Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 147 of 255
Found at i:47529554 original size:40 final size:40
Alignment explanation
Indices: 47529463--47529671 Score: 269
Period size: 40 Copynumber: 5.3 Consensus size: 40
47529453 TCCTCGTTCA
* * * * *
47529463 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
47529502 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47529542 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47529582 AATGCC-TCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
47529621 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47529661 AAGGCCTTCGG
1 AATGCCTTCGG
47529672 ATCTTAGTCC
Statistics
Matches: 149, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 69 0.46
40 80 0.54
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:47529657 original size:79 final size:79
Alignment explanation
Indices: 47529463--47529671 Score: 312
Period size: 79 Copynumber: 2.6 Consensus size: 79
47529453 TCCTCGTTCA
* * * * *
47529463 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACCATGCCTTCGGGACGTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACGTAACCCGGATT
47529528 TAACAACTCGCACG
66 TAACAACTCGCACG
* *
47529542 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCC-TCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGGGACGTAACCCGGAT
47529606 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* *
47529621 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGG
47529672 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
79 108 0.92
80 9 0.08
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACGTAACCCGGATT
TAACAACTCGCACG
Found at i:47529707 original size:79 final size:79
Alignment explanation
Indices: 47529463--47529722 Score: 251
Period size: 79 Copynumber: 3.3 Consensus size: 79
47529453 TCCTCGTTCA
* * * * * * * *
47529463 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-CATGCCTTCGGGACGTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCC-TCGGGACTTAACCCGGAT
* *
47529527 TTAACAACTCGCACG
65 ATAACAACTAGCACG
* * *
47529542 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTCGGGACTTAACCCGGATA
*
47529607 TAACAACTCGCACG
66 TAACAACTAGCACG
* * **
47529621 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCC-TCGGGA-CTTAACCCGGA
* *
47529685 TATATTC-GCTTAGCAC-
64 TATA-ACAAC-TAGCACG
*
47529701 AA-GCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAACCCGG
47529723 ACAGCATTCA
Statistics
Matches: 158, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
79 130 0.82
80 22 0.14
81 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACAAAGGCCTCGGGACTTAACCCGGATA
TAACAACTAGCACG
Found at i:47530885 original size:51 final size:55
Alignment explanation
Indices: 47530804--47530913 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 55
47530794 TAGTTTATTG
47530804 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACAT-TTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTGC
47530858 CCATGCTTCTT-TTTT-TT-TTCCATTAACACAACATGTTTCATGACATGTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTGC
47530910 CCAT
1 CCAT
47530914 CATCCTTGTC
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
51 29 0.53
52 11 0.20
53 4 0.07
54 11 0.20
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.45
Consensus pattern (55 bp):
CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTGC
Found at i:47553451 original size:57 final size:57
Alignment explanation
Indices: 47553316--47553452 Score: 193
Period size: 57 Copynumber: 2.4 Consensus size: 57
47553306 ATCGTATAAC
* * * *
47553316 AGGATTACTAGTCCAGGCTAAATTCTTTATATAGCGTAGGTTCAGAAAAGCTCGATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTAGGCTCAGAAAAGCTCGATT
** * *
47553373 AGGATTACCAACCCAGGCTAAATCCTTTATATAACGTATGCTCAGAAGAGCTCGATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTAGGCTCAGAAAAGCTCGATT
*
47553430 AGGATTACCAGTCCAGCCTAAAT
1 AGGATTACCAGTCCAGGCTAAAT
47553453 TCTAATTGTA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTAGGCTCAGAAAAGCTCGATT
Found at i:47553470 original size:57 final size:57
Alignment explanation
Indices: 47553357--47553470 Score: 140
Period size: 57 Copynumber: 2.0 Consensus size: 57
47553347 TAGCGTAGGT
* * *
47553357 TCAGAAAAGCTCGATTAGGATTACCAACCCAGGCTAAATCCTTTATATAACGTATGC
1 TCAGAAAAGCTCGATTAGGATTACCAACCCAGCCTAAATCCTATATATAACATATGC
* ** * *
47553414 TCAGAAGAGCTCGATTAGGATTACCAGTCCAGCCTAAATTCTA-ATTGTAACATATGC
1 TCAGAAAAGCTCGATTAGGATTACCAACCCAGCCTAAATCCTATA-TATAACATATGC
47553471 ACAAGAGATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 1 0.02
57 47 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (57 bp):
TCAGAAAAGCTCGATTAGGATTACCAACCCAGCCTAAATCCTATATATAACATATGC
Found at i:47556743 original size:26 final size:27
Alignment explanation
Indices: 47556707--47556760 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
47556697 GTTGCCATGG
47556707 TATCTTTCAACCATGGTCTTATTCATT
1 TATCTTTCAACCATGGTCTTATTCATT
47556734 TATC-TTCAACCATGGTCTTATTCATT
1 TATCTTTCAACCATGGTCTTATTCATT
47556760 T
1 T
47556761 CATGTCACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (27 bp):
TATCTTTCAACCATGGTCTTATTCATT
Found at i:47556759 original size:72 final size:72
Alignment explanation
Indices: 47556666--47556799 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
47556656 CATAGTGTCT
* *
47556666 TTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTCAACCATGGTCTTACTCA-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATT
47556730 CATTTATC
65 CATTTATC
* *
47556738 TTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGTTCTTA
1 TTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
47556800 CACATTTCAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
71 4 0.07
72 53 0.93
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (72 bp):
TTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTC
ATTTATC
Found at i:47556790 original size:46 final size:46
Alignment explanation
Indices: 47556734--47556901 Score: 275
Period size: 46 Copynumber: 3.7 Consensus size: 46
47556724 CTTATTCATT
** * *
47556734 TATC-TTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
*
47556779 TATCTTTCAACCATGTTCTTACACATTTCATATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
*
47556825 TATCTTTCAACCATGGTCTTACAAATTTCATATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
47556871 TATCTTTCAACCATGGTCTTACACATTTCAT
1 TATCTTTCAACCATGGTCTTACACATTTCAT
47556902 TTCAGAAAGC
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.04
46 110 0.96
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
Found at i:47567670 original size:13 final size:13
Alignment explanation
Indices: 47567652--47567676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47567642 CGTGTACGAC
47567652 ACACGGCCATGTT
1 ACACGGCCATGTT
47567665 ACACGGCCATGT
1 ACACGGCCATGT
47567677 GTCCCCTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (13 bp):
ACACGGCCATGTT
Found at i:47586224 original size:39 final size:40
Alignment explanation
Indices: 47586107--47586289 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
47586097 GCTACTCGTT
*
47586107 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
47586147 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
47586187 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47586226 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
47586267 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
47586290 AACATCATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47586251 original size:79 final size:80
Alignment explanation
Indices: 47586109--47586289 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
47586099 TACTCGTTCA
* *
47586109 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
47586174 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
47586189 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
47586251 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
47586268 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
47586290 AACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 58 0.67
80 25 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:47588541 original size:35 final size:36
Alignment explanation
Indices: 47588497--47588624 Score: 140
Period size: 35 Copynumber: 3.5 Consensus size: 36
47588487 TCCTCATTGA
*
47588497 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTTTCAACTCAGTATGGGAT
*
47588532 AATGCCATACCTACATTTCTT-AACTCAGTATGGATTTGAT
1 AATACCATACCTACATTT-TTCAACTCAGTATGG----GAT
47588572 AATACCATACCTACA--TTTCAGAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTTTCA-A-CTCAGTATGGGAT
47588607 AATACCATACCTACATTT
1 AATACCATACCTACATTT
47588625 CACACTTTGC
Statistics
Matches: 79, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
35 46 0.58
36 2 0.03
37 3 0.04
38 2 0.03
39 4 0.05
40 22 0.28
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (36 bp):
AATACCATACCTACATTTTTCAACTCAGTATGGGAT
Found at i:47593445 original size:38 final size:38
Alignment explanation
Indices: 47593403--47593478 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
47593393 TTCATCCTTT
47593403 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
*
47593441 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
47593479 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
Found at i:47594759 original size:40 final size:40
Alignment explanation
Indices: 47594665--47594809 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
47594655 TACTCGAATG
*
47594665 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
47594706 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
47594746 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
47594786 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
47594810 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:47606240 original size:40 final size:40
Alignment explanation
Indices: 47606185--47606420 Score: 322
Period size: 40 Copynumber: 6.0 Consensus size: 40
47606175 GATGATAACG
* *
47606185 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
47606225 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
47606265 GGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47606305 GGGCT-AGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
47606344 GGG--AAGTCCCAAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
47606382 GGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATATC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
47606421 TGGTTAAATT
Statistics
Matches: 180, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
38 34 0.19
39 38 0.21
40 107 0.59
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:47606399 original size:117 final size:119
Alignment explanation
Indices: 47606185--47606420 Score: 320
Period size: 117 Copynumber: 2.0 Consensus size: 119
47606175 GATGATAACG
* *
47606185 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC-AAGTCCCAAAGGCATTTGTG
* ** *
47606250 CTAGTTACTAATTCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
65 CGAACTACTAATTCCGGGCTAAGCCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
*
47606305 GGGCT-AGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGG-AAGTCCCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCAAGTCCCAAAGGCATTTGTG
* *
47606367 CGAACTACT-ATATCCGGGCTAAGTCCTGAAGGCATTTGAGCGAGTAGCTATATC
65 CGAACTACTAAT-TCCGGGCTAAGCCCCGAAGGCATTTGAGCGAGTAGCTATATC
47606421 TGGTTAAATT
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
116 4 0.04
117 61 0.59
118 2 0.02
119 32 0.31
120 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCAAGTCCCAAAGGCATTTGTGC
GAACTACTAATTCCGGGCTAAGCCCCGAAGGCATTTGAGCGAGTAGCTATATCC
Found at i:47620114 original size:22 final size:22
Alignment explanation
Indices: 47620089--47620132 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47620079 GTAGTTCAAG
47620089 GAAGCATTGAGCGGTCAAATAT
1 GAAGCATTGAGCGGTCAAATAT
47620111 GAAGCATTGAGCGGTCAAATAT
1 GAAGCATTGAGCGGTCAAATAT
47620133 TAGCACCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (22 bp):
GAAGCATTGAGCGGTCAAATAT
Found at i:47624224 original size:29 final size:29
Alignment explanation
Indices: 47624185--47624262 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
47624175 CTTAATAATC
*
47624185 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
47624215 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
47624244 AGCCCGCACACTTAGTGCC
1 AACCCGCACACTTAGTGCC
47624263 GAAAACCAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:47626629 original size:69 final size:69
Alignment explanation
Indices: 47626546--47626681 Score: 272
Period size: 69 Copynumber: 2.0 Consensus size: 69
47626536 ATGCCATTGA
47626546 ACTTGTGAATGAATAGATGTAAATGAGGGTGGAAAATAGCTTGGTAAATAGCCTTTATTTTGTCC
1 ACTTGTGAATGAATAGATGTAAATGAGGGTGGAAAATAGCTTGGTAAATAGCCTTTATTTTGTCC
47626611 ACCC
66 ACCC
47626615 ACTTGTGAATGAATAGATGTAAATGAGGGTGGAAAATAGCTTGGTAAATAGCCTTTATTTTGTCC
1 ACTTGTGAATGAATAGATGTAAATGAGGGTGGAAAATAGCTTGGTAAATAGCCTTTATTTTGTCC
47626680 AC
66 AC
47626682 ACGGGTAGAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (69 bp):
ACTTGTGAATGAATAGATGTAAATGAGGGTGGAAAATAGCTTGGTAAATAGCCTTTATTTTGTCC
ACCC
Found at i:47636959 original size:29 final size:29
Alignment explanation
Indices: 47636888--47636960 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
47636878 GTTGTAAGAT
* * *
47636888 TGGCACTAAGTGTACGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATACA
*
47636917 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TACA
47636946 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47636961 ATGGTTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATACA
Found at i:47638946 original size:27 final size:27
Alignment explanation
Indices: 47638916--47639093 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
47638906 ATATTGAGCC
* *
47638916 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
47638943 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47638970 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
47638998 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
47639025 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
47639052 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
47639079 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47639094 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47639055 original size:82 final size:81
Alignment explanation
Indices: 47638937--47639092 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
47638927 TGCTATATAA
* * *
47638937 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
47639002 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47639019 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
47639083 CACTTAGTGC
65 CACTTAGTGC
47639093 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47654561 original size:40 final size:40
Alignment explanation
Indices: 47654463--47654765 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
47654453 TCCTCGTTCA
* * * * *
47654463 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
47654502 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47654542 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47654582 AATGCCTTCGGGACTTAACCCAGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
47654622 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
47654662 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
47654702 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
47654742 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47654766 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:47657473 original size:15 final size:15
Alignment explanation
Indices: 47657445--47657480 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
47657435 TAATCTTTAT
47657445 AAAACTTTGTTTTTG
1 AAAACTTTGTTTTTG
47657460 AAAATCTTTGTTTTTG
1 AAAA-CTTTGTTTTTG
*
47657476 TAAAC
1 AAAAC
47657481 CCATTCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (15 bp):
AAAACTTTGTTTTTG
Found at i:47658479 original size:27 final size:26
Alignment explanation
Indices: 47658439--47658550 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
47658429 AGCATGGCTG
* * * *
47658439 CCAGAACAAATAATGTGACGGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
47658465 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
47658493 CCAGAACAGATATATGTGGCAGTGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
47658520 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
47658547 CCAG
1 CCAG
47658551 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:47667369 original size:27 final size:28
Alignment explanation
Indices: 47667339--47667395 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
47667329 ATTTTTGATG
47667339 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
47667366 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
47667395 A
1 A
47667396 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:47674283 original size:46 final size:46
Alignment explanation
Indices: 47674216--47674387 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
47674206 AACCCGCCCC
47674216 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCA
*
47674262 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
47674310 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
47674355 TAGGTGAACTTGAACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47674388 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 56 0.53
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:47674333 original size:93 final size:93
Alignment explanation
Indices: 47674221--47674391 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47674211 GCCCCTAAGT
* * *
47674221 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
47674285 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
47674314 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTTGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
47674379 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47674392 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47674845 original size:30 final size:30
Alignment explanation
Indices: 47674811--47674870 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47674801 ATTTAATATG
47674811 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
47674841 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
47674871 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:47677065 original size:36 final size:36
Alignment explanation
Indices: 47677025--47677097 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
47677015 ATGAATTTCA
47677025 AATGTCTTTTCTCATCACATTCACTTAATCAAACAT
1 AATGTCTTTTCTCATCACATTCACTTAATCAAACAT
47677061 AATGTCTTTTCTCATCACATTCACTTAATCAAACAT
1 AATGTCTTTTCTCATCACATTCACTTAATCAAACAT
47677097 A
1 A
47677098 TCAAACACAT
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:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (36 bp):
AATGTCTTTTCTCATCACATTCACTTAATCAAACAT
Found at i:47677830 original size:20 final size:18
Alignment explanation
Indices: 47677788--47677831 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
47677778 AATCAGGCCA
*
47677788 TAAAAATTTCGTTCAAAT
1 TAAAAATTTCATTCAAAT
*
47677806 TAAAAATATTCATTCATAT
1 TAAAAAT-TTCATTCAAAT
*
47677825 TTAAAAT
1 TAAAAAT
47677832 GTCCCTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAAATTTCATTCAAAT
Found at i:47704001 original size:23 final size:22
Alignment explanation
Indices: 47703970--47704015 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
47703960 CACAATCCAA
47703970 ATTGCTACAGTCCAGGGACTTGT
1 ATTGCTACA-TCCAGGGACTTGT
* * *
47703993 ATTGGTACATCTATGGACTTGT
1 ATTGCTACATCCAGGGACTTGT
47704015 A
1 A
47704016 CCACAACAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (22 bp):
ATTGCTACATCCAGGGACTTGT
Found at i:47704910 original size:13 final size:13
Alignment explanation
Indices: 47704892--47704919 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47704882 TATGTTAAAT
47704892 AATTTTATATGAA
1 AATTTTATATGAA
47704905 AATTTTATATGAA
1 AATTTTATATGAA
47704918 AA
1 AA
47704920 GCTGCAGTAA
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:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
AATTTTATATGAA
Found at i:47727838 original size:27 final size:27
Alignment explanation
Indices: 47727808--47727859 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
47727798 ACACTAGTAG
*
47727808 AGGGGATATCAGAGGCGACACCAGTGA
1 AGGGGATATCAAAGGCGACACCAGTGA
* * *
47727835 AGGGGCTGTCAAAGGCGGCACCAGT
1 AGGGGATATCAAAGGCGACACCAGT
47727860 TGTGCCTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.21, G:0.38, T:0.12
Consensus pattern (27 bp):
AGGGGATATCAAAGGCGACACCAGTGA
Found at i:47727973 original size:5 final size:5
Alignment explanation
Indices: 47727956--47728007 Score: 56
Period size: 5 Copynumber: 10.8 Consensus size: 5
47727946 ATTACAGAAC
* *
47727956 AAGAG AGAGAG AAGAG AAGAG AAGA- AAGA- AAGAA AAGAG AAGA- AAGAA
1 AAGAG A-AGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG
47728004 AAGA
1 AAGA
47728008 AAATGTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
4 12 0.28
5 26 0.60
6 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:47727993 original size:18 final size:19
Alignment explanation
Indices: 47727967--47728010 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
47727957 AGAGAGAGAG
*
47727967 AAGAGAAGAGAAGAAAG-A
1 AAGAAAAGAGAAGAAAGAA
47727985 AAGAAAAGAGAAGAAAGAA
1 AAGAAAAGAGAAGAAAGAA
47728004 AAGAAAA
1 AAGAAAA
47728011 TGTATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAGAAGAAAGAA
Found at i:47728051 original size:41 final size:41
Alignment explanation
Indices: 47727995--47728078 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
47727985 AAGAAAAGAG
*
47727995 AAGAAAGAAAAGAAAATGTATTTTTCTTATTGTTATTTTCA
1 AAGAAAGAAAAGAAAATGTAATTTTCTTATTGTTATTTTCA
*
47728036 AAGAAAGAAAAGAAAATGTAATTTTCTTATTGTTTTTTTCA
1 AAGAAAGAAAAGAAAATGTAATTTTCTTATTGTTATTTTCA
47728077 AA
1 AA
47728079 TATAATAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (41 bp):
AAGAAAGAAAAGAAAATGTAATTTTCTTATTGTTATTTTCA
Found at i:47728151 original size:23 final size:23
Alignment explanation
Indices: 47728120--47728164 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47728110 GTTAGTATTA
*
47728120 TATAGTTTGTTTAGTGTTATTTT
1 TATAGTTTGTTTAGTGTGATTTT
* *
47728143 TATATTTTGTTTATTGTGATTT
1 TATAGTTTGTTTAGTGTGATTT
47728165 GTTAGTAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.16, T:0.67
Consensus pattern (23 bp):
TATAGTTTGTTTAGTGTGATTTT
Found at i:47728248 original size:27 final size:27
Alignment explanation
Indices: 47728218--47728269 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
47728208 AAAATTTTTT
*
47728218 AATATATTTGATATTGTTAGAAATGAC
1 AATAAATTTGATATTGTTAGAAATGAC
47728245 AATAAATTTGATATTGTTAGAAATG
1 AATAAATTTGATATTGTTAGAAATG
47728270 GACTATTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (27 bp):
AATAAATTTGATATTGTTAGAAATGAC
Found at i:47733883 original size:22 final size:22
Alignment explanation
Indices: 47733855--47733901 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
47733845 TCATATATAT
47733855 ATATTACCTTAACCTTAATAAA
1 ATATTACCTTAACCTTAATAAA
47733877 ATATTACCTTAACCTTAATAAA
1 ATATTACCTTAACCTTAATAAA
47733899 ATA
1 ATA
47733902 ACTAAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTACCTTAACCTTAATAAA
Found at i:47735454 original size:43 final size:42
Alignment explanation
Indices: 47735407--47735516 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 42
47735397 TCCTAGACGT
* *
47735407 GGTCTTACATGTAATCACATATCGATG-CCACTATCCCAGATAG
1 GGTCTTACACG-AATCACATATCGATGTCCA-TATCCCAGACAG
* * * * *
47735450 GGTCTTAGACGAATCACGTATACGATGTCGATGTCCCAGACAT
1 GGTCTTACACGAATCACATAT-CGATGTCCATATCCCAGACAG
47735493 GGTCTTACACGCAATCACATATCG
1 GGTCTTACACG-AATCACATATCG
47735517 TAAATCCTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
42 9 0.16
43 35 0.64
44 11 0.20
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAATCACATATCGATGTCCATATCCCAGACAG
Found at i:47738891 original size:37 final size:37
Alignment explanation
Indices: 47738848--47738959 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
47738838 GCTCAGACGA
* * *
47738848 AATCTCCACATGAAGTTATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
47738885 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
*
47738922 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
47738959 A
1 A
47738960 TTTCCAAGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
Found at i:47739222 original size:47 final size:47
Alignment explanation
Indices: 47739163--47739604 Score: 587
Period size: 47 Copynumber: 9.1 Consensus size: 47
47739153 ACACGTTTCG
* * * *
47739163 CATTAGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47739210 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47739257 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
47739304 CATTGGCCATTCGGCCTTATCACGCATATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C------ACATACGCATGTTCACATTCATCA
47739359 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
47739406 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
47739457 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
47739504 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
47739555 CATTGGCCATTCGGCCTTATCACACATACGCATCTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47739602 CAT
1 CAT
47739605 AAAATCCTAA
Statistics
Matches: 351, Mismatches: 28, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
47 220 0.63
49 1 0.00
51 87 0.25
53 1 0.00
55 42 0.12
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:47739367 original size:149 final size:141
Alignment explanation
Indices: 47739163--47739604 Score: 605
Period size: 149 Copynumber: 3.0 Consensus size: 141
47739153 ACACGTTTCG
* *
47739163 CATTAGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
47739228 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
47739293 CACATTCATCA
131 CACATTCATCA
* *
47739304 CATTGGCCATTCGGCCTTATCACGCATATATATATATACAGGTTCACATTCATCACATTGGCCAT
1 CATTGGCCATTCGGCCTTATCA--C------ATATATGCATGTTCACATTCATCACATTGGCCAT
47739369 TCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
58 TCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
***
47739434 TATATACGGGTTCACATTCATCA
123 CGCAT----GTTCACATTCATCA
* * *
47739457 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
***
47739522 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACACATACGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
* *
47739587 TCTTCACATCCATCA
127 TGTTCACATTCATCA
47739602 CAT
1 CAT
47739605 AAAATCCTAA
Statistics
Matches: 265, Mismatches: 20, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
141 20 0.08
143 1 0.00
145 65 0.25
149 143 0.54
151 1 0.00
153 35 0.13
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (141 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATTCATCA
Found at i:47739502 original size:98 final size:98
Alignment explanation
Indices: 47739163--47739604 Score: 712
Period size: 98 Copynumber: 4.5 Consensus size: 98
47739153 ACACGTTTCG
* * * *
47739163 CATTAGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
***
47739228 ATCACACATACGCAT----GTTCACATTCATCA
66 ATCACACATATATATACGGGTTCACATTCATCA
47739257 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
47739322 ATCACGCATATATATATATACAGGTTCACATTCATCA
66 ATCA--C--ACATATATATACGGGTTCACATTCATCA
47739359 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
47739424 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATATATACGGGTTCACATTCATCA
*
47739457 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
47739522 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATATATACGGGTTCACATTCATCA
* *
47739555 CATTGGCCATTCGGCCTTATCACACATACGCATCTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
47739605 AAAATCCTAA
Statistics
Matches: 326, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
94 65 0.20
96 1 0.00
98 176 0.54
100 1 0.00
102 83 0.25
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATATATACGGGTTCACATTCATCA
Found at i:47746060 original size:33 final size:33
Alignment explanation
Indices: 47746023--47746174 Score: 112
Period size: 32 Copynumber: 4.7 Consensus size: 33
47746013 TACCCAAGTG
* *
47746023 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
** * *
47746056 GTAC-ACTTGGTAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* * * *
47746088 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGTAAGGTACACTTTGTGT
* * * ***
47746121 GTACCACTTGAAAAGG-AATGTACACCTAAAGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* *
47746153 GTACAACTGGAAAAGGAAAGGT
1 GTACAACTTGAAAAGGTAAGGT
47746175 CCATCGAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
32 52 0.54
33 43 0.45
34 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:47747158 original size:13 final size:14
Alignment explanation
Indices: 47747128--47747160 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
47747118 GCCATATGGG
47747128 CGTGTGCCCTGGAT
1 CGTGTGCCCTGGAT
47747142 -GTGTGCCCTGG-T
1 CGTGTGCCCTGGAT
47747154 CGTGTGC
1 CGTGTGC
47747161 TCCTTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.06
13 17 0.94
ACGTcount: A:0.03, C:0.27, G:0.39, T:0.30
Consensus pattern (14 bp):
CGTGTGCCCTGGAT
Found at i:47749250 original size:40 final size:40
Alignment explanation
Indices: 47749191--47749435 Score: 352
Period size: 40 Copynumber: 6.2 Consensus size: 40
47749181 AAACCAAGTA
* * *
47749191 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
47749230 CCATCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47749270 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47749310 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47749350 CCTTCGGGACTTAGCCCGGATCTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47749390 CCTTCGGGACTTAGCCCGGGAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACAAATG
47749430 CCTTCG
1 CCTTCG
47749436 TTATCATTCG
Statistics
Matches: 187, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.06
40 171 0.91
41 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47751530 original size:21 final size:21
Alignment explanation
Indices: 47751504--47751550 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
47751494 TGATGATCTA
47751504 GAAAAAGCTGAATTCTGGCTG
1 GAAAAAGCTGAATTCTGGCTG
47751525 GAAAAAGCTGAATTCTGGCTG
1 GAAAAAGCTGAATTCTGGCTG
47751546 GAAAA
1 GAAAA
47751551 TACTACTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (21 bp):
GAAAAAGCTGAATTCTGGCTG
Found at i:47758740 original size:12 final size:12
Alignment explanation
Indices: 47758723--47758754 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
47758713 TAGACACACG
47758723 CCCGTGTGTCTA
1 CCCGTGTGTCTA
47758735 CCCGTGTGTCTA
1 CCCGTGTGTCTA
47758747 CCCGTGTG
1 CCCGTGTG
47758755 GACAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.34, G:0.28, T:0.31
Consensus pattern (12 bp):
CCCGTGTGTCTA
Found at i:47761200 original size:37 final size:37
Alignment explanation
Indices: 47761147--47761249 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
47761137 CGGATAGTCC
*
47761147 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
47761184 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
47761221 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
47761250 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:47761460 original size:60 final size:54
Alignment explanation
Indices: 47761381--47761730 Score: 322
Period size: 48 Copynumber: 7.0 Consensus size: 54
47761371 TCGGCCACAG
* * *
47761381 CATACACACATCTCCTACATATTTCACACTAGCCGAATCACTAGCCATTCGGCTTTACCA
1 CATATACATATCTCATACATATTTCACACTAG-C--AT---TAGCCATTCGGCTTTACCA
47761441 CATATACATATCTCATACATATTT----C--GCATTAGCCATTCGGCTTTACCA
1 CATATACATATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCA
*
47761489 CATATACATATCTCATACATATTTCACACTAG---T---CATTCAGCTTTACCA
1 CATATACATATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCA
* *
47761537 CGTATACATATCTCATACATAGTT--CAC-A-C--TAGCCATTCGGCTTTACCA
1 CATATACATATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCA
*
47761585 CATATACATATCTCATACATATTT----C-A-CATTAGCCACTCGGCTTTACCA
1 CATATACATATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCA
*
47761633 CATATACATATCTCATACATATTT----C-A-CATTAGCCATTCCGCTTTACCA
1 CATATACATATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCA
47761681 CATATACATATCTCATACATATTT----C-A-CATTAGCCATTCGGCTTTACCA
1 CATATACATATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCA
47761729 CA
1 CA
47761731 CACATATATA
Statistics
Matches: 265, Mismatches: 13, Indels: 36
0.84 0.04 0.11
Matches are distributed among these distances:
45 2 0.01
46 6 0.02
48 228 0.86
51 3 0.01
52 1 0.00
53 1 0.00
54 2 0.01
56 1 0.00
60 21 0.08
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (54 bp):
CATATACATATCTCATACATATTTCACACTAGCATTAGCCATTCGGCTTTACCA
Found at i:47761476 original size:48 final size:48
Alignment explanation
Indices: 47761422--47761730 Score: 537
Period size: 48 Copynumber: 6.4 Consensus size: 48
47761412 GCCGAATCAC
*
47761422 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47761470 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * * * *
47761518 TAGTCATTCAGCTTTACCACGTATACATATCTCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
47761566 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47761614 TAGCCACTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
47761662 TAGCCATTCCGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
47761710 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
47761731 CACATATATA
Statistics
Matches: 246, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 246 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:47767767 original size:47 final size:45
Alignment explanation
Indices: 47767590--47767806 Score: 240
Period size: 46 Copynumber: 4.8 Consensus size: 45
47767580 ATGTAACCGT
* * * *
47767590 GCCGATGCATGTCCTAGACATGTCATACACTAGC-A-CATCTTGTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TGTG
* * * *
47767634 GCCGACGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCT-GTG
* *
47767680 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCAT-CTGTG
* * **
47767726 GCTGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATAATACG
1 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTGTG
*
47767773 ACCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
47767807 ACACAAATCT
Statistics
Matches: 147, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
44 29 0.20
45 2 0.01
46 74 0.50
47 42 0.29
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTG
Found at i:47767783 original size:93 final size:90
Alignment explanation
Indices: 47767590--47767811 Score: 261
Period size: 93 Copynumber: 2.4 Consensus size: 90
47767580 ATGTAACCGT
* * *
47767590 GCCGATGCATGTCCTAGACATGTCATACACTAG-CACATCTTGTAGCCGACGCATGTCCCAGACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCCACATCTTGTAGCCGACGCATGTCCCAGACA
*
47767654 TGTCTGACACTGGCTAACATCTCGA
66 TGTCTGACACTGGCTAACATATCGA
* * * * *
47767679 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAC-TGTGGCTGATGCATGTCCCAG
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGC-CACAT-CTTGTAGCCGACGCATGTCCCAG
* *
47767743 ACATGGTCTTACACTGGCTATCATAATACGA
63 ACAT-GTCTGACACTGGCTAACAT-AT-CGA
47767774 -CCGATGCATGTCCCAGACATGTCTTACACTGGCACACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-CACA
47767812 AATCTCATGT
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
90 29 0.26
92 26 0.23
93 53 0.47
94 1 0.01
95 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCCACATCTTGTAGCCGACGCATGTCCCAGACA
TGTCTGACACTGGCTAACATATCGA
Found at i:47770835 original size:93 final size:93
Alignment explanation
Indices: 47770723--47770894 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47770713 TGCCCATAAG
* *
47770723 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
47770788 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
47770816 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
47770881 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
47770895 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:47770891 original size:46 final size:46
Alignment explanation
Indices: 47770716--47770891 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
47770706 TGTAATCTGC
* * *
47770716 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
47770762 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47770808 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47770855 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47770892 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47770910 original size:46 final size:46
Alignment explanation
Indices: 47770724--47770910 Score: 129
Period size: 46 Copynumber: 4.0 Consensus size: 46
47770714 GCCCATAAGC
** * *
47770724 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
* *
47770770 GAACTCAGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
47770817 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
47770863 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
47770909 GA
1 GA
47770911 CATGTCACTT
Statistics
Matches: 111, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 61 0.55
47 29 0.26
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:47773317 original size:15 final size:15
Alignment explanation
Indices: 47773289--47773357 Score: 93
Period size: 15 Copynumber: 4.6 Consensus size: 15
47773279 AGAAAACCGA
47773289 ATAAAGAAATCCAGG
1 ATAAAGAAATCCAGG
* * *
47773304 ATAGAGAAACCCAGA
1 ATAAAGAAATCCAGG
*
47773319 ATAAAGAAATCCAGA
1 ATAAAGAAATCCAGG
*
47773334 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAGG
47773349 ATAAAGAAA
1 ATAAAGAAA
47773358 CCCAAGATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.57, C:0.13, G:0.19, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAGG
Found at i:47773321 original size:30 final size:30
Alignment explanation
Indices: 47773278--47773366 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
47773268 CAAAGATAAC
47773278 AAGAAAACC-GAATAAAGAAATCCAGGATA
1 AAGAAAACCAGAATAAAGAAATCCAGGATA
* * *
47773307 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAGGATA
* * * * *
47773337 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAGGATA
47773367 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
29 7 0.14
30 42 0.86
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAGGATA
Found at i:47773366 original size:15 final size:15
Alignment explanation
Indices: 47773289--47773366 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
47773279 AGAAAACCGA
*
47773289 ATAAAGAAATCCAGG
1 ATAAAGAAATCCAAG
* *
47773304 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
47773318 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47773333 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47773349 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47773364 ATA
1 ATA
47773367 CGATACTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 3 0.06
15 45 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47776403 original size:93 final size:93
Alignment explanation
Indices: 47776291--47776462 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47776281 CGCCCATAAG
* *
47776291 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
47776356 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
47776384 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
* *
47776449 ACGAGTTTGGATGC
66 ACGAGCTCGGATGC
47776463 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:47776455 original size:46 final size:44
Alignment explanation
Indices: 47776284--47776453 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 44
47776274 TGTAATCCGC
* *
47776284 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTC-CAT
* *
47776330 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCC-A--T
* *** *
47776376 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTC-CAT
47776423 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
47776454 TTTGGATGCT
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.59
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCCAT
Found at i:47778713 original size:18 final size:18
Alignment explanation
Indices: 47778671--47778714 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
47778661 AAGAAACATT
*
47778671 ATCAGAACTAGAATCAAA
1 ATCAGAATTAGAATCAAA
* *
47778689 ATGAGAATTAGAATCAGA
1 ATCAGAATTAGAATCAAA
47778707 ATCAGAAT
1 ATCAGAAT
47778715 CAATATCAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.20
Consensus pattern (18 bp):
ATCAGAATTAGAATCAAA
Found at i:47778900 original size:27 final size:27
Alignment explanation
Indices: 47778863--47778942 Score: 94
Period size: 26 Copynumber: 3.0 Consensus size: 27
47778853 AACATGGCTG
* *
47778863 CCAGAACAGATATTGTGA-TAGAGTCA
1 CCAGAACAGATATTGTGAGCAGAGCCA
47778889 CCAGATACAGATATTGT-AGCAGAGCCA
1 CCAGA-ACAGATATTGTGAGCAGAGCCA
* *
47778916 CCAGAACAGATAATGTG-GCAAAGCCA
1 CCAGAACAGATATTGTGAGCAGAGCCA
47778942 C
1 C
47778943 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 25 0.53
27 22 0.47
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATTGTGAGCAGAGCCA
Found at i:47779601 original size:27 final size:27
Alignment explanation
Indices: 47779563--47779811 Score: 261
Period size: 27 Copynumber: 9.3 Consensus size: 27
47779553 AAACAGTAAT
* * *
47779563 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
47779590 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
47779617 AGTAATTCTACCCTATAGGGGCATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47779644 AGTAATTCTACCCTA-TAGTGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
47779671 GGT-ATTGCTACCCTATAAGGGTATTTC
1 GGTAATT-CTACCCTACAAGGGTATTTC
* * *
47779698 GGTATTTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47779725 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47779752 AGTATTTCTACCCTACAAGGG-AATTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47779778 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
47779805 GGTAATT
1 GGTAATT
47779812 TTACAAATTG
Statistics
Matches: 189, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
26 28 0.15
27 157 0.83
28 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47779830 original size:80 final size:81
Alignment explanation
Indices: 47779597--47779835 Score: 214
Period size: 81 Copynumber: 3.0 Consensus size: 81
47779587 CTCGGTAATT
* * * * * * * ** *
47779597 CTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGCATTTCAGTAATTCTACCCTATAG
1 CTACCCTACAAGGGTAATTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCAAACAG
**
47779662 TGG-TATTTTGGTATTG
66 -GGATATTTCAGTATTG
* * * * **
47779678 CTACCCTATAAGGGTATTTCGGTATTTCTATCCTACAGGGGTATTTCAGTAATTCTATCCTACAG
1 CTACCCTACAAGGGTAATTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCAAACAG
* *
47779743 GGGTATTTCAGTATTT
66 GGATATTTCAGTATTG
** * **
47779759 CTACCCTACAAGGG-AATTCGGTATTTCTACCCTACAAGGGTATTTTGGTAATTTTA-CAAATTG
1 CTACCCTACAAGGGTAATTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCAAACAG
47779822 AGGATATTTCAGTA
66 -GGATATTTCAGTA
47779836 ATTTTACAAT
Statistics
Matches: 133, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 3 0.02
80 50 0.38
81 80 0.60
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (81 bp):
CTACCCTACAAGGGTAATTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCAAACAG
GGATATTTCAGTATTG
Found at i:47779862 original size:26 final size:27
Alignment explanation
Indices: 47779799--47779977 Score: 186
Period size: 27 Copynumber: 6.7 Consensus size: 27
47779789 CCTACAAGGG
* *
47779799 TATTTTGGTAATTTTACAAATTGAGGA
1 TATTTCGGTAATTTTACAAATCGAGGA
* * *
47779826 TATTTCAGTAATTTTAC-AATCAATGA
1 TATTTCGGTAATTTTACAAATCGAGGA
*
47779852 TATTTCGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGA
*
47779879 TATTTCAGTAATTTTAC-AATCGACGG-
1 TATTTCGGTAATTTTACAAATCGA-GGA
*
47779905 TATTTCGGTAATTTTACAAATCAAGGA
1 TATTTCGGTAATTTTACAAATCGAGGA
* * * * * *
47779932 TATTTGGGTAGTTTTATAAACCGGGGG
1 TATTTCGGTAATTTTACAAATCGAGGA
47779959 TACTTT-GGTAATTTTACAA
1 TA-TTTCGGTAATTTTACAA
47779978 CTGGGGGTAT
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 46 0.37
27 77 0.61
28 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGA
Found at i:47779947 original size:53 final size:53
Alignment explanation
Indices: 47779797--47779936 Score: 217
Period size: 53 Copynumber: 2.6 Consensus size: 53
47779787 ACCCTACAAG
* * *
47779797 GGTATTTTGGTAATTTTACAAATTGAGGATATTTCAGTAATTTTACAATCAAT
1 GGTATTTCGGTAATTTTACAAATCGAGGATATTTCAGTAATTTTACAATCAAC
* * *
47779850 GATATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAC
1 GGTATTTCGGTAATTTTACAAATCGAGGATATTTCAGTAATTTTACAATCAAC
*
47779903 GGTATTTCGGTAATTTTACAAATCAAGGATATTT
1 GGTATTTCGGTAATTTTACAAATCGAGGATATTT
47779937 GGGTAGTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 78 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (53 bp):
GGTATTTCGGTAATTTTACAAATCGAGGATATTTCAGTAATTTTACAATCAAC
Found at i:47779947 original size:80 final size:78
Alignment explanation
Indices: 47779795--47779998 Score: 232
Period size: 80 Copynumber: 2.6 Consensus size: 78
47779785 CTACCCTACA
* *
47779795 AGGGTATTTTGGTAATTTTACAAATTGAGGATATTTCAGTAATTTTACAATCAATGATATTTCGG
1 AGGGTA-TTTGGTAATTTTAC-AATCGAGGATATTTCAGTAATTTTACAATCAAGGATATTTCGG
*
47779860 TAATTTTACAAATCG
64 TAATTTTACAAACCG
* * *
47779875 AGGGTATTTCAGTAATTTTACAATCGACGG-TATTTCGGTAATTTTACAAATCAAGGATATTTGG
1 AGGGTATTT-GGTAATTTTACAATCGA-GGATATTTCAGTAATTTTAC-AATCAAGGATATTTCG
* *
47779939 GTAGTTTTATAAACCG
63 GTAATTTTACAAACCG
* * *
47779955 GGGGTACTTTGGTAATTTTACAA-CTGGGGGTATTTCAGTAATTT
1 AGGGTA-TTTGGTAATTTTACAATC-GAGGATATTTCAGTAATTT
47779999 GGTAAACTAA
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
79 27 0.25
80 76 0.72
81 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (78 bp):
AGGGTATTTGGTAATTTTACAATCGAGGATATTTCAGTAATTTTACAATCAAGGATATTTCGGTA
ATTTTACAAACCG
Found at i:47779995 original size:26 final size:26
Alignment explanation
Indices: 47779795--47779998 Score: 178
Period size: 27 Copynumber: 7.7 Consensus size: 26
47779785 CTACCCTACA
* *
47779795 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTAC-AATCG
* * *
47779822 AGGATATTTCAGTAATTTTACAATCA
1 AGGGTATTTCGGTAATTTTACAATCG
* *
47779848 ATGATATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTAC-AATCG
*
47779875 AGGGTATTTCAGTAATTTTACAATCG
1 AGGGTATTTCGGTAATTTTACAATCG
* *
47779901 ACGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTAC-AATCG
* * * * *
47779928 AGGATATTTGGGTAGTTTTATAAACCG
1 AGGGTATTTCGGTAATTTTA-CAATCG
*
47779955 GGGGTACTTT-GGTAATTTTACAA-CTG
1 AGGGTA-TTTCGGTAATTTTACAATC-G
* *
47779981 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
47779999 GGTAAACTAA
Statistics
Matches: 145, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
25 4 0.03
26 62 0.43
27 76 0.52
28 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAATCG
Found at i:47781963 original size:18 final size:17
Alignment explanation
Indices: 47781935--47781968 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47781925 GGCCTTAGCC
47781935 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
47781952 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
47781969 TCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:47781980 original size:18 final size:18
Alignment explanation
Indices: 47781959--47781993 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47781949 AAACATTATC
47781959 AGAATTAGAATCAAAATG
1 AGAATTAGAATCAAAATG
47781977 AGAATTAGAATCAAAAT
1 AGAATTAGAATCAAAAT
47781994 CAGGTGACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (18 bp):
AGAATTAGAATCAAAATG
Found at i:47782011 original size:25 final size:25
Alignment explanation
Indices: 47781977--47782039 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
47781967 AATCAAAATG
47781977 AGAATTAGAATCAAAATCAGGTGAC
1 AGAATTAGAATCAAAATCAGGTGAC
* * *
47782002 AGAATCAGAATCAATATCAGGTGAT
1 AGAATTAGAATCAAAATCAGGTGAC
47782027 AGAATTAGAATCA
1 AGAATTAGAATCA
47782040 GAATGTGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAATTAGAATCAAAATCAGGTGAC
Found at i:47782238 original size:26 final size:27
Alignment explanation
Indices: 47782185--47782240 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
47782175 ATGATAGAGT
* * *
47782185 CACCAGATACAGATATTGTAGCAGAGC
1 CACCAGATACAGAGAATGTAGCAAAGC
*
47782212 CACCAGA-ACAGAGAATGTGGCAAAGC
1 CACCAGATACAGAGAATGTAGCAAAGC
47782238 CAC
1 CAC
47782241 TTAACAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.12
Consensus pattern (27 bp):
CACCAGATACAGAGAATGTAGCAAAGC
Found at i:47782433 original size:22 final size:22
Alignment explanation
Indices: 47782399--47782464 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
47782389 GCAAATACGT
*
47782399 TTGGCACACAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
* * * *
47782421 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGA
47782443 TTGGCACAAAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
47782465 AGACTTTAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:47782775 original size:27 final size:27
Alignment explanation
Indices: 47782745--47782998 Score: 228
Period size: 27 Copynumber: 9.4 Consensus size: 27
47782735 GGGGCAAAAT
* *
47782745 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
47782772 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * * *
47782799 GGTAATTCTATCCTATAGGGGCATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
** * *
47782826 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
47782853 GGT-ATTTCTATCCTACACGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
47782880 GGT-ATTTCTATCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
47782907 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
47782934 GAT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
47782961 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
47782988 GGTAATTTTAC
1 GGTAATTTTAC
47782999 AAATTGAAGG
Statistics
Matches: 191, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.03
27 178 0.93
28 7 0.04
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:47782804 original size:54 final size:54
Alignment explanation
Indices: 47782745--47782994 Score: 252
Period size: 54 Copynumber: 4.6 Consensus size: 54
47782735 GGGGCAAAAT
* *
47782745 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * * *** *
47782799 GGTAATTCTATCCTATAGGGGCATTTTAATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * *
47782853 GGT-ATTTCTATCCTACACGGGTATTTCGGTATTTCTATCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * * * * *
47782907 AGTAATTCTACCTTATAGGGGTATTTCGATATTTCTACCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
47782961 GGT-ATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTAATTT-TACCCTACAAGGGTATTTCGGTAATT
47782995 TTACAAATTG
Statistics
Matches: 156, Mismatches: 37, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
53 6 0.04
54 147 0.94
55 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
Found at i:47782993 original size:81 final size:81
Alignment explanation
Indices: 47782746--47782994 Score: 327
Period size: 81 Copynumber: 3.1 Consensus size: 81
47782736 GGGCAAAATG
* * * * * *
47782746 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTATC
* * *
47782811 CTATAGGGGCATTTTA
66 CTACAGGGGTATTTCA
* * *
47782827 ATAATTCTACCCTACAGGGGTATTTCGGTATTTCTATCCTACACGGGTATTTCGGTATTTCTATC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTATC
47782892 CTACAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* * * * *
47782908 GTAATTCTACCTTATAGGGGTATTTCGATATTTCTACCCTATAAGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTATC
* *
47782973 CTACAAGGGTATTTCG
66 CTACAGGGGTATTTCA
47782989 GTAATT
1 GTAATT
47782995 TTACAAATTG
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTATC
CTACAGGGGTATTTCA
Found at i:47783010 original size:27 final size:27
Alignment explanation
Indices: 47782980--47783160 Score: 129
Period size: 27 Copynumber: 6.8 Consensus size: 27
47782970 ACCCTACAAG
47782980 GGTATTTCGGTAATTTTACAAATTGAA
1 GGTATTTCGGTAATTTTACAAATTGAA
* *
47783007 GGTATTTCAGTAATTTTAC-AA-TCAA
1 GGTATTTCGGTAATTTTACAAATTGAA
* * * *
47783032 TGATATTTCGGCAATTTTACAAATCGAG
1 -GGTATTTCGGTAATTTTACAAATTGAA
* *
47783060 GGTATTTCAGTAATTTTAC-AATTGAC
1 GGTATTTCGGTAATTTTACAAATTGAA
** * **
47783086 GGTATTTCAATAAATTTACAAA-ACAA
1 GGTATTTCGGTAATTTTACAAATTGAA
* * * * **
47783112 GGATATTTGGGTAGTTTTATAAACTGGG
1 GG-TATTTCGGTAATTTTACAAATTGAA
47783140 GGTACTTT-GGTAATTTTACAA
1 GGTA-TTTCGGTAATTTTACAA
47783161 CTGGCGGTAT
Statistics
Matches: 117, Mismatches: 30, Indels: 14
0.73 0.19 0.09
Matches are distributed among these distances:
25 3 0.03
26 43 0.37
27 65 0.56
28 6 0.05
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATTGAA
Found at i:47783011 original size:54 final size:54
Alignment explanation
Indices: 47782845--47783071 Score: 144
Period size: 54 Copynumber: 4.2 Consensus size: 54
47782835 ACCCTACAGG
* * * ** ** *
47782845 GGTATTTCGGTATTTCTATCCTACACGGGTATTTCGGTATTTCTATCCTACAG-G
1 GGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTA-CAAATTGAA
* * * * * **
47782899 GGTATTTCAGTAATTCTACCTTATAGGGGTATTTCGATATTTCTAC-CCTAT-AA
1 GGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACAAAT-TGAA
*
47782952 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTT-TACAAATTGAA
1 -GGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGT-ATTTCTACAAATTGAA
** * * * * *
47783007 GGTATTTCAGTAATTT-TACAAT-CAATGATATTTCGGCAATTT-TACAAATCGAG
1 GGTATTTCAGT-ATTTCTACCCTACAAGGGTATTTCGG-TATTTCTACAAATTGAA
47783060 GGTATTTCAGTA
1 GGTATTTCAGTA
47783072 ATTTTACAAT
Statistics
Matches: 137, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
52 1 0.01
53 37 0.27
54 88 0.64
55 11 0.08
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (54 bp):
GGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACAAATTGAA
Found at i:47783104 original size:53 final size:53
Alignment explanation
Indices: 47782980--47783107 Score: 166
Period size: 53 Copynumber: 2.4 Consensus size: 53
47782970 ACCCTACAAG
* *
47782980 GGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTTACAATCAAT
1 GGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAATCAAC
* * * **
47783033 GATATTTCGGCAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATTGAC
1 GGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAATCAAC
** *
47783086 GGTATTTCAATAAATTTACAAA
1 GGTATTTCGGTAATTTTACAAA
47783108 ACAAGGATAT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (53 bp):
GGTATTTCGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAATCAAC
Found at i:47783117 original size:80 final size:79
Alignment explanation
Indices: 47782978--47783172 Score: 223
Period size: 80 Copynumber: 2.4 Consensus size: 79
47782968 CTACCCTACA
* * * * *
47782978 AGGGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTTACAATCAATGATATTTCGG
1 AGGGTATTTCGGTAATTTTAC-AATTGACGGTATTTCAATAAATTTACAAACAAGGATATTTCGG
47783043 CAATTTTACAAA-TCG
65 CAATTTTACAAACT-G
* *
47783058 AGGGTATTTCAGTAATTTTACAATTGACGGTATTTCAATAAATTTACAAAACAAGGATATTTGGG
1 AGGGTATTTCGGTAATTTTACAATTGACGGTATTTCAATAAATTTAC-AAACAAGGATATTTCGG
* * *
47783123 TAGTTTTATAAACTG
65 CAATTTTACAAACTG
* * *
47783138 GGGGTACTTT-GGTAATTTTACAACTGGCGGTATTT
1 AGGGTA-TTTCGGTAATTTTACAATTGACGGTATTT
47783173 TAGTAATTTG
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 23 0.23
80 71 0.72
81 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (79 bp):
AGGGTATTTCGGTAATTTTACAATTGACGGTATTTCAATAAATTTACAAACAAGGATATTTCGGC
AATTTTACAAACTG
Found at i:47783119 original size:53 final size:52
Alignment explanation
Indices: 47783005--47783119 Score: 122
Period size: 53 Copynumber: 2.2 Consensus size: 52
47782995 TTACAAATTG
* ** * *
47783005 AAGGTATTTCAGTAATTTTACAATCAATGATATTTCGGCAATTTTACAAATC
1 AAGGTATTTCAGTAATTTTACAATCAACGATATTTCAACAAATTTACAAAAC
* ** * *
47783057 GAGGGTATTTCAGTAATTTTACAATTGACGGTATTTCAATAAATTTACAAAAC
1 -AAGGTATTTCAGTAATTTTACAATCAACGATATTTCAACAAATTTACAAAAC
47783110 AAGGATATTT
1 AAGG-TATTT
47783120 GGGTAGTTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
52 3 0.06
53 47 0.94
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (52 bp):
AAGGTATTTCAGTAATTTTACAATCAACGATATTTCAACAAATTTACAAAAC
Found at i:47789282 original size:46 final size:46
Alignment explanation
Indices: 47789214--47789304 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
47789204 TATATATACA
* * *
47789214 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
47789260 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
47789305 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:47789349 original size:47 final size:47
Alignment explanation
Indices: 47789318--47789609 Score: 440
Period size: 47 Copynumber: 6.2 Consensus size: 47
47789308 CACTTCCACG
*
47789318 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
47789365 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
47789412 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
47789459 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
47789506 TTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * * **
47789553 TTCATCACATTTGCCATTCGGCCTTAGCTCATATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
47789600 TCCATCACAT
1 TTCATCACAT
47789610 AAAATCCTAA
Statistics
Matches: 221, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 221 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:47789397 original size:94 final size:94
Alignment explanation
Indices: 47789284--47789609 Score: 465
Period size: 94 Copynumber: 3.5 Consensus size: 94
47789274 TTCGCATTAA
* ** * * *
47789284 CCATTCGGCTTTCCCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTGCCTTATCAC
1 CCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* *
47789348 ATATATGCATGTTCACATTTATCACATTGG
65 ACATATGCATGTTCACATTCATCACATTGG
* * *
47789378 CCATTCGGCCTTATCACATATGTGCATGTTCATATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
47789443 CATATGCATGTTCACATTCATCACATTGG
66 CATATGCATGTTCACATTCATCACATTGG
*
47789472 CCATTCGGCCTTATCACATATGTACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* *
47789537 CAAATGCATGTTCACATTCATCACATTTG
66 CATATGCATGTTCACATTCATCACATTGG
* * ** *
47789566 CCATTCGGCCTTAGCTCATATATACACATTCACATCCATCACAT
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
47789610 AAAATCCTAA
Statistics
Matches: 210, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
93 1 0.00
94 209 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (94 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
CATATGCATGTTCACATTCATCACATTGG
Found at i:47789598 original size:141 final size:140
Alignment explanation
Indices: 47789284--47789609 Score: 454
Period size: 141 Copynumber: 2.3 Consensus size: 140
47789274 TTCGCATTAA
* ** * *
47789284 CCATTCGGCTTTCCCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTTATCACA
1 CCATTCGGCCTTAGCACATATATACACTT-CACATTCATCACATTGGCCATTCGGCCTTATCACA
* * * ** *
47789349 TATATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCATATT
65 TATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACATT
47789414 CATCACATTGG
130 CATCACATTGG
* * * *
47789425 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTAGCACATATATACA-CTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
*
47789490 TATGTACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACATT
65 TATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACATT
*
47789555 CATCACATTTG
130 CATCACATTGG
* *
47789566 CCATTCGGCCTTAGCTCATATATACACATTCACATCCATCACAT
1 CCATTCGGCCTTAGCACATATATACAC-TTCACATTCATCACAT
47789610 AAAATCCTAA
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
141 159 0.99
142 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (140 bp):
CCATTCGGCCTTAGCACATATATACACTTCACATTCATCACATTGGCCATTCGGCCTTATCACAT
ATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACATTC
ATCACATTGG
Found at i:47792600 original size:43 final size:42
Alignment explanation
Indices: 47792552--47792671 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
47792542 AATGCTAACG
* *
47792552 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCA-CTA
1 TCCCAGACGTGGTCTTACA-GAAATCACATATCGATG-CAGATA
* *
47792595 TCCCAGACAG-GGTCTTACACAAATCACATATACGATGCAGATG
1 TCCCAGAC-GTGGTCTTACAGAAATCACATAT-CGATGCAGATA
* *
47792638 TCCCAGACATGGTCTTACACGCAATCACATATCG
1 TCCCAGACGTGGTCTTACA-GAAATCACATATCG
47792672 TAAATCCTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 12 0.18
43 42 0.65
44 11 0.17
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACAGAAATCACATATCGATGCAGATA
Found at i:47798772 original size:18 final size:18
Alignment explanation
Indices: 47798732--47798774 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
47798722 GACAACGGAG
47798732 ATGATTA-GAGCTGATTA
1 ATGATTATGAGCTGATTA
*
47798749 AGGATTATGAGCTGA-TA
1 ATGATTATGAGCTGATTA
47798766 ATTGATTAT
1 A-TGATTAT
47798775 CAACTGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (18 bp):
ATGATTATGAGCTGATTA
Found at i:47818299 original size:16 final size:16
Alignment explanation
Indices: 47818278--47818314 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
47818268 CAGTAAATCT
47818278 TGAAATGCCGAAAAGC
1 TGAAATGCCGAAAAGC
*
47818294 TGAAATGTCGAAAAGC
1 TGAAATGCCGAAAAGC
47818310 TGAAA
1 TGAAA
47818315 ATCTGGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (16 bp):
TGAAATGCCGAAAAGC
Found at i:47818572 original size:29 final size:30
Alignment explanation
Indices: 47818530--47818615 Score: 112
Period size: 29 Copynumber: 3.0 Consensus size: 30
47818520 ACATGGCTTG
*
47818530 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATATGATTTGGGCCTAGATGGGCCATAT
47818558 GAATATGATTTGGGCCTA-ATGGGCCATAT
1 GAATATGATTTGGGCCTAGATGGGCCATAT
47818587 GAATGA-GA-TTGGGCCTAG-TGGGCCATAT
1 GAAT-ATGATTTGGGCCTAGATGGGCCATAT
47818615 G
1 G
47818616 CATGTATGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
28 24 0.45
29 27 0.51
30 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (30 bp):
GAATATGATTTGGGCCTAGATGGGCCATAT
Found at i:47818608 original size:28 final size:28
Alignment explanation
Indices: 47818530--47818615 Score: 106
Period size: 28 Copynumber: 3.0 Consensus size: 28
47818520 ACATGGCTTG
47818530 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATATGATT-GGGCCTAG-TGGGCCATAT
*
47818558 GAATATGATTTGGGCCTAATGGGCCATAT
1 GAATATGA-TTGGGCCTAGTGGGCCATAT
47818587 GAATGA-GATTGGGCCTAGTGGGCCATAT
1 GAAT-ATGATTGGGCCTAGTGGGCCATAT
47818615 G
1 G
47818616 CATGTATGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
28 24 0.46
29 24 0.46
30 4 0.08
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
GAATATGATTGGGCCTAGTGGGCCATAT
Found at i:47825069 original size:15 final size:15
Alignment explanation
Indices: 47825040--47825089 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
47825030 CAAAGATAAC
*
47825040 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47825054 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47825069 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47825084 AAGAAA
1 AAGAAA
47825090 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47825098 original size:15 final size:15
Alignment explanation
Indices: 47825051--47825098 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
47825041 AGAAAACCGA
47825051 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
47825065 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47825081 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47825096 ATA
1 ATA
47825099 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47839935 original size:13 final size:13
Alignment explanation
Indices: 47839917--47839942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47839907 AAGAAATCCA
47839917 ACACGGGCGTGTC
1 ACACGGGCGTGTC
47839930 ACACGGGCGTGTC
1 ACACGGGCGTGTC
47839943 CTTGTCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:47844698 original size:64 final size:64
Alignment explanation
Indices: 47844597--47844723 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
47844587 TACAGTTATA
* * *
47844597 GTTTGTTCCAATTAGATTAATGTTGTAATGTATTTAATTTATATAACAAAATTTATATTACAAT
1 GTTTGTTCCAATTAAATTAATATTGTAATGTATTTAATTTATATAACAAAATTTAAATTACAAT
47844661 GTTTGTTCCAATTAAATTAATATTGTAATGTATTTAATTTATATAACAAAATTTAAATTACAA
1 GTTTGTTCCAATTAAATTAATATTGTAATGTATTTAATTTATATAACAAAATTTAAATTACAA
47844724 AACTAAGTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (64 bp):
GTTTGTTCCAATTAAATTAATATTGTAATGTATTTAATTTATATAACAAAATTTAAATTACAAT
Found at i:47845245 original size:33 final size:33
Alignment explanation
Indices: 47845208--47845276 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
47845198 CCATAATGTG
* * *
47845208 GTGGACACTGGCCGGGAGGAATGCTGTACTGCA
1 GTGGACACGGGCCAGGAGGAATGCTGTACTACA
* *
47845241 GTGGATACGGGTCAGGAGGAATGCTGTACTACA
1 GTGGACACGGGCCAGGAGGAATGCTGTACTACA
47845274 GTG
1 GTG
47845277 AATACGACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.20
Consensus pattern (33 bp):
GTGGACACGGGCCAGGAGGAATGCTGTACTACA
Found at i:47848407 original size:29 final size:29
Alignment explanation
Indices: 47848373--47848446 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47848363 TCATCAACCA
*
47848373 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
47848402 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
47848431 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
47848447 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:47850801 original size:40 final size:40
Alignment explanation
Indices: 47850739--47850983 Score: 388
Period size: 40 Copynumber: 6.2 Consensus size: 40
47850729 AAACCAAGTA
* * *
47850739 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
47850778 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47850818 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47850858 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47850898 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47850938 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47850978 CCTTCG
1 CCTTCG
47850984 TTATCATCCG
Statistics
Matches: 194, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
39 14 0.07
40 180 0.93
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47855057 original size:3 final size:3
Alignment explanation
Indices: 47855051--47855083 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
47855041 CCTCCTCCTC
47855051 CTT CTT CTT CTT CTT CTT C-T CTT CTT -TT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
47855084 CCTTTCGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:47855063 original size:9 final size:9
Alignment explanation
Indices: 47855051--47855083 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
47855041 CCTCCTCCTC
47855051 CTTCTTCTT
1 CTTCTTCTT
47855060 CTTCTTCTT
1 CTTCTTCTT
47855069 C-TCTTCTT
1 CTTCTTCTT
47855077 -TTCTTCT
1 CTTCTTCT
47855084 CCTTTCGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 13 0.57
9 10 0.43
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (9 bp):
CTTCTTCTT
Found at i:47856851 original size:40 final size:40
Alignment explanation
Indices: 47856594--47856851 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
47856584 AAGCCAAGTA
* * * * *
47856594 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
47856633 CCTTCAGGACATAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47856673 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47856713 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47856753 CCTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
47856793 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47856833 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47856852 TTATCATCCA
Statistics
Matches: 195, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.06
40 183 0.94
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47861961 original size:27 final size:27
Alignment explanation
Indices: 47861926--47861978 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
47861916 AATGGGTGTA
*
47861926 ATTAATCAAAAGATAAATCTTTTGATC
1 ATTAATCAAAAGATAAATCATTTGATC
* * *
47861953 ATTAGTCAAAAGTTATATCATTTGAT
1 ATTAATCAAAAGATAAATCATTTGAT
47861979 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTAATCAAAAGATAAATCATTTGATC
Found at i:47869009 original size:48 final size:46
Alignment explanation
Indices: 47868890--47869009 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 46
47868880 GATATGTGTC
* *
47868890 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAAAG
* *
47868936 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTACAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATG-A-AAG
* *
47868984 CTAGTGTAAGACCTATCTGGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
47869010 GCGTTAGCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
46 37 0.58
47 2 0.03
48 25 0.39
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAAAG
Found at i:47869088 original size:49 final size:47
Alignment explanation
Indices: 47868892--47869157 Score: 190
Period size: 49 Copynumber: 5.6 Consensus size: 47
47868882 TATGTGTCCT
* * *
47868892 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGGCC-CTATGATGAGAGCC
* * * * *
47868938 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGA-GATGTACAAGCT
1 AGTGTAAGACCTATCTGGGACATGGCATCGGCC-CTATGATG-A-GAGCC
* ** * * *
47868986 AGTGTAAGACCTATCTGGGACATGGCGTTAG--CT-TGTTGAGTGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCGGCCCTATGATGAGAGCC
*
47869030 AGTGTAAGACCTATTTGGGACATGGCATCGGCACCTATAGATGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGGC-CCTAT-GATGAGAGCC
* * * * *
47869079 AGTGTAAGACCTATTTGGGACACGGCATCGGCCTCGATAT-AAGAAAGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCGGCC-C--TATGATGAGAGCC
*
47869128 AGTGTAAGACCTGTCTGGGACACT-GCATCG
1 AGTGTAAGACCTATCTGGGACA-TGGCATCG
47869158 ACTTTGATGT
Statistics
Matches: 177, Mismatches: 29, Indels: 25
0.77 0.13 0.11
Matches are distributed among these distances:
44 28 0.16
45 1 0.01
46 40 0.23
47 4 0.02
48 26 0.15
49 75 0.42
51 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGGCCCTATGATGAGAGCC
Found at i:47869145 original size:142 final size:138
Alignment explanation
Indices: 47868892--47869149 Score: 326
Period size: 142 Copynumber: 1.8 Consensus size: 138
47868882 TATGTGTCCT
* * *
47868892 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATATCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACATATCTGGG
*
47868957 ACATGCATCGGCCTCGAGATGTACAAGCTAGTGTAAGACCTATCTGGGACATGGCGTTAGCTTGT
66 ACAGGCATCGGCCTCGAGATGTACAAGCTAGTGTAAGACCTATCTGGGACATGGCGTTAGCTTGT
47869022 TGAGTGTC
131 TGAGTGTC
* * * *
47869030 AGTGTAAGACCTATTTGGGACATGGCATCGG-CACCTATAGATGAGAGCCAGTGTAAGACCTATT
1 AGTGTAAGACATATCTGGGACAT-GCATCGGCCA-C-AT-GATGAGAGCCAGTGTAAGACATATC
* *
47869094 TGGGACACGGCATCGGCCTCGATATAAG-A-AAG-TCAGTGTAAGACCTGTCTGGGACA
62 TGGGACA-GGCATCGGCCTCGAGAT--GTACAAGCT-AGTGTAAGACCTATCTGGGACA
47869150 CTGCATCGAC
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
138 22 0.22
139 8 0.08
140 2 0.02
141 29 0.28
142 39 0.38
143 1 0.01
144 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (138 bp):
AGTGTAAGACATATCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACATATCTGGG
ACAGGCATCGGCCTCGAGATGTACAAGCTAGTGTAAGACCTATCTGGGACATGGCGTTAGCTTGT
TGAGTGTC
Found at i:47877534 original size:48 final size:48
Alignment explanation
Indices: 47877466--47877838 Score: 575
Period size: 48 Copynumber: 7.8 Consensus size: 48
47877456 CAAGATAAAT
* * * *
47877466 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
* * *
47877514 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
* * * * *
47877562 ATATGTATATGTGGTCAAGCCGAATGACGAATGTGAAATATTTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
*
47877610 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
*
47877658 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
* *
47877706 ATATTTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATTTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
* * *
47877754 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
47877802 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
47877839 TGTTGTAACA
Statistics
Matches: 298, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 298 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTG
Found at i:47880208 original size:40 final size:40
Alignment explanation
Indices: 47879899--47880196 Score: 443
Period size: 40 Copynumber: 7.5 Consensus size: 40
47879889 GTATAGTCGA
*
47879899 GCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
* *
47879939 GTTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
* * *
47879979 GCTAAGTCTCGAATAGCATTCGTGCTAGTGATGTAACCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
47880019 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
*
47880059 GTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
* * *
47880099 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
** * * * *
47880139 GCTAAACCCCGAAGAGCGTTCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
*
47880179 GCTAGGTCCCGAAGAGCA
1 GCTAAGTCCCGAAGAGCA
47880197 ATCATGCTGG
Statistics
Matches: 233, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 233 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
Found at i:47880422 original size:25 final size:25
Alignment explanation
Indices: 47880372--47880422 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
47880362 TGTGTAACAA
* *
47880372 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
47880397 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
47880422 C
1 C
47880423 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:47882910 original size:39 final size:40
Alignment explanation
Indices: 47882810--47882994 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
47882800 TCGAATGATG
* *
47882810 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
47882849 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
47882890 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
47882929 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47882968 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47882995 AATGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:47883017 original size:79 final size:79
Alignment explanation
Indices: 47882811--47883017 Score: 192
Period size: 79 Copynumber: 2.6 Consensus size: 79
47882801 CGAATGATGT
** * *
47882811 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCAGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-AATGAGTAG-CTATATCCAG-TTAAGATCCGAAGGCATT
*
47882874 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* * *** * *
47882891 TCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAATGAG-TAGCTATATCC-AGTTAAGAT-CCGAAGGCATT
47882953 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
*
47882970 CCGGGCTATGTCCCGAAGGCATTTGAATGAGTAGCTATATCCAGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTATATCCAGTTAA
47883018 ATTTCGAAGG
Statistics
Matches: 101, Mismatches: 18, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
78 3 0.03
79 61 0.60
80 37 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTATATCCAGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:47891038 original size:39 final size:39
Alignment explanation
Indices: 47890892--47891074 Score: 219
Period size: 39 Copynumber: 4.6 Consensus size: 39
47890882 TCGAATGATG
* * *
47890892 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
47890932 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
47890971 TTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
47891010 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47891050 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
47891075 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 23 0.19
39 54 0.44
40 39 0.31
41 8 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47891104 original size:79 final size:77
Alignment explanation
Indices: 47890893--47891107 Score: 240
Period size: 79 Copynumber: 2.7 Consensus size: 77
47890883 CGAATGATGT
* *
47890893 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAA-ATCCGAAGGCATT
*
47890956 TGTGCGAGTTACTAAT
62 TGTGCGAGTTACTAAA
* * * *
47890972 TCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAATCCGAAGGCATTTG
47891035 TGCGAGTTACTATAA
64 TGCGAGTTACTA-AA
* **
47891050 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAA-TCCGAAGG
47891108 TACGTGATTC
Statistics
Matches: 114, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
77 26 0.23
78 38 0.33
79 50 0.44
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:47894691 original size:48 final size:48
Alignment explanation
Indices: 47894623--47894995 Score: 593
Period size: 48 Copynumber: 7.8 Consensus size: 48
47894613 AGATAAATAT
* * *
47894623 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
47894671 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * * *
47894719 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* *
47894767 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
47894815 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
47894863 ATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * *
47894911 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
47894959 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
47894996 TGTTGTAACA
Statistics
Matches: 301, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 301 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
Found at i:47895092 original size:37 final size:37
Alignment explanation
Indices: 47895039--47895141 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
47895029 GGAAATGTAT
47895039 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
47895076 TCCGGGTAAGAGCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
**
47895113 TCCGGGTAAGACCCGAAAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
47895142 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:47896776 original size:25 final size:25
Alignment explanation
Indices: 47896748--47896802 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
47896738 GGTTTAAAGA
47896748 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-AGATTC
*
47896773 ATTCGCACACATAGTGCCTAGATTC
1 ATTCGCACACACAGTGCCTAGATTC
47896798 ATTCG
1 ATTCG
47896803 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTAGATTC
Found at i:47897031 original size:40 final size:40
Alignment explanation
Indices: 47896966--47897365 Score: 640
Period size: 40 Copynumber: 10.0 Consensus size: 40
47896956 GATTACACAT
* * * * *
47896966 CACCGGCACAAATGCCCTTCAGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
47897006 CACCAGCATGAATGCTCTTCGGGACTTA-CCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
47897045 CACCACCATGAATGCTCTTCGGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
47897085 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
47897125 CACCAGCACAAATGCTCTTCGGGACATAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
47897165 CACCAGCACGAATGCTCTTTGGGGCTTAGGCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
47897205 CACCACCACCAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
47897245 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
47897285 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
47897325 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
47897365 C
1 C
47897366 TCTCAATTCT
Statistics
Matches: 333, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 37 0.11
40 296 0.89
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:47897643 original size:12 final size:12
Alignment explanation
Indices: 47897626--47897650 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47897616 TCTCATACAC
47897626 ATTTCGTAAATA
1 ATTTCGTAAATA
47897638 ATTTCGTAAATA
1 ATTTCGTAAATA
47897650 A
1 A
47897651 CACTCACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTTCGTAAATA
Done.