Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 130 of 216
Found at i:41406399 original size:51 final size:50
Alignment explanation
Indices: 41406332--41406527 Score: 241
Period size: 51 Copynumber: 3.9 Consensus size: 50
41406322 CAATGATATT
* * *
41406332 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACAAGTGACCA-TACCATC
* * * *
41406383 CGATACACGTAGTAGCCTGCACATAGTACTACACAAGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACAAGTGA-CCATACCATC
* * * *
41406434 TGGTACGCATAGTAGCCTGCACATAGTACTACACAAGTGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACAAGTGACCATACCA-TC
* *
41406484 CGGTACACGTAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACAAGTGACCAT
41406528 CACTTTTACT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.33
51 78 0.64
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACAAGTGACCATACCATC
Found at i:41406547 original size:101 final size:99
Alignment explanation
Indices: 41406338--41406523 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 99
41406328 TATTCGGTTC
*
41406338 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACAAGTGACCA-TACCATCCGATACACGTAGTAGCCTGC
*
41406403 ACATAGTACTACACAAGTGATCGAAACTATCTGGT
65 ACATAGTACTACACAAGTGATCCAAACTATCTGGT
* *
41406438 ACGCATAGTAGCCTGCACATAGTACTACACAAGTGACC-TATCATTCCGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACAAGTGACCATACCA-TCCGATACACGTAGTAGCCT
* *
41406502 GCATATAGTACTACACACGTGA
63 GCACATAGTACTACACAAGTGA
41406524 CCATCACTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 5 0.06
101 39 0.50
102 34 0.44
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACAAGTGACCATACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACAAGTGATCCAAACTATCTGGT
Found at i:41420336 original size:20 final size:20
Alignment explanation
Indices: 41420260--41420335 Score: 118
Period size: 20 Copynumber: 3.8 Consensus size: 20
41420250 AAGCTTATGC
41420260 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
41420280 TAAGTAAAT-GAAGTGGAAAG
1 TAAGTAAATGGAA-TGGAAAG
* *
41420300 TAAATAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
41420320 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
41420336 TTCATCGTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 3 0.06
20 45 0.88
21 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:41431602 original size:22 final size:21
Alignment explanation
Indices: 41431571--41431613 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
41431561 ATTAATATTC
41431571 AATTCACATTACAT-TATCATA
1 AATTCACATTA-ATCTATCATA
41431592 AATTCATCATTAATCTATCATA
1 AATTCA-CATTAATCTATCATA
41431614 TAACTATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTCACATTAATCTATCATA
Found at i:41439090 original size:6 final size:6
Alignment explanation
Indices: 41439081--41439108 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
41439071 AAAAAAAAAA
41439081 CATAAC CATAAC CATAAC CATAAC CATA
1 CATAAC CATAAC CATAAC CATAAC CATA
41439109 GAAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (6 bp):
CATAAC
Found at i:41442484 original size:4 final size:4
Alignment explanation
Indices: 41442467--41443487 Score: 1281
Period size: 4 Copynumber: 255.8 Consensus size: 4
41442457 ATGAGGCATT
* * * * * *
41442467 TATG TATG TGTG TATG TATG TGTG TACG TATG TGTG TGTG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** ** * * * * *
41442515 TACA TACA TCTG TATG TATG TGTG TACG TACG TACG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
41442563 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
41442611 TATG TATG TATG TATG TATG TATG TATG TATG TACG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
41442659 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TACG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
41442707 TATG TATG TATG TATG TATG TGTG TGTG TACG TATG TACG TATG TAAG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
41442755 TATC TATG TATG TATG TAAG TATG TATG TATG TATG TATG TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
41442803 TAAG TACG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
41442851 TATG TATG TATG TGTG TACG TACG TACG TACG TACG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
41442899 TATG TATG TATG TATG TATG TATG TATG TATG TGTG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * ** * *
41442947 TATG TATG TATG --TG TGTG TACG TACG TATG TATG TGCG TACG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
41442993 TACG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
41443041 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TGTG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
41443089 TACG TACG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
41443137 TATA TATG TATG TATG TATG TATG TATG TGTG TACG TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
41443185 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * ** *
41443233 TATG TATG TAGG TATG TATG TATG TGTG TACG TACA TATG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
41443281 TACG TACG TATG TATG TGTG TACG TACG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * ** **
41443329 TATA TATG TATA TATG TATG TATG TACG TATG TGTG TACG TACA TACA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* ** * * *
41443377 TATG TGTG TACA TACG TACG TACG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
41443425 TATG TATG TATG TATG TGTG TATG TATG TATG CATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
41443473 CATG TATG TATG TAT
1 TATG TATG TATG TAT
41443488 ATATATGTAC
Statistics
Matches: 905, Mismatches: 110, Indels: 4
0.89 0.11 0.00
Matches are distributed among these distances:
2 2 0.00
4 903 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:41455462 original size:20 final size:20
Alignment explanation
Indices: 41455416--41455462 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
41455406 AAAAAAATAT
*
41455416 TTAAAATGATTTTAACATGA
1 TTAAAATGACTTTAACATGA
* * *
41455436 TTGAAATGACTTTGACATGG
1 TTAAAATGACTTTAACATGA
41455456 TTAAAAT
1 TTAAAAT
41455463 CATTTGCACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
TTAAAATGACTTTAACATGA
Found at i:41460827 original size:16 final size:16
Alignment explanation
Indices: 41460802--41460836 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
41460792 TTGTGTTTTG
*
41460802 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
41460818 TTTTGACTGCATGATA
1 TTTTGACTGCATGACA
41460834 TTT
1 TTT
41460837 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:41465013 original size:26 final size:26
Alignment explanation
Indices: 41464984--41465033 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
41464974 TGAATTTGTT
41464984 TGTTCTTGAAATACTTTATTCTTTGC
1 TGTTCTTGAAATACTTTATTCTTTGC
* * *
41465010 TGTTCTTGGAATATTTTTTTCTTT
1 TGTTCTTGAAATACTTTATTCTTT
41465034 TCAAGACACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.60
Consensus pattern (26 bp):
TGTTCTTGAAATACTTTATTCTTTGC
Found at i:41466079 original size:88 final size:88
Alignment explanation
Indices: 41465930--41466094 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 88
41465920 AGAACAAACT
* * * *
41465930 GAAGACCTCAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTC
1 GAAGACCTCAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAAATATTGTCTTC
41465995 CTGTATTAGCAGCAAAATAGATC
66 CTGTATTAGCAGCAAAATAGATC
* *
41466018 GAAGACCTCAACCTTATCTTCCTGAGCAGCGGTGGAGTAGGTTGAAAATAGCAAATATTGTCTTC
1 GAAGACCTCAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAAATATTGTCTTC
*
41466083 CTGTATTGGCAG
66 CTGTATTAGCAG
41466095 TGAAGTGGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (88 bp):
GAAGACCTCAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAAATATTGTCTTC
CTGTATTAGCAGCAAAATAGATC
Found at i:41466200 original size:45 final size:45
Alignment explanation
Indices: 41466150--41466733 Score: 761
Period size: 45 Copynumber: 13.1 Consensus size: 45
41466140 GAGCAGACTG
* * *
41466150 AAGATAACAGATCTTGTCTTCCTGTACTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
*
41466195 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* **
41466240 AAGATAGCAGATCTTGTCTTTCTGTATTGGCAATGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
41466285 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* * *
41466330 AAGATAACAGATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* * * *** * * * *
41466375 AAG-TCA-CA-AGTCCTATCTCCCTG-AGCAGCAGTGGAGTAGGTTGA
1 AAGAT-AGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTA-GATCA
*
41466419 AA-ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* * *
41466463 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
*
41466508 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* * * *
41466553 AAGATAGCAGATCTTGTCTTCCTATATT---TGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* *
41466595 AAGATAGCAGCTCTTGTCTTCCTATATTGGCAGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* * *
41466640 AAGATAGCAGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
* *
41466685 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATACATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
41466730 AAGA
1 AAGA
41466734 CAAAAAAAAA
Statistics
Matches: 471, Mismatches: 57, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
42 38 0.08
43 12 0.03
44 37 0.08
45 384 0.82
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCA
Found at i:41466253 original size:90 final size:90
Alignment explanation
Indices: 41466065--41466733 Score: 779
Period size: 90 Copynumber: 7.5 Consensus size: 90
41466055 TAGGTTGAAA
* * * * * * *
41466065 ATAGCAAATATTGTCTTCCTGTATTGGCAGTGAAGTGGATCAAAAACA-CTAG-TC-TGACTTCC
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGC-AGATCTTGTCTTCC
* * *
41466127 T-TGAGTT-ACAGCGGAGCAGA-CTGAAG
65 TAT-A-TTGGCAGCGAAGTAGATC-GAAG
* * *
41466153 ATAACAGATCTTGTCTTCCTGTACTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
*
41466218 GTATTGGCAGCGAAGTAGATCGAAG
66 ATATTGGCAGCGAAGTAGATCGAAG
* **
41466243 ATAGCAGATCTTGTCTTTCTGTATTGGCAATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
* *
41466308 GTATTGGCAGCGAAGTAGATCAAAG
66 ATATTGGCAGCGAAGTAGATCGAAG
* * * * * *
41466333 ATAACAGATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCAAAG-TCA-CA-AGTCCTATCTCC
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT-AGCAGA-TCTTGTCTTC
* *** * * * * *
41466395 CT-GAGCAGCAGTGGAGTAGGTTGAAA
64 CTATATTGGCAGCGAAGTAGATCGAAG
*
41466421 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
*
41466486 ATATTGGTAGCGAAGTAGATCGAAG
66 ATATTGGCAGCGAAGTAGATCGAAG
*
41466511 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
* *
41466576 ATATT---TGTGAAGTAGATCGAAG
66 ATATTGGCAGCGAAGTAGATCGAAG
* *
41466598 ATAGCAGCTCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
* * *
41466663 ATATTGGCAGCAAAATAGATCAAAG
66 ATATTGGCAGCGAAGTAGATCGAAG
* *
41466688 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATACATCAAAGA
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
41466734 CAAAAAAAAA
Statistics
Matches: 494, Mismatches: 72, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
87 82 0.17
88 98 0.20
89 29 0.06
90 283 0.57
91 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (90 bp):
ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
ATATTGGCAGCGAAGTAGATCGAAG
Found at i:41466429 original size:223 final size:222
Alignment explanation
Indices: 41466181--41466733 Score: 729
Period size: 223 Copynumber: 2.5 Consensus size: 222
41466171 CTGTACTGGT
* *
41466181 AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
1 AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATA
* * *
41466246 GCAGATCTTGTCTTTCTGTATTGGCAATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTA
66 GCAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTGTA
*
41466311 TTGGCAGCGAAGTAGATCAAAGATAACAGATCTTATCTTCCTGTACTGGCAGCGAAGTAGATCAA
131 TTGGCAGCGAAGTAGATCAAAGATAACAGATCTTATCTTCCTATA-T--CAGCGAAGTAGATCAA
41466376 AG-TCA-CAAG-TCCTATCTCCCT-GAGCAGC
193 AGAT-AGC-AGCTCCTATCTCCCTAGAGCAGC
* * * *
41466404 AGTGGAGTAGGTTGAAA-ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGAT
1 AGCGAAGTA-GATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGAT
* * * *
41466468 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGT
65 AGCAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTGT
* * ** * *
41466533 ATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGTGAAGTAGATCGAAG
130 ATTGGCAGCGAAGTAGATCAAAGATAACAGATCTTATCTTCCTATATCAGCGAAGTAGATCAAAG
* * * * ***
41466598 ATAGCAGCTCTTGTCTTCCTATATTGGC
195 ATAGCAGCTCCTATCTCCCTAGAGCAGC
* *
41466626 AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCAAAGATA
1 AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATA
* * *
41466691 GCAGATCTTGTCTTCCTGTATTGGCAGCGAAATACATCAAAGA
66 GCAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAGA
41466734 CAAAAAAAAA
Statistics
Matches: 286, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
220 17 0.06
221 16 0.06
222 95 0.33
223 153 0.53
224 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (222 bp):
AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATA
GCAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTGTA
TTGGCAGCGAAGTAGATCAAAGATAACAGATCTTATCTTCCTATATCAGCGAAGTAGATCAAAGA
TAGCAGCTCCTATCTCCCTAGAGCAGC
Found at i:41466471 original size:268 final size:265
Alignment explanation
Indices: 41466148--41466642 Score: 783
Period size: 268 Copynumber: 1.9 Consensus size: 265
41466138 CGGAGCAGAC
* * *
41466148 TGAAGATAACAGATCTTGTCTTCCTGTACTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTC
1 TGAAAATAACAGATCTTGTCTTCCTGTACTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTC
* * * *
41466213 TTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTTCTGTATTGGCAATGAAG
66 TTCCTATATTGGCAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAG
*
41466278 TAGATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAACAGATC
131 TAGATCAAAGATAGCAGATCTTGTCTTCCTATATT---AGCGAAGTAGATCAAAGATAACAGATC
*
41466343 TTATCTTCCTGTACTGGCAGCGAAGTAGATCAAAGTCACAAGTCCTATCTCCCTGAGCAGCAGTG
193 TTATCTTCCTATACTGGCAGCGAAGTAGATCAAAGTCACAAGTCCTATCTCCCTGAGCAGCAGTG
41466408 GAGTAGGT
258 GAGTAGGT
* *
41466416 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTC
1 TGAAAATAACAGATCTTGTCTTCCTGTACTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTC
* *
41466481 TTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAG
66 TTCCTATATTGGCAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAG
* * * * * *
41466546 TAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGTGAAGTAGATCGAAGATAGCAGCTCTTG
131 TAGATCAAAGATAGCAGATCTTGTCTTCCTATATTAGCGAAGTAGATCAAAGATAACAGATCTTA
*
41466611 TCTTCCTATATTGGCAGCGAAGTAGATCAAAG
196 TCTTCCTATACTGGCAGCGAAGTAGATCAAAG
41466643 ATAGCAGATC
Statistics
Matches: 207, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
265 54 0.26
268 153 0.74
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (265 bp):
TGAAAATAACAGATCTTGTCTTCCTGTACTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTC
TTCCTATATTGGCAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAG
TAGATCAAAGATAGCAGATCTTGTCTTCCTATATTAGCGAAGTAGATCAAAGATAACAGATCTTA
TCTTCCTATACTGGCAGCGAAGTAGATCAAAGTCACAAGTCCTATCTCCCTGAGCAGCAGTGGAG
TAGGT
Found at i:41466693 original size:132 final size:133
Alignment explanation
Indices: 41466421--41466733 Score: 466
Period size: 132 Copynumber: 2.3 Consensus size: 133
41466411 TAGGTTGAAA
41466421 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTATT-G-AGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCT
* * * * *
41466486 ATATTGGTAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGAT
64 ATATTGGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGCAGCAAAATAGAT
41466551 CAAAG
129 CAAAG
* * * * * *
41466556 ATAGCAGATCTTGTCTTCCTATATT-TGTGAAGTAGATCGAAGATAGCAGCTCTTGTCTTCCTAT
1 ATAGCAGATCTTGTCTTCCTGTATTGAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCTAT
*
41466620 ATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCA
66 ATTGGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCA
41466685 AAG
131 AAG
*
41466688 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAATACATCAAAGA
1 ATAGCAGATCTTGTCTTCCTGTATT-G-AGCGAAATAGATCAAAGA
41466734 CAAAAAAAAA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
132 120 0.76
135 37 0.24
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (133 bp):
ATAGCAGATCTTGTCTTCCTGTATTGAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCTAT
ATTGGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCA
AAG
Found at i:41467402 original size:15 final size:16
Alignment explanation
Indices: 41467371--41467406 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
41467361 AATAGATAGT
41467371 TTTTTCATTATTATTA
1 TTTTTCATTATTATTA
41467387 TTTTTCATTATT-TTA
1 TTTTTCATTATTATTA
41467402 TTTTT
1 TTTTT
41467407 ATTTTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCATTATTATTA
Found at i:41468158 original size:3 final size:3
Alignment explanation
Indices: 41468150--41468190 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
41468140 TTTATTTTTC
* * *
41468150 TTA TTA TTA TTA TTA TTA TTA TTA ATA TCA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
41468191 TCCATGTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:41468575 original size:23 final size:21
Alignment explanation
Indices: 41468544--41468592 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
41468534 AAATTTACTT
*
41468544 ATATATTGTACTTATATATATAC
1 ATATATTGTAC--ATACATATAC
*
41468567 ATATTTTGTACATACATATAC
1 ATATATTGTACATACATATAC
41468588 ATATA
1 ATATA
41468593 ATTCATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATATTGTACATACATATAC
Found at i:41470842 original size:15 final size:15
Alignment explanation
Indices: 41470822--41470852 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41470812 ATGATTAAAA
41470822 TGTAAGTATTCATGT
1 TGTAAGTATTCATGT
*
41470837 TGTAAGTATTTATGT
1 TGTAAGTATTCATGT
41470852 T
1 T
41470853 ATCTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (15 bp):
TGTAAGTATTCATGT
Found at i:41471424 original size:23 final size:22
Alignment explanation
Indices: 41471396--41471523 Score: 80
Period size: 23 Copynumber: 5.6 Consensus size: 22
41471386 TTTATGATTG
41471396 TAATTGAGGTGTATAAATGTTGT
1 TAATTGAGGTGT-TAAATGTTGT
41471419 TAATTG-GGATGTTAAAGTGTTG-
1 TAATTGAGG-TGTTAAA-TGTTGT
*
41471441 TAAGTTGAGGTGTTTAAATATTGT
1 TAA-TTGAGGTG-TTAAATGTTGT
* * * *
41471465 AAATTGAAGTGTTTAATTGCTGT
1 TAATTGAGGTG-TTAAATGTTGT
* * * *
41471488 AAATGGAGGTGCTCAAATGATGT
1 TAATTGAGGTG-TTAAATGTTGT
* *
41471511 AAATTGAAGTGTT
1 TAATTGAGGTGTT
41471524 TAAGTGCAAC
Statistics
Matches: 84, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
22 10 0.12
23 65 0.77
24 9 0.11
ACGTcount: A:0.31, C:0.02, G:0.27, T:0.40
Consensus pattern (22 bp):
TAATTGAGGTGTTAAATGTTGT
Found at i:41471605 original size:23 final size:22
Alignment explanation
Indices: 41471578--41471680 Score: 84
Period size: 23 Copynumber: 4.5 Consensus size: 22
41471568 TTTATCGCTG
41471578 TAATTGAGGTGTATAAATGTTGT
1 TAATTGAGGTGT-TAAATGTTGT
41471601 TAATTG-GGATGTTAAAGTGTTG-
1 TAATTGAGG-TGTTAAA-TGTTGT
*
41471623 TAAGTTGAGGTGTTTAATTGTTGT
1 TAA-TTGAGGTG-TTAAATGTTGT
* * * *
41471647 AAATTGAAGTGTTTAATTTCTGT
1 TAATTGAGGTGTTAAATGT-TGT
*
41471670 AAATTGAGGTG
1 TAATTGAGGTG
41471681 CTCAACTGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
22 14 0.21
23 44 0.67
24 8 0.12
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (22 bp):
TAATTGAGGTGTTAAATGTTGT
Found at i:41471649 original size:182 final size:182
Alignment explanation
Indices: 41471361--41471711 Score: 598
Period size: 182 Copynumber: 1.9 Consensus size: 182
41471351 CAATTTAAAG
* *
41471361 TGTTTAGTTTCTGAAAATTGAGATGTTTATGATTGTAATTGAGGTGTATAAATGTTGTTAATTGG
1 TGTTTAGTTGCTGAAAATTGAGATGTTTATGACTGTAATTGAGGTGTATAAATGTTGTTAATTGG
41471426 GATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATATTGTAAATTGAAGTGTTTAATTGCTGTAAA
66 GATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATATTGTAAATTGAAGTGTTTAATTGCTGTAAA
41471491 TGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACAAATTGAAT
131 TGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACAAATTGAAT
*
41471543 TGTTTAGTTGCT-AGAATTTGAGATGTTTATCG-CTGTAATTGAGGTGTATAAATGTTGTTAATT
1 TGTTTAGTTGCTGA-AAATTGAGATGTTTAT-GACTGTAATTGAGGTGTATAAATGTTGTTAATT
* * *
41471606 GGGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAATTGTTGTAAATTGAAGTGTTTAATTTCTGTA
64 GGGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATATTGTAAATTGAAGTGTTTAATTGCTGTA
* *
41471671 AATTGAGGTGCTCAACTGATGTAAATTGAAGTGTTTAAGTG
129 AATGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTG
41471712 TTGGAAACTA
Statistics
Matches: 159, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
181 1 0.01
182 157 0.99
183 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.41
Consensus pattern (182 bp):
TGTTTAGTTGCTGAAAATTGAGATGTTTATGACTGTAATTGAGGTGTATAAATGTTGTTAATTGG
GATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATATTGTAAATTGAAGTGTTTAATTGCTGTAAA
TGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACAAATTGAAT
Found at i:41471671 original size:46 final size:46
Alignment explanation
Indices: 41471397--41471708 Score: 226
Period size: 46 Copynumber: 6.8 Consensus size: 46
41471387 TTATGATTGT
* * * * * *
41471397 AATTGAGGTGTATAAATGTTGTTAATTG-GGATGTTAAAGTGTTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAG-TGTTTAATTGCTGTA
* *
41471443 AGTTGAGGTGTTTAAATATTGTAAATTGAAGTGTTTAATTGCTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
* * * * * ***
41471489 AATGGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCAACA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
** *
41471535 AATTGAATTGTTT--A-GTTGCTAGAATTTG-AGATGTTT-ATCGCTGT-
1 AATTGAGGTGTTTAAATGTTG-TA-AA-TTGAAG-TGTTTAATTGCTGTA
* * * * * *
41471579 AATTGAGGTGTATAAATGTTGTTAATTG-GGATGTTAAAGTGTTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAG-TGTTTAATTGCTGTA
* * *
41471625 AGTTGAGGTGTTTAATTGTTGTAAATTGAAGTGTTTAATTTCTGTA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
* * * *
41471671 AATTGAGGTGCTCAACTGATGTAAATTGAAGTGTTTAA
1 AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAA
41471709 GTGTTGGAAA
Statistics
Matches: 203, Mismatches: 52, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
43 3 0.01
44 22 0.11
45 14 0.07
46 158 0.78
47 6 0.03
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.40
Consensus pattern (46 bp):
AATTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGCTGTA
Found at i:41475264 original size:55 final size:54
Alignment explanation
Indices: 41475174--41475321 Score: 163
Period size: 55 Copynumber: 2.6 Consensus size: 54
41475164 TTTTTATAGT
* * * *
41475174 ATTATATATTATAATTT-TTTAATTCATATAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATAT-TTAATAATTATATTAA-AATATGATTAA
* *
41475232 ATTATATATTATTTTATTAAATTATATTTAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTAAATTATATTTAATAATTATATTAAAATATGATTAA
* *
41475286 ATTATTTATTATTTTTATTAAATTATTTTTAATAAT
1 ATTATATATTA-TTTTATTAAATTATATTTAATAAT
41475322 AACCTTATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
54 18 0.22
55 37 0.46
56 7 0.09
57 6 0.08
58 12 0.15
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (54 bp):
ATTATATATTATTTTATTAAATTATATTTAATAATTATATTAAAATATGATTAA
Found at i:41476511 original size:22 final size:22
Alignment explanation
Indices: 41476485--41476532 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
41476475 TTTTTCTTTT
* *
41476485 ATTTAATTGGTTT-TTATGTTCA
1 ATTTAATTGATTTATTA-GATCA
41476507 ATTTAATTGATTTATTAGATCA
1 ATTTAATTGATTTATTAGATCA
41476529 ATTT
1 ATTT
41476533 TTTATTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.56
Consensus pattern (22 bp):
ATTTAATTGATTTATTAGATCA
Found at i:41478168 original size:5 final size:5
Alignment explanation
Indices: 41478158--41478184 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
41478148 GTAATTTGAT
41478158 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
41478185 ACCAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:41479157 original size:21 final size:21
Alignment explanation
Indices: 41479131--41479192 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
41479121 CGGGTGGATC
*
41479131 AGCTCTTACGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTT
*
41479152 AGCTCTTTTGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTT
41479173 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
41479193 GGTGTGTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTT
Found at i:41479770 original size:79 final size:79
Alignment explanation
Indices: 41479684--41479846 Score: 317
Period size: 79 Copynumber: 2.1 Consensus size: 79
41479674 ATGTAATATG
*
41479684 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTGCGTATGTTATGGTTG
1 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
41479749 AACTTACCTATGTT
66 AACTTACCTATGTT
41479763 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
1 ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
41479828 AACTTACCTATGTT
66 AACTTACCTATGTT
41479842 ATGAA
1 ATGAA
41479847 TAAATATATT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (79 bp):
ATGAAAAAAGGATTGATGAGTTGAATAATGTACTTATATATGAGAAATTACGTATGTTATGGTTG
AACTTACCTATGTT
Found at i:41485595 original size:18 final size:18
Alignment explanation
Indices: 41485572--41485622 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
41485562 TCTATATATA
41485572 TATGT-ATATTTATTTTTT
1 TATGTAATATTT-TTTTTT
41485590 TATGTACATATTTTTTTTT
1 TATGTA-ATATTTTTTTTT
* **
41485609 CAACTAATATTTTT
1 TATGTAATATTTTT
41485623 CTCATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 13 0.46
19 9 0.32
20 6 0.21
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
TATGTAATATTTTTTTTT
Found at i:41485915 original size:30 final size:29
Alignment explanation
Indices: 41485875--41485940 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
41485865 ACCAATAAAA
41485875 GCCG-TTTTTTTCAA-ATTTTACCGAAATGG
1 GCCGATTTTTTT-AATA-TTTACCGAAATGG
* *
41485904 GCCGATTTTTTTATTATTTACCGGAATGG
1 GCCGATTTTTTTAATATTTACCGAAATGG
41485933 GCC-ATTTT
1 GCCGATTTT
41485941 CCGCGAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 5 0.15
29 20 0.61
30 8 0.24
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (29 bp):
GCCGATTTTTTTAATATTTACCGAAATGG
Found at i:41497225 original size:21 final size:21
Alignment explanation
Indices: 41497181--41497225 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
41497171 TAATTATATT
* *
41497181 AATTATATATGCTAAATAATA
1 AATTATATATACTAAATAACA
* *
41497202 AATTATATATATTAAATCACA
1 AATTATATATACTAAATAACA
41497223 AAT
1 AAT
41497226 CCAATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTATATATACTAAATAACA
Found at i:41500251 original size:30 final size:31
Alignment explanation
Indices: 41500216--41500276 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
41500206 TTTATATCTA
*
41500216 TATAATTTTTAAA-AAATTAAATTA-AATTTT
1 TATAA-TTTTAAATAAATTAAAATATAATTTT
41500246 TATAATTTTAAATAAATTAAAATATAATTTT
1 TATAATTTTAAATAAATTAAAATATAATTTT
41500277 ATTTTTACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 7 0.25
30 15 0.54
31 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TATAATTTTAAATAAATTAAAATATAATTTT
Found at i:41505156 original size:27 final size:27
Alignment explanation
Indices: 41505118--41505176 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
41505108 AGTATTACCT
*
41505118 TTAAACATTATTTTATGTTTCCTCGAC
1 TTAAACATTATTTTATGTTTCCTCAAC
*
41505145 TTAAACGTTATTTTATGTTTCCTCAAC
1 TTAAACATTATTTTATGTTTCCTCAAC
41505172 TTAAA
1 TTAAA
41505177 GATTTTGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (27 bp):
TTAAACATTATTTTATGTTTCCTCAAC
Found at i:41505827 original size:25 final size:25
Alignment explanation
Indices: 41505799--41505863 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
41505789 GCCTTCCCCA
41505799 ATAATATGCCACATAGGTCTTTC-AG
1 ATAATATGCCACATAGG-CTTTCTAG
* * *
41505824 ATAACT-CGCCATAAAGGCTTTCTAG
1 ATAA-TATGCCACATAGGCTTTCTAG
*
41505849 ACAATATGCCACATA
1 ATAATATGCCACATA
41505864 TTTCTTTTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
24 6 0.20
25 23 0.77
26 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (25 bp):
ATAATATGCCACATAGGCTTTCTAG
Found at i:41506164 original size:24 final size:24
Alignment explanation
Indices: 41506097--41506164 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
41506087 CATTTTCTCG
*
41506097 TGTTTATTGTCCCAATA-GACCTCA
1 TGTTTACTGTCCCAA-AGGACCTCA
* **
41506121 TGTTTACTGTACCAGTGGACCTCA
1 TGTTTACTGTCCCAAAGGACCTCA
41506145 TGTTTAC-GATCCCAAAGGAC
1 TGTTTACTG-TCCCAAAGGAC
41506165 TACATTTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (24 bp):
TGTTTACTGTCCCAAAGGACCTCA
Found at i:41519988 original size:25 final size:25
Alignment explanation
Indices: 41519915--41519978 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
41519905 GATTTCTAAA
* * *
41519915 ACTATTATTGATAGTATATCCTG-G
1 ACTACTATAGATAGTATATACTGAG
*
41519939 AACTACTATAGGTAGTATATACTGAG
1 -ACTACTATAGATAGTATATACTGAG
41519965 ACTACTATAGATAG
1 ACTACTATAGATAG
41519979 ACTGTACTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (25 bp):
ACTACTATAGATAGTATATACTGAG
Found at i:41526527 original size:469 final size:467
Alignment explanation
Indices: 41525451--41526852 Score: 2290
Period size: 469 Copynumber: 3.0 Consensus size: 467
41525441 TGCCGCAACT
41525451 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTTCGTCTCTTGTCTTTTGTTTCT
1 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTTC--CTCTTGTCTTTTGTTTCT
* * **
41525516 TGGTTGGTGACTAAGGGGATTGTTGTACTTATGGTAGGCGAAAGACAGTGATTAGTTTGTGCTAC
64 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
*
41525581 TGCTGAGGTTGGAGCGTTAAAGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
129 TGCTGAGGTTGGAGCGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
* * *
41525646 CTTCAAAACGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTCTGG
194 CTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTGG
* *
41525711 TTTTTAAATAAGTAATTAGGGACCCTTTTGTTAACTGTGATGACAGTTGAAAGTCTGGAGTGAAG
259 TTTTTAAATAAGTAATTGGGGA-CCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAG
* * * *
41525776 GGCTGGACTGGTACTAAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGGGATT
323 GGCTGGGCTGGTGCTGAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATT
* * *
41525841 GCTTTGGAAGTACATTCAGCTTTGTGTTGTTGTGCTAATCATGACTTGAGATTAAC----AAGTT
388 GATTTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTT
*
41525902 GAAGTGTTCAATTCC
453 GAAATGTTCAATTCC
* * *
41525917 CGTCATTCCCATTTTGTTGTTGTGCGTTCGATAAGTAATGTTTTTGCCTTTTGTCTTTTGTTTCT
1 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATG-TTTT-CCTCTTGTCTTTTGTTTCT
41525982 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
64 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
** *
41526047 TATTGAGGTTGGAGTGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
129 TGCTGAGGTTGGAGCGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
* * *
41526112 CTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAATATTATTAATGGCGTTTTAAATGTTTGA
194 CTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTGG
* * *
41526177 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACAGTGATGATAGCTGAAAGTCTAGAGTGAAGG
259 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAGG
*
41526242 GCTGGGCTGGTGCTGAATTATAGAGGGAAACGTCCGCGGTTCATAAGGTAGGTATCATGCGATTG
324 GCTGGGCTGGTGCTGAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATTG
41526307 ATTTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTTG
389 ATTTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTTG
*
41526372 AAATGCTCAATTCC
454 AAATGTTCAATTCC
*
41526386 CGTCATTCCTGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTCTACCTCTTGTCTTTTGTTTCT
1 CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTT-T-CCTCTTGTCTTTTGTTTCT
* *
41526451 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCTAAAGGTAGTGATCGGTTTGTGCTAC
64 TGGTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTAC
* *
41526516 TGCTGAGGTTGGAGCGTTAAGGACAATGTTTATCGTTTGTAAGTGAATCATGCGTATTGAATCGC
129 TGCTGAGGTTGGAGCGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGC
* * * * *
41526581 CTTCGGAATAGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTATTTTAAATATTCGG
194 CTTCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTGG
41526646 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAGG
259 TTTTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAGG
* *
41526711 GCTGGGCTAGTGCTGAATTATAGAGGGAAACGTCCGTGGTTTATAAGGTAGGTATCATGCGATTG
324 GCTGGGCTGGTGCTGAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATTG
* * *
41526776 ATTTGGGAGTACATTCGGCTTTGTGTTGTTGTGGTAATCATGAGTTGAGATTAACAATTAGGTTG
389 ATTTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTTG
41526841 AAATGTTCAATT
454 AAATGTTCAATT
41526853 GTAGGTATTA
Statistics
Matches: 867, Mismatches: 62, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
465 151 0.17
466 257 0.30
467 4 0.00
468 4 0.00
469 451 0.52
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.38
Consensus pattern (467 bp):
CGTCATTCCCGTTTTGTTGTTGTGCGTTCGGTAAGTAATGTTTTCCTCTTGTCTTTTGTTTCTTG
GTTGGTGACTAAGGGGATTGTTGTACTTGTGGTAGGCGAAAGGCAGTGATCGGTTTGTGCTACTG
CTGAGGTTGGAGCGTTAAGGACAATGTTTATCATTGGTAAGTGAATCATGCGTATTGAATCGCCT
TCGAAATGGGGGTCTTACTTAAATCGTTGATTTAAGATTATTAATGGTGTTTTAAATGTTTGGTT
TTTAAATAAGTAATTGGGGACCTTTTGTTAACTGTGATGACAGCTGAAAGTCTGGAGTGAAGGGC
TGGGCTGGTGCTGAATTATAGAGGGAAACGTCCGTGGTTCATAAGGTAGGTATCATGCGATTGAT
TTGGAAGTACATTCGGCTTTGTGTTGTTGTGCTAATCATGAGTTGAGATTAACAATTAAGTTGAA
ATGTTCAATTCC
Found at i:41528047 original size:28 final size:27
Alignment explanation
Indices: 41528006--41528058 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
41527996 ACGCCATCTA
* *
41528006 TTTTGAAAGCTTTCGCATAGATTAATCG
1 TTTTGAAAGATTTCGAATA-ATTAATCG
41528034 TTTTGAAAGATTTCGAATAATTAAT
1 TTTTGAAAGATTTCGAATAATTAAT
41528059 TAACACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (27 bp):
TTTTGAAAGATTTCGAATAATTAATCG
Found at i:41530689 original size:12 final size:12
Alignment explanation
Indices: 41530674--41530702 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
41530664 AAAAAAAAGC
41530674 AAAAACCGCAAA
1 AAAAACCGCAAA
41530686 AAAAACCGCAAA
1 AAAAACCGCAAA
41530698 AAAAA
1 AAAAA
41530703 GTTGCCTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.72, C:0.21, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAACCGCAAA
Found at i:41536882 original size:19 final size:20
Alignment explanation
Indices: 41536846--41536888 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
41536836 AAATGAAAAG
41536846 TGAAATGTGGAATGGAAC-A
1 TGAAATGTGGAATGGAACTA
*
41536865 TGAAATGGTGG-ATTGAACTA
1 TGAAAT-GTGGAATGGAACTA
41536885 TGAA
1 TGAA
41536889 TATTGATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAAATGTGGAATGGAACTA
Found at i:41537289 original size:10 final size:10
Alignment explanation
Indices: 41537274--41537298 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
41537264 TGAGAAATCT
41537274 TATGTATATA
1 TATGTATATA
41537284 TATGTATATA
1 TATGTATATA
41537294 TATGT
1 TATGT
41537299 GTGATGGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:41546134 original size:50 final size:50
Alignment explanation
Indices: 41545948--41546186 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
41545938 GATAATAACA
* * ** * * *
41545948 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * ** * *
41545997 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCGTATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
41546047 TGCCCATGCTATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
41546097 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC---GG
*
41546153 TGCCAATGCCATGTCCCAGACTTGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
41546187 AGATCTCTTT
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 82 0.53
53 3 0.02
56 32 0.21
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:41557021 original size:50 final size:50
Alignment explanation
Indices: 41556954--41557151 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 50
41556944 TTTCTTGTAC
* * **
41556954 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
41557004 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
41557054 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
41557110 TGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
41557152 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 82 0.67
53 2 0.02
56 39 0.32
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:41558444 original size:12 final size:12
Alignment explanation
Indices: 41558427--41558468 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
41558417 ATCCTAAAAT
41558427 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
41558439 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
41558451 TCCCTCCTCAAA
1 TCTCTCCTCAAA
41558463 TCTCTC
1 TCTCTC
41558469 TATGACCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:41569253 original size:101 final size:102
Alignment explanation
Indices: 41569138--41569322 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
41569128 AAAGTGATGG
*
41569138 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGCAGT
41569201 ACTATGTGCAGGCTACTATGCGTACCGGATAACTTTGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAACTTTGA
* *
41569239 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGCAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGCAGTA
*
41569304 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
41569323 TGAACTGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGCAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAACTTTGA
Found at i:41569268 original size:51 final size:49
Alignment explanation
Indices: 41569135--41569320 Score: 212
Period size: 51 Copynumber: 3.7 Consensus size: 49
41569125 GTGAAAGTGA
* *
41569135 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAT--T
* * *
41569185 AGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAACTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-A-TT
* * * *
41569236 TGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-T-T
* *
41569287 TGGTCACATGTGCAGTACTATGTGTAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
41569321 TGTGAACTGG
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 42 0.37
51 71 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATT
Found at i:41571598 original size:44 final size:44
Alignment explanation
Indices: 41571546--41571653 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
41571536 GGTATACAGT
* * *
41571546 GTAAGACCATAGAT-ATAAGATGAAATGACAGCTAGGTATGATAA
1 GTAAGACCATAGATGA-AAGATGAAAAGACAGCCAAGTATGATAA
* *
41571590 GTAAGACCATGGATGAAAGATGAAAAGACAGCCAAGTATGATGA
1 GTAAGACCATAGATGAAAGATGAAAAGACAGCCAAGTATGATAA
*
41571634 GTAAGACCATGGATGAAAGA
1 GTAAGACCATAGATGAAAGA
41571654 CTCCATAGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.19
Consensus pattern (44 bp):
GTAAGACCATAGATGAAAGATGAAAAGACAGCCAAGTATGATAA
Found at i:41571717 original size:33 final size:34
Alignment explanation
Indices: 41571671--41571776 Score: 103
Period size: 33 Copynumber: 3.2 Consensus size: 34
41571661 GCATCCACAA
* *
41571671 AGATAG-CCTGCTGGGATAGTAAA-AGCAAAATAG
1 AGATAGTCCTGCTGGGACAGTAAACA-CAAAACAG
41571704 AGATAGTCC-GCTGGGACAGTAAACACAAAACAG
1 AGATAGTCCTGCTGGGACAGTAAACACAAAACAG
* * * * * *
41571737 AGATAGTCC-ACTTGGACTGTAAACATAGAACAA
1 AGATAGTCCTGCTGGGACAGTAAACACAAAACAG
41571770 AGATAGT
1 AGATAGT
41571777 TTATCAGGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
33 60 0.95
34 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (34 bp):
AGATAGTCCTGCTGGGACAGTAAACACAAAACAG
Found at i:41577122 original size:51 final size:49
Alignment explanation
Indices: 41576988--41577180 Score: 206
Period size: 51 Copynumber: 3.8 Consensus size: 49
41576978 ATTATTATCA
* * * *
41576988 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAAATT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAA-C
* * * *
41577038 TTTGGTTCACGTAGTAGCTTGCACATAGTACTACACACATGACCAAAACC
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAA-C
* * * *
41577088 TTCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AAAC
* * *
41577139 TATCGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
41577181 CTTATAGGCA
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
50 43 0.36
51 73 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAC
Found at i:41593926 original size:42 final size:42
Alignment explanation
Indices: 41593856--41593994 Score: 172
Period size: 42 Copynumber: 3.3 Consensus size: 42
41593846 AGTTAACTCA
* * *
41593856 TATGAGTTTCAGTTTAACCCTAATGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* * *
41593898 TTTGAGCTTCTGTTTAACCCTTATGGGTTTTCGTTCAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* * *
41593940 TATGAGCTT-TCGTTTAACACTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCT-GTTTAACCCTTATGGGTTTCCGTTTAGCTCT
*
41593982 TATGTGCTTCTGT
1 TATGAGCTTCTGT
41593995 GCAACCTTCG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 80 0.98
43 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:41593975 original size:21 final size:21
Alignment explanation
Indices: 41593856--41593994 Score: 84
Period size: 21 Copynumber: 6.6 Consensus size: 21
41593846 AGTTAACTCA
* * *
41593856 TATGAGTTTCAGTTTAACCCT
1 TATGGGTTTCTGTTTAACACT
* * * *
41593877 AATGGGTTTCCGTTTAGCTCT
1 TATGGGTTTCTGTTTAACACT
* * * *
41593898 TTTGAGCTTCTGTTTAACCCT
1 TATGGGTTTCTGTTTAACACT
* * *
41593919 TATGGGTTT-TCGTTCAGCTCT
1 TATGGGTTTCT-GTTTAACACT
*
41593940 TATGAGCTTTC-GTTTAACACT
1 TATG-GGTTTCTGTTTAACACT
*
41593961 TATGGGTTTCTGTTTAGCACT
1 TATGGGTTTCTGTTTAACACT
* *
41593982 TATGTGCTTCTGT
1 TATGGGTTTCTGT
41593995 GCAACCTTCG
Statistics
Matches: 88, Mismatches: 26, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
20 6 0.07
21 78 0.89
22 4 0.05
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (21 bp):
TATGGGTTTCTGTTTAACACT
Found at i:41596262 original size:50 final size:50
Alignment explanation
Indices: 41596160--41596402 Score: 247
Period size: 50 Copynumber: 4.7 Consensus size: 50
41596150 GAGGATGAAA
* *
41596160 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
41596216 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * **
41596266 TCACATGTAAGACAATGTCTGGGACATGGCGTTGGCACTAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * **
41596316 TCTCCCA--TATGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 --TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * *
41596366 TCTCATGTAAGACCATATCTGGGATATGGGATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
41596403 GTATAAGAAA
Statistics
Matches: 160, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
48 4 0.03
50 112 0.70
52 4 0.03
53 3 0.02
55 1 0.01
56 36 0.22
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:41599465 original size:19 final size:20
Alignment explanation
Indices: 41599441--41599503 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
41599431 CTTGCATTAA
41599441 ATGTC-TGCATCTTTAAAAC
1 ATGTCTTGCATCTTTAAAAC
*
41599460 ATGTCTTGCA---TT---AT
1 ATGTCTTGCATCTTTAAAAC
41599474 ATGTC-TGCATCTTTAAAAC
1 ATGTCTTGCATCTTTAAAAC
41599493 ATGTCTTGCAT
1 ATGTCTTGCAT
41599504 TAAGAGTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
13 4 0.12
14 6 0.18
16 2 0.06
17 2 0.06
19 11 0.32
20 9 0.26
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTCTTGCATCTTTAAAAC
Found at i:41599467 original size:33 final size:33
Alignment explanation
Indices: 41599430--41599506 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
41599420 TTTAATTATA
41599430 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
1 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
*
41599463 TCTTGCATTATATGTCTGCATCTTTAAAACATG
1 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
41599496 TCTTGCATTAA
1 TCTTGCATTAA
41599507 GAGTTTGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (33 bp):
TCTTGCATTAAATGTCTGCATCTTTAAAACATG
Found at i:41599516 original size:33 final size:32
Alignment explanation
Indices: 41599430--41599516 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 32
41599420 TTTAATTATA
41599430 TCTTGCATTAAATGTCTGCATCTTTAAAACATG
1 TCTTGCATTAAA-GTCTGCATCTTTAAAACATG
*
41599463 TCTTGCATTATATGTCTGCATCTTTAAAACATG
1 TCTTGCATTA-AAGTCTGCATCTTTAAAACATG
*
41599496 TCTTGCATTAAGAGTTTGCAT
1 TCTTGCATTAA-AGTCTGCAT
41599517 TTAACTAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
32 1 0.02
33 47 0.96
34 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (32 bp):
TCTTGCATTAAAGTCTGCATCTTTAAAACATG
Found at i:41599600 original size:16 final size:18
Alignment explanation
Indices: 41599568--41599602 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
41599558 ATTATGAGTT
41599568 TGTGTCATATAAGTTAAG
1 TGTGTCATATAAGTTAAG
41599586 TGTGTCAT-TAA-TTAAG
1 TGTGTCATATAAGTTAAG
41599602 T
1 T
41599603 TTTATTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (18 bp):
TGTGTCATATAAGTTAAG
Found at i:41613032 original size:5 final size:5
Alignment explanation
Indices: 41613022--41613056 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
41613012 TTTACCTTGA
*
41613022 TATTC TATTC TATTC TATTC TATTC TGTTC TATTC
1 TATTC TATTC TATTC TATTC TATTC TATTC TATTC
41613057 ACTGAAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.60
Consensus pattern (5 bp):
TATTC
Found at i:41615297 original size:26 final size:25
Alignment explanation
Indices: 41615268--41615333 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
41615258 TAATAATGGC
41615268 ATAATATGCATAATAAAATATAAAAT
1 ATAATATGCATAATAAAAT-TAAAAT
**
41615294 ATAATA-GCAATAAT-AAATTATGAT
1 ATAATATGC-ATAATAAAATTAAAAT
41615318 ACTAATATGCATAATA
1 A-TAATATGCATAATA
41615334 GAACAATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.15
25 16 0.47
26 13 0.38
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (25 bp):
ATAATATGCATAATAAAATTAAAAT
Found at i:41615464 original size:17 final size:17
Alignment explanation
Indices: 41615438--41615474 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
41615428 TAATAATAAC
*
41615438 AATAATA-AAAGATA-A
1 AATAATATAAAAATATA
41615453 AATAATATAAAAATATA
1 AATAATATAAAAATATA
41615470 AATAA
1 AATAA
41615475 AAGGAATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AATAATATAAAAATATA
Found at i:41617258 original size:44 final size:44
Alignment explanation
Indices: 41617189--41617682 Score: 307
Period size: 44 Copynumber: 11.0 Consensus size: 44
41617179 AGGGATTGCC
* * * * *
41617189 GCTTTAATCTACTCCGCTTCAACTTCAAGGAGATAAGATTAGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
* *
41617233 GCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
* ** * ** * * * ***
41617277 ACTTGTAGCTATTCCACTACAACTTCAGGGAAATAAGAAGATTCACA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGAT---AAGATTTGTA
* * *
41617324 CCTTCAATCTGCTCCACTGTAACTT-AAGGGAAATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAA-GGAGATAAGATTTGTA
* * *
41617368 GCTTTAGAT-TGCCCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTGTA
1 GCTTCA-ATCTGCTCCACTGCAACTTCAAGGAGATAAGA----T---TTGTA
* ** * * *
41617419 GCTTTAATCTATTCCACTACAACTTCAGAGGA-ATAAGATTCGCA
1 GCTTCAATCTGCTCCACTGCAACTTCA-AGGAGATAAGATTTGTA
** * *
41617463 TATTCAATCTACTCCACTGCAAATTCAAGGAGATAAGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
* * * * * *
41617507 ACTTCAATCTACTCTACTACAACTTCAGGGAGATACA-ATTTGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATA-AGATTTGTA
* ** * *
41617551 GCTTTAATCTATTTCACTGCAACTTCAGGGAGATAAGATTTGCT-
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG-TA
* * *
41617595 GTCTTCAATCTGCTCCATTGCAACTTC-AGGAAGGTAAGATTTGTG
1 G-CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGTA
* * * * *
41617640 GCTTTAATTTGCTTCACTGCAACTTCAAGGATATAATATTTGT
1 GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT
41617683 CACGATAACT
Statistics
Matches: 348, Mismatches: 79, Indels: 46
0.74 0.17 0.10
Matches are distributed among these distances:
43 5 0.01
44 234 0.67
45 40 0.11
46 1 0.00
47 31 0.09
48 1 0.00
50 2 0.01
51 31 0.09
52 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
Found at i:41617360 original size:91 final size:89
Alignment explanation
Indices: 41617234--41617405 Score: 229
Period size: 91 Copynumber: 1.9 Consensus size: 89
41617224 AGATTAGTAG
* * *
41617234 CTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTATT-CCACTACA
1 CTTCAATCTGCTCCACTGCAACTTAAGGGAAATAAGATTTGTAACTT-TAG--ATTCCCACTACA
41617298 ACTTCAGGGAAATAAGAAGATTCACAC
63 ACTTCAGGGAAATAAGAAGATTCACAC
* * *
41617325 CTTCAATCTGCTCCACTGTAACTTAAGGGAAATAAGATTTGTAGCTTTAGATTGCCCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTAAGGGAAATAAGATTTGTAACTTTAGATT--CCCACTACAA
*
41617390 CTTCAGGGAGATAAGA
64 CTTCAGGGAAATAAGA
41617406 TCTGTGACTT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 3 0.04
90 3 0.04
91 65 0.92
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTAAGGGAAATAAGATTTGTAACTTTAGATTCCCACTACAACT
TCAGGGAAATAAGAAGATTCACAC
Found at i:41624275 original size:6 final size:6
Alignment explanation
Indices: 41624262--41624301 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
41624252 TAATAACAAT
*
41624262 AATA-A AATATA AATTATA ACTATA AATATA AATATA AATA
1 AATATA AATATA AA-TATA AATATA AATATA AATATA AATA
41624302 AAAAGAATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 4 0.13
6 22 0.71
7 5 0.16
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:41624299 original size:25 final size:23
Alignment explanation
Indices: 41624254--41624300 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
41624244 TGGAGTAATA
41624254 ATAACAATAATAAAATATAAATT
1 ATAACAATAATAAAATATAAATT
*
41624277 ATAACTATAAATATAAATATAAAT
1 ATAACAAT-AATA-AAATATAAAT
41624301 AAAAAGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAACAATAATAAAATATAAATT
Found at i:41628180 original size:27 final size:28
Alignment explanation
Indices: 41628149--41628212 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
41628139 TTATATTTCC
*
41628149 TTTTATTCATG-TATT-TTTTTATTTTTA
1 TTTTATTCATGTTATTATTATTA-TTTTA
* *
41628176 TTTTATCCTTGTTATTATTATTATTTTA
1 TTTTATTCATGTTATTATTATTATTTTA
41628204 -TTTATTCAT
1 TTTTATTCAT
41628213 ATCAATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 16 0.53
28 9 0.30
29 5 0.17
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTATTCATGTTATTATTATTATTTTA
Found at i:41633877 original size:83 final size:83
Alignment explanation
Indices: 41633738--41633909 Score: 317
Period size: 83 Copynumber: 2.1 Consensus size: 83
41633728 TTCCACATCA
41633738 AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
1 AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
41633803 ATCTATTCTAAATGGTGT
66 ATCTATTCTAAATGGTGT
* *
41633821 AATATTCTTTCAAAACTTCTTGGAGTTGGATACATATAACAATATACACTGTCTATAAACAAAAC
1 AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
41633886 ATCTATTCTAAATGGTGT
66 ATCTATTCTAAATGGTGT
41633904 ATATAT
1 A-ATAT
41633910 ACGAGAATAA
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
83 82 0.95
84 4 0.05
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (83 bp):
AATATTCTTTCAAAACTTATTGGAGTTGGATACATATAACAATATACACAGTCTATAAACAAAAC
ATCTATTCTAAATGGTGT
Found at i:41637834 original size:114 final size:114
Alignment explanation
Indices: 41637646--41638096 Score: 679
Period size: 114 Copynumber: 4.0 Consensus size: 114
41637636 GAAAATAAGA
** * *
41637646 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAATACCTAAGCCCAACGACGTCGTTTTCGGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
41637710 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
** * * * * *
41637759 TTAGCGGCGTTTTTGAGAAAGCGCCATAAAAAAATCTAAGCCTAACAACGCCGTCTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
41637824 TCAGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
41637873 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTATGCCCAACGATGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
41637938 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTGATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * **
41637987 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACTTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
41638052 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAG
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAG
41638097 AGATTTAAAA
Statistics
Matches: 301, Mismatches: 36, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
113 23 0.08
114 278 0.92
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:41638725 original size:14 final size:14
Alignment explanation
Indices: 41638706--41638748 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
41638696 TTAATGTGAT
*
41638706 TTAAGGTTTATGGG
1 TTAAGGTTTAGGGG
*
41638720 TTAAGGGTTAGGGG
1 TTAAGGTTTAGGGG
41638734 TT-AGG-TTAGGGG
1 TTAAGGTTTAGGGG
41638746 TTA
1 TTA
41638749 GATGTTAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 9 0.35
13 3 0.12
14 14 0.54
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:41638742 original size:12 final size:12
Alignment explanation
Indices: 41638725--41638749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41638715 ATGGGTTAAG
41638725 GGTTAGGGGTTA
1 GGTTAGGGGTTA
41638737 GGTTAGGGGTTA
1 GGTTAGGGGTTA
41638749 G
1 G
41638750 ATGTTAAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:41638755 original size:19 final size:20
Alignment explanation
Indices: 41638718--41638765 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
41638708 AAGGTTTATG
* *
41638718 GGTTAAGGGTTAGGGGTT-A
1 GGTTAGGGGTTAGAGGTTAA
*
41638737 GGTTAGGGGTTAGATGTTAA
1 GGTTAGGGGTTAGAGGTTAA
41638757 GAGTTAGGG
1 G-GTTAGGG
41638766 ATTTAGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (20 bp):
GGTTAGGGGTTAGAGGTTAA
Found at i:41638864 original size:89 final size:89
Alignment explanation
Indices: 41638768--41639113 Score: 361
Period size: 83 Copynumber: 3.9 Consensus size: 89
41638758 AGTTAGGGAT
* * *
41638768 TTAGGGTTTATA-AATTTGGTGTCAGGTTAGAGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-
1 TTAGGGGTTATAGGATTTGGGGTCAGGTTAGAGTTTAGGGTTTAGATTAATTAGTGT-TTTTAAT
*
41638831 TTATATATTAAATAAGGTTTAGGGG
65 TTATATATTAAATAAAGTTTAGGGG
* * ** * * *
41638856 TTAGGGGTTA-AGGATTTAGGATTGGGTTATAGTTTAGGGTTTAGATTAATTACTATTTTTTAAT
1 TTAGGGGTTATAGGATTTGGGGTCAGGTTAGAGTTTAGGGTTTAGATTAATTAGT-GTTTTTAAT
* *
41638920 TTATATAGTCAATAAAGTTTAGGGG
65 TTATATATTAAATAAAGTTTAGGGG
*
41638945 TTAGGGGTTA-GGGATTTGGGGTC--G---G-GTTTAGGGTTTAGATTAATTAGTGCTTTTTAAT
1 TTAGGGGTTATAGGATTTGGGGTCAGGTTAGAGTTTAGGGTTTAGATTAATTAGTG-TTTTTAAT
41639003 TTATATATTAAATAAAGTTTAGGGG
65 TTATATATTAAATAAAGTTTAGGGG
* * * * *
41639028 TTAGGGGTTATGAGTTAGGGATTTGGGGTCAGGTTAGGGTTTAAGATTTGGATTAATTAGTACTT
1 TTAGGGG-T-T-A--TA-GGATTTGGGGTCAGGTTAGAGTTTAGGGTTTAGATTAATTAGT-GTT
41639093 TTTAATTTATATATTAAATAA
59 TTTAATTTATATATTAAATAA
41639114 GTTCTTTATA
Statistics
Matches: 213, Mismatches: 27, Indels: 28
0.79 0.10 0.10
Matches are distributed among these distances:
83 60 0.28
84 1 0.00
85 1 0.00
86 1 0.00
87 2 0.01
88 49 0.23
89 42 0.20
90 12 0.06
92 1 0.00
95 1 0.00
96 43 0.20
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (89 bp):
TTAGGGGTTATAGGATTTGGGGTCAGGTTAGAGTTTAGGGTTTAGATTAATTAGTGTTTTTAATT
TATATATTAAATAAAGTTTAGGGG
Found at i:41639045 original size:90 final size:91
Alignment explanation
Indices: 41638938--41639113 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 91
41638928 TCAATAAAGT
* * *
41638938 TTAGGGGTTAGGGGTTAGGGATTTGGGGTCGGGTTTAGGGTTT-A-GATTAATTAGTGCTTTTTA
1 TTAGGGGTTAGGAGTTAGGGATTTGGGGTCAGG-TTAGGGTTTAATGATTAATTAGTACTTTTTA
41639001 ATTTATATATTAAATAAAGTTTAGGGG
65 ATTTATATATTAAATAAAGTTTAGGGG
*
41639028 TTAGGGGTTATGAGTTAGGGATTTGGGGTCAGGTTAGGGTTTAAGATTTGGATTAATTAGTACTT
1 TTAGGGGTTAGGAGTTAGGGATTTGGGGTCAGGTTAGGGTTT-A-A--T-GATTAATTAGTACTT
41639093 TTTAATTTATATATTAAATAA
61 TTTAATTTATATATTAAATAA
41639114 GTTCTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
89 9 0.12
90 30 0.40
92 1 0.01
96 35 0.47
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (91 bp):
TTAGGGGTTAGGAGTTAGGGATTTGGGGTCAGGTTAGGGTTTAATGATTAATTAGTACTTTTTAA
TTTATATATTAAATAAAGTTTAGGGG
Found at i:41639215 original size:21 final size:21
Alignment explanation
Indices: 41639162--41639215 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
41639152 TAAAGATTAC
41639162 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
41639183 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
41639204 TAATTTAAAATT
1 TAATTTAAAATT
41639216 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:41639230 original size:8 final size:8
Alignment explanation
Indices: 41639205--41639248 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
41639195 TGAATATAAT
41639205 AATT-TAA
1 AATTGTAA
41639212 AATTGTAAA
1 AATTGT-AA
41639221 AATTGTAA
1 AATTGTAA
41639229 AATTGTAAAA
1 AATTGT--AA
41639239 AATTGTAA
1 AATTGTAA
41639247 AA
1 AA
41639249 ATTATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 4 0.12
8 13 0.39
9 8 0.24
10 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (8 bp):
AATTGTAA
Found at i:41639242 original size:10 final size:9
Alignment explanation
Indices: 41639210--41639258 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
41639200 ATAATAATTT
41639210 AAAATTGTA
1 AAAATTGTA
41639219 AAAATTGT-
1 AAAATTGTA
41639227 AAAATTGTAA
1 AAAATTGT-A
41639237 AAAATTGTA
1 AAAATTGTA
*
41639246 AAAATTATA
1 AAAATTGTA
41639255 AAAA
1 AAAA
41639259 AATAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.22
9 21 0.57
10 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (9 bp):
AAAATTGTA
Found at i:41639264 original size:27 final size:27
Alignment explanation
Indices: 41639210--41639266 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
41639200 ATAATAATTT
* ***
41639210 AAAATTGTAAAAATTGTAAAATTGTAA
1 AAAATTGTAAAAATTATAAAAAAATAA
41639237 AAAATTGTAAAAATTATAAAAAAATAA
1 AAAATTGTAAAAATTATAAAAAAATAA
41639264 AAA
1 AAA
41639267 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTGTAAAAATTATAAAAAAATAA
Found at i:41639291 original size:19 final size:19
Alignment explanation
Indices: 41639252--41639296 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
41639242 TGTAAAAATT
41639252 ATAAAAAAATAAAAATAAA
1 ATAAAAAAATAAAAATAAA
* *
41639271 ATTAAAAAATTAAAAA-GAA
1 A-TAAAAAAATAAAAATAAA
41639290 ATAAAAA
1 ATAAAAA
41639297 CACTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 13 0.57
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (19 bp):
ATAAAAAAATAAAAATAAA
Found at i:41639783 original size:199 final size:199
Alignment explanation
Indices: 41639443--41640189 Score: 1298
Period size: 199 Copynumber: 3.8 Consensus size: 199
41639433 AGTGGCGTTT
* * *
41639443 AAAAACGCCACAAAATATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGCGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
* * *
41639508 TGGGTTTTGCAGCGCTAAGGTAAAAACGCCGCTAAAGGTGGTCATTAACGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
41639573 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
41639638 ACTA
196 ACTA
* * *
41639642 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACAGTGTAGTTTTTGGCTATGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
41639707 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
* *
41639772 CGCCGCAAAGTTCTGTTCTCAATTTTCGTAAAACGGTGTCATTTTGCCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
41639837 ACTA
196 ACTA
* * *
41639841 AAAAACGCCGC-AAAAATTTTTAATAATGAAGACAAAACGATGCAATTTTTGGCTGTGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
* *
41639905 TGAGTTTTGTGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
*
41639970 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
41640035 ACTA
196 ACTA
*
41640039 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTTGCTGTGAATTTAA
1 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
* *
41640104 TGGGTTTTGCGGCACTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAACAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
*
41640169 CGCTGCAAAGTTCTGTTCTCA
131 CGCCGCAAAGTTCTGTTCTCA
41640190 ATTTATATAT
Statistics
Matches: 516, Mismatches: 31, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
198 187 0.36
199 329 0.64
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (199 bp):
AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAGTTTTTGGCTGTGAATTTAA
TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAACGGTGTCGTTTTGCCTGGGCATTAGTGGCGCT
ACTA
Found at i:41642453 original size:21 final size:21
Alignment explanation
Indices: 41642410--41642456 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
41642400 TTAAATTTGA
* *
41642410 AATTTTACAATTTAATCATCT
1 AATTTTACAATATAATCAACT
* *
41642431 AATTTTACAATATCATTAACT
1 AATTTTACAATATAATCAACT
41642452 AATTT
1 AATTT
41642457 AAATAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTACAATATAATCAACT
Found at i:41642777 original size:28 final size:28
Alignment explanation
Indices: 41642717--41642771 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
41642707 TTGTCATTCT
* ***
41642717 GCTATAATTCATGCCTTGTCTTTTAATC
1 GCTATAATTCATGCCATGTCTACAAATC
41642745 GCTATAATTCATGCCATGTCTACAAAT
1 GCTATAATTCATGCCATGTCTACAAAT
41642772 GACTATGGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (28 bp):
GCTATAATTCATGCCATGTCTACAAATC
Found at i:41643124 original size:46 final size:46
Alignment explanation
Indices: 41643071--41643228 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
41643061 AAAAATTGTC
*
41643071 CAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 CAACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
* * * * *
41643117 CAACTTAACAACTCACATAATTTACATAAT-ACATATATATA-TGTCATA
1 CAACTTAACAACTTATATAATTCACATAATAACTTACATA-ACT-T-A-A
*
41643165 CCATATAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 -C----AACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
*
41643216 TAACTTAACAACT
1 CAACTTAACAACT
41643229 CTCATAATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
45 8 0.09
46 39 0.45
47 1 0.01
48 1 0.01
49 1 0.01
51 1 0.01
52 1 0.01
53 27 0.31
54 8 0.09
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (46 bp):
CAACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
Found at i:41643182 original size:8 final size:8
Alignment explanation
Indices: 41643169--41643252 Score: 59
Period size: 8 Copynumber: 10.5 Consensus size: 8
41643159 GTCATACCAT
41643169 ATAACTTA
1 ATAACTTA
41643177 ATAACTTA
1 ATAACTTA
*
41643185 TATAA-TTC
1 -ATAACTTA
*
41643193 A-CA-T-A
1 ATAACTTA
41643198 ATAACTTA
1 ATAACTTA
41643206 CATAACTTA
1 -ATAACTTA
41643215 ATAACTTA
1 ATAACTTA
* *
41643223 ACAACTCTC
1 ATAACT-TA
*
41643232 ATAATTTA
1 ATAACTTA
41643240 CATAACTTA
1 -ATAACTTA
41643249 ATAA
1 ATAA
41643253 TTTTAAAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 2 0.03
8 29 0.49
9 24 0.41
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAACTTA
Found at i:41643189 original size:17 final size:17
Alignment explanation
Indices: 41643169--41643410 Score: 65
Period size: 17 Copynumber: 13.6 Consensus size: 17
41643159 GTCATACCAT
*
41643169 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
41643186 ATAA-TTCACATAATAACTTAC
1 ATAACTT-A-AT---AACTTAC
41643207 ATAACTTAATAACTTA-
1 ATAACTTAATAACTTAC
* * *
41643223 ACAACTCTCATAATTTAC
1 ATAACT-TAATAACTTAC
* *
41643241 ATAACTTAATAATTTTAAA
1 ATAACTTAATAA-CTT-AC
*
41643260 ATATATCATTCCATAACTTAC
1 ATA-A-C-TT-AATAACTTAC
41643281 A-AA-TT-A-AA--TAC
1 ATAACTTAATAACTTAC
* *
41643292 AATAA-TTAACAACTCAC
1 -ATAACTTAATAACTTAC
*
41643309 ATAACTTAATAAGTTATATC
1 ATAACTTAATAA-CT-TA-C
41643329 ATAACTCACATAATAACTTAC
1 ATAACT----TAATAACTTAC
*
41643350 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
**
41643367 ATATA-TGCATAACTTA-
1 ATA-ACTTAATAACTTAC
* * *
41643383 ATAACTCATATTATTTAC
1 ATAACTTA-ATAACTTAC
41643401 ATAACTTAAT
1 ATAACTTAAT
41643411 CATTGTAAAA
Statistics
Matches: 170, Mismatches: 23, Indels: 64
0.66 0.09 0.25
Matches are distributed among these distances:
11 3 0.02
12 1 0.01
13 6 0.04
14 2 0.01
15 3 0.02
16 17 0.10
17 62 0.36
18 19 0.11
19 6 0.04
20 11 0.06
21 21 0.12
22 8 0.05
23 5 0.03
24 6 0.04
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (17 bp):
ATAACTTAATAACTTAC
Found at i:41643210 original size:9 final size:8
Alignment explanation
Indices: 41643196--41643252 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
41643186 ATAATTCACA
41643196 TAATAACT
1 TAATAACT
41643204 TACATAACT
1 TA-ATAACT
41643213 TAATAACT
1 TAATAACT
*
41643221 TAACAACT
1 TAATAACT
* *
41643229 CTCATAATT
1 -TAATAACT
41643238 TACATAACT
1 TA-ATAACT
41643247 TAATAA
1 TAATAA
41643253 TTTTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
8 20 0.50
9 20 0.50
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (8 bp):
TAATAACT
Found at i:41643246 original size:34 final size:36
Alignment explanation
Indices: 41643169--41643252 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 36
41643159 GTCATACCAT
* *
41643169 ATAACTTAATAACTTATATAATTCACATAATAACTTAC
1 ATAACTTAATAACTTATACAACTCACATAAT-A-TTAC
*
41643207 ATAACTTAATAACTTA-ACAACTCTCATAAT-TTAC
1 ATAACTTAATAACTTATACAACTCACATAATATTAC
41643241 ATAACTTAATAA
1 ATAACTTAATAA
41643253 TTTTAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 16 0.37
37 11 0.26
38 16 0.37
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (36 bp):
ATAACTTAATAACTTATACAACTCACATAATATTAC
Found at i:41643383 original size:25 final size:26
Alignment explanation
Indices: 41643347--41643410 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
41643337 CATAATAACT
*
41643347 TACATAACTTAATAACTTATA-TATA
1 TACATAACTTAATAACTCATATTATA
* *
41643372 TGCATAACTTAATAACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
41643398 TACATAACTTAAT
1 TACATAACTTAAT
41643411 CATTGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:41643971 original size:43 final size:43
Alignment explanation
Indices: 41643916--41644141 Score: 330
Period size: 43 Copynumber: 5.3 Consensus size: 43
41643906 TACCAAACAA
* *
41643916 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
41643959 TAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCTTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
41644002 TAGCGGCGTTT-TCGGGAAAAGCGCCGGTGAAGAACATGGCCTT
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGAACATGGCCTT
41644045 TAGCGGCGTTT-TCGGGAAAAGCGCCGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * * *
41644088 TAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAAAATATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
41644131 TAGCGGCGTTT
1 TAGCGGCGTTT
41644142 ATTTCTATAA
Statistics
Matches: 167, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.01
43 166 0.99
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
Found at i:41647383 original size:16 final size:16
Alignment explanation
Indices: 41647359--41647407 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
41647349 TTCGCTGTAT
41647359 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
41647375 TGGATTAGAGACGTAA
1 TGGAATAGAGGCGTAA
*
41647391 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
41647407 T
1 T
41647408 AGTAAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:41647438 original size:45 final size:44
Alignment explanation
Indices: 41647387--41647476 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
41647377 GATTAGAGAC
*
41647387 GTAATGGAATAGAGGTGTAATAGTAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGT-AATC-ATGTGTTTGGTTGAAT
*
41647432 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGTAATCATGTGTTTGGTTGAAT
41647476 G
1 G
41647477 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 23 0.55
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGTAATCATGTGTTTGGTTGAAT
Found at i:41647491 original size:39 final size:43
Alignment explanation
Indices: 41647387--41647493 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 43
41647377 GATTAGAGAC
41647387 GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTT--AT
* *
41647432 GTAATGGAATAGAGGCGTAATAGT-AATC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGTAAATCAAT-TGTTTGGTTAT
41647472 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGTGTAATAG
41647494 CATAATGGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 20 0.34
40 2 0.03
43 2 0.03
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTTAT
Found at i:41647658 original size:16 final size:16
Alignment explanation
Indices: 41647621--41647662 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
41647611 TTAATCATAT
*
41647621 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
41647637 TT-AAATATATTATAA
1 TTAAAATATATTATAA
41647652 TTAAAATATAT
1 TTAAAATATAT
41647663 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:41647669 original size:14 final size:15
Alignment explanation
Indices: 41647630--41647671 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
41647620 TTTAAACATA
*
41647630 ATTATTATTAAATAT
1 ATTATAATTAAATAT
41647645 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
41647659 A-TATAATTTAATA
1 ATTATAATTAAATA
41647672 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:41647782 original size:18 final size:17
Alignment explanation
Indices: 41647761--41647795 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41647751 TTATTATTAA
*
41647761 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
41647779 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
41647796 TCTAATAATC
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:41647853 original size:60 final size:60
Alignment explanation
Indices: 41647669--41647855 Score: 159
Period size: 60 Copynumber: 3.1 Consensus size: 60
41647659 ATATAATTTA
* * *
41647669 ATAAAATTCTTAATAGTCAATATTCTTATATGAATGTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAATCAATATTCTTATATGAATATACTAAAATCATAATATATGATACT
** * * * ** * * * *
41647730 ATAAAA-GATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAATTCTAA--TAATCAAT-ATTCTTATATGAATATACTAAAATCATAATATATGATACT
*
41647788 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAATCAATATTCTTATATGAATATACTAAAATCATAATATATGATACT
41647849 ATAAAAT
1 ATAAAAT
41647856 ATAATTTGAA
Statistics
Matches: 92, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
58 4 0.04
59 39 0.42
60 40 0.43
61 9 0.10
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (60 bp):
ATAAAATTCTAATAATCAATATTCTTATATGAATATACTAAAATCATAATATATGATACT
Found at i:41647860 original size:119 final size:121
Alignment explanation
Indices: 41647619--41647915 Score: 501
Period size: 119 Copynumber: 2.5 Consensus size: 121
41647609 ATTTAATCAT
*
41647619 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
41647684 GTCAATATTCTTATATGAATGTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATGTACTAAAATCATAATATATGATACTATAAAAGATA
41647740 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
41647803 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATGTACTAAAATCATAATATATGATACTATAAAAGATA
* * *
41647859 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
41647916 TAAAATAATT
Statistics
Matches: 168, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 109 0.65
120 55 0.33
121 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATGTACTAAAATCATAATATATGATACTATAAAAGATA
Found at i:41647914 original size:59 final size:58
Alignment explanation
Indices: 41647717--41647904 Score: 173
Period size: 59 Copynumber: 3.2 Consensus size: 58
41647707 CTCAAATCAT
*
41647717 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATTAA
* * * * * * * * * ** * *
41647776 AATATATAAT-TTAATAAAATTCTAATAATCAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATACT-ATAAAA-TATAAT-TTAAATAATTATTAT-TAAATATATTTTAATTAA
*
41647836 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATTAA
41647895 AATATATGAT
1 AATATATGAT
41647905 TTAATAAAAT
Statistics
Matches: 94, Mismatches: 28, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
58 2 0.02
59 51 0.54
60 38 0.40
61 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATTAA
Found at i:41656912 original size:12 final size:13
Alignment explanation
Indices: 41656895--41656923 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
41656885 TTAAACTAAG
41656895 TAAATAAAT-AAA
1 TAAATAAATAAAA
41656907 TAAATAAATAAAA
1 TAAATAAATAAAA
41656920 TAAA
1 TAAA
41656924 ACTTTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:41669683 original size:27 final size:27
Alignment explanation
Indices: 41669629--41669683 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
41669619 TTCTGTTGCT
* *
41669629 AATAAATATTCATATTACTATAGTAAA
1 AATAAATATTCATATTAATATACTAAA
* *
41669656 AATAAATTTTCA-ATTAATATACTGAA
1 AATAAATATTCATATTAATATACTAAA
41669682 AA
1 AA
41669684 GAAAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (27 bp):
AATAAATATTCATATTAATATACTAAA
Found at i:41669715 original size:14 final size:15
Alignment explanation
Indices: 41669683--41669721 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
41669673 TATACTGAAA
*
41669683 AGAAAAGAAAAGAATT
1 AGAAAA-AAAACAATT
41669699 AGAAAAAAAACAA-T
1 AGAAAAAAAACAATT
41669713 AGAAAAAAA
1 AGAAAAAAA
41669722 CCATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 6 0.27
16 6 0.27
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.08
Consensus pattern (15 bp):
AGAAAAAAAACAATT
Found at i:41670356 original size:96 final size:96
Alignment explanation
Indices: 41670241--41670456 Score: 294
Period size: 96 Copynumber: 2.2 Consensus size: 96
41670231 TTTTAAGAAA
* *
41670241 AAAAATCAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAATTATTTA-AAAA-T
1 AAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAAAAATT-TTTATAAAACT
41670304 CAGATAAGGGTTTAGAG-TTAAGGGTTTTTAAGG
65 -AGATAAGGGTTTAGAGTTTAA-GGTTTTTAAGG
* * * *
41670337 AAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTTATAAAACTT
1 AAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAAAAATTTTTATAAAACTA
* * *
41670402 GATTAGGGTTTAGTGTTTAAGGTTTTTAAGT
66 GATAAGGGTTTAGAGTTTAAGGTTTTTAAGG
41670433 AAAAACTCAAATAAATTAGGGTTT
1 AAAAA-TCAAATAAATTAGGGTTT
41670457 GGGGTTTAGG
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
95 4 0.04
96 80 0.75
97 22 0.21
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.38
Consensus pattern (96 bp):
AAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAAAAATTTTTATAAAACTA
GATAAGGGTTTAGAGTTTAAGGTTTTTAAGG
Found at i:41670726 original size:126 final size:126
Alignment explanation
Indices: 41670495--41670911 Score: 658
Period size: 126 Copynumber: 3.3 Consensus size: 126
41670485 TTGTTAATTT
* * *
41670495 AAAGAAGCTCTCACGTGGACGCACTTTTACTACAGTAGCTCTTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
41670560 GTTTCTGAGCAAATGGTGTCAAAAACGCTTTAAGCT-GGATGCTTTGTCAGCAGAAGTATTG
66 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAG-TAGGATGCTTTGTCAGCAGAAGTACTG
*
41670621 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
41670686 GTTTCTGAGCAAATAGTGTCAAAAAAACTTTAAGTAGGATGCTTTGTCAACAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
* *
41670747 AAAGAAGCTC-CTACGTGGACGCACTTTTGCTACAGTTGCTACTGAAAAAATAATTTCGAGTAGA
1 AAAGAAGCTCTC-ACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGA
* * *
41670811 AGTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTTAGCAGAAGTACTG
65 CGTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
* *
41670873 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAATAGC
1 AAAGAAGCTCTCACGTGGACGCACTTTTGCTACAGTAGC
41670912 GTATGTTTGA
Statistics
Matches: 269, Mismatches: 19, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
125 2 0.01
126 266 0.99
127 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCTCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAAAGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:41675016 original size:11 final size:11
Alignment explanation
Indices: 41675002--41675094 Score: 107
Period size: 11 Copynumber: 8.5 Consensus size: 11
41674992 TCTTTTAAAT
41675002 AGAAATTTGAG
1 AGAAATTTGAG
*
41675013 AGAAAATTGAG
1 AGAAATTTGAG
*
41675024 AGGAATTTGAG
1 AGAAATTTGAG
**
41675035 AGGGATTTGAG
1 AGAAATTTGAG
*
41675046 AGGAATTTGAG
1 AGAAATTTGAG
*
41675057 AGGAATTTGAG
1 AGAAATTTGAG
*
41675068 AGAATATTAGAG
1 AGAA-ATTTGAG
41675080 AGAAA-TTGAG
1 AGAAATTTGAG
41675090 AGAAA
1 AGAAA
41675095 GGATTTAGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
10 9 0.12
11 54 0.74
12 10 0.14
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:41675536 original size:5 final size:6
Alignment explanation
Indices: 41675520--41675557 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
41675510 AAACCATCTA
41675520 CTTTTT CTTTTT CTTTTT CTTTTT CTCTTTT -TTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT CT
41675558 CTCTTCTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:41675550 original size:14 final size:14
Alignment explanation
Indices: 41675520--41675569 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
41675510 AAACCATCTA
41675520 CTTTTTC-TTTT-T
1 CTTTTTCTTTTTCT
41675532 CTTTTTCTTTTTCT
1 CTTTTTCTTTTTCT
41675546 CTTTTT-TTTTCTCT
1 CTTTTTCTTTT-TCT
*
41675560 CTTCTTCTTT
1 CTTTTTCTTT
41675570 AAACTTGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 7 0.21
13 8 0.24
14 15 0.45
15 3 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTCTTTTTCT
Found at i:41675558 original size:12 final size:13
Alignment explanation
Indices: 41675522--41675565 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
41675512 ACCATCTACT
41675522 TTTTCTTTTTCT-
1 TTTTCTTTTTCTC
41675534 TTTTCTTTTTCTC
1 TTTTCTTTTTCTC
41675547 TTTT-TTTTTCTC
1 TTTTCTTTTTCTC
*
41675559 TCTTCTT
1 TTTTCTT
41675566 CTTTAAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 23 0.79
13 6 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:41680463 original size:29 final size:29
Alignment explanation
Indices: 41680421--41680481 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
41680411 TTCATATTTA
*
41680421 ATTATCTATATTTAATCCTATAATAAATT
1 ATTATCTATATTTAATACTATAATAAATT
* * *
41680450 ATTA-CTATAATTTATTATTTTAATAAATT
1 ATTATCTAT-ATTTAATACTATAATAAATT
41680479 ATT
1 ATT
41680482 TAATATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTATCTATATTTAATACTATAATAAATT
Found at i:41681322 original size:14 final size:14
Alignment explanation
Indices: 41681303--41681338 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
41681293 GAAAACTAAG
41681303 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
* *
41681317 TCATTTTTCGAAAA
1 TCATTTTCCAAAAA
41681331 TCATTTTC
1 TCATTTTC
41681339 AATGAAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:41689786 original size:29 final size:29
Alignment explanation
Indices: 41689730--41689786 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
41689720 AAAATTATGA
* * *
41689730 ATTAAAATTAGTTTATTACTAACTCATAT
1 ATTAAAATTAGTGTATAACTAACACATAT
41689759 ATTAAAATATAGTGTATAACTAA-ACATA
1 ATTAAAAT-TAGTGTATAACTAACACATA
41689787 GCATAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (29 bp):
ATTAAAATTAGTGTATAACTAACACATAT
Found at i:41694961 original size:101 final size:102
Alignment explanation
Indices: 41694846--41695030 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 102
41694836 AAAGTGATGG
* * * * *
41694846 TCACGTTTGTAGTACTATGTGTAGGCTACCAAGTGTACCAGAATGAT-A-GGTCGCATGTGCAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACCAAGTGTACC-GAATGATAATGGCCACATGTACAGT
41694909 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * * * * *
41694947 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGTAATGGCCACATGTATAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACCAAGTGTACCGAATGATAATGGCCACATGTACAGTA
41695012 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
41695031 TGAACTGAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
100 5 0.07
101 35 0.49
102 31 0.44
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACCAAGTGTACCGAATGATAATGGCCACATGTACAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:41694968 original size:51 final size:51
Alignment explanation
Indices: 41694899--41695030 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
41694889 TGATAGGTCG
* * *
41694899 CATGTGCAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GACCA
* * * * *
41694950 CGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGTAATGGCCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGACCA
*
41695001 CATGTATAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
41695031 TGAACTGAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 69 0.99
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGACCA
Found at i:41694981 original size:26 final size:26
Alignment explanation
Indices: 41694952--41695032 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
41694942 TTCGATCACG
41694952 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
41694978 TGTGTA-T-CGGATG-GTAATGGCCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCTACTA
*
41695003 TGTATAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
41695029 TGTG
1 TGTG
41695033 AACTGAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:41695090 original size:45 final size:45
Alignment explanation
Indices: 41695039--41695127 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
41695029 TGTGAACTGA
* *
41695039 ACATCATTGATTAGTAAGGTGATTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGG
*
41695084 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCG
41695128 AGTATCTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGG
Found at i:41700756 original size:51 final size:51
Alignment explanation
Indices: 41700684--41700815 Score: 151
Period size: 51 Copynumber: 2.6 Consensus size: 51
41700674 TGATAGGTCG
* * * *
41700684 CATGTGCAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAAT-GACCA
* * * * *
41700735 -AGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGCCA
1 CA-TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGACCA
41700786 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
41700816 TGAACAAAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 65 0.96
52 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGACCA
Found at i:41700817 original size:26 final size:26
Alignment explanation
Indices: 41700737--41700817 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
41700727 TTCGATCAAG
41700737 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
41700763 CGTGTA-T-CGAATG-GTAATGGCCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCTACTA
41700788 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
41700814 TGTG
1 TGTG
41700818 AACAAAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:41700911 original size:45 final size:46
Alignment explanation
Indices: 41700824--41700913 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
41700814 TGTGAACAAA
* * *
41700824 ACATCGTTGATTAGTAAGGAGGTTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGAGGTTTGCTATGTGCTGAATCCACCGG
*
41700870 ACATCATTGATTAATAAGGTGG-TTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGAGGTTTGCTATGTGCTGAATCCACCG
41700914 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.52
46 19 0.47
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (46 bp):
ACATCATTGATTAATAAGGAGGTTTGCTATGTGCTGAATCCACCGG
Found at i:41703054 original size:13 final size:13
Alignment explanation
Indices: 41703036--41703083 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
41703026 AGGTCCAATC
41703036 AAAAAATATTTCAA
1 AAAAAATATTTC-A
**
41703050 AAAAAATCAAAATCA
1 AAAAAAT--ATTTCA
41703065 AAAAAATATTTCA
1 AAAAAATATTTCA
41703078 AAAAAA
1 AAAAAA
41703084 AAAGAAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 10 0.36
14 7 0.25
15 8 0.29
16 3 0.11
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAATATTTCA
Found at i:41703055 original size:14 final size:14
Alignment explanation
Indices: 41703036--41703084 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
41703026 AGGTCCAATC
41703036 AAAAAATATTTCAA
1 AAAAAATATTTCAA
**
41703050 AAAAAATCAAAATC-A
1 AAAAAAT--ATTTCAA
41703065 AAAAAATATTTCAA
1 AAAAAATATTTCAA
41703079 AAAAAA
1 AAAAAA
41703085 AAGAAGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 8 0.29
16 3 0.11
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAAATATTTCAA
Found at i:41704731 original size:36 final size:36
Alignment explanation
Indices: 41704682--41704788 Score: 128
Period size: 36 Copynumber: 3.0 Consensus size: 36
41704672 GCAGAGTAGA
*
41704682 TTAAAGTTAAAGGCAACGAATCTTATCTTCCTGGCG
1 TTAAAGTTGAAGGCAACGAATCTTATCTTCCTGGCG
* * * *
41704718 TTAAAATTGAAGGCAGCGAATCTTATCTCCCTGGTG
1 TTAAAGTTGAAGGCAACGAATCTTATCTTCCTGGCG
*
41704754 TTAAAGCTG-AGGACAACGAATCTTAT-TTCCCTGGC
1 TTAAAGTTGAAGG-CAACGAATCTTATCTT-CCTGGC
41704789 TTTGCAGTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
35 4 0.07
36 55 0.93
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (36 bp):
TTAAAGTTGAAGGCAACGAATCTTATCTTCCTGGCG
Found at i:41704871 original size:21 final size:21
Alignment explanation
Indices: 41704845--41704888 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
41704835 CTGGCGTTGC
*
41704845 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
*
41704866 AGTGGAACGGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
41704887 AG
1 AG
41704889 GCAGCGAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:41704881 original size:123 final size:123
Alignment explanation
Indices: 41704754--41704979 Score: 348
Period size: 123 Copynumber: 1.8 Consensus size: 123
41704744 CTCCCTGGTG
* * *
41704754 TTAAAGCTG-AGGACAACGAATCTTAT-TTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAG
1 TTAAAGCTGAAGG-CAACGAATCCTATCTT-CCTGGCGTTACAGTGGAACAGATTAAAGCTAAAG
* *
41704817 GTAGTGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAACGGA
64 GTAGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAATAGATTAAAGCTGAAGTGGAACGGA
* *
41704877 TTAAAGCTGAAGGCAGCGAATCCTATCTTCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
1 TTAAAGCTGAAGGCAACGAATCCTATCTTCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
*
41704942 AGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAGTAGAT
66 AGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAATAGAT
41704980 CAAGACTGAA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
123 88 0.95
124 5 0.05
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (123 bp):
TTAAAGCTGAAGGCAACGAATCCTATCTTCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
AGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAATAGATTAAAGCTGAAGTGGAACGGA
Found at i:41704912 original size:72 final size:72
Alignment explanation
Indices: 41704794--41704935 Score: 187
Period size: 72 Copynumber: 2.0 Consensus size: 72
41704784 CTGGCTTTGC
* * * * * *
41704794 AGTGGAACAGATTAAAGCTAAAGGTAGTGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTA
1 AGTGGAACAGATTAAAGCTAAAGGCAGCGAATCCTATTTCCCTGGCGTTACAGTGGAACAGATTA
41704859 AAGCTGA
66 AAGCTGA
* * *
41704866 AGTGGAACGGATTAAAGCTGAAGGCAGCGAATCCTATCTT-CTTGGCGTTACAGTGGAACAGATT
1 AGTGGAACAGATTAAAGCTAAAGGCAGCGAATCCTAT-TTCCCTGGCGTTACAGTGGAACAGATT
41704930 AAAGCT
65 AAAGCT
41704936 AAAGGTAGCG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
72 58 0.97
73 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (72 bp):
AGTGGAACAGATTAAAGCTAAAGGCAGCGAATCCTATTTCCCTGGCGTTACAGTGGAACAGATTA
AAGCTGA
Done.