Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 146 of 345
Found at i:49365484 original size:30 final size:30
Alignment explanation
Indices: 49365450--49365510 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49365440 TCCTTAACTC
49365450 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
49365480 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
49365510 A
1 A
49365511 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:49373182 original size:40 final size:40
Alignment explanation
Indices: 49373060--49373283 Score: 328
Period size: 40 Copynumber: 5.6 Consensus size: 40
49373050 TATTCGGATG
49373060 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACT
49373101 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACT
* *
49373142 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
49373182 ATATCCGGGTTCAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
49373222 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
49373262 ATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGA-CCCGAAGG
49373284 TTCTTGGGTT
Statistics
Matches: 171, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 90 0.53
41 66 0.39
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:49374984 original size:13 final size:13
Alignment explanation
Indices: 49374966--49374993 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49374956 TATATATATA
49374966 AAAGAAACAAAAG
1 AAAGAAACAAAAG
49374979 AAAGAAACAAAAG
1 AAAGAAACAAAAG
49374992 AA
1 AA
49374994 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:49375799 original size:2 final size:2
Alignment explanation
Indices: 49375794--49375833 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
49375784 TAAATATATA
49375794 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
49375834 CGCGCATGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:49376429 original size:23 final size:21
Alignment explanation
Indices: 49376403--49376452 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
49376393 AGGCACTTTA
49376403 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
*
49376426 TGTGTCGTATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
49376447 TGTGTC
1 TGTGTC
49376453 GTTTTAGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.69
23 8 0.31
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Found at i:49376438 original size:21 final size:21
Alignment explanation
Indices: 49376414--49376477 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
49376404 GTGTCATATT
49376414 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
49376435 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
49376456 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
49376477 T
1 T
49376478 ACTAATCAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:49376660 original size:18 final size:19
Alignment explanation
Indices: 49376639--49376679 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49376629 AATGAAATGA
49376639 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
49376657 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
49376676 GAAA
1 GAAA
49376680 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:49389757 original size:18 final size:18
Alignment explanation
Indices: 49389720--49389784 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
49389710 TGGCCCATTA
* * *
49389720 CAGTAACAATAAACAATG
1 CAGTAACAGTAATCAGTG
* *
49389738 CAGTAGCAGTAATTAGTG
1 CAGTAACAGTAATCAGTG
*
49389756 CAGTAACAGGAATCAGTG
1 CAGTAACAGTAATCAGTG
49389774 CAGTAACAGTA
1 CAGTAACAGTA
49389785 TACAAGTCCT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:49390137 original size:27 final size:27
Alignment explanation
Indices: 49390097--49390202 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
49390087 ATATATACAT
49390097 CACAT-AGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * * * *
49390123 CATAAAAGGGAAAAATAGTTATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
49390150 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
49390177 CACATAAGGGCAAAACAATCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
49390203 TCAATTAGGG
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
26 3 0.05
27 63 0.95
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:49390176 original size:54 final size:53
Alignment explanation
Indices: 49390095--49390205 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
49390085 ATATATATAC
* * * *
49390095 ATCACATAGGGCAAAACAGTCATTTTACCATAAAAGGGAAAAATAGTTATTTT
1 ATCACATAGGGCAAAACAGTCATTTTACCACAAAAGGGAAAAACAATCATTTT
* *
49390148 ATCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTT
1 ATCACAT-AGGGCAAAACAGTCATTTTACCACAAAAGGGAAAAACAATCATTTT
49390202 ATCA
1 ATCA
49390206 ATTAGGGGTC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 7 0.14
54 44 0.86
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (53 bp):
ATCACATAGGGCAAAACAGTCATTTTACCACAAAAGGGAAAAACAATCATTTT
Found at i:49390345 original size:18 final size:17
Alignment explanation
Indices: 49390319--49390352 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49390309 CACAATGCGG
49390319 GCCTATGTGTGCCCACAC
1 GCCTATGTG-GCCCACAC
*
49390337 GCCTGTGTGGCCCACA
1 GCCTATGTGGCCCACA
49390353 TAGCCTAGAA
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:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (17 bp):
GCCTATGTGGCCCACAC
Found at i:49397737 original size:43 final size:43
Alignment explanation
Indices: 49397665--49397748 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
49397655 TCACATGTAA
* *
49397665 CGCATCCATTATGAACTCGAACCAGTCAACGAGCTCGGATGCT
1 CGCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCT
* *
49397708 CGCATCCATAATGAACTTGGACCACTCAACGAGCTCGGATG
1 CGCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATG
49397749 TCATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (43 bp):
CGCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCT
Found at i:49408498 original size:43 final size:43
Alignment explanation
Indices: 49408444--49408535 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
49408434 ATATCGTATA
* **
49408444 ATGCCAATGTCCCAGAC-GTGGTCTTACAT-GTATTCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTAC-TCGCACACATATATCG
* *
49408487 ATGCCACTGTCCTAGACAGGGTCTTACTCGCACACATATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACTCGCACACATATATCG
49408530 ATGCCA
1 ATGCCA
49408536 TGGTCTTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 40 0.95
44 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACTCGCACACATATATCG
Found at i:49422312 original size:48 final size:48
Alignment explanation
Indices: 49422237--49422407 Score: 204
Period size: 48 Copynumber: 3.6 Consensus size: 48
49422227 TATAAAAGTT
49422237 AGTGTAAGACCTAT-T-TGGGACATGGCATCGACTTTGATGTACTAGCC
1 AGTGTAAGACC-ATGTCTGGGACATGGCATCGACTTTGATGTACTAGCC
* * * * ** * * *
49422284 AGTGTAAGACCATGTCTGGGACACGGCATTGGCATCAATATATATAAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATGTA-CT-AGCC
*
49422334 AGTGTAAGACC-TGTCTGGGACATGGCATCGACTTTGATGTGCTAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATGTACTAGCC
49422381 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
49422408 GTCGGCATCT
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
46 2 0.02
47 26 0.26
48 35 0.35
49 23 0.23
50 14 0.14
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATGTACTAGCC
Found at i:49422415 original size:97 final size:97
Alignment explanation
Indices: 49422188--49422416 Score: 318
Period size: 97 Copynumber: 2.4 Consensus size: 97
49422178 TATACAAGCT
* * * * * *
49422188 AGTGTAAGACC-TG-CATAGGACACGGTATCAGCCTCGATATATAAAAGTTAGTGTAAGACCTAT
1 AGTGTAAGACCATGTC-TGGGACACGGCATCGGCATCAATATATAAAAGTCAGTGTAAGACCTAT
*
49422251 TTGGGACATGGCATCGACTTTGATGTACTAGCC
65 CTGGGACATGGCATCGACTTTGATGTACTAGCC
* * *
49422284 AGTGTAAGACCATGTCTGGGACACGGCATTGGCATCAATATATATAAGTCAGTGTAAGACCTGTC
1 AGTGTAAGACCATGTCTGGGACACGGCATCGGCATCAATATATAAAAGTCAGTGTAAGACCTATC
*
49422349 TGGGACATGGCATCGACTTTGATGTGCTAGCC
66 TGGGACATGGCATCGACTTTGATGTACTAGCC
* *
49422381 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCATC
1 AGTGTAAGACCATGTCTGGGACACGGCATCGGCATC
49422417 TTACTCCATG
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
96 11 0.09
97 105 0.90
98 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACACGGCATCGGCATCAATATATAAAAGTCAGTGTAAGACCTATC
TGGGACATGGCATCGACTTTGATGTACTAGCC
Found at i:49440380 original size:18 final size:18
Alignment explanation
Indices: 49440357--49440391 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49440347 CTTGATTTCC
*
49440357 TCATTCAGGCCTTCCTCT
1 TCATTCAGACCTTCCTCT
49440375 TCATTCAGACCTTCCTC
1 TCATTCAGACCTTCCTC
49440392 GAAGCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.40, G:0.09, T:0.37
Consensus pattern (18 bp):
TCATTCAGACCTTCCTCT
Found at i:49444331 original size:40 final size:40
Alignment explanation
Indices: 49444093--49444317 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
49444083 TTGAATGATG
* * * *
49444093 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
49444133 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
49444173 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49444212 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49444252 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49444293 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49444318 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49444339 original size:119 final size:119
Alignment explanation
Indices: 49444093--49444350 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
49444083 TTGAATGATG
* *
49444093 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
49444158 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
49444212 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
49444275 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
49444332 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
49444351 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:49450039 original size:40 final size:39
Alignment explanation
Indices: 49449958--49450174 Score: 223
Period size: 40 Copynumber: 5.6 Consensus size: 39
49449948 TGAATGATGT
* * *
49449958 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
* *
49449998 GGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
49450038 GGGCTAAGCCCGAAGGCATTTGT--GAGTTACTAA--CC
1 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
49450073 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
49450113 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
49450153 GGGCTATGTCCGAAGGCATTTG
1 GGGCTAAGTCCGAAGGCATTTG
49450175 ACGAGTAGCT
Statistics
Matches: 154, Mismatches: 14, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
35 9 0.06
36 14 0.09
37 9 0.06
38 10 0.06
39 28 0.18
40 74 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:49450096 original size:75 final size:77
Alignment explanation
Indices: 49449958--49450174 Score: 262
Period size: 75 Copynumber: 2.8 Consensus size: 77
49449948 TGAATGATGT
* * * *
49449958 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGT-C-GAGTTA-CATAACCGGGCTAAG-TCCGAAGGCATTTGT
*
49450022 GCGAGATACTAATTCC
62 GCGAGATACTAAATCC
*
49450038 GGGCTAAG-CCCGAAGGCATTTGT-GAGTTAC-TAACCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GGGCTAAGTCCCGAAGGCATTTGTCGAGTTACATAACCGGGCTAAGT-CCGAAGGCATTTGTGCG
*
49450100 AGTTACTAAATCC
65 AGATACTAAATCC
* *
49450113 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGT-CGAGTTAC-ATAACCGGGCTAAGTCCGAAGGCATTTG
49450175 ACGAGTAGCT
Statistics
Matches: 120, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
74 1 0.01
75 45 0.38
76 16 0.13
77 4 0.03
78 7 0.06
79 22 0.18
80 25 0.21
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (77 bp):
GGGCTAAGTCCCGAAGGCATTTGTCGAGTTACATAACCGGGCTAAGTCCGAAGGCATTTGTGCGA
GATACTAAATCC
Found at i:49450166 original size:115 final size:115
Alignment explanation
Indices: 49449962--49450174 Score: 288
Period size: 115 Copynumber: 1.9 Consensus size: 115
49449952 TGATGTGGGC
*
49449962 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
*
49450027 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGAGTTACTAACCGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTTGTGAGTTACTAACCGGGT
* * * **
49450077 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * *
49450140 AGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTG
64 AGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTTG
49450175 ACGAGTAGCT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
114 3 0.04
115 75 0.88
116 7 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (115 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTTGTGAGTTACTAACCGGGT
Found at i:49450203 original size:38 final size:40
Alignment explanation
Indices: 49449966--49450206 Score: 209
Period size: 40 Copynumber: 6.2 Consensus size: 40
49449956 GTGGGCTAAG
* * * **
49449966 TCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGA
1 TCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAA-A
* *
49450007 T-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCT-AA
1 TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGTTAAA
* *
49450045 GCCCGAAGGCATTTGT--GAGTTACTA-A-CCGGGTTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAA
* *
49450081 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAA
* * **
49450121 TCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAA
*
49450161 T-CCGAAGGCATTTG-ACGAG-TAGCTATATCC-GGTTAAA
1 TCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAA
*
49450198 TTCCGAAGG
1 TCCCGAAGG
49450207 TACGTGATTG
Statistics
Matches: 171, Mismatches: 19, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
35 6 0.04
36 16 0.09
37 16 0.09
38 28 0.16
39 30 0.18
40 67 0.39
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAA
Found at i:49454125 original size:14 final size:14
Alignment explanation
Indices: 49454102--49454301 Score: 57
Period size: 15 Copynumber: 13.6 Consensus size: 14
49454092 TACTTTACAC
*
49454102 AAAAATAAAAAACAA
1 AAAAACAAAAAA-AA
*
49454117 AAAAAAAAAAAAAA
1 AAAAACAAAAAAAA
49454131 AACAAACATAAAAAAA
1 AA-AAACA-AAAAAAA
*
49454147 ATAAACAAGTAAAAATA
1 AAAAACAA--AAAAA-A
** *
49454164 AAAAA-AGTAAACGTAC
1 AAAAACA--AAA-AAAA
49454180 AAAAAC-AAAAAAA
1 AAAAACAAAAAAAA
* * *
49454193 TAAAACAAACAATA
1 AAAAACAAAAAAAA
* * *
49454207 AAAAACGACAATAAT
1 AAAAAC-AAAAAAAA
*
49454222 AAAAACAAAAAGTAA
1 AAAAACAAAAA-AAA
* * * *
49454237 ATAAATAAATACAA
1 AAAAACAAAAAAAA
* *
49454251 ACAATC--AAAAAA
1 AAAAACAAAAAAAA
49454263 AAAAACAATATAAAAA
1 AAAAACAA-A-AAAAA
* * *
49454279 AAACACTAAAAAAT
1 AAAAACAAAAAAAA
49454293 AAAAACAAA
1 AAAAACAAA
49454302 CTAACGACCC
Statistics
Matches: 130, Mismatches: 39, Indels: 33
0.64 0.19 0.16
Matches are distributed among these distances:
12 8 0.06
13 6 0.05
14 37 0.28
15 40 0.31
16 32 0.25
17 6 0.05
18 1 0.01
ACGTcount: A:0.78, C:0.10, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAAACAAAAAAAA
Found at i:49454129 original size:23 final size:24
Alignment explanation
Indices: 49454102--49454212 Score: 70
Period size: 23 Copynumber: 4.5 Consensus size: 24
49454092 TACTTTACAC
49454102 AAAAATAAAAAACAAAAAAAAA-A
1 AAAAATAAAAAACAAAAAAAAATA
49454125 AAAAA-AAACAAACATAAAAAAAATA
1 AAAAATAAA-AAACA-AAAAAAAATA
* * *
49454150 AACAAGT-AAAAA-TAAAAAAAGT-
1 AA-AAATAAAAAACAAAAAAAAATA
** *
49454172 AAACGTACAAAAACAAAAAAATAAAA
1 AAAAATA-AAAAACAAAAAAA-AATA
49454198 CAAACAATAAAAAAC
1 -AAA-AATAAAAAAC
49454213 GACAATAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
21 3 0.04
22 5 0.07
23 23 0.34
24 14 0.21
25 7 0.10
26 4 0.06
27 9 0.13
28 2 0.03
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.08
Consensus pattern (24 bp):
AAAAATAAAAAACAAAAAAAAATA
Found at i:49454270 original size:16 final size:15
Alignment explanation
Indices: 49454105--49454300 Score: 96
Period size: 16 Copynumber: 12.1 Consensus size: 15
49454095 TTTACACAAA
49454105 AATAAAAAACAAAAA-
1 AATAAAAAA-AAAAAC
49454120 AA-AAAAAAAAAAAC
1 AATAAAAAAAAAAAC
49454134 AAACATAAAAAAAATAAAC
1 --A-ATAAAAAAAA-AAAC
49454153 AAGTAAAAATAAAAAA-
1 AA-TAAAAA-AAAAAAC
* * *
49454169 AGTAAACGTACAAAAAC
1 AATAAA--AAAAAAAAC
*
49454186 AAAAAAATAAAACAAAC
1 AATAAAA-AAAA-AAAC
* * *
49454203 AATAAAAAACGACAAT
1 AATAAAAAA-AAAAAC
49454219 AATAAAAACAAAAAGTA-
1 AATAAAAA-AAAAA--AC
*
49454236 AATAAATAAATACAAAC
1 AATAAA-AAA-AAAAAC
49454253 AATCAAAAAAAAAAAC
1 AAT-AAAAAAAAAAAC
*
49454269 AAT-ATAAAAAAAAC
1 AATAAAAAAAAAAAC
*
49454283 ACTAAAAAATAAAAAC
1 AATAAAAAA-AAAAAC
49454299 AA
1 AA
49454301 ACTAACGACC
Statistics
Matches: 139, Mismatches: 19, Indels: 45
0.68 0.09 0.22
Matches are distributed among these distances:
13 5 0.04
14 18 0.13
15 10 0.07
16 41 0.29
17 41 0.29
18 20 0.14
19 4 0.03
ACGTcount: A:0.78, C:0.10, G:0.03, T:0.10
Consensus pattern (15 bp):
AATAAAAAAAAAAAC
Found at i:49454293 original size:50 final size:46
Alignment explanation
Indices: 49454180--49454302 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 46
49454170 GTAAACGTAC
**
49454180 AAAAACA-AAAAAATAAAACAAACAATAAAAAACGACAATAATAAA
1 AAAAACATAAAAAATAAAACAAACAATAAAAAAAAACAATAATAAA
*
49454225 AACAAAAAGTAAATAAATAAATACAAACAATCAAAAAAAAAAACAAT-ATAAA
1 AA-AAACA-TAAA-AAATAAA-ACAAACAAT---AAAAAAAAACAATAATAAA
49454277 AAAAACACTAAAAAATAAAAACAAAC
1 AAAAACA-TAAAAAAT-AAAACAAAC
49454303 TAACGACCCG
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
45 2 0.03
46 4 0.06
48 3 0.05
49 7 0.11
50 19 0.30
51 11 0.17
52 7 0.11
53 11 0.17
ACGTcount: A:0.76, C:0.11, G:0.02, T:0.11
Consensus pattern (46 bp):
AAAAACATAAAAAATAAAACAAACAATAAAAAAAAACAATAATAAA
Found at i:49454361 original size:14 final size:14
Alignment explanation
Indices: 49454341--49454542 Score: 77
Period size: 14 Copynumber: 13.5 Consensus size: 14
49454331 CTACGGGAAT
*
49454341 ACAAAAACAAAAAA
1 ACAAAAAAAAAAAA
*
49454355 CCAAAAAAAAAAAA
1 ACAAAAAAAAAAAA
*
49454369 ACAAATAATAAAAAA
1 ACAAA-AAAAAAAAA
* * * *
49454384 ACTAATACATATAACA
1 AC-AA-AAAAAAAAAA
*
49454400 ACAAAAAAAAACAGTA
1 ACAAAAAAAAA-A-AA
*
49454416 A-AAAAAAAAAAAT
1 ACAAAAAAAAAAAA
*
49454429 ATAAAAGAAAAAAAA
1 ACAAAA-AAAAAAAA
*
49454444 A-AAAAAAAAGTATAGAGT
1 ACAAAAAAAA--A-A-A-A
* *
49454462 ATAAAAATAAAAAA
1 ACAAAAAAAAAAAA
*
49454476 ACAAATAAAACAATAA
1 ACAAA-AAAA-AAAAA
**
49454492 ACAAAAAAAAACGGGA
1 ACAAAAAAAAA--AAA
49454508 ACAAAAAAAAAAAA
1 ACAAAAAAAAAAAA
* *
49454522 A-AGTAAAAAAATAA
1 ACA-AAAAAAAAAAA
49454536 ACAAAAA
1 ACAAAAA
49454543 CACTATACAA
Statistics
Matches: 142, Mismatches: 27, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
13 6 0.04
14 50 0.35
15 40 0.28
16 35 0.25
17 3 0.02
18 1 0.01
19 7 0.05
ACGTcount: A:0.79, C:0.08, G:0.04, T:0.09
Consensus pattern (14 bp):
ACAAAAAAAAAAAA
Found at i:49454390 original size:15 final size:15
Alignment explanation
Indices: 49454344--49454452 Score: 56
Period size: 15 Copynumber: 7.6 Consensus size: 15
49454334 CGGGAATACA
49454344 AAAACAAAAAACCAAA-
1 AAAA-AAAAAA-CAAAT
49454360 AAAAAAAAAACAAAT
1 AAAAAAAAAACAAAT
* *
49454375 AATAAAAAAACTAAT
1 AAAAAAAAAACAAAT
* * *
49454390 --ACATATAAC-AA-
1 AAAAAAAAAACAAAT
* *
49454401 CAAAAAAAAAC-AGT
1 AAAAAAAAAACAAAT
49454415 AAAAAAAAAA-AAAT
1 AAAAAAAAAACAAAT
49454429 ATAAAAGAAAAA-AAA-
1 A-AAAA-AAAAACAAAT
49454444 AAAAAAAAA
1 AAAAAAAAA
49454453 GTATAGAGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 17
0.72 0.12 0.17
Matches are distributed among these distances:
12 2 0.03
13 16 0.22
14 20 0.27
15 24 0.32
16 12 0.16
ACGTcount: A:0.82, C:0.08, G:0.02, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAACAAAT
Found at i:49454453 original size:18 final size:19
Alignment explanation
Indices: 49454402--49454452 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 19
49454392 ATATAACAAC
*
49454402 AAAAAAAAACAGTAAAAAAA
1 AAAAAAAAAAAG-AAAAAAA
49454422 AAAAAATATAAAAGAAAAAAA
1 AAAAAA-A-AAAAGAAAAAAA
49454443 AAAAAAAAAA
1 AAAAAAAAAA
49454453 GTATAGAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 7 0.25
21 14 0.50
22 4 0.14
ACGTcount: A:0.88, C:0.02, G:0.04, T:0.06
Consensus pattern (19 bp):
AAAAAAAAAAAGAAAAAAA
Found at i:49454467 original size:26 final size:25
Alignment explanation
Indices: 49454415--49454502 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
49454405 AAAAAACAGT
49454415 AAAAAAAAAAAAATATAAAAGAAAA
1 AAAAAAAAAAAAATATAAAAGAAAA
*
49454440 AAAAAAAAAAAAAGTAT-AGAGTATAAA
1 AAAAAAAAAAAAA-TATAAAAG-A-AAA
* * * *
49454467 AATAAAAAAACAA-ATAAAACAATA
1 AAAAAAAAAAAAATATAAAAGAAAA
*
49454491 AACAAAAAAAAA
1 AAAAAAAAAAAA
49454503 CGGGAACAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 12 0.24
25 19 0.37
26 6 0.12
27 14 0.27
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (25 bp):
AAAAAAAAAAAAATATAAAAGAAAA
Found at i:49454497 original size:23 final size:23
Alignment explanation
Indices: 49454470--49454542 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 23
49454460 GTATAAAAAT
*
49454470 AAAAAAACAAATAAAACAATAAAC
1 AAAAAAA-AACTAAAACAATAAAC
***
49454494 AAAAAAAAACGGGAACAA-AAA-
1 AAAAAAAAACTAAAACAATAAAC
* *
49454515 AAAAAAAAAGTAAAAAAATAAAC
1 AAAAAAAAACTAAAACAATAAAC
49454538 AAAAA
1 AAAAA
49454543 CACTATACAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
21 13 0.34
22 6 0.16
23 12 0.32
24 7 0.18
ACGTcount: A:0.81, C:0.08, G:0.05, T:0.05
Consensus pattern (23 bp):
AAAAAAAAACTAAAACAATAAAC
Found at i:49454503 original size:26 final size:24
Alignment explanation
Indices: 49454419--49454502 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 24
49454409 AACAGTAAAA
* *
49454419 AAAAAAAAATATAAAAGAA-AAAA
1 AAAAAAAAAAATAAAACAATAAAA
* **
49454442 AAAAAAAAAAAGTATAGAGTATAAAA
1 AAAAAAAAAAA-TA-AAACAATAAAA
*
49454468 ATAAAAAAACAAATAAAACAATAAAC
1 A-AAAAAAA-AAATAAAACAATAAAA
49454494 AAAAAAAAA
1 AAAAAAAAA
49454503 CGGGAACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 10 0.20
24 3 0.06
25 11 0.22
26 13 0.27
27 9 0.18
28 3 0.06
ACGTcount: A:0.81, C:0.04, G:0.05, T:0.11
Consensus pattern (24 bp):
AAAAAAAAAAATAAAACAATAAAA
Found at i:49454651 original size:19 final size:16
Alignment explanation
Indices: 49454609--49454659 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 16
49454599 TAAAACTATC
49454609 AAACAAAAAAAATAAA
1 AAACAAAAAAAATAAA
*
49454625 AAAAAAAAAAAATACACA
1 AAACAAAAAAAATA-A-A
49454643 TAAACAAAAAAAATAAA
1 -AAACAAAAAAAATAAA
49454660 TAATACGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 13 0.43
17 2 0.07
18 2 0.07
19 13 0.43
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (16 bp):
AAACAAAAAAAATAAA
Found at i:49454702 original size:29 final size:28
Alignment explanation
Indices: 49454614--49454703 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 28
49454604 CTATCAAACA
* * *
49454614 AAAAAAATAAAAAAAAAAAAAAATACAC
1 AAAAAAGTAAAAAAAATAAATAATACAC
* * *
49454642 -ATAAA-CAAAAAAAATAAATAATACGC
1 AAAAAAGTAAAAAAAATAAATAATACAC
49454668 AAAAAAGTAAAAACAAATAACATAA-ACAC
1 AAAAAAGTAAAAA-AAATAA-ATAATACAC
49454697 ATAAAAA
1 A-AAAAA
49454704 ACCCAGTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
26 17 0.35
27 8 0.16
28 5 0.10
29 10 0.20
30 9 0.18
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.11
Consensus pattern (28 bp):
AAAAAAGTAAAAAAAATAAATAATACAC
Found at i:49454740 original size:1 final size:1
Alignment explanation
Indices: 49454736--49454778 Score: 59
Period size: 1 Copynumber: 43.0 Consensus size: 1
49454726 AACGGGGCAG
* * *
49454736 AAAAAAACAAAAAAAAAAAAAAAAAACAAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49454779 TAAATAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.93, C:0.05, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:49454758 original size:19 final size:19
Alignment explanation
Indices: 49454736--49454778 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
49454726 AACGGGGCAG
49454736 AAAAAAACAAAAAAAAAAA
1 AAAAAAACAAAAAAAAAAA
*
49454755 AAAAAAACAAAAAAAATAA
1 AAAAAAACAAAAAAAAAAA
49454774 AAAAA
1 AAAAA
49454779 TAAATAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.93, C:0.05, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAA
Found at i:49454783 original size:12 final size:12
Alignment explanation
Indices: 49454736--49454785 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
49454726 AACGGGGCAG
49454736 AAAAAAACAAAA-
1 AAAAAAA-AAAAT
49454748 AAAAAAAAAAA-
1 AAAAAAAAAAAT
49454759 AAACAAAAAAAAT
1 AAA-AAAAAAAAT
*
49454772 AAAAAAATAAAT
1 AAAAAAAAAAAT
49454784 AA
1 AA
49454786 CAACATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
11 7 0.20
12 25 0.71
13 3 0.09
ACGTcount: A:0.90, C:0.04, G:0.00, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:49454845 original size:16 final size:16
Alignment explanation
Indices: 49454826--49454859 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
49454816 AAACATAACC
49454826 AAACAAAAA-AAACAAA
1 AAACAAAAACAAA-AAA
49454842 AAACAAAAACAAAAAA
1 AAACAAAAACAAAAAA
49454858 AA
1 AA
49454860 TAATTAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAACAAAAACAAAAAA
Found at i:49454849 original size:13 final size:13
Alignment explanation
Indices: 49454814--49454857 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
49454804 GCAACAAAAT
* *
49454814 AAAAACATAACCA
1 AAAAACAAAAACA
49454827 AACAAA-AAAAACA
1 AA-AAACAAAAACA
49454840 AAAAACAAAAACA
1 AAAAACAAAAACA
49454853 AAAAA
1 AAAAA
49454858 AATAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.11
13 21 0.78
14 3 0.11
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (13 bp):
AAAAACAAAAACA
Found at i:49456878 original size:20 final size:20
Alignment explanation
Indices: 49456855--49456908 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
49456845 AGTTTTTCCC
*
49456855 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
49456875 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
49456895 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
49456909 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:49456890 original size:30 final size:30
Alignment explanation
Indices: 49456855--49456928 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
49456845 AGTTTTTCCC
49456855 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
49456885 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
49456915 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
49456929 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:49456918 original size:20 final size:20
Alignment explanation
Indices: 49456855--49456919 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
49456845 AGTTTTTCCC
* * * *
49456855 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
49456875 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
49456894 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
49456915 AGCTC
1 AGCTC
49456920 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:49461269 original size:21 final size:23
Alignment explanation
Indices: 49461224--49461270 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49461214 TCACCTGCAA
* *
49461224 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
49461247 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
49461268 TAA
1 TAA
49461271 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:49469344 original size:18 final size:18
Alignment explanation
Indices: 49469323--49469357 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
49469313 TTTTTCTTTT
49469323 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
49469341 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
49469358 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:49470300 original size:11 final size:10
Alignment explanation
Indices: 49470284--49470322 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
49470274 TTGTCACTTC
49470284 TTTTTTATTT
1 TTTTTTATTT
49470294 ATTTTTTATTT
1 -TTTTTTATTT
49470305 TTTTTTGAATTT
1 TTTTTT--ATTT
49470317 TTTTTT
1 TTTTTT
49470323 CGAATTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 6 0.23
11 10 0.38
12 10 0.38
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:49470318 original size:13 final size:13
Alignment explanation
Indices: 49470301--49470329 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
49470291 TTTATTTTTT
49470301 ATTTTTTTTT-GA
1 ATTTTTTTTTCGA
49470313 ATTTTTTTTTCGA
1 ATTTTTTTTTCGA
49470326 ATTT
1 ATTT
49470330 CTTCTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (13 bp):
ATTTTTTTTTCGA
Found at i:49470766 original size:21 final size:21
Alignment explanation
Indices: 49470740--49470802 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
49470730 TTGGTATTTG
49470740 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
49470761 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
49470782 GGTATTTGGTAC-AAATTGGTA
1 GG-AATTGGTACGAAA-TGGTA
49470803 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:49470771 original size:11 final size:11
Alignment explanation
Indices: 49470751--49470783 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
49470741 GAATTGGTAC
49470751 GAAATGGTATG
1 GAAATGGTATG
*
49470762 GAATTGGTAT-
1 GAAATGGTATG
49470772 GAAATGGTATG
1 GAAATGGTATG
49470783 G
1 G
49470784 TATTTGGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (11 bp):
GAAATGGTATG
Found at i:49473830 original size:20 final size:20
Alignment explanation
Indices: 49473807--49473860 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
49473797 AGTTTTTCCC
*
49473807 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
49473827 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
49473847 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
49473861 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:49473842 original size:30 final size:30
Alignment explanation
Indices: 49473807--49473880 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
49473797 AGTTTTTCCC
49473807 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
49473837 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
49473867 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
49473881 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:49473870 original size:20 final size:20
Alignment explanation
Indices: 49473807--49473871 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
49473797 AGTTTTTCCC
* * * *
49473807 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
49473827 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
49473846 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
49473867 AGCTC
1 AGCTC
49473872 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:49474522 original size:21 final size:20
Alignment explanation
Indices: 49474485--49474524 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49474475 AAGAAATTCG
*
49474485 AAAAAAAAATTAAAAAAATA
1 AAAAAAAAATGAAAAAAATA
49474505 AAAAAAAAAGTGACAAAAAA
1 AAAAAAAAA-TGA-AAAAAA
49474525 AATCGAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAAAAATGAAAAAAATA
Found at i:49475459 original size:18 final size:18
Alignment explanation
Indices: 49475438--49475472 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
49475428 AGAAAAGAAA
49475438 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
49475456 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
49475473 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:49479013 original size:20 final size:20
Alignment explanation
Indices: 49478967--49479013 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
49478957 AGCTCGTTTC
*
49478967 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
49478987 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
49479007 CAGCTCA
1 CAGCTCA
49479014 ATCTTAACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:49480584 original size:9 final size:8
Alignment explanation
Indices: 49480552--49480583 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
49480542 AGAAGTGAGC
49480552 AAAAAAAG
1 AAAAAAAG
49480560 AAAAAAAG
1 AAAAAAAG
49480568 TAAAAAAAG
1 -AAAAAAAG
49480577 AAAAAAA
1 AAAAAAA
49480584 AAGTGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:49481689 original size:48 final size:47
Alignment explanation
Indices: 49481610--49481715 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
49481600 GAGTGTCATG
*
49481610 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
49481658 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
49481706 GAAAAAGAAA
1 GAAAAAGAAA
49481716 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:49483431 original size:20 final size:20
Alignment explanation
Indices: 49483385--49483431 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
49483375 AGCTCGTTTC
*
49483385 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
49483405 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
49483425 CAGCTCA
1 CAGCTCA
49483432 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:49485478 original size:56 final size:55
Alignment explanation
Indices: 49485362--49485479 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
49485352 TGCATGCTTT
* * * *
49485362 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
49485416 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
49485472 CATTAAAT
1 CATTAAAT
49485480 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:49486096 original size:20 final size:20
Alignment explanation
Indices: 49486071--49486125 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
49486061 ACGAGTTAAA
* *
49486071 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
* *
49486091 TTGAGCACGGATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
*
49486111 TTCAGCTCGAATGAG
1 TTGAGCTCGAATGAG
49486126 TTGAACCACA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:49491240 original size:37 final size:37
Alignment explanation
Indices: 49491190--49491268 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
49491180 TTATTACGAA
* * * *
49491190 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
*
49491227 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
49491264 GTCTT
1 GTCTT
49491269 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:49491513 original size:47 final size:47
Alignment explanation
Indices: 49491387--49491674 Score: 474
Period size: 47 Copynumber: 6.1 Consensus size: 47
49491377 CCCTTCGGGA
* * * * * *
49491387 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49491434 C-TGTCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49491479 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49491526 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49491573 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49491622 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49491668 CTTATCA
1 CTTATCA
49491675 TCATTTCATA
Statistics
Matches: 229, Mismatches: 8, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
45 24 0.10
46 47 0.21
47 111 0.48
49 47 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49491625 original size:96 final size:96
Alignment explanation
Indices: 49491387--49491674 Score: 473
Period size: 96 Copynumber: 3.1 Consensus size: 96
49491377 CCCTTCGGGA
* * * * * *
49491387 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCC-TGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49491449 AC-TTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49491479 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49491542 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49491573 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49491638 ACTTTCACATTCATCACAT-GGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49491668 CTTATCA
1 CTTATCA
49491675 TCATTTCATA
Statistics
Matches: 184, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
91 1 0.01
92 40 0.22
93 15 0.08
94 36 0.20
95 18 0.10
96 74 0.40
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49491641 original size:143 final size:138
Alignment explanation
Indices: 49491387--49491674 Score: 468
Period size: 143 Copynumber: 2.1 Consensus size: 138
49491377 CCCTTCGGGA
* * * * *
49491387 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTGTCACATATATACACT
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTATCACATATATACACT
49491452 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-GG
49491517 CCATTAGGC
130 CCATTAGGC
* *
49491526 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCC-TATCAC--ATATATAC
49491591 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
63 AC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49491656 TGGCCATTAGGC
127 TGGCCATTAGGC
49491668 CTTATCA
1 CTTATCA
49491675 TCATTTCATA
Statistics
Matches: 138, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
139 42 0.30
140 5 0.04
142 28 0.20
143 63 0.46
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (138 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTATCACATATATACACT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATGGC
CATTAGGC
Found at i:49495192 original size:40 final size:40
Alignment explanation
Indices: 49495147--49495342 Score: 243
Period size: 40 Copynumber: 4.9 Consensus size: 40
49495137 CGAATACACG
* * * *
49495147 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
49495187 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49495227 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49495267 TCACTAGCATTGAATACTCTTC--GACTTAGCCCGGATACA
1 TCACTAGCA-TGAATGCTCTTCGGGACTTAGCCCGGATACA
49495306 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
49495343 TTAGTAACTC
Statistics
Matches: 135, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
38 11 0.08
39 25 0.19
40 89 0.66
41 10 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:49495367 original size:40 final size:40
Alignment explanation
Indices: 49495317--49495460 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
49495307 CACTAGCATG
49495317 AATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
1 AATGC-CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* *
49495358 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * * * *
49495397 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACC
*
49495437 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49495461 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.39
40 40 0.45
41 12 0.14
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:49495374 original size:79 final size:78
Alignment explanation
Indices: 49495147--49495380 Score: 240
Period size: 79 Copynumber: 2.9 Consensus size: 78
49495137 CGAATACACG
* * * *
49495147 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGA-TATAACACCAGCACGAATGCTCTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTATAAC-TC-GCACGAATGCTCTTC-GG
* * *
49495211 GTTTAGCACGGATATA
63 GCTTAGCCCGGATACA
* * * * * * * *
49495227 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATTGAATACTCTTC-GA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-TATAACTCGCA-CGAATGCTCTTCGGG
49495291 CTTAGCCCGGATACA
64 CTTAGCCCGGATACA
*
49495306 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA-TTA-TAACTCGCACGAATGCTCTTCGGG
49495370 CTTAGCCCGGA
64 CTTAGCCCGGA
49495381 ATTAGTAACT
Statistics
Matches: 124, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
78 4 0.03
79 64 0.52
80 42 0.34
81 10 0.08
82 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (78 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTATAACTCGCACGAATGCTCTTCGGGCT
TAGCCCGGATACA
Found at i:49495805 original size:29 final size:29
Alignment explanation
Indices: 49495766--49495844 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49495756 CTTAATAATC
*
49495766 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49495796 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49495825 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49495845 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49495901 original size:42 final size:43
Alignment explanation
Indices: 49495826--49495966 Score: 238
Period size: 42 Copynumber: 3.4 Consensus size: 43
49495816 TGCATTTCAA
49495826 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
49495869 GCCCGCACACTTAGTG-CAATCTCACAACCGTG-ACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
49495910 GCCTGCACACTTAGTGCCAATCTCACAACCGTGAACAC-T-TT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
49495951 G-CCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
49495967 TGAAAACCAA
Statistics
Matches: 94, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
40 14 0.15
41 27 0.29
42 33 0.35
43 20 0.21
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:49497880 original size:37 final size:36
Alignment explanation
Indices: 49497808--49497885 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
49497798 TTATTACGAA
* * *
49497808 GTCTTACCCGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGACAAAATCCCCACACGAAGTCATCGG
*
49497844 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCC-GACAAAATCCCCACACGAAGTCATCGG
49497881 GTCTT
1 GTCTT
49497886 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 9 0.24
37 28 0.76
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGACAAAATCCCCACACGAAGTCATCGG
Found at i:49498214 original size:47 final size:47
Alignment explanation
Indices: 49498003--49498505 Score: 865
Period size: 47 Copynumber: 10.7 Consensus size: 47
49497993 GCCCTTCGGG
*
49498003 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
49498053 ACTTTCACATTCATCACATC-GCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
49498101 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-C
49498148 AACTTTCACATTCAT--CATCGGCCATTAGGCCTTATCACATATATAC
1 -ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49498194 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49498241 ACTTTCACATTCATCACAT--GCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49498286 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49498333 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49498380 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49498427 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49498474 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
49498506 ATACTATCAT
Statistics
Matches: 441, Mismatches: 4, Indels: 19
0.95 0.01 0.04
Matches are distributed among these distances:
45 59 0.13
46 24 0.05
47 259 0.59
48 68 0.15
49 27 0.06
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:49513836 original size:19 final size:19
Alignment explanation
Indices: 49513812--49513854 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
49513802 TACCTATGGA
49513812 AACATCAAATTCCCACTCT
1 AACATCAAATTCCCACTCT
49513831 AACATCAAATTCCCACTCT
1 AACATCAAATTCCCACTCT
49513850 AACAT
1 AACAT
49513855 GTACTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.26
Consensus pattern (19 bp):
AACATCAAATTCCCACTCT
Found at i:49514611 original size:15 final size:14
Alignment explanation
Indices: 49514591--49514620 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
49514581 AGTCGAGACA
49514591 AAATCGAGAACTCAG
1 AAATCGAGAA-TCAG
49514606 AAATCGAGAATCAG
1 AAATCGAGAATCAG
49514620 A
1 A
49514621 GAATTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (14 bp):
AAATCGAGAATCAG
Found at i:49515161 original size:13 final size:13
Alignment explanation
Indices: 49515143--49515174 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
49515133 TACTACATAT
49515143 AACTTAGTATCCA
1 AACTTAGTATCCA
49515156 AACTTAGTATCCA
1 AACTTAGTATCCA
49515169 AACTTA
1 AACTTA
49515175 CCATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (13 bp):
AACTTAGTATCCA
Found at i:49522974 original size:20 final size:20
Alignment explanation
Indices: 49522932--49522974 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
49522922 AATTCATCCT
* * *
49522932 CATTTATATAATCAATAATC
1 CATTTATAAAACCAATAAGC
*
49522952 CATTTATAAAACCAGTAAGC
1 CATTTATAAAACCAATAAGC
49522972 CAT
1 CAT
49522975 CCATAGCAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (20 bp):
CATTTATAAAACCAATAAGC
Found at i:49524008 original size:8 final size:8
Alignment explanation
Indices: 49523995--49524028 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
49523985 CCTAAAAATC
49523995 CTTCTCTT
1 CTTCTCTT
*
49524003 CTTCTCAT
1 CTTCTCTT
*
49524011 CTTCTCTA
1 CTTCTCTT
49524019 CTTCTCTT
1 CTTCTCTT
49524027 CT
1 CT
49524029 CTGTGCTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (8 bp):
CTTCTCTT
Found at i:49529127 original size:79 final size:82
Alignment explanation
Indices: 49529016--49529200 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
49529006 GCTACTCGTT
* * *
49529016 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
49529079 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
49529096 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
49529159 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
49529176 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49529201 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:49529200 original size:40 final size:40
Alignment explanation
Indices: 49528997--49529200 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
49528987 CGGAATTTAA
** *
49528997 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49529037 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49529077 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49529116 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49529156 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49529196 CCGGA
1 CCGGA
49529201 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49535300 original size:40 final size:40
Alignment explanation
Indices: 49535252--49535341 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
49535242 GCTACTCGTT
** *
49535252 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATA
1 CAAATGCCTTCGGGACATAAACCGGATT-TAGTAACTCACA
* *
49535292 CAATTGCCTTCGGGACTTAAACCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAAACCGGATTTAGTAACTCACA
49535332 CAAATGCCTT
1 CAAATGCCTT
49535342 AAGGCTTAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 41 0.95
41 2 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAAACCGGATTTAGTAACTCACA
Found at i:49547638 original size:29 final size:29
Alignment explanation
Indices: 49547599--49547677 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49547589 CTTAATAATC
*
49547599 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49547629 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49547658 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49547678 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49555733 original size:29 final size:29
Alignment explanation
Indices: 49555694--49555772 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49555684 CTTAATAATC
*
49555694 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49555724 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49555753 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49555773 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49562609 original size:34 final size:34
Alignment explanation
Indices: 49562532--49562611 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
49562522 TATTGAAATG
* ** *
49562532 GGCTATGGCCCACATTGATACTGTTACTGTATTG
1 GGCTAAGGCCCACATTGATACTGCGACTGTATTC
*
49562566 GGCTAAGGCCCACATTGATATTGCGACTG-ATATC
1 GGCTAAGGCCCACATTGATACTGCGACTGTAT-TC
*
49562600 GGCTTAGGCCCA
1 GGCTAAGGCCCA
49562612 GACTGTTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 2 0.05
34 37 0.95
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (34 bp):
GGCTAAGGCCCACATTGATACTGCGACTGTATTC
Found at i:49563225 original size:24 final size:24
Alignment explanation
Indices: 49563183--49563286 Score: 81
Period size: 24 Copynumber: 4.2 Consensus size: 24
49563173 GTTACATCCT
* *
49563183 GAGCTGATGAACAATAAGCTCTATC
1 GAGCTGA-GAATAGTAAGCTCTATC
49563208 GAGCT-AGAAATAGTAAGCTCTGA-C
1 GAGCTGAG-AATAGTAAGCTCT-ATC
*
49563232 AAGCTGAGAATAGTAAGCTCTTAT-
1 GAGCTGAGAATAGTAAGCTC-TATC
*
49563256 GAGCTGATATATCAGTAAGCTC-ATAC
1 GAGCTGAGA-AT-AGTAAGCTCTAT-C
49563282 GAGCT
1 GAGCT
49563287 ATGGTGAGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
23 1 0.02
24 39 0.60
25 11 0.17
26 14 0.22
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (24 bp):
GAGCTGAGAATAGTAAGCTCTATC
Found at i:49564285 original size:17 final size:17
Alignment explanation
Indices: 49564263--49564299 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49564253 GGACATCCAT
49564263 TTAAAATTCTATAGCAA
1 TTAAAATTCTATAGCAA
* *
49564280 TTAAAATTCTTTAGCTA
1 TTAAAATTCTATAGCAA
49564297 TTA
1 TTA
49564300 GAACATCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (17 bp):
TTAAAATTCTATAGCAA
Found at i:49566344 original size:43 final size:41
Alignment explanation
Indices: 49566275--49566368 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 41
49566265 GATGCAGGGG
* * *
49566275 ACACACGGTCGGATTACACCCATGGGGGCAAACCATGTGTC
1 ACACACAGCCGGATCACACCCATGGGGGCAAACCATGTGTC
*
49566316 ACACACAGCCGGATCACACGCCTATGGGGGCAAACCGTGTGTC
1 ACACACAGCCGGATCACAC-CC-ATGGGGGCAAACCATGTGTC
49566359 ACACACAGCC
1 ACACACAGCC
49566369 TAGCCACATG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
41 16 0.34
42 2 0.04
43 29 0.62
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.14
Consensus pattern (41 bp):
ACACACAGCCGGATCACACCCATGGGGGCAAACCATGTGTC
Found at i:49567437 original size:49 final size:49
Alignment explanation
Indices: 49567373--49567482 Score: 177
Period size: 49 Copynumber: 2.3 Consensus size: 49
49567363 CACATAGCAA
*
49567373 GATGCCAATA-CCATATCCCAAATATGGTCTTACATAGGATCACATATC
1 GATGCCAATAGCCATATCCCAAATATAGTCTTACATAGGATCACATATC
* * *
49567421 GATGCAAATAGCCATATCCCAGATATAGTCTTACATGGGATCACATATC
1 GATGCCAATAGCCATATCCCAAATATAGTCTTACATAGGATCACATATC
49567470 GATGCCAATAGCC
1 GATGCCAATAGCC
49567483 TAGCTATGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 9 0.16
49 47 0.84
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (49 bp):
GATGCCAATAGCCATATCCCAAATATAGTCTTACATAGGATCACATATC
Found at i:49567549 original size:42 final size:43
Alignment explanation
Indices: 49567464--49567549 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
49567454 CATGGGATCA
* * * *
49567464 CATATCGATGCCAATAGCCTAGCTATGGTCTTACACGATGTCT
1 CATATCGATGCCAATAGCCCAGATATGGTCTTACACAAAGTCT
* * *
49567507 CATATGGATGCC-ATATCCCAGATATGGTCTTATACAAAGTCT
1 CATATCGATGCCAATAGCCCAGATATGGTCTTACACAAAGTCT
49567549 C
1 C
49567550 TTTTTTTGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
CATATCGATGCCAATAGCCCAGATATGGTCTTACACAAAGTCT
Found at i:49571534 original size:49 final size:49
Alignment explanation
Indices: 49571465--49571777 Score: 185
Period size: 49 Copynumber: 6.6 Consensus size: 49
49571455 ACATCTAAGT
*
49571465 CGATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCG-GTGC
* ** * * *
49571514 CGATGCCATATCCCGGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGTGC
* * **
49571563 CGATGCCATGTCCCAAACAGGTCTTACACTGA----CACATGTC-AAG-
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGTGC
* * * *
49571606 CTATGCCATGTCCCAGACAAGTCTTACACT-AGC-CTGCATATCTCGAG-GC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGA-CTCT-CATATATCG-GTGC
* * * * ** *
49571655 CGATG-CATGTCCCAGACATGTCTCACACT-AGCTCTCATCT-T-AATGT
1 CGATGCCATGTCCCAAACAGGTCTTACACTGA-CTCTCATATATCGGTGC
* * * *
49571701 CGGTGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGC
1 CGATGCCATGTCCCAAACA-GGTCTTACACTGACTCTCATATATCGGT-GC
* *
49571749 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAAACAGGTCTTACACT
49571778 AGCACACATC
Statistics
Matches: 208, Mismatches: 40, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
42 1 0.00
43 27 0.13
44 1 0.00
45 5 0.02
46 15 0.07
47 32 0.15
48 53 0.25
49 74 0.36
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:49571759 original size:94 final size:95
Alignment explanation
Indices: 49571609--49571780 Score: 251
Period size: 94 Copynumber: 1.8 Consensus size: 95
49571599 TGTCAAGCTA
*
49571609 TGCCATGTCCCAGACAAGTCTTACACTAGCCTGCATATCTCGAGGCCGATGCATGTCCCAGACAT
1 TGCCATGTCCCAGACAAGTCTTACACTAGCCTGCATATATCGAGGCCGATGCATGTCCCAGACAT
49571674 GTCTCACACTAGCTCTCATCTTAATGTCGG
66 GTCTCACACTAGCTCTCATCTTAATGTCGG
* * * *
49571704 TGCCCTGTCCCAGACATGGTCTTACACTGGCTCT-CATA-AT-GTGGCCGATGCATGTCCCAGAC
1 TGCCATGTCCCAGACA-AGTCTTACACTAGC-CTGCATATATCGAGGCCGATGCATGTCCCAGAC
*
49571766 ATGTCTTACACTAGC
64 ATGTCTCACACTAGC
49571781 ACACATCCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 35 0.51
95 16 0.23
96 16 0.23
97 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (95 bp):
TGCCATGTCCCAGACAAGTCTTACACTAGCCTGCATATATCGAGGCCGATGCATGTCCCAGACAT
GTCTCACACTAGCTCTCATCTTAATGTCGG
Found at i:49572474 original size:20 final size:18
Alignment explanation
Indices: 49572437--49572487 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
49572427 CTATAGCAAC
49572437 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
49572454 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
49572474 TTACAACTTTACAA
1 TCACAA-TTTACAA
49572488 AATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:49578849 original size:40 final size:40
Alignment explanation
Indices: 49578794--49578942 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 40
49578784 ATTACTTGCT
49578794 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
49578834 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
49578874 CAAATGCCTTCGGGACTTAGCCCGG-AATTAG-ACACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA-ACTCGCA
* *
49578914 CAAATGCCTTCAGGACTTAGCCCGATTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
49578943 CATCCGAATA
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.02
40 95 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:49583903 original size:43 final size:42
Alignment explanation
Indices: 49583836--49583960 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
49583826 ATGTCTCAAA
* * *
49583836 TCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATTT
1 TCGAAGCCATATCCCAGATATGGTCTTATACGAAATCTCA-TG
** *
49583879 TCGAAGCCA-AGTCCCAGACGTGGTCTTACACGAAAT-TGCATG
1 TCGAAGCCATA-TCCCAGATATGGTCTTATACGAAATCT-CATG
*
49583921 TCGATGCCATATCCCAGATATGGTCTTATACGAAATCTCA
1 TCGAAGCCATATCCCAGATATGGTCTTATACGAAATCTCA
49583961 ATAACCCTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
42 35 0.51
43 33 0.49
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
TCGAAGCCATATCCCAGATATGGTCTTATACGAAATCTCATG
Found at i:49589658 original size:39 final size:40
Alignment explanation
Indices: 49589576--49589796 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
49589566 GCTACTCGCT
** *
49589576 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCA
*
49589616 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
49589655 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
* *
49589695 CAAAT-CCTTCGGGACTTATCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
**
49589734 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
49589774 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
49589797 CGTTATCATC
Statistics
Matches: 172, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 72 0.42
40 100 0.58
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
Found at i:49589674 original size:79 final size:77
Alignment explanation
Indices: 49589543--49589796 Score: 334
Period size: 79 Copynumber: 3.2 Consensus size: 77
49589533 AAACCAAGTA
* * *
49589543 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGAT-TAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
* *
49589606 GTAGTTCGCACAAATG
63 GTA-CTAGCACAAATG
49589622 CCTTCGGGACTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CCTTCGGGACTTAGCCCGGATTAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
49589687 AACTAGCACAAAT-
65 -ACTAGCACAAATG
* *
49589700 CCTTCGGGACTTATCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGG-ATTAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
49589765 CCACTAGCACAAATG
64 -TACTAGCACAAATG
49589780 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
49589797 CGTTATCATC
Statistics
Matches: 158, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
78 19 0.12
79 114 0.72
80 25 0.16
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCCGGATTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
CTAGCACAAATG
Found at i:49597661 original size:40 final size:40
Alignment explanation
Indices: 49597625--49597853 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
49597615 GGATATAGCT
*
49597625 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
49597665 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
49597705 ACT-GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
49597744 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
49597784 ACTAGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
49597824 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
49597854 CGTTATCATC
Statistics
Matches: 179, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 36 0.20
40 143 0.80
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:49597730 original size:79 final size:78
Alignment explanation
Indices: 49597599--49597853 Score: 347
Period size: 79 Copynumber: 3.2 Consensus size: 78
49597589 AAACCAAGTA
* * * *
49597599 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
*
49597662 GTAGTTCGCACAAATG
64 GTA-CTCGCACAAATG
49597678 CCTTCGGGACTTAGCCCGGATATAGTAACT-GCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
49597742 TAACTCGCACAAATG
65 T-ACTCGCACAAATG
*
49597757 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCAGAATTA
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
*
49597821 GTCACTAGCACAAATG
64 GT-ACTCGCACAAATG
49597837 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
49597854 CGTTATCATC
Statistics
Matches: 162, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
78 1 0.01
79 82 0.51
80 79 0.49
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
ACTCGCACAAATG
Found at i:49600146 original size:39 final size:40
Alignment explanation
Indices: 49600088--49600191 Score: 174
Period size: 39 Copynumber: 2.6 Consensus size: 40
49600078 GTGGCTAATT
*
49600088 CCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTAT-A
1 CCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
* *
49600127 CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATAA
1 CCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
49600167 CCGAGCTAAGTCCCGAAGGCATTTG
1 CCGAGCTAAGTCCCGAAGGCATTTG
49600192 AGCTAGTGGC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 35 0.59
40 24 0.41
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
Found at i:49600205 original size:40 final size:40
Alignment explanation
Indices: 49600052--49600214 Score: 163
Period size: 40 Copynumber: 4.1 Consensus size: 40
49600042 TGATAATCGG
* * *
49600052 GCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGA
1 GCTAAGTCCCGAAG-GCATTTGAGCAAGTGACTATA-ACCGA
* * * *
49600092 GCTAAGTCCCGAAGGCATTTGTGCAAGTTATTAT-ACCGG
1 GCTAAGTCCCGAAGGCATTTGAGCAAGTGACTATAACCGA
* * *
49600131 GCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATAACCGA
1 GCTAAGTCCCGAAGGCATTTGAGCAAGTGACTATAACCGA
* * *
49600171 GCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCG-
1 GCTAAGTCCCGAAGGCATTTGAGCAAGTGACTATAACCGA
49600210 GCTAA
1 GCTAA
49600215 ACTCCGAAGG
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
39 40 0.38
40 62 0.60
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGAGCAAGTGACTATAACCGA
Found at i:49610048 original size:22 final size:22
Alignment explanation
Indices: 49609979--49610062 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 22
49609969 TATATACTAT
49609979 TTTG-TCTTTTAAACAGTAATTTA
1 TTTGATCTTTTAAACA-T-ATTTA
* **
49610002 TCTGATCTTTTCTACATA---A
1 TTTGATCTTTTAAACATATTTA
49610021 TTTGATCTTTTAAACATATTTA
1 TTTGATCTTTTAAACATATTTA
**
49610043 TTTGATCTTTTCTACATATT
1 TTTGATCTTTTAAACATATT
49610063 AAGTCACTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
19 16 0.33
22 20 0.41
23 4 0.08
24 9 0.18
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.54
Consensus pattern (22 bp):
TTTGATCTTTTAAACATATTTA
Found at i:49610049 original size:41 final size:42
Alignment explanation
Indices: 49609979--49610060 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
49609969 TATATACTAT
49609979 TTTGTCTTTTAAACAGTAATTTATCTGATCTTTTCTACATAA
1 TTTGTCTTTTAAACAGTAATTTATCTGATCTTTTCTACATAA
*
49610021 TTTGATCTTTTAAACA-T-ATTTATTTGATCTTTTCTACATA
1 TTTG-TCTTTTAAACAGTAATTTATCTGATCTTTTCTACATA
49610061 TTAAGTCACT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 22 0.58
42 5 0.13
43 11 0.29
ACGTcount: A:0.28, C:0.13, G:0.06, T:0.52
Consensus pattern (42 bp):
TTTGTCTTTTAAACAGTAATTTATCTGATCTTTTCTACATAA
Found at i:49614680 original size:129 final size:129
Alignment explanation
Indices: 49614536--49614795 Score: 511
Period size: 129 Copynumber: 2.0 Consensus size: 129
49614526 TGGGTAAATT
49614536 ACTTAGTTAACCATTCAATTTTTTAGACTTTTTATTTTGATTACTTAAATTTAAAAAACTTATAA
1 ACTTAGTTAACCATTCAATTTTTTAGACTTTTTATTTTGATTACTTAAATTTAAAAAACTTATAA
*
49614601 TTTAATTATTATTATTAGAAAAACTTTTATTTTAGTTTATCAGTAATCCCACATCTGTCTAGGC
66 TTTAATTATTATTATTAGAAAAACTTTTATTTTAGTCTATCAGTAATCCCACATCTGTCTAGGC
49614665 ACTTAGTTAACCATTCAATTTTTTAGACTTTTTATTTTGATTACTTAAATTTAAAAAACTTATAA
1 ACTTAGTTAACCATTCAATTTTTTAGACTTTTTATTTTGATTACTTAAATTTAAAAAACTTATAA
49614730 TTTAATTATTATTATTAGAAAAACTTTTATTTTAGTCTATCAGTAATCCCACATCTGTCTAGGC
66 TTTAATTATTATTATTAGAAAAACTTTTATTTTAGTCTATCAGTAATCCCACATCTGTCTAGGC
49614794 AC
1 AC
49614796 AGCAAATCCA
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 130 1.00
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (129 bp):
ACTTAGTTAACCATTCAATTTTTTAGACTTTTTATTTTGATTACTTAAATTTAAAAAACTTATAA
TTTAATTATTATTATTAGAAAAACTTTTATTTTAGTCTATCAGTAATCCCACATCTGTCTAGGC
Found at i:49632200 original size:28 final size:28
Alignment explanation
Indices: 49632168--49632223 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
49632158 TAATTACTCG
49632168 TTGTATATCTCTTGTGAGAAAAGCTGAA
1 TTGTATATCTCTTGTGAGAAAAGCTGAA
49632196 TTGTATATCTCTTGTGAGAAAAGCTGAA
1 TTGTATATCTCTTGTGAGAAAAGCTGAA
49632224 AGGAGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (28 bp):
TTGTATATCTCTTGTGAGAAAAGCTGAA
Found at i:49632240 original size:21 final size:21
Alignment explanation
Indices: 49632214--49632253 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
49632204 CTCTTGTGAG
*
49632214 AAAAGCTGAAAGGAGAAAACT
1 AAAAGCTAAAAGGAGAAAACT
49632235 AAAAGCTAAAAGGAGAAAA
1 AAAAGCTAAAAGGAGAAAA
49632254 GTCTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.23, T:0.07
Consensus pattern (21 bp):
AAAAGCTAAAAGGAGAAAACT
Found at i:49632992 original size:37 final size:36
Alignment explanation
Indices: 49632909--49632981 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
49632899 CCTTTTAAAT
49632909 AACAGTCTTTTATCAAAAAAGAAGGAAAAAAAATTA
1 AACAGTCTTTTATCAAAAAAGAAGGAAAAAAAATTA
49632945 AACAGTCTTTTATCAAAAAAGAAGGAAAAAAAATTA
1 AACAGTCTTTTATCAAAAAAGAAGGAAAAAAAATTA
49632981 A
1 A
49632982 CTATCCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (36 bp):
AACAGTCTTTTATCAAAAAAGAAGGAAAAAAAATTA
Found at i:49641937 original size:16 final size:16
Alignment explanation
Indices: 49641912--49641949 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
49641902 GGCGCCTATC
*
49641912 TTAGTTAAAGCTTAGT
1 TTAGTAAAAGCTTAGT
49641928 TTAGTAAAAGCTTAGT
1 TTAGTAAAAGCTTAGT
49641944 TTAGTA
1 TTAGTA
49641950 TTACTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (16 bp):
TTAGTAAAAGCTTAGT
Found at i:49651294 original size:2 final size:2
Alignment explanation
Indices: 49651287--49651323 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
49651277 AGAATTCAGA
*
49651287 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
49651324 ATTTTCAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.03, T:0.51
Consensus pattern (2 bp):
TC
Found at i:49668267 original size:13 final size:13
Alignment explanation
Indices: 49668249--49668280 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
49668239 CACATGACTA
49668249 ATTTCATATAGCC
1 ATTTCATATAGCC
*
49668262 ATTTCATATATCC
1 ATTTCATATAGCC
49668275 ATTTCA
1 ATTTCA
49668281 ATTTACACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (13 bp):
ATTTCATATAGCC
Found at i:49669816 original size:33 final size:33
Alignment explanation
Indices: 49669779--49669845 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
49669769 TTTTGATTTG
49669779 AAATCGAGTTAACTTTAAAGGATGAATTTGTCA
1 AAATCGAGTTAACTTTAAAGGATGAATTTGTCA
*
49669812 AAATCGAGTTAACTTTAAGGGATGAATTTGTCA
1 AAATCGAGTTAACTTTAAAGGATGAATTTGTCA
49669845 A
1 A
49669846 TCTTGATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (33 bp):
AAATCGAGTTAACTTTAAAGGATGAATTTGTCA
Found at i:49671865 original size:23 final size:22
Alignment explanation
Indices: 49671828--49671903 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 22
49671818 TCAAGTCAAG
*
49671828 TTGTCTTCCACAATTTTAGGGAT
1 TTGT-TTCCATAATTTTAGGGAT
* *
49671851 TTGTTTGCC-TAAATTGTAGGCAT
1 TTGTTT-CCAT-AATTTTAGGGAT
49671874 TTGTCTTCCATAATTTTAGGGAT
1 TTGT-TTCCATAATTTTAGGGAT
49671897 TTGTTTC
1 TTGTTTC
49671904 TTTTATCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
22 5 0.11
23 36 0.82
24 3 0.07
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (22 bp):
TTGTTTCCATAATTTTAGGGAT
Found at i:49675845 original size:40 final size:40
Alignment explanation
Indices: 49675780--49675879 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 40
49675770 CATATATATA
* * *
49675780 TATATATGGCACTTAGTGTGTGATTCAAGAA-AGCTTCGGC
1 TATATATGACACTTAGTGTGCGATTC-AGAATAGCTTCAGC
*
49675820 TATATATGACACTTACTGTGCGATTCAGAATAGCTTCAGC
1 TATATATGACACTTAGTGTGCGATTCAGAATAGCTTCAGC
49675860 TATATATGACACTTAGTGTG
1 TATATATGACACTTAGTGTG
49675880 GAGACCGAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 4 0.07
40 50 0.93
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (40 bp):
TATATATGACACTTAGTGTGCGATTCAGAATAGCTTCAGC
Found at i:49675902 original size:40 final size:40
Alignment explanation
Indices: 49675780--49675960 Score: 141
Period size: 40 Copynumber: 4.5 Consensus size: 40
49675770 CATATATATA
* * **
49675780 TATATATGGCACTTAGTGTGTGATTCAAGAA-AGCTTCGGC
1 TATATATGACACTTAGTGTGCGAGAC-AGAATAGCTTCGGC
* ** *
49675820 TATATATGACACTTACTGTGCGATTCAGAATAGCTTCAGC
1 TATATATGACACTTAGTGTGCGAGACAGAATAGCTTCGGC
* *
49675860 TATATATGACACTTAGTGTG-GAGACCGAGATAGTTTCGGC
1 TATATATGACACTTAGTGTGCGAGACAGA-ATAGCTTCGGC
* * * * * * *
49675900 TATGTAAGGCACTTAGTGTGTGAAATTATAATAGCTTCGGC
1 TATATATGACACTTAGTGTGCGAGA-CAGAATAGCTTCGGC
* *
49675941 TATGTATTAGCACTTAGTGT
1 TATATATGA-CACTTAGTGT
49675961 ATGAGATATC
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
39 9 0.08
40 76 0.66
41 19 0.17
42 11 0.10
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (40 bp):
TATATATGACACTTAGTGTGCGAGACAGAATAGCTTCGGC
Found at i:49678866 original size:21 final size:22
Alignment explanation
Indices: 49678840--49678880 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49678830 GAGAGCAAAT
*
49678840 AAATAATATGA-ATTCTTTTAC
1 AAATAAAATGATATTCTTTTAC
*
49678861 AAATAAAATGATATTTTTTT
1 AAATAAAATGATATTCTTTT
49678881 GTGAACATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (22 bp):
AAATAAAATGATATTCTTTTAC
Found at i:49681258 original size:21 final size:22
Alignment explanation
Indices: 49681232--49681278 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
49681222 CTCTGCTCAA
*
49681232 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
49681253 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
49681275 ACTC
1 ACTC
49681279 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:49684911 original size:10 final size:10
Alignment explanation
Indices: 49684896--49684951 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
49684886 AAATTTTTTT
49684896 TAAAAAATTA
1 TAAAAAATTA
49684906 TAAAAAATTA
1 TAAAAAATTA
**
49684916 TTGAAAATTA
1 TAAAAAATTA
*
49684926 TAAAAAATTC
1 TAAAAAATTA
*
49684936 TAAAATATGTA
1 TAAAAAAT-TA
49684947 TAAAA
1 TAAAA
49684952 TATTTTGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
10 32 0.84
11 6 0.16
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:49690775 original size:97 final size:98
Alignment explanation
Indices: 49690662--49690846 Score: 223
Period size: 98 Copynumber: 1.9 Consensus size: 98
49690652 GCATTGAGAC
* * * * * *
49690662 GAGAGCTAGTGTAAGACATGTTTGGGACATG-CATCAGCCTCGAGATAT-ACAAG-CTAGTGTAA
1 GAGAGCCAGTGTAAGACATGTCTAGGACACGACATCAGCCTCAAGATATGA-AAGTC-AGTGCAA
49690724 GACCTGTTTGGGACATAGCATCGACACCGATAGTT
64 GACCTGTTTGGGACATAGCATCGACACCGATAGTT
* * * *
49690759 GAGAGCCAGTGTAAGACCTGTCTAGGACACGACATCGGCCTCAATATATGAAAGTCAGTGCCAGA
1 GAGAGCCAGTGTAAGACATGTCTAGGACACGACATCAGCCTCAAGATATGAAAGTCAGTGCAAGA
* *
49690824 CTTGTTTGGGACATGGCATCGAC
66 CCTGTTTGGGACATAGCATCGAC
49690847 TTTGATGTGC
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
97 26 0.36
98 45 0.62
99 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (98 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACACGACATCAGCCTCAAGATATGAAAGTCAGTGCAAGA
CCTGTTTGGGACATAGCATCGACACCGATAGTT
Found at i:49690779 original size:49 final size:48
Alignment explanation
Indices: 49690577--49690775 Score: 133
Period size: 46 Copynumber: 4.2 Consensus size: 48
49690567 TATGTGTGCT
** * * *
49690577 AGTGTAAGACATGCCTGGGATATGCATCGGC-C--ATATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGACACAGATAGT-TGAGAGCC
* * * ** ** *
49690623 AATGTAAGACATGTATGGGACATGCATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGACACAGATAGTTGAGAGCC
* * ** *
49690669 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATA-TACA-AGCT
1 AGTGTAAGACATGTTTGGGACATGCATC-GACAC-AGATAGTTGAGAGCC
* *
49690717 AGTGTAAGACCTGTTTGGGACATAGCATCGACACCGATAGTTGAGAGCC
1 AGTGTAAGACATGTTTGGGACAT-GCATCGACACAGATAGTTGAGAGCC
49690766 AGTGTAAGAC
1 AGTGTAAGAC
49690776 CTGTCTAGGA
Statistics
Matches: 118, Mismatches: 25, Indels: 17
0.74 0.16 0.11
Matches are distributed among these distances:
46 59 0.50
47 7 0.06
48 32 0.27
49 19 0.16
50 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTTTGGGACATGCATCGACACAGATAGTTGAGAGCC
Found at i:49702949 original size:19 final size:19
Alignment explanation
Indices: 49702927--49702967 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
49702917 AACACCCTTT
*
49702927 ACCTCCTTAAAT-CTCTTAA
1 ACCTCCTCAAATAC-CTTAA
49702946 ACCTCCTCAAATACCTTAA
1 ACCTCCTCAAATACCTTAA
49702965 ACC
1 ACC
49702968 CTAACACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (19 bp):
ACCTCCTCAAATACCTTAA
Found at i:49708758 original size:7 final size:7
Alignment explanation
Indices: 49708743--49708796 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
49708733 AAAGGGACCC
*
49708743 TAAAACT
1 TAAACCT
49708750 TAAACCT
1 TAAACCT
*
49708757 TAAA-AT
1 TAAACCT
49708763 TAAAACCT
1 T-AAACCT
49708771 TAAACCT
1 TAAACCT
*
49708778 TAAACCC
1 TAAACCT
*
49708785 TAAACCC
1 TAAACCT
49708792 TAAAC
1 TAAAC
49708797 TTGAAGATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 2 0.05
7 37 0.90
8 2 0.05
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:49708774 original size:21 final size:20
Alignment explanation
Indices: 49708743--49708781 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
49708733 AAAGGGACCC
49708743 TAAAACTTAAACCTTAAAAT
1 TAAAACTTAAACCTTAAAAT
49708763 TAAAACCTTAAACCTTAAA
1 TAAAA-CTTAAACCTTAAA
49708782 CCCTAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAACTTAAACCTTAAAAT
Found at i:49708789 original size:21 final size:21
Alignment explanation
Indices: 49708739--49708796 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
49708729 AGGGAAAGGG
*
49708739 ACCCTAAAACTTAAACCTTAA
1 ACCCTAAACCTTAAACCTTAA
**
49708760 A-ATTAAAACCTTAAACCTTAA
1 ACCCT-AAACCTTAAACCTTAA
*
49708781 ACCCTAAACCCTAAAC
1 ACCCTAAACCTTAAAC
49708797 TTGAAGATGG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.22
Consensus pattern (21 bp):
ACCCTAAACCTTAAACCTTAA
Found at i:49715778 original size:40 final size:40
Alignment explanation
Indices: 49715675--49715895 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 40
49715665 TATTCGAATG
*** * *
49715675 ATATCCGGGCTAAGTGCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGC-GAGTGACT
* * * *
49715716 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTGACT
* * * *
49715756 ATATCCGGGCCAAAACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTGACT
** * * *
49715796 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTGACT
* * **
49715836 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTGACT
*
49715875 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAAACCCGAAG
49715896 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
38 13 0.09
39 15 0.10
40 94 0.63
41 28 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTGACT
Done.