Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 99 of 284
Found at i:32581342 original size:30 final size:30
Alignment explanation
Indices: 32581306--32581368 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
32581296 GCTTAACAAG
32581306 CAAATGTCTATAAAATAATAACAAAATTAA
1 CAAATGTCTATAAAATAATAACAAAATTAA
*
32581336 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTATAAAATAATAACAAAATTAA
32581366 CAA
1 CAA
32581369 TAAAAATAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTATAAAATAATAACAAAATTAA
Found at i:32583800 original size:20 final size:21
Alignment explanation
Indices: 32583777--32583816 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32583767 CAATATTATT
*
32583777 AAATAATTTTTTATT-TAAAA
1 AAATAATTTTATATTATAAAA
*
32583797 AAATTATTTTATATTATAAA
1 AAATAATTTTATATTATAAA
32583817 TTTATTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATAATTTTATATTATAAAA
Found at i:32587225 original size:24 final size:23
Alignment explanation
Indices: 32587186--32587232 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
32587176 AATTCATTCA
32587186 ATCAATATAAATTCAATCAATTT
1 ATCAATATAAATTCAATCAATTT
*
32587209 ATCACATACTAAA-TCAATCCATTT
1 ATCA-ATA-TAAATTCAATCAATTT
32587233 CAATTGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (23 bp):
ATCAATATAAATTCAATCAATTT
Found at i:32587875 original size:11 final size:11
Alignment explanation
Indices: 32587859--32587885 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32587849 AAAACTCTAA
32587859 TTTCTCCAATC
1 TTTCTCCAATC
32587870 TTTCTCCAATC
1 TTTCTCCAATC
32587881 TTTCT
1 TTTCT
32587886 TTCCCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTCTCCAATC
Found at i:32598910 original size:3 final size:3
Alignment explanation
Indices: 32598904--32598934 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
32598894 TTAGATGATG
32598904 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
32598935 AGCAATTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:32600042 original size:79 final size:83
Alignment explanation
Indices: 32599879--32600044 Score: 232
Period size: 84 Copynumber: 2.0 Consensus size: 83
32599869 AATTGAAATA
*
32599879 AGATGATAAAATAGAATTCATCAAATCAACTAACCCGATTATCATTATTTATATTTATAATTAAT
1 AGATGATAAAATAAAATTCATCAAATCAACTAACCCGATTATCATTATTTATATTTATAATT-AT
32599944 CAATTAATTATCATTGTTT
65 CAATTAATTATCATTGTTT
* ** * *
32599963 AGATGATAAAATAAAATTCATCAAGTTGACTAACTCGATTAT-ATTATTTTTATTTATAA-T-T-
1 AGATGATAAAATAAAATTCATCAAATCAACTAACCCGATTATCATTATTTATATTTATAATTATC
*
32600024 AATTAATTATTATTGTTT
66 AATTAATTATCATTGTTT
32600042 AGA
1 AGA
32600045 AGGCTTTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 20 0.27
80 1 0.01
82 1 0.01
83 16 0.21
84 37 0.49
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (83 bp):
AGATGATAAAATAAAATTCATCAAATCAACTAACCCGATTATCATTATTTATATTTATAATTATC
AATTAATTATCATTGTTT
Found at i:32600389 original size:11 final size:11
Alignment explanation
Indices: 32600373--32600397 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32600363 AAGCAAAAGG
32600373 TTTTTTTTTGT
1 TTTTTTTTTGT
32600384 TTTTTTTTTGT
1 TTTTTTTTTGT
32600395 TTT
1 TTT
32600398 AAATTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:32602103 original size:22 final size:22
Alignment explanation
Indices: 32602064--32602127 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
32602054 TAATAGTGGA
32602064 AAAAAT-AATATAAT-AAATAAC
1 AAAAATAAATA-AATAAAATAAC
*
32602085 AAAAATAAATAAATAAAATAGC
1 AAAAATAAATAAATAAAATAAC
* * *
32602107 AATAATAGATTAATAATAATA
1 AAAAATAAATAAATAA-AATA
32602128 GTACCAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.25
22 23 0.64
23 4 0.11
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATAAATAAATAAAATAAC
Found at i:32605014 original size:52 final size:52
Alignment explanation
Indices: 32604951--32605049 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
32604941 ATTAAGTCAG
32604951 GGATTGCATCAATTGGATTATACTAGCCAATACAAAACAACCCTTTTCTTGA
1 GGATTGCATCAATTGGATTATACTAGCCAATACAAAACAACCCTTTTCTTGA
** *
32605003 GGATTGCATCAATTGGATTATACTAGCCAATATGAAACAACTCTTTT
1 GGATTGCATCAATTGGATTATACTAGCCAATACAAAACAACCCTTTT
32605050 TCTAGGCTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32
Consensus pattern (52 bp):
GGATTGCATCAATTGGATTATACTAGCCAATACAAAACAACCCTTTTCTTGA
Found at i:32610898 original size:3 final size:3
Alignment explanation
Indices: 32610890--32611024 Score: 60
Period size: 3 Copynumber: 45.0 Consensus size: 3
32610880 TTATCAATTC
* * ** * *
32610890 TTA TTA TTA TTA TTA TT- TTA TTA CTG TTA ACA TTA GTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
32610937 TT- TTA TGT- TCA TTA TCA TTT TTG TAA TTA TTA TTA CTA CTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
32610981 TTT TTA TTA TTA CTA CTA TTA TTC TTA TTAA GGTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA
32611025 CTACCATTTT
Statistics
Matches: 95, Mismatches: 31, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
2 4 0.04
3 87 0.92
4 3 0.03
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:32610987 original size:21 final size:21
Alignment explanation
Indices: 32610963--32611010 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
32610953 ATTTTTGTAA
*
32610963 TTATTATTACTACTATTATTT
1 TTATTATTACTACTATTATTC
32610984 TTATTATTACTACTATTATTC
1 TTATTATTACTACTATTATTC
32611005 TTATTA
1 TTATTA
32611011 AGGTATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATTACTACTATTATTC
Found at i:32616292 original size:24 final size:23
Alignment explanation
Indices: 32616250--32616345 Score: 79
Period size: 24 Copynumber: 4.0 Consensus size: 23
32616240 AGCTCTCTCT
32616250 CGAGCCATATAAC-GAGAAGCTCATA
1 CGAGCCA-ATAACAG-GAAGCTCA-A
*
32616275 CGAGCCAATAACAGGAAGGTTCAA
1 CGAGCCAATAACAGGAA-GCTCAA
* *
32616299 GGGAGCCAATATCAGGAAGCTCCGAA
1 -CGAGCCAATAACAGGAAGCT-C-AA
*
32616325 -GAGCCATTAACAGGAAGCTCA
1 CGAGCCAATAACAGGAAGCTCA
32616346 CAAAGAGCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 28 0.47
25 28 0.47
26 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.14
Consensus pattern (23 bp):
CGAGCCAATAACAGGAAGCTCAA
Found at i:32616370 original size:26 final size:26
Alignment explanation
Indices: 32616301--32616382 Score: 107
Period size: 26 Copynumber: 3.3 Consensus size: 26
32616291 AGGTTCAAGG
* *
32616301 GAGCCAAT-ATCAGGAAGCTC-CGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
32616325 GAGCCATTAA-CAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
**
32616350 GAGCTTTTAATCAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
32616376 GAGCCAT
1 GAGCCAT
32616383 ATATCGGGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.35
25 12 0.24
26 20 0.41
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:32617424 original size:27 final size:27
Alignment explanation
Indices: 32617393--32617446 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
32617383 AAAGATGATG
* *
32617393 AAAATGATGATATTTTCTTA-TTTAATT
1 AAAAT-ATCATATTTTATTATTTTAATT
*
32617420 AAAATATCATCTTTTATTATTTTAATT
1 AAAATATCATATTTTATTATTTTAATT
32617447 TTCCAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (27 bp):
AAAATATCATATTTTATTATTTTAATT
Found at i:32623917 original size:17 final size:19
Alignment explanation
Indices: 32623897--32623936 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 19
32623887 ATATAACTAA
*
32623897 ATAAATAATAAAAA-GA-G
1 ATAAATAACAAAAATGAGG
32623914 AT-AATAACAAAAATGAGG
1 ATAAATAACAAAAATGAGG
32623932 ATAAA
1 ATAAA
32623937 ATAAGATACG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 3 0.16
19 2 0.11
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.17
Consensus pattern (19 bp):
ATAAATAACAAAAATGAGG
Found at i:32624873 original size:12 final size:12
Alignment explanation
Indices: 32624856--32624890 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
32624846 CTTCTTGTAA
*
32624856 AAAAATAAAATG
1 AAAAATAAAAAG
32624868 AAAAATAAAAAG
1 AAAAATAAAAAG
*
32624880 AAATATAAAAA
1 AAAAATAAAAA
32624891 AGACCAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:32626427 original size:27 final size:27
Alignment explanation
Indices: 32626397--32626537 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
32626387 ATGACGAAGT
32626397 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
32626424 CACCAGA-ACAGATATATGTGGCAAAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
32626451 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
32626478 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
32626505 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
32626532 CACCAG
1 CACCAG
32626538 GACGCTTCCT
Statistics
Matches: 101, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.10
27 87 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:32626472 original size:54 final size:54
Alignment explanation
Indices: 32626397--32626537 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
32626387 ATGACGAAGT
*
32626397 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAAAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAAAGC
* *
32626451 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAAAGC
32626505 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
32626538 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAAAGC
Found at i:32627602 original size:26 final size:26
Alignment explanation
Indices: 32627571--32627676 Score: 169
Period size: 26 Copynumber: 4.1 Consensus size: 26
32627561 TGAAATGCCC
32627571 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
32627597 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
32627623 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
32627649 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
32627675 AT
1 AT
32627677 AAATTTGTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 67 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:32628873 original size:64 final size:64
Alignment explanation
Indices: 32628748--32628873 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 64
32628738 CACATTTCCT
* * **
32628748 AGCCACATATCATACAGCAGGATTACCGGTCCAGGCCAAATCCTGTCTGTAACGCACACTCTTG
1 AGCCACATATCATACAGCAGGATTACCAGTCCAGGCCAAATCCTGTCAGTAACAAACACTCTTG
* * * * * *
32628812 AGCCATATATTATACAGCAGGATTACCAGTCCAGGCTAAATCCTTTCAGTGACAAATACTCT
1 AGCCACATATCATACAGCAGGATTACCAGTCCAGGCCAAATCCTGTCAGTAACAAACACTCT
32628874 AAAGAGCTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (64 bp):
AGCCACATATCATACAGCAGGATTACCAGTCCAGGCCAAATCCTGTCAGTAACAAACACTCTTG
Found at i:32628983 original size:55 final size:56
Alignment explanation
Indices: 32628832--32628989 Score: 139
Period size: 55 Copynumber: 2.8 Consensus size: 56
32628822 TATACAGCAG
* * * *
32628832 GATTACCAGTCCAGGCTAAATCCT-TTCAGTGACAAATACTCTAAAGAGCTCAATCTA
1 GATTACCAGTCCAGGCTAAATCCTAAT-AGTAACAAATGCTCT-GAGAGCTCAATCTA
* * * * *
32628889 GATTACCAATCTAGGCTAAATCC-AGACT-TTAGCATATGCTCTGAG-GCTCAAT-TA
1 GATTACCAGTCCAGGCTAAATCCTA-A-TAGTAACAAATGCTCTGAGAGCTCAATCTA
*
32628943 GAATTACCAGTCCAGGCTAAATCCTAATAGCAACAAATGCT-TGAGAG
1 G-ATTACCAGTCCAGGCTAAATCCTAATAGTAACAAATGCTCTGAGAG
32628990 GCTTGTATCA
Statistics
Matches: 79, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
54 8 0.10
55 37 0.47
56 3 0.04
57 30 0.38
59 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (56 bp):
GATTACCAGTCCAGGCTAAATCCTAATAGTAACAAATGCTCTGAGAGCTCAATCTA
Found at i:32637185 original size:19 final size:19
Alignment explanation
Indices: 32637161--32637199 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32637151 ACTTATCACT
32637161 TATTAACGGAGAATATTTA
1 TATTAACGGAGAATATTTA
*
32637180 TATTAACGGATAATATTTA
1 TATTAACGGAGAATATTTA
32637199 T
1 T
32637200 GAATTAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (19 bp):
TATTAACGGAGAATATTTA
Found at i:32637456 original size:22 final size:20
Alignment explanation
Indices: 32637431--32637472 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
32637421 TAATCATGCC
32637431 ATTTACATTTTTTTATAAAACT
1 ATTTA-ATTTTTTTA-AAAACT
*
32637453 ATTTAGTTTTTTTAAAAACT
1 ATTTAATTTTTTTAAAAACT
32637473 TATCCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTAATTTTTTTAAAAACT
Found at i:32637546 original size:31 final size:30
Alignment explanation
Indices: 32637511--32637585 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
32637501 AAACCCTAAT
32637511 ATTTGGTATTTAAACTTAACATTTTTTCTTA
1 ATTTGGTATTTAAACTTAACA-TTTTTCTTA
* * *
32637542 ATTTGATATCTAAACTTGACATTTTTCTTA
1 ATTTGGTATTTAAACTTAACATTTTTCTTA
* *
32637572 AGTTGGTACTTAAA
1 ATTTGGTATTTAAA
32637586 ACTTTTTGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (30 bp):
ATTTGGTATTTAAACTTAACATTTTTCTTA
Found at i:32637569 original size:30 final size:31
Alignment explanation
Indices: 32637511--32637572 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
32637501 AAACCCTAAT
* *
32637511 ATTTGGTATTTAAACTTAACATTTTTTCTTA
1 ATTTGATATCTAAACTTAACATTTTTTCTTA
*
32637542 ATTTGATATCTAAACTTGACA-TTTTTCTTA
1 ATTTGATATCTAAACTTAACATTTTTTCTTA
32637572 A
1 A
32637573 GTTGGTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (31 bp):
ATTTGATATCTAAACTTAACATTTTTTCTTA
Found at i:32637758 original size:24 final size:23
Alignment explanation
Indices: 32637714--32637759 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
32637704 AATGAATATT
*
32637714 TTTTATTTTATATGTTCAATTAC
1 TTTTATTTTATATATTCAATTAC
* *
32637737 TTTTAGTTTTATTTATTTAATTA
1 TTTTA-TTTTATATATTCAATTA
32637760 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATATATTCAATTAC
Found at i:32638134 original size:60 final size:59
Alignment explanation
Indices: 32637990--32638164 Score: 179
Period size: 60 Copynumber: 2.9 Consensus size: 59
32637980 ATTTGAACCT
* * * * * * *
32637990 AAAAAAAAGCTTAGGTATCAAATTAGGAAAAAAAATGTCAAGTTCAAGTACTAAATTGGGC
1 AAAAAAAAGTTTAGGTACCAAATTAGG--AAAAAGTGTCAAGTTCAGGTACCAAATTAGGA
** * * *
32638051 CCAAAAAAGTTTAGGTACAAAATTAGGAAACAGTGTCAAGTTCAGGTACCGAATTAGGA
1 AAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTAGGA
* * * *
32638110 AAAAAAAAGGTTTAGGTACCAAATTAAGAAAAAGTGTTAAGTTCAGATGCCAAAT
1 AAAAAAAA-GTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAAT
32638165 GTTATATTAA
Statistics
Matches: 92, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
59 31 0.34
60 39 0.42
61 22 0.24
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (59 bp):
AAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTAGGA
Found at i:32640402 original size:33 final size:32
Alignment explanation
Indices: 32640329--32640406 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
32640319 GACAATATAT
* * *
32640329 GTGTAAGACCATAGCTAGGCTATGGCATCCTA
1 GTGTAAGACCATAGCTAGGATATGGCACCCGA
* * *
32640361 ATGATAAGACCATATCTGGGATATGGCACCGCGA
1 GTG-TAAGACCATAGCTAGGATATGGCACC-CGA
32640395 GTGTAAGACCAT
1 GTGTAAGACCAT
32640407 GGTTGGGCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (32 bp):
GTGTAAGACCATAGCTAGGATATGGCACCCGA
Found at i:32640569 original size:45 final size:45
Alignment explanation
Indices: 32640464--32640580 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
32640454 ATCATACCAA
*
32640464 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTT
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
* * * **
32640509 AGACGAGTAACACCATAGCTGAAAGATGCTATGGCATTGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
* * *
32640554 AAATGTGTAAGACCATGGTTGAAAGAT
1 AAATGAGTAAGACCATAGCTGAAAGAT
32640581 ATTGTAATAC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
Found at i:32640758 original size:22 final size:23
Alignment explanation
Indices: 32640733--32640778 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
32640723 CAACCAAACC
32640733 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
32640755 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
32640778 A
1 A
32640779 CGTCATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:32640784 original size:23 final size:22
Alignment explanation
Indices: 32640740--32640789 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
32640730 ACCAATTCAA
*
32640740 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
32640762 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
32640785 CATAT
1 CATAT
32640790 ACCCAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:32643544 original size:46 final size:46
Alignment explanation
Indices: 32643488--32643593 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
32643478 AGGCCATTAC
* *
32643488 AGATATCATGGCAACATGACAGGAAATGAATAAGACAATGGTTGAA
1 AGATACCATGGCAACATGACAAGAAATGAATAAGACAATGGTTGAA
*
32643534 AGATACCATGGCAACATGACAAGAAATGAATAAGACCATGGTTGAA
1 AGATACCATGGCAACATGACAAGAAATGAATAAGACAATGGTTGAA
32643580 AGATACCATGGCAA
1 AGATACCATGGCAA
32643594 GATGTTGAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (46 bp):
AGATACCATGGCAACATGACAAGAAATGAATAAGACAATGGTTGAA
Found at i:32643639 original size:69 final size:69
Alignment explanation
Indices: 32643528--32643662 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
32643518 TAAGACAATG
* *
32643528 GTTGAAAGATACCATGGCAACATGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
1 GTTGAAAGATACCATGACAAAATGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
32643593 AGAT
66 AGAT
*
32643597 GTTGAAAGATACCATGACAAAATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
1 GTTGAAAGATACCATGACAAAATGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
32643662 A
66 A
32643663 CATGACAAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (69 bp):
GTTGAAAGATACCATGACAAAATGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
AGAT
Found at i:32643668 original size:46 final size:46
Alignment explanation
Indices: 32643597--32643743 Score: 249
Period size: 46 Copynumber: 3.2 Consensus size: 46
32643587 ATGGCAAGAT
* *
32643597 GTTGAAAGATACCATGACAAAATGACAGGAAATGAATAAGACCATG
1 GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATG
*
32643643 GTTGAAAGATACCATGGCAACATGACAAGAAATGAATAAGACCATG
1 GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATG
* *
32643689 GTTGAAAGATACCATGGCAACATGACAGGAAATTAATAAGACCATA
1 GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATG
32643735 GTTGAAAGA
1 GTTGAAAGA
32643744 CACTATAGCA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (46 bp):
GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATG
Found at i:32643690 original size:115 final size:115
Alignment explanation
Indices: 32643488--32643708 Score: 406
Period size: 115 Copynumber: 1.9 Consensus size: 115
32643478 AGGCCATTAC
* * *
32643488 AGATATCATGGCAACATGACAGGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACATGA
1 AGATACCATGACAAAATGACAGGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACATGA
32643553 CAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAGATGTTGAA
66 CAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAGATGTTGAA
*
32643603 AGATACCATGACAAAATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
1 AGATACCATGACAAAATGACAGGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACATGA
32643668 CAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
66 CAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
32643709 CATGACAGGA
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 102 1.00
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (115 bp):
AGATACCATGACAAAATGACAGGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACATGA
CAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAGATGTTGAA
Found at i:32644868 original size:15 final size:15
Alignment explanation
Indices: 32644848--32644877 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32644838 TTTACCACTA
32644848 GTTGAACGTTTTATG
1 GTTGAACGTTTTATG
32644863 GTTGAACGTTTTATG
1 GTTGAACGTTTTATG
32644878 AAAACATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
GTTGAACGTTTTATG
Found at i:32647329 original size:39 final size:39
Alignment explanation
Indices: 32647275--32647353 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
32647265 ACAAACTGAG
* *
32647275 ACCCCATGTATATCTCCATATGCTTCGACCTTCCGAAGA
1 ACCCCATGTATATCTCCACATGCTTCGACCTTCCAAAGA
* *
32647314 ACCCCATGTATATCTCCACATGCTTTGGCCTTCCAAAGA
1 ACCCCATGTATATCTCCACATGCTTCGACCTTCCAAAGA
32647353 A
1 A
32647354 AGTAACGGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.28
Consensus pattern (39 bp):
ACCCCATGTATATCTCCACATGCTTCGACCTTCCAAAGA
Found at i:32648331 original size:21 final size:21
Alignment explanation
Indices: 32648305--32648355 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
32648295 CATTTTCATT
**
32648305 TTCATTTTGGAGAAAACCGTA
1 TTCATTTCCGAGAAAACCGTA
32648326 TTCATTTCCGAGAAAACCGTA
1 TTCATTTCCGAGAAAACCGTA
32648347 TTCATTTCC
1 TTCATTTCC
32648356 AAATGACTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (21 bp):
TTCATTTCCGAGAAAACCGTA
Found at i:32648436 original size:36 final size:38
Alignment explanation
Indices: 32648374--32648447 Score: 100
Period size: 36 Copynumber: 2.0 Consensus size: 38
32648364 TCTGTAAAGG
*
32648374 CCCAATTTTGGCCCAACTTAAACCAACCCTAAC-CAAA
1 CCCAATTTTGGCCCAACTTAAACCAACCCAAACACAAA
*
32648411 CCCAA-TTTGGCCCAAC-TAATCCCAACCCAAACACAAA
1 CCCAATTTTGGCCCAACTTAA-ACCAACCCAAACACAAA
32648448 AAAATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 3 0.09
36 21 0.64
37 9 0.27
ACGTcount: A:0.39, C:0.39, G:0.05, T:0.16
Consensus pattern (38 bp):
CCCAATTTTGGCCCAACTTAAACCAACCCAAACACAAA
Found at i:32648673 original size:21 final size:21
Alignment explanation
Indices: 32648628--32648693 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
32648618 GTTTTTGGTT
* *
32648628 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TTTTTTG
32648651 TTTTGGAGGAGGTTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTTG
**
32648672 TTTT-TTGGAGGTGTTTTTTTG
1 TTTTGGAGGAGGT-TTTTTTTG
32648693 T
1 T
32648694 AAAAAAGGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 19 0.50
22 2 0.05
23 11 0.29
ACGTcount: A:0.11, C:0.02, G:0.30, T:0.58
Consensus pattern (21 bp):
TTTTGGAGGAGGTTTTTTTTG
Found at i:32648677 original size:23 final size:23
Alignment explanation
Indices: 32648619--32648691 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
32648609 AGGGGGTGGG
* *
32648619 TTTTTGGTTTTTTGGAGAAGGATT
1 TTTTTTGTTTTTTGGAGGAGG-TT
*
32648643 GTTCTTTG--TTTTGGAGGAGGTT
1 -TTTTTTGTTTTTTGGAGGAGGTT
*
32648665 TTTTTTGTTTTTTGGAGG-TGTT
1 TTTTTTGTTTTTTGGAGGAGGTT
32648687 TTTTT
1 TTTTT
32648692 GTAAAAAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 6 0.15
22 10 0.24
23 20 0.49
25 5 0.12
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (23 bp):
TTTTTTGTTTTTTGGAGGAGGTT
Found at i:32649036 original size:3 final size:3
Alignment explanation
Indices: 32649022--32649107 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
32649012 GAGCTTTGTT
* *
32649022 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
32649066 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32649108 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32649064 original size:18 final size:18
Alignment explanation
Indices: 32649022--32649111 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
32649012 GAGCTTTGTT
*
32649022 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
32649042 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
32649060 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
32649081 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
32649099 TTA-TATTATATAT
1 TTATTATT-TATAT
32649112 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:32649349 original size:18 final size:19
Alignment explanation
Indices: 32649313--32649369 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
32649303 ACTATTACTA
*
32649313 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
32649333 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
32649350 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
32649368 TT
1 TT
32649370 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:32649471 original size:12 final size:12
Alignment explanation
Indices: 32649454--32649483 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32649444 GTATTTCTAT
32649454 TATATACATATA
1 TATATACATATA
*
32649466 TATATACATTTA
1 TATATACATATA
32649478 TATATA
1 TATATA
32649484 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:32660435 original size:59 final size:59
Alignment explanation
Indices: 32660343--32660460 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
32660333 GGGCATTCAA
32660343 AAAAAAAAAAAAGGGAGAGGCCAAGGTGAAAACCCGCAAAAGGCACATTGAGACCAAAG
1 AAAAAAAAAAAAGGGAGAGGCCAAGGTGAAAACCCGCAAAAGGCACATTGAGACCAAAG
*
32660402 AAAAAAAAAAAAGGGAGAGGCCAAGGTGAAAACCCGCAAAAGGCACCTTGAGACCAAAG
1 AAAAAAAAAAAAGGGAGAGGCCAAGGTGAAAACCCGCAAAAGGCACATTGAGACCAAAG
32660461 GGGATTTGAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.52, C:0.18, G:0.25, T:0.05
Consensus pattern (59 bp):
AAAAAAAAAAAAGGGAGAGGCCAAGGTGAAAACCCGCAAAAGGCACATTGAGACCAAAG
Found at i:32661876 original size:44 final size:45
Alignment explanation
Indices: 32661699--32662144 Score: 361
Period size: 44 Copynumber: 10.1 Consensus size: 45
32661689 TCATTAAAGT
* * * *
32661699 AGATCTTGTCTTCATGTATTGGCA-TGAAGCAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * * * *
32661743 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAGGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * *
32661786 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* *
32661831 AGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * * * *
32661875 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAATAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * *
32661918 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * *
32661963 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * * *
32662007 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * *
32662050 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGATTGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * * * *
32662095 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGC
1 AGATCTTGTCTTCCTATA-TTGGTAGTGAAGTAGATCGAAGATAGC
32662141 AGAT
1 AGAT
32662145 TTTACCTCCC
Statistics
Matches: 307, Mismatches: 85, Indels: 18
0.75 0.21 0.04
Matches are distributed among these distances:
43 62 0.20
44 160 0.52
45 62 0.20
46 23 0.07
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
Found at i:32661936 original size:132 final size:132
Alignment explanation
Indices: 32661694--32662142 Score: 718
Period size: 132 Copynumber: 3.4 Consensus size: 132
32661684 TGAAGTCATT
* * *
32661694 AAAGTAGATCTTGTCTTCATGTATTGGCATGAAGCAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
*
32661759 TATTGATAGGAAGTGGATCCAGGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
32661824 AG
131 AG
*
32661826 AAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
*
32661891 TATTGATAGGAAGTGGATCCAATATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
32661956 AG
131 AG
32661958 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
* * * *
32662023 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGA
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
32662088 AG
131 AG
** * * * * * *
32662090 ATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
1 AAAGCAGATCTTGTCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGATAGCAG
32662143 ATTTTACCTC
Statistics
Matches: 295, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 271 0.92
133 5 0.02
134 19 0.06
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
AG
Found at i:32662226 original size:134 final size:135
Alignment explanation
Indices: 32662080--32662384 Score: 522
Period size: 136 Copynumber: 2.3 Consensus size: 135
32662070 GGTGGTGAAG
*
32662080 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGAT
32662145 TTTACCTCCC-TGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCAG
66 TTTACCTCCCGTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCAG
32662209 TGGAA
131 TGGAA
* *
32662214 TAGATTGAAGATTGCAGATCTTTCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGAT
* *
32662279 TTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCA
66 TTTACCTCCC-GTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCA
32662344 GTGGAA
130 GTGGAA
* * *
32662350 TAGATTGAAGATTACAGATCCTGCCTTCCTATATT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATT
32662385 GGTAGGAAGT
Statistics
Matches: 160, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 72 0.45
136 88 0.55
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (135 bp):
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGAT
TTTACCTCCCGTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCAG
TGGAA
Found at i:32662570 original size:43 final size:40
Alignment explanation
Indices: 32662523--32662693 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 40
32662513 CTTGGGCAAC
*
32662523 AGTGGAATAGATCGAAGATTACAATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCG--CATTA-AATCTTATCTCCCTAAGCAGT
* *
32662566 AGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
** *** ** * *
32662606 AGTGGAGCAGATAAAACCACAGATCTTATTTCCCTAAGCAAT
1 AGTGGAATAGATCGCATTA-A-ATCTTATCTCCCTAAGCAGT
* * * *
32662648 AGT-GAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGT
1 AGTGGAA-TAGATCGCATTAAATCTTATCTCCCTAAGCAGT
32662688 AGTGGA
1 AGTGGA
32662694 GCAGACTAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
40 52 0.50
41 10 0.10
42 28 0.27
43 13 0.13
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (40 bp):
AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
Found at i:32662599 original size:40 final size:40
Alignment explanation
Indices: 32662547--32662698 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
32662537 AAGATTACAA
* *
32662547 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*** *
32662587 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA-AG
* * *
32662628 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
32662669 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
32662699 CTAAAAACAC
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
40 58 0.62
41 4 0.04
42 31 0.33
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:32662641 original size:82 final size:83
Alignment explanation
Indices: 32662545--32662714 Score: 261
Period size: 82 Copynumber: 2.1 Consensus size: 83
32662535 CGAAGATTAC
* * * *
32662545 AATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
*
32662610 GAGCAGA-TAAAACCACA
66 GAGCAGACTAAAAACACA
* * *
32662627 GATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
32662692 GAGCAGACTAAAAACACA
66 GAGCAGACTAAAAACACA
32662710 AATCT
1 AATCT
32662715 CATCCCCATG
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 65 0.83
83 13 0.17
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (83 bp):
AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
GAGCAGACTAAAAACACA
Found at i:32662651 original size:42 final size:42
Alignment explanation
Indices: 32662546--32662714 Score: 157
Period size: 40 Copynumber: 4.1 Consensus size: 42
32662536 GAAGATTACA
* *** **
32662546 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTA-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
*
32662587 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACCACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
* * * *** *
32662628 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCA-AG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
* *
32662669 -TCTTATCTCCCTAAGTAGTAGTGGAGCAGACTAAAAACACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TAAAAACACAG
32662711 ATCT
1 ATCT
32662715 CATCCCCATG
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 58 0.57
41 8 0.08
42 32 0.32
43 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAACACAG
Found at i:32663212 original size:21 final size:21
Alignment explanation
Indices: 32663167--32663232 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
32663157 GTTTTTGGTT
* *
32663167 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TTTTTTG
32663190 TTTTGGAGGAGGTTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTTG
**
32663211 TTTT-TTGGAGGTGTTTTTTTG
1 TTTTGGAGGAGGT-TTTTTTTG
32663232 T
1 T
32663233 AAAAAAGGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 19 0.50
22 2 0.05
23 11 0.29
ACGTcount: A:0.11, C:0.02, G:0.30, T:0.58
Consensus pattern (21 bp):
TTTTGGAGGAGGTTTTTTTTG
Found at i:32663216 original size:23 final size:23
Alignment explanation
Indices: 32663158--32663230 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
32663148 TAGAGGTGGG
* *
32663158 TTTTTGGTTTTTTGGAGAAGGATT
1 TTTTTTGTTTTTTGGAGGAGG-TT
*
32663182 GTTCTTTG--TTTTGGAGGAGGTT
1 -TTTTTTGTTTTTTGGAGGAGGTT
*
32663204 TTTTTTGTTTTTTGGAGG-TGTT
1 TTTTTTGTTTTTTGGAGGAGGTT
32663226 TTTTT
1 TTTTT
32663231 GTAAAAAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 6 0.15
22 10 0.24
23 20 0.49
25 5 0.12
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (23 bp):
TTTTTTGTTTTTTGGAGGAGGTT
Found at i:32663444 original size:3 final size:3
Alignment explanation
Indices: 32663430--32663515 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
32663420 GAGCTTTGTT
* *
32663430 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
32663474 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32663516 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32663472 original size:18 final size:18
Alignment explanation
Indices: 32663430--32663519 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
32663420 GAGCTTTGTT
*
32663430 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
32663450 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
32663468 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
32663489 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
32663507 TTA-TATTATATAT
1 TTATTATT-TATAT
32663520 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:32663755 original size:16 final size:17
Alignment explanation
Indices: 32663733--32663775 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
32663723 ATATATTAGT
*
32663733 GTATATTTTTATGTATA
1 GTATATTTTTATATATA
32663750 -TATA-TTTTATATATA
1 GTATATTTTTATATATA
32663765 GTATTATTTTT
1 GTA-TATTTTT
32663776 TATTACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 10 0.45
16 6 0.27
17 2 0.09
18 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
GTATATTTTTATATATA
Found at i:32663876 original size:14 final size:14
Alignment explanation
Indices: 32663857--32663888 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
32663847 GTATTTCTAT
32663857 TATATACATATATA
1 TATATACATATATA
*
32663871 TATATACATTTATA
1 TATATACATATATA
32663885 TATA
1 TATA
32663889 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
TATATACATATATA
Found at i:32678749 original size:23 final size:23
Alignment explanation
Indices: 32678709--32678753 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
32678699 TTCAGTCGCA
32678709 ATTTCTCACATTTTCAATTCAATC
1 ATTTCTCACATTTTCAA-TCAATC
*
32678733 ATTTTTCAC-TTTTCAATCAAT
1 ATTTCTCACATTTTCAATCAAT
32678754 TTTCAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTCTCACATTTTCAATCAATC
Found at i:32679047 original size:15 final size:15
Alignment explanation
Indices: 32679005--32679047 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32678995 TACTTACTAT
* *
32679005 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
32679020 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
32679034 AAAATAAATAACTT
1 AAAATAAATAACTT
32679048 GAATTAGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:32681861 original size:34 final size:35
Alignment explanation
Indices: 32681818--32681895 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
32681808 CTTAAGGTTT
32681818 TTTA-GGTTTAGGGTTTTGCTAAAATA-ATTTA-GG
1 TTTAGGGTTTAGGGTTTTGCTAAAATACA-TTAGGG
* *
32681851 TTTAGGGTTTAGGTTTTTGTTAAAATACATTAGGG
1 TTTAGGGTTTAGGGTTTTGCTAAAATACATTAGGG
32681886 TTTAGGGTTT
1 TTTAGGGTTT
32681896 TAGTGGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 4 0.10
34 23 0.57
35 13 0.32
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (35 bp):
TTTAGGGTTTAGGGTTTTGCTAAAATACATTAGGG
Found at i:32682298 original size:126 final size:126
Alignment explanation
Indices: 32682064--32682441 Score: 528
Period size: 126 Copynumber: 3.0 Consensus size: 126
32682054 ATTGACTATT
* * * *
32682064 TTTCCTTACAAAAATAATTTTGAGAAGAAGTTTCTAAACAAATAGTGTCAAAAACGCTTTAAGTA
1 TTTCCTGA-AAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCA
* * * * * *
32682129 GGATGCACTG-CGTGCAAAATTACTGAAAAAAGCTCCAATGTGGACGCTCTTTTTTTACAGTA
65 GGATGCAATGTC-AGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
* *
32682191 TTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAG
1 TTTCCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAG
* * *
32682256 AATGCAATGTCAACAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATA
66 GATGCAATGTCAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
* * *
32682317 TTTCCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAATCAG
1 TTTCCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAG
* *
32682382 GATGCAATATCAGCAAAATT-TCTGAAAAAA-CTCCCACGTGGACGTTCTTTTTCTACAGTA
66 GATGCAATGTCAGCAAAATTAT-TGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
32682442 GTTCATGTTT
Statistics
Matches: 225, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
125 29 0.13
126 188 0.84
127 8 0.04
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (126 bp):
TTTCCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAG
GATGCAATGTCAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
Found at i:32685543 original size:24 final size:23
Alignment explanation
Indices: 32685487--32685543 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
32685477 AAGAACTTTT
*
32685487 ATTTTATTAAAAATATAAAATTA
1 ATTTTATTAAAAATATAAAACTA
32685510 ATTTACTATT-AAAATATTAAAACTA
1 ATTT--TATTAAAAATA-TAAAACTA
32685535 ACTTTTATT
1 A-TTTTATT
32685544 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAACTA
Found at i:32686579 original size:7 final size:7
Alignment explanation
Indices: 32686560--32686593 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
32686550 AAATATTAGT
32686560 TAAATAC
1 TAAATAC
32686567 -ATAATAC
1 TA-AATAC
32686574 TAAATAC
1 TAAATAC
32686581 TAAATAC
1 TAAATAC
32686588 TAAATA
1 TAAATA
32686594 TGAAACAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 23 0.92
8 1 0.04
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAATAC
Found at i:32687552 original size:26 final size:25
Alignment explanation
Indices: 32687523--32687612 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 25
32687513 ATAAAAAATT
32687523 ATAAATTACAAATTAATTAAAATTAC
1 ATAAATTA-AAATTAATTAAAATTAC
* * *
32687549 ATAAATGAAAA-AATATTAAATAATATTC
1 ATAAATTAAAATTA-ATT-AA-AAT-TAC
* *
32687577 AAAAATTAAAATTAATTAGAATTAC
1 ATAAATTAAAATTAATTAAAATTAC
*
32687602 ATAAATGAAAA
1 ATAAATTAAAA
32687613 AAATATTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
24 1 0.02
25 17 0.35
26 12 0.24
27 4 0.08
28 14 0.29
29 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (25 bp):
ATAAATTAAAATTAATTAAAATTAC
Found at i:32687589 original size:53 final size:54
Alignment explanation
Indices: 32687525--32687645 Score: 217
Period size: 54 Copynumber: 2.2 Consensus size: 54
32687515 AAAAAATTAT
32687525 AAATTACAAATTAATTAAAATTACATAAATG-AAAAAATATTAAATAATATTCAA
1 AAATTA-AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAA
*
32687579 AAATTAAAATTAATTAGAATTACATAAATGAAAAAAATATTAAATAATATTCAA
1 AAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAA
32687633 AAATTAAAATTAA
1 AAATTAAAATTAA
32687646 CCTTTACCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
53 23 0.35
54 42 0.65
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (54 bp):
AAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAA
Found at i:32687613 original size:26 final size:25
Alignment explanation
Indices: 32687523--32687613 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 25
32687513 ATAAAAAATT
* *
32687523 ATAAATTACAAATTAATTAAAATTAC
1 ATAAATGAAAAATTAATT-AAATTAC
*
32687549 ATAAATGAAAAAAT-ATTAAATAATATTC
1 ATAAATGAAAAATTAATTAAAT--TA--C
* *
32687577 AAAAAT-TAAAATTAATTAGAATTAC
1 ATAAATGAAAAATTAATTA-AATTAC
32687602 ATAAATGAAAAA
1 ATAAATGAAAAA
32687614 AATATTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
24 4 0.08
25 9 0.18
26 17 0.34
27 7 0.14
28 10 0.20
29 3 0.06
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (25 bp):
ATAAATGAAAAATTAATTAAATTAC
Found at i:32687620 original size:26 final size:25
Alignment explanation
Indices: 32687542--32687623 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
32687532 AAATTAATTA
32687542 AAATTACATAAATG-AAAAAATATT
1 AAATTACATAAATGAAAAAAATATT
* * **
32687566 AAATAATATTCAAAAATTAAAATTA-ATT
1 AAAT--TA--CATAAATGAAAAAAATATT
32687594 AGAATTACATAAATGAAAAAAATATT
1 A-AATTACATAAATGAAAAAAATATT
32687620 AAAT
1 AAAT
32687624 AATATTCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
24 4 0.09
25 14 0.33
26 6 0.14
27 2 0.05
28 10 0.23
29 7 0.16
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
AAATTACATAAATGAAAAAAATATT
Found at i:32687850 original size:21 final size:21
Alignment explanation
Indices: 32687801--32687850 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
32687791 TAAAGAAAGC
** *
32687801 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAGCTTTAAGGAGAAA
32687822 TTTGAGAGCTTTAAGGAGAAA
1 TTTGAGAGCTTTAAGGAGAAA
*
32687843 TTTTAGAG
1 TTTGAGAG
32687851 TTTTTTTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
TTTGAGAGCTTTAAGGAGAAA
Found at i:32693371 original size:24 final size:22
Alignment explanation
Indices: 32693323--32693374 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
32693313 ATAGTTTTAA
* *
32693323 ATTTTTATAATATTTATTCAAT
1 ATTTTTATAATATTCATGCAAT
32693345 ATTTTTATAATATATCATGCAATT
1 ATTTTTATAATAT-TCATGCAA-T
32693369 ATTTTT
1 ATTTTT
32693375 TTATTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 13 0.50
23 6 0.23
24 7 0.27
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTATAATATTCATGCAAT
Found at i:32697187 original size:16 final size:16
Alignment explanation
Indices: 32697166--32697199 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
32697156 TAATAATTTT
32697166 TTTGAA-AATAATAAAA
1 TTTGAATAATAA-AAAA
32697182 TTTGAATAATAAAAAA
1 TTTGAATAATAAAAAA
32697198 TT
1 TT
32697200 AATCAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TTTGAATAATAAAAAA
Found at i:32716010 original size:51 final size:51
Alignment explanation
Indices: 32715942--32716149 Score: 319
Period size: 51 Copynumber: 4.1 Consensus size: 51
32715932 ATCACATTTA
32715942 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * *
32715993 TCACTTGTCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATTATTTA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
32716043 TCACTCGTCACTGATTAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * * * *
32716094 TCACTTATCATTGATCAAATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
32716145 TCACT
1 TCACT
32716150 GATCAGAAGT
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
50 45 0.32
51 96 0.68
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:32716042 original size:101 final size:102
Alignment explanation
Indices: 32715937--32716138 Score: 334
Period size: 101 Copynumber: 2.0 Consensus size: 102
32715927 CACTGATCAC
* *
32715937 ATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTC
1 ATTTATCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
*
32716002 ACTGATCAGATAAGTGTAGCT-AAACTACCACTTATT
66 ACTGATCAAATAAGTGTAGCTGAAACTACCACTTATT
*
32716038 ATTTATCACTCGTCACTGATTAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
1 ATTTATCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
* **
32716103 ATTGATCAAATAAGTGTAGCTGAGGCTACCACTTAT
66 ACTGATCAAATAAGTGTAGCTGAAACTACCACTTAT
32716139 CACTTGTCAC
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 81 0.87
102 12 0.13
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (102 bp):
ATTTATCACTCGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATC
ACTGATCAAATAAGTGTAGCTGAAACTACCACTTATT
Found at i:32721806 original size:30 final size:30
Alignment explanation
Indices: 32721766--32721828 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
32721756 ACTTAACAAG
*
32721766 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
*
32721796 CAAATTTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
32721826 CAA
1 CAA
32721829 CAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.32
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:32721913 original size:22 final size:22
Alignment explanation
Indices: 32721866--32721913 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
32721856 CTATAACAAC
* * * *
32721866 AAAATAGTAGTAACATAATAAT
1 AAAATAGTAGCAAAATAAGAAG
32721888 AAAATAGTAGCAAAATAAGAAG
1 AAAATAGTAGCAAAATAAGAAG
32721910 AAAA
1 AAAA
32721914 CAATAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAAG
Found at i:32725165 original size:24 final size:24
Alignment explanation
Indices: 32725137--32725242 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 24
32725127 AAAACCAAAC
*
32725137 AAAGCCTTTGTGGCGAATATTCGT
1 AAAGCCTTTGTGGCGAATATTCAT
32725161 AAAGCCTTTGTGGC-AA-ACTCTCTAT
1 AAAGCCTTTGTGGCGAATA-T-TC-AT
* **
32725186 AAAGCCTTTGTGGCGAACTCTTTGT
1 AAAGCCTTTGTGGCGAA-TATTCAT
* *
32725211 AAAACCTTCT-TGGCGTATTATTCAT
1 AAAGCCTT-TGTGGCG-AATATTCAT
32725236 AAAGCCT
1 AAAGCCT
32725243 CAGTGGCAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
22 1 0.02
23 3 0.05
24 16 0.25
25 38 0.59
26 5 0.08
27 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
AAAGCCTTTGTGGCGAATATTCAT
Found at i:32725213 original size:25 final size:25
Alignment explanation
Indices: 32725137--32725218 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
32725127 AAAACCAAAC
* *
32725137 AAAGCCTTTGTGGCGAA-TATTCGT
1 AAAGCCTTTGTGGCGAACTCTTTGT
* * *
32725161 AAAGCCTTTGTGGCAAACTCTCTAT
1 AAAGCCTTTGTGGCGAACTCTTTGT
32725186 AAAGCCTTTGTGGCGAACTCTTTGT
1 AAAGCCTTTGTGGCGAACTCTTTGT
*
32725211 AAAACCTT
1 AAAGCCTT
32725219 CTTGGCGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
24 16 0.33
25 32 0.67
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (25 bp):
AAAGCCTTTGTGGCGAACTCTTTGT
Found at i:32726918 original size:40 final size:40
Alignment explanation
Indices: 32726850--32726997 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
32726840 CACTAGCTCA
* * *
32726850 AAGCCTGCGGAACTTTAAGCCCGG--ATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATATATTACCAGCACG
*
32726890 AAGCCTGTGGGATTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
*
32726930 AAGCCTGCGGGATTTAACCCGAATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
32726970 AAGCCTGCGGGATTTAACCCGGATATAT
1 AAGCCTGCGGGATTTAACCCGGATATAT
32726998 GATATATCAA
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 5 0.05
39 5 0.05
40 89 0.90
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
Found at i:32740906 original size:30 final size:30
Alignment explanation
Indices: 32740870--32740955 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
32740860 NNNNNNNNNN
*
32740870 AGTGTGGCTAGTGGAGTAGGTAGTTGAGCA
1 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
* *
32740900 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
* * *
32740930 AGTGTGACTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTAGGTAGTGG
32740956 CAAAGGCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.28
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
Found at i:32741843 original size:89 final size:90
Alignment explanation
Indices: 32741657--32742140 Score: 347
Period size: 92 Copynumber: 5.4 Consensus size: 90
32741647 ACGTGAGCCA
* *** * **
32741657 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-A-AAACA-AAATTTGTAAAACA-GATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTAAAAAAAAATGAAA
* ** *
32741718 TTGAAAATTCCTCGGTATGTGACCCG
66 TTGAAAATACCTCGGCGT-TGACCTG
* *
32741744 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG-CAAAGCATAAATT-AAAAAAAAT-CA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CATAAATTAAAAAAAAATGAA
32741806 ATTGAAAATACCTCGGCGTATGACCTG
65 ATTGAAAATACCTCGGCGT-TGACCTG
* *
32741833 AGGCTTAACTCACCTATCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACATAAATT-AAAAAAAAATG
* **
32741898 AAATTGAAAATACCTCAGCG-TGTTCTG
63 AAATTGAAAATACCTCGGCGTTGACCTG
* ** *
32741925 AGGC-CGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACA-
1 AGGCTC-AACTCACCTCTCGCAATATGAGTTGA--TTTTT-GACAAACATAAATTAAAAAAAAAT
* * * * *
32741987 GAATTTGAAAATACCTCAGCATGTGA-GTCA
62 GAAATTGAAAATACCTCGGCGT-TGACCT-G
* * * * * *
32742017 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGA-AACACAGAAATT-GAAGAACA-G
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAA-ACATAAATTAAAAAAAAATG
* * * *
32742079 AAATGGAAAACACCTCAGCG-T--CTTG
63 AAATTGAAAATACCTCGGCGTTGACCTG
** *
32742104 AGATTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
32742141 TTGAAAGATA
Statistics
Matches: 334, Mismatches: 43, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
85 5 0.01
87 64 0.19
88 4 0.01
89 58 0.17
90 26 0.08
91 50 0.15
92 92 0.28
93 17 0.05
94 18 0.05
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTAAAAAAAAATGAAA
TTGAAAATACCTCGGCGTTGACCTG
Found at i:32741937 original size:92 final size:88
Alignment explanation
Indices: 32741628--32742161 Score: 394
Period size: 87 Copynumber: 5.9 Consensus size: 88
32741618 TTGAAAACAT
* * ** *
32741628 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TT
1 AAATTGAAAATACCTCAG--CGTGATCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTTT
* *
32741691 TTT-AAAACA-AAATTTG-TAAAACAG
63 TTTGAAAACAGAAA-TTGAAAAAAAAG
** * * * * * *
32741715 ATTTTGAAAATTCCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TT
1 AAATTGAAAATACCTCAG--CGTGATCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
32741778 TTTGCAAAGCATAAATT-AAAAAAAAT
63 TTTG-AAAACAGAAATTGAAAAAAAAG
* * * * *
32741804 CAATTGAAAATACCTCGGCGTATGACCTGAGGCTTAACTCACCTATCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCG--TGATCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTTT
*
32741869 TTTGACAAACATAAATTGAAAAAAAAATG
63 TTTGA-AAACAGAAATTG-AAAAAAAA-G
*
32741898 AAATTGAAAATACCTCAGCGTGTTCTGAGGCCGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGATCTGAGGCC-AACTCACCTCTCGCAATATGAGTTGATTTTTT
*
32741963 TGGAAAAACA-AAATTTG-AAAAACAG
65 T-G-AAAACAGAAA-TTGAAAAAAAAG
* * * *
32741988 AATTTGAAAATACCTCAGCATGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTT
1 AAATTGAAAATACCTCAGC--GTGA-TCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTT
* *
32742052 TTTTGAAACACAGAAATTG-AAGAACAG
62 TTTTGAAA-ACAGAAATTGAAAAAAAAG
* * * ** *
32742079 AAATGGAAAACACCTCAGCGT-CT-TGAGATTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGATCTGAG-GCCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
32742142 TGAAAGATAGAAATTGAAAA
65 TGAAA-ACAGAAATTGAAAA
32742162 TACCTCAACG
Statistics
Matches: 372, Mismatches: 50, Indels: 49
0.79 0.11 0.10
Matches are distributed among these distances:
87 105 0.28
88 2 0.01
89 63 0.17
90 26 0.07
91 52 0.14
92 85 0.23
93 20 0.05
94 19 0.05
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGATCTGAGGCCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAACAGAAATTGAAAAAAAAG
Found at i:32741997 original size:13 final size:14
Alignment explanation
Indices: 32741965--32741997 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
32741955 GATTTTTTTG
32741965 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
32741979 GAAAAACAGAATTT
1 GAAAAACAAAATTT
32741993 GAAAA
1 GAAAA
32741998 TACCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:32742196 original size:75 final size:75
Alignment explanation
Indices: 32742075--32742457 Score: 453
Period size: 73 Copynumber: 5.2 Consensus size: 75
32742065 AAATTGAAGA
* * * **
32742075 ACAGAAATGGAAAACACCTC-A-GCGTCTTGAGATTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
32742138 TTTTTGAAAG
66 TTTTTGAAAG
* *
32742148 ATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
32742211 TTTTTGACAA-
66 TTTTTGA-AAG
* * * * *
32742221 ACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
32742284 TTTTTGAAAG
66 TTTTTGAAAG
* * *
32742294 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAG-TTA-A
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
*
32742357 TTTTTG-ACG
66 TTTTTGAAAG
* * * * * * * *
32742366 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGTAATATGAGTTGAT
1 -ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
32742431 TTTTTTGAAAA
65 TTTTTTGAAAG
32742442 ACAGAAATTGAAAATA
1 ACAGAAATTGAAAATA
32742458 GAAATGGAAA
Statistics
Matches: 261, Mismatches: 37, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
71 36 0.14
72 5 0.02
73 123 0.47
74 8 0.03
75 88 0.34
76 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
TTTTTGAAAG
Found at i:32742360 original size:146 final size:146
Alignment explanation
Indices: 32742090--32742457 Score: 610
Period size: 146 Copynumber: 2.5 Consensus size: 146
32742080 AATGGAAAAC
* * *
32742090 ACCTCAGCGTCTTGAGATTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGATAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
* *
32742155 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACA
32742220 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
32742236 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
*
32742301 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACG
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACA
32742366 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * * * *
32742382 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGTAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGA
32742447 AATTGAAAATA
64 AATTGAAAATA
32742458 GAAATGGAAA
Statistics
Matches: 208, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
146 148 0.71
148 60 0.29
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACA
AACAAAAATTGAAATT
Found at i:32742536 original size:86 final size:87
Alignment explanation
Indices: 32742382--32742541 Score: 207
Period size: 86 Copynumber: 1.8 Consensus size: 87
32742372 AATTGAAATT
* *
32742382 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGTAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGCG-GTCCTGAGGCTCAACTCACTTATCGCAATATGAGCTGATTTTTTTGAAAAACAGA
*
32742447 AATTGAAAATAGAAATGGAAAAC
65 AATTAAAAATAGAAATGGAAAAC
* * * * * *
32742470 ACCTCAGC-GTCTTGAGGTTCAACTCAGC-TCTCGCAATATGAGCTGATTTTTTTGAAACATATA
1 ACCTCAGCGGTCCTGAGGCTCAACTCA-CTTATCGCAATATGAGCTGATTTTTTTGAAAAACAGA
32742533 AATTAAAAA
65 AATTAAAAA
32742542 AAAATTAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 53 0.85
87 1 0.02
88 8 0.13
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (87 bp):
ACCTCAGCGGTCCTGAGGCTCAACTCACTTATCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
ATTAAAAATAGAAATGGAAAAC
Found at i:32742901 original size:146 final size:150
Alignment explanation
Indices: 32742547--32743272 Score: 538
Period size: 146 Copynumber: 4.6 Consensus size: 150
32742537 AAAAAAAAAT
* ** * * * *
32742547 TAAAAACAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGA
1 TAAAAACAGAAATTGAAAATACCTCAACATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGA
*
32742612 GTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTC
64 GTTGA-T-TTTTGAAAAGCAAAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTC
* *
32742677 GCAATATGAGTTGATTTTTTTTGA
127 ACAATATGAGCTGATTTTTTTTGA
* * * * * *
32742701 TAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGT
1 TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* ** *
32742766 TGATTTTTGACAAA-CAAAAATTGAAATTACCTCAG-TGTCTTGAGGTTCAACTCACCTCTCACA
66 TGATTTTTGA-AAAGCAAAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTCACA
32742829 ATATGAGCTGA-TTTTTTT-A
130 ATATGAGCTGATTTTTTTTGA
* * *
32742848 -AAAGACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
1 TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
32742912 TGATTTTTTTGAAACATAAATTAAAAAAACAAAACTTGAAAATACCTCAGCGTGTCCTGAGGCTC
66 TGA--TTTTTG-------------AAAAGCAAAAATTGAAAATACCTCAGC-TGTCCCGAGGCTC
* * **
32742977 AACTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTG-
115 AACTCACCTCTCACAATATGAGCTGATTT---------TTTTTGA
* * * *
32743021 TAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
1 TAA---AAACA--G--------AAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTC
* * * * * *
32743086 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAG
53 TCGCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAAATACCTCAGC-TGTCCCGAGGCTCAA
* *
32743151 CTCACCTCTCGCAATATGAGTTGA---TTTTTG-
117 CTCACCTCTCACAATATGAGCTGATTTTTTTTGA
* * * * *
32743181 -AAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
32743245 TGATTTTTTGAAAAGCATAAATTGAAAA
66 TGA-TTTTTGAAAAGCAAAAATTGAAAA
32743273 AACGAAAATT
Statistics
Matches: 470, Mismatches: 57, Indels: 97
0.75 0.09 0.16
Matches are distributed among these distances:
146 115 0.24
147 22 0.05
148 13 0.03
149 34 0.07
150 25 0.05
151 4 0.01
152 33 0.07
154 26 0.06
156 3 0.01
159 2 0.00
160 7 0.01
161 20 0.04
163 35 0.07
164 2 0.00
172 60 0.13
173 3 0.01
174 2 0.00
177 3 0.01
179 1 0.00
185 6 0.01
187 54 0.11
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (150 bp):
TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAGCAAAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTCACAA
TATGAGCTGATTTTTTTTGA
Found at i:32742906 original size:75 final size:75
Alignment explanation
Indices: 32742546--32742921 Score: 415
Period size: 75 Copynumber: 5.0 Consensus size: 75
32742536 TAAAAAAAAA
* ** * * *
32742546 TTAAAA-ACAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATAT
1 TTAAAAGACAGAAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
32742610 GAGTTGATTCTTT
64 GAGTTGATT-TTT
* * *
32742623 TGAAAAG-CAGAAATTGAAAATACCTCAGC-TGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
32742686 GTTGATTTTTT
66 GTTGA-TTTTT
* * * * * *
32742697 TTGATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATAT
1 TT-A-AAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
32742762 GAGTTGA-TTTT
64 GAGTTGATTTTT
* * * * * * *
32742773 TGACAA-ACAAAAATTGAAATTACCTC-A-GTGTCTTGAGGTTCAACTCACCTCTCACAATATGA
1 TTAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
32742835 GCTGATTTTT
66 GTTGATTTTT
* * *
32742845 TTAAAAGACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
32742910 GTTGATTTTT
66 GTTGATTTTT
32742920 TT
1 TT
32742922 GAAACATAAA
Statistics
Matches: 253, Mismatches: 36, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
71 35 0.14
72 8 0.03
73 33 0.13
74 42 0.17
75 46 0.18
76 11 0.04
77 41 0.16
78 37 0.15
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
TTAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:32743000 original size:234 final size:223
Alignment explanation
Indices: 32742589--32743005 Score: 602
Period size: 234 Copynumber: 1.8 Consensus size: 223
32742579 GGCCCGAGAC
* * *
32742589 TCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCTG
1 TCAACTCACCTCTCACAATATGAGCTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAACTG
* * * *
32742654 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATAAAAATAGAATTTGAAA
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAATAAAAACAAAACTTGAAA
* *
32742719 ATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAA
131 ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAA
32742784 AATTGAAATTACCTCAGTGTCTTGAGGT
196 AATTGAAATTACCTCAGTGTCTTGAGGT
*
32742812 TCAACTCACCTCTCACAATATGAGCTGATT-TTTTTAAAAGACAGAAATTGAAAATACCTCAACA
1 TCAACTCACCTCTCACAATATGAGCTGATTCTTTTGAAAAG-CAGAAATTGAAAATACCTCAAC-
** *
32742876 TGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAAAAAA
64 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT------T-AA-T--AAAAA
32742941 CAAAACTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
119 CAAAACTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
32743006 GAAAAGCAGA
Statistics
Matches: 169, Mismatches: 13, Indels: 13
0.87 0.07 0.07
Matches are distributed among these distances:
222 9 0.05
223 49 0.29
224 43 0.25
230 1 0.01
231 1 0.01
232 1 0.01
234 65 0.38
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (223 bp):
TCAACTCACCTCTCACAATATGAGCTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAACTG
TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAATAAAAACAAAACTTGAAA
ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAA
AATTGAAATTACCTCAGTGTCTTGAGGT
Found at i:32743155 original size:73 final size:73
Alignment explanation
Indices: 32743032--32743273 Score: 367
Period size: 73 Copynumber: 3.3 Consensus size: 73
32743022 AAGGCAAAAA
*
32743032 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
32743097 GTTGATTT
66 GTTGATTT
* * *
32743105 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
32743170 GTTGATTT
66 GTTGATTT
* * * * *
32743178 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
32743243 GTTGATTTT
66 GTTGA-TTT
* *
32743252 TTGAAAAGCATAAATTGAAAAA
1 TTGAAAAACAGAAATT-AAAAA
32743274 ACGAAAATTG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
73 131 0.86
74 19 0.12
75 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:32743372 original size:91 final size:89
Alignment explanation
Indices: 32743189--32743358 Score: 268
Period size: 91 Copynumber: 1.9 Consensus size: 89
32743179 TGAAAAGCAT
* *
32743189 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
32743254 GAAAAGCATAAATTGAAAAAACGA
66 GAAAAGCAGAAATTGAAAAAACGA
32743278 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
**
32743343 TTTTAAAGACAGAAAT
64 TTGAAAAG-CAGAAAT
32743359 AAAAACATCA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
89 22 0.30
91 45 0.62
92 6 0.08
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAGCAGAAATTGAAAAAACGA
Found at i:32745911 original size:47 final size:47
Alignment explanation
Indices: 32745876--32746026 Score: 239
Period size: 47 Copynumber: 3.2 Consensus size: 47
32745866 TATACACTTC
* **
32745876 CACGTTCATCACATTGGTCATTCTACCTTATCACATATATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* *
32745923 CACATTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
32745970 CACGTTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
32746017 CACATTCATC
1 CACGTTCATC
32746027 TCATAGAATC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
Found at i:32745948 original size:94 final size:94
Alignment explanation
Indices: 32745840--32746026 Score: 252
Period size: 94 Copynumber: 2.0 Consensus size: 94
32745830 ACACATTTCG
* * *
32745840 CATTAGCCATTCGG-CTTCGCCACATATATACACT-TCCACGTTCATCACATTGGTCATTCTACC
1 CATTAGCCATTCGGCCTT-ACCACATATATACA-TGTCCACGTTCATCACATTGGCCATTCGACC
*
32745903 TTATCACATATATGCATGTTCACATTCATCA
64 TTATCACACATATGCATGTTCACATTCATCA
* * * * * *
32745934 CATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACGTTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATACATGTCCACGTTCATCACATTGGCCATTCGACCTT
32745999 ATCACACATATGCATGTTCACATTCATC
66 ATCACACATATGCATGTTCACATTCATC
32746027 TCATAGAATC
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 1 0.01
94 77 0.95
95 3 0.04
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (94 bp):
CATTAGCCATTCGGCCTTACCACATATATACATGTCCACGTTCATCACATTGGCCATTCGACCTT
ATCACACATATGCATGTTCACATTCATCA
Found at i:32745958 original size:22 final size:22
Alignment explanation
Indices: 32745930--32746004 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
32745920 GTTCACATTC
32745930 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
32745952 ATCACATATTTG-CATGTTC-ACGTT
1 ATCAC--ATTGGCCA--TTCGGCCTT
32745976 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
32745999 ATCACA
1 ATCACA
32746005 CATATGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:32754257 original size:8 final size:8
Alignment explanation
Indices: 32754223--32754282 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
32754213 TAGTGATGTG
*
32754223 AATAATAA
1 AATATTAA
*
32754231 AGTATATAA
1 AATAT-TAA
32754240 AATA-TAA
1 AATATTAA
32754247 AATATTAA
1 AATATTAA
*
32754255 AATATCAA
1 AATATTAA
32754263 AAT-TTCAA
1 AATATT-AA
*
32754271 AATATTAG
1 AATATTAA
32754279 AATA
1 AATA
32754283 ATAATAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 8 0.19
8 26 0.62
9 8 0.19
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:32754454 original size:20 final size:20
Alignment explanation
Indices: 32754397--32754456 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
32754387 AATACTACAT
32754397 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
32754416 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
32754439 AAATATGTACATAATATA
1 AAATATGTACATAATATA
32754457 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:32754548 original size:25 final size:24
Alignment explanation
Indices: 32754520--32754649 Score: 106
Period size: 23 Copynumber: 5.5 Consensus size: 24
32754510 AGAAAAAAAA
*
32754520 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATT-AAGAT
* *
32754545 ATATACATAAAATAGTA-TAATAT
1 ATATACATAATATAGTATTAAGAT
* * *
32754568 ATATACGTAATATAGAATTTAGA-
1 ATATACATAATATAGTATTAAGAT
* * *
32754591 ATATACCTAATATATTA-AAAGATT
1 ATATACATAATATAGTATTAAGA-T
* * *
32754615 ATATATATAATATAATATTAAGAA
1 ATATACATAATATAGTATTAAGAT
32754639 ATATA-ATAATA
1 ATATACATAATA
32754650 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.04
23 38 0.46
24 23 0.28
25 19 0.23
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAGAT
Found at i:32754569 original size:23 final size:25
Alignment explanation
Indices: 32754433--32754649 Score: 96
Period size: 23 Copynumber: 8.9 Consensus size: 25
32754423 TACGTGATAA
* *
32754433 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
32754458 TGTAAAAAATACATACAT-A-ATAG
1 TATTAAAGATATATACATAATATAG
* *
32754481 AATTAAA-ATATATACATAAGATAACATG
1 TATTAAAGATATATACAT-A-AT-ATA-G
** * * *
32754509 TAGAAAAAAAAATATAAATAATATAG
1 TA-TTAAAGATATATACATAATATAG
*
32754535 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
32754560 TA-T-AATATATATACGTAATATAG
1 TATTAAAGATATATACATAATATAG
* * *
32754583 AATT-TAGA-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
32754605 T-TAAAAGATTATATATATAATATAA
1 TATTAAAGA-TATATACATAATATAG
*
32754630 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
32754650 ACAAAAAAAA
Statistics
Matches: 143, Mismatches: 35, Indels: 30
0.69 0.17 0.14
Matches are distributed among these distances:
21 1 0.01
22 12 0.08
23 45 0.31
24 22 0.15
25 39 0.27
26 4 0.03
27 4 0.03
28 4 0.03
29 4 0.03
30 8 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:32754970 original size:16 final size:16
Alignment explanation
Indices: 32754932--32754970 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32754922 ATCTCCAAAA
*
32754932 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
32754948 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
32754964 AATAACT
1 AAAAACT
32754971 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:32755175 original size:30 final size:30
Alignment explanation
Indices: 32755141--32755222 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
32755131 TGGTGGAGTA
* * * *
32755141 TGGCTAGTAGAGTAGGTAGTGGAGTAAGTG
1 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
32755171 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
1 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
32755201 TGGCTAGTGGAGTTGGTGGTGG
1 TGGCTAGTGGAGTTGGTGGTGG
32755223 CAAAGGCTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.18, C:0.05, G:0.49, T:0.28
Consensus pattern (30 bp):
TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
Found at i:32755212 original size:18 final size:17
Alignment explanation
Indices: 32755157--32755212 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 17
32755147 GTAGAGTAGG
32755157 TAGTGGAGTAAGTGTGGC
1 TAGTGGAG-AAGTGTGGC
32755175 TAGT-G-G-AGT-TGG-
1 TAGTGGAGAAGTGTGGC
*
32755187 TGGTGGAGCAAGTGTGGC
1 TAGTGGAG-AAGTGTGGC
32755205 TAGTGGAG
1 TAGTGGAG
32755213 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.05, G:0.48, T:0.27
Consensus pattern (17 bp):
TAGTGGAGAAGTGTGGC
Found at i:32762534 original size:22 final size:23
Alignment explanation
Indices: 32762450--32762539 Score: 76
Period size: 26 Copynumber: 3.8 Consensus size: 23
32762440 AGACTCACCA
* *
32762450 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACT-CT-T-C
* * *
32762476 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTCTTC
*
32762499 CAGCTCAT-TGGAGCTTAC-CTTC
1 CAGCTCGTAT-GAGCTTACTCTTC
32762521 CAGCTCGTATGAGCTTACT
1 CAGCTCGTATGAGCTTACT
32762540 GTTTAACTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
22 17 0.31
23 17 0.31
24 1 0.02
25 1 0.02
26 18 0.33
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTCTTC
Found at i:32770617 original size:50 final size:50
Alignment explanation
Indices: 32770540--32770781 Score: 304
Period size: 50 Copynumber: 4.8 Consensus size: 50
32770530 GTTGTGAGAA
*
32770540 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * *
32770590 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * *
32770641 CACGTGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
32770691 CACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * *
32770741 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
32770782 GAGCTTCGGT
Statistics
Matches: 162, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
50 122 0.75
51 40 0.25
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:32770728 original size:101 final size:101
Alignment explanation
Indices: 32770544--32770781 Score: 291
Period size: 101 Copynumber: 2.4 Consensus size: 101
32770534 TGAGAACACA
* * * * *
32770544 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCACATATGTAGTACTAAGT
*
32770609 GCAGGCTACTATGCGTACCCGATAGTTTCGATCACG
66 GCAGGCTACTACGCGTACCCGATAGTTTCGATCACG
* *
32770645 TGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCACATATGTAGTACTAAGT
* * * * ** *
32770710 GCAGGCTACTACGTGTACCAGATTGATAGGTTGCA--
66 GCAGGCTACTACGCGTACCCGATAGTTTCGAT-CACG
* * *
32770745 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGA
32770782 GAGCTTCGGT
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
100 33 0.28
101 82 0.70
102 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCACATATGTAGTACTAAGT
GCAGGCTACTACGCGTACCCGATAGTTTCGATCACG
Found at i:32771002 original size:16 final size:16
Alignment explanation
Indices: 32770981--32771012 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32770971 AGAATGGAGT
32770981 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
32770997 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
32771013 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:32773778 original size:26 final size:23
Alignment explanation
Indices: 32773749--32773888 Score: 135
Period size: 23 Copynumber: 6.0 Consensus size: 23
32773739 AGACTCACCA
32773749 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACTG-T-T-T
*
32773775 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTTT
* *
32773798 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
*
32773821 CAGCTCGTATGAGCTTATTG-TT
1 CAGCTCGTATGAGCTTACTGTTT
*
32773843 CAGCTCG-ATAGAGCTTACTATTT
1 CAGCTCGTAT-GAGCTTACTGTTT
* *
32773866 TAGCTC-AATAGAGCTTACTGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
32773889 ATCAACTCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.02
22 17 0.17
23 57 0.58
24 2 0.02
25 1 0.01
26 19 0.19
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:32773871 original size:68 final size:71
Alignment explanation
Indices: 32773749--32773888 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 71
32773739 AGACTCACCA
* * *
32773749 CAGCTCGTATGAGCTTACTGATATATCAGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTT
1 CAGCTCGTATGAGCTTACT-ATATATCAGCTCGTAAGAGCTTACTATTTCAGCTCAATAGAGCTT
32773814 ACCGTTT
65 ACCGTTT
* *
32773821 CAGCTCGTATGAGCTTA-T-TGT-TCAGCTCG-ATAGAGCTTACTATTTTAGCTCAATAGAGCTT
1 CAGCTCGTATGAGCTTACTATATATCAGCTCGTA-AGAGCTTACTATTTCAGCTCAATAGAGCTT
*
32773882 ACTGTTT
65 ACCGTTT
32773889 ATCAACTCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
67 1 0.02
68 40 0.66
69 2 0.03
71 1 0.02
72 17 0.28
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (71 bp):
CAGCTCGTATGAGCTTACTATATATCAGCTCGTAAGAGCTTACTATTTCAGCTCAATAGAGCTTA
CCGTTT
Found at i:32775392 original size:18 final size:18
Alignment explanation
Indices: 32775369--32775413 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
32775359 GCCACTGTCC
32775369 CTTCTTCCTCACCT-ACAT
1 CTTCTTCCTCA-CTGACAT
*
32775387 CTTCTTTCTCACTGACAT
1 CTTCTTCCTCACTGACAT
32775405 CTTCTTCCT
1 CTTCTTCCT
32775414 TATTTACGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.13, C:0.40, G:0.02, T:0.44
Consensus pattern (18 bp):
CTTCTTCCTCACTGACAT
Found at i:32777868 original size:27 final size:27
Alignment explanation
Indices: 32777838--32778015 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32777828 ATATTGAGTC
* * * *
32777838 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32777865 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32777892 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32777920 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32777947 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32777974 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32778001 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32778016 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32777977 original size:82 final size:81
Alignment explanation
Indices: 32777859--32778014 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32777849 TGCTATATAA
* *
32777859 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32777924 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32777941 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32778005 CACTTAGTGC
65 CACTTAGTGC
32778015 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32780171 original size:93 final size:93
Alignment explanation
Indices: 32780042--32780213 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
32780032 CACCCATAAG
* * * *
32780042 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGAATCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
32780107 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
32780135 CGAACTCGGAATCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGAATCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
* *
32780200 ATGAGTTCGGATGC
66 ACGAGCTCGGATGC
32780214 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGAATCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:32780210 original size:46 final size:46
Alignment explanation
Indices: 32780035--32780210 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
32780025 TGTAACCCAC
* * *
32780035 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
32780081 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * * *
32780127 ACATCTCTCGAACTCGGAATCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
32780174 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
32780211 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 64 0.62
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:32780399 original size:113 final size:113
Alignment explanation
Indices: 32780201--32780426 Score: 452
Period size: 113 Copynumber: 2.0 Consensus size: 113
32780191 CTCAACTCAA
32780201 TGAGTTCGGATGCTCAACCATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCA
1 TGAGTTCGGATGCTCAACCATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCA
32780266 AACGGGATTTTCCTCGAACACATATCCTTGCCATCTTTCATAAAATAC
66 AACGGGATTTTCCTCGAACACATATCCTTGCCATCTTTCATAAAATAC
32780314 TGAGTTCGGATGCTCAACCATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCA
1 TGAGTTCGGATGCTCAACCATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCA
32780379 AACGGGATTTTCCTCGAACACATATCCTTGCCATCTTTCATAAAATAC
66 AACGGGATTTTCCTCGAACACATATCCTTGCCATCTTTCATAAAATAC
32780427 CAAAACCAAT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (113 bp):
TGAGTTCGGATGCTCAACCATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCA
AACGGGATTTTCCTCGAACACATATCCTTGCCATCTTTCATAAAATAC
Found at i:32781239 original size:21 final size:21
Alignment explanation
Indices: 32781214--32781256 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32781204 TTCGGCCATG
32781214 GGGTTGAAGATGAGCAAAATT
1 GGGTTGAAGATGAGCAAAATT
32781235 GGGTTGAAGATGAGCAAAATT
1 GGGTTGAAGATGAGCAAAATT
32781256 G
1 G
32781257 TCTTTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.35, T:0.23
Consensus pattern (21 bp):
GGGTTGAAGATGAGCAAAATT
Found at i:32790115 original size:102 final size:102
Alignment explanation
Indices: 32789941--32790126 Score: 277
Period size: 102 Copynumber: 1.8 Consensus size: 102
32789931 AGTAATGTAT
* *
32789941 CAAATAATTTTTCTATTTTTTAAATATTTTACTATACCCTATAGAATACTTGTCAACCCCTAACT
1 CAAATAATTTTTCTATTTTTAAAATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACT
*
32790006 TTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
66 CTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
* * *
32790043 CAAATAA-TTTTCTATTTTTAAAATATTTTACTATACCATTATAGGACATTTGTCAACCGCCTAA
1 CAAATAATTTTTCTATTTTTAAAATATTTTACTATACC-CTATAGAACACTTGTCAACC-CCTAA
*
32790107 CTCT-CTTGTGGTGTCTAAAA
64 CTCTGCTTGTGGAGTCTAAAA
32790127 ACTCCACTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
101 29 0.39
102 38 0.51
103 8 0.11
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (102 bp):
CAAATAATTTTTCTATTTTTAAAATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACT
CTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
Found at i:32790155 original size:101 final size:100
Alignment explanation
Indices: 32789861--32790155 Score: 274
Period size: 102 Copynumber: 2.9 Consensus size: 100
32789851 ATATTTTTTT
** * * * * * * * * * *
32789861 ATATTTTACTATAGCTTTATAGGATACTTGTCAACCCTTAATTTTACTTATGCAATCTAAAATCT
1 ATATTTTACTATA-CCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACT
*
32789926 CCACTAGTAATGTATCAAATAATTTTTCTATTTTTTAA
65 CCACTAGTAATGTA-CAAATAA-TTTTCTATTTTTAAA
* * * *
32789964 ATATTTTACTATACCCTATAGAATACTTGTCAACCCCTAACTTTGCTTGTGGAGTCTAAAACCTT
1 ATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACTC
* *
32790029 CAC-CG-ACCATGTGCCAAATAATTTTCTATTTTTAAA
66 CACTAGTA--ATGT-ACAAATAATTTTCTATTTTTAAA
* * * *
32790065 ATATTTTACTATACCATTATAGGACATTTGTCAACCGCCTAACTCT-CTTGTGGTGTCTAAAAAC
1 ATATTTTACTATACC-CTATAGAACACTTGTCAACC-CCTAACTCTGCTTGTGGAGTCTAAAAAC
32790129 TCCACTAGTAATGTACAAA-ATATTTTC
64 TCCACTAGTAATGTACAAATA-ATTTTC
32790156 CCTTAATTTA
Statistics
Matches: 160, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
100 2 0.01
101 40 0.25
102 95 0.59
103 22 0.14
104 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (100 bp):
ATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACTC
CACTAGTAATGTACAAATAATTTTCTATTTTTAAA
Found at i:32794783 original size:20 final size:21
Alignment explanation
Indices: 32794758--32794796 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32794748 TTTAGTTACA
32794758 AATAATTA-AATATAAATATT
1 AATAATTATAATATAAATATT
*
32794778 AATAATTATATTATAAATA
1 AATAATTATAATATAAATA
32794797 AAATAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTATAATATAAATATT
Found at i:32794801 original size:20 final size:20
Alignment explanation
Indices: 32794757--32794802 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
32794747 TTTTAGTTAC
32794757 AAATAATTAAATATAAATAT
1 AAATAATTAAATATAAATAT
* *
32794777 TAATAATTATATTATAAATA-
1 AAATAATTA-AATATAAATAT
32794797 AAATAA
1 AAATAA
32794803 ATACTCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATTAAATATAAATAT
Found at i:32798870 original size:27 final size:27
Alignment explanation
Indices: 32798804--32798864 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
32798794 CATGCCTTTG
32798804 AGATAGGCTCAACCAGTTACGGCTGTC
1 AGATAGGCTCAACCAGTTACGGCTGTC
* *
32798831 AGATAGGCTCAACTAGTTACGGCTGTT
1 AGATAGGCTCAACCAGTTACGGCTGTC
32798858 AGATAGG
1 AGATAGG
32798865 TGCAACCCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (27 bp):
AGATAGGCTCAACCAGTTACGGCTGTC
Found at i:32803465 original size:20 final size:21
Alignment explanation
Indices: 32803440--32803478 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32803430 TTTAGTTACA
32803440 AATAATTA-AATATAAATATT
1 AATAATTATAATATAAATATT
*
32803460 AATAATTATATTATAAATA
1 AATAATTATAATATAAATA
32803479 AAATAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTATAATATAAATATT
Done.