATGAGATGTATAAGACCATGGTTGAAAGATACCATGGTAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
30175560 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
30175606 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
30175650 TCACGTCAAA
Statistics
Matches: 287, Mismatches: 16, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
38 36 0.13
41 2 0.01
43 2 0.01
45 1 0.00
46 246 0.86
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:30175957 original size:16 final size:17
Alignment explanation
Indices: 30175936--30175968 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30175926 ATGATGAAGC
*
30175936 ATAAAAT-ATTGATATA
1 ATAAAATGAATGATATA
30175952 ATAAAATGAATGATATA
1 ATAAAATGAATGATATA
30175969 TGCTTGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
ATAAAATGAATGATATA
Found at i:30176712 original size:22 final size:22
Alignment explanation
Indices: 30176687--30176731 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30176677 ATTTTTAAAA
*
30176687 AATATTTATA-TTATATTATTTT
1 AATATTAATAGTTATATT-TTTT
*
30176709 AATATTAATAGTTTTATTTTTT
1 AATATTAATAGTTATATTTTTT
30176731 A
1 A
30176732 TTTATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
AATATTAATAGTTATATTTTTT
Found at i:30182079 original size:46 final size:46
Alignment explanation
Indices: 30182029--30182201 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
30182019 TGGTTGAGCA
*
30182029 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
30182075 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
30182122 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
30182168 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30182202 CGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:30182185 original size:93 final size:93
Alignment explanation
Indices: 30182026--30182196 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30182016 GGATGGTTGA
* *
30182026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
30182091 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
30182119 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
30182184 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30182197 ACTTACGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30188640 original size:19 final size:19
Alignment explanation
Indices: 30188616--30188652 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30188606 AGGTTCAACA
*
30188616 CCTAAGCCTATGAAATTGT
1 CCTAAGACTATGAAATTGT
*
30188635 CCTAAGATTATGAAATTG
1 CCTAAGACTATGAAATTG
30188653 CTCTTGGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CCTAAGACTATGAAATTGT
Found at i:30195185 original size:27 final size:27
Alignment explanation
Indices: 30195113--30195199 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
30195103 TATACGTCAC
* *
30195113 ATAAGGATAAAAAAGTCATCTTACCAT
1 ATAAGGGTAAAAAAGTCATTTTACCAT
* * *
30195140 AAAAGGG-AAAAATAATCATTTTACTAT
1 ATAAGGGTAAAAA-AGTCATTTTACCAT
*
30195167 ATAAGGGTAAAACAGTCATTTTACC-T
1 ATAAGGGTAAAAAAGTCATTTTACCAT
30195193 CATAAGG
1 -ATAAGG
30195200 CCAAAATAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 6 0.12
27 38 0.79
28 4 0.08
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.28
Consensus pattern (27 bp):
ATAAGGGTAAAAAAGTCATTTTACCAT
Found at i:30196588 original size:12 final size:12
Alignment explanation
Indices: 30196573--30196598 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30196563 CTTAATCCAA
30196573 TCCTCCAATCTC
1 TCCTCCAATCTC
30196585 TCCTCCAATCTC
1 TCCTCCAATCTC
30196597 TC
1 TC
30196599 AACCATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (12 bp):
TCCTCCAATCTC
Found at i:30204077 original size:40 final size:41
Alignment explanation
Indices: 30204033--30204257 Score: 279
Period size: 40 Copynumber: 5.7 Consensus size: 41
30204023 GCTACTCGTT
* * *
30204033 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
30204073 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
30204113 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
30204153 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
30204193 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
30204234 CAAA-GCCTTC-GGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
30204258 CATCATTCGA
Statistics
Matches: 172, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 13 0.08
40 149 0.87
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:30212433 original size:40 final size:40
Alignment explanation
Indices: 30212208--30212433 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
30212198 GCTACTCGTT
* * *
30212208 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* *
30212248 CAAATGCCTTCGGGA-CTTATCCCAGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
30212288 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
30212328 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
30212368 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
30212409 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
30212434 CATCATTCGA
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.91
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:30215726 original size:23 final size:23
Alignment explanation
Indices: 30215700--30215744 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
30215690 CATTTCTACG
30215700 CCTTAATCATCGAGGCAGGTTCA
1 CCTTAATCATCGAGGCAGGTTCA
* *
30215723 CCTTAATCGTCGAGGTAGGTTC
1 CCTTAATCATCGAGGCAGGTTC
30215745 GTATGATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
CCTTAATCATCGAGGCAGGTTCA
Found at i:30218575 original size:18 final size:19
Alignment explanation
Indices: 30218554--30218600 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30218544 TTTGTTTTAA
*
30218554 TTATTTAATTGTTCA-ATT
1 TTATTTAATTGTTAATATT
*
30218572 TTA-TGAATTGTTAATATT
1 TTATTTAATTGTTAATATT
30218590 TTATTCTAATT
1 TTATT-TAATT
30218601 AAATTTTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.39
18 9 0.39
19 1 0.04
20 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (19 bp):
TTATTTAATTGTTAATATT
Found at i:30220623 original size:29 final size:29
Alignment explanation
Indices: 30220590--30220721 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
30220580 CCTCCGAACT
** * * *
30220590 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
30220619 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30220648 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30220677 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30220706 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30220722 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:30224234 original size:359 final size:359
Alignment explanation
Indices: 30223575--30224298 Score: 1376
Period size: 359 Copynumber: 2.0 Consensus size: 359
30223565 GAATTTTTGT
*
30223575 TAATTAAGCTAAGCTTTAGTATAAATAAACTTCTATTTTCTCAATATTTGTTATGTTAGCTGAAT
1 TAATTAAGCTAAGCTTTAGTATAAATAAACTTCTATTATCTCAATATTTGTTATGTTAGCTGAAT
30223640 TATGACATAAATGTGACACTTAAAAAAGTTTGTAAATCGAACCATAAAATTTTTAATTCCTCAAA
66 TATGACATAAATGTGACACTTAAAAAAGTTTGTAAATCGAACCATAAAATTTTTAATTCCTCAAA
*
30223705 AAAGCTAAGCATGCATGAAAGTTTAAGTCTCTAGAATTGACTTAGTTATTTCTTGAGGCGAAATC
131 AAAGCTAAGCATGCATGAAAGTTTAAGTCTCTAGAATTGACTTAGTAATTTCTTGAGGCGAAATC
*
30223770 CTAGGAGGCATGAAATTTTGAAAATGATTTAGGCAAACTTTTGTTTGGGCCATTTAAGCCTTTCA
196 CTAGGAGGCATGAAATTTTGAAAATGATTTAGGCAAACTTTTCTTTGGGCCATTTAAGCCTTTCA
* *
30223835 AGTCAACCTTAATAAATAATTATCCCTTGAAATCCAACTTTGAGACTATATGGCCTGATTTTATT
261 AGTCAACCTTAATAAATAATTATCCCTTGAAACCCAACTTTGAGACTATATGGCCTAATTTTATT
30223900 CGAACCTTGCAATAATAAGCCATCCCTTCTCTCA
326 CGAACCTTGCAATAATAAGCCATCCCTTCTCTCA
30223934 TAATTAAGCTAAGCTTTAGTATAAATAAACTTCTATTATCTCAATATTTGTTATGTTAGCTGAAT
1 TAATTAAGCTAAGCTTTAGTATAAATAAACTTCTATTATCTCAATATTTGTTATGTTAGCTGAAT
* * *
30223999 TATGACATAAATGTGACACTTAATAAAGTTTGTAAATCGAACCATAAAATTTTTAATTCCTTAGA
66 TATGACATAAATGTGACACTTAAAAAAGTTTGTAAATCGAACCATAAAATTTTTAATTCCTCAAA
30224064 AAAGCTAAGCATGCATGAAAGTTTAAGTCTCTAGAATTGACTTAGTAATTTCTTGAGGCGAAATC
131 AAAGCTAAGCATGCATGAAAGTTTAAGTCTCTAGAATTGACTTAGTAATTTCTTGAGGCGAAATC
30224129 CTAGGAGGCATGAAATTTTGAAAATGATTTAGGCAAACTTTTCTTTGGGCCATTTAAGCCTTTCA
196 CTAGGAGGCATGAAATTTTGAAAATGATTTAGGCAAACTTTTCTTTGGGCCATTTAAGCCTTTCA
30224194 AGTCAACCTTAATAAATAATTATCCCTTGAAACCCAACTTTGAGACTATATGGCCTAATTTTATT
261 AGTCAACCTTAATAAATAATTATCCCTTGAAACCCAACTTTGAGACTATATGGCCTAATTTTATT
30224259 CGAACCTTGCAATAATAAGCCATCCCTTCTCTCA
326 CGAACCTTGCAATAATAAGCCATCCCTTCTCTCA
30224293 TAATTA
1 TAATTA
30224299 TCTTTAAATT
Statistics
Matches: 357, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
359 357 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (359 bp):
TAATTAAGCTAAGCTTTAGTATAAATAAACTTCTATTATCTCAATATTTGTTATGTTAGCTGAAT
TATGACATAAATGTGACACTTAAAAAAGTTTGTAAATCGAACCATAAAATTTTTAATTCCTCAAA
AAAGCTAAGCATGCATGAAAGTTTAAGTCTCTAGAATTGACTTAGTAATTTCTTGAGGCGAAATC
CTAGGAGGCATGAAATTTTGAAAATGATTTAGGCAAACTTTTCTTTGGGCCATTTAAGCCTTTCA
AGTCAACCTTAATAAATAATTATCCCTTGAAACCCAACTTTGAGACTATATGGCCTAATTTTATT
CGAACCTTGCAATAATAAGCCATCCCTTCTCTCA
Found at i:30231240 original size:30 final size:30
Alignment explanation
Indices: 30231185--30231344 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
30231175 ATAGTGAATC
30231185 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
30231214 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
30231244 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
30231273 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
30231301 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
30231331 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30231345 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:30231277 original size:59 final size:57
Alignment explanation
Indices: 30231185--30231344 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
30231175 ATAGTGAATC
*
30231185 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
30231244 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
30231301 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
30231345 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:30239024 original size:30 final size:30
Alignment explanation
Indices: 30238969--30239128 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
30238959 ATAGTGAATC
30238969 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
30238998 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
30239028 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
30239057 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
30239085 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
30239115 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30239129 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:30239061 original size:59 final size:57
Alignment explanation
Indices: 30238969--30239128 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
30238959 ATAGTGAATC
*
30238969 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
30239028 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
30239085 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
30239129 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:30248622 original size:40 final size:40
Alignment explanation
Indices: 30248545--30248762 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
30248535 AAACCAAGTA
* * *
30248545 CCTTCCGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
30248584 CCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30248624 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30248664 CCTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
30248704 CCTTCGGGACTTAGACCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30248744 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30248763 TTACCATCCG
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 147 0.92
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30251897 original size:40 final size:40
Alignment explanation
Indices: 30251672--30251890 Score: 270
Period size: 39 Copynumber: 5.6 Consensus size: 40
30251662 AATGATGTCT
* * *
30251672 GGGCTAAGTCCCGAAGGC-TTTGTGCAAG-GACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
30251710 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
30251750 GGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
30251789 GGGTTAAGT-CCGAAGGCATTTGTGCGAGTCACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
30251828 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
30251868 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
30251891 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 15 0.10
39 79 0.51
40 60 0.38
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:30251912 original size:79 final size:77
Alignment explanation
Indices: 30251676--30251923 Score: 252
Period size: 79 Copynumber: 3.2 Consensus size: 77
30251666 ATGTCTGGGC
* * * *
30251676 TAAGTCCCGAAGGC-TTTGTGCAAG-GACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAG-TCCGAAGGCATTTGTGCGAG
* * *
30251739 TTACTAATTTCGGGC
65 -TACT-ATATCCGGT
* * *
30251754 TAAG-CCTGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCGAAGGCATTTGTGCGAG
*
30251817 TCACTAAATCCGGGT
65 T-ACTATATCC-GGT
* **
30251832 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAG
30251897 TAGCTATATCCGGT
65 TA-CTATATCCGGT
* *
30251911 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
30251924 TACGTGATTC
Statistics
Matches: 141, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
77 12 0.09
78 42 0.30
79 60 0.43
80 27 0.19
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (77 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGT
ACTATATCCGGT
Found at i:30257358 original size:46 final size:46
Alignment explanation
Indices: 30257308--30257483 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30257298 TGGTTGAGCA
30257308 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30257354 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30257399 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30257447 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30257484 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30257464 original size:93 final size:93
Alignment explanation
Indices: 30257305--30257476 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30257295 GGATGGTTGA
* *
30257305 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30257370 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30257398 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30257463 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30257477 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30262810 original size:40 final size:40
Alignment explanation
Indices: 30262740--30262917 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
30262730 AAACCAAGTA
* *
30262740 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
30262779 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30262819 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30262859 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
30262899 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30262918 TTACCATCCG
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 15 0.12
40 114 0.88
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30265133 original size:37 final size:37
Alignment explanation
Indices: 30265082--30265164 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
30265072 TTATTACGAA
*
30265082 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
30265119 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
*
30265156 GTCTCACCC
1 GTCTTACCC
30265165 GGAACATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
Found at i:30265267 original size:48 final size:48
Alignment explanation
Indices: 30265212--30265411 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
30265202 TGTTACAACA
*
30265212 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
30265260 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
30265308 TTCACATTGGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
30265356 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
30265404 TTCACATT
1 TTCACATT
30265412 CATCACATCG
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:30265457 original size:49 final size:49
Alignment explanation
Indices: 30265403--30265734 Score: 550
Period size: 47 Copynumber: 6.9 Consensus size: 49
30265393 CACACATATG
*
30265403 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
30265452 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
30265499 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
30265548 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
30265597 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
30265644 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
30265691 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
30265735 CATCTCCTAC
Statistics
Matches: 269, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
47 135 0.50
49 134 0.50
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:30265753 original size:145 final size:144
Alignment explanation
Indices: 30265403--30265734 Score: 630
Period size: 145 Copynumber: 2.3 Consensus size: 144
30265393 CACACATATG
*
30265403 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
30265468 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
30265533 CACATATATATACAC
131 CACA-ATATATACAC
30265548 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
30265613 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
*
30265678 CAC-ATATATACTC
131 CACAATATATACAC
30265691 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
30265735 CATCTCCTAC
Statistics
Matches: 185, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
143 53 0.29
145 132 0.71
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (144 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACAATATATACAC
Found at i:30276926 original size:34 final size:34
Alignment explanation
Indices: 30276854--30276926 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
30276844 CTAGCTATTT
30276854 TTCT-AGTTAGGCAATTTTTCAAGTCAATCTCAA
1 TTCTAAGTTAGGCAATTTTTCAAGTCAATCTCAA
* *
30276887 CTCTAAGTTAGGCAATTTTTCAAGTCAATCTCGA
1 TTCTAAGTTAGGCAATTTTTCAAGTCAATCTCAA
30276921 TTCTAA
1 TTCTAA
30276927 CCTTTTCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (34 bp):
TTCTAAGTTAGGCAATTTTTCAAGTCAATCTCAA
Found at i:30278535 original size:27 final size:27
Alignment explanation
Indices: 30278505--30278655 Score: 164
Period size: 27 Copynumber: 5.6 Consensus size: 27
30278495 TGTAAGATAG
*
30278505 AATTACCACAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
30278532 AATTACCAAAACACCCCTAGTTAGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
30278559 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
30278586 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
30278613 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
30278640 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
30278656 TTGATTTGTG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
26 5 0.05
27 94 0.91
28 4 0.04
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:30278548 original size:54 final size:54
Alignment explanation
Indices: 30278472--30278627 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
30278462 TTACCCTCAA
* * * *
30278472 TTGTGAAATTACTGAAATACCCCT-GTAAGATAGAATTACCACAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAAG-TAAAATTACCAAAATACCACTAGT
* * * * *
30278526 TTGTAAAATTACCAAAACACCCCTAGTTAGTAAAATTACCAAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCTAGTAAGTAAAATTACCAAAATACCACTAGT
* **
30278580 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAAGTAAAATTACCAAAATACC
30278628 CCTGATTTAC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 78 0.91
55 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAAGTAAAATTACCAAAATACCACTAGT
Found at i:30278664 original size:81 final size:81
Alignment explanation
Indices: 30278525--30278683 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
30278515 ATACCCCTAG
* *
30278525 TTTGTAAAATTACCAAAACACCCCTAGTTAGTAAAATTACCAAAATACCACTGGTTTGTGAAATT
1 TTTGTAAAATTACCAAAACACCCCTAGTTAGCAAAATTACCAAAATACCACTGATTTGTGAAATT
* *
30278590 ACCGAAATACCCTCAA
66 ACCAAAACACCCTCAA
* * *
30278606 TTTGTAAAATTACCAAAATACCCCTGATTTA-CAAAATTA-CAGAAATACC-CTTGATTTGTGGA
1 TTTGTAAAATTACCAAAACACCCCT-AGTTAGCAAAATTACCA-AAATACCAC-TGATTTGTGAA
*
30278668 TTTACCAAAACACCCT
63 ATTACCAAAACACCCT
30278684 TGTAGGATGA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 3 0.04
81 60 0.90
82 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
TTTGTAAAATTACCAAAACACCCCTAGTTAGCAAAATTACCAAAATACCACTGATTTGTGAAATT
ACCAAAACACCCTCAA
Found at i:30279526 original size:20 final size:20
Alignment explanation
Indices: 30279503--30279553 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
30279493 TTGATATGAT
*
30279503 ATGCACATGGTATGTATAAA
1 ATGCACATGATATGTATAAA
*
30279523 ATGCACATGATATGTATGAA
1 ATGCACATGATATGTATAAA
30279543 ATGCACATGAT
1 ATGCACATGAT
30279554 GTATTCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:30279681 original size:52 final size:51
Alignment explanation
Indices: 30279603--30279738 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
30279593 GAGGAAGTGC
* *
30279603 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCA
30279655 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCA
*
30279706 AAAAGAGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
30279739 AGGCCTCCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 22 0.28
52 36 0.45
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCA
Found at i:30279702 original size:25 final size:26
Alignment explanation
Indices: 30279603--30279738 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
30279593 GAGGAAGTGC
30279603 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
30279629 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30279655 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* ***
30279681 AAAAGGGCTT-TGCCCCAATTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
30279706 AAAAGAGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
30279729 AAAAGAGGCT
1 AAAAG-GGCT
30279739 AGGCCTCCAG
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 27 0.28
26 58 0.60
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30279930 original size:42 final size:42
Alignment explanation
Indices: 30279871--30279962 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
30279861 TAATCTCCCT
* ** **
30279871 AAATGGGCTTGCATACATTCATTGGTATTTTATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
30279913 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
30279955 AAATGGGC
1 AAATGGGC
30279963 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:30280021 original size:31 final size:31
Alignment explanation
Indices: 30279986--30280095 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
30279976 CATTTACAGT
* *
30279986 AAAGGCATCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30280017 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30280048 AAAGGTTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
30280079 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
30280096 AACCGTTAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:30287913 original size:38 final size:38
Alignment explanation
Indices: 30287871--30287978 Score: 101
Period size: 38 Copynumber: 2.8 Consensus size: 38
30287861 GGATAGTTTG
*
30287871 AAGTAAAGTTGACACCCAGTGTCTCATCGGCCTAGCCA
1 AAGTAAAGTTGACACCCAGTGTCTCATCGACCTAGCCA
** ** * * * *
30287909 AAGTAAAG-TGGTACCCAGTACCTCATCAAATCTATCCG
1 AAGTAAAGTTGACACCCAGTGTCTCATC-GACCTAGCCA
30287947 AAGTAACAGTATGACACCCAGTGTCTCATCGA
1 AAGTAA-AGT-TGACACCCAGTGTCTCATCGA
30287979 GTCGAAGTAT
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
37 15 0.29
38 19 0.37
39 2 0.04
40 1 0.02
41 15 0.29
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
AAGTAAAGTTGACACCCAGTGTCTCATCGACCTAGCCA
Found at i:30289075 original size:5 final size:5
Alignment explanation
Indices: 30289067--30289108 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
30289057 TTTAGTTTAT
*
30289067 ATATA ATATA ATATA ATATA ATATA ATATA ATATA TTATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
30289109 TAAAACATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:30294128 original size:40 final size:40
Alignment explanation
Indices: 30294026--30294193 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
30294016 AAATTGAATG
* * * * *
30294026 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
30294066 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
30294106 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* * * *
30294146 CTATCCGGGCTAGGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTAATT
30294186 ATATCCGG
1 ATATCCGG
30294194 TTATATTCCG
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 4 0.04
40 100 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:30299680 original size:13 final size:13
Alignment explanation
Indices: 30299662--30299686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30299652 TCTTCCACTT
30299662 CACACATCTTTTA
1 CACACATCTTTTA
30299675 CACACATCTTTT
1 CACACATCTTTT
30299687 CTCTCATCTT
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:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (13 bp):
CACACATCTTTTA
Found at i:30303986 original size:33 final size:34
Alignment explanation
Indices: 30303914--30303986 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
30303904 TCAGTGGCAT
30303914 TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
1 TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
*
30303948 TATCAGTGTGGGCCTTAGCCCAATT-CAGT-ACAA
1 TATCAGTGTGGACCTTAGCCC-ATTACAGTAACAA
30303981 TATCAG
1 TATCAG
30303987 AGATGCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
33 10 0.27
34 24 0.65
35 3 0.08
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (34 bp):
TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
Found at i:30313206 original size:34 final size:33
Alignment explanation
Indices: 30313134--30313206 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
30313124 GTTTGCATCT
*
30313134 CTGATACTGTACTGAATTGGGTTAAGGCCCACA
1 CTGATACTGTACTGAATTGGGCTAAGGCCCACA
* * * *
30313167 TTGATACTGTTACTGTAA-TGGGCTGAGGTCTACA
1 CTGATACTG-TACTG-AATTGGGCTAAGGCCCACA
30313201 CTGATA
1 CTGATA
30313207 TTGCCACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
33 8 0.25
34 22 0.69
35 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (33 bp):
CTGATACTGTACTGAATTGGGCTAAGGCCCACA
Found at i:30316290 original size:47 final size:49
Alignment explanation
Indices: 30316183--30316301 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 49
30316173 ATATATGCAT
*
30316183 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGA
1 GCTGATGCATGTCCCAGACATGTCTTACAATAGCACAACTCTTAGCCGA
* * *
30316232 --TG-TG--TGTCCCAGACACGTCTTACAATAGC-TATCTC-T-GCCGA
1 GCTGATGCATGTCCCAGACATGTCTTACAATAGCACAACTCTTAGCCGA
30316273 GGCTGATGCATGTCCCAGACATGTCTTAC
1 -GCTGATGCATGTCCCAGACATGTCTTAC
30316302 TCTAGCACTC
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
41 5 0.08
42 1 0.02
43 4 0.07
44 25 0.42
45 2 0.03
46 2 0.03
47 20 0.34
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
GCTGATGCATGTCCCAGACATGTCTTACAATAGCACAACTCTTAGCCGA
Found at i:30316332 original size:47 final size:45
Alignment explanation
Indices: 30316141--30316352 Score: 169
Period size: 47 Copynumber: 4.5 Consensus size: 45
30316131 TTGCTGATAC
* * * * *
30316141 CATGTCCCAGACATCGTCTTACACTGGCTCTCATATATGCATGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-ATCATCTCT--ATGCCGATG
*
30316190 CATGTCCCAGACATGTCTTACACTAGCA-CAACTCT-TAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCATCATCTCTAT-GCCGATG
** * * * * *
30316234 TGTGTCCCAGACACGTCTTACAATAGCTATC-TCTGCCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC-ATCATCT--CTATGCCGATG
*
30316281 CATGTCCCAGACATGTCTTACTCTAGCACTCATCTCTATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCA-TCATCTCTATGCCGATG
*
30316327 CCATGTCCCAGACATGGTGTTACACT
1 -CATGTCCCAGACAT-GTCTTACACT
30316353 GGCTCTAATA
Statistics
Matches: 129, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 29 0.22
45 3 0.02
46 14 0.11
47 45 0.35
48 23 0.18
49 14 0.11
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCATCATCTCTATGCCGATG
Found at i:30320557 original size:80 final size:80
Alignment explanation
Indices: 30320419--30320574 Score: 287
Period size: 80 Copynumber: 1.9 Consensus size: 80
30320409 CCTCAAATTG
30320419 AACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTCACC
1 AACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTCACC
30320484 ATATAAATGATATTC
66 ATATAAATGATATTC
*
30320499 AACTCTTTTTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTC-AGCATCTCTCAC
1 AACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGA-CATCTCTCAC
30320563 CATATAAATGAT
65 CATATAAATGAT
30320575 GCCACCAAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
79 1 0.01
80 73 0.99
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (80 bp):
AACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTCACC
ATATAAATGATATTC
Found at i:30324459 original size:49 final size:49
Alignment explanation
Indices: 30324314--30324693 Score: 621
Period size: 49 Copynumber: 7.9 Consensus size: 49
30324304 GTAGGAGATG
*
30324314 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
30324361 TATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
30324409 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
30324458 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
30324505 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
30324554 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
30324601 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
30324650 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
30324694 CATATGTGTG
Statistics
Matches: 310, Mismatches: 16, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
46 18 0.06
47 113 0.36
48 26 0.08
49 153 0.49
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:30324553 original size:96 final size:96
Alignment explanation
Indices: 30324313--30324693 Score: 642
Period size: 96 Copynumber: 4.0 Consensus size: 96
30324303 TGTAGGAGAT
*
30324313 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--TATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
* *
30324376 GCCTAATGGCC-ATGTGATGAATGTGAAGGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
*
30324406 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATA
30324471 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
64 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
30324504 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
30324569 GCCTAATGGCCAATGTGATGAATGTGAAAGA
66 GCCTAATGGCCAATGTGATGAATGTGAAAGA
* *
30324600 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
*
30324665 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCAATGTGATGAATGTGAAA
30324694 CATATGTGTG
Statistics
Matches: 275, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
95 46 0.17
96 185 0.67
97 25 0.09
98 18 0.07
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGA
Found at i:30324741 original size:48 final size:48
Alignment explanation
Indices: 30324685--30324980 Score: 529
Period size: 48 Copynumber: 6.2 Consensus size: 48
30324675 CGATGTGATG
*
30324685 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
30324733 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
30324781 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
30324829 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
30324877 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
30324925 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
30324973 AATGTGAA
1 AATGTGAA
30324981 TGTTGTAACA
Statistics
Matches: 237, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 237 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:30325074 original size:37 final size:37
Alignment explanation
Indices: 30325020--30325110 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
30325010 AACTTGGAAA
*
30325020 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
30325058 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
30325095 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
30325111 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:30327063 original size:40 final size:40
Alignment explanation
Indices: 30327017--30327354 Score: 370
Period size: 39 Copynumber: 8.6 Consensus size: 40
30327007 TGAATGATAC
* ** *
30327017 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG-ATGTAT
** * * * *
30327057 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AG-TGATGTAT
* ** * * *
30327097 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAGT-GATGTAT
30327137 CC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
30327176 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
30327216 CCGGACTAAGTTCC-AAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
30327255 CCGGGCTAAATTCC-AAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
30327294 CCGGACTAAGTTCCGAA-AGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
30327333 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTTCCGAAGAGCA
30327355 ATCATGCTGG
Statistics
Matches: 267, Mismatches: 21, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
39 134 0.50
40 127 0.48
41 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:30327290 original size:118 final size:118
Alignment explanation
Indices: 30327134--30327354 Score: 374
Period size: 118 Copynumber: 1.9 Consensus size: 118
30327124 CTTGTGGTTA
*
30327134 TATCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCAT
1 TATCCGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAA-AGCAT
*
30327199 TCGTGCTAGTGATGTATCCGGACTAAGTTCC-AAGAGCATTCGTGCTAGTGATG
65 TCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
30327252 TATCCGGGCTAAATTCC-AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAAGCAT
1 TATCC-GGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAAGCAT
* *
30327316 TCGTGCTAGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
65 TCGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCA
30327355 ATCATGCTGG
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
117 33 0.34
118 54 0.56
119 10 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (118 bp):
TATCCGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAAGCATT
CGTGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:30331106 original size:49 final size:47
Alignment explanation
Indices: 30330986--30331126 Score: 237
Period size: 47 Copynumber: 3.0 Consensus size: 47
30330976 TGTAGGAGAT
*
30330986 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
* *
30331033 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
30331080 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 G--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
30331127 CATATGTGTG
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
47 45 0.51
49 43 0.49
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
Found at i:30331174 original size:48 final size:48
Alignment explanation
Indices: 30331118--30331412 Score: 511
Period size: 48 Copynumber: 6.2 Consensus size: 48
30331108 CGATGTGATG
*
30331118 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * *
30331166 AATGTGAAATATATGTGTGATGTGTATATGCGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
30331214 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
30331262 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
30331310 AACGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
30331358 AATGTGAAATATATGTGTGATGTGTAT-TGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
30331405 AATGTGAA
1 AATGTGAA
30331413 TGTTGTAACA
Statistics
Matches: 233, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
47 28 0.12
48 205 0.88
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:30331506 original size:37 final size:37
Alignment explanation
Indices: 30331452--30331542 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
30331442 AACTTGGAAA
*
30331452 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
30331490 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
30331527 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
30331543 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:30336223 original size:40 final size:40
Alignment explanation
Indices: 30336179--30336402 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
30336169 GCTACTCGTT
* *
30336179 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
30336219 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30336259 CCAATGCCTTCGGG-CTTAGCCGGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30336297 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
30336337 CAAATGCCTT-TGGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30336378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30336403 CATCATTCGA
Statistics
Matches: 158, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
37 2 0.01
38 22 0.14
39 18 0.11
40 103 0.65
41 13 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30336302 original size:78 final size:78
Alignment explanation
Indices: 30336179--30336402 Score: 240
Period size: 78 Copynumber: 2.8 Consensus size: 78
30336169 GCTACTCGTT
* * *
30336179 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTA-ACCTG
1 CAAATGCCTTCGGG-CTTAG-CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGACC-G
30336243 GATTTAGTAACTCACA
63 GATTTAGTAACTCACA
* *
30336259 CCAATGCCTTCGGGCTTAGCCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGACCGG
*
30336322 ATTTAGTAACTCGCA
64 ATTTAGTAACTCACA
* * * * * *
30336337 CAAATGCCTTTGGATCTTAGTCCAGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAG-CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGACCG
30336401 GA
63 GA
30336403 CATCATTCGA
Statistics
Matches: 123, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
77 3 0.02
78 55 0.45
79 17 0.14
80 37 0.30
81 11 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGACCGGAT
TTAGTAACTCACA
Found at i:30336386 original size:118 final size:119
Alignment explanation
Indices: 30336179--30336398 Score: 263
Period size: 118 Copynumber: 1.9 Consensus size: 119
30336169 GCTACTCGTT
* *
30336179 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCTGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTAG
* *
30336244 ATTTAGTAACTCACACCAATGCCTTCGGG-CTTAGCCGGGATTAGTAACTCGCA
66 ATATAGTAACTCACACCAAAGCCTTCGGGACTTAGCCGGGATTAGTAACTCGCA
* * * *
30336297 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-AC
* *
30336359 C-AGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCC
62 CTAGATATAGTAACTCA-CACCAAAGCCTTCGGGACTTAGCC
30336399 CGGACATCAT
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
117 6 0.07
118 67 0.78
119 13 0.15
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTAG
ATATAGTAACTCACACCAAAGCCTTCGGGACTTAGCCGGGATTAGTAACTCGCA
Found at i:30341081 original size:30 final size:30
Alignment explanation
Indices: 30341047--30341107 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
30341037 AAATTACAGC
*
30341047 ATTATTGCAGTATTATTATCATACCAACTT
1 ATTATTGCAGTATTATTATCACACCAACTT
*
30341077 ATTATTGCTGTATTATTATCACACCAACTT
1 ATTATTGCAGTATTATTATCACACCAACTT
30341107 A
1 A
30341108 CATACTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.43
Consensus pattern (30 bp):
ATTATTGCAGTATTATTATCACACCAACTT
Found at i:30343020 original size:94 final size:92
Alignment explanation
Indices: 30342777--30343045 Score: 237
Period size: 94 Copynumber: 2.9 Consensus size: 92
30342767 GATATATTGT
* * *
30342777 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATATATGCAT-GCTGATGCATCTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ATA-ATG--TGGCTGAAGCATGTCCCA
*
30342841 GACATGTCTTACACTAGCA-CAACTCTTAGC
62 GACATGTCTTACACTGGCACCAACTCTTAGC
* * * *** * * * *
30342871 CGATG-CATGTCCCAGACA-CGTCTTACACTAGCTATCTCTGCCGAGGC-CAATGCATGTCTCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTATAATGTGGCTGAA-GCATGTCCCAG
* * *
30342933 ACATGTCTTACTCTGGCACTCATCT-TTGTGC
63 ACATGTCTTACACTGGCAC-CAACTCTT-AGC
30342964 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGCTGAAGCATG-CGCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ATAATGTGGCTGAAGCATGTC-CCAGA
30343028 CATGTCTTACACTGGCAC
64 CATGTCTTACACTGGCAC
30343046 ATGAATCACC
Statistics
Matches: 135, Mismatches: 28, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
90 1 0.01
91 26 0.19
92 14 0.10
93 29 0.21
94 51 0.38
95 14 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTATAATGTGGCTGAAGCATGTCCCAGACA
TGTCTTACACTGGCACCAACTCTTAGC
Found at i:30347430 original size:3 final size:3
Alignment explanation
Indices: 30347418--30347471 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
30347408 ATAGGTAAAA
* * **
30347418 AAT AAT -AT AAT AAT AAT -AT AAT AGT AAT AAT AAC AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30347464 AAT AAT AA
1 AAT AAT AA
30347472 ATAGTGATAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30347607 original size:29 final size:26
Alignment explanation
Indices: 30347574--30347667 Score: 91
Period size: 26 Copynumber: 3.5 Consensus size: 26
30347564 AAAAATTTAG
30347574 TAATAATAATAACATGTTAAATAGTAAAAA
1 TAATAATAATAACA-G-T-AAT-GTAAAAA
*
30347604 -AATAATAATAACAGTAATTTAAAAA
1 TAATAATAATAACAGTAATGTAAAAA
* * * *
30347629 TAATAATAATAATAATAATAATAATAA
1 TAATAATAATAACAGTAAT-GTAAAAA
30347656 TAATAATAATAA
1 TAATAATAATAA
30347668 TAATAATAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.11
26 19 0.33
27 18 0.32
28 1 0.02
29 13 0.23
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (26 bp):
TAATAATAATAACAGTAATGTAAAAA
Found at i:30347610 original size:3 final size:3
Alignment explanation
Indices: 30347604--30347736 Score: 121
Period size: 3 Copynumber: 45.0 Consensus size: 3
30347594 ATAGTAAAAA
* * * *
30347604 AAT AAT AAT AAC AGT AAT -TT AAA AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
30347651 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AGT GAAT -AT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT
* ** * *
30347697 AAT AGT CGT AA- AA- AAT AAT AAT AAT AGT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30347737 GATGGTGAAT
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
2 7 0.07
3 94 0.90
4 4 0.04
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30354333 original size:23 final size:23
Alignment explanation
Indices: 30354290--30354334 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30354280 GAAAAGAGCT
* *
30354290 GAAAAGAAATCTAAAGTCTAAAA
1 GAAAAGAAAACTAAAGACTAAAA
30354313 GAAAAGAAAACTGAAA-ACTAAA
1 GAAAAGAAAACT-AAAGACTAAA
30354335 TTACAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.64, C:0.09, G:0.13, T:0.13
Consensus pattern (23 bp):
GAAAAGAAAACTAAAGACTAAAA
Found at i:30373258 original size:124 final size:124
Alignment explanation
Indices: 30373036--30373260 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
30373026 GAATTATGTG
* * * ** * * *
30373036 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
30373101 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
30373160 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
30373225 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
30373261 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:30373382 original size:40 final size:40
Alignment explanation
Indices: 30373255--30373384 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
30373245 ATGCTGGAAA
* *
30373255 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
30373295 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
30373335 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
30373375 TTATATCCGG
1 TTATATCCGG
30373385 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:30373383 original size:80 final size:80
Alignment explanation
Indices: 30373217--30373384 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
30373207 CAATTGAATG
* * *
30373217 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
30373282 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
30373297 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
30373361 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
30373377 ATATCCGG
1 ATATCCGG
30373385 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:30381332 original size:40 final size:39
Alignment explanation
Indices: 30381209--30381356 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 39
30381199 AATTGAATGA
* * ** *
30381209 TATCCGGGCTAAG-CCCGAAGACATTATGCTG-GAAATTA
1 TATCCGGGCTAAGACCCGAAGGCATTGTGC-GAGTCATTC
* * *
30381247 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT--CATTC
30381288 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATTC
30381327 TATCC-GGCTAAGACCCGAAGGCATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGC
30381357 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
38 13 0.14
39 38 0.42
40 39 0.43
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATTC
Found at i:30381370 original size:39 final size:40
Alignment explanation
Indices: 30381244--30381372 Score: 156
Period size: 39 Copynumber: 3.2 Consensus size: 40
30381234 ATGCTGGAAA
* *
30381244 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
30381284 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
30381324 TTCTATCC-GGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
30381363 TTATATCCGG
1 TTATATCCGG
30381373 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 37 0.50
40 36 0.49
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:30381371 original size:79 final size:78
Alignment explanation
Indices: 30381208--30381372 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 78
30381198 GAATTGAATG
*
30381208 ATATCCGGGCTAAGCCCGAAGACATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATATCCGGGCTAAGCCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
30381273 TGTGCTAGTGGCT
66 TGTGCTAGTGGCT
* * * ** *
30381286 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCC-GGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-CCCGAAGACATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
30381349 -ATTCGTGC-ACGTGGTT
63 AATT-GTGCTA-GTGGCT
30381365 ATATCCGG
1 ATATCCGG
30381373 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
78 17 0.23
79 44 0.60
80 12 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCT
Found at i:30382222 original size:40 final size:40
Alignment explanation
Indices: 30382152--30382367 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
30382142 AAACCAAGTA
* *
30382152 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
30382191 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30382231 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30382271 CCTTC-GGACTTAGCCCGGATATAGTAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30382309 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30382349 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30382368 TTACCATCCG
Statistics
Matches: 169, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
38 15 0.09
39 59 0.35
40 95 0.56
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30382361 original size:118 final size:119
Alignment explanation
Indices: 30382152--30382367 Score: 341
Period size: 118 Copynumber: 1.8 Consensus size: 119
30382142 AAACCAAGTA
* *
30382152 CCTTCGGGATTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
30382217 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30382271 CCTTC-GGACTTAGCCCGGATATAG-TAACT-GCACAAATGCCTTCGGGACTTAGCCCGGA-ATT
1 CCTTCGGGACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
30382332 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
30382368 TTACCATCCG
Statistics
Matches: 90, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
117 1 0.01
118 71 0.79
119 18 0.20
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30390273 original size:40 final size:40
Alignment explanation
Indices: 30390203--30390420 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
30390193 AAACCAAGTA
* *
30390203 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
30390242 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30390282 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30390322 CCTTCGGGACTTAGCCCGGATATAGTAGCTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
30390362 CCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
**
30390402 CCTTATGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30390421 TTACCATCCG
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 151 0.91
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30397944 original size:42 final size:43
Alignment explanation
Indices: 30397892--30397975 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
30397882 CGGCTATAGG
* * *
30397892 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCG-TTCTCCCAC
1 AAACACCGCTAAAAGCCACGACCTTTAGCGGCGCTTCTCCCAC
*
30397934 AAACACCGCTAAAGGCCACGACCTTTAGCGGCGCTTCTCCCA
1 AAACACCGCTAAAAGCCACGACCTTTAGCGGCGCTTCTCCCA
30397976 AAAATGCCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.78
43 8 0.22
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (43 bp):
AAACACCGCTAAAAGCCACGACCTTTAGCGGCGCTTCTCCCAC
Found at i:30399742 original size:29 final size:30
Alignment explanation
Indices: 30399700--30399761 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
30399690 TTTTATACTG
30399700 GAATAACATTGACTACATTAAAAAATT-CT
1 GAATAACATTGACTACATTAAAAAATTGCT
*
30399729 GAATAACATTGACTACATTTAAAAATTGCT
1 GAATAACATTGACTACATTAAAAAATTGCT
30399759 GAA
1 GAA
30399762 ATCCAGAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.31
Consensus pattern (30 bp):
GAATAACATTGACTACATTAAAAAATTGCT
Found at i:30404834 original size:21 final size:21
Alignment explanation
Indices: 30404791--30404834 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30404781 ATAAACACTA
* *
30404791 AACCCTAAACCCTTAACTTTT
1 AACCCCAAACCCTTAACTCTT
30404812 AACCCCAAACCCTTACAC-CTT
1 AACCCCAAACCCTTA-ACTCTT
30404833 AA
1 AA
30404835 ACTTCAACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCCAAACCCTTAACTCTT
Found at i:30404873 original size:14 final size:15
Alignment explanation
Indices: 30404856--30404884 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30404846 AACCCCTAAA
30404856 CCCTAAA-TCATAAT
1 CCCTAAACTCATAAT
30404870 CCCTAAACTCATAAT
1 CCCTAAACTCATAAT
30404885 TCATCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
CCCTAAACTCATAAT
Found at i:30404946 original size:10 final size:10
Alignment explanation
Indices: 30404931--30404958 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30404921 CCTTAAACCC
30404931 TAAACCATCT
1 TAAACCATCT
30404941 TAAACCATCT
1 TAAACCATCT
30404951 TAAACCAT
1 TAAACCAT
30404959 AAACCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAACCATCT
Found at i:30405176 original size:41 final size:41
Alignment explanation
Indices: 30405131--30405339 Score: 314
Period size: 41 Copynumber: 5.1 Consensus size: 41
30405121 GCTATATGAC
*
30405131 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
30405172 TTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
30405213 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
30405254 TTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTC-CGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
30405294 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTG-GT
30405337 TTT
1 TTT
30405340 ACAATTTTTG
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
40 12 0.08
41 126 0.82
42 10 0.07
43 5 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:30406326 original size:30 final size:30
Alignment explanation
Indices: 30406292--30406353 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
30406282 ACTTATTTTA
30406292 TTGTTAATTTTGTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAA-GCAT
*
30406322 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
30406352 TT
1 TT
30406354 TCTTGATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAGCAT
Found at i:30410101 original size:42 final size:42
Alignment explanation
Indices: 30410067--30410220 Score: 129
Period size: 42 Copynumber: 3.7 Consensus size: 42
30410057 TGAGATTTCG
* * *
30410067 TGTAAGACCATGTCTAGGACA-TGGCATTAATATGATAATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCAATATGAGAATCA
* **
30410108 TGTAAGACCATAG-CTGGGTTATTGGCATCAATATGAGAATCA
1 TGTAAGACCAT-GTCTAGGACATTGGCATCAATATGAGAATCA
* * *
30410150 TGTAAGACCATTGT-TTGGGCTATTGGCATCGATATGAG-ATCCCA
1 TGTAAGACCA-TGTCTAGGAC-ATTGGCATCAATATGAGAAT--CA
* *
30410194 TGTAAGACCATATCTAGGATA-TGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
30410221 TGGTATGATT
Statistics
Matches: 91, Mismatches: 14, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
41 16 0.18
42 40 0.44
43 20 0.22
44 15 0.16
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCAATATGAGAATCA
Found at i:30410185 original size:43 final size:42
Alignment explanation
Indices: 30410088--30410205 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
30410078 GTCTAGGACA
* * * *
30410088 TGGCATTAATATGATAATCGTGTAAGACCATAGCTGGGTTAT
1 TGGCATCAATATGAGAATCATGTAAGACCATAGCTGGGCTAT
* *
30410130 TGGCATCAATATGAGAATCATGTAAGACCATTGTTTGGGCTAT
1 TGGCATCAATATGAGAATCATGTAAGACCATAG-CTGGGCTAT
*
30410173 TGGCATCGATATGAG-ATCCCATGTAAGACCATA
1 TGGCATCAATATGAGAAT--CATGTAAGACCATA
30410206 TCTAGGATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
42 31 0.48
43 21 0.32
44 13 0.20
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
TGGCATCAATATGAGAATCATGTAAGACCATAGCTGGGCTAT
Found at i:30413708 original size:42 final size:43
Alignment explanation
Indices: 30413604--30413708 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
30413594 CAATGCCAAC
** * * *
30413604 GTCCCAGATGTGGTCTTACTTGTAATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATATCACT
* *
30413647 GTCCCAGACAGGGTCTTACATGAAATCAAATA-CGATAATGA-T
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGAT-ATCACT
*
30413689 GTTCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
30413709 CATAAATCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 23 0.44
43 29 0.56
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATCGATATCACT
Found at i:30423477 original size:25 final size:24
Alignment explanation
Indices: 30423443--30423494 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
30423433 ACAGACGCAA
30423443 CTCTTTATGAACGTCCTGATATAGG
1 CTCTTTATGAACGTCCTGATAT-GG
* *
30423468 CTCTTTATGAGCTTCCTGATATGG
1 CTCTTTATGAACGTCCTGATATGG
30423492 CTC
1 CTC
30423495 GCTTGAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (24 bp):
CTCTTTATGAACGTCCTGATATGG
Found at i:30429309 original size:21 final size:21
Alignment explanation
Indices: 30429283--30429323 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30429273 TTTCCAATAC
30429283 CAAATCA-TAGTCGAATCATTT
1 CAAATCACTA-TCGAATCATTT
30429304 CAAATCACTATCGAATCATT
1 CAAATCACTATCGAATCATT
30429324 GTCGAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (21 bp):
CAAATCACTATCGAATCATTT
Found at i:30439924 original size:40 final size:39
Alignment explanation
Indices: 30439865--30440072 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
30439855 CAGAATACAA
*
30439865 CCGGATATAACCACATGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
30439905 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
30439945 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
30439985 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30440025 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
30440065 CCGGATAT
1 CCGGATAT
30440073 CATTTAATTG
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
39 2 0.01
40 142 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30443649 original size:21 final size:21
Alignment explanation
Indices: 30443589--30443639 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
30443579 ATTACTCAAG
30443589 AAAAGCCGATTATTCCATCTC
1 AAAAGCCGATTATTCCATCTC
30443610 AAAAGCCGATTATTCCATCTC
1 AAAAGCCGATTATTCCATCTC
*
30443631 AGAAGCCGA
1 AAAAGCCGA
30443640 ATTCATCATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAAGCCGATTATTCCATCTC
Found at i:30454580 original size:29 final size:29
Alignment explanation
Indices: 30454490--30454649 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
30454480 ACTCGATTTC
* * **
30454490 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
30454519 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
30454547 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
30454577 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30454606 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30454635 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
30454650 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:30457048 original size:35 final size:34
Alignment explanation
Indices: 30456999--30457068 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 34
30456989 TATGGTAATT
30456999 AGACCATTAAGAAAAGTTAGTAGATATTTTTTATG
1 AGACCATTAAGAAAAGTTAGTAGATA-TTTTTATG
*
30457034 AGACCATTAGGAAAAGTTAGTAGATATTTTTATG
1 AGACCATTAAGAAAAGTTAGTAGATATTTTTATG
30457068 A
1 A
30457069 TTCATCCATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.26
35 25 0.74
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (34 bp):
AGACCATTAAGAAAAGTTAGTAGATATTTTTATG
Found at i:30478639 original size:27 final size:27
Alignment explanation
Indices: 30478598--30478651 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30478588 TGTCATGTGA
* *
30478598 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
30478625 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
30478652 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:30478987 original size:49 final size:50
Alignment explanation
Indices: 30478900--30479142 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 50
30478890 TATTGTGAGA
* *
30478900 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
* * * * * * * * *
30478949 TCGCATGTGCAGTACTAAATGTAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGG
* **
30479000 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
* * *
30479050 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
* * *
30479099 TCGCATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
30479143 GCCTTGTCTA
Statistics
Matches: 161, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 79 0.49
50 46 0.29
51 36 0.22
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
Found at i:30479135 original size:99 final size:100
Alignment explanation
Indices: 30478898--30479142 Score: 305
Period size: 100 Copynumber: 2.5 Consensus size: 100
30478888 TCTATTGTGA
* * *
30478898 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTA
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGCAGTA
* * *
30478963 CTAAATGTAGGCTACTATGCGTACCCGATAACTTC
66 CTAAATGCAAGCTACTACGCGTACCCGATAACTTC
* ** * *
30478998 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGT
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGCAGT
* * *
30479063 ACTAAGTGCAAGCTACTACGTGTACCGGATAA-TT-
65 ACTAAATGCAAGCTACTACGCGTACCCGATAACTTC
* * * *
30479097 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATA
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
30479143 GCCTTGTCTA
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 40 0.32
100 46 0.37
101 38 0.31
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGCAGTA
CTAAATGCAAGCTACTACGCGTACCCGATAACTTC
Found at i:30479172 original size:150 final size:150
Alignment explanation
Indices: 30478900--30479175 Score: 396
Period size: 150 Copynumber: 1.8 Consensus size: 150
30478890 TATTGTGAGA
*
30478900 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
* * * * * *
30478965 AAATGTAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACT
66 AAATGCAAGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATAAGTGCAGGCTACT
30479030 ACGTGTATCAGATGGTTAGG
131 ACGTGTATCAGATGGTTAGG
*
30479050 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
* * * *
30479115 AAGTGCAAGCTACTATGTGTACCAGATAGCCTT-G-TCTACAAGTGT-GAAAATATGTGCAGGC
66 AAATGCAAGCTACTATGCGTACCAGATA-ACTTCGATC-ACAAGTGTAG-AAATAAGTGCAGGC
30479176 AACTGAGTAT
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
149 3 0.03
150 105 0.95
151 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
AAATGCAAGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATAAGTGCAGGCTACT
ACGTGTATCAGATGGTTAGG
Found at i:30482587 original size:16 final size:16
Alignment explanation
Indices: 30482568--30482599 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30482558 AATTGTTTTG
30482568 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
30482584 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
30482600 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:30482864 original size:50 final size:50
Alignment explanation
Indices: 30482799--30483193 Score: 400
Period size: 50 Copynumber: 7.9 Consensus size: 50
30482789 ACAGAAGCTC
** * ** *
30482799 TCTGGTACGTGTAGTAGCCTGCACTTGGTACTACACATATGACCTATGAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * *
30482849 TCTGGTACACATAGTAGTCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* ** *
30482899 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * * * *
30482951 -CGGGTACGCATAATAGCCTGTACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
30483000 TCTGGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * ** *
30483050 TCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * ***
30483102 -C-GAGTACACATAGTAGCTTGCACTTAGTACTACACATACGACCTATCAA
1 TCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
*
30483151 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGAC
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
30483194 TCACAACGAA
Statistics
Matches: 276, Mismatches: 61, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
49 6 0.02
50 197 0.71
51 71 0.26
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:30483003 original size:101 final size:100
Alignment explanation
Indices: 30482809--30483193 Score: 337
Period size: 101 Copynumber: 3.8 Consensus size: 100
30482799 TCTGGTACGT
* ** * * * *
30482809 GTAGTAGCCTGCACTTGGTACTACACATATGACCTATGAATCTGGTACACATAGTAGTCTGCACT
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACCAATGAATCGGGTACACATAATAGCCTGCACT
* *
30482874 TAGTACTACACACGTGACTTAACCATCTGATACAC
66 TAGTACTACACACGTGACCTAACAATCTGATACAC
* * * *
30482909 GTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCATAATAGCCTGTA
1 GTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TGAATCGGGTACACATAATAGCCTGCA
* * *
30482973 CTTAGTACTACACATGTGACCTATCAATCTGGTACAC
64 CTTAGTACTACACACGTGACCTAACAATCTGATACAC
* * ** * * * * *
30483010 GTAGTAGCCTGCACTTAGTACTATACACGTGACTTAA-CCATCTGATACACGTAGTAGCCTACAC
1 GTAGTAGCCTGCACTTAGTACTACACACGTGAC-CAATGAATCGGGTACACATAATAGCCTGCAC
* * *
30483074 TTAGTACTACACACGTGATCGAAGTTAA-C-GAGTACAC
65 TTAGTACTACACACGTGACCTAA--CAATCTGA-TACAC
* * *** * * * * *
30483111 ATAGTAGCTTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
1 GTAGTAGCCTGCACTTAGTACTACACACGTGACCAATGAATCGGGTACACATAATAGCCTGCACT
*
30483176 TAGTACTACACACATGAC
66 TAGTACTACACACGTGAC
30483194 TCACAACGAA
Statistics
Matches: 231, Mismatches: 46, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
99 1 0.00
100 67 0.29
101 158 0.68
102 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
GTAGTAGCCTGCACTTAGTACTACACACGTGACCAATGAATCGGGTACACATAATAGCCTGCACT
TAGTACTACACACGTGACCTAACAATCTGATACAC
Found at i:30483006 original size:151 final size:151
Alignment explanation
Indices: 30482813--30483194 Score: 638
Period size: 151 Copynumber: 2.5 Consensus size: 151
30482803 GTACGTGTAG
* * * *
30482813 TAGCCTGCACTTGGTACTACACATATGACCTATGAATCTGGTACACATAGTAGTCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATATGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
*
30482878 ACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC
66 ACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATC
* *
30482943 GAAGTTAACGGGTACGCATAA
131 GAAGTTAACGAGTACACATAA
* *
30482964 TAGCCTGTACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATATGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
*
30483029 ACTATACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATC
66 ACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATC
*
30483094 GAAGTTAACGAGTACACATAG
131 GAAGTTAACGAGTACACATAA
* *
30483115 TAGCTTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATATGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
*
30483180 ACTACACACATGACT
66 ACTACACACGTGACT
30483195 CACAACGAAT
Statistics
Matches: 214, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 214 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (151 bp):
TAGCCTGCACTTAGTACTACACATATGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
ACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATC
GAAGTTAACGAGTACACATAA
Found at i:30483569 original size:19 final size:20
Alignment explanation
Indices: 30483541--30483587 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
30483531 ATGAACAAGT
30483541 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
30483562 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
30483581 TATATAT
1 TATATAT
30483588 ACTTAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:30487808 original size:28 final size:28
Alignment explanation
Indices: 30487768--30487822 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
30487758 ACTTAGCCAG
30487768 ATTTAATACATTACTCACTAAAAACTTT
1 ATTTAATACATTACTCACTAAAAACTTT
*
30487796 ATTTAATACATTACTCACTCAAAACTT
1 ATTTAATACATTACTCACTAAAAACTT
30487823 ACTCTACGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTAATACATTACTCACTAAAAACTTT
Found at i:30498441 original size:18 final size:17
Alignment explanation
Indices: 30498407--30498460 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
30498397 ATTAATTTAA
*
30498407 TTAAAAAATTATTAAATT
1 TTAAAAAATTA-AAAATT
*
30498425 TTAAAAAAGTTAAAAATA
1 TTAAAAAA-TTAAAAATT
* *
30498443 ATAATAAATTAAAAATT
1 TTAAAAAATTAAAAATT
30498460 T
1 T
30498461 AATTCAATCA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 8 0.28
18 18 0.62
19 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAAAATTAAAAATT
Found at i:30499243 original size:13 final size:13
Alignment explanation
Indices: 30499225--30499251 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30499215 TTAAATTATG
30499225 AATTTATATTTTT
1 AATTTATATTTTT
30499238 AATTTATATTTTT
1 AATTTATATTTTT
30499251 A
1 A
30499252 TAATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTATATTTTT
Found at i:30502749 original size:15 final size:14
Alignment explanation
Indices: 30502711--30502750 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
30502701 CAAATTAAAC
30502711 AAAGGAAAGAAAAA
1 AAAGGAAAGAAAAA
* *
30502725 AAAAGAAAGAAAGA
1 AAAGGAAAGAAAAA
30502739 AAAGGAGAAGAA
1 AAAGGA-AAGAA
30502751 GCGCATGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
AAAGGAAAGAAAAA
Found at i:30503478 original size:25 final size:25
Alignment explanation
Indices: 30503430--30503478 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
30503420 CTTAATTGAA
* *
30503430 ATGAAATAGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
30503455 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
30503479 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:30504879 original size:24 final size:24
Alignment explanation
Indices: 30504851--30504935 Score: 102
Period size: 24 Copynumber: 3.5 Consensus size: 24
30504841 AGCTCTTATA
*
30504851 AGCTTACCGATTTTAGTTCATGAG
1 AGCTTACCGATTTTAGCTCATGAG
* *
30504875 AGCTTACTGATTTTAGCTCGTGAG
1 AGCTTACCGATTTTAGCTCATGAG
*
30504899 AGCTTACTGATTCTTAGCTCAT-ATG
1 AGCTTACCGATT-TTAGCTCATGA-G
30504924 AG-TTACCGATTT
1 AGCTTACCGATTT
30504936 ACAATTCGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.02
24 42 0.78
25 11 0.20
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (24 bp):
AGCTTACCGATTTTAGCTCATGAG
Found at i:30509979 original size:13 final size:13
Alignment explanation
Indices: 30509961--30509991 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30509951 GTGCAGACTT
*
30509961 CACACGCGCAGGA
1 CACACGCCCAGGA
30509974 CACACGCCCAGGA
1 CACACGCCCAGGA
30509987 CACAC
1 CACAC
30509992 CCCCGTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.45, G:0.23, T:0.00
Consensus pattern (13 bp):
CACACGCCCAGGA
Found at i:30512555 original size:43 final size:44
Alignment explanation
Indices: 30512492--30512786 Score: 345
Period size: 43 Copynumber: 6.9 Consensus size: 44
30512482 CTTACAATGG
* * * * *
30512492 CAACGTCCCATA-TGTGGTCTTACATGTAACCTCATATCGATGC
1 CAACGTCCCAGACAGTGGTCTTACACGTAATCACATATCGATGC
* * * *
30512535 C-ACTGTCCTAGACAG-GGTCTTACTCATAAACACATATCGATGC
1 CAAC-GTCCCAGACAGTGGTCTTACACGTAATCACATATCGATGC
* *
30512578 CAACATCCTAGAC-GTGGTCTTACACGTAATCACATATCGATGC
1 CAACGTCCCAGACAGTGGTCTTACACGTAATCACATATCGATGC
*
30512621 CAACGTCCCAGACA-TGGTCTTACACATAATCACATATCGATGC
1 CAACGTCCCAGACAGTGGTCTTACACGTAATCACATATCGATGC
* *
30512664 CAACGTCCCAGA-TGTGGTCTTACACGTAATCACATATTGATGC
1 CAACGTCCCAGACAGTGGTCTTACACGTAATCACATATCGATGC
* *
30512707 CAACGTCCCAGA-TGTGGTCTTACACGTAATCACATATTGATGC
1 CAACGTCCCAGACAGTGGTCTTACACGTAATCACATATCGATGC
* ***
30512750 CAACATCCCAGACA-TGGTCTTATGTGTAATCACATAT
1 CAACGTCCCAGACAGTGGTCTTACACGTAATCACATAT
30512787 ACATCCATGT
Statistics
Matches: 222, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.01
43 216 0.97
44 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
CAACGTCCCAGACAGTGGTCTTACACGTAATCACATATCGATGC
Found at i:30514102 original size:14 final size:15
Alignment explanation
Indices: 30514085--30514113 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30514075 ACACGAAAAT
30514085 TTCACACA-TATAAA
1 TTCACACATTATAAA
30514099 TTCACACATTATAAA
1 TTCACACATTATAAA
30514114 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:30520314 original size:26 final size:28
Alignment explanation
Indices: 30520285--30520340 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
30520275 AATTTTAAAT
* *
30520285 TACATAGTTTATGA-ATAAT-AAAATAA
1 TACATAATTTATGATAAAATAAAAATAA
30520311 TACATAATTTATGATAAAATAAAAATAA
1 TACATAATTTATGATAAAATAAAAATAA
30520339 TA
1 TA
30520341 TATGGAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 13 0.50
27 4 0.15
28 9 0.35
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (28 bp):
TACATAATTTATGATAAAATAAAAATAA
Found at i:30520369 original size:17 final size:19
Alignment explanation
Indices: 30520347--30520407 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
30520337 AATATATGGA
*
30520347 ATAATATATAA-A-AATGT
1 ATAATATATAATATAATAT
30520364 ATAATATATAATATAATAT
1 ATAATATATAATATAATAT
30520383 ATAATAGTAT-ATAATAATAT
1 ATAATA-TATAAT-ATAATAT
30520403 A-AATA
1 ATAATA
30520408 ATTTATAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 11 0.28
18 1 0.03
19 16 0.41
20 11 0.28
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAATATATAATATAATAT
Found at i:30520378 original size:12 final size:12
Alignment explanation
Indices: 30520363--30520404 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
30520353 TATAAAAATG
30520363 TATAATATATAA
1 TATAATATATAA
30520375 TATAATATATAA
1 TATAATATATAA
30520387 TAGT-ATATAATAA
1 TA-TAATAT-ATAA
30520400 TATAA
1 TATAA
30520405 ATAATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TATAATATATAA
Found at i:30520382 original size:10 final size:10
Alignment explanation
Indices: 30520298--30520415 Score: 81
Period size: 10 Copynumber: 12.2 Consensus size: 10
30520288 ATAGTTTATG
30520298 AATAATA-A-
1 AATAATATAT
*
30520306 AATAATACAT
1 AATAATATAT
*
30520316 AAT-TTATGAT
1 AATAATAT-AT
*
30520326 AA-AATA-AA
1 AATAATATAT
30520334 AATAATATAT
1 AATAATATAT
30520344 GGAATAATATAT
1 --AATAATATAT
* *
30520356 AAAAATGTAT
1 AATAATATAT
30520366 AAT-ATATA-
1 AATAATATAT
30520374 ATATAATATAT
1 A-ATAATATAT
*
30520385 AATAGTATAT
1 AATAATATAT
30520395 AATAATATA-
1 AATAATATAT
*
30520404 AATAATTTAT
1 AATAATATAT
30520414 AA
1 AA
30520416 AGAAAAATAA
Statistics
Matches: 86, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
8 11 0.13
9 21 0.24
10 43 0.50
11 1 0.01
12 10 0.12
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:30520395 original size:29 final size:29
Alignment explanation
Indices: 30520346--30520416 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
30520336 TAATATATGG
*
30520346 AATAATATATAAAAATGTATAAT-ATATA
1 AATAATATATAAAAATATATAATAATATA
* *
30520374 ATATAATATATAATAGTATATAATAATATA
1 A-ATAATATATAAAAATATATAATAATATA
*
30520404 AATAATTTATAAA
1 AATAATATATAAA
30520417 GAAAAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.03
29 29 0.81
30 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
AATAATATATAAAAATATATAATAATATA
Found at i:30520408 original size:12 final size:12
Alignment explanation
Indices: 30520324--30520409 Score: 51
Period size: 12 Copynumber: 7.4 Consensus size: 12
30520314 ATAATTTATG
*
30520324 ATAA-AATAAAA
1 ATAATAATATAA
*
30520335 ATAAT-ATATGGA
1 ATAATAATAT-AA
30520347 ATAAT-ATATAA
1 ATAATAATATAA
*
30520358 A-AAT-GTAT-A
1 ATAATAATATAA
30520367 ATATATAATAT-A
1 ATA-ATAATATAA
*
30520379 ATATATAATAGTAT
1 ATA-ATAATA-TAA
30520393 ATAATAATATAA
1 ATAATAATATAA
30520405 ATAAT
1 ATAAT
30520410 TTATAAAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
9 2 0.03
10 7 0.11
11 11 0.18
12 31 0.51
13 7 0.11
14 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
ATAATAATATAA
Found at i:30520408 original size:22 final size:23
Alignment explanation
Indices: 30520346--30520409 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 23
30520336 TAATATATGG
*
30520346 AATAATATATAAAAAT-GTATAAT
1 AATAATATATAATAATAGTAT-AT
30520369 ATATAATATAATATATAATAGTATAT
1 A-ATAATAT-ATA-ATAATAGTATAT
30520395 AATAATATA-AATAAT
1 AATAATATATAATAAT
30520410 TTATAAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 5 0.14
23 2 0.06
24 8 0.22
25 10 0.28
26 7 0.19
27 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
AATAATATATAATAATAGTATAT
Found at i:30522624 original size:44 final size:44
Alignment explanation
Indices: 30521992--30522616 Score: 829
Period size: 44 Copynumber: 14.2 Consensus size: 44
30521982 CAAATGTCAG
* * *
30521992 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAAATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
30522036 ATCTGCTATCTTCTATCTACTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
30522080 ATCTGCTATCTGCGATCTGCTATCTGACAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
30522124 ATCTGCTATCTTCGATCTGCTATCTGACAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
30522168 ATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGAAGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
30522212 ATCTATCATCTTCGATCTGCTCTCTGTCAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * * *
30522256 ATCTGTCATCTT-AATCTGCTCTCAGTCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* *
30522299 ATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
30522343 ACCTGTTATCTTCGATCTACTCTCTAACAATACAGAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
30522387 ACCTGTTATCTTCGATCTGCTCTTTGACAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* *
30522431 ACCTGTTATCTTCGATTTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
30522475 ACCTGTTATCTTCGATTTGCTCTCTGACAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
30522519 AACTGTTATCTTCGATTTTCTCTTTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* *
30522563 ACCTATTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
*
30522607 ATCTGCTATC
1 ATCTGTTATC
30522617 AGTGATCTAT
Statistics
Matches: 525, Mismatches: 55, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
43 39 0.07
44 486 0.93
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
Found at i:30534644 original size:21 final size:22
Alignment explanation
Indices: 30534602--30534644 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
30534592 TTTTAAATTA
* *
30534602 ATAAAATAATACATAATTTATG
1 ATAAAATAATAAATAATATATG
30534624 ATAAAATAA-AAATAATATATG
1 ATAAAATAATAAATAATATATG
30534645 GAATAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
ATAAAATAATAAATAATATATG
Found at i:30534669 original size:17 final size:17
Alignment explanation
Indices: 30534647--30534719 Score: 76
Period size: 17 Copynumber: 4.2 Consensus size: 17
30534637 AATATATGGA
*
30534647 ATAATATATAAAAATGT
1 ATAATATATAAAAATAT
* *
30534664 ATAATATATAATAGTAT
1 ATAATATATAAAAATAT
30534681 ATAATAATATAAATAATAT
1 ATAAT-ATATAAA-AATAT
*
30534700 ATAA-ATAAAAATAATAT
1 ATAATATATAAA-AATAT
30534717 ATA
1 ATA
30534720 CTATTTTACA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 34 0.71
18 6 0.12
19 8 0.17
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAATATATAAAAATAT
Found at i:30534681 original size:10 final size:10
Alignment explanation
Indices: 30534634--30534719 Score: 78
Period size: 10 Copynumber: 9.1 Consensus size: 10
30534624 ATAAAATAAA
30534634 AATAATATAT
1 AATAATATAT
30534644 GGAATAATATAT
1 --AATAATATAT
*
30534656 AA-AA-ATGT
1 AATAATATAT
30534664 -ATAATATAT
1 AATAATATAT
*
30534673 AATAGTATAT
1 AATAATATAT
30534683 AATAATATA-
1 AATAATATAT
30534692 AATAATATAT
1 AATAATATAT
*
30534702 -A-AATA-AA
1 AATAATATAT
30534709 AATAATATAT
1 AATAATATAT
30534719 A
1 A
30534720 CTATTTTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
7 2 0.03
8 10 0.16
9 19 0.31
10 20 0.33
12 10 0.16
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
AATAATATAT
Done.