Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 196 of 208
Found at i:60867602 original size:19 final size:20
Alignment explanation
Indices: 60867580--60867622 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
60867570 AACAAATGAA
60867580 AAGAA-AAAGAAAAGAAAA-G
1 AAGAATAAA-AAAAGAAAACG
*
60867599 AAGAATGAAAAAAGAAAACG
1 AAGAATAAAAAAAGAAAACG
60867619 AAGA
1 AAGA
60867623 GGCCAAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (20 bp):
AAGAATAAAAAAAGAAAACG
Found at i:60868073 original size:97 final size:100
Alignment explanation
Indices: 60867900--60868198 Score: 361
Period size: 97 Copynumber: 2.9 Consensus size: 100
60867890 ATTCATTTCG
* * * *
60867900 TATCTTAGCAAAATTTGCTATCTTAATTCATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
* *
60867965 CATTTTATCCATTGTGATAATCCTTTTCA-TC-T-
66 CATCTTGTCCATTGTGATAATCCTTTTCATTCGTC
*
60867997 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCCTTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
*
60868062 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTC
66 CATCTTGTCCATTGTGATAATCC-TTT--TC--ATTC-G-TC
* * * * * *
60868104 GTATCTTAGCAAAATTTGTTATTTTGATTAATTTATTTATTTTGAGCCTTATTCTCAATAAAATT
1 -TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATT
* *
60868169 TCATCTTGTCCATTTTGATAATCTTTTTCA
65 TCATCTTGTCCATTGTGATAATCCTTTTCA
60868199 AGCATTTTTC
Statistics
Matches: 173, Mismatches: 18, Indels: 16
0.84 0.09 0.08
Matches are distributed among these distances:
97 80 0.46
98 3 0.02
100 2 0.01
102 1 0.01
103 3 0.02
105 2 0.01
106 1 0.01
107 3 0.02
108 78 0.45
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (100 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTGTCCATTGTGATAATCCTTTTCATTCGTC
Found at i:60868188 original size:108 final size:108
Alignment explanation
Indices: 60867997--60868198 Score: 314
Period size: 108 Copynumber: 1.9 Consensus size: 108
60867987 CTTTTCATCT
* * *
60867997 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCCTTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTT
60868062 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
66 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
* * * *
60868105 TATCTTAGCAAAATTTGTTATTTTGATTAATTTATTTATTTTGAGCCTTATTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTT
* * *
60868170 CATCTTGTCCATTTTGATAATCTTTTTCA
66 CATCTTGTCCATTGTGATAACCCTTTTCA
60868199 AGCATTTTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (108 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTT
CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
Found at i:60869138 original size:46 final size:46
Alignment explanation
Indices: 60869084--60870342 Score: 1797
Period size: 46 Copynumber: 27.4 Consensus size: 46
60869074 AATGGACTAA
*
60869084 AAGA-AGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
60869129 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869175 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869221 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
60869267 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCA-CGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869312 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * *
60869358 AAGGTAGTAGGTCTTGTTTTCCTGTATTTGGCAGCGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
60869404 AAGATAGCAGCTCTTGTCTTCTTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869450 AAGATAG-ATGATCTTGTCTTCCTGTATTTGGTAGCAGAGGAGATCG
1 AAGATAGCA-GATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
60869496 AAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGAAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
60869542 AAGATAGCAGACCTTATCTTCCTGTATTTGGTAGTGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
60869588 AAGATAGCAAATCTTGTCTTCCTGTATTTGGCA-CGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869633 AAGATAGCAGATCTTGTCTTCCTGTATTTGACAACGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
60869679 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869725 AAGATAGCAGATCTTGTATTCCTGTATTTGGCAGCGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869771 AAGATAGCAGATCTTGTCTTCTTGTATTTGACAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
60869817 AAGATAGAAGATCTTGTCTTCCTGTATTTGGTAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60869863 AAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
60869909 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * *
60869955 AAGATAGAAGATCTTGTCTTCCTCTATTTGGCAGCGAAAGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60870001 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* ** * *
60870047 AAGATAGCAGATCTTGTCTTTCTGTATTTTACAGTGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
60870093 AAGATAGCAGATTTTGTCTTCCTATATTTGGCAGCGGAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * * *
60870139 AAGATGGAAGATCTTGTCTTCCTGTATTTCGCAGAGGAGTAGAACG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
60870185 AAGATAGAAGATCTTGTCTTCCTGTATTTGGGCAGTGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTT-GGCAGCGGAGGAGATCG
* * *
60870232 AAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * *
60870278 AAGATAGCGGATCTTGTCTTCCTGTATTTGGTAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60870324 AAGATTGCAGATCCTGTCT
1 AAGATAGCAGATCTTGTCT
60870343 CCCTAAGCAG
Statistics
Matches: 1094, Mismatches: 114, Indels: 11
0.90 0.09 0.01
Matches are distributed among these distances:
45 90 0.08
46 960 0.88
47 44 0.04
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (46 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
Found at i:60877431 original size:41 final size:44
Alignment explanation
Indices: 60877306--60877438 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 44
60877296 AGGATTTTCG
* *
60877306 ATATGTGTTCTCGTGTAGGACCATGTCTGGGAC-GATGGCATCGAT
1 ATATGTGAT-TCGTGTAAGACCATGTCTGGGACAG-TGGCATCGAT
* * *
60877351 ATATGTGATTACGTGTAAGACCATGTCTAGGAAATTGGCATCG-T
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGACAGTGGCATCGAT
* *
60877395 AT-T-TGATTCGTGTAAGACCCTGTCCGGGACAGTGGCATCGAT
1 ATATGTGATTCGTGTAAGACCATGTCTGGGACAGTGGCATCGAT
60877437 AT
1 AT
60877439 GAGATAGCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
41 27 0.36
42 8 0.11
43 1 0.01
44 4 0.05
45 35 0.47
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACAGTGGCATCGAT
Found at i:60879792 original size:14 final size:14
Alignment explanation
Indices: 60879768--60879801 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
60879758 GTTATAATTA
60879768 TATGAACATTTGAGT
1 TATG-ACATTTGAGT
60879783 TATGACATTTGAGT
1 TATGACATTTGAGT
60879797 TATGA
1 TATGA
60879802 TGCTATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (14 bp):
TATGACATTTGAGT
Found at i:60883528 original size:16 final size:16
Alignment explanation
Indices: 60883499--60883532 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60883489 AAGAATGTAA
*
60883499 AAAAACAAACGAAAAG
1 AAAAACAAAAGAAAAG
*
60883515 AAAAAGAAAAGAAAAG
1 AAAAACAAAAGAAAAG
60883531 AA
1 AA
60883533 GAATGCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAGAAAAG
Found at i:60883998 original size:97 final size:100
Alignment explanation
Indices: 60883832--60884130 Score: 397
Period size: 97 Copynumber: 2.9 Consensus size: 100
60883822 ATTCATTTTG
* * *
60883832 TATCTTAGCAAAATTTGCTATCTTAATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
60883897 CATCTTATCCATTGTGATAATCTTTTTCA-TC-T-
66 CATCTTATCCATTGTGATAATCTTTTTCATTCGTC
60883929 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
* *
60883994 CATCTTGTCCATTGTGATAACCCTTTTGATCTTATTCGGTTC
66 CATCTTATCCATTGTGATAA-TCTTTT--TC--ATTC-G-TC
* * * * *
60884036 GTATCTTAGCAAAATTTGTTATTTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATAAAATT
1 -TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATT
* *
60884101 TCATCTTTTCCATTTTGATAATCTTTTTCA
65 TCATCTTATCCATTGTGATAATCTTTTTCA
60884131 AGCATTTTTC
Statistics
Matches: 178, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
97 81 0.46
98 5 0.03
100 2 0.01
102 1 0.01
103 3 0.02
105 2 0.01
106 1 0.01
107 5 0.03
108 78 0.44
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.48
Consensus pattern (100 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATTCGTC
Found at i:60885068 original size:46 final size:46
Alignment explanation
Indices: 60885014--60885814 Score: 1111
Period size: 46 Copynumber: 17.4 Consensus size: 46
60885004 AATGGACTAA
* * *
60885014 AAGA-AGCAGATCTTATCTTCCTGTATTTGGCAACGGAGGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
60885059 AAGATAGCAGATCTTGTCTTCCTATATTTGGAACCGGAAGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
60885105 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60885151 AATATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
60885197 AAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCAGAAGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60885243 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAAGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60885289 AATATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
60885335 AAGATAACAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60885381 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60885427 AATATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
60885473 AAGATAGCAGATCTTGTCTTCATGTATTTGGTAGTGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
60885519 AAGATAGCAGATCTTGTCTTTCTGTATTTGGTAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
60885565 AAGATAACAGATTTTGTCTTCCTATATTTGGCAGCGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * * * *
60885611 AAGATGGAAGATCTTATCTTCCTGTATTTGGCGGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
60885657 AAGATAGAAGATCTTGTCTTCCTGTATTTGGGCAGTGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTT-GGCAGCGGAGGAGATCG
* *
60885704 AAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
60885750 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
60885796 AAGATTA-CAGATCCTGTCT
1 AAGA-TAGCAGATCTTGTCT
60885815 CCCTAAGCAG
Statistics
Matches: 682, Mismatches: 71, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.01
46 632 0.93
47 46 0.07
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (46 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
Found at i:60887729 original size:4 final size:4
Alignment explanation
Indices: 60887720--60887744 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
60887710 TTTGGTGTTA
60887720 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
60887745 CATGCTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:60887820 original size:18 final size:19
Alignment explanation
Indices: 60887775--60887823 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
60887765 ACTTAAGTGC
* *
60887775 TTTAATTTTTATTTGTTTA
1 TTTACTTTTTATTTGTTGA
60887794 TTTAC-TTTTATTTGTTGA
1 TTTACTTTTTATTTGTTGA
60887812 TTT-CTTTTTATT
1 TTTACTTTTTATT
60887824 ATATATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 22 0.81
19 4 0.15
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (19 bp):
TTTACTTTTTATTTGTTGA
Found at i:60890409 original size:62 final size:62
Alignment explanation
Indices: 60890305--60890424 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
60890295 CACACACCCA
* * * *
60890305 TGTAGTTCGCCTATGTGTCTCAAATTTTAGCTCAGCCAGTTACACGGCTTGCCACACGCCTG
1 TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGCCAGTTACACGGCCTACCACACGCCTG
* * * ** *
60890367 TGTAGTTCGTCTGTGTGTTTCAAATTTCAACTCATTCGGTTACACGGCCTACCACACG
1 TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGCCAGTTACACGGCCTACCACACG
60890425 GCCCACCACA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (62 bp):
TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGCCAGTTACACGGCCTACCACACGCCTG
Found at i:60891569 original size:34 final size:34
Alignment explanation
Indices: 60891531--60891604 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
60891521 TCGGTTGGAT
60891531 TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
1 TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
* *
60891565 TAAAAATCTACCAAGGTATCGATCTAATGAGAGG
1 TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
60891599 TAAAAA
1 TAAAAA
60891605 GTACTATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.22
Consensus pattern (34 bp):
TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
Found at i:60892035 original size:17 final size:17
Alignment explanation
Indices: 60892013--60892048 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
60892003 CTAATCTATA
*
60892013 TGCAATAGGGACTAAAT
1 TGCAATAAGGACTAAAT
60892030 TGCAATAAGGACTAAAT
1 TGCAATAAGGACTAAAT
60892047 TG
1 TG
60892049 TAAAAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (17 bp):
TGCAATAAGGACTAAAT
Found at i:60893560 original size:45 final size:45
Alignment explanation
Indices: 60893496--60893582 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
60893486 GTTGGACATA
60893496 TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
1 TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
* *
60893541 TATATATATATGTATGCATTTGGCATATGTGGATTATAAGTA
1 TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTA
60893583 TATGTATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (45 bp):
TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
Found at i:60893590 original size:34 final size:35
Alignment explanation
Indices: 60893547--60893620 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 35
60893537 AAAGTATATA
* *
60893547 TATATGTATG-CATTTGGCATATGTGGATT-ATAAG
1 TATATGTATGACATTTGGCACAAGTGG-TTGATAAG
60893581 TATATGTATGTACATTTGGCACAAGTGGTTGATAAG
1 TATATGTATG-ACATTTGGCACAAGTGGTTGATAAG
60893617 TATA
1 TATA
60893621 AAAATATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 10 0.29
35 2 0.06
36 23 0.66
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (35 bp):
TATATGTATGACATTTGGCACAAGTGGTTGATAAG
Found at i:60898117 original size:49 final size:49
Alignment explanation
Indices: 60898045--60898161 Score: 144
Period size: 49 Copynumber: 2.4 Consensus size: 49
60898035 GTTATGGATA
* ** *
60898045 AACCACTGGTCGTTGTAGATAAATTATTGACTGAAATATGTTGTGAACG
1 AACCACTGGTCATTGTAGATAAATTATCAACTAAAATATGTTGTGAACG
* * * * *
60898094 AACCACTGGTCATTTTAGTTAAATTGTCAACTAAAATATGTTGTGGATG
1 AACCACTGGTCATTGTAGATAAATTATCAACTAAAATATGTTGTGAACG
*
60898143 AACCACTAGTCATTGTAGA
1 AACCACTGGTCATTGTAGA
60898162 AAAACTGCTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (49 bp):
AACCACTGGTCATTGTAGATAAATTATCAACTAAAATATGTTGTGAACG
Found at i:60898175 original size:49 final size:49
Alignment explanation
Indices: 60898078--60898198 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 49
60898068 TTATTGACTG
* * * * ** *
60898078 AAATATGTTGTGAACGAACCACTGGTCATTTTAGTTAAATTGTCAACTA
1 AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTGTCAACTA
60898127 AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTG-CTAACTA
1 AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTGTC-AACTA
** *
60898176 AAATACATTGTGGGTGAACCACT
1 AAATATGTTGTGGATGAACCACT
60898199 TTCATCGCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (49 bp):
AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTGTCAACTA
Found at i:60898360 original size:34 final size:33
Alignment explanation
Indices: 60898265--60898408 Score: 114
Period size: 34 Copynumber: 4.3 Consensus size: 33
60898255 ATACAACATG
* * *
60898265 ACATGCTTATAATAGATCAATACGATACCAATA
1 ACATGCTTATAATAGATCAATAAGGTAGCAATA
* * * *
60898298 ACATTCCTATAGAAAG-TCGATATA-GTAGCATATA
1 ACATGCTTATA-ATAGATCAATA-AGGTAGCA-ATA
*
60898332 TCATGCTTATAATAGATCAATAAGGTAGCAATTA
1 ACATGCTTATAATAGATCAATAAGGTAGCAA-TA
* *
60898366 ACATGCTTATAATAGATTATTATA-GTAGCAATAA
1 ACATGCTTATAATAGATCAATA-AGGTAGCAAT-A
*
60898400 ACTTGCTTA
1 ACATGCTTA
60898409 ACATGTATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
33 24 0.28
34 62 0.71
35 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (33 bp):
ACATGCTTATAATAGATCAATAAGGTAGCAATA
Found at i:60902318 original size:24 final size:24
Alignment explanation
Indices: 60902291--60902338 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
60902281 AAAGAAAAAC
*
60902291 TAAAAGATTTCCTAAAAATAATAA
1 TAAAACATTTCCTAAAAATAATAA
60902315 TAAAACATTTCCTAAAAATAATAA
1 TAAAACATTTCCTAAAAATAATAA
60902339 CGAACATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAAACATTTCCTAAAAATAATAA
Found at i:60908658 original size:11 final size:11
Alignment explanation
Indices: 60908596--60908671 Score: 84
Period size: 11 Copynumber: 6.9 Consensus size: 11
60908586 TAAATCCTTT
60908596 CTCTCAAATT-
1 CTCTCAAATTC
* *
60908606 CTCTCATATTT
1 CTCTCAAATTC
60908617 CTCTCCAATATT-
1 CTCT-CAA-ATTC
*
60908629 CTCTCAATTTC
1 CTCTCAAATTC
60908640 CTCTCAAATTC
1 CTCTCAAATTC
60908651 CTCTCAAATTC
1 CTCTCAAATTC
*
60908662 CTCTTAAATT
1 CTCTCAAATT
60908672 ACTTTTAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
10 11 0.19
11 37 0.65
12 6 0.11
13 3 0.05
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:60910523 original size:18 final size:18
Alignment explanation
Indices: 60910500--60910541 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
60910490 GCCAGGTGCA
* *
60910500 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
60910518 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
60910536 TTTCCT
1 TATCCT
60910542 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:60910816 original size:21 final size:21
Alignment explanation
Indices: 60910792--60910831 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60910782 CTATCAGAAG
* *
60910792 AACCAAAATCCCTGTCGGAGC
1 AACCAAAACCCCTGCCGGAGC
*
60910813 AACCACAACCCCTGCCGGA
1 AACCAAAACCCCTGCCGGA
60910832 AGCTGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.40, G:0.17, T:0.10
Consensus pattern (21 bp):
AACCAAAACCCCTGCCGGAGC
Found at i:60910990 original size:34 final size:36
Alignment explanation
Indices: 60910949--60911027 Score: 135
Period size: 34 Copynumber: 2.2 Consensus size: 36
60910939 TTTTGAATAT
60910949 TTTTATATTATTTCATGTAATAAAATA-AAAATTA-
1 TTTTATATTATTTCATGTAATAAAATAGAAAATTAC
*
60910983 TTTTATATTATTTCATGTAATAAAATAGAAATTTAC
1 TTTTATATTATTTCATGTAATAAAATAGAAAATTAC
60911019 TTTTATATT
1 TTTTATATT
60911028 TTTAATAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 27 0.64
35 6 0.14
36 9 0.21
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (36 bp):
TTTTATATTATTTCATGTAATAAAATAGAAAATTAC
Found at i:60911086 original size:58 final size:57
Alignment explanation
Indices: 60911024--60911337 Score: 220
Period size: 58 Copynumber: 5.4 Consensus size: 57
60911014 TTTACTTTTA
60911024 TATTTTTAATAAAATAGAAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
1 TATTTTTAATAAAATA-AAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
* * * * *
60911082 TATTTCATGTAATAAAATAAAATGTTGTTTTGAAT-A--AAGTA-ATTGAA-ATTTACT-TTT
1 TATTT--T-TAATAAAATAAAA--TTCTTTTAAATAAGGAAATATTTTGAATATTT-CTATAT
*
60911139 ATATTTTTAATAAAATATAAATTCTTTTAAATAAGGTAATATTTTGAATATTTCTATAT
1 -TATTTTTAATAAAATA-AAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
* * * * * *
60911198 TATTTCATGTAATAAAATAAAAGGTTGTTCTGAAT-A--AAGTA-ATTGAA-ATTTACTGT-T
1 TATTT--T-TAATAAAATAAAA--TTCTTTTAAATAAGGAAATATTTTGAATATTT-CTATAT
* * *
60911255 ATATTTTTACTAAAATAGAAATTCTTTTAAATAAGGTAATATTTTAAATATTTCTATAT
1 -TATTTTTAATAAAATA-AAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
60911314 TATTTCATTTAATAAAATATAAAT
1 TA-TT--TTTAATAAAATA-AAAT
60911338 AATACAACAT
Statistics
Matches: 196, Mismatches: 29, Indels: 59
0.69 0.10 0.21
Matches are distributed among these distances:
54 17 0.09
55 21 0.11
56 8 0.04
57 17 0.09
58 51 0.26
59 20 0.10
60 8 0.04
61 37 0.19
62 17 0.09
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (57 bp):
TATTTTTAATAAAATAAAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
Found at i:60911130 original size:116 final size:116
Alignment explanation
Indices: 60911010--60911337 Score: 575
Period size: 116 Copynumber: 2.8 Consensus size: 116
60911000 TAATAAAATA
*
60911010 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGAAATATTTTGAATATT
1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
*
60911075 TCTATATTATTTCATGTAATAAAATAAAATGTTGTTTTGAATAAAGTAATT
66 TCTATATTATTTCATGTAATAAAATAAAATGTTGTTCTGAATAAAGTAATT
*
60911126 GAAATTTACTTTTATATTTTTAATAAAATATAAATTCTTTTAAATAAGGTAATATTTTGAATATT
1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
*
60911191 TCTATATTATTTCATGTAATAAAATAAAAGGTTGTTCTGAATAAAGTAATT
66 TCTATATTATTTCATGTAATAAAATAAAATGTTGTTCTGAATAAAGTAATT
* * *
60911242 GAAATTTACTGTTATATTTTTACTAAAATAGAAATTCTTTTAAATAAGGTAATATTTTAAATATT
1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
*
60911307 TCTATATTATTTCATTTAATAAAATATAAAT
66 TCTATATTATTTCATGTAATAAAATA-AAAT
60911338 AATACAACAT
Statistics
Matches: 201, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
116 198 0.99
117 3 0.01
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (116 bp):
GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
TCTATATTATTTCATGTAATAAAATAAAATGTTGTTCTGAATAAAGTAATT
Found at i:60914514 original size:126 final size:126
Alignment explanation
Indices: 60914285--60914702 Score: 608
Period size: 126 Copynumber: 3.3 Consensus size: 126
60914275 TTAGGCCAAA
* * * *
60914285 TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGG
1 TAGGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
* ** *
60914350 ATCCTGCTTAAAGCATTTTTCACATTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTTGCACTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTT
*
60914411 TAGGAACTACTGTAGCAAAAGAACGTCCACATGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
1 TAGGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
* *
60914476 ATCCTGCTTAAAGCGTTTTTTGCACTATTTTCTTAGAAAC-TTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTTGCACTATTTGCTCAGAAACGTT-TTCTCAAAATTATTTTTT
* * * * *
60914537 CAGGAACTACTGTAGCAAAA-AAGCATCCACGCGGGAGTTTCTTTTAGTACTTTTGCTGACAATG
1 TAGGAACTACTGTAGCAAAAGAA-CGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATG
* *
60914601 CATTCTGCTTAAAGCG-TTTTTGCCACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTTAAAGCGTTTTTTG-CACTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTT
* *
60914663 TAGGAACTACTGTAGCAAAATATCGTCCACGTGGGAGCTT
1 TAGGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTT
60914703 TTTTAAATTA
Statistics
Matches: 261, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
125 10 0.04
126 249 0.95
127 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (126 bp):
TAGGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
ATCCTGCTTAAAGCGTTTTTTGCACTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTT
Found at i:60914834 original size:102 final size:98
Alignment explanation
Indices: 60914701--60915067 Score: 329
Period size: 102 Copynumber: 3.8 Consensus size: 98
60914691 ACGTGGGAGC
* * * * *
60914701 TTTTTT-AAATTAACAAATAATTTAATTAAGTAACCCTAAACCCCAAATCCTAATTTATTTGAGT
1 TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAA-CCCAAATCCTAATTTATTTGATT
60914765 TTTTCCTTAAATACCTTACACTAAACCCTGATCTAA
65 TTTTCCTTAAA-ACCTTACACTAAACCCT-ATCTAA
* *
60914801 TTTTTTTTAAATTTATAATTGATTTAATCAAGTAACCCTAAA--C----CCTAATTTATTTGATT
1 -TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAACCCAAATCCTAATTTATTTGATT
60914860 TTTTCCTTAAAACCCTTAACACTAAA--C--TCTAA
65 TTTTCCTTAAAA-CCTT-ACACTAAACCCTATCTAA
* * *
60914892 TTTTTTAAAATTTTATAATTAATTTAATC-AG---CCCTAAACCTAAACCCTAATTTATTTTATT
1 TTTTTTAAAA-TTTATAATTAATTTAATCAAGTAACCCTAAACCCAAATCCTAATTTATTTGATT
* *
60914953 TTTTCCTTAAAAACCATAAACACGAAACCCTAGTCTAA
65 TTTTCCTT-AAAACC-T-TACACTAAACCCTA-TCTAA
* * * * * *
60914991 -TTTTGAAAATTCTATAATTAATTTAATTAAGAAACCCTAAACCCTAATCCTTTATTTATTTAAT
1 TTTTTTAAAATT-TATAATTAATTTAATCAAGTAACCCTAAACCCAAATCC-TAATTTATTTGAT
60915055 TTTTT--TTAAAACC
64 TTTTTCCTTAAAACC
60915068 CTAAACCCTA
Statistics
Matches: 223, Mismatches: 19, Indels: 49
0.77 0.07 0.17
Matches are distributed among these distances:
87 7 0.03
90 11 0.05
91 22 0.10
93 25 0.11
94 14 0.06
95 30 0.13
96 9 0.04
97 2 0.01
98 23 0.10
99 8 0.04
100 6 0.03
101 8 0.04
102 42 0.19
103 16 0.07
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.41
Consensus pattern (98 bp):
TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAACCCAAATCCTAATTTATTTGATTT
TTTCCTTAAAACCTTACACTAAACCCTATCTAA
Found at i:60914877 original size:95 final size:93
Alignment explanation
Indices: 60914739--60915038 Score: 326
Period size: 95 Copynumber: 3.2 Consensus size: 93
60914729 AGTAACCCTA
* * *
60914739 AACCCCAAATCCTAATTTATTTGAGTTTTTCCTTAAATA-CCTTACACTAAACCCTGATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAA-ACCCTTACACTAAACCCT-ATCTAA-T
* *
60914803 TTTTTTAAATTTATAATTGATTTAATCAAGT
63 TTTTTAAAATTTATAATTAATTTAATCAAGT
60914834 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAACCCTTAACACTAAA--C--TCTAATTT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAACCCTT-ACACTAAACCCTATCTAATTT
60914895 TTTAAAATTTTATAATTAATTTAATC-AGCCCT
65 TTTAAAA-TTTATAATTAATTTAATCAAG---T
* * * * *
60914927 AAACCTAAACCCTAATTTATTTTATTTTTTCCTTAAAAACCATAAACACGAAACCCTAGTCTAA-
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTT-AAAACCCT-TACACTAAACCCTA-TCTAAT
* * *
60914991 TTTTGAAAATTCTATAATTAATTTAATTAAGA
63 TTTTTAAAATT-TATAATTAATTTAATCAAGT
60915023 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
60915039 CCTTTATTTA
Statistics
Matches: 176, Mismatches: 14, Indels: 29
0.80 0.06 0.13
Matches are distributed among these distances:
90 11 0.06
91 22 0.12
93 33 0.19
94 16 0.09
95 38 0.22
96 24 0.14
97 2 0.01
98 23 0.13
99 7 0.04
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (93 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAACCCTTACACTAAACCCTATCTAATTTT
TTAAAATTTATAATTAATTTAATCAAGT
Found at i:60916341 original size:29 final size:30
Alignment explanation
Indices: 60916272--60916344 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 30
60916262 GTACTTCAAG
60916272 TTCCTATATTTTTCATATGTTTGGAATTTA
1 TTCCTATATTTTTCATATGTTTGGAATTTA
* *
60916302 GTCCGTCTATTTTT-AT-T-TTTAGGAATTTAA
1 TTCC-TATATTTTTCATATGTTT-GGAATTT-A
60916332 TTCCTATATTTTT
1 TTCCTATATTTTT
60916345 TAGATTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 3 0.08
29 16 0.44
30 9 0.25
31 8 0.22
ACGTcount: A:0.22, C:0.11, G:0.10, T:0.58
Consensus pattern (30 bp):
TTCCTATATTTTTCATATGTTTGGAATTTA
Found at i:60917277 original size:14 final size:14
Alignment explanation
Indices: 60917258--60917297 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60917248 TTGATTGGCA
60917258 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
60917272 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
60917286 GGAAAATGTTTT
1 GTAAAATGTTTT
60917298 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:60917306 original size:20 final size:20
Alignment explanation
Indices: 60917281--60917320 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60917271 CGTAAAATGA
*
60917281 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
60917301 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
60917321 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:60917310 original size:34 final size:35
Alignment explanation
Indices: 60917266--60917332 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
60917256 CAGTAAAATG
*
60917266 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
60917300 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
60917333 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:60917444 original size:20 final size:20
Alignment explanation
Indices: 60917419--60917457 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60917409 GTTTTTACAT
60917419 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
60917439 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
60917458 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:60932757 original size:12 final size:13
Alignment explanation
Indices: 60932724--60932812 Score: 67
Period size: 12 Copynumber: 6.7 Consensus size: 13
60932714 AAAACAATTA
*
60932724 TATATATAATTAT
1 TATATATAAATAT
*
60932737 GA-ATATAAATAT
1 TATATATAAATAT
60932749 TATAT-TAAATAT
1 TATATATAAATAT
*
60932761 GA-ATATAAATATT
1 TATATATAAATA-T
*
60932774 TATATGTACAATAT
1 TATATATA-AATAT
*
60932788 ATAAATATAAAATAAT
1 -TATATAT-AAAT-AT
60932804 TATATATAA
1 TATATATAA
60932813 TTATGAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
11 2 0.03
12 24 0.41
13 5 0.08
14 7 0.12
15 18 0.31
16 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (13 bp):
TATATATAAATAT
Found at i:60932760 original size:82 final size:79
Alignment explanation
Indices: 60932661--60932822 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 79
60932651 CAGTTTATTT
*
60932661 TAAATATTATAAAAATATGAATAAAAATATTTATGTATACAATATATAAACATAAAACAATTATA
1 TAAATATTATAAAAATATGAATAAAAATATTTATATATACAATATATAAACATAAAACAA-T-TA
60932726 TATATAATTATGAATA
64 TATATAATTATGAATA
* * * * *
60932742 TAAATATTATATTAAATATGAATATAAATATTTATATGTACAATATATAAATATAAAATAATTAT
1 TAAATATTATA-AAAATATGAATAAAAATATTTATATATACAATATATAAACATAAAACAATTAT
60932807 ATATAATTATGAATA
65 ATATAATTATGAATA
60932822 T
1 T
60932823 TGAATTAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 19 0.26
81 12 0.16
82 43 0.58
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (79 bp):
TAAATATTATAAAAATATGAATAAAAATATTTATATATACAATATATAAACATAAAACAATTATA
TATAATTATGAATA
Found at i:60932801 original size:30 final size:30
Alignment explanation
Indices: 60932675--60932822 Score: 131
Period size: 30 Copynumber: 5.3 Consensus size: 30
60932665 TATTATAAAA
* *
60932675 ATATGAATA-AAAATATTTATGTATACAAT
1 ATATGAATATAAAATAATTATATATACAAT
* * * *
60932704 ATATAAACATAAAACAATTATATATATAAT
1 ATATGAATATAAAATAATTATATATACAAT
60932734 -TATGAATAT-AAAT-ATTATAT-T--AA-
1 ATATGAATATAAAATAATTATATATACAAT
* *
60932757 ATATGAATAT-AAATATTTATATGTACAAT
1 ATATGAATATAAAATAATTATATATACAAT
*
60932786 ATATAAATATAAAATAATTATATAT--AAT
1 ATATGAATATAAAATAATTATATATACAAT
60932814 -TATGAATAT
1 ATATGAATAT
60932823 TGAATTAAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
24 15 0.15
25 6 0.06
26 2 0.02
27 15 0.15
28 8 0.08
29 23 0.24
30 28 0.29
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (30 bp):
ATATGAATATAAAATAATTATATATACAAT
Found at i:60932809 original size:42 final size:42
Alignment explanation
Indices: 60932685--60932809 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 42
60932675 ATATGAATAA
* * *
60932685 AAATATTTATGTATACAATATATAAACATAAAACAATTATAT
1 AAATATTTATATATACAATATATAAATATAAAATAATTATAT
* * * *
60932727 ATATAATTATGAATATA-AATAT-T--ATATTAAAT-ATGAATAT
1 AAATATTTAT--ATATACAATATATAAATATAAAATAAT-TATAT
*
60932767 AAATATTTATATGTACAATATATAAATATAAAATAATTATAT
1 AAATATTTATATATACAATATATAAATATAAAATAATTATAT
60932809 A
1 A
60932810 TAATTATGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
38 4 0.06
39 7 0.11
40 19 0.30
42 22 0.35
43 7 0.11
44 4 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (42 bp):
AAATATTTATATATACAATATATAAATATAAAATAATTATAT
Found at i:60935139 original size:18 final size:16
Alignment explanation
Indices: 60935092--60935144 Score: 56
Period size: 15 Copynumber: 3.3 Consensus size: 16
60935082 TTAAATCGAG
60935092 TTAAATTGTT-ATTTT
1 TTAAATTGTTAATTTT
**
60935107 TTAAA-TGAAAATTTT
1 TTAAATTGTTAATTTT
60935122 GATTAAATTGTTAATTTT
1 --TTAAATTGTTAATTTT
60935140 TTAAA
1 TTAAA
60935145 CATTATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.33
16 5 0.17
17 5 0.17
18 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (16 bp):
TTAAATTGTTAATTTT
Found at i:60935258 original size:19 final size:20
Alignment explanation
Indices: 60935234--60935274 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
60935224 AGTTTTATGA
*
60935234 TTTTATATTTTTTAAA-TAT
1 TTTTATAATTTTTAAATTAT
60935253 TTTTATAATTTTTAAATTAT
1 TTTTATAATTTTTAAATTAT
60935273 TT
1 TT
60935275 ATTGATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTTTAAATTAT
Found at i:60936331 original size:20 final size:19
Alignment explanation
Indices: 60936279--60936333 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
60936269 TTTATTAATT
60936279 TTTTAAA-TTTTTTTAAAA
1 TTTTAAATTTTTTTTAAAA
* *
60936297 TTTT-AATAATGTTTTACAAA
1 TTTTAAAT-TTTTTTTA-AAA
60936317 TTTTAAATTTTTTTTAA
1 TTTTAAATTTTTTTTAA
60936334 TTTAGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 7 0.24
20 13 0.45
21 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAAATTTTTTTTAAAA
Found at i:60937120 original size:50 final size:52
Alignment explanation
Indices: 60937040--60937149 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 52
60937030 AATCCAACCG
* *
60937040 GTAACACGCCTCAACACCAAGTGCCTAGCCC-ATAGGC-TAACATCC-CTCCT
1 GTAACACACCTCAACACCAAGTGCCAAGCCCGA-AGGCTTAACATCCGCTCCT
* * *
60937090 GTAACACACCTCGACACTAAGTGCCAAGCCCGAAGGCTTTACATCCGCTCCT
1 GTAACACACCTCAACACCAAGTGCCAAGCCCGAAGGCTTAACATCCGCTCCT
60937142 GTTAACAC
1 G-TAACAC
60937150 GCCAAAAACA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
50 31 0.61
51 8 0.16
52 6 0.12
53 6 0.12
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.19
Consensus pattern (52 bp):
GTAACACACCTCAACACCAAGTGCCAAGCCCGAAGGCTTAACATCCGCTCCT
Found at i:60938141 original size:3 final size:3
Alignment explanation
Indices: 60938133--60938195 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
60938123 AATTGTTTCT
60938133 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60938181 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
60938196 AATACCTTTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60940122 original size:85 final size:86
Alignment explanation
Indices: 60940020--60940180 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 86
60940010 TACAATAAAC
* *
60940020 GCCGCTATAAACAATGGTCTTTAGCGGCGCTGT-TGCATCAATA-GCCGCCATAGACCGTGGTCT
1 GCCGCTATAAACAATGGTCTTTAGCGGCGCT-TCTGCATCAAAACGCCGCCATAGACCATGGTCT
* *
60940083 TTAGCGGTGCTTTGCATCAAAT
65 TTAACGGCGCTTTGCATCAAAT
* * *
60940105 GCCGCTATAAACCATGGTCTTTAGCTGCGCTTCTGCATCAAAACGCCGCTATAGACCATGGTCTT
1 GCCGCTATAAACAATGGTCTTTAGCGGCGCTTCTGCATCAAAACGCCGCCATAGACCATGGTCTT
60940170 TAACGGCGCTT
66 TAACGGCGCTT
60940181 ACCCGTCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 1 0.01
85 38 0.57
86 28 0.42
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (86 bp):
GCCGCTATAAACAATGGTCTTTAGCGGCGCTTCTGCATCAAAACGCCGCCATAGACCATGGTCTT
TAACGGCGCTTTGCATCAAAT
Found at i:60940123 original size:42 final size:42
Alignment explanation
Indices: 60940020--60940393 Score: 222
Period size: 43 Copynumber: 8.8 Consensus size: 42
60940010 TACAATAAAC
*
60940020 GCCGCTATAAACAATGGTCTTTAGCGGCGCTGTTGCATC-AAT
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCT-TTGCATCAAAT
* * * *
60940062 AGCCGCCATAGACCGTGGTCTTTAGCGGTGCTTTGCATCAAAT
1 -GCCGCTATAAACCATGGTCTTTAGCGGCGCTTTGCATCAAAT
* *
60940105 GCCGCTATAAACCATGGTCTTTAGCTGCGCTTCTGCATCAAAAC
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCTT-TGCATC-AAAT
* * ** * *
60940149 GCCGCTATAGACCATGGTCTTTAACGGCGCTTACCCGTCAAAC
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCTT-TGCATCAAAT
* * * * * *
60940192 GCCGTTATAGACCA-GGATATTTCGC-GCGCTTTTCCAT-AAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGC-TTTGCATCAAAT
* * * * *
60940233 GCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTCCCATAAAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGCTTT-GCATCAAAT
* * * * * *
60940276 GCCGCTATAGACCA-GGATCTTTTGCGGCGTTTTCCCATAAAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGCTTT-GCATCAAAT
* * * * * *
60940319 GCCGCTATAGACTA-GGATCTTTCGCGGTGCTTTCCCATCAAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGCTTT-GCATCAAAT
* * * *
60940362 GCCGCTAGAGACCTTGGTCTCTAGCGGCGCTT
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCTT
60940394 AAAAACAAAC
Statistics
Matches: 283, Mismatches: 39, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
41 30 0.11
42 51 0.18
43 165 0.58
44 37 0.13
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (42 bp):
GCCGCTATAAACCATGGTCTTTAGCGGCGCTTTGCATCAAAT
Found at i:60940221 original size:86 final size:85
Alignment explanation
Indices: 60940016--60940374 Score: 338
Period size: 86 Copynumber: 4.2 Consensus size: 85
60940006 TTTTTACAAT
* * * * * *
60940016 AAACGCCGCTATAAACAATGG-TCTTTAGCGGCGCTGTTGCATCAATA-GCCGCCATAGACC-GT
1 AAACGCCGCTATAGACCA-GGATCTTTAGC-GCGCTTTTCCAT-AAAACGCCGCTATAGACCAG-
* * *
60940078 GGTCTTTAGCGGTGCTTT-GCATC
62 GATCTTTAGCGGCGCTTTCCCATC
* * * *
60940101 AAATGCCGCTATAAACCATGG-TCTTTAGCTGCGCTTCTGCATCAAAACGCCGCTATAGACCATG
1 AAACGCCGCTATAGACCA-GGATCTTTAGC-GCGCTTTTCCAT-AAAACGCCGCTATAGACCA-G
* * *
60940165 G-TCTTTAACGGCGCTTACCCGTC
62 GATCTTTAGCGGCGCTTTCCCATC
* * *
60940188 AAACGCCGTTATAGACCAGGATATTTCGCGCGCTTTTCCAT-AAACGCCGCTATAGACCAGGATC
1 AAACGCCGCTATAGACCAGGATCTTTAGCGCGCTTTTCCATAAAACGCCGCTATAGACCAGGATC
* *
60940252 TTTCGCGGCGCTTTCCCATA
66 TTTAGCGGCGCTTTCCCATC
* *
60940272 AAACGCCGCTATAGACCAGGATCTTTTGCG-GCGTTTTCCCATAAAACGCCGCTATAGACTAGGA
1 AAACGCCGCTATAGACCAGGATCTTTAGCGCGC-TTTT-CCATAAAACGCCGCTATAGACCAGGA
* *
60940336 TCTTTCGCGGTGCTTTCCCATC
64 TCTTTAGCGGCGCTTTCCCATC
*
60940358 AAACGCCGCTAGAGACC
1 AAACGCCGCTATAGACC
60940375 TTGGTCTCTA
Statistics
Matches: 234, Mismatches: 31, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
83 4 0.02
84 66 0.28
85 45 0.19
86 93 0.40
87 25 0.11
88 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTATAGACCAGGATCTTTAGCGCGCTTTTCCATAAAACGCCGCTATAGACCAGGATC
TTTAGCGGCGCTTTCCCATC
Found at i:60940254 original size:84 final size:86
Alignment explanation
Indices: 60940144--60940374 Score: 317
Period size: 84 Copynumber: 2.7 Consensus size: 86
60940134 CTTCTGCATC
** * * *
60940144 AAAACGCCGCTATAGACCATGG-TCTTTAACGGCGCTTACCCGTCAAACGCCGTTATAGACCAGG
1 AAAACGCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACCAGG
60940208 ATATTTCGC-GCGCTTTT-CCAT
65 ATATTTCGCGGCG-TTTTCCCAT
*
60940229 -AAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAACGCCGCTATAGACCAGGA
1 AAAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACCAGGA
* *
60940293 TCTTTTGCGGCGTTTTCCCAT
66 TATTTCGCGGCGTTTTCCCAT
* * *
60940314 AAAACGCCGCTATAGACTAGGATCTTTCGCGGTGCTTTCCCATCAAACGCCGCTAGAGACC
1 AAAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACC
60940375 TTGGTCTCTA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
83 2 0.02
84 65 0.50
85 7 0.05
86 56 0.43
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (86 bp):
AAAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACCAGGA
TATTTCGCGGCGTTTTCCCAT
Found at i:60940290 original size:43 final size:43
Alignment explanation
Indices: 60940105--60940374 Score: 307
Period size: 43 Copynumber: 6.3 Consensus size: 43
60940095 TGCATCAAAT
* * * *
60940105 GCCGCTATAAACCATGG-TCTTTAGCTGCGC-TTCTGCATCAAAAC
1 GCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTC-CCAT-AAAAC
** * * *
60940149 GCCGCTATAGACCATGG-TCTTTAACGGCGCTTACCCGTCAAAC
1 GCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTCCCATAAAAC
* * *
60940192 GCCGTTATAGACCAGGATATTTCGC-GCGCTTTTCCAT-AAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
60940233 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
* *
60940276 GCCGCTATAGACCAGGATCTTTTGCGGCGTTTTCCCATAAAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
* * *
60940319 GCCGCTATAGACTAGGATCTTTCGCGGTGCTTTCCCATCAAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
*
60940362 GCCGCTAGAGACC
1 GCCGCTATAGACC
60940375 TTGGTCTCTA
Statistics
Matches: 196, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
41 27 0.14
42 22 0.11
43 116 0.59
44 29 0.15
45 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (43 bp):
GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
Found at i:60940524 original size:14 final size:14
Alignment explanation
Indices: 60940507--60940536 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
60940497 AATCAGAAGA
60940507 AACCAAATCTAACC
1 AACCAAATCTAACC
60940521 AACCAAATCTAACC
1 AACCAAATCTAACC
60940535 AA
1 AA
60940537 ATCTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCAAATCTAACC
Found at i:60940878 original size:21 final size:21
Alignment explanation
Indices: 60940849--60940899 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
60940839 TTTCGTTGAA
* * *
60940849 CCTCAGCTTCTCTCGCTGCTG
1 CCTCTGCTTCTATCGCTGCCG
60940870 CCTCTGCTTCTATCGCTGCCG
1 CCTCTGCTTCTATCGCTGCCG
*
60940891 CATCTGCTT
1 CCTCTGCTT
60940900 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.41, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTATCGCTGCCG
Found at i:60940923 original size:87 final size:87
Alignment explanation
Indices: 60940786--60940965 Score: 256
Period size: 87 Copynumber: 2.1 Consensus size: 87
60940776 GCAGTAGCCG
* *
60940786 CTGCTTCTCTCGCTGCCACATCTGCTTTAAGCTGCTGCTGGAGTTGTTCATA-CTTTCGTTGAAC
1 CTGCTTCTATCGCTGCCACATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTTGAAC
*
60940850 CTCAGCTTCTCTCGCTGCTGCCT
65 CTCAGCTTCTCTCGATGCTGCCT
* * *
60940873 CTGCTTCTATCGCTGCCGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTGAAC
1 CTGCTTCTATCGCTGCCACATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATATCTTTGTTGAAC
*
60940937 CTCAGCTTCTCTCGATGTTGCCT
65 CTCAGCTTCTCTCGATGCTGCCT
*
60940960 CCGCTT
1 CTGCTT
60940966 TAAGTTGTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 78 0.94
88 4 0.05
ACGTcount: A:0.12, C:0.30, G:0.19, T:0.39
Consensus pattern (87 bp):
CTGCTTCTATCGCTGCCACATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGAACC
TCAGCTTCTCTCGATGCTGCCT
Found at i:60942328 original size:18 final size:17
Alignment explanation
Indices: 60942302--60942336 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60942292 AAAGTATTGT
*
60942302 AATATAATAAATTAATAA
1 AATAAAATAAA-TAATAA
60942320 AATAAAATAAATAATAA
1 AATAAAATAAATAATAA
60942337 GTCAACACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAATAAATAATAA
Found at i:60946887 original size:14 final size:14
Alignment explanation
Indices: 60946849--60946888 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
60946839 GTGTTTAAAA
*
60946849 TTAAAATTTAATGT
1 TTAAAATTTATTGT
60946863 TTAAAATTTATTGT
1 TTAAAATTTATTGT
60946877 TTAAAATTTATT
1 TTAAAATTTATT
60946889 TGGTGTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
TTAAAATTTATTGT
Found at i:60948425 original size:16 final size:16
Alignment explanation
Indices: 60948404--60948434 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60948394 GAAAATGGAG
60948404 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
60948420 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
60948435 GAGGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:60949054 original size:14 final size:15
Alignment explanation
Indices: 60949022--60949063 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
60949012 TTTGTGCAGT
60949022 ATATATAATATATAAC
1 ATATAT-ATATATAAC
*
60949038 ATATATATATAT-GC
1 ATATATATATATAAC
*
60949052 ATAGATATATAT
1 ATATATATATAT
60949064 CGTGGCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (15 bp):
ATATATATATATAAC
Found at i:60949427 original size:20 final size:20
Alignment explanation
Indices: 60949404--60949457 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
60949394 AACATGTAAA
**
60949404 CTCAAACCCTAAACCCATTC
1 CTCAAACCCTAAACCCAAAC
* * *
60949424 CTCAAGCCGTAAACCTAAAC
1 CTCAAACCCTAAACCCAAAC
*
60949444 CTAAAACCCTAAAC
1 CTCAAACCCTAAAC
60949458 ATAAAATTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.39, G:0.04, T:0.17
Consensus pattern (20 bp):
CTCAAACCCTAAACCCAAAC
Found at i:60950374 original size:793 final size:797
Alignment explanation
Indices: 60948837--60950637 Score: 2745
Period size: 793 Copynumber: 2.2 Consensus size: 797
60948827 TTTGCAATAA
*
60948837 ACGCCACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTATTTTTTCAATTTATTT
1 ACGCCACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTT
*
60948902 TATTTGTCTTTATTTATAAGTTTAATGATTTTTAATAGA-TTTTT-TTTT-ATAATTGTTATGAC
66 TATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGAC
* * *
60948964 ATTATTTTAAATTGATACATTAATATGCATTTATAAAATTATTTCAATTTTGTGCAGTATATATA
131 ATTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATA
60949029 ATATATAACATATATATATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTC
196 ATATATAAC----A-ATATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTC
* *
60949094 ACTTATAATCCTATATACGAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTTATTTTTTT
256 ACTTACAATCCTATATACGAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTTA--TATTT
* * *
60949159 TAATTTTTTGCTTTTGTACCTTAAAACCCGAAGCTATTAATCCCTATAATCCGTAAACATTAAAA
319 T-ATTTTTTGCTTTTGTACCCTAAAACCCGAAGCTATTAATACCTATAACCCGTAAACATTAAAA
* * *
60949224 TTAAAGGCTAAACCCTAGCTAACTCGTATTCTTCATGCAAATCCGAACGCAAAAACCAAGCATTG
383 TTAAAGACTAAACCCTAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTG
* * *
60949289 TAACATTCAAATCAATAAGTGTGAACCATAAACCATAAACATCAAGCCGTAAAACAGTAAATTTG
448 TAACATTCAAATCAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTG
60949354 ATCATTACATCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACC
513 ATCATTACATCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACC
*
60949419 CATTCCTCAAGCCGTAAACCTAAACCTAAAACCCTAAACATAAAATTATAATCCTAAATTAATAA
578 CATTCCTCAAGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAA
* *
60949484 ACATTATGTATCGAACCCTAAAACCCCAAACCATATGCAACAAAACTTAAATATTAATCCCAATA
643 ACATTATGTATCGAACCCTAAAACCCCAAACCATATACAACAAAACTTAAATATTAATCCCAAAA
* *
60949549 CCCTAAAATACATAACTTTCATTTGCGGCGTTTTTA-CAAAAAAC-GCCGCT-AATACCAA-T-A
708 CCCTAAAATACATAACTTTCATTTGCGGCGTTTTTACCAAAAAACAG--GATAAAAACCAAGTCA
60949609 AACAGTATA-A-A-AACGAAGTCGTTT-C
771 AACAGT-TACACATAACGAAGT-GTTTGC
* ** * *
60949634 -GGTTACAAATCTTGTTCTATAGCGGCGTTTTCTATATAAACGCCGCTAATTTTTCAATTTATTT
1 ACGCCACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTT
*
60949698 TATTTGTCTTTATTTATAAGTCTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGAC
66 TATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGAC
* *
60949763 ATTATTTTAAATTGATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAATATGTATA
131 ATTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATA
*
60949828 ATATATAAC-ATATATGCATAGATATATATCGTGGCATATTATATATATATATAACCTTGTCACT
196 ATATATAACAATATATGCATAGATATATATCGTGGCATA-TAT-TATATATATAACCCTGTCACT
*
60949892 TACAATCCTATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAA-TTTTA-ATTTT-TTT
259 TACAATCCTATATACGAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTTATATTTTATTT
60949954 TTTGCTTTTGTACCCTAAAACCCGAAGCTATTAATACCTATAACCCGTAAACATTAAAATTAAAG
324 TTTGCTTTTGTACCCTAAAACCCGAAGCTATTAATACCTATAACCCGTAAACATTAAAATTAAAG
* * *
60950019 ACTAAACCCTAGCTACCTCATATTCTTCATGGAAATCTGAACACAAAAACCAAGCATTGTAACAT
389 ACTAAACCCTAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACAT
60950084 TCAAATCAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATT
454 TCAAATCAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCA-T
* *
60950149 AATATATCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAATCCTAAACCCTA
518 --TACATCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCC-A
* *
60950214 TTCCTCAAGCCGTAAACCTAAACCCAAAATCCTAAACATAAAATTGTAATCCTAAATTAATAAAC
580 TTCCTCAAGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAAC
* *
60950279 ATTATGTATCGAACCCTAAAACCCTAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACC
645 ATTATGTATCGAACCCTAAAACCCCAAACCATATACAACAAAACTTAAATATTAATCCCAAAACC
* * * * ***
60950344 CTAAAATACATAACTTTCATTTGTGGCGTTTTTACCAATAAACAGTATAAAAACGAAGTCGTTTC
710 CTAAAATACATAACTTTCATTTGCGGCGTTTTTACCAAAAAACAGGATAAAAACCAAGTC-AAAC
* ** ** *
60950409 GGTTACACATTTTGCGGCGTTTTTGC
774 AGTTACACA--TAACGAAGTGTTTGC
* *
60950435 AATAAACGCCACAAATCTTGTTCTAAAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTTAATT
1 -----ACGCCACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATT
60950500 TATTTTATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTTATTTTGATAATTGT
61 TATTTTATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGA-TTTTTTATTTTGATAATTGT
60950565 TATGACATTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTA
125 TATGACATTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTA
60950630 TGTATAAT
190 TGTATAAT
60950638 TTAAATATAA
Statistics
Matches: 913, Mismatches: 63, Indels: 45
0.89 0.06 0.04
Matches are distributed among these distances:
789 184 0.20
790 1 0.00
791 4 0.00
792 59 0.06
793 187 0.20
794 21 0.02
795 69 0.08
796 97 0.11
797 9 0.01
798 5 0.01
799 83 0.09
800 3 0.00
801 5 0.01
807 95 0.10
808 91 0.10
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (797 bp):
ACGCCACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTT
TATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGAC
ATTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATA
ATATATAACAATATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTCACTTA
CAATCCTATATACGAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTTATATTTTATTTTT
TGCTTTTGTACCCTAAAACCCGAAGCTATTAATACCTATAACCCGTAAACATTAAAATTAAAGAC
TAAACCCTAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTC
AAATCAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTAC
ATCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCATTCCTC
AAGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATG
TATCGAACCCTAAAACCCCAAACCATATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAA
TACATAACTTTCATTTGCGGCGTTTTTACCAAAAAACAGGATAAAAACCAAGTCAAACAGTTACA
CATAACGAAGTGTTTGC
Found at i:60951308 original size:113 final size:113
Alignment explanation
Indices: 60951110--60951341 Score: 410
Period size: 113 Copynumber: 2.1 Consensus size: 113
60951100 GTTTAACGCC
* *
60951110 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGTTTGGGCAAAACCGCCACAAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACAAATGTTCCCAAATA
60951175 TATGAAAACGGCGTCGTTCTGTGTTACTCAATTACGGCGCTTTTTATA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCAATTACGGCGCTTTTTATA
*
60951223 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACAAATGTTCCCAAATA
* * *
60951288 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCAATTACGGCGCTTTTTATA
60951336 AAACGC
1 AAACGC
60951342 TGCTAATGCT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (113 bp):
AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACAAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCAATTACGGCGCTTTTTATA
Found at i:60951465 original size:41 final size:40
Alignment explanation
Indices: 60951321--60951468 Score: 124
Period size: 40 Copynumber: 3.7 Consensus size: 40
60951311 TTACTCTATT
* * *
60951321 GCGGCGCTTTTT-GTAAAACGCTGCTAATGCTTGGT-TTTA
1 GCGGCG-TTTTTCGTAAAACGCCGCTAATGCTCGATATTTA
* * * *
60951360 GCGGCGTTTTT-TTATGTAGCGCCGCTAATGCTCGATATTTT
1 GCGGCGTTTTTCGTA--AAACGCCGCTAATGCTCGATATTTA
*
60951401 GCGGCGTTTTTCGTAAAATGCCGCTAATGCTCGAT-TGTTA
1 GCGGCGTTTTTCGTAAAACGCCGCTAATGCTCGATAT-TTA
* * *
60951441 GTGGCGTTTTTTGTCCAAACGCCGCTAA
1 GCGGCGTTTTTCGT-AAAACGCCGCTAA
60951469 AAGCACCGCT
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
38 7 0.08
39 7 0.08
40 46 0.53
41 25 0.29
42 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (40 bp):
GCGGCGTTTTTCGTAAAACGCCGCTAATGCTCGATATTTA
Found at i:60952224 original size:21 final size:21
Alignment explanation
Indices: 60952200--60952252 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
60952190 TATTGTTTCC
*
60952200 AATCTCACCGCTACAGTATCT
1 AATCTCACCGCTACAGTAACT
60952221 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACT
60952242 AATCTCACCGC
1 AATCTCACCGC
60952253 CACCACTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACT
Found at i:60953772 original size:19 final size:18
Alignment explanation
Indices: 60953747--60953788 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
60953737 AATTTTTTTA
60953747 TAAATTTATAAAAAATAT
1 TAAATTTATAAAAAATAT
*
60953765 TGAAATTTATAAAAAGTAT
1 T-AAATTTATAAAAAATAT
60953784 TAAAT
1 TAAAT
60953789 AAAATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAATTTATAAAAAATAT
Found at i:60953818 original size:25 final size:23
Alignment explanation
Indices: 60953788--60953847 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 23
60953778 AAGTATTAAA
60953788 TAAAATTCAAATATT-TCAAAAAAAT
1 TAAAATT-AAA-ATTAT-AAAAAAAT
60953813 TAAAATTAAAATTAATAAAAAAAT
1 TAAAATTAAAATT-ATAAAAAAAT
60953837 TAAAAATTAAA
1 T-AAAATTAAA
60953848 TCTTTGAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.09
24 12 0.38
25 17 0.53
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAATTAAAATTATAAAAAAAT
Found at i:60954047 original size:80 final size:80
Alignment explanation
Indices: 60953914--60954076 Score: 299
Period size: 80 Copynumber: 2.0 Consensus size: 80
60953904 AAAAAATTTC
* *
60953914 AAATTGAGTTTGAATGATAAAATAGAACTCGTGAACTCGATTAACTCGAAATTTTTTTACTCGAT
1 AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAACTCGAAATTTTTTCACTCGAT
60953979 TCGAGTAAATTCGAT
66 TCGAGTAAATTCGAT
*
60953994 AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAATTCGAAATTTTTTCACTCGAT
1 AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAACTCGAAATTTTTTCACTCGAT
60954059 TCGAGTAAATTCGAT
66 TCGAGTAAATTCGAT
60954074 AAA
1 AAA
60954077 ACATTCACCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (80 bp):
AAATTGAGTTTGAATGATAAAATAAAACTCGTGAACTCGATTAACTCGAAATTTTTTCACTCGAT
TCGAGTAAATTCGAT
Found at i:60955677 original size:17 final size:17
Alignment explanation
Indices: 60955639--60955678 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
60955629 TTGTTAGATC
60955639 TAATAAATTAAAGTGAA
1 TAATAAATTAAAGTGAA
* * *
60955656 CAATAAATTAATGTGGA
1 TAATAAATTAAAGTGAA
60955673 TAATAA
1 TAATAA
60955679 TATTTATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (17 bp):
TAATAAATTAAAGTGAA
Found at i:60960766 original size:3 final size:3
Alignment explanation
Indices: 60960758--60960787 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
60960748 TCATTCATGG
60960758 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60960788 TATTTCGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:60972513 original size:16 final size:16
Alignment explanation
Indices: 60972483--60972516 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60972473 CTTTCTCTTA
**
60972483 TTTGTTGATGGAACTT
1 TTTGTTGATCCAACTT
60972499 TTTGTTGATCCAACTT
1 TTTGTTGATCCAACTT
60972515 TT
1 TT
60972517 CATTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTGTTGATCCAACTT
Found at i:60976795 original size:22 final size:22
Alignment explanation
Indices: 60976763--60976814 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
60976753 GCTCCAGATT
60976763 TTCCTTCAGGCGAAGACCTATC
1 TTCCTTCAGGCGAAGACCTATC
*
60976785 TTCCTTTAGGCGAAGACCTATC
1 TTCCTTCAGGCGAAGACCTATC
*
60976807 TTTCTTCA
1 TTCCTTCA
60976815 CAAAACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (22 bp):
TTCCTTCAGGCGAAGACCTATC
Found at i:60978957 original size:9 final size:9
Alignment explanation
Indices: 60978943--60978997 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
60978933 TATAGTTTGA
60978943 TATTCGAAT
1 TATTCGAAT
60978952 TATTCGAAT
1 TATTCGAAT
*
60978961 TATTCGAGT
1 TATTCGAAT
*
60978970 TATTCAAAT
1 TATTCGAAT
*
60978979 TATTCGAGT
1 TATTCGAAT
60978988 TATTCGAAT
1 TATTCGAAT
60978997 T
1 T
60978998 CGAAAACTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60978966 original size:18 final size:18
Alignment explanation
Indices: 60978943--60978997 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
60978933 TATAGTTTGA
*
60978943 TATTCGAATTATTCGAAT
1 TATTCGAGTTATTCGAAT
*
60978961 TATTCGAGTTATTCAAAT
1 TATTCGAGTTATTCGAAT
60978979 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
60978997 T
1 T
60978998 CGAAAACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:60979183 original size:11 final size:11
Alignment explanation
Indices: 60979167--60979191 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60979157 TTGGTCATCC
60979167 TTTTTTTATTT
1 TTTTTTTATTT
60979178 TTTTTTTATTT
1 TTTTTTTATTT
60979189 TTT
1 TTT
60979192 GGATTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:60983442 original size:24 final size:24
Alignment explanation
Indices: 60983415--60983460 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
60983405 CTAATTAAAT
* *
60983415 CTTATAAATAATTAATATTTATTG
1 CTTAAAAATAATTAAAATTTATTG
*
60983439 CTTAAAAATATTTAAAATTTAT
1 CTTAAAAATAATTAAAATTTAT
60983461 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
CTTAAAAATAATTAAAATTTATTG
Found at i:60983710 original size:13 final size:13
Alignment explanation
Indices: 60983653--60983718 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
60983643 TTTAAACCAA
*
60983653 ACTTTTCAGAAGC
1 ACTTTTCAAAAGC
**
60983666 ACTCCTCAAAAGC
1 ACTTTTCAAAAGC
* *
60983679 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
* *
60983692 ATTTTTCAAAAGT
1 ACTTTTCAAAAGC
60983705 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
60983718 A
1 A
60983719 TTGCCAAACT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:60996762 original size:26 final size:26
Alignment explanation
Indices: 60996732--60996783 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
60996722 TAAGAAGTAT
60996732 ATCTGATAGCAAGGATTCACCCAAAA
1 ATCTGATAGCAAGGATTCACCCAAAA
60996758 ATCTGATAGCAAGGATTCACCCAAAA
1 ATCTGATAGCAAGGATTCACCCAAAA
60996784 GCCTTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.19
Consensus pattern (26 bp):
ATCTGATAGCAAGGATTCACCCAAAA
Found at i:60999210 original size:14 final size:15
Alignment explanation
Indices: 60999193--60999224 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
60999183 TCCATTTTTT
60999193 AAATTTATTTTAA-A
1 AAATTTATTTTAAGA
60999207 AAA-TTATTTTAAGA
1 AAATTTATTTTAAGA
60999221 AAAT
1 AAAT
60999225 AAGAATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATTTATTTTAAGA
Found at i:60999654 original size:5 final size:5
Alignment explanation
Indices: 60999637--60999671 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
60999627 GGTTTCACTT
60999637 TTTTA TGTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTT
60999672 TAGAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:61003918 original size:44 final size:41
Alignment explanation
Indices: 61003812--61003923 Score: 107
Period size: 44 Copynumber: 2.7 Consensus size: 41
61003802 TCAATCTACC
* *
61003812 CCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTGCT
1 CCACTACAACTTCAGGGAGATAAGATTGGATGCAATCCGCT
* ** * **
61003853 CTACTACAACTTCAGATAGATAAGATCAATGGTTTTAATCCGCT
1 CCACTACAACTTCAGGGAGATAAGAT---TGGATGCAATCCGCT
* *
61003897 CCACTGCAACTTCAGGGAGATAGGATT
1 CCACTACAACTTCAGGGAGATAAGATT
61003924 TTTGGCTTCA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
41 24 0.44
44 31 0.56
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
CCACTACAACTTCAGGGAGATAAGATTGGATGCAATCCGCT
Found at i:61003960 original size:129 final size:128
Alignment explanation
Indices: 61003711--61003967 Score: 311
Period size: 129 Copynumber: 2.0 Consensus size: 128
61003701 TATAAAATCT
* * * * * *
61003711 GATGTGATCTGTTCTACTGCAACTTCAGAGAAATAAGACCCATCATTTTAATCCGCTTCACTGTA
1 GATGCGATCTGCTCTACTACAACTTCAGAGAAATAAGACCAATCATTTTAATCCGCTCCACTGCA
*
61003776 ACTTCAAGAAGATAGGATTGGTTTCTTCAATCTACCCCACTACAACTTCAGGGAGATAAGATTG
66 ACTTCAAGAAGATAGGATT-GTTTCTTCAATCTACCCCACTACAACTTCAAGGAGATAAGATTG
* * * **
61003840 GATGCGATCTGCTCTACTACAACTTCAGATAGATAAGATCAATGGTTTTAATCCGCTCCACTGCA
1 GATGCGATCTGCTCTACTACAACTTCAGAGAAATAAGACCAATCATTTTAATCCGCTCCACTGCA
* * ** *
61003905 ACTTCAGGGAGATAGGATT-TTTGGCTTCAATCTATTCCACTGCAAACTT-AAGGAGATAAGATT
66 ACTTCAAGAAGATAGGATTGTTT--CTTCAATCTACCCCACTAC-AACTTCAAGGAGATAAGATT
61003968 CACCATCTTC
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
127 3 0.03
129 100 0.93
130 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (128 bp):
GATGCGATCTGCTCTACTACAACTTCAGAGAAATAAGACCAATCATTTTAATCCGCTCCACTGCA
ACTTCAAGAAGATAGGATTGTTTCTTCAATCTACCCCACTACAACTTCAAGGAGATAAGATTG
Found at i:61018899 original size:54 final size:54
Alignment explanation
Indices: 61018796--61018899 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
61018786 TTTAAATTCT
* * *
61018796 AAATTTAAATTCATTAATTTTTATATTTAGTTTTAAAGTTAAAATTTTAATAGA
1 AAATTTAAATTAATTAATTTTTATATTTAGTTATAAAGTTAAAAGTTTAATAGA
* * * *
61018850 AAATTTAATTTAATTAATATTTTTTATTTAG-TATATAGTTTAAAGTTTAA
1 AAATTTAAATTAATTAAT-TTTTATATTTAGTTATAAAGTTAAAAGTTTAA
61018900 ATTCTAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 31 0.74
55 11 0.26
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (54 bp):
AAATTTAAATTAATTAATTTTTATATTTAGTTATAAAGTTAAAAGTTTAATAGA
Found at i:61020048 original size:16 final size:16
Alignment explanation
Indices: 61020027--61020058 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61020017 ATTCATCAAT
61020027 ACCAATTTTTCTATAC
1 ACCAATTTTTCTATAC
61020043 ACCAATTTTTCTATAC
1 ACCAATTTTTCTATAC
61020059 TTGAGAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (16 bp):
ACCAATTTTTCTATAC
Found at i:61023517 original size:22 final size:22
Alignment explanation
Indices: 61023467--61023519 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
61023457 TTAAACTTCC
*
61023467 TTAAT-TAATTTTTATTTAATA
1 TTAATATATTTTTTATTTAATA
*
61023488 TTATATATATTTTTATATTTACT-
1 TTA-ATATATTTTT-TATTTAATA
61023511 TTAATATAT
1 TTAATATAT
61023520 ATAACACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
23 9 0.33
24 7 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTAATATATTTTTTATTTAATA
Found at i:61027307 original size:21 final size:21
Alignment explanation
Indices: 61027283--61027324 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
61027273 AAAACCATTA
61027283 AGTTAAAAGACAAAATTATGT
1 AGTTAAAAGACAAAATTATGT
*
61027304 AGTTAAAAGGCAAAATTATGT
1 AGTTAAAAGACAAAATTATGT
61027325 CATTTTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.29
Consensus pattern (21 bp):
AGTTAAAAGACAAAATTATGT
Found at i:61028078 original size:44 final size:43
Alignment explanation
Indices: 61027988--61028155 Score: 156
Period size: 44 Copynumber: 3.6 Consensus size: 43
61027978 ATGATCACAT
* ** * *
61027988 ACAGATTTCAGAATATGGAAGCAAAAAAGGAAATGACCACAGAC
1 ACAGATTTGAGAAT-TGGAAGCAAAAAAGGAAATGATGAGAAAC
61028032 ACAGATTTGAGAATATGGAAGCAAAAAAGGAAATGATGAGAAAC
1 ACAGATTTGAGAAT-TGGAAGCAAAAAAGGAAATGATGAGAAAC
* *
61028076 ACAGATTCGAGAATTAGAAAGCCAAAAACAAAGAGTGGAAATGATGAGAAAC
1 ACAGATTTGAGAATT-GGAAG-C---AA-AAA-A--GGAAATGATGAGAAAC
*
61028128 ACAGGTTTGAGAACTTGGAAGCAAAAAA
1 ACAGATTTGAGAA-TTGGAAGCAAAAAA
61028156 TACATTGGAT
Statistics
Matches: 104, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
43 1 0.01
44 56 0.54
45 1 0.01
46 1 0.01
47 3 0.03
48 4 0.04
49 3 0.03
50 1 0.01
51 1 0.01
52 31 0.30
53 2 0.02
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.15
Consensus pattern (43 bp):
ACAGATTTGAGAATTGGAAGCAAAAAAGGAAATGATGAGAAAC
Found at i:61028651 original size:42 final size:42
Alignment explanation
Indices: 61028605--61028685 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
61028595 ATTGGGTCGC
* *
61028605 CTTGTAAAATGGTTGTTTTTAATAAACGATTTGATTTTACAA
1 CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTACAA
61028647 CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTA
1 CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTA
61028686 TTAAAACAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (42 bp):
CTTGTAAAATAGTTATTTTTAATAAACGATTTGATTTTACAA
Found at i:61029463 original size:3 final size:3
Alignment explanation
Indices: 61029455--61029496 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
61029445 AAATAGGAGT
61029455 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61029497 GTACTTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61029619 original size:3 final size:3
Alignment explanation
Indices: 61029611--61029652 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
61029601 AAGTAGAAAT
* * *
61029611 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATC ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61029653 TCAAATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61031277 original size:44 final size:45
Alignment explanation
Indices: 61031229--61031326 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
61031219 CGACCTATTG
* * * *
61031229 CAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCGCTCCACAA
1 CAACTTCAGAGGATATAGGATTAATAGCTTCAATCCGCTCCACAA
* **
61031273 CAACTTCAG-GGATATAGGATTAATAGCTTCAATCTGCTCCATTA
1 CAACTTCAGAGGATATAGGATTAATAGCTTCAATCCGCTCCACAA
61031317 CAACTTCAGA
1 CAACTTCAGA
61031327 AAGATAAGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.04
44 43 0.96
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (45 bp):
CAACTTCAGAGGATATAGGATTAATAGCTTCAATCCGCTCCACAA
Found at i:61031404 original size:45 final size:44
Alignment explanation
Indices: 61031260--61031424 Score: 156
Period size: 44 Copynumber: 3.8 Consensus size: 44
61031250 CATCGTTTTA
* * * * ** *
61031260 ATCC-GCTCCACAACAACTTCAGGGATATAGGATTAATAGCTTC
1 ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTC
* * **
61031303 AAT-CTGCTCCATTACAACTTCAGAAAGATAAGATTGGTATCTTC
1 -ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTC
* *
61031347 ATCCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGGTTATCTTC
1 ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGG-TATCTTC
*
61031392 AGT-TTGCTCCACTACAACTTTAGGGAGATAAGA
1 A-TCCTGCTCCACTACAACTTTAGGGAGATAAGA
61031425 CTTGTTATGG
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
43 3 0.03
44 60 0.61
45 35 0.35
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCCTGCTCCACTACAACTTTAGGGAGATAAGATTGGTATCTTC
Found at i:61031810 original size:103 final size:103
Alignment explanation
Indices: 61031686--61031878 Score: 253
Period size: 103 Copynumber: 1.9 Consensus size: 103
61031676 CACTGCAACT
* * * * *
61031686 TCAGGGAGATAAGACTTGTGTTTTCGATCTGCTT-CACTGCCAGTACAGGAAGACAAGATCTATA
1 TCAGGGAGATAAGACTGGTGTTTTCGATCTACTTCCA-TACCAATACAAGAAGACAAGATCTATA
61031750 ATCTTCAAACTACTCCACTGCTGCTCTCTCTACTGCTGC
65 ATCTTCAAACTACTCCACTGCTGCTCTCTCTACTGCTGC
* ** *
61031789 TCAGGGAGATAAGGCTGGTGTTTTTTATCTACTTCCATACCAATACAAGAAGATAAGATCTATAA
1 TCAGGGAGATAAGACTGGTGTTTTCGATCTACTTCCATACCAATACAAGAAGACAAGATCTATAA
** * *
61031854 TCTTCATCCTACTCTATTGCTGCTC
66 TCTTCAAACTACTCCACTGCTGCTC
61031879 AGGAAGATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
103 74 0.97
104 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (103 bp):
TCAGGGAGATAAGACTGGTGTTTTCGATCTACTTCCATACCAATACAAGAAGACAAGATCTATAA
TCTTCAAACTACTCCACTGCTGCTCTCTCTACTGCTGC
Found at i:61031929 original size:88 final size:88
Alignment explanation
Indices: 61031785--61032656 Score: 1152
Period size: 88 Copynumber: 9.9 Consensus size: 88
61031775 CTCTCTACTG
* * * * *
61031785 CTGCTCAGGGAGATAAGGCTGGTGTTTTTTATCTACTTC-CATACCAATACAAGAAGATAAGATC
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCAC-TGCCAGTACAGGAAGACAAGATC
* * * * *
61031849 TATAATCTTCATCCTACTCTATTG
65 TACAATCTTCAACCTACTCCACTA
* *
61031873 CTGCTCAGGAAGATAAGGCTGGTGTTTTGGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
61031938 ACAATCTTCAACCTACTCCACTA
66 ACAATCTTCAACCTACTCCACTA
* *
61031961 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGTCAATACAGGAAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
* *
61032026 ACAATCTTTAACCTACTTCACTA
66 ACAATCTTCAACCTACTCCACTA
* * * * * * *
61032049 CTGCTCAGTGAGATAAGGCTGGTGCTTTCGATCTACTTCACTACCAATACATGAAGAAAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61032114 ACAATCTTCAACCTACTCCATTA
66 ACAATCTTCAACCTACTCCACTA
* * * * *
61032137 TTGCTCAGGGAGATAAGGCTGGTGTTTTCGGTCTACTTCACTGCCAGTATAGGAAAACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61032202 ACAATCTTCAACCTACTCCACTG
66 ACAATCTTCAACCTACTCCACTA
* * * * *
61032225 CTGCTCATGGAGATAAGGCTGGTGTTTTCGATCTACTTCACTGCCAATATAGGAAGATAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
* *
61032290 ACAATTTTCAACTTACTCCACTA
66 ACAATCTTCAACCTACTCCACTA
* * * * * *
61032313 CTGCTCAGGGAGATAAGACTGATGTTTTCGATCTACTTCACTACCAGTATAGGTAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
61032378 ACAATCTTCAACCTACTCCACTA
66 ACAATCTTCAACCTACTCCACTA
* * * * * * * *
61032401 CTACTCAGGGAGAGAAGGCTAGTGTTTTGGATTTACTTCACTGCCAGTATAGGAATACAAAATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61032466 ACAATCTTCAACCTACTCTACTA
66 ACAATCTTCAACCTACTCCACTA
* * * * * * *
61032489 TTGCTCAGGGAGATAAGACTGATATTTTTGATCTACTTCACTGCTAGTACAGGAAGATAAGAGCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
*
61032554 ACAATCTTCAACCTACTCCACTG
66 ACAATCTTCAACCTACTCCACTA
* * * *
61032577 TTGCTCAGGGAGATAAGGTTGATGTTTTTGATCTACTTCACTGCCAGTACAAGAAGACAAGATCT
1 CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
61032642 ACAATCTTCAACCTA
66 ACAATCTTCAACCTA
61032657 TTTAAAACTT
Statistics
Matches: 689, Mismatches: 94, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
88 688 1.00
89 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (88 bp):
CTGCTCAGGGAGATAAGGCTGGTGTTTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
ACAATCTTCAACCTACTCCACTA
Found at i:61032327 original size:44 final size:44
Alignment explanation
Indices: 61032279--61032413 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 44
61032269 CAATATAGGA
61032279 AGATAAGATCTACAATTTTCAACTTACTCCACTACTGCTCAGGG
1 AGATAAGATCTACAATTTTCAACTTACTCCACTACTGCTCAGGG
** * * * * *
61032323 AGATAAGA-CTGA-TGTTTTCGA-TCTACTTCACTACCAG-TATAGGT
1 AGATAAGATCT-ACAATTTTCAACT-TACTCCACTA-CTGCT-CAGGG
* * * *
61032367 AGACAAGATCTACAATCTTCAACCTACTCCACTACTACTCAGGG
1 AGATAAGATCTACAATTTTCAACTTACTCCACTACTGCTCAGGG
61032411 AGA
1 AGA
61032414 GAAGGCTAGT
Statistics
Matches: 65, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
42 1 0.02
43 18 0.28
44 29 0.45
45 17 0.26
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (44 bp):
AGATAAGATCTACAATTTTCAACTTACTCCACTACTGCTCAGGG
Found at i:61032355 original size:43 final size:43
Alignment explanation
Indices: 61032214--61032356 Score: 101
Period size: 43 Copynumber: 3.3 Consensus size: 43
61032204 AATCTTCAAC
* * * *
61032214 CTACTCCACTGCTGCTCATGGAGATAAGGCTGGTGTTTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGACTGATGTTTTCGAT
* * *** * * ** *
61032257 CTACTTCACTGCCAATATAGGAAGATAAGATCT-ACAATTTTC-AA
1 CTACTCCACTACTGCT-CAGGGAGATAAGA-CTGA-TGTTTTCGAT
61032301 CTTACTCCACTACTGCTCAGGGAGATAAGACTGATGTTTTCGAT
1 C-TACTCCACTACTGCTCAGGGAGATAAGACTGATGTTTTCGAT
*
61032345 CTACTTCACTAC
1 CTACTCCACTAC
61032357 CAGTATAGGT
Statistics
Matches: 71, Mismatches: 23, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
43 29 0.41
44 25 0.35
45 17 0.24
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
CTACTCCACTACTGCTCAGGGAGATAAGACTGATGTTTTCGAT
Found at i:61032549 original size:44 final size:44
Alignment explanation
Indices: 61032494--61032638 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 44
61032484 TACTATTGCT
*
61032494 CAGGGAGATAAGACTGATATTTTTGATCTACTTCACTGCTAGTA
1 CAGGAAGATAAGACTGATATTTTTGATCTACTTCACTGCTAGTA
* * ** * * *
61032538 CAGGAAGATAAGAGCT-ACAATCTTCAACCTACTCCACTG-TTGCT-
1 CAGGAAGATAAGA-CTGA-TATTTTTGATCTACTTCACTGCTAG-TA
* ** * *
61032582 CAGGGAGATAAGGTTGATGTTTTTGATCTACTTCACTGCCAGTA
1 CAGGAAGATAAGACTGATATTTTTGATCTACTTCACTGCTAGTA
* *
61032626 CAAGAAGACAAGA
1 CAGGAAGATAAGA
61032639 TCTACAATCT
Statistics
Matches: 71, Mismatches: 24, Indels: 12
0.66 0.22 0.11
Matches are distributed among these distances:
43 16 0.23
44 37 0.52
45 18 0.25
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGGAAGATAAGACTGATATTTTTGATCTACTTCACTGCTAGTA
Found at i:61033662 original size:104 final size:106
Alignment explanation
Indices: 61033458--61033673 Score: 265
Period size: 104 Copynumber: 2.0 Consensus size: 106
61033448 AAAATGCTTG
* *
61033458 AAAGAGATTATCACAATGGATAAGATGAAATTTTATTAAGAGCAAAGCTCGAAATGAACAAATTA
1 AAAGAGATTATCACAATAGACAAGATGAAATTTTATTAAGAGCAAAGCTCGAAAT--A-AAATTA
* * * *
61033523 ATCAAGATGGAAAATTTTGCTAAGATTTAAAATGAATAAGATGA
63 ATCAAGATAGAAAATTTTGCCAAGATTCAAAATGAATAAGACGA
* * * * **
61033567 AAAG-GATTATCACAATAGACAGGATGGAATTTTATTGATAGCAAAGCTTTAAAT-AAATTAATC
1 AAAGAGATTATCACAATAGACAAGATGAAATTTTATTAAGAGCAAAGCTCGAAATAAAATTAATC
* *
61033630 AAGATAGCAAATTTTTCCAAGATTCAAAATGAATAAGACGA
66 AAGATAGAAAATTTTGCCAAGATTCAAAATGAATAAGACGA
61033671 AAA
1 AAA
61033674 TAGGTGCCCC
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
104 47 0.51
108 42 0.45
109 4 0.04
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (106 bp):
AAAGAGATTATCACAATAGACAAGATGAAATTTTATTAAGAGCAAAGCTCGAAATAAAATTAATC
AAGATAGAAAATTTTGCCAAGATTCAAAATGAATAAGACGA
Found at i:61035197 original size:11 final size:10
Alignment explanation
Indices: 61035173--61035225 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
61035163 TTCACCTTAG
61035173 CTTCTTTTTT
1 CTTCTTTTTT
61035183 CTTCTTTTCTT
1 CTTCTTTT-TT
61035194 CTTCTTCTTTT
1 CTTCTT-TTTT
*
61035205 TTTCTTTCTTT
1 CTTCTTT-TTT
61035216 CCTT-TTTTTT
1 -CTTCTTTTTT
61035226 TAAAATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 12 0.32
11 21 0.57
12 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
CTTCTTTTTT
Found at i:61035200 original size:14 final size:14
Alignment explanation
Indices: 61035181--61035210 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61035171 AGCTTCTTTT
61035181 TTCTTCTTTTCTTC
1 TTCTTCTTTTCTTC
*
61035195 TTCTTCTTTTTTTC
1 TTCTTCTTTTCTTC
61035209 TT
1 TT
61035211 TCTTTCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTCTTCTTTTCTTC
Found at i:61035207 original size:17 final size:17
Alignment explanation
Indices: 61035179--61035224 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
61035169 TTAGCTTCTT
*
61035179 TTTTCTTCTTTTC-TTC
1 TTTTCTTTTTTTCTTTC
61035195 TTCTTCTTTTTTTCTTTC
1 TT-TTCTTTTTTTCTTTC
*
61035213 TTTCCTTTTTTT
1 TTTTCTTTTTTT
61035225 TTAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 2 0.08
17 19 0.73
18 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTTTTCTTTC
Found at i:61039380 original size:28 final size:23
Alignment explanation
Indices: 61039286--61039365 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
61039276 GTTTTAAAAT
* *
61039286 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
61039308 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
61039331 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
61039354 TTGGGCTAGGTT
1 TTGGGCTAGGTT
61039366 AGTTGGGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
21 9 0.17
22 9 0.17
23 36 0.67
ACGTcount: A:0.14, C:0.06, G:0.41, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:61040165 original size:132 final size:132
Alignment explanation
Indices: 61039928--61040729 Score: 1181
Period size: 132 Copynumber: 6.1 Consensus size: 132
61039918 CGCCATCGTC
* * * * *
61039928 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* ** *
61039993 TTCCAATCATTATAGGAAGATAATACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
61040058 AA
131 AA
* * *
61040060 GATCTACTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * *
61040125 TTCCAATCATTATAGGAAGATGGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
61040190 AA
131 AA
* * *
61040192 GATCTGCTTTCTGCGATCTACTTCGCCATCAATATGGGAAGACAAGATCTGCGTCGTCGATTCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * *
61040257 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTATTTCACGCCAATACATGAAGAC
66 TTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
61040322 AA
131 AA
* * * *
61040324 GATCTGCTTTCTGCGATCTACTCCGCCATCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* *
61040389 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
61040454 AA
131 AA
* *
61040456 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * * *
61040521 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
61040586 AA
131 AA
* * * * *
61040588 GATCTGCTTTCTTCGATCTACTTCGCCATCAGTAAGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * * * * * *
61040653 TTCCTACCAATATAGAAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
61040718 AG
131 AA
*
61040720 GATCTACTTT
1 GATCTGCTTT
61040730 AATGACTTCA
Statistics
Matches: 629, Mismatches: 41, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 629 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
TTCCAATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:61045654 original size:23 final size:23
Alignment explanation
Indices: 61045621--61045683 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
61045611 GTTTTAAAAT
61045621 TTGGGCTTAGGTAGTTTTAGGGTA
1 TTGGGC-TAGGTAGTTTTAGGGTA
* *
61045645 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTAGTTTTAGGGTA
61045668 TTGGGCTAGGTTAGTT
1 TTGGGCTAGG-TAGTT
61045684 GGGTTTTGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.74
24 9 0.26
ACGTcount: A:0.14, C:0.05, G:0.40, T:0.41
Consensus pattern (23 bp):
TTGGGCTAGGTAGTTTTAGGGTA
Found at i:61047187 original size:26 final size:26
Alignment explanation
Indices: 61047138--61047192 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
61047128 TGTTGTTCTC
61047138 TTTCTTCTTCTCCTTCTTCATTTCCT
1 TTTCTTCTTCTCCTTCTTCATTTCCT
* * *
61047164 TTTCTTTTTCGTCCTTTTTC-TTTCTT
1 TTTCTTCTTC-TCCTTCTTCATTTCCT
61047190 TTT
1 TTT
61047193 ATTGTGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTCTTCTTCTCCTTCTTCATTTCCT
Found at i:61047897 original size:62 final size:62
Alignment explanation
Indices: 61047702--61047903 Score: 163
Period size: 62 Copynumber: 3.2 Consensus size: 62
61047692 TACCCAAGCC
* * * * * * *
61047702 GTGTGGCTCACTGTCATTTTTAAATACCATACTGGCCAGAGACATGGACGTGTGTCTAGGCT
1 GTGTGACTCACTATCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAGGCT
* *** * * * * * * * * * *
61047764 GTGTAACTCACTAAGTTCAAAATGAG-GACCACACGGGCCAAGGACACAGGCATTTGCCCAGGCC
1 GTGTGACTCACT-A--TCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAGGCT
* *
61047828 GTATGACTCACTATCATTTTTAGATACCATAGGGGCCAAAGACACGGGCGTGTGTCTAGGCT
1 GTGTGACTCACTATCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAGGCT
61047890 GTGTGACTCACTAT
1 GTGTGACTCACTAT
61047904 TCACAATTTA
Statistics
Matches: 98, Mismatches: 38, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
61 6 0.06
62 51 0.52
63 1 0.01
64 35 0.36
65 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (62 bp):
GTGTGACTCACTATCATTTTTAGATACCATACGGGCCAAAGACACGGGCGTGTGTCTAGGCT
Found at i:61047920 original size:125 final size:125
Alignment explanation
Indices: 61047618--61047902 Score: 417
Period size: 126 Copynumber: 2.3 Consensus size: 125
61047608 TGCAGAGTTC
*
61047618 ACACGGGCGTGTGTCTAGGCCGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
1 ACACGGGCGTGTGTCTAGGCTGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
** * * * * *
61047683 CACGGTGTGTACCCAAGCCGTGTGGCTCACTGTCATTTTTAAATACCATACTGGCCAGAG
66 CACGGCATGTACCCAAGCCGTATGACTCACTATCATTTTTAAATACCATACGGGCCAAAG
* *
61047743 ACATGGACGTGTGTCTAGGCTGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
1 ACACGGGCGTGTGTCTAGGCTGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
* * * * *
61047808 CACAGGCATTTGCCCAGGCCGTATGACTCACTATCATTTTTAGATACCATAGGGGCCAAAG
66 CAC-GGCATGTACCCAAGCCGTATGACTCACTATCATTTTTAAATACCATACGGGCCAAAG
*
61047869 ACACGGGCGTGTGTCTAGGCTGTGTGACTCACTA
1 ACACGGGCGTGTGTCTAGGCTGTGTAACTCACTA
61047903 TTCACAATTT
Statistics
Matches: 141, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 65 0.46
126 76 0.54
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (125 bp):
ACACGGGCGTGTGTCTAGGCTGTGTAACTCACTAAGTTCAAAATGAGGACCACACGGGCCAAGGA
CACGGCATGTACCCAAGCCGTATGACTCACTATCATTTTTAAATACCATACGGGCCAAAG
Found at i:61049290 original size:21 final size:20
Alignment explanation
Indices: 61049258--61049297 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
61049248 AATGGTAATT
61049258 ATATATTTTTTTAA-AAATA
1 ATATATTTTTTTAACAAATA
61049277 ATATATTTAATTTTAACAAAT
1 ATATATTT--TTTTAACAAAT
61049298 TTAGGTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTTTTTTAACAAATA
Found at i:61050020 original size:22 final size:20
Alignment explanation
Indices: 61049986--61050030 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
61049976 GATAACAAGC
*
61049986 AAAAAAAACAAATAGCAAAAA
1 AAAAAAAAAAAATAG-AAAAA
61050007 AAAAAACAAAAAATAGAAACAA
1 AAAAAA-AAAAAATAGAAA-AA
61050029 AA
1 AA
61050031 GGATCGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.82, C:0.09, G:0.04, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAATAGAAAAA
Found at i:61050500 original size:13 final size:13
Alignment explanation
Indices: 61050482--61050506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61050472 AAGGTGATAT
61050482 TTTAGTTATTTTG
1 TTTAGTTATTTTG
61050495 TTTAGTTATTTT
1 TTTAGTTATTTT
61050507 TTTTTCTTTT
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:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
TTTAGTTATTTTG
Found at i:61051225 original size:3 final size:3
Alignment explanation
Indices: 61051217--61051293 Score: 66
Period size: 3 Copynumber: 25.3 Consensus size: 3
61051207 AATTTTAATC
* ** * * * *
61051217 ATT ATT ATT ACT CCT ATT ACT ATT GTT TTT ATT ATT ACTC A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
61051262 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
61051294 GAATGTTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.02
3 54 0.90
4 5 0.08
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:61051254 original size:27 final size:27
Alignment explanation
Indices: 61051217--61051280 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
61051207 AATTTTAATC
* *
61051217 ATTATTATTACTCCTATTACTATTGTT
1 ATTATTATTACTCATATTACTATTATT
* *
61051244 TTTATTATTACTCATATTATTATTATT
1 ATTATTATTACTCATATTACTATTATT
61051271 ATTATTATTA
1 ATTATTATTA
61051281 TTATTATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (27 bp):
ATTATTATTACTCATATTACTATTATT
Found at i:61051325 original size:12 final size:13
Alignment explanation
Indices: 61051308--61051336 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61051298 GTTTTAATAT
61051308 TATTTG-TTTGTA
1 TATTTGTTTTGTA
61051320 TATTTGTTTTGTA
1 TATTTGTTTTGTA
61051333 TATT
1 TATT
61051337 ATGGATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (13 bp):
TATTTGTTTTGTA
Found at i:61053042 original size:27 final size:27
Alignment explanation
Indices: 61053012--61053067 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
61053002 TAACCGACCG
* *
61053012 AATTAATCGAAAAAATTTGGTTCGGTT
1 AATTAATCAAAAAAATTTGATTCGGTT
** *
61053039 AATTTTTTAAAAAAATTTGATTCGGTT
1 AATTAATCAAAAAAATTTGATTCGGTT
61053066 AA
1 AA
61053068 CGGTTATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.41
Consensus pattern (27 bp):
AATTAATCAAAAAAATTTGATTCGGTT
Found at i:61053461 original size:21 final size:20
Alignment explanation
Indices: 61053429--61053468 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
61053419 AATGGTAATT
61053429 ATATATTTTTTTAA-AAATA
1 ATATATTTTTTTAACAAATA
61053448 ATATATTTAATTTTAACAAAT
1 ATATATTT--TTTTAACAAAT
61053469 TTAGGTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTTTTTTAACAAATA
Found at i:61056092 original size:21 final size:20
Alignment explanation
Indices: 61056059--61056097 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
61056049 TTATTTACTT
61056059 TTTTATATATATTTATTTTA
1 TTTTATATATATTTATTTTA
*
61056079 TTTTATCATCTATTTATTT
1 TTTTAT-ATATATTTATTT
61056098 ATATCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATATATATTTATTTTA
Found at i:61056280 original size:14 final size:15
Alignment explanation
Indices: 61056252--61056288 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
61056242 TTTGTTATCC
*
61056252 TTATTATTTGTCTTT
1 TTATTATTTGGCTTT
61056267 TTATT-TTTGGCTTT
1 TTATTATTTGGCTTT
61056281 TT-TTATTT
1 TTATTATTT
61056289 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 13 0.65
15 5 0.25
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (15 bp):
TTATTATTTGGCTTT
Found at i:61057192 original size:48 final size:48
Alignment explanation
Indices: 61057110--61057202 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 48
61057100 TTTCTTGGCT
* *
61057110 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAATCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAATCG
61057158 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAA
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAA
61057203 CAGAATTCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAATCG
Found at i:61059713 original size:48 final size:48
Alignment explanation
Indices: 61059631--61059723 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 48
61059621 TTTCTTGGCT
* *
61059631 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAATCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAATCG
61059679 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAA
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAA
61059724 CAGAATTCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAATCG
Found at i:61062600 original size:27 final size:26
Alignment explanation
Indices: 61062570--61062636 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
61062560 TAAAAATATA
*
61062570 TATCCAAAATGTTATAATTTTTTTATT
1 TATCCAAAAT-ATATAATTTTTTTATT
*
61062597 TATCAAAAAATATATAATTTTTTTATT
1 TATC-CAAAATATATAATTTTTTTATT
61062624 TA-CCAAAATATAT
1 TATCCAAAATATAT
61062637 CAAAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 9 0.25
26 1 0.03
27 21 0.58
28 5 0.14
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (26 bp):
TATCCAAAATATATAATTTTTTTATT
Found at i:61062752 original size:27 final size:27
Alignment explanation
Indices: 61062713--61062790 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
61062703 TTCCTGGGTG
*
61062713 AAGGGAATACTGTTGGCGGCACCAAAC
1 AAGGGAATCCTGTTGGCGGCACCAAAC
61062740 AAGGGAATCCTGTTGGCGGCACCAAAC
1 AAGGGAATCCTGTTGGCGGCACCAAAC
*
61062767 AAGGG-TTCCCTGTTGGCGGCACCA
1 AAGGGAAT-CCTGTTGGCGGCACCA
61062791 CCTTGAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.27, C:0.26, G:0.31, T:0.17
Consensus pattern (27 bp):
AAGGGAATCCTGTTGGCGGCACCAAAC
Found at i:61062862 original size:12 final size:12
Alignment explanation
Indices: 61062842--61062916 Score: 56
Period size: 12 Copynumber: 6.6 Consensus size: 12
61062832 AGGGGAAGAA
61062842 GAAGAAAGAAAG
1 GAAGAAAGAAAG
*
61062854 GAAGGAAGAAA-
1 GAAGAAAGAAAG
61062865 GAA-AAAG-AAG
1 GAAGAAAGAAAG
*
61062875 GAA-AAGGAAAG
1 GAAGAAAGAAAG
61062886 GAGAGGAAAGAAA-
1 GA-A-GAAAGAAAG
61062899 GAA-AAAG-AAG
1 GAAGAAAGAAAG
61062909 GAAAGAAA
1 G-AAGAAA
61062917 AGGAAAGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
9 4 0.08
10 14 0.27
11 10 0.20
12 15 0.29
13 2 0.04
14 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAGAAAGAAAG
Found at i:61062862 original size:22 final size:21
Alignment explanation
Indices: 61062835--61062877 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
61062825 GAAGGAGAGG
61062835 GGAAG-AAGAAGAAAGAAAGGAA
1 GGAAGAAAGAA-AAAG-AAGGAA
61062857 GGAAGAAAGAAAAAGAAGGAA
1 GGAAGAAAGAAAAAGAAGGAA
61062878 AAGGAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
GGAAGAAAGAAAAAGAAGGAA
Found at i:61062878 original size:10 final size:10
Alignment explanation
Indices: 61062837--61062974 Score: 52
Period size: 10 Copynumber: 13.2 Consensus size: 10
61062827 AGGAGAGGGG
61062837 AAGAA-GAAGA
1 AAGAAGGAA-A
*
61062847 AAGAAAGGAAGG
1 AAG-AAGGAA-A
*
61062859 AAGAAAGAAA
1 AAGAAGGAAA
61062869 AAGAAGGAAA
1 AAGAAGGAAA
*
61062879 AGGAAAGGAGAGGA
1 AAG-AAGGA-A--A
*
61062893 AAGAAAGAAA
1 AAGAAGGAAA
61062903 AAGAAGGAAA
1 AAGAAGGAAA
61062913 GAA-AAGGAAA
1 -AAGAAGGAAA
** *
61062923 GGGGAGG--A
1 AAGAAGGAAA
*
61062931 AAGAAAGAAA
1 AAGAAGGAAA
*
61062941 AATAAGGAAA
1 AAGAAGGAAA
61062951 GAA-AAGGAAA
1 -AAGAAGGAAA
*
61062961 GGAGAAGAGAAA
1 -AAGAAG-GAAA
61062973 AA
1 AA
61062975 AAAAAGAAAG
Statistics
Matches: 96, Mismatches: 19, Indels: 25
0.69 0.14 0.18
Matches are distributed among these distances:
8 4 0.04
10 52 0.54
11 20 0.21
12 13 0.14
13 4 0.04
14 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
AAGAAGGAAA
Found at i:61062917 original size:38 final size:38
Alignment explanation
Indices: 61062840--61063008 Score: 176
Period size: 38 Copynumber: 4.6 Consensus size: 38
61062830 AGAGGGGAAG
*
61062840 AAGAAGAAAGAAAGGA-AGG-AAGAAAGAAAAAGAA-G-
1 AAGAA-AAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
61062875 --GAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
1 AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
* *
61062911 AAGAAAAGGAAAGGGGAGGAAAGAAAGAAAAATAAGGA
1 AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
* *
61062949 AAGAAAAGGAAAGGAGAAGAGAA-AAA-AAAAAGAAAGAA
1 AAGAAAAGGAAAGGAGAGGA-AAGAAAGAAAAAG-AAGGA
* *
61062987 GAAGAAGAGGGAAGGA-AGGAAA
1 -AAGAAAAGGAAAGGAGAGGAAA
61063009 AAAAAAGAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
32 9 0.08
33 6 0.05
34 15 0.13
35 1 0.01
37 7 0.06
38 62 0.54
39 15 0.13
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.01
Consensus pattern (38 bp):
AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
Done.