Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 120 of 141
Found at i:38227734 original size:27 final size:26
Alignment explanation
Indices: 38227647--38227741 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 26
38227637 CATACATAAG
* * *
38227647 TTTACAATAAATAATATATAAAAGAAA
1 TTTAAAATAAATAATAAATTAAA-AAA
*
38227674 TTT-AAATAAAT--TTAATATAAAAACA
1 TTTAAAATAAATAATAAAT-TAAAAA-A
*
38227699 GTTTCAAATAAATAATAAATGTAAAAAA
1 -TTTAAAATAAATAATAAAT-TAAAAAA
38227727 TTTAAAATAAATAAT
1 TTTAAAATAAATAAT
38227742 GATAAAAGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
24 5 0.09
25 4 0.07
26 10 0.18
27 25 0.45
28 1 0.02
29 10 0.18
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
TTTAAAATAAATAATAAATTAAAAAA
Found at i:38230615 original size:14 final size:15
Alignment explanation
Indices: 38230596--38230626 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
38230586 ATAAATTAAA
38230596 TTTTTTATT-TTTAT
1 TTTTTTATTATTTAT
38230610 TTTTTTATTATTTAT
1 TTTTTTATTATTTAT
38230625 TT
1 TT
38230627 GTACAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTATTATTTAT
Found at i:38231140 original size:14 final size:15
Alignment explanation
Indices: 38231121--38231150 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38231111 TTAAATTAAA
38231121 TTTTTATT-TTTATT
1 TTTTTATTATTTATT
38231135 TTTTTATTATTTATT
1 TTTTTATTATTTATT
38231150 T
1 T
38231151 GTACAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATTATTTATT
Found at i:38231493 original size:524 final size:524
Alignment explanation
Indices: 38230505--38231552 Score: 2080
Period size: 524 Copynumber: 2.0 Consensus size: 524
38230495 ATTGGCATTC
38230505 CTGTAGAATTTTAGGTTTCGTTTTGGTACAAATTCCAGTTGGTACTAGTCGGAATATGATGTATT
1 CTGTAGAATTTTAGGTTTCGTTTTGGTACAAATTCCAGTTGGTACTAGTCGGAATATGATGTATT
38230570 GGTCGGTACCTAAAAAATAAATTAAATTTTTTATTTTTATTTTTTTATTATTTATTTGTACAAAA
66 GGTCGGTACCTAAAAAATAAATTAAATTTTTTATTTTTATTTTTTTATTATTTATTTGTACAAAA
38230635 AATTTAAATATATTTTAAATTTAAATTTTTATTATTTATTTTGGATTTGTTGAGTTATGGATTGT
131 AATTTAAATATATTTTAAATTTAAATTTTTATTATTTATTTTGGATTTGTTGAGTTATGGATTGT
38230700 TATATGCATAATATGAGATGATGTTATTATTTAATTTATGAAATAATTATTTCACTTGTTTATTT
196 TATATGCATAATATGAGATGATGTTATTATTTAATTTATGAAATAATTATTTCACTTGTTTATTT
38230765 TAAGTTTGTTTAGTGATGGATTATATTTGTAAAGTTTATTAAGGGTAAGTTTGTTTAATGAAAGT
261 TAAGTTTGTTTAGTGATGGATTATATTTGTAAAGTTTATTAAGGGTAAGTTTGTTTAATGAAAGT
38230830 TTGGATAGCACAGTAATTACAAAGAATTGTAATTTCTTTAGACGTGTTTGACTAATACAGTATAA
326 TTGGATAGCACAGTAATTACAAAGAATTGTAATTTCTTTAGACGTGTTTGACTAATACAGTATAA
38230895 TTACATCATACTTCCTGGTGTCATGTTTAGTAGTACAAGTTGTAATTACACAGTTACATAATTTA
391 TTACATCATACTTCCTGGTGTCATGTTTAGTAGTACAAGTTGTAATTACACAGTTACATAATTTA
38230960 TATTTTTAAAATATCAATTGCTATAAAAAATTATTAGTACAATAAAAATAATTTCTAAACAAGTA
456 TATTTTTAAAATATCAATTGCTATAAAAAATTATTAGTACAATAAAAATAATTTCTAAACAAGTA
38231025 ACAA
521 ACAA
38231029 CTGTAGAATTTTAGGTTTCGTTTTGGTACAAATTCCAGTTGGTACTAGTCGGAATATGATGTATT
1 CTGTAGAATTTTAGGTTTCGTTTTGGTACAAATTCCAGTTGGTACTAGTCGGAATATGATGTATT
38231094 GGTCGGTACCTAAAAAATTAAATTAAA-TTTTTATTTTTATTTTTTTATTATTTATTTGTACAAA
66 GGTCGGTACCTAAAAAA-TAAATTAAATTTTTTATTTTTATTTTTTTATTATTTATTTGTACAAA
38231158 AAATTTAAATATATTTTAAATTTAAATTTTTATTATTTATTTTGGATTTGTTGAGTTATGGATTG
130 AAATTTAAATATATTTTAAATTTAAATTTTTATTATTTATTTTGGATTTGTTGAGTTATGGATTG
38231223 TTATATGCATAATATGAGATGATGTTATTATTTAATTTATGAAATAATTATTTCACTTGTTTATT
195 TTATATGCATAATATGAGATGATGTTATTATTTAATTTATGAAATAATTATTTCACTTGTTTATT
38231288 TTAAGTTTGTTTAGTGATGGATTATATTTGTAAAGTTTATTAAGGGTAAGTTTGTTTAATGAAAG
260 TTAAGTTTGTTTAGTGATGGATTATATTTGTAAAGTTTATTAAGGGTAAGTTTGTTTAATGAAAG
38231353 TTTGGATAGCACAGTAATTACAAAGAATTGTAATTTCTTTAGACGTGTTTGACTAATACAGTATA
325 TTTGGATAGCACAGTAATTACAAAGAATTGTAATTTCTTTAGACGTGTTTGACTAATACAGTATA
38231418 ATTACATCATACTTCCTGGTGTCATGTTTAGTAGTACAAGTTGTAATTACACAGTTACATAATTT
390 ATTACATCATACTTCCTGGTGTCATGTTTAGTAGTACAAGTTGTAATTACACAGTTACATAATTT
38231483 ATATTTTTAAAATATCAATTGCTATAAAAAATTATTAGTACAATAAAAATAATTTCTAAACAAGT
455 ATATTTTTAAAATATCAATTGCTATAAAAAATTATTAGTACAATAAAAATAATTTCTAAACAAGT
38231548 AACAA
520 AACAA
38231553 AAAATAAAAT
Statistics
Matches: 523, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
524 514 0.98
525 9 0.02
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (524 bp):
CTGTAGAATTTTAGGTTTCGTTTTGGTACAAATTCCAGTTGGTACTAGTCGGAATATGATGTATT
GGTCGGTACCTAAAAAATAAATTAAATTTTTTATTTTTATTTTTTTATTATTTATTTGTACAAAA
AATTTAAATATATTTTAAATTTAAATTTTTATTATTTATTTTGGATTTGTTGAGTTATGGATTGT
TATATGCATAATATGAGATGATGTTATTATTTAATTTATGAAATAATTATTTCACTTGTTTATTT
TAAGTTTGTTTAGTGATGGATTATATTTGTAAAGTTTATTAAGGGTAAGTTTGTTTAATGAAAGT
TTGGATAGCACAGTAATTACAAAGAATTGTAATTTCTTTAGACGTGTTTGACTAATACAGTATAA
TTACATCATACTTCCTGGTGTCATGTTTAGTAGTACAAGTTGTAATTACACAGTTACATAATTTA
TATTTTTAAAATATCAATTGCTATAAAAAATTATTAGTACAATAAAAATAATTTCTAAACAAGTA
ACAA
Found at i:38232896 original size:12 final size:12
Alignment explanation
Indices: 38232879--38232916 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
38232869 AGGATATGCA
38232879 ATCTTAGATATG
1 ATCTTAGATATG
38232891 ATCTTAGATATG
1 ATCTTAGATATG
38232903 ATCTTAGATATG
1 ATCTTAGATATG
38232915 AT
1 AT
38232917 ATATGCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:38232935 original size:24 final size:22
Alignment explanation
Indices: 38232908--38232957 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
38232898 ATATGATCTT
38232908 AGATATGATATATGCAATCTTAGA
1 AGATATGAT-TATGCAATCTTA-A
* *
38232932 AGATATGATTTTGTAATCTTAA
1 AGATATGATTATGCAATCTTAA
38232954 AGAT
1 AGAT
38232958 TTAATTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 10 0.42
24 9 0.38
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (22 bp):
AGATATGATTATGCAATCTTAA
Found at i:38232967 original size:21 final size:23
Alignment explanation
Indices: 38232908--38232967 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
38232898 ATATGATCTT
* *
38232908 AGATATGATATATGCAATCTTAGA
1 AGATATGA-ATTTGTAATCTTAGA
*
38232932 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
38232954 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
38232968 GATACCCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 10 0.32
24 8 0.26
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:38233280 original size:3 final size:3
Alignment explanation
Indices: 38233272--38233312 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
38233262 GTTATTAAGC
* * *
38233272 TAT TAT TAT TAT TGT TAT CAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
38233313 CTATATATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:38237172 original size:16 final size:17
Alignment explanation
Indices: 38237135--38237176 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
38237125 ATAAATAATC
38237135 CAAAATAATTAGAACTT
1 CAAAATAATTAGAACTT
* *
38237152 -GAAATATTTA-AACTT
1 CAAAATAATTAGAACTT
38237167 CAAAATAATT
1 CAAAATAATT
38237177 CAAACCCGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (17 bp):
CAAAATAATTAGAACTT
Found at i:38246914 original size:37 final size:37
Alignment explanation
Indices: 38246873--38246949 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
38246863 ACTTTAGTTA
38246873 AAATTACTTAAAATAATTAATTTTTTAAATTATAAAC
1 AAATTACTTAAAATAATTAATTTTTTAAATTATAAAC
38246910 AAATTACTTAAAATAATTAATTTTTTAAATTATAAAC
1 AAATTACTTAAAATAATTAATTTTTTAAATTATAAAC
38246947 AAA
1 AAA
38246950 CGTCTGTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (37 bp):
AAATTACTTAAAATAATTAATTTTTTAAATTATAAAC
Found at i:38246937 original size:17 final size:17
Alignment explanation
Indices: 38246880--38246938 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
38246870 TTAAAATTAC
38246880 TTAAAATAATTAATTTT
1 TTAAAATAATTAATTTT
** **
38246897 TTAAATTATAAACAAATTAC
1 TTAAA--AT-AATTAATTTT
38246917 TTAAAATAATTAATTTT
1 TTAAAATAATTAATTTT
38246934 TTAAA
1 TTAAA
38246939 TTATAAACAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 16 0.52
18 2 0.06
19 2 0.06
20 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAAATAATTAATTTT
Found at i:38247193 original size:19 final size:20
Alignment explanation
Indices: 38247169--38247233 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
38247159 AACCCCAAGG
38247169 TTCAAGGTTTAGATTT-GGA
1 TTCAAGGTTTAGATTTAGGA
*
38247188 TTCAA-GTTCTA-ATTTAGGG
1 TTCAAGGTT-TAGATTTAGGA
*
38247207 TTCAAGGTTCATG-TTTAGGA
1 TTCAAGGTTTA-GATTTAGGA
38247227 TTCAAGG
1 TTCAAGG
38247234 GTTTGAGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.18
19 15 0.39
20 16 0.42
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (20 bp):
TTCAAGGTTTAGATTTAGGA
Found at i:38247524 original size:134 final size:135
Alignment explanation
Indices: 38247354--38247625 Score: 528
Period size: 134 Copynumber: 2.0 Consensus size: 135
38247344 AAGAGTCTGT
38247354 AACGTGATTTCTCTATGTATGAGTGTATAATAATAATTTCATGCTTTAAAATTTTGATTATATGA
1 AACGTGATTTCTCTATGTATGAGTGTATAATAATAATTTCATGCTTTAAAATTTTGATTATATGA
38247419 CAAAATCTTATCGGTGCCTTAAAACATTAGTTTTTAAGAGATCTTTATGTAAGTTATTCTC-TTT
66 CAAAATCTTATCGGTGCCTTAAAACATTAGTTTTTAAGAGATCTTTATGTAAGTTATTCTCATTT
38247483 ATTAA
131 ATTAA
38247488 AACGTGATTTCTCTATGTATGAGTGTATAATAATAATTTCATGCTTTAAAATTTTGATTATATGA
1 AACGTGATTTCTCTATGTATGAGTGTATAATAATAATTTCATGCTTTAAAATTTTGATTATATGA
38247553 CAAAATCTTATCGGTGCCTTAAAACATTAGTTTTTAAGAGATCTTTATGTAAGTTATTCTCAATT
66 CAAAATCTTATCGGTGCCTTAAAACATTAGTTTTTAAGAGATCTTTATGTAAGTTATTCTC-ATT
38247618 TATTAA
130 TATTAA
38247624 AA
1 AA
38247626 AAATAATAAG
Statistics
Matches: 136, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
134 126 0.93
136 10 0.07
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (135 bp):
AACGTGATTTCTCTATGTATGAGTGTATAATAATAATTTCATGCTTTAAAATTTTGATTATATGA
CAAAATCTTATCGGTGCCTTAAAACATTAGTTTTTAAGAGATCTTTATGTAAGTTATTCTCATTT
ATTAA
Found at i:38248610 original size:14 final size:14
Alignment explanation
Indices: 38248573--38248610 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
38248563 ATAAAAAATT
38248573 TTAATAAATTAAAA
1 TTAATAAATTAAAA
*
38248587 TTACTAAATTAAAA
1 TTAATAAATTAAAA
38248601 -TAATATAATT
1 TTAATA-AATT
38248611 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
TTAATAAATTAAAA
Found at i:38251347 original size:22 final size:22
Alignment explanation
Indices: 38251322--38251374 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
38251312 TTATTTATAA
*
38251322 TTTAT-ATACACATGCATATATT
1 TTTATAATACACATACAT-TATT
*
38251344 TTTATAATATACATACATTATT
1 TTTATAATACACATACATTATT
*
38251366 TTTACAATA
1 TTTATAATA
38251375 TATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTATAATACACATACATTATT
Found at i:38251375 original size:22 final size:23
Alignment explanation
Indices: 38251331--38251386 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
38251321 ATTTATATAC
* *
38251331 ACATGCATATATTTTTATAATAT
1 ACATACATATATTTTTACAATAT
38251354 ACATACAT-TATTTTTACAATAT
1 ACATACATATATTTTTACAATAT
* *
38251376 ATATATATATA
1 ACATACATATA
38251387 CGTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (23 bp):
ACATACATATATTTTTACAATAT
Found at i:38252045 original size:109 final size:109
Alignment explanation
Indices: 38251870--38252208 Score: 515
Period size: 109 Copynumber: 3.1 Consensus size: 109
38251860 TACGCATATT
*
38251870 AATATCCTTTTAAAAATTTTCAAAGTAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
1 AATATCCTTTTAAAAA-TTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
* * *
38251935 CCTAATGTGCTAGGTTTCGATTTTTCTCTTTTGACCAAATAACCA
65 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
* *
38251980 AATATTCTTTTAAAAATTTCAAAATAAGGTAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
38252045 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
* * **
38252089 AATATCCTTTTAAAAAATTTCAAAATAAGGCAATTTTTTGCGTTTGGAAATT--AGAAAATATGC
1 AATATCCTTTT-AAAAATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
38252152 CCTAATGTGCTGGGTTTCGA--TTTCTCGTTTGACCAAATAGCCA
65 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
* *
38252195 AATATTCTCTTAAA
1 AATATCCTTTTAAA
38252209 TCTCAATCTA
Statistics
Matches: 212, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
105 3 0.01
106 31 0.15
108 29 0.14
109 97 0.46
110 52 0.25
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
Found at i:38262164 original size:27 final size:28
Alignment explanation
Indices: 38262128--38262191 Score: 112
Period size: 27 Copynumber: 2.3 Consensus size: 28
38262118 CATTCCCAAT
*
38262128 TTATATATATAAAAAAGCTATAAAAA-A
1 TTATAAATATAAAAAAGCTATAAAAATA
38262155 TTATAAATATAAAAAAGCTATAAAAATA
1 TTATAAATATAAAAAAGCTATAAAAATA
38262183 TTATAAATA
1 TTATAAATA
38262192 AATTATGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (28 bp):
TTATAAATATAAAAAAGCTATAAAAATA
Found at i:38270870 original size:3 final size:3
Alignment explanation
Indices: 38270862--38270887 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38270852 AGATGATTTA
38270862 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
38270888 AGCAGAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:38273353 original size:24 final size:24
Alignment explanation
Indices: 38273319--38273390 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
38273309 TTTCTAGAAG
* *
38273319 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
38273343 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
38273367 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGTATAATAT
38273391 GTTTGACTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:38286990 original size:73 final size:73
Alignment explanation
Indices: 38286871--38287012 Score: 232
Period size: 73 Copynumber: 1.9 Consensus size: 73
38286861 CTCGGATTTT
* * **
38286871 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTC-CTGAGATCGTTTAAA
1 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTC-GAGATCACTTAAA
38286935 ACTTGAGAA
65 ACTTGAGAA
38286944 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCACTTAAAA
1 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCACTTAAAA
38287009 CTTG
66 CTTG
38287013 TTTGAAAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 63 0.98
74 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (73 bp):
AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCACTTAAAA
CTTGAGAA
Found at i:38288065 original size:20 final size:21
Alignment explanation
Indices: 38288033--38288073 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
38288023 TATAAAAAGC
38288033 TAAAAGTGAATAATAA-ATAA
1 TAAAAGTGAATAATAAGATAA
38288053 TAAAA-TGATATAATAAGATAA
1 TAAAAGTGA-ATAATAAGATAA
38288074 ATATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (21 bp):
TAAAAGTGAATAATAAGATAA
Found at i:38288125 original size:15 final size:14
Alignment explanation
Indices: 38288080--38288126 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
38288070 ATAAATATAT
*
38288080 ATAAAAATTAAAAA
1 ATAAAAATAAAAAA
* *
38288094 TTAAAAATAAACAA
1 ATAAAAATAAAAAA
38288108 ATAAAATATAAAAAA
1 ATAAAA-ATAAAAAA
38288123 ATAA
1 ATAA
38288127 TACAAAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:38288276 original size:62 final size:62
Alignment explanation
Indices: 38288197--38288384 Score: 160
Period size: 62 Copynumber: 3.0 Consensus size: 62
38288187 ATAAAACTAA
38288197 TAATAAATAATAATAATATCAAATTATTAGTTTTAATAATAAAATAACCAAATACAAACAGAG
1 TAATAAATAAT-ATAATATCAAATTATTAGTTTTAATAATAAAATAACCAAATACAAACAGAG
* * * * **
38288260 TACA-AAACTAAT-TAATAT-ATTAATACAATAG---TAACGAATAAAAAAAGGAAAATA-AAAC
1 TA-ATAAA-TAATATAATATCA--AAT-TATTAGTTTTAA-TAATAAAATAA-CCAAATACAAAC
38288318 TA-A-
59 -AGAG
38288321 TAATAAATAATAATAATATCAAATTATTAGTTTTAATAATAAAATAACCAAAATACAAACAGAG
1 TAATAAATAAT-ATAATATCAAATTATTAGTTTTAATAATAAAATAACC-AAATACAAACAGAG
38288385 GGCTAAATTG
Statistics
Matches: 94, Mismatches: 12, Indels: 37
0.66 0.08 0.26
Matches are distributed among these distances:
60 9 0.10
61 12 0.13
62 41 0.44
63 23 0.24
64 9 0.10
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (62 bp):
TAATAAATAATATAATATCAAATTATTAGTTTTAATAATAAAATAACCAAATACAAACAGAG
Found at i:38290202 original size:45 final size:45
Alignment explanation
Indices: 38290150--38290256 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
38290140 TCGTGATCTG
* * * *
38290150 CTCTACTGCAACTTCAGAGAAATAAGA-TCTGCTCTTTTCAGTCTA
1 CTCTACTGCAACCTCAGAGAAATAAAAGT-TGCTATCTTCAGTCTA
* * *
38290195 CTCTACTGCAACCTCAGTGAGATAAAAGTTGCTATCTTCAGTCTT
1 CTCTACTGCAACCTCAGAGAAATAAAAGTTGCTATCTTCAGTCTA
*
38290240 CTATACTGCAACCTCAG
1 CTCTACTGCAACCTCAG
38290257 TAAGATAAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (45 bp):
CTCTACTGCAACCTCAGAGAAATAAAAGTTGCTATCTTCAGTCTA
Found at i:38290406 original size:132 final size:132
Alignment explanation
Indices: 38290259--38290846 Score: 862
Period size: 132 Copynumber: 4.5 Consensus size: 132
38290249 AACCTCAGTA
* * * *
38290259 AGATAAGACTAGTGGCTTCAATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCACCGTCCTTG
1 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCGCCGTCCTTG
* *
38290324 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACTGCTCAG
66 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAG
38290389 GG
131 GG
* * * *
38290391 AGATAGGACTGGTGGCTTAAATCTGCCTCTCTACTACCTT-GGAAAGATAATATTCGCTGT-CTA
1 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGG-AAGATAAGATTCGCCGTCCT-
* *
38290454 CGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACTTACTCCACTGCTGCTC
64 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
38290519 AGGG
129 AGGG
* * * *
38290523 AGATAGGACTGGTGGTTTAAATAC-GCTTCCCTACTACCTTGGGAAGATAAGATTCGCTGTCTTT
1 AGATAGGACTGGTGGCTTAAAT-CTGCTTCCCTACTACCTTAGGAAGATAAGATTCGCCGTCCTT
*
38290587 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACTTACTCCACTGCTGCTCA
65 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCA
38290652 GGG
130 GGG
*
38290655 AGATAGGACTGGTGGCTTAAATCTGCTTTCCTACTACCTTAGGAAGATAAGATTCGCCGT-CTTC
1 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCGCCGTCCTT-
* * * * *
38290719 GATCTGCTCCACTACTGCTTAGGGGGACAGGATCTGTAACCTTTAACCTACTCCACTGCTGCT-G
65 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCA
38290783 GGG
130 GGG
* * * *
38290786 AGATAGGACTGGTGGCTTAAATCTACTTCTCTACTACCTTGGGAAGATAAGATTCACCGTC
1 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCGCCGTC
38290847 TTCAGTTTGC
Statistics
Matches: 414, Mismatches: 34, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
131 65 0.16
132 345 0.83
133 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCGCCGTCCTTG
ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAG
GG
Found at i:38290509 original size:44 final size:43
Alignment explanation
Indices: 38290461--38290662 Score: 119
Period size: 44 Copynumber: 4.6 Consensus size: 43
38290451 CTACGATCTG
*
38290461 CTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACTTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAA-TTA
* * * * * *
38290505 CTCCACTGCTGCTCAGGGAGATAGGA-CTG--GTGGTTTAAATA
1 CTCCACTACTGCTTAGGGAGATAGGATCTGCAAT-CTTCAATTA
* * ** ** *
38290546 CGCTTCC-CTACTACCTT-GGGAAGATAAGAT-TCGCTGTCTTTGATCTG
1 --C-TCCACTACT-GCTTAGGG-AGATAGGATCT-GCAATCTTCAAT-TA
*
38290593 CTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACTTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAA-TTA
* *
38290637 CTCCACTGCTGCTCAGGGAGATAGGA
1 CTCCACTACTGCTTAGGGAGATAGGA
38290663 CTGGTGGCTT
Statistics
Matches: 117, Mismatches: 26, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
41 3 0.03
42 4 0.03
43 11 0.09
44 80 0.68
45 12 0.10
46 4 0.03
47 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (43 bp):
CTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAATTA
Found at i:38290977 original size:51 final size:51
Alignment explanation
Indices: 38290901--38291026 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
38290891 CTTCAATTTT
* * * *
38290901 AATGCCAGGGAGATAAGATTTGCTACCTTCAGCTTTAATCTGATCCGTTGC
1 AATGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATATGATCCGCTGC
* * * *
38290952 AATGCCAGAGAAACAAGATTCGCTACCTTTAGCTTTAATATGCTCCGCTGC
1 AATGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATATGATCCGCTGC
* *
38291003 AACGTCAGGGAAATAAGATTCGCT
1 AATGCCAGGGAAATAAGATTCGCT
38291027 GCTCTCAGTC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (51 bp):
AATGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATATGATCCGCTGC
Found at i:38291132 original size:20 final size:21
Alignment explanation
Indices: 38291107--38291149 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
38291097 GAGAAACAAG
*
38291107 ATTCGCTGC-CTTCAGCTTTA
1 ATTCGCTCCACTTCAGCTTTA
38291127 ATTCGCTCCACTTCAGCTTTA
1 ATTCGCTCCACTTCAGCTTTA
38291148 AT
1 AT
38291150 CTATTCCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTCGCTCCACTTCAGCTTTA
Found at i:38291207 original size:72 final size:72
Alignment explanation
Indices: 38291065--38291200 Score: 200
Period size: 72 Copynumber: 1.9 Consensus size: 72
38291055 GATTCGCAGC
* ** * *
38291065 CTTCAGCTTTAATCTGCTCTGCTGCAACGCCAGAGAAACAAGATTCGCTGCCTTCAGCTTTAATT
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAAAGAAACAAGATTCGCTGCCTTCAACTTTAATT
38291130 CGCTCCA
66 CGCTCCA
* * *
38291137 CTTCAGCTTTAATCTATTCCACTGCAACGCTAAAGAAACAAGATTCGCTGCCTTTAACTTTAAT
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAAAGAAACAAGATTCGCTGCCTTCAACTTTAAT
38291201 CTGCTCCGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (72 bp):
CTTCAGCTTTAATCTACTCCACTGCAACGCCAAAGAAACAAGATTCGCTGCCTTCAACTTTAATT
CGCTCCA
Found at i:38291321 original size:123 final size:123
Alignment explanation
Indices: 38291194--38291650 Score: 423
Period size: 123 Copynumber: 3.6 Consensus size: 123
38291184 CTGCCTTTAA
* ** * * *
38291194 CTTTAATCTGCTCCGTTGCAACGCCAGAGAAACAAGATTCGCTACTTTTAGCTTTAATCTGTTCC
1 CTTTAATCTACTCCACTGCAACACCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCC
* *
38291259 ACTGTAACACCAAGGAGATAGGATTTGTTGCCTTCAGCTTTAATCCGCTCCACTTCAG
66 ACTGCAACACCAAGGAGATAGGATTTGTTGCCTTAAGCTTTAATCCGCTCCACTTCAG
* * * *
38291317 CTTTAATCTATTCCACTGCAACACCAGGAAAACAAGATTTGCTACCTTTAGCTTTAATCTATTCC
1 CTTTAATCTACTCCACTGCAACACCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCC
* *** * * * * *
38291382 GCTGCAA-TGTAAGGGAAATAAGATTTGCTGTTCTCAGACTTAACGCTAGAGAGATAAGATTCGC
66 ACTGCAACACCAA-GGAGATAGGA-TT--TG-T-T--GCCTTAA-GCT-------TTA-ATCCGC
*
38291446 TGC-CTTCAG
114 TCCACTTCAG
* *
38291455 CTTTAATCTACTCCGCTGCAATACCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCC
1 CTTTAATCTACTCCACTGCAACACCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCC
* * * * * * * *
38291520 ACTACGACACCAAAGAGATAGGATTCGCTACCTTTAGCTTTAATCCGCTCTACTTCAG
66 ACTGCAACACCAAGGAGATAGGATTTGTTGCCTTAAGCTTTAATCCGCTCCACTTCAG
* * *
38291578 CTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTTC
1 CTTTAATCTACTCCACTGCAACACCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCC
*
38291643 GCTGCAAC
66 ACTGCAAC
38291651 TTCGGTGGTA
Statistics
Matches: 261, Mismatches: 54, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
122 8 0.03
123 141 0.54
124 2 0.01
126 2 0.01
127 1 0.00
128 1 0.00
130 8 0.03
131 7 0.03
133 1 0.00
135 1 0.00
137 2 0.01
138 78 0.30
139 9 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (123 bp):
CTTTAATCTACTCCACTGCAACACCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCC
ACTGCAACACCAAGGAGATAGGATTTGTTGCCTTAAGCTTTAATCCGCTCCACTTCAG
Found at i:38291331 original size:21 final size:21
Alignment explanation
Indices: 38291290--38291333 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
38291280 GATTTGTTGC
*
38291290 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
38291311 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
38291332 CT
1 CT
38291334 GCAACACCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:38291461 original size:261 final size:261
Alignment explanation
Indices: 38291162--38291649 Score: 751
Period size: 261 Copynumber: 1.9 Consensus size: 261
38291152 ATTCCACTGC
* * * *
38291162 AACGCTAAAGAAACAAGATTCGCTGCCTTTAACTTTAATCTGCTCCGTTGCAACGCCAGAGAAAC
1 AACGCTAAAGAAACAAGATTCGCTGCCTTCAACTTTAATCTACTCCGCTGCAACACCAGAGAAAC
* ** * * * *
38291227 AAGATTCGCTACTTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTTGTTGCCT
66 AAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAACACCAAAGAGATAGGATTCGCTACCT
*
38291292 TCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACACCAGGAAAACAAGATTT
131 TCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACACCAGGAAAACAAGATTC
38291357 GCTACCTTTAGCTTTAATCTATTCCGCTGCAATGTAAGGGAAATAAGATTTGCTGTTCTCAGACT
196 GCTACCTTTAGCTTTAATCTATTCCGCTGCAATGTAAGGGAAATAAGATTTGCTGTTCTCAGACT
38291422 T
261 T
* * * * * *
38291423 AACGCTAGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTACTCCGCTGCAATACCAGGGAAAC
1 AACGCTAAAGAAACAAGATTCGCTGCCTTCAACTTTAATCTACTCCGCTGCAACACCAGAGAAAC
*
38291488 AAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACGACACCAAAGAGATAGGATTCGCTACCT
66 AAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAACACCAAAGAGATAGGATTCGCTACCT
* * * *
38291553 TTAGCTTTAATCCGCTCTACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTC
131 TCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACACCAGGAAAACAAGATTC
* *
38291618 GCTACCTTTAGCTTTAATCTGTTTCGCTGCAA
196 GCTACCTTTAGCTTTAATCTATTCCGCTGCAA
38291650 CTTCGGTGGT
Statistics
Matches: 202, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
261 202 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (261 bp):
AACGCTAAAGAAACAAGATTCGCTGCCTTCAACTTTAATCTACTCCGCTGCAACACCAGAGAAAC
AAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAACACCAAAGAGATAGGATTCGCTACCT
TCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACACCAGGAAAACAAGATTC
GCTACCTTTAGCTTTAATCTATTCCGCTGCAATGTAAGGGAAATAAGATTTGCTGTTCTCAGACT
T
Found at i:38291513 original size:51 final size:51
Alignment explanation
Indices: 38291437--38291564 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 51
38291427 CTAGAGAGAT
* * * * * **
38291437 AAGATTCGCTGCCTTCAGCTTTAATCTACTCCGCTGCAATACCAGGGAAAC
1 AAGATTCGCTACCTTTAGCTTTAATCTACTCCACTACAACACCAAAGAAAC
** * * *
38291488 AAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACGACACCAAAGAGAT
1 AAGATTCGCTACCTTTAGCTTTAATCTACTCCACTACAACACCAAAGAAAC
*
38291539 AGGATTCGCTACCTTTAGCTTTAATC
1 AAGATTCGCTACCTTTAGCTTTAATC
38291565 CGCTCTACTT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (51 bp):
AAGATTCGCTACCTTTAGCTTTAATCTACTCCACTACAACACCAAAGAAAC
Found at i:38292734 original size:108 final size:108
Alignment explanation
Indices: 38292437--38292690 Score: 481
Period size: 108 Copynumber: 2.4 Consensus size: 108
38292427 TAAATGCTTG
38292437 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAGATGAATGAACTAA
1 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAGATGAATGAACTAA
38292502 TCATGATAGTAAATTTTACTAATATACGAACTGAATATGATGA
66 TCATGATAGTAAATTTTACTAATATACGAACTGAATATGATGA
38292545 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAGATGAATGAACTAA
1 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAGATGAATGAACTAA
38292610 TCATGATAGTAAATTTTACTAATATACGAACTGAATATGATGA
66 TCATGATAGTAAATTTTACTAATATACGAACTGAATATGATGA
* * *
38292653 AAAAGATTATCACAATGGACAAAATGGAATTTTGTTGA
1 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGA
38292691 AAGAAAAGTT
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 143 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (108 bp):
AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAGATGAATGAACTAA
TCATGATAGTAAATTTTACTAATATACGAACTGAATATGATGA
Found at i:38295459 original size:17 final size:17
Alignment explanation
Indices: 38295422--38295470 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
38295412 AAATTTAGAA
* *
38295422 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAAT
38295438 GAATTTTGTGATTTAAT
1 GAATTTTGTGATTTAAT
38295455 GAATTTTGTGATTTAA
1 GAATTTTGTGATTTAA
38295471 AAAGAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.23
17 23 0.77
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (17 bp):
GAATTTTGTGATTTAAT
Found at i:38295479 original size:19 final size:17
Alignment explanation
Indices: 38295414--38295471 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
38295404 TCAAGTGTAA
38295414 ATTTAGAAGAATTTT-TG
1 ATTTA-AAGAATTTTGTG
* **
38295431 AATTAGTGAATTTTGTG
1 ATTTAAAGAATTTTGTG
*
38295448 ATTTAATGAATTTTGTG
1 ATTTAAAGAATTTTGTG
38295465 ATTTAAA
1 ATTTAAA
38295472 AAGAATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 7 0.21
17 27 0.79
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (17 bp):
ATTTAAAGAATTTTGTG
Found at i:38296759 original size:46 final size:46
Alignment explanation
Indices: 38296683--38296867 Score: 282
Period size: 46 Copynumber: 4.0 Consensus size: 46
38296673 CAAGGAAAAG
* *
38296683 TGTGAAACGTAGGTATGGTATTCCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
38296729 TCTGAAAAGTAGGTATGGTATTTCAATGAAGAAAAGCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
38296775 TGTGAAAAGTAGGTATGGTAATTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
38296821 TGTGAAAAGTAGGTATGGTATTTTC-GTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTA-TTTCAGTGAAGAAAACCATACTGAGT
38296867 T
1 T
38296868 ATAGCCTTGT
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
46 122 0.98
47 3 0.02
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:38301660 original size:21 final size:21
Alignment explanation
Indices: 38301636--38301681 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
38301626 GATTTTCCAC
38301636 ACCAGGCTGATCAGCCTTTCA
1 ACCAGGCTGATCAGCCTTTCA
* * *
38301657 ACCATGTTGATCAGCCTTTCG
1 ACCAGGCTGATCAGCCTTTCA
38301678 ACCA
1 ACCA
38301682 ACTTCTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (21 bp):
ACCAGGCTGATCAGCCTTTCA
Found at i:38306874 original size:23 final size:23
Alignment explanation
Indices: 38306830--38306874 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
38306820 TAAAGCTAAA
**
38306830 ATTAATACAAAACTAATTAATAT
1 ATTAATACAAAACTAACGAATAT
* *
38306853 ATTAATACAATAGTAACGAATA
1 ATTAATACAAAACTAACGAATA
38306875 AATAAAAGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAATACAAAACTAACGAATAT
Found at i:38310207 original size:28 final size:26
Alignment explanation
Indices: 38310176--38310251 Score: 62
Period size: 30 Copynumber: 2.7 Consensus size: 26
38310166 AAAAATAGTA
38310176 ACAAAATAAACAATAAAACAAAAGTTAT
1 ACAAAAT-AACAATAAAACAAAA-TTAT
*
38310204 ACAATATCCTAACAATAACAACAAAATTAT
1 ACAA-A--ATAACAATAA-AACAAAATTAT
* *
38310234 AGCAACATAATAATAAAA
1 A-CAAAATAACAATAAAA
38310252 TGGTAACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
27 2 0.05
28 12 0.31
29 1 0.03
30 13 0.33
31 11 0.28
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (26 bp):
ACAAAATAACAATAAAACAAAATTAT
Found at i:38311816 original size:18 final size:19
Alignment explanation
Indices: 38311785--38311826 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
38311775 GGGACTAAAT
38311785 TGAAAAAATGTAAACTTTA
1 TGAAAAAATGTAAACTTTA
* *
38311804 TGAAAAAAT-TAAATTTTG
1 TGAAAAAATGTAAACTTTA
38311822 TGAAA
1 TGAAA
38311827 TACATGGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (19 bp):
TGAAAAAATGTAAACTTTA
Found at i:38312605 original size:24 final size:23
Alignment explanation
Indices: 38312545--38312630 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 23
38312535 TTGCTTTTCG
* *
38312545 GAGCTTCCCGATATTGGCTTGCTT
1 GAGCTTCCCGTTATTGGCTT-TTT
*
38312569 GAACCTTCCCGTTATTGGCTTTTAT
1 G-AGCTTCCCGTTATTGGCTTTT-T
* *
38312594 GAGCTTCCCGTTAATGGCTTTGTG
1 GAGCTTCCCGTTATTGGCTTT-TT
38312618 GAGCTTCCCGTTA
1 GAGCTTCCCGTTA
38312631 CATGGCTCGC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
24 33 0.62
25 20 0.38
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.38
Consensus pattern (23 bp):
GAGCTTCCCGTTATTGGCTTTTT
Found at i:38312646 original size:25 final size:24
Alignment explanation
Indices: 38312573--38312648 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
38312563 TTGCTTGAAC
* **
38312573 CTTCCCGTTATTGGCTTTTATGAG
1 CTTCCCGTTAATGGCTTCGATGAG
*
38312597 CTTCCCGTTAATGGCTTTG-TGGAG
1 CTTCCCGTTAATGGCTTCGAT-GAG
38312621 CTTCCCGTTACATGGC-TCGCATGAG
1 CTTCCCGTTA-ATGGCTTCG-ATGAG
38312646 CTT
1 CTT
38312649 TCTGTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
23 1 0.02
24 32 0.71
25 11 0.24
26 1 0.02
ACGTcount: A:0.13, C:0.25, G:0.24, T:0.38
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTTCGATGAG
Found at i:38315134 original size:25 final size:25
Alignment explanation
Indices: 38315106--38315160 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
38315096 AAATTAAAAA
* *
38315106 TTAA-AAATTTATATTTTTATACTTT
1 TTAATAAA-TTATAATTTTACACTTT
*
38315131 TTAATAAATTATAATTTTACATTTT
1 TTAATAAATTATAATTTTACACTTT
38315156 TTAAT
1 TTAAT
38315161 TATTTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAATAAATTATAATTTTACACTTT
Found at i:38315196 original size:100 final size:100
Alignment explanation
Indices: 38315089--38315408 Score: 631
Period size: 100 Copynumber: 3.2 Consensus size: 100
38315079 AATTAATTAT
38315089 TTTTAAAAAATTAAAAATTAAAAATTTATATTTTTATACTTTTTAATAAATTATAATTTTACATT
1 TTTTAAAAAATTAAAAATTAAAAATTTATATTTTTATACTTTTTAATAAATTATAATTTTACATT
38315154 TTTTAATTATTTTAATAATTTTTAAAATTTTTTAA
66 TTTTAATTATTTTAATAATTTTTAAAATTTTTTAA
38315189 TTTTAAAAAATTAAAAATTAAAAATTTATATTTTTATACTTTTTAATAAATTATAATTTTACATT
1 TTTTAAAAAATTAAAAATTAAAAATTTATATTTTTATACTTTTTAATAAATTATAATTTTACATT
38315254 TTTTAATTATTTTAATAATTTTTAAAATTTTTTAA
66 TTTTAATTATTTTAATAATTTTTAAAATTTTTTAA
38315289 TTTTAAAAAATTAAAAATTAAAAATTTATATTTTTATACTTTTTAATAAATTATAATTTTACATT
1 TTTTAAAAAATTAAAAATTAAAAATTTATATTTTTATACTTTTTAATAAATTATAATTTTACATT
38315354 TTTTAATTATTTTAATAATTTTTAAAATTTTTTAA
66 TTTTAATTATTTTAATAATTTTTAAAATTTTTTAA
38315389 TTTTAAAAAATTAAATAATT
1 TTTTAAAAAATTAAA-AATT
38315409 GTTGATGTGA
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
100 215 0.98
101 4 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (100 bp):
TTTTAAAAAATTAAAAATTAAAAATTTATATTTTTATACTTTTTAATAAATTATAATTTTACATT
TTTTAATTATTTTAATAATTTTTAAAATTTTTTAA
Found at i:38315242 original size:25 final size:26
Alignment explanation
Indices: 38315206--38315375 Score: 86
Period size: 25 Copynumber: 6.7 Consensus size: 26
38315196 AAATTAAAAA
* *
38315206 TTAA-AAATTTATATTTTTATACTTT
1 TTAATAAATTTATAATTTTACACTTT
*
38315231 TTAATAAA-TTATAATTTTACATTTT
1 TTAATAAATTTATAATTTTACACTTT
* * * *
38315256 TTAATTATTTTAATAATTTTTAAAATTT
1 TTAATAAATTT-ATAA-TTTTACACTTT
* * ** ***
38315284 TT--TAATTTTAAAAAATTA-A-AAA
1 TTAATAAATTTATAATTTTACACTTT
* *
38315306 TTAA-AAATTTATATTTTTATACTTT
1 TTAATAAATTTATAATTTTACACTTT
*
38315331 TTAATAAA-TTATAATTTTACATTTT
1 TTAATAAATTTATAATTTTACACTTT
* *
38315356 TTAATTATTTTAATAATTTT
1 TTAATAAATTT-ATAATTTT
38315376 TAAAATTTTT
Statistics
Matches: 107, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
22 2 0.02
23 11 0.10
24 4 0.04
25 51 0.48
26 16 0.15
27 12 0.11
28 11 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TTAATAAATTTATAATTTTACACTTT
Found at i:38315958 original size:22 final size:22
Alignment explanation
Indices: 38315924--38315965 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38315914 ATATACACAC
* * *
38315924 GTGGCGGTGCAATTAGCATTAT
1 GTGGCCGTACAATCAGCATTAT
38315946 GTGGCCGTACAATCAGCATT
1 GTGGCCGTACAATCAGCATT
38315966 CTATTTGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (22 bp):
GTGGCCGTACAATCAGCATTAT
Found at i:38317886 original size:13 final size:13
Alignment explanation
Indices: 38317868--38317894 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38317858 AAGGCCTTAG
38317868 ATGCGTACACGAA
1 ATGCGTACACGAA
38317881 ATGCGTACACGAA
1 ATGCGTACACGAA
38317894 A
1 A
38317895 GAAAAAGAAA
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:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (13 bp):
ATGCGTACACGAA
Found at i:38320779 original size:16 final size:15
Alignment explanation
Indices: 38320750--38320778 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38320740 GTTAATAGTA
38320750 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
38320765 AAATATTAAAAAAA
1 AAATATTAAAAAAA
38320779 AAACACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:38321049 original size:88 final size:87
Alignment explanation
Indices: 38320864--38321023 Score: 227
Period size: 86 Copynumber: 1.8 Consensus size: 87
38320854 AAAAATCCCT
* * *
38320864 AAAAAAAAAACAATTAAACTCCTTTTTTTTTTGCACTCAATTAGGTACTTGATATTTCAAAATGC
1 AAAAAAAAAACAATTAAACT-CTTTTTTTTTTACACTCAATTAGGTACTTGATATGTCAAAATAC
38320929 ATTAAAAAGGAACTCAAACTTAA
65 ATTAAAAAGGAACTCAAACTTAA
* *
38320952 AAAAAAAAAACAATTAAGCT-TTTTTTTTTTACACTCAATT-GAGTACTTGA-ACTGTCGAAATA
1 AAAAAAAAAACAATTAAACTCTTTTTTTTTTACACTCAATTAG-GTACTTGATA-TGTCAAAATA
38321014 CATTAAAAAG
64 CATTAAAAAG
38321024 ACCCTCAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
85 2 0.03
86 44 0.68
88 19 0.29
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (87 bp):
AAAAAAAAAACAATTAAACTCTTTTTTTTTTACACTCAATTAGGTACTTGATATGTCAAAATACA
TTAAAAAGGAACTCAAACTTAA
Found at i:38321783 original size:90 final size:89
Alignment explanation
Indices: 38321658--38321853 Score: 252
Period size: 90 Copynumber: 2.2 Consensus size: 89
38321648 TATATTTTGA
*
38321658 CAATTGAGTGCAAAAAAAAAACAGGGCCTTCATTGC-TTTTTTGAAAAAGTTTGAGGG-CTTTTT
1 CAATTGAGTG-AAAAAAAAAACAGGGCCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTC-TTTT
** * * *
38321721 TTTTATGCATTTTGATAGTTTAAGTATC
64 TGATAT--ATTGTGAAAGTTCAAGTATC
* * *
38321749 CAATTGAGTGAAAAAAAAAGCAGGGGCTTAATTGCTTTTTTTTGAAAAATTTTGAGGGTCTTTTT
1 CAATTGAGTGAAAAAAAAAACAGGGCCTTAATTGC-TTTTTTTGAAAAAGTTTGAGGGTCTTTTT
38321814 GATATATTGTGAAAGTTCAAGTATC
65 GATATATTGTGAAAGTTCAAGTATC
38321839 CAATTGAGTGAAAAA
1 CAATTGAGTGAAAAA
38321854 GATATGGACT
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
90 54 0.58
91 10 0.11
92 28 0.30
93 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (89 bp):
CAATTGAGTGAAAAAAAAAACAGGGCCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTG
ATATATTGTGAAAGTTCAAGTATC
Found at i:38324183 original size:41 final size:41
Alignment explanation
Indices: 38324126--38324238 Score: 181
Period size: 41 Copynumber: 2.8 Consensus size: 41
38324116 TTTTTAGGGA
* *
38324126 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGAC
*
38324167 TTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGAC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGAC
* *
38324208 TTTCGCGGCGTTTTTTAAGAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAA
38324239 AAACATTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGAC
Found at i:38324557 original size:14 final size:14
Alignment explanation
Indices: 38324510--38324557 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
38324500 TATCACTATA
* * *
38324510 GTTTAGGGTTTTTA
1 GTTTAGGGATTATG
*
38324524 GTTTAGGGAGTATGG
1 GTTTAGGGATTAT-G
38324539 GTTTAGGGATTATG
1 GTTTAGGGATTATG
38324553 GTTTA
1 GTTTA
38324558 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:38324561 original size:15 final size:15
Alignment explanation
Indices: 38324524--38324557 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38324514 AGGGTTTTTA
38324524 GTTTAGGGAGTATGG
1 GTTTAGGGAGTATGG
*
38324539 GTTTAGGGATTAT-G
1 GTTTAGGGAGTATGG
38324553 GTTTA
1 GTTTA
38324558 AGGGTTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
GTTTAGGGAGTATGG
Found at i:38324586 original size:7 final size:7
Alignment explanation
Indices: 38324576--38324634 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
38324566 GATTTAATGT
38324576 TTAGGGG
1 TTAGGGG
38324583 TTAGAGGG
1 TTAG-GGG
38324591 TTAGGGG
1 TTAGGGG
38324598 TTTAGGGG
1 -TTAGGGG
*
38324606 TTAGATGTG
1 TTAG--GGG
38324615 TTAGGGG
1 TTAGGGG
* *
38324622 TTAAGAG
1 TTAGGGG
38324629 TTAGGG
1 TTAGGG
38324635 ATTCAGAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 22 0.52
8 14 0.33
9 6 0.14
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:38324596 original size:15 final size:15
Alignment explanation
Indices: 38324576--38324624 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
38324566 GATTTAATGT
38324576 TTAGGGG-TTAGAGGG
1 TTAGGGGTTTAG-GGG
38324591 TTAGGGGTTTAGGGG
1 TTAGGGGTTTAGGGG
**
38324606 TTAGATGTGTTAGGGG
1 TTAGGGGT-TTAGGGG
38324622 TTA
1 TTA
38324625 AGAGTTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 16 0.53
16 14 0.47
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (15 bp):
TTAGGGGTTTAGGGG
Found at i:38324601 original size:23 final size:24
Alignment explanation
Indices: 38324574--38324623 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
38324564 GGGATTTAAT
38324574 GTTTAGGGGTTAGA-GGGTTAGGG
1 GTTTAGGGGTTAGATGGGTTAGGG
*
38324597 GTTTAGGGGTTAGATGTGTTAGGG
1 GTTTAGGGGTTAGATGGGTTAGGG
38324621 GTT
1 GTT
38324624 AAGAGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (24 bp):
GTTTAGGGGTTAGATGGGTTAGGG
Found at i:38324631 original size:23 final size:23
Alignment explanation
Indices: 38324582--38324632 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
38324572 ATGTTTAGGG
* *
38324582 GTTAGAGGGTTAGGGGTTTAGGG
1 GTTAGAGGGTTAGGGGTTTAAGA
*
38324605 GTTAGATGTGTTAGGGG-TTAAGA
1 GTTAGA-GGGTTAGGGGTTTAAGA
38324628 GTTAG
1 GTTAG
38324633 GGATTCAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (23 bp):
GTTAGAGGGTTAGGGGTTTAAGA
Found at i:38324842 original size:14 final size:15
Alignment explanation
Indices: 38324807--38324842 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
38324797 TATTTTAAGG
38324807 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
38324822 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
38324837 -TTAGGG
1 TTTAGGG
38324843 TTTTAGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:38324927 original size:44 final size:43
Alignment explanation
Indices: 38324845--38324944 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 43
38324835 GATTAGGGTT
* * * *
38324845 TTAGGGTTTAAGGGTTGAGATTTAAGGTTTAAGGGTTAGAGG-G
1 TTAGGGTTTAGGGGTTGAGAATTAAGGGTTAAGAGTTAG-GGAG
* *
38324888 TTAGGGGTTTAGGGGTT-AGACATTAAGGGTTAATAGTTAGGGAT
1 TTA-GGGTTTAGGGGTTGAGA-ATTAAGGGTTAAGAGTTAGGGAG
38324932 TTAGGGTTTAGGG
1 TTAGGGTTTAGGG
38324945 ATTCAGGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 18 0.38
44 30 0.62
ACGTcount: A:0.25, C:0.01, G:0.39, T:0.35
Consensus pattern (43 bp):
TTAGGGTTTAGGGGTTGAGAATTAAGGGTTAAGAGTTAGGGAG
Found at i:38325784 original size:43 final size:42
Alignment explanation
Indices: 38325675--38325896 Score: 225
Period size: 43 Copynumber: 5.2 Consensus size: 42
38325665 ATATATTTTT
* * * * * * *
38325675 TAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCACCGG
1 TAAAGGTTAGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * *
38325717 TAAAGGTTTA-TTCTTTAGCGGCGTTTGTGATAAAAGTGCCGT
1 TAAAGG-TTAGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
*
38325759 TAAAGGTTAGAGTCTTTAGCGGCGTTTTTG-GAAGAAGCGCCGC
1 TAAAGGTTAG-GTCTTTAGCGGCGTTTGTGAGAA-AAGCGCCGC
* * *
38325802 TAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAGAAGCGCCGC
1 TAAAGGT-TAGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* *
38325845 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTTA-GGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
38325888 TAAA-GTTAG
1 TAAAGGTTAG
38325897 CGACGCTGTC
Statistics
Matches: 152, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
41 4 0.03
42 40 0.26
43 104 0.68
44 4 0.03
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (42 bp):
TAAAGGTTAGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
Found at i:38325860 original size:86 final size:85
Alignment explanation
Indices: 38325675--38325892 Score: 264
Period size: 86 Copynumber: 2.6 Consensus size: 85
38325665 ATATATTTTT
* * * *
38325675 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTGCG-AGAAGCACCGGTAAAGGTTTATTCTTTAGCGG
1 TAAAGGTTATGGTCTTTAGCGGCGTTTTTG-GAAGAAGCGCCGCTAAAGGTTTAGTCTTTAGCGG
* * *
38325738 CGTTTGTGATAAAAGTGCCGT
65 CGTTTGTGAGAAAAGCGCCGC
*
38325759 TAAAGGTTA-GAGTCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAAAGGTCTTGGTCTTTAGCG
1 TAAAGGTTATG-GTCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAAAGGT-TTAGTCTTTAGCG
* *
38325823 GCGTTTGTGGGAGAAGCGCCGC
64 GCGTTTGTGAGAAAAGCGCCGC
* *
38325845 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAG
1 TAAAGGTTATGGTCTTTAGCGGCGTTT-TTGGAAGAAGCGCCGCTAAAG
38325893 TTAGCGACGC
Statistics
Matches: 116, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
84 10 0.09
85 34 0.29
86 66 0.57
87 6 0.05
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (85 bp):
TAAAGGTTATGGTCTTTAGCGGCGTTTTTGGAAGAAGCGCCGCTAAAGGTTTAGTCTTTAGCGGC
GTTTGTGAGAAAAGCGCCGC
Found at i:38325971 original size:31 final size:31
Alignment explanation
Indices: 38325936--38326031 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
38325926 TCGCTTCTCT
38325936 AAGCGCCGCTAATACTTTTAGTGACGCTAAA
1 AAGCGCCGCTAATACTTTTAGTGACGCTAAA
38325967 AAGCGCCGCT-A-A-----AG-G-C-CTAAAA
1 AAGCGCCGCTAATACTTTTAGTGACGCT-AAA
38325989 AAGCGCCGCTAATACTTTTAGTGACGCTAAA
1 AAGCGCCGCTAATACTTTTAGTGACGCTAAA
38326020 AAGCGCCGCTAA
1 AAGCGCCGCTAA
38326032 AGGCCTAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
21 2 0.04
22 14 0.26
23 2 0.04
24 3 0.06
29 3 0.06
30 2 0.04
31 26 0.48
32 2 0.04
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (31 bp):
AAGCGCCGCTAATACTTTTAGTGACGCTAAA
Found at i:38326000 original size:53 final size:53
Alignment explanation
Indices: 38325936--38326053 Score: 236
Period size: 53 Copynumber: 2.2 Consensus size: 53
38325926 TCGCTTCTCT
38325936 AAGCGCCGCTAATACTTTTAGTGACGCTAAAAAGCGCCGCTAAAGGCCTAAAA
1 AAGCGCCGCTAATACTTTTAGTGACGCTAAAAAGCGCCGCTAAAGGCCTAAAA
38325989 AAGCGCCGCTAATACTTTTAGTGACGCTAAAAAGCGCCGCTAAAGGCCTAAAA
1 AAGCGCCGCTAATACTTTTAGTGACGCTAAAAAGCGCCGCTAAAGGCCTAAAA
38326042 AAGCGCCGCTAA
1 AAGCGCCGCTAA
38326054 AAACCTATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (53 bp):
AAGCGCCGCTAATACTTTTAGTGACGCTAAAAAGCGCCGCTAAAGGCCTAAAA
Found at i:38326060 original size:22 final size:22
Alignment explanation
Indices: 38326017--38326060 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38326007 TAGTGACGCT
**
38326017 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAACCTA
38326039 AAAAAGCGCCGCTAAAAACCTA
1 AAAAAGCGCCGCTAAAAACCTA
38326061 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAACCTA
Found at i:38326384 original size:2 final size:2
Alignment explanation
Indices: 38326377--38326402 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38326367 TACCATAACA
38326377 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
38326403 GAAGTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38337434 original size:87 final size:87
Alignment explanation
Indices: 38337324--38338096 Score: 865
Period size: 87 Copynumber: 8.9 Consensus size: 87
38337314 CGATGAAACT
* * * * *
38337324 CCAGCC-TATCTCACTGAGTAGTAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
* *
38337388 GTAGTGGAGTAGATCGAAGTCC
66 GTAGTGGAGCAGATCGAAGACC
* * * * * *
38337410 CTAGCCTTATCTCCCTGAGCAGTAGTAGTGTAGGTTGAAGATTACAGATATTATCTCCCTAAACA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
*
38337475 GTAGCGGAGCAGATCGAAGACC
66 GTAGTGGAGCAGATCGAAGACC
* * *
38337497 CCAGCCTTGTCTCCTTGAGGAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
38337562 GTAGTGGAGCAGATCGAAGACC
66 GTAGTGGAGCAGATCGAAGACC
* *
38337584 CCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
* *
38337649 GTAGTAGAGCAGATCGAAAACC
66 GTAGTGGAGCAGATCGAAGACC
* * *
38337671 CCAGCC-TATCTCCCTGAGCAGCAATGGAGTAGGCTGAAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
*
38337735 GTAGTGGAGCAGATCGAAGTCC
66 GTAGTGGAGCAGATCGAAGACC
* *
38337757 CCATCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
** *
38337822 GTAGTGGAATAGATCGAAGACA
66 GTAGTGGAGCAGATCGAAGACC
* ** * ** * * * * ** * *
38337844 CTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTAAAGATAACAGATCTTGCCTCTCTGTA-C
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCT-AAGC
* * ** *
38337908 TGACAGTAAAGCAGATCAAAGACC
65 AG-TAGTGGAGCAGATCGAAGACC
* * * * * *
38337932 CCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAAAAGATCTTATCTCTCTAAAGT
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCT-AAGC
* * * * * *
38337997 TGCAGTAGAGTAGATCG--CA-T
65 AGTAGTGGAGCAGATCGAAGACC
* * * * * *
38338017 CAAGTCTTATCTCCCTGAGCAGCAGTGGAGTAGATCGAAGAACTACAGATCTTATCTCCCTAACC
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAG-ATTACAGATCTTATCTCCCTAAGC
38338082 AGTAGTGGAGCAGAT
65 AGTAGTGGAGCAGAT
38338097 TGAGGCCAGT
Statistics
Matches: 577, Mismatches: 104, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
85 47 0.08
86 99 0.17
87 353 0.61
88 76 0.13
89 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (87 bp):
CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACC
Found at i:38337785 original size:260 final size:260
Alignment explanation
Indices: 38337324--38338096 Score: 896
Period size: 260 Copynumber: 3.0 Consensus size: 260
38337314 CGATGAAACT
* * * *
38337324 CCAGCC-TATCTCACTGAGTAGTAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTAAAGATTACAGATCTTATCTCCCTAAGCA
* * ** * * * * *
38337388 GTAGTGGAGTAGATCGAAGTCCCTAGCCTTATCTCCCTGAGCAGTAGTAGTGTAGGTTGAAGATT
66 GTAGTAGAGCAGATCGAAAACCCCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATT
* * * * * * *
38337453 ACAGATATTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGACCCCAGCCTTGTCTCCTTGAGGA
131 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCATCCTTATCTCC-TGAGCA
38337518 GCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
195 GCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
*
38337583 C
260 A
* * *
38337584 CCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
1 CCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTAAAGATTACAGATCTTATCTCCCTAAGCA
* *
38337649 GTAGTAGAGCAGATCGAAAACCCCAGCC-TATCTCCCTGAGCAGCAATGGAGTAGGCTGAAAATT
66 GTAGTAGAGCAGATCGAAAACCCCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATT
38337713 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCATCCTTATCTCTCTGAGCA
131 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCATCCTTATCTC-CTGAGCA
**
38337778 GCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAATAGATCGAAGAC
195 GCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
38337843 A
260 A
* * * * * * * ** * *
38337844 CTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTAAAGATAACAGATCTTGCCTCTCTGTA-C
1 CCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTAAAGATTACAGATCTTATCTCCCT-AAGC
* * * *
38337908 TGACAGTAAAGCAGATC-AAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA
65 AG-TAGTAGAGCAGATCGAAA-ACCCCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA
* * * ** * * * * *
38337972 ATAAAAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCA-T--CAAGT-CTTATCTCCCT
128 ATTACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGTCCCCA-TCCTTATCT-CCT
* * * *
38338033 GAGCAGCAGTGGAGTAGATCGAAGAACTACAGATCTTATCTCCCTAACCAGTAGTGGAGCAGAT
190 GAGCAGCAGTGGAGTAGGTTGAAG-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
38338097 TGAGGCCAGT
Statistics
Matches: 439, Mismatches: 64, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
260 240 0.55
261 134 0.31
262 48 0.11
263 17 0.04
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (260 bp):
CCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTAAAGATTACAGATCTTATCTCCCTAAGCA
GTAGTAGAGCAGATCGAAAACCCCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATT
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCATCCTTATCTCCTGAGCAG
CAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACA
Found at i:38338030 original size:347 final size:346
Alignment explanation
Indices: 38337318--38338096 Score: 976
Period size: 347 Copynumber: 2.2 Consensus size: 346
38337308 ACAAACCGAT
* * * * *
38337318 GAAACTCC-AGCCTATCTCACTGAGTAGTAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCC
1 GAAAC-CCAAGCCTATCTCCCTGAGCAGCAGTGGAGTAGGATGAAAATTACAGATCTTATCTCCC
* * * *
38337382 TAAGCAGTAGTGGAGTAGATCGAAGTCCCTAGCCTTATCTCCCTGAGCAGTAGTAGTGTAGGTTG
65 TAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTG
* * * *
38337447 AAGATTACAGATATTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGACCCCAGCCTTGTCTCCT
130 AAGATTACAGATATTATCTCCCTAAACAGTAGCGGAACAGATCGAAGACACCAGCCTTGCCTCCC
* * * * * * * **
38337512 TGAGGAGCAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
195 TCAGGAGCAGCGGAGCAGGTTAAAGATAACAGATCTTACCTCCCTAAGCAGCAGTAAAGCAGATC
* * * *
38337577 GAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCC
260 AAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAAAAGATCTTATCTCC
*
38337642 CTAAGCAGTAGTAGAGCAGATC
325 CTAAGCAGCAGTAGAGCAGATC
* * *
38337664 GAAAACCCCAGCCTATCTCCCTGAGCAGCAATGGAGTAGGCTGAAAATTACAGATCTTATCTCCC
1 G-AAACCCAAGCCTATCTCCCTGAGCAGCAGTGGAGTAGGATGAAAATTACAGATCTTATCTCCC
* * *
38337729 TAAGCAGTAGTGGAGCAGATCGAAGTCCCCATCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTG
65 TAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTG
* * * * *
38337794 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAATAGATCGAAGACACTAGCCTTGCCTCCC
130 AAGATTACAGATATTATCTCCCTAAACAGTAGCGGAACAGATCGAAGACACCAGCCTTGCCTCCC
* * * *
38337859 TCAGTG-GCAGCGGAGCAGGTTAAAGATAACAGATCTTGCCTCTCTGTA-CTGACAGTAAAGCAG
195 TCAG-GAGCAGCGGAGCAGGTTAAAGATAACAGATCTTACCTCCCT-AAGCAG-CAGTAAAGCAG
38337922 ATCAAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAAAAGATCTTATC
257 ATCAAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAAAAGATCTTATC
* ** *
38337987 TCTCTAAAGTTGCAGTAGAGTAGATC
322 TCCCT-AAGCAGCAGTAGAGCAGATC
* * * *
38338013 G-CA-TCAAGTCTTATCTCCCTGAGCAGCAGTGGAGTA-GATCGAAGAACTACAGATCTTATCTC
1 GAAACCCAAG-CCTATCTCCCTGAGCAGCAGTGGAGTAGGAT-GAA-AATTACAGATCTTATCTC
*
38338075 CCTAACCAGTAGTGGAGCAGAT
63 CCTAAGCAGTAGTGGAGCAGAT
38338097 TGAGGCCAGT
Statistics
Matches: 372, Mismatches: 52, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
346 8 0.02
347 234 0.63
348 113 0.30
349 17 0.05
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (346 bp):
GAAACCCAAGCCTATCTCCCTGAGCAGCAGTGGAGTAGGATGAAAATTACAGATCTTATCTCCCT
AAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTGA
AGATTACAGATATTATCTCCCTAAACAGTAGCGGAACAGATCGAAGACACCAGCCTTGCCTCCCT
CAGGAGCAGCGGAGCAGGTTAAAGATAACAGATCTTACCTCCCTAAGCAGCAGTAAAGCAGATCA
AAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAAAAGATCTTATCTCCC
TAAGCAGCAGTAGAGCAGATC
Found at i:38338378 original size:51 final size:51
Alignment explanation
Indices: 38338236--38338378 Score: 115
Period size: 51 Copynumber: 2.8 Consensus size: 51
38338226 ATAGCTGAAA
* * * * ** *
38338236 TGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCGTTGGCATTATAG
1 TGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTATAG
** * * ** * * * * * *
38338287 TGGAATAGATTAAAGTTAAATGTAGTGAATCTTGTTTCCCTAGCCTTGTAG
1 TGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTATAG
38338338 TGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
1 TGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
38338379 GGCGTTAAGA
Statistics
Matches: 63, Mismatches: 29, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (51 bp):
TGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTATAG
Found at i:38338488 original size:169 final size:169
Alignment explanation
Indices: 38338193--38338797 Score: 886
Period size: 169 Copynumber: 3.6 Consensus size: 169
38338183 ACTGAATATG
* * *
38338193 GCGAATCTTATCTCCCTGGTATTAATACTTGAAATAGCTGAAATGGAGCGGATTAAAGCTGTGGG
1 GCGAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGG
* * * *
38338258 CAGCAAATCCTATCTCGTTGGCATTATAGTGGAATAGATTAAAGTTAAATGTAGTGAATCTTGTT
66 CAGCAAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTT
* * *
38338323 TCCCTAGCCTTGTAGTGGAGCAGATTAAAGCTGAGGGCA
131 TCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGGCA
* * *
38338362 GCGAATCTTATCTCCCTGGCGTTAAGACTTGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGG
1 GCGAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGG
**
38338427 CAGTGAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTT
66 CAGCAAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTT
* * * *
38338492 TCCCTAGCATTGCAGCAGAGTATATTAAAGTTGAGGGCA
131 TCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGGCA
** * * * *
38338531 GCGAATCTTATCTCCCTGGTGTTAAGACTCGAAATAGCTGAAGTGGAGCGGGTTCAAGCTATGGG
1 GCGAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGG
* * *
38338596 CAGCGAATCCTATCTCTTTGGCATTATAGTGGAACAGATTAAAGCTAAAGGTAGCGAACCTTGTT
66 CAGCAAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTT
38338661 TCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGGCA
131 TCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGGCA
* * * * * * *
38338700 GCGAATCTTATCTCCCTGGCATTAAGACTTGAAGTAGCTAAAGCGAAGCAGATTAATGTTGTGGG
1 GCGAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGG
*
38338765 CAGCAAATCCTATCTCTTTGGCATTACAGTGGA
66 CAGCAAATCCTATCTCTTTGGCATTATAGTGGA
38338798 GCAGATTGAA
Statistics
Matches: 388, Mismatches: 48, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
169 388 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (169 bp):
GCGAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGG
CAGCAAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTT
TCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGGCA
Found at i:38338875 original size:50 final size:50
Alignment explanation
Indices: 38338821--38339082 Score: 175
Period size: 50 Copynumber: 5.2 Consensus size: 50
38338811 ATGACGGTGG
*
38338821 ATCTTGCTCCCCTGGCGGTGTAGTGGAACATATTGAAGCTACAACGGCGA
1 ATCTTGCTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGA
* ** ** * ** * ** *
38338871 ATCTTGTTTCCCC-AACATTGTAATTAAAAAGATTGAAGCCGCAACGGTGA
1 ATCTTG-CTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGA
* ** *
38338921 ATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGA
1 ATCTTGCTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGA
* * * *** ** * * ** * **
38338971 ATCTCGTTTCCCAAACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGA
1 ATCTTGCTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGA
* * * *
38339021 ATCTTACTTCCCTGGCGGTGTAGTGGAACATATTGAAGCTACGACGGCGA
1 ATCTTGCTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGA
*
38339071 ATCTTGTTCCCC
1 ATCTTGCTCCCC
38339083 CAACATTGCA
Statistics
Matches: 144, Mismatches: 66, Indels: 4
0.67 0.31 0.02
Matches are distributed among these distances:
49 3 0.02
50 136 0.94
51 5 0.03
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (50 bp):
ATCTTGCTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGA
Found at i:38339108 original size:100 final size:100
Alignment explanation
Indices: 38338821--38339101 Score: 463
Period size: 100 Copynumber: 2.8 Consensus size: 100
38338811 ATGACGGTGG
* * *
38338821 ATCTTGCTCCCCTGGCGGTGTAGTGGAACATATTGAAGCTACAACGGCGAATCTTGTTTCCCCAA
1 ATCTTACTTCCCTGGCGGTGTAGTGGAACATATTGAAGCTACGACGGCGAATCTTGTTTCCCCAA
* *
38338886 CATTGTAATTAAAAAGATTGAAGCCGCAACGGTGA
66 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGA
* * * *
38338921 ATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCAAA
1 ATCTTACTTCCCTGGCGGTGTAGTGGAACATATTGAAGCTACGACGGCGAATCTTGTTTCCCCAA
38338986 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGA
66 CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGA
*
38339021 ATCTTACTTCCCTGGCGGTGTAGTGGAACATATTGAAGCTACGACGGCGAATCTTGTTCCCCCAA
1 ATCTTACTTCCCTGGCGGTGTAGTGGAACATATTGAAGCTACGACGGCGAATCTTGTTTCCCCAA
*
38339086 CATTGCAATTTAAAAG
66 CATTGCAATTAAAAAG
38339102 GCTGAAGATG
Statistics
Matches: 166, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 166 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (100 bp):
ATCTTACTTCCCTGGCGGTGTAGTGGAACATATTGAAGCTACGACGGCGAATCTTGTTTCCCCAA
CATTGCAATTAAAAAGATTGAAGCCGCAACGGCGA
Found at i:38339261 original size:44 final size:43
Alignment explanation
Indices: 38339159--38339275 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
38339149 TAAAGCCAAT
* * * * *
38339159 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGACTGAGTAAGA
1 AATCATATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAACA
* * *
38339202 AAGTCTTATAC-CCCTAAAATTGCAGTGGGGCAGACTGAATGAACA
1 AA-TCATAT-CTCCCTAAAGTTGCAGTGGAGCAGACTGAAT-AACA
*
38339247 AATCATATCTCCCTAAAGTTGTAGTGGAG
1 AATCATATCTCCCTAAAGTTGCAGTGGAG
38339276 TGGATTAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 3 0.05
44 50 0.85
45 6 0.10
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (43 bp):
AATCATATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAACA
Found at i:38346808 original size:16 final size:17
Alignment explanation
Indices: 38346775--38346806 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
38346765 TGAATATTTT
38346775 TAAAATATATGTTCAAA
1 TAAAATATATGTTCAAA
38346792 TAAAA-ATAT-TTCAAA
1 TAAAATATATGTTCAAA
38346807 ATGTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
TAAAATATATGTTCAAA
Found at i:38346967 original size:30 final size:30
Alignment explanation
Indices: 38346933--38346989 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
38346923 TTGATACTTG
*
38346933 AATTTTATAATTTTT-TTAATTTGGTACCTA
1 AATTTGAT-ATTTTTATTAATTTGGTACCTA
* *
38346963 AATTTGATTTTTTTATTAATTTTGTAC
1 AATTTGATATTTTTATTAATTTGGTAC
38346990 TTAATGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (30 bp):
AATTTGATATTTTTATTAATTTGGTACCTA
Found at i:38352512 original size:36 final size:36
Alignment explanation
Indices: 38352464--38352534 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
38352454 ATCAAAGGCT
*
38352464 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
*
38352500 ATAATTAGAAGCTGTATACAATTAAAACTCTAAGA
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGA
38352535 TTAAATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
Found at i:38358970 original size:19 final size:17
Alignment explanation
Indices: 38358944--38358997 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
38358934 AAAGCTGTAT
38358944 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
38358961 ACATAATTAGAAGCTGT-AT
1 AC--AATTAGAA-CTCTAAG
38358980 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
38358997 A
1 A
38358998 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 11 0.38
20 3 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:38358976 original size:36 final size:36
Alignment explanation
Indices: 38358929--38358997 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
38358919 AAAGGCTACA
38358929 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
*
38358965 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
38358998 TTAAATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
Found at i:38358987 original size:17 final size:17
Alignment explanation
Indices: 38358929--38358989 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
38358919 AAAGGCTACA
*
38358929 AATTAAAAGCTGTATAC
1 AATTAGAAGCTGTATAC
* *
38358946 AATTAGAA-CTCTAAGAC
1 AATTAGAAGCTGT-ATAC
38358963 ATAATTAGAAGCTGTATAC
1 --AATTAGAAGCTGTATAC
38358982 AATTAGAA
1 AATTAGAA
38358990 CTCTAAGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
19 11 0.31
20 3 0.09
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (17 bp):
AATTAGAAGCTGTATAC
Found at i:38368212 original size:41 final size:41
Alignment explanation
Indices: 38368121--38368215 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
38368111 ACTGGGTTTG
* * * ** *
38368121 CTCACATAAGCTGTCAATCAAGACGTAGCTACATGGTGCTG
1 CTCACACAAGCTGCCAATCAAGACGTAGCTACACGACGCTA
38368162 CTCACACAAGCTGCCAATCAAGACGTAGCTACACGACGCTA
1 CTCACACAAGCTGCCAATCAAGACGTAGCTACACGACGCTA
*
38368203 CTCATACAAGCTG
1 CTCACACAAGCTG
38368216 TAAAGTAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (41 bp):
CTCACACAAGCTGCCAATCAAGACGTAGCTACACGACGCTA
Found at i:38370686 original size:15 final size:15
Alignment explanation
Indices: 38370663--38370696 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38370653 ATTAAGTATG
* *
38370663 TTAATTAAATTTTAA
1 TTAAATAAATTATAA
38370678 TTAAATAAATTATAA
1 TTAAATAAATTATAA
38370693 TTAA
1 TTAA
38370697 CTAGTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATAAATTATAA
Found at i:38371862 original size:72 final size:72
Alignment explanation
Indices: 38371739--38371935 Score: 232
Period size: 72 Copynumber: 2.7 Consensus size: 72
38371729 ATGATTGATG
* * * * *** **
38371739 GCTTGAGTTCCAGCATGTGTTGTCGATTCTCTGAAGCTTGTATGAGCAGCATTGGATCATTTTTT
1 GCTTGAGATCCAACATGTGTTGTGGATTCTCTGAAGCTTGTGTGAGCAGCATCAAATCATCCTTT
38371804 ATCGATA
66 ATCGATA
* * * * *
38371811 GCTTGAGATCCAACATGTGTTATGGATTCTCTAAAACTTGTGTGAGTAGCATCAAATTATCCTTT
1 GCTTGAGATCCAACATGTGTTGTGGATTCTCTGAAGCTTGTGTGAGCAGCATCAAATCATCCTTT
*
38371876 ATCGATG
66 ATCGATA
* * *
38371883 GCTTAAGATCCAACACGTGTTGTGGATTCTTTGAAGCTTGTGTGAGCAGCATC
1 GCTTGAGATCCAACATGTGTTGTGGATTCTCTGAAGCTTGTGTGAGCAGCATC
38371936 GAATAAAGCT
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 103 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (72 bp):
GCTTGAGATCCAACATGTGTTGTGGATTCTCTGAAGCTTGTGTGAGCAGCATCAAATCATCCTTT
ATCGATA
Found at i:38371944 original size:25 final size:25
Alignment explanation
Indices: 38371916--38371982 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
38371906 GGATTCTTTG
38371916 AAGCTTGTGTGAGCAGCATCGA-ATA
1 AAGCTTGTGTGAGCAGCAT-GATATA
* * * *
38371941 AAGCTTGTAT-AGTAACCATGATATG
1 AAGCTTGTGTGAG-CAGCATGATATA
38371966 AAGCTTGTGTGAGCAGC
1 AAGCTTGTGTGAGCAGC
38371983 CAAATATGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
24 4 0.12
25 26 0.81
26 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (25 bp):
AAGCTTGTGTGAGCAGCATGATATA
Found at i:38371989 original size:25 final size:25
Alignment explanation
Indices: 38371914--38371990 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 25
38371904 GTGGATTCTT
*
38371914 TGAAGCTTGTGTGAGCAGCATCGAATA
1 TGAAGCTTGTGTGAGCAGC--CAAATA
* * * *
38371941 --AAGCTTGTAT-AGTAACCATGATA
1 TGAAGCTTGTGTGAGCAGCCA-AATA
38371964 TGAAGCTTGTGTGAGCAGCCAAATA
1 TGAAGCTTGTGTGAGCAGCCAAATA
38371989 TG
1 TG
38371991 TCAGTTTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
22 1 0.03
23 3 0.08
24 4 0.11
25 23 0.62
26 6 0.16
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (25 bp):
TGAAGCTTGTGTGAGCAGCCAAATA
Found at i:38372636 original size:13 final size:12
Alignment explanation
Indices: 38372599--38372637 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
38372589 GATGAATTGG
*
38372599 TATGTGGTGATA
1 TATGTGTTGATA
38372611 TATGTGTTGGATA
1 TATGTGTT-GATA
38372624 TATGTGTATGATA
1 TATGTGT-TGATA
38372637 T
1 T
38372638 TTGGAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 16 0.67
14 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (12 bp):
TATGTGTTGATA
Found at i:38375562 original size:29 final size:31
Alignment explanation
Indices: 38375508--38375570 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
38375498 TTTATGTTTT
38375508 TTTAAAAAATAAATTTTATAAATATTTTGAA
1 TTTAAAAAATAAATTTTATAAATATTTTGAA
*
38375539 TTTAAAAAAT-TA-TTTA-AAATTATTTTGAA
1 TTTAAAAAATAAATTTTATAAA-TATTTTGAA
38375568 TTT
1 TTT
38375571 TTTTAGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 3 0.10
29 16 0.53
30 1 0.03
31 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTAAAAAATAAATTTTATAAATATTTTGAA
Found at i:38377774 original size:14 final size:14
Alignment explanation
Indices: 38377755--38377785 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38377745 TGTTGAGTTC
38377755 TTAGTTAAATCAGT
1 TTAGTTAAATCAGT
*
38377769 TTAGTTAAATTAGT
1 TTAGTTAAATCAGT
38377783 TTA
1 TTA
38377786 AAACTCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTTAAATCAGT
Found at i:38383342 original size:18 final size:19
Alignment explanation
Indices: 38383301--38383345 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
38383291 CTTTGCAAAT
38383301 AAATA-ATAATAACATATA
1 AAATATATAATAACATATA
* *
38383319 ACATATATAA-AACATTTA
1 AAATATATAATAACATATA
38383337 AAATATATA
1 AAATATATA
38383346 CAATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATATATAATAACATATA
Found at i:38384017 original size:19 final size:20
Alignment explanation
Indices: 38383977--38384022 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
38383967 AACAAAATGA
38383977 AAATAAAAGAAAATAAAAAG
1 AAATAAAAGAAAATAAAAAG
* *
38383997 AAATAAAA-AAAATGAACAG
1 AAATAAAAGAAAATAAAAAG
38384016 AAATAAA
1 AAATAAA
38384023 CGATGAACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (20 bp):
AAATAAAAGAAAATAAAAAG
Found at i:38385063 original size:132 final size:132
Alignment explanation
Indices: 38384851--38385264 Score: 539
Period size: 132 Copynumber: 3.1 Consensus size: 132
38384841 CACTGCGATA
* * * * *
38384851 TCAGGGAAATAGGATAACTGGCTTCAATGTACTCTACTGTAACCTCAGGGAGGTAAAATCCACCA
1 TCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
* * ** * *
38384916 TCTTCGAT-TTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATTTATTCCACTGT
66 TCTTTGATCTT-CTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTGC
38384980 TGC
130 TGC
*
38384983 TGAGGG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACC
1 TCAGGGAAG-TAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACC
* *
38385047 ATCTTTGATCTTCTCCACTACTGCTTAGAGAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
65 ATCTTTGATCTTCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTGC
38385112 TG-
130 TGC
* * * ***
38385114 TCCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCTGT
1 T-CAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAG-GGAGGTAAAATCCAC
* * * *
38385178 CGTCTTTAATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTG
64 CATCTTTGATCTTCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTG
38385243 CTGC
129 CTGC
*
38385247 CCAGGGAAGTAGAATTAT
1 TCAGGGAAGTAGAATTAT
38385265 NNNNNNNNNN
Statistics
Matches: 246, Mismatches: 30, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
131 3 0.01
132 239 0.97
133 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
TCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
TCTTTGATCTTCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTGCT
GC
Found at i:38386780 original size:44 final size:46
Alignment explanation
Indices: 38386711--38386798 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 46
38386701 CCTGGTCTCT
* *
38386711 TTTTTTTTTGACTCAAAGAGCCCCTTTGTAGGGTTTCACCTTGGCC
1 TTTTTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACATTGGCC
*
38386757 TTTTTTTTT-ACTCAAAGCG-CCCTTTGTAGGCTTTCACATTGG
1 TTTTTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACATTGG
38386799 TCCCACCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 21 0.54
45 9 0.23
46 9 0.23
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (46 bp):
TTTTTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACATTGGCC
Found at i:38389920 original size:19 final size:19
Alignment explanation
Indices: 38389896--38389941 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
38389886 AGAGGTGTTT
* *
38389896 AATGCATATG-ATGCAATG
1 AATGCAAATGCATGAAATG
38389914 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
38389934 AATGCAAA
1 AATGCAAA
38389942 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:38392845 original size:19 final size:20
Alignment explanation
Indices: 38392805--38392850 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
38392795 AACAAAATGA
38392805 AAATAAAAGAAAATAAAAAG
1 AAATAAAAGAAAATAAAAAG
* *
38392825 AAATAAAA-AAAATGAACAG
1 AAATAAAAGAAAATAAAAAG
38392844 AAATAAA
1 AAATAAA
38392851 CGATGAACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (20 bp):
AAATAAAAGAAAATAAAAAG
Found at i:38418483 original size:32 final size:32
Alignment explanation
Indices: 38418442--38418504 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
38418432 GAAGAATTAG
38418442 GATTTTGATTGCTTCAATTTTAAAACAACTTT
1 GATTTTGATTGCTTCAATTTTAAAACAACTTT
38418474 GATTTTGATTGCTTCAATTTTAAAACAACTT
1 GATTTTGATTGCTTCAATTTTAAAACAACTT
38418505 AGCAATGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (32 bp):
GATTTTGATTGCTTCAATTTTAAAACAACTTT
Found at i:38424772 original size:24 final size:24
Alignment explanation
Indices: 38424735--38424781 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38424725 AATAAAAAAA
* *
38424735 TAATTTTGACATTTGACTATTGGG
1 TAATTTTGAAATTTGAATATTGGG
*
38424759 TAATTTTTAAATTTGAATATTGG
1 TAATTTTGAAATTTGAATATTGG
38424782 TATGTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (24 bp):
TAATTTTGAAATTTGAATATTGGG
Found at i:38425283 original size:8 final size:10
Alignment explanation
Indices: 38425260--38425284 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38425250 GGGATAAATA
38425260 TATATACTAT
1 TATATACTAT
38425270 TATATACTAT
1 TATATACTAT
38425280 TATAT
1 TATAT
38425285 CTTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATACTAT
Found at i:38428231 original size:23 final size:23
Alignment explanation
Indices: 38428205--38428249 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
38428195 AACCAGGAAT
38428205 AGTAAATACAAAAATTTGGGCAA
1 AGTAAATACAAAAATTTGGGCAA
38428228 AGTAAATACAAAAATTTGGGCA
1 AGTAAATACAAAAATTTGGGCA
38428250 TTTGGTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (23 bp):
AGTAAATACAAAAATTTGGGCAA
Found at i:38433438 original size:29 final size:29
Alignment explanation
Indices: 38433372--38433438 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
38433362 CAGCTATACT
* * *
38433372 GCCAGAACTCCAATATTTGCGGATTATCC
1 GCCAGAACTCCAATATTTGCGAATAAACC
*
38433401 GCCATAACTCTC-ATATTTGCGAATAAACC
1 GCCAGAACTC-CAATATTTGCGAATAAACC
*
38433430 GGCAGAACT
1 GCCAGAACT
38433439 ACACAATCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (29 bp):
GCCAGAACTCCAATATTTGCGAATAAACC
Found at i:38433597 original size:38 final size:37
Alignment explanation
Indices: 38433507--38433597 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 37
38433497 TAGGTACAAC
*
38433507 ACAGAATAGTGGCATGTTTTAACATACGATCAGTAAT
1 ACAGAATAGTGGCATGTTTTAACATACAATCAGTAAT
* * * *
38433544 TCAGTAACAGTGGCATGTTTT-ACATGCAATTAGTAAAT
1 ACAG-AATAGTGGCATGTTTTAACATACAATCAGT-AAT
38433582 ACAGAATAGTAGGCAT
1 ACAGAATAGT-GGCAT
38433598 TTTCTCATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 18 0.41
38 26 0.59
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (37 bp):
ACAGAATAGTGGCATGTTTTAACATACAATCAGTAAT
Found at i:38440174 original size:17 final size:17
Alignment explanation
Indices: 38440152--38440186 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38440142 ACCTTCCAAC
38440152 AATCAATTATTCAATGA
1 AATCAATTATTCAATGA
38440169 AATCAATTATTCAATGA
1 AATCAATTATTCAATGA
38440186 A
1 A
38440187 GCTGTGCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (17 bp):
AATCAATTATTCAATGA
Found at i:38445147 original size:6 final size:7
Alignment explanation
Indices: 38445130--38445161 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
38445120 ATAAAGTTTG
*
38445130 TTTTTTG
1 TTTTTTA
38445137 TTTTTTA
1 TTTTTTA
38445144 TTTTTTA
1 TTTTTTA
38445151 TTTTTTA
1 TTTTTTA
38445158 TTTT
1 TTTT
38445162 AAGTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:38445700 original size:19 final size:19
Alignment explanation
Indices: 38445678--38445717 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38445668 ATAACAAAAT
* *
38445678 AATAGCAATATAATAGTGA
1 AATAGCAACAAAATAGTGA
*
38445697 AATAGTAACAAAATAGTGA
1 AATAGCAACAAAATAGTGA
38445716 AA
1 AA
38445718 AACAACAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (19 bp):
AATAGCAACAAAATAGTGA
Found at i:38452638 original size:16 final size:16
Alignment explanation
Indices: 38452617--38452648 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38452607 CATTAATTAA
38452617 AAAGAAATATGGGGCT
1 AAAGAAATATGGGGCT
38452633 AAAGAAATATGGGGCT
1 AAAGAAATATGGGGCT
38452649 GAGAATTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (16 bp):
AAAGAAATATGGGGCT
Found at i:38459625 original size:27 final size:28
Alignment explanation
Indices: 38459575--38459649 Score: 143
Period size: 28 Copynumber: 2.7 Consensus size: 28
38459565 ATTAAATTTT
38459575 AAGTTAAAAAAATATAATATTTTTTAAA
1 AAGTTAAAAAAATATAATATTTTTTAAA
38459603 AAGTTAAAAAAATATAATATTTTTTAAA
1 AAGTTAAAAAAATATAATATTTTTTAAA
38459631 AAGTTAAAAAAA-ATAATAT
1 AAGTTAAAAAAATATAATAT
38459650 GGCCAACTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 7 0.15
28 40 0.85
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (28 bp):
AAGTTAAAAAAATATAATATTTTTTAAA
Found at i:38461000 original size:11 final size:11
Alignment explanation
Indices: 38460986--38461043 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
38460976 ATATCCAAAC
38460986 AATAACAACAA
1 AATAACAACAA
**
38460997 AATAGTAACAA
1 AATAACAACAA
** *
38461008 AATAGTGAAAAA
1 AATA-ACAACAA
*
38461020 AATAACAAGAA
1 AATAACAACAA
38461031 AATAACAACAA
1 AATAACAACAA
38461042 AA
1 AA
38461044 CAGTAAAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
11 29 0.78
12 8 0.22
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (11 bp):
AATAACAACAA
Found at i:38461025 original size:34 final size:34
Alignment explanation
Indices: 38460986--38461061 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
38460976 ATATCCAAAC
** * *
38460986 AATAACAACAAAATAGTAACAAAATAGTGAAAAA
1 AATAACAACAAAATAACAACAAAACAGTAAAAAA
*
38461020 AATAACAAGAAAATAACAACAAAACAGTAAAAAA
1 AATAACAACAAAATAACAACAAAACAGTAAAAAA
*
38461054 AAAAACAA
1 AATAACAA
38461062 TGAGAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.72, C:0.11, G:0.07, T:0.11
Consensus pattern (34 bp):
AATAACAACAAAATAACAACAAAACAGTAAAAAA
Found at i:38467466 original size:17 final size:18
Alignment explanation
Indices: 38467444--38467477 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38467434 ACAGTTGTAA
38467444 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
38467461 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
38467478 CACAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:38468766 original size:17 final size:18
Alignment explanation
Indices: 38468744--38468777 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38468734 ATAATTGTAA
38468744 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
38468761 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
38468778 CACAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:38469652 original size:17 final size:18
Alignment explanation
Indices: 38469630--38469663 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38469620 ATAATTGTAA
38469630 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
38469647 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
38469664 CACAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:38472634 original size:30 final size:29
Alignment explanation
Indices: 38472588--38472651 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
38472578 TAAAACTGAA
* *
38472588 TTAACCGATTTAATTCGGTT-AATTGGTTGG
1 TTAATCGATCTAATTCGGTTGAA-T-GTTGG
38472618 TTAATCGATCTAATTCGGTTGAATGTTGG
1 TTAATCGATCTAATTCGGTTGAATGTTGG
38472647 TTAAT
1 TTAAT
38472652 GATTTTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 10 0.32
30 19 0.61
31 2 0.06
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (29 bp):
TTAATCGATCTAATTCGGTTGAATGTTGG
Found at i:38474087 original size:20 final size:20
Alignment explanation
Indices: 38474051--38474088 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38474041 TATATTTGAA
*
38474051 ACGTTACATTTTAGTAACTT
1 ACGTTACATGTTAGTAACTT
38474071 ACGTTAACATGTT-GTAAC
1 ACGTT-ACATGTTAGTAAC
38474089 ATTTTAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
ACGTTACATGTTAGTAACTT
Found at i:38476833 original size:122 final size:119
Alignment explanation
Indices: 38476617--38476968 Score: 420
Period size: 122 Copynumber: 2.8 Consensus size: 119
38476607 TTTATTATTC
*
38476617 ATAAAGAAATTAAAACTAAAAAGTGATTTTTTTAATTAAATGGTTATTTGTAGTGATAGATATTT
1 ATAAATAAATTAAAACTAAAAAGTGATTTTTTTAATTAAATGGTTATTTGTAGTGATAGATATTT
** * *
38476682 ATTGCAACTCTTAAATACCTTTGGCAAAAAGG-AAAAAGAATCTTATAAAAGATTTT
66 ATTAAAACTCTTAAATACCTTTGGCAAAAAGGAAAAAAAAAAC-T-T-AAAGATTTT
* *
38476738 ATAAATAAATTAAAACTAAAAAGTGATTTTTTTGCATTGAATGGTTATTTGTAGTGATAGATATT
1 ATAAATAAATTAAAACTAAAAAGTGATTTTTTT-AATTAAATGGTTATTTGTAGTGATAGATATT
*
38476803 TATTAAAACTCTTAAATACTTTTGGCAAAAAGGAAAAAAAAAACTTAAAGATTTT
65 TATTAAAACTCTTAAATACCTTTGGCAAAAAGGAAAAAAAAAACTTAAAGATTTT
*
38476858 ATAAATAAATTAAAACTAAAAACTGATTAAAAAACTGATTTTTTTTTAATTGAATGGTTATTTGT
1 ATAAATAAATTAAAACTAAAAA--G----------TGA--TTTTTTTAATTAAATGGTTATTTGT
* * *
38476923 AGTGATAGATATATATTAGAACACTT-AATACCTTTGGCAAAAAGGA
52 AGTGATAGATATTTATTAAAACTCTTAAATACCTTTGGCAAAAAGGA
38476969 TTCTTAAGTC
Statistics
Matches: 202, Mismatches: 13, Indels: 21
0.86 0.06 0.09
Matches are distributed among these distances:
120 31 0.15
121 33 0.16
122 61 0.30
123 8 0.04
132 22 0.11
133 40 0.20
134 7 0.03
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (119 bp):
ATAAATAAATTAAAACTAAAAAGTGATTTTTTTAATTAAATGGTTATTTGTAGTGATAGATATTT
ATTAAAACTCTTAAATACCTTTGGCAAAAAGGAAAAAAAAAACTTAAAGATTTT
Found at i:38481635 original size:153 final size:149
Alignment explanation
Indices: 38481441--38481834 Score: 465
Period size: 153 Copynumber: 2.6 Consensus size: 149
38481431 TTTTTTCTGC
* *
38481441 AAAATAGAAAATTTAGATTTT-AACAAATAAAATTCCTTTTTTTTAGTTATTTTAAAAGAAAGTT
1 AAAAAAGAAAATTTAGATTTTGAA-AAATAAAAAT-CTTTTTTTTAGTTATTTTAAAAGAAAGTT
* * * *
38481505 TAAAATTTTAAAATAAAGTTTTGATTTTATTTTCAA-TCATTTCAAAGTGAAAGCTTTAATCTTT
64 TAAAATTTTAAAATAAAGTTTTGATTTTATTTTCAACT-ACTTCAAAATAAAAACTTTAATCTTT
*
38481569 AAGAAAAATAGTATTTTTTTTTA
128 AAGAAAAATAGT-GTTTTTTTTA
* * *
38481592 ACAAAAAGGAGAGTTTATATTTTGAAAAATAAAAATCTATTTTTTTAGTTATTTT-AAAGAAAAG
1 A-AAAAA-GAAAATTTAGATTTTGAAAAATAAAAATCT-TTTTTTTAGTTATTTTAAAAG-AAAG
* * * *
38481656 TTTAAATTTTTTAAAA-AAAGTTTTGATTTTTTTTTCAACTACTTCAAAATAAAAATTTTAATTT
62 TTTAAA-ATTTTAAAATAAAGTTTTGATTTTATTTTCAACTACTTCAAAATAAAAACTTTAATCT
38481720 TTAAGAAAAATAGTGTTTTTTTTA
126 TTAAGAAAAATAGTGTTTTTTTTA
* * * * * * *
38481744 AAAAGATAAAATTTAGATTTTG-AAAATAAAAATATGTTTTTTAAGTCATTTTAGAGGAAAGTTT
1 AAAAAAGAAAATTTAGATTTTGAAAAATAAAAATCT-TTTTTTTAGTTATTTTAAAAGAAAGTTT
*
38481808 AAAATTTTAAAATAAATTTTTGATTTT
65 AAAATTTTAAAATAAAGTTTTGATTTT
38481835 TTTAACTATT
Statistics
Matches: 207, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
148 8 0.04
149 49 0.24
150 14 0.07
151 5 0.02
152 20 0.10
153 100 0.48
154 11 0.05
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (149 bp):
AAAAAAGAAAATTTAGATTTTGAAAAATAAAAATCTTTTTTTTAGTTATTTTAAAAGAAAGTTTA
AAATTTTAAAATAAAGTTTTGATTTTATTTTCAACTACTTCAAAATAAAAACTTTAATCTTTAAG
AAAAATAGTGTTTTTTTTA
Found at i:38481688 original size:21 final size:21
Alignment explanation
Indices: 38481643--38481687 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
38481633 TTTTTAGTTA
38481643 TTTTAAAGAAAAGTTTAAATT
1 TTTTAAAGAAAAGTTTAAATT
**
38481664 TTTTAAA-AAAAGTTTTGATT
1 TTTTAAAGAAAAGTTTAAATT
38481684 TTTT
1 TTTT
38481688 TTTCAACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTTAAAGAAAAGTTTAAATT
Found at i:38482090 original size:544 final size:544
Alignment explanation
Indices: 38481308--38482393 Score: 1914
Period size: 544 Copynumber: 2.0 Consensus size: 544
38481298 GGTTTCGATG
* *
38481308 AAGGGGACGTCACCGGACGTTGGTTCTCCTCCCCTAGGAAGCCCCAAAAATCTTGTTTTTTCTCT
1 AAGGGGACGTCACCGGACATCGGTTCTCCTCCCCTAGGAAGCCCCAAAAATCTTGTTTTTTCTCT
* *
38481373 CCCCTTTCTAAAATAAAGGTTTTTTTTTAAATGGCTTGATTTTGGGAAATGTTTTGAATTTTTTC
66 CCCCTTTCTAAAATAAAGGTTTTTTTTTAAATGGCTTGATTTTGGAAAAAGTTTTGAATTTTTTC
*
38481438 TGCAAAATAGAAAATTTAGATTTTAACAAATAAAATTCCTTTTTTTTAGTTATTTTAAAAGAAAG
131 TGCAAAATAGAAAATTTAGATTTTAACAAATAAAATTCCTTTTTTTTAGTTAGTTTAAAAGAAAG
*
38481503 TTTAAAATTTTAAAATAAAGTTTTGATTTTATTTTCAATCATTTCAAAGTGAAAGCTTTAATCTT
196 TTTAAAATTTTAAAATAAAGTTTTGATTTTATTTTCAATCATTTCAAAGTAAAAGCTTTAATCTT
*
38481568 TAAGAAAAATAGTATTTTTTTTTAACAAAAAGGAG-AGTTTATATTTTGAAAAATAAAAATCT-A
261 TAAGAAAAATAG--TGTTTTTTTAACAAAAAGGAGAAGTTTATATTTTGAAAAATAAAAATCTGA
38481631 TTTTTTTAGTTATTTTAAAGAAAAGTTTAAATTTTTTAAAAAAAGTTTTGATTTTTTTTTCAACT
324 TTTTTTTAGTTATTTTAAAGAAAAGTTTAAATTTTTTAAAAAAAGTTTTGATTTTTTTTTCAACT
* * *
38481696 ACTTCAAAATAAAAATTTTAATTTTTAAGAAAAATAGTGTTTTTTT-TAAAAA-GATAAAATTTA
389 ACTTCAAAAT-AAAATTTTAATTTTTAAGAAAAATAGTATTTTTTTAAAAAAAGGAGAAAATTTA
38481759 GATTTTG-AAAATAAAAATATGTTTTTTAAGTCATTTTAGAGGAAAGTTTAAAATTTTAAAATAA
453 GATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAGAGGAAAGTTTAAAATTTTAAAATAA
38481823 ATTTTTGATTTTTTTAACTATTTAGATA
518 ATTTTTGA-TTTTTTAACTATTTAGATA
*
38481851 AAGGGGACGTCACCGGATATCGGTTCTCCTCCCCTAGGAAGCCCCAAAAATCTTGTTTTTTCTCT
1 AAGGGGACGTCACCGGACATCGGTTCTCCTCCCCTAGGAAGCCCCAAAAATCTTGTTTTTTCTCT
*
38481916 TCCCTTTCTAAAATAAAGGGTTTTTTTTTAAATGGCTTGATTTTGGAAAAAGTTTTGAATTTTTT
66 CCCCTTTCTAAAATAAA-GGTTTTTTTTTAAATGGCTTGATTTTGGAAAAAGTTTTGAATTTTTT
*
38481981 CTGCAAAATAGAAAGTTTAGATTTTAACAAATAAAATTCCTTTTTTTTTAGTTAGTTTAAAAGAA
130 CTGCAAAATAGAAAATTTAGATTTTAACAAATAAAATTCC-TTTTTTTTAGTTAGTTTAAAAGAA
38482046 AGTTTAAAATTTTAAAATAAAGTTTTGATTTT-TTTTCAATCATTTCAAAGTAAAAGCTTTAATC
194 AGTTTAAAATTTTAAAATAAAGTTTTGATTTTATTTTCAATCATTTCAAAGTAAAAGCTTTAATC
38482110 TTTAAGAAAAATAGTGTTTTTTTAACAAAAAGGAGAAAGTTTATATTTTGAAAAATAAAAATCTG
259 TTTAAGAAAAATAGTGTTTTTTTAACAAAAAGGAG-AAGTTTATATTTTGAAAAATAAAAATCTG
*
38482175 TTTTTTTTAGTTATTTTAAAGAAAAGTTTAAATTTTTTAAAAAAAGTTTTGATTTTTTTTTCAAC
323 ATTTTTTTAGTTATTTTAAAGAAAAGTTTAAATTTTTTAAAAAAAGTTTTGATTTTTTTTTCAAC
38482240 TACTTCAAAATAAAATTTTAATTTTTAAGAAAAATAGTATTTTTTTAAAAAAAAGGGAGAAAATT
388 TACTTCAAAATAAAATTTTAATTTTTAAGAAAAATAGTATTTTTTT-AAAAAAA-GGAGAAAATT
38482305 TAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAGAGGAAAGTTTAAAATTTTAAAAT
451 TAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAGAGGAAAGTTTAAAATTTTAAAAT
*
38482370 AATTTTTTGATTTTTTAACTATTT
516 AAATTTTTGATTTTTTAACTATTT
38482394 CGAAATAAAG
Statistics
Matches: 518, Mismatches: 15, Indels: 15
0.95 0.03 0.03
Matches are distributed among these distances:
542 20 0.04
543 78 0.15
544 190 0.37
545 130 0.25
546 5 0.01
548 31 0.06
549 64 0.12
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.43
Consensus pattern (544 bp):
AAGGGGACGTCACCGGACATCGGTTCTCCTCCCCTAGGAAGCCCCAAAAATCTTGTTTTTTCTCT
CCCCTTTCTAAAATAAAGGTTTTTTTTTAAATGGCTTGATTTTGGAAAAAGTTTTGAATTTTTTC
TGCAAAATAGAAAATTTAGATTTTAACAAATAAAATTCCTTTTTTTTAGTTAGTTTAAAAGAAAG
TTTAAAATTTTAAAATAAAGTTTTGATTTTATTTTCAATCATTTCAAAGTAAAAGCTTTAATCTT
TAAGAAAAATAGTGTTTTTTTAACAAAAAGGAGAAGTTTATATTTTGAAAAATAAAAATCTGATT
TTTTTAGTTATTTTAAAGAAAAGTTTAAATTTTTTAAAAAAAGTTTTGATTTTTTTTTCAACTAC
TTCAAAATAAAATTTTAATTTTTAAGAAAAATAGTATTTTTTTAAAAAAAGGAGAAAATTTAGAT
TTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAGAGGAAAGTTTAAAATTTTAAAATAAATT
TTTGATTTTTTAACTATTTAGATA
Found at i:38482233 original size:21 final size:21
Alignment explanation
Indices: 38482188--38482232 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
38482178 TTTTTAGTTA
38482188 TTTTAAAGAAAAGTTTAAATT
1 TTTTAAAGAAAAGTTTAAATT
**
38482209 TTTTAAA-AAAAGTTTTGATT
1 TTTTAAAGAAAAGTTTAAATT
38482229 TTTT
1 TTTT
38482233 TTTCAACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTTAAAGAAAAGTTTAAATT
Found at i:38482317 original size:154 final size:152
Alignment explanation
Indices: 38481990--38482444 Score: 525
Period size: 153 Copynumber: 3.0 Consensus size: 152
38481980 TCTGCAAAAT
* *
38481990 AGAAAGTTTAGATTTT-AACAAATAAAATTCCT-TTTTTTTTAGTTAGTTTAAA-AGAAAGTTTA
1 AGAAAGTTTAGATTTTGAA-AAATAAAAAT-CTGTTTTTTTTAGTTATTTTAAAGA-AAAGTTTA
* * *
38482052 AAATTTTAAAATAAAGTTTTGA-TTTTTTTTCAA-TCATTTCAAAGTAAAAGCTTTAATCTTTAA
63 AAATTTTAAAA-AAAGTTTTGATTTTTTTTTCAACT-ATTTCAAAATAAAA-TTTTAATTTTTAA
* *
38482115 GAAAAATAGTGTTTTTTTAACAAAAAGG
125 GAAAAATAGTATTTTTTTAAAAAAAAGG
*
38482143 AGAAAGTTTATATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAAAGAAAAGTTTAAAT
1 AGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAAAGAAAAGTTTAAA-
* *
38482208 TTTTTAAAAAAAGTTTTGATTTTTTTTTCAACTACTTCAAAATAAAATTTTAATTTTTAAGAAAA
65 ATTTTAAAAAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAATTTTAATTTTTAAGAAAA
38482273 ATAGTATTTTTTTAAAAAAAAGGG
130 ATAGTATTTTTTTAAAAAAAA-GG
* * * * * *
38482297 AGAAAATTTAGATTTTGAAAAATAAAAATATG-TTTTTTAAGTCATTTTAGAGGAAAGTTTAAAA
1 AGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAAAGAAAAGTTTAAAA
* * * * *
38482361 TTTTAAAATAA-TTTT--TTGATTTTTT-AACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAA
66 TTTTAAAAAAAGTTTTGATT-TTTTTTTCAACTATTTCAAAATAAAATTTTAATTTTTAAGAAAA
* * *
38482422 TTAATGATTTTTTCTAAATAAAA
130 ATAGT-ATTTTTT-TAAAAAAAA
38482445 CTTTGATTTT
Statistics
Matches: 265, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
149 37 0.14
150 13 0.05
151 12 0.05
152 12 0.05
153 125 0.47
154 65 0.25
155 1 0.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (152 bp):
AGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTAAAGAAAAGTTTAAAA
TTTTAAAAAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAATTTTAATTTTTAAGAAAAA
TAGTATTTTTTTAAAAAAAAGG
Found at i:38483015 original size:10 final size:10
Alignment explanation
Indices: 38483000--38483034 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
38482990 CACTTGTATA
38483000 ATTTTTATTT
1 ATTTTTATTT
38483010 ATTTTTATTT
1 ATTTTTATTT
**
38483020 CGTTTTATTT
1 ATTTTTATTT
38483030 ATTTT
1 ATTTT
38483035 CATGCCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (10 bp):
ATTTTTATTT
Done.