Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 317 of 335
Found at i:93398681 original size:39 final size:38
Alignment explanation
Indices: 93398614--93398748 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
93398604 ACCAATATGG
* * *
93398614 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
93398653 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
93398691 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
93398732 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
93398749 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:93399014 original size:18 final size:19
Alignment explanation
Indices: 93398988--93399026 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
93398978 TTTCAATTCA
93398988 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
93399007 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
93399025 AT
1 AT
93399027 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:93400351 original size:5 final size:5
Alignment explanation
Indices: 93400341--93400392 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
93400331 TTACTTATTT
*
93400341 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA AT-TA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
93400388 ATATA
1 ATATA
93400393 TATTTTAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.10
5 26 0.63
6 7 0.17
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:93400357 original size:12 final size:12
Alignment explanation
Indices: 93400340--93400394 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
93400330 TTTACTTATT
93400340 TATATAATATAA
1 TATATAATATAA
93400352 TATATAATATAATA
1 TATATAATAT-A-A
93400366 TACTATAATATAA
1 TA-TATAATATAA
93400379 TA-ATAAT-TAA
1 TATATAATATAA
93400389 TATATA
1 TATATA
93400395 TTTTAACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.13
11 8 0.21
12 10 0.26
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATAATATAA
Found at i:93404235 original size:228 final size:227
Alignment explanation
Indices: 93402764--93404499 Score: 1354
Period size: 228 Copynumber: 7.6 Consensus size: 227
93402754 TAACTGCTTA
* * * * * * * *
93402764 CCAGCAAATATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTCCTGAATTTTCGCTTTCAC
1 CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGAC
* * * * * * * * * *
93402829 ATTGTCGATCGTGTCTGAGCTCTCCACCTCCAGGGTGATTGT-TTTCCCGGTCAAG-GTCTTCAC
66 ATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTGATAGTCTTT-CCAGT-AAGAGTTTTCAC
* * * * * * * * * * *
93402892 GAATATCTGCATCCCTCCTCGAAGTCGCAA-AACCAA-ATGCAGGGTCGATTCCTTT-TGGATGT
129 AAAAATCTGCATCCCACCCCTAAGACG-AAGCA-CAAGGTGGAGGGTAGACT-CTTTCTGGATGT
* ** * *
93402954 TATAATCCGCAAGGGTCCTCCCATCCTCGAGCTGCTTT
191 TATAATCCGCAAGAGTCCGGCCATCTTCAAGCTG-TTT
* * * * * * * *
93402992 CCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCCTGAATTTTCGCTTTCAC
1 CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGAC
* * * * * * * * * *
93403057 ATTGTCAATGGTGTCCGAGCTCTCGACCTCCAGGGTGATGGT-TTTACCGGTCAAG-GTCTTCAC
66 ATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTGATAGTCTTT-CCAGT-AAGAGTTTTCAC
* * * * * * * * * * *
93403120 GAATATCTGCATCCCTCCTCGAAGTCGCAA-AACCAA-ATGCAGGGTCGATTCCTTT-TGGATGT
129 AAAAATCTGCATCCCACCCCTAAGACG-AAGCA-CAAGGTGGAGGGTAGACT-CTTTCTGGATGT
* ** * *
93403182 TATAATCCGCAAGGGTCCTCCCATCCTCGAGCTGCTTT
191 TATAATCCGCAAGAGTCCGGCCATCTTCAAGCTG-TTT
* * * *
93403220 CCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCC-TCCTTATCTTGGATCTTGGCCTTCA
1 CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAAT-CCCTTCCTTGTCTTGGATCTTGGCCTTGA
* * * * * *
93403284 CATTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAA-AGTTTTCAC
65 CATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTGATAGTCTTTCCAGT-AAGAGTTTTCAC
* * ** * * * *
93403348 AAAAATCTGCATTCCACCACGCAGTCGGAGCACCAA-GTGAAGGGTAGACTCTTTCTGGATATTA
129 AAAAATCTGCATCCCACCCCTAAGACGAAGCA-CAAGGTGGAGGGTAGACTCTTTCTGGATGTTA
* * ** *
93403412 TAATCTGCAAGTGTCCTACCATCTTCGAGCTGTTT
193 TAATCCGCAAGAGTCCGGCCATCTTCAAGCTGTTT
* * * * *
93403447 GCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCTTGTCCTGGATCTTAGCTTTTA
1 -CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGA
* * * * * * * * * *
93403512 CATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACA
65 CATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTGATAGTCTTTCCAGTAAGAGTTTTCACA
* * * ** * * * * *
93403577 AAAATTTGCATGCCACCACGGAGACGTAA-CACCAA-ATGGAGGGTCGATTCCTTCTGAATGTTA
130 AAAATCTGCATCCCACCCCTAAGACG-AAGCA-CAAGGTGGAGGGTAGACTCTTTCTGGATGTTA
* *
93403640 TAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGCTTT
193 TAATCCGCAAGAGTCCGGCCATCTTCAAGCTG-TTT
** * * * * *
93403676 CCAGCAAAAATCAACCTCTGCTGGTCCAGTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTAAC
1 CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGAC
* * * * * * *
93403741 ATTATCAATCGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCGGTGAGGGTTTT-ACAA
66 ATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTGATAGTCTTTCCAGTAAGAGTTTTCACAA
* *
93403805 AAATCTGCATCCCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTCTTTCTGGATGTTGTAA
131 AAATCTGCATCCCACCCCTAAGACGAAGCACAAGGTGGAGGGTAGACTCTTTCTGGATGTTATAA
* * ** * *
93403870 TCTGCAAGTGTCCTACCATCTTCGAGTTGTTTT
196 TCCGCAAGAGTCCGGCCATCTTCAAGCTG-TTT
* *
93403903 CCGGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGAC
1 CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGAC
* * * * * * *
93403968 ATTATCGATAGTATCGGAGCTCTCCACCT-CAAGGGTGATGGTCTTACCAGTAAGGGTTTTTACA
66 ATTATCAATAGTATCAGAACTCTCCACCTCCAA-GGTGATAGTCTTTCCAGTAAGAGTTTTCACA
* * *
93404032 AAGATCTGCATCCCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTCTTTCTGGATGTTGTA
130 AAAATCTGCATCCCACCCCTAAGACGAAGCACAAGGTGGAGGGTAGACTCTTTCTGGATGTTATA
*
93404097 ATCCGCAAGAGTTCGGCCATCTTCAAGCTGTTT
195 ATCCGCAAGAGTCCGGCCATCTTCAAGCTGTTT
* * * *
93404130 ACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTG
1 -CCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTG
* * * * * *
93404194 ACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGAGTTTTCAC
64 ACATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTGATAGTCTTTCCAGTAAGAGTTTTCAC
* * * * * * * *
93404259 GAATATCTGCATGCCACCCCTTAGACGAAGCACTAGGTGGAGGGTGGACTCCTTT-TGGATATTG
129 AAAAATCTGCATCCCACCCCTAAGACGAAGCACAAGGTGGAGGGTAGACT-CTTTCTGGATGTTA
* * * * *
93404323 TAGTCGGCAAGAGTTCGGCCATCCTCAAGTTGTTTT
193 TAATCCGCAAGAGTCCGGCCATCTTCAAGCTG-TTT
* * * * * * * * *
93404359 CCGGCAAAGAT-AAGCCTTTGTTGGTCAGGAGGAATCCCTTCTTTGTCTTGGATTTTAGCCTTGA
1 CCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGA
* * * * * *
93404423 CATTATCGATAGTATCAGAACTTTCTACCT-CAAGGGTGATGGTCTTACCAGTAAGGGTTTTCAC
65 CATTATCAATAGTATCAGAACTCTCCACCTCCAA-GGTGATAGTCTTTCCAGTAAGAGTTTTCAC
*
93404487 AAAGATCTGCATC
129 AAAAATCTGCATC
93404500 TGCTGTCAAC
Statistics
Matches: 1296, Mismatches: 192, Indels: 40
0.85 0.13 0.03
Matches are distributed among these distances:
226 8 0.01
227 193 0.15
228 1077 0.83
229 18 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (227 bp):
CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCTTGTCTTGGATCTTGGCCTTGAC
ATTATCAATAGTATCAGAACTCTCCACCTCCAAGGTGATAGTCTTTCCAGTAAGAGTTTTCACAA
AAATCTGCATCCCACCCCTAAGACGAAGCACAAGGTGGAGGGTAGACTCTTTCTGGATGTTATAA
TCCGCAAGAGTCCGGCCATCTTCAAGCTGTTT
Found at i:93404272 original size:683 final size:682
Alignment explanation
Indices: 93402677--93404453 Score: 1782
Period size: 683 Copynumber: 2.6 Consensus size: 682
93402667 CAATTAGAAA
* * * * * * * * *
93402677 CCACCACGGAGGCGAAGGACAAGATGCAGTGTGGACTCCTTCTGGATATTGTAGTCAGCTAGAGT
1 CCACCACGAAGACGAAGGACAAGGTGAAGGGTAGACTCTTTCTGGATATTGTAATCAGCAAGAGT
* * * *
93402742 TCGACCATCCTCTAA-CTGCTTACCAGCAAATATCAACCTCTGCTGGTCTGGTGGAATCCCCTCC
66 TCGACCATCTTC-AAGCTGTTTACCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCC
* * * * * * *
93402806 TTGTCCTGAATTTTCGCTTTCACATTGTCGATCGTGTCTGAGCTCTCCACCTCCAGGGTGATTGT
130 TTGTCCTGGATCTTAGCTTTCACATTGTCAATCGTGTCAGAACTCTCCACCTCCAGGGTGATAGT
* * * * * * *
93402871 TTTCCCGGTCAAG-GTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGG
195 CTTCCCGGT-AAGAGTCTTCACGAATATCTGCATGCCACCACGAAGACG-AACACCAAATGGAGG
* * * ** *
93402935 GTCGATTCCTTTTGGATGTTATAATCCGCAAGGGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAA
258 GTCGATTCCTTTTGGATGTTATAGTCCGCAAGAGTTCGGCCATCCTCAAGCTGCTTTCCAGCAAA
* * * * * *
93403000 AATCAACCTCTGCTGGT-CTGGAGGAATCCCCTCCTTGTCCTGAATTTTCGCTTTCACATTGTCA
323 AATCAACCTCTGCTGGTCCAGG-GG-ATCCCTTCCTTGTCCTGAATTTTAGCCTTAACATTATCA
* * * * * ** * * * *
93403064 ATGGTGTCCGAGCTCTCGACCTCCAGGGTGATGGTTTTACCGGTCAAGGTCTTCACGAATATCTG
386 ATAGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTACCGGTCAAGGTCTTCACAAAAATCTG
* * * * *
93403129 CATCCCTCCTCGAAGTCGCAAAACCAAATGCAGGGTCGATTCCTTTTGGATGTTATAATCCGCAA
451 CATCCCACCCCGAAGACGCAAAACCAAATGCAGGGTAGACTCCTTTTGGATGTTATAATCCGCAA
* * *
93403194 GGGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCC
516 GGGTCCTACCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGATCAGGTGGAATACCC
* * * *
93403259 TCCTTATCTTGGATCTTGGCCTTCACATTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGAT
581 TCCTTATCTTGGATCTTGGCCTTCACATTATCAATAGTATCGGAGCTCTCCACCTCCAAGGTGAT
* * *
93403324 AGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCATT
646 AGTCTTACCAGTCAAAGTTTTCACAAAAATCTGCATC
* * * * * * *
93403361 CCACCACGCAGTCGGAGCACCAA-GTGAAGGGTAGACTCTTTCTGGATATTATAATCTGCAAGTG
1 CCACCACGAAGACGAAGGA-CAAGGTGAAGGGTAGACTCTTTCTGGATATTGTAATCAGCAAGAG
* * * * *
93403425 TCCTACCATCTTCGAGCTGTTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCC
65 TTCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCC
* * * * ** *
93403490 TTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGT
130 TTGTCCTGGATCTTAGCTTTCACATTGTCAATCGTGTCAGAACTCTCCACCTCCAGGGTGATAGT
* * * * * *
93403555 CTTTCCGGTGAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGACGTAACACCAAATGGAGGG
195 CTTCCCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGACG-AACACCAAATGGAGGG
* * *
93403620 TCGATTCCTTCTGAATGTTATAGTCCGCAAGAGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAA
259 TCGATTCCTTTTGGATGTTATAGTCCGCAAGAGTTCGGCCATCCTCAAGCTGCTTTCCAGCAAAA
* * *
93403685 ATCAACCTCTGCTGGTCCAGTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAAT
324 ATCAACCTCTGCTGGTCCAG-GGGATCCCTTCCTTGTCCTGAATTTTAGCCTTAACATTATCAAT
* * * * *
93403750 CGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCGGTGAGGGT-TTTACAAAAATCTGCA
388 AGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTACCGGTCAAGGTCTTCACAAAAATCTGCA
* * * * * *
93403814 TCCCACCCCTAAGACG-AAGGA-CAAGGTGGAGGGTAGACT-CTTTCTGGATGTTGTAATCTGCA
453 TCCCACCCCGAAGACGCAA-AACCAA-ATGCAGGGTAGACTCCTTT-TGGATGTTATAATCCGCA
* * * * * *
93403876 AGTGTCCTACCATCTTCGAGTTGTTTTCCGGCAAAAATCAACCTCTGCTGATCTGGTGGAAT-CC
515 AGGGTCCTACCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGATCAGGTGGAATACC
* * *
93403940 CTTCCTTGTCTTGGATCTTGGCCTTGACATTATCGATAGTATCGGAGCTCTCCACCT-CAAGGGT
580 C-TCCTTATCTTGGATCTTGGCCTTCACATTATCAATAGTATCGGAGCTCTCCACCTCCAA-GGT
* * * *
93404004 GATGGTCTTACCAGT-AAGGGTTTTTACAAAGATCTGCATC
643 GATAGTCTTACCAGTCAA-AGTTTTCACAAAAATCTGCATC
* * * * *
93404044 CCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTCTTTCTGGATGTTGTAATCCGCAAGAGT
1 CCACCACGAAGACGAAGGACAAGGTGAAGGGTAGACTCTTTCTGGATATTGTAATCAGCAAGAGT
* * * * *
93404109 TCGGCCATCTTCAAGCTGTTTACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTTCC
66 TCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGAATCCCTTCC
* * * * * * * * * *
93404173 TTGTCTTGGATCTTGGCCTTGACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGGT
130 TTGTCCTGGATCTTAGCTTTCACATTGTCAATCGTGTCAGAACTCTCCACCTCCAGGGTGATAGT
* * * * ** * **
93404238 CTTGCCAGTAAGAGTTTTCACGAATATCTGCATGCCACCCCTTAGACGAAGCACTAGGTGGAGGG
195 CTTCCCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGACGAA-CACCAAATGGAGGG
* * * * * * * * *
93404303 TGGACTCCTTTTGGATATTGTAGTCGGCAAGAGTTCGGCCATCCTCAAGTTGTTTTCCGGCAAAG
259 TCGATTCCTTTTGGATGTTATAGTCCGCAAGAGTTCGGCCATCCTCAAGCTGCTTTCCAGCAAAA
* * * * * * *
93404368 AT-AAGCCTTTGTTGGT-CAGGAGGAATCCCTTCTTTGTCTTGGATTTTAGCCTTGACATTATCG
324 ATCAA-CCTCTGCTGGTCCAGG-GG-ATCCCTTCCTTGTCCTGAATTTTAGCCTTAACATTATCA
* *
93404431 ATAGTATCAGAACTTTCTACCTC
386 ATAGTATCAGAACTCTCCACCTC
93404454 AAGGGTGATG
Statistics
Matches: 885, Mismatches: 191, Indels: 35
0.80 0.17 0.03
Matches are distributed among these distances:
681 1 0.00
682 31 0.04
683 504 0.57
684 341 0.39
685 7 0.01
686 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (682 bp):
CCACCACGAAGACGAAGGACAAGGTGAAGGGTAGACTCTTTCTGGATATTGTAATCAGCAAGAGT
TCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCT
TGTCCTGGATCTTAGCTTTCACATTGTCAATCGTGTCAGAACTCTCCACCTCCAGGGTGATAGTC
TTCCCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGACGAACACCAAATGGAGGGTC
GATTCCTTTTGGATGTTATAGTCCGCAAGAGTTCGGCCATCCTCAAGCTGCTTTCCAGCAAAAAT
CAACCTCTGCTGGTCCAGGGGATCCCTTCCTTGTCCTGAATTTTAGCCTTAACATTATCAATAGT
ATCAGAACTCTCCACCTCCAACGTAATAGTTTTACCGGTCAAGGTCTTCACAAAAATCTGCATCC
CACCCCGAAGACGCAAAACCAAATGCAGGGTAGACTCCTTTTGGATGTTATAATCCGCAAGGGTC
CTACCATCCTCGAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGATCAGGTGGAATACCCTCCTT
ATCTTGGATCTTGGCCTTCACATTATCAATAGTATCGGAGCTCTCCACCTCCAAGGTGATAGTCT
TACCAGTCAAAGTTTTCACAAAAATCTGCATC
Found at i:93408325 original size:44 final size:44
Alignment explanation
Indices: 93408276--93408363 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
93408266 AAATTTTAAT
93408276 AGATAAAATAAAAATGGAGTCAAATATGTTAATCGAACCAGAGC
1 AGATAAAATAAAAATGGAGTCAAATATGTTAATCGAACCAGAGC
93408320 AGATAAAATAAAAATGGAGTCAAATATGTTAATCGAACCAGAGC
1 AGATAAAATAAAAATGGAGTCAAATATGTTAATCGAACCAGAGC
93408364 CTAGCCCCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.20
Consensus pattern (44 bp):
AGATAAAATAAAAATGGAGTCAAATATGTTAATCGAACCAGAGC
Found at i:93409119 original size:228 final size:228
Alignment explanation
Indices: 93408695--93409982 Score: 1052
Period size: 228 Copynumber: 5.6 Consensus size: 228
93408685 CATCCTCCAA
* * * * *
93408695 CTGCTTCCCAGCAAATATCAACCTCTGCTGGTCTGGTGGAATCCCCTCCTTGTCCTGAATCTTGG
1 CTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGGATCTTGG
* * * * * * * * * * *
93408760 CTTTCACATTGTCAATGGTGTCCGAGCTCTCGACCTCCAGGGTGATGGTTTTACCGGTCAAGGTC
66 CCTTCACATTATCAATGGTGTCAGAACTCTCCACCTCCAAGGTGATAGTTTTTCCAGTCAAAGTT
* * * * * * *
93408825 TTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAA-ACCAAATGCAGGGTCGATTCCTTT-TGG
131 TTCACAAAAATCTGCATCCCACCACGAAGTCG-AAACACCAAATGGAGGGTAGACT-CTTTCTGG
* ** * *
93408888 ATGTTATAATCCGCAAGGGTCCTCCCATCCTCGAG
194 ATGTTATAATCCGCAAGAGTCCGGCCATCTTCAAG
* * *
93408923 CTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGGGATACCC-TCCTTATCTTGGATCTTG
1 CTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGAT-CCCTTCCTTGTCCTGGATCTTG
* * * *
93408987 GCCTTCACATTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGT
65 GCCTTCACATTATCAATGGTGTCAGAACTCTCCACCTCCAAGGTGATAGTTTTTCCAGTCAAAGT
* * * * * *
93409052 TTTCACAAAAATCTGCATTCCACCACGCAGTCGGAGCACCAAGTGAAGGGTAGACTCTTTCTGGA
130 TTTCACAAAAATCTGCATCCCACCACGAAGTCGAAACACCAAATGGAGGGTAGACTCTTTCTGGA
* * * ** *
93409117 TGTTGTAATCTGCAAGTGTCCTACCATCTTCGAG
195 TGTTATAATCCGCAAGAGTCCGGCCATCTTCAAG
* * *
93409151 CTG-TTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCCTTGTCCTGGATCTTA
1 CTGCTTT-CCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGGATCTTG
* * * * * * * * * * *
93409215 GCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGTCTTTCCGGTGAGAGT
65 GCCTTCACATTATCAATGGTGTCAGAACTCTCCACCTCCAAGGTGATAGTTTTTCCAGTCAAAGT
* * * * * * * * *
93409280 CTTCACAAAAATTTGCATGCCACCACGGAGTCGTAACACCAAATGGAGGGTCGATTCCTTCTGAA
130 TTTCACAAAAATCTGCATCCCACCACGAAGTCGAAACACCAAATGGAGGGTAGACTCTTTCTGGA
* *
93409345 TGTTATAATCAGCAAGAGTTCGGCCATCTTCAAG
195 TGTTATAATCCGCAAGAGTCCGGCCATCTTCAAG
* * *
93409379 CTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCCGGTGGGATCCCTTCCTTATCCTGAATCTTGG
1 CTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGGATCTTGG
* * * * * * **
93409444 CCTTAACATTATCAATCGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTGAGGGTT
66 CCTTCACATTATCAATGGTGTCAGAACTCTCCACCTCCAAGGTGATAGTTTTTCCAGTCAAAGTT
* * * * ** *
93409509 TTTACAAAAATCTGCATCCCACCCCTAAGACGAAGGA-CAAGGTGGAGGGTAGACTCTTTCTGGA
131 TTCACAAAAATCTGCATCCCACCACGAAGTCGAAACACCAA-ATGGAGGGTAGACTCTTTCTGGA
* *
93409573 TGTTGTAATCCGCAAGAGTTCGGCCATCTTCAAG
195 TGTTATAATCCGCAAGAGTCCGGCCATCTTCAAG
* * * *
93409607 CTG-TTTACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTT
1 CTGCTTT-CCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGGATCTT
* * * * * * * * *
93409670 GGCCTTGACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGGTCTTGCCAGT-AAGA
64 GGCCTTCACATTATCAATGGTGTCAGAACTCTCCACCTCCAAGGTGATAGTTTTTCCAGTCAA-A
* * * * ** * * * ** *
93409734 GTTTTCACGAATATCTGCATGCCACCCCTTAGACGAAGCACTAGGTGGAGGGTGGACTCCTTT-T
128 GTTTTCACAAAAATCTGCATCCCACCACGAAGTCGAAACACCAAATGGAGGGTAGACT-CTTTCT
* * * * * * *
93409798 GGATATTGTAGTCGGCAAGAGTTCGGCCATCCTCGAG
192 GGATGTTATAATCCGCAAGAGTCCGGCCATCTTCAAG
* * * * * * * * * * * *
93409835 TTGTTTTCCGGCAAAGAT-AAGCCTTTGTTGGTCAGGAGGGATCCCTTCTTTGTCTTGGATTTTA
1 CTGCTTTCCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGGATCTTG
* * * * * * * * * *
93409899 GCCTTGACATTATCGATAGTATCAGAACTTTCTACCT-CAAGGGTGATGGTCTTACCAGT-AAGG
65 GCCTTCACATTATCAATGGTGTCAGAACTCTCCACCTCCAA-GGTGATAGTTTTTCCAGTCAA-A
* *
93409962 GTCTTCACAAAGATCTGCATC
128 GTTTTCACAAAAATCTGCATC
93409983 TGCTATCAAC
Statistics
Matches: 885, Mismatches: 161, Indels: 28
0.82 0.15 0.03
Matches are distributed among these distances:
227 21 0.02
228 850 0.96
229 14 0.02
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (228 bp):
CTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCCTGGATCTTGG
CCTTCACATTATCAATGGTGTCAGAACTCTCCACCTCCAAGGTGATAGTTTTTCCAGTCAAAGTT
TTCACAAAAATCTGCATCCCACCACGAAGTCGAAACACCAAATGGAGGGTAGACTCTTTCTGGAT
GTTATAATCCGCAAGAGTCCGGCCATCTTCAAG
Found at i:93409785 original size:456 final size:456
Alignment explanation
Indices: 93408615--93409936 Score: 1416
Period size: 456 Copynumber: 2.9 Consensus size: 456
93408605 CAATTAGAAA
* * * * * * * * * *
93408615 CCACCACGGAGGCGAAGGACAAGATGCAGTGTGGACTCCTTCTGGATATTGTAGTCAGCTAGAGT
1 CCACCACGAAGACGAAGGACAAGGTGAAGGGTAGACTCTTTCTGGATGTTGTAATCAGCAAGAGT
* * * * *
93408680 TCGACCATCCTCCAA-CTGCTTCCCAGCAAATATCAACCTCTGCTGGTCTGGTGGAATCCCCTCC
66 TCGACCAT-CTTCAAGCTGTTTACCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCC
* * * *
93408744 TTGTCCTGAATCTTGGCTTTCACATTGTCAATGGTGTCCGAGCTCTCGACCTCCAGGGTGATGGT
130 TTGTCCTGGATCTTGGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATGGT
* * * * * *
93408809 TTTACCGGTCAAG-GTCTTCACGAATATCTGCATCCCTCCTCGAAGTCGCAAAACCAAATGCAGG
195 CTTACCGGT-AAGAGTCTTCACGAATATCTGCATGCCACCACGAAGTCGCAACACCAAATGGAGG
* * * **
93408873 GTCGATTCCTTTTGGATGTTATAATCCGCAAGGGTCCTCCCATCCTCGAGCTGCTTTCCAGCAAA
259 GTCGATTCCTTTTGGATGTTATAATCAGCAAGAGTTCGGCCATCCTCGAGCTGCTTTCCAGCAAA
*
93408938 AATCAACCTCTGCTGGTCAGGTGGGATACCC-TCCTTATCTTGGATCTTGGCCTTCACATTATCA
324 AATCAACCTCTGCTGGTCAGGTGGGAT-CCCTTCCTTATCTTGGATCTTGGCCTTAACATTATCA
* * * * * *
93409002 ATTGTGTCTGAGCTCTCCACCTCCAATGTGATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTG
388 ATAGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTG
*
93409067 CATT
453 CATC
* * * * * *
93409071 CCACCACGCAGTCGGAGCACCAA-GTGAAGGGTAGACTCTTTCTGGATGTTGTAATCTGCAAGTG
1 CCACCACGAAGACGAAGGA-CAAGGTGAAGGGTAGACTCTTTCTGGATGTTGTAATCAGCAAGAG
* * * * *
93409135 TCCTACCATCTTCGAGCTGTTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGAATCCCTTCC
65 TTCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCC
* * * ** * *
93409200 TTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACTTCCAAAGTAATAGT
130 TTGTCCTGGATCTTGGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATGGT
* * * * * * *
93409265 CTTTCCGGTGAGAGTCTTCACAAAAATTTGCATGCCACCACGGAGTCGTAACACCAAATGGAGGG
195 CTTACCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGTCGCAACACCAAATGGAGGG
* * * *
93409330 TCGATTCCTTCTGAATGTTATAATCAGCAAGAGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAA
260 TCGATTCCTTTTGGATGTTATAATCAGCAAGAGTTCGGCCATCCTCGAGCTGCTTTCCAGCAAAA
* * *
93409395 ATCAACCTCTGCTGGTCCGGTGGGATCCCTTCCTTATCCTGAATCTTGGCCTTAACATTATCAAT
325 ATCAACCTCTGCTGGTCAGGTGGGATCCCTTCCTTATCTTGGATCTTGGCCTTAACATTATCAAT
* * ** *
93409460 CGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTGAGGGTTTTTACAAAAATCTGCA
390 AGTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCA
93409525 TC
455 TC
* * * *
93409527 CCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTCTTTCTGGATGTTGTAATCCGCAAGAGT
1 CCACCACGAAGACGAAGGACAAGGTGAAGGGTAGACTCTTTCTGGATGTTGTAATCAGCAAGAGT
* * * * *
93409592 TCGGCCATCTTCAAGCTGTTTACCGGCAAAGAT-AAGCCTCTGTTGGTCTGGTGGGATCCCTTCC
66 TCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAA-CCTCTGCTGGTCTGGTGGAATCCCTTCC
* * * * * * * * *
93409656 TTGTCTTGGATCTTGGCCTTGACATTATCAATTGTATCAGAACTTTCCACCTCGAGGGTGATGGT
130 TTGTCCTGGATCTTGGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATGGT
* * * * ** * * **
93409721 CTTGCCAGTAAGAGTTTTCACGAATATCTGCATGCCACCCCTTAGACG-AAGCACTAGGTGGAGG
195 CTTACCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGTCGCAA-CACCAAATGGAGG
* * * * * * * * *
93409785 GTGGACTCCTTTTGGATATTGTAGTCGGCAAGAGTTCGGCCATCCTCGAGTTGTTTTCCGGCAAA
259 GTCGATTCCTTTTGGATGTTATAATCAGCAAGAGTTCGGCCATCCTCGAGCTGCTTTCCAGCAAA
* * * * * * * * * *
93409850 GAT-AAGCCTTTGTTGGTCAGGAGGGATCCCTTCTTTGTCTTGGATTTTAGCCTTGACATTATCG
324 AATCAA-CCTCTGCTGGTCAGGTGGGATCCCTTCCTTATCTTGGATCTTGGCCTTAACATTATCA
* *
93409914 ATAGTATCAGAACTTTCTACCTC
388 ATAGTATCAGAACTCTCCACCTC
93409937 AAGGGTGATG
Statistics
Matches: 710, Mismatches: 148, Indels: 16
0.81 0.17 0.02
Matches are distributed among these distances:
455 18 0.03
456 689 0.97
457 3 0.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (456 bp):
CCACCACGAAGACGAAGGACAAGGTGAAGGGTAGACTCTTTCTGGATGTTGTAATCAGCAAGAGT
TCGACCATCTTCAAGCTGTTTACCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATCCCTTCCT
TGTCCTGGATCTTGGCTTTCACATTGTCAATGGTGTCAGAACTCTCAACCTCCAGGGTGATGGTC
TTACCGGTAAGAGTCTTCACGAATATCTGCATGCCACCACGAAGTCGCAACACCAAATGGAGGGT
CGATTCCTTTTGGATGTTATAATCAGCAAGAGTTCGGCCATCCTCGAGCTGCTTTCCAGCAAAAA
TCAACCTCTGCTGGTCAGGTGGGATCCCTTCCTTATCTTGGATCTTGGCCTTAACATTATCAATA
GTATCAGAACTCTCCACCTCCAACGTAATAGTTTTTCCAGTCAAAGTTTTCACAAAAATCTGCAT
C
Found at i:93412537 original size:57 final size:57
Alignment explanation
Indices: 93412473--93412581 Score: 218
Period size: 57 Copynumber: 1.9 Consensus size: 57
93412463 AATAAAATAG
93412473 CATAAAGATAATAATAAAATATTCCACCAATCATATTTCAACAGCAAATATTAAAAA
1 CATAAAGATAATAATAAAATATTCCACCAATCATATTTCAACAGCAAATATTAAAAA
93412530 CATAAAGATAATAATAAAATATTCCACCAATCATATTTCAACAGCAAATATT
1 CATAAAGATAATAATAAAATATTCCACCAATCATATTTCAACAGCAAATATT
93412582 CATACTTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.28
Consensus pattern (57 bp):
CATAAAGATAATAATAAAATATTCCACCAATCATATTTCAACAGCAAATATTAAAAA
Found at i:93413412 original size:23 final size:21
Alignment explanation
Indices: 93413374--93413417 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
93413364 AATGTATTTT
* *
93413374 ATTTTTATTTTAATATGTATA
1 ATTTTTATCTTAATATCTATA
93413395 ATTTATTATCTTATATATCTATA
1 ATTT-TTATCTTA-ATATCTATA
93413418 CTCATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 7 0.37
23 8 0.42
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTTTATCTTAATATCTATA
Found at i:93415501 original size:228 final size:228
Alignment explanation
Indices: 93415138--93416434 Score: 1077
Period size: 228 Copynumber: 5.7 Consensus size: 228
93415128 TAAAGTTCGA
* * *
93415138 CCATCCTCCAA-CTGCTTTCCAGCAAAGATCAACCTCTGCTGGTCCGGAGGAATCCCCTCCTTGT
1 CCATCCT-CAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGT
* * * * * * * *
93415202 CCTGAATCTTAGATTTCACATTGTCAATCGTGTCCGAGCTCTCCACCTCCAGGGTGATGGTTTTC
65 CCTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTA
* * * *
93415267 CCAGTCAAGGTCTTCACGAATATCTGCATTCCTCCTCTAAGGCGCAAAACCAAATGCAGGGTGGA
130 CCAGTCAAGGTCTTCACGAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGA
* *
93415332 TTCCTTTTGGATGTTATAGTCCGCAAGCGTCCTC
195 CTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* *
93415366 CCATCCTCAAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGTCTGGAGGAATTCCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
* * * *
93415431 CTGAATCTTCGCTTTAACATTGTCAATGGTGTCCGAGCTCTCGACCTCCAGTGTTACGGTTTTAC
66 CTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTAC
* * *
93415496 CAGTCAGGGTCTTAACGAATATCTGCATCCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGAC
131 CAGTCAAGGTCTTCACGAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGAC
*
93415561 TCCTTTTGGATGTTATAATCCGCAAGAGTCCTC
196 TCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* * * *
93415594 CCATCCTCGAGTTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCAGGTGG-ATACCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
* * * * * * * * * *
93415658 TTGGATCTT-GGTCTTCACGTTATCAATTGTGTCTGAGCTCTCCACCTCCAATGTAATAGTTTTT
66 CTGAATCTTCGCT-TTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTA
* * * * * * * * *
93415722 CCAGTCAAAGTTTTCACAAAAATCTGCATTCCACCACGCAGTCGCAGCACCAAGTGCAGGGTTGA
130 CCAGTCAAGGTCTTCACGAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGA
93415787 CTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
195 CTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* * * *
93415821 CCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGATCTGGTGGAATACCCTCCTTGTC
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
* * * * ** * *
93415886 CTGAATCTTCGCCTTAACATTATCAATGGTATCAGAACTCTCCACCTCCAAAGTGATGGTTTTTC
66 CTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTAC
* * * * * * * * * * * * * *
93415951 CGGTGAGGGTTTTTACAAATATCTGCATCCCACCCCGAAGACGAAGGA-CAAGGTGGAGGGTAGA
131 CAGTCAAGGTCTTCACGAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAA-GTGCAGGGTTGA
* * * * * **
93416015 CT-CTTTCTGGATGTTGTAATCAGCGAGGGTTCGG
195 CTCCTTT-TGGATGTTATAATCCGCAAGCGTCCTC
* * * * * *
93416049 CCATCTTCAAGTTG-TTTACCTGCAAAGAT-AAGCCTCTGTTGGTCTGGAGGGAT-CCCTTCCTT
1 CCATCCTCAAGCTGCTTT-CCAGCAAAAATCAA-CCTCTGCTGGTCTGGAGGAATACCC-TCCTT
* * * * * * * * * * * * * *
93416111 GTCTTGGATCTTGGCCTTGACATTATCAATCGTATCAGAACTTTCCACCTCGAGGGTGATGGTCT
63 GTCCTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTT
* * * * * * * ** * * * * * *
93416176 TGCCCGT-AAGGGTTTTCACAAATATCTGCATGCCACCCCTTAGACGAAGGACTAGGTGGAGGGT
128 TACCAGTCAA-GGTCTTCACGAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGT
* * * * * * **
93416240 GGACTCCTTTTGGATGTTGTAGTCGGCAAGAGTTCGG
192 TGACTCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
* * * * * * * *
93416277 CCATCCTCGAGTTGTTTTCCGGCAAAAAT-AAGCCTCTGTTGGTCTGGAGGAATGCCTTCTTTGT
1 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAA-CCTCTGCTGGTCTGGAGGAATACCCTCCTTGT
* * * * * * * * * * * * *
93416341 CTTGGATTTTGGCCTTGACATTATCAATAGTATCGGAGCTTTCCACCTCAAGGGTGATGGTTTTA
65 CCTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTA
* * *
93416406 CCAGT-AAGGGTTTTCACAAAGATCTGCAT
130 CCAGTCAA-GGTCTTCACGAATATCTGCAT
93416435 CTGCTCCCAA
Statistics
Matches: 912, Mismatches: 143, Indels: 28
0.84 0.13 0.03
Matches are distributed among these distances:
226 2 0.00
227 211 0.23
228 688 0.75
229 11 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (228 bp):
CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGCTGGTCTGGAGGAATACCCTCCTTGTC
CTGAATCTTCGCTTTAACATTATCAATGGTGTCCGAGCTCTCCACCTCCAGTGTAATGGTTTTAC
CAGTCAAGGTCTTCACGAATATCTGCATTCCTCCTCGAAGGCGCAGAACCAAGTGCAGGGTTGAC
TCCTTTTGGATGTTATAATCCGCAAGCGTCCTC
Found at i:93424447 original size:13 final size:13
Alignment explanation
Indices: 93424429--93424453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93424419 AAACTTTGAG
93424429 TAATTTTGTATAT
1 TAATTTTGTATAT
93424442 TAATTTTGTATA
1 TAATTTTGTATA
93424454 GTTATATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TAATTTTGTATAT
Found at i:93435753 original size:27 final size:27
Alignment explanation
Indices: 93435713--93435767 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
93435703 CCACATCCAG
*
93435713 TAAGTTAGGGCACGACATCTCGGACTT
1 TAAGTTAGGACACGACATCTCGGACTT
93435740 TAAGTTAGGACACGACATCTCGGACTT
1 TAAGTTAGGACACGACATCTCGGACTT
93435767 T
1 T
93435768 TGAGAGTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (27 bp):
TAAGTTAGGACACGACATCTCGGACTT
Found at i:93440680 original size:17 final size:18
Alignment explanation
Indices: 93440652--93440685 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
93440642 TATTCTCCAT
93440652 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
93440670 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
93440686 CAATTCGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:93441036 original size:31 final size:32
Alignment explanation
Indices: 93440992--93441056 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 32
93440982 TGTTCTGTCT
93440992 TTGTCTTTTTTTAATTAGTTTAGTGACCATCA
1 TTGTCTTTTTTTAATTAGTTTAGTGACCATCA
93441024 TTGTC-TTTTTTAATTAGTTTAGTGACCATCA
1 TTGTCTTTTTTTAATTAGTTTAGTGACCATCA
93441055 TT
1 TT
93441057 CATTGTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 28 0.85
32 5 0.15
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (32 bp):
TTGTCTTTTTTTAATTAGTTTAGTGACCATCA
Found at i:93441448 original size:12 final size:12
Alignment explanation
Indices: 93441431--93441455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93441421 CTTGCAACGA
93441431 AGTCAACCTATT
1 AGTCAACCTATT
93441443 AGTCAACCTATT
1 AGTCAACCTATT
93441455 A
1 A
93441456 TATTCATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AGTCAACCTATT
Found at i:93446133 original size:13 final size:13
Alignment explanation
Indices: 93446104--93446143 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
93446094 CCTTGTATCA
*
93446104 AAAAATTAAAAACT
1 AAAAATTAAATA-T
93446118 AAAAATTAAATAT
1 AAAAATTAAATAT
93446131 AAAAATTAAATAT
1 AAAAATTAAATAT
93446144 GGAACTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATTAAATAT
Found at i:93448686 original size:2 final size:2
Alignment explanation
Indices: 93448679--93448711 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
93448669 CGTTAATGTG
93448679 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93448712 GTTTTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93449699 original size:21 final size:21
Alignment explanation
Indices: 93449633--93449706 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 21
93449623 GCTTTGTTGT
*
93449633 TTGTTTTATATTGTTCCATATTTA
1 TTGTTTTAT-TTGTT--ATATTAA
* * *
93449657 TTGTTGTTATATATTATTTATTCA
1 TTGTT-TTATTTGTTA--TATTAA
93449681 TTGTTTTATTTGTTATATTAA
1 TTGTTTTATTTGTTATATTAA
93449702 TTGTT
1 TTGTT
93449707 CTCCATCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 10 0.24
22 1 0.02
23 8 0.20
24 18 0.44
25 4 0.10
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (21 bp):
TTGTTTTATTTGTTATATTAA
Found at i:93453487 original size:40 final size:39
Alignment explanation
Indices: 93453440--93453711 Score: 152
Period size: 40 Copynumber: 7.0 Consensus size: 39
93453430 TAAAAAATGC
* * *
93453440 CGCTATAGATAGAGCATTAGCAGCGCTTTTTGAAAAACG
1 CGCTATAGGTCGAGCATTAGCGGCGCTTTTTGAAAAACG
* **
93453479 CTGCTATAGGTCGAGCATCAGCGGCGCTTTTAAAAAAAC-
1 C-GCTATAGGTCGAGCATTAGCGGCGCTTTTTGAAAAACG
*
93453518 CGCTATAGGTCGA-CTATTAGCGGCGCTTTCTGAAAAACG
1 CGCTATAGGTCGAGC-ATTAGCGGCGCTTTTTGAAAAACG
* * * ** ** *** * **
93453557 CCACAAAAAAATTAAGCGCAACGCGTCG-TTTTATG-TTAA--
1 -CGC-TATAGGTCGAGCATTA-GCGGCGCTTTT-TGAAAAACG
*
93453596 -GCTTTA-GT-G-GCATTAGCGGCGCTTTTTGAAAAACG
1 CGCTATAGGTCGAGCATTAGCGGCGCTTTTTGAAAAACG
* * *
93453631 CCGCTATAGGTAGAACATTAGCGTCGCTTTTT-AAAAAGCG
1 -CGCTATAGGTCGAGCATTAGCGGCGCTTTTTGAAAAA-CG
* *
93453671 CCACTATAGGTCGAGCATTAGCGGCGCTTTCTGAAAAACG
1 -CGCTATAGGTCGAGCATTAGCGGCGCTTTTTGAAAAACG
93453711 C
1 C
93453712 CACAAAAAAA
Statistics
Matches: 170, Mismatches: 44, Indels: 38
0.67 0.17 0.15
Matches are distributed among these distances:
32 7 0.04
33 9 0.05
35 1 0.01
36 1 0.01
37 7 0.04
38 33 0.19
39 9 0.05
40 80 0.47
41 15 0.09
42 8 0.05
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (39 bp):
CGCTATAGGTCGAGCATTAGCGGCGCTTTTTGAAAAACG
Found at i:93453815 original size:154 final size:153
Alignment explanation
Indices: 93453453--93453822 Score: 498
Period size: 154 Copynumber: 2.4 Consensus size: 153
93453443 TATAGATAGA
* * *
93453453 GCATTAGCAGCGCTTTTTGAAAAACGCTGCTATAGGTCGAGCATCAGCG-GCGC-TTTTAAAAAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGGTCGAGCAT-TGCGTGCGCTTTTTAAAAAA
* *
93453516 ACCGCTATAGGTCGACTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGCAACGC
65 ACCACTATAGGTCGACTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAACGC
* *
93453581 GTCGTTTTATGTTAAGCTTTAGTG
130 ATCATTTTATGTTAAGCTTTAGTG
* *
93453605 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGGTAGAACATTAGCGT-CGCTTTTTAAAAAG
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGGTCGAGCATT-GCGTGCGCTTTTTAAAAA-
** *
93453669 CGCCACTATAGGTCGAGC-ATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAAT
64 AACCACTATAGGTCGA-CTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAAC
*
93453733 GCCATCATTTTATGTTAAGCTTTTGTG
128 G-CATCATTTTATGTTAAGCTTTAGTG
* * * * *
93453760 GCATTAGCGGCGCTGTTTGATAAACGCCGCTATAGATCGAGCATTG-GTGCACTTTTTGAAAAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGGTCGAGCATTGCGTGCGCTTTTTAAAAAA
93453823 CCCCGCAAAA
Statistics
Matches: 190, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
152 46 0.24
153 11 0.06
154 70 0.37
155 63 0.33
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (153 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGGTCGAGCATTGCGTGCGCTTTTTAAAAAAA
CCACTATAGGTCGACTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAACGCA
TCATTTTATGTTAAGCTTTAGTG
Found at i:93453822 original size:155 final size:154
Alignment explanation
Indices: 93453453--93453822 Score: 462
Period size: 155 Copynumber: 2.4 Consensus size: 154
93453443 TATAGATAGA
* * * * * * * * * *
93453453 GCATTAGCAGCGCTTTTTGAAAAACGCTGCTATAGGTCGAGCATCAGCGGCGC-TTTTAAAAA-A
1 GCATTAGCGGCGCTGTTTGAAAAACGCCGCTATAGATAGAACATTAGCGTCACTTTTTAAAAAGC
* * *
93453516 ACCGCTATAGGTCGACTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGCAACGC
66 GCCACTATAGGTCGACTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAACGC
* *
93453581 GTCGTTTTATGTTAAGCTTTAGTG
131 ATCATTTTATGTTAAGCTTTAGTG
* * *
93453605 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGGTAGAACATTAGCGTCGCTTTTTAAAAAGC
1 GCATTAGCGGCGCTGTTTGAAAAACGCCGCTATAGATAGAACATTAGCGTCACTTTTTAAAAAGC
*
93453670 GCCACTATAGGTCGAGC-ATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAATG
66 GCCACTATAGGTCGA-CTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAACG
*
93453734 CCATCATTTTATGTTAAGCTTTTGTG
130 -CATCATTTTATGTTAAGCTTTAGTG
* * *
93453760 GCATTAGCGGCGCTGTTTGATAAACGCCGCTATAGATCGAGCATT-G-GTGCACTTTTTGAAAAA
1 GCATTAGCGGCGCTGTTTGAAAAACGCCGCTATAGATAGAACATTAGCGT-CACTTTTT-AAAAA
93453823 CCCCGCAAAA
Statistics
Matches: 192, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
152 47 0.24
153 11 0.06
154 66 0.34
155 68 0.35
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (154 bp):
GCATTAGCGGCGCTGTTTGAAAAACGCCGCTATAGATAGAACATTAGCGTCACTTTTTAAAAAGC
GCCACTATAGGTCGACTATTAGCGGCGCTTTCTGAAAAACGCCACAAAAAAATTAAGCGAAACGC
ATCATTTTATGTTAAGCTTTAGTG
Found at i:93454757 original size:8 final size:8
Alignment explanation
Indices: 93454744--93454788 Score: 90
Period size: 8 Copynumber: 5.6 Consensus size: 8
93454734 AAATCTTCAA
93454744 AAAATTTT
1 AAAATTTT
93454752 AAAATTTT
1 AAAATTTT
93454760 AAAATTTT
1 AAAATTTT
93454768 AAAATTTT
1 AAAATTTT
93454776 AAAATTTT
1 AAAATTTT
93454784 AAAAT
1 AAAAT
93454789 AAAAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
AAAATTTT
Found at i:93454796 original size:7 final size:7
Alignment explanation
Indices: 93454784--93454857 Score: 139
Period size: 7 Copynumber: 10.4 Consensus size: 7
93454774 TTAAAATTTT
93454784 AAAATAA
1 AAAATAA
93454791 AAAATAA
1 AAAATAA
93454798 AAAATAA
1 AAAATAA
93454805 AAAATAAA
1 AAAAT-AA
93454813 AAAATAA
1 AAAATAA
93454820 AAAATAA
1 AAAATAA
93454827 AAAATAA
1 AAAATAA
93454834 AAAATAA
1 AAAATAA
93454841 AAAATAA
1 AAAATAA
93454848 AAAATAA
1 AAAATAA
93454855 AAA
1 AAA
93454858 CTTAAAAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
7 59 0.89
8 7 0.11
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:93454808 original size:29 final size:29
Alignment explanation
Indices: 93454784--93454867 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
93454774 TTAAAATTTT
*
93454784 AAAATAAAAAATAAAAAATAAAAAATAAA
1 AAAATAAAAAATAAAAAATAAAAAATTAA
93454813 AAAATAAAAAATAAAAAATAAAAAA-TAA
1 AAAATAAAAAATAAAAAATAAAAAATTAA
* *
93454841 AAAATAAAAAATAAAAACTTAAAAATT
1 AAAATAAAAAATAAAAAATAAAAAATT
93454868 TAATATTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 25 0.49
29 26 0.51
ACGTcount: A:0.82, C:0.01, G:0.00, T:0.17
Consensus pattern (29 bp):
AAAATAAAAAATAAAAAATAAAAAATTAA
Found at i:93454865 original size:1 final size:1
Alignment explanation
Indices: 93454784--93454857 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
93454774 TTAAAATTTT
* * * * * * * * *
93454784 AAAATAAAAAATAAAAAATAAAAAATAAAAAAATAAAAAATAAAAAATAAAAAATAAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
93454849 AAATAAAAA
1 AAAAAAAAA
93454858 CTTAAAAATT
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (1 bp):
A
Found at i:93455003 original size:18 final size:18
Alignment explanation
Indices: 93454980--93455022 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
93454970 AAAAATAGAA
* *
93454980 AAAAATATATTAAAATTG
1 AAAAATAAAATAAAATTG
93454998 AAAAATAAAATAAAATTG
1 AAAAATAAAATAAAATTG
*
93455016 AACAATA
1 AAAAATA
93455023 GTAGCAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAATAAAATAAAATTG
Found at i:93455796 original size:26 final size:26
Alignment explanation
Indices: 93455759--93455894 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
93455749 TGATACAAAT
* *
93455759 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93455785 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
93455811 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93455837 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93455863 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93455889 TGATAA
1 TGATAA
93455895 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:93458965 original size:18 final size:18
Alignment explanation
Indices: 93458939--93458977 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
93458929 GGTCAAGTTG
* *
93458939 AATTTGAATAATTTAAAT
1 AATTCGAATAACTTAAAT
93458957 AATTCGAATAACTTAAAT
1 AATTCGAATAACTTAAAT
93458975 AAT
1 AAT
93458978 ACATTGGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTCGAATAACTTAAAT
Found at i:93483566 original size:7 final size:7
Alignment explanation
Indices: 93483554--93483598 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
93483544 CCTTATATCA
93483554 AAAAATT
1 AAAAATT
93483561 AAAAATT
1 AAAAATT
93483568 AAAAATAAT
1 AAAAAT--T
93483577 AAAAATT
1 AAAAATT
*
93483584 AAATA-T
1 AAAAATT
93483590 AAAAATT
1 AAAAATT
93483597 AA
1 AA
93483599 GTATGGAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 5 0.15
7 21 0.64
9 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:93483593 original size:13 final size:13
Alignment explanation
Indices: 93483556--93483598 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
93483546 TTATATCAAA
93483556 AAAT-TAAAAATT
1 AAATATAAAAATT
93483568 AAAAATAATAAAAATT
1 --AAAT-ATAAAAATT
93483584 AAATATAAAAATT
1 AAATATAAAAATT
93483597 AA
1 AA
93483599 GTATGGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 11 0.41
14 8 0.30
16 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATATAAAAATT
Found at i:93485239 original size:16 final size:14
Alignment explanation
Indices: 93485214--93485248 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
93485204 AACCTCAAGT
93485214 AAAAAAATAAATATA
1 AAAAAAATAAATA-A
93485229 AAAATAAATAAATAA
1 AAAA-AAATAAATAA
93485244 AAAAA
1 AAAAA
93485249 GAGAAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 9 0.47
16 9 0.47
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAAAATAAATAA
Found at i:93487005 original size:3 final size:3
Alignment explanation
Indices: 93486997--93487040 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
93486987 TTATTGTAGA
93486997 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
93487041 CCAAATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:93497808 original size:72 final size:72
Alignment explanation
Indices: 93497698--93497917 Score: 291
Period size: 72 Copynumber: 3.0 Consensus size: 72
93497688 ATGTTTTTAA
93497698 TTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 TTTAT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
**
93497763 TTTTTATT
65 TTTCAATT
*
93497771 TTTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGTTGAGGTAAT
1 TTTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
93497836 TTCAATT
66 TTCAATT
** * * * *
93497843 TCTGT-TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGTTACATGTCGAGG
1 T-T-TATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGG
*
93497906 TATTTTCAATT
62 TAATTTCAATT
93497917 T
1 T
93497918 CTGTTTTTTC
Statistics
Matches: 134, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
72 98 0.73
73 15 0.11
74 21 0.16
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (72 bp):
TTTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
TTCAATT
Found at i:93498060 original size:89 final size:87
Alignment explanation
Indices: 93497835--93498249 Score: 437
Period size: 90 Copynumber: 4.8 Consensus size: 87
93497825 GTTGAGGTAA
* * * ** *
93497835 TTTCAATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGTTACAT
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
*
93497899 G-TCGAGGTATTTTCAATTTCTGTTT
64 GCT-GAGGTATTTTCAATTTCTG-CT
93497924 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
93497989 TGAGGTATTTTCAATTTCTGCT
66 TGAGGTATTTTCAATTTCTGCT
* * *
93498011 TTTCAATTTAT-ATCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTCAATTTATGCT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
* * *
93498075 CGCTGAGGTGCTTTTCAAGTTCTTCT
63 CGCTGAGGT-ATTTTCAATTTCTGCT
* * * *
93498101 TTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACATGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
*
93498154 TGAGGTATTTTCAATTTCTGTTTTT
66 TGAGGTATTTTCAATTTCTG---CT
** *
93498179 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
93498244 TGAGGT
66 TGAGGT
93498250 TTTGTTAATT
Statistics
Matches: 281, Mismatches: 24, Indels: 41
0.81 0.07 0.12
Matches are distributed among these distances:
75 11 0.04
76 49 0.17
78 5 0.02
79 1 0.00
82 1 0.00
86 2 0.01
87 16 0.06
88 22 0.08
89 71 0.25
90 103 0.37
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
TGAGGTATTTTCAATTTCTGCT
Found at i:93498133 original size:76 final size:76
Alignment explanation
Indices: 93498007--93498172 Score: 246
Period size: 76 Copynumber: 2.2 Consensus size: 76
93497997 TTTCAATTTC
* *
93498007 TGCTTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG
1 TGCTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGG
*
93498072 GCACGCTGAGG
66 ACACGCTGAGG
* *
93498083 TGCTTTTCAAGTTCT-TCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
1 TGCTTTTCAATTTCTATC-TTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAG
*
93498147 GACATGCTGAGG
65 GACACGCTGAGG
*
93498159 T-ATTTTCAATTTCT
1 TGCTTTTCAATTTCT
93498173 GTTTTTTTTC
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 13 0.16
76 68 0.84
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (76 bp):
TGCTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGG
ACACGCTGAGG
Found at i:93498194 original size:17 final size:17
Alignment explanation
Indices: 93498161--93498195 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
93498151 TGCTGAGGTA
* *
93498161 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATATTTT
93498178 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
93498195 T
1 T
93498196 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:93498232 original size:255 final size:250
Alignment explanation
Indices: 93497780--93498249 Score: 712
Period size: 255 Copynumber: 1.9 Consensus size: 250
93497770 TTTTATTTTC
* * * *
93497780 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAGTTC
*
93497845 TGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGTTACATGTCGAGGTATT
66 TGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGG-TACATGTCGAGGTATT
*
93497910 TTCAATTTCTGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
130 TTCAATTTCTGTTTTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
93497975 GCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTATATCTTTCAA
195 GCCTCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTATATCTTTCAA
** * **
93498031 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTGCTTTTCAAGTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT-AATTTCAAGTT
*
93498096 CT-TCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-ACATG-CTGAG
65 CTGT-TTTTC---AAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGTACATGTC-GAG
*
93498158 GTATTTTCAATTTCTGTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGT
125 GTATTTTCAATTTCTG--TTTTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGT
93498223 GAGTTGAGCCTCGGGACACGCTGAGGT
188 GAGTTGAGCCTCGGGACACGCTGAGGT
93498250 TTTGTTAATT
Statistics
Matches: 197, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
251 48 0.24
252 16 0.08
253 24 0.12
255 109 0.55
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (250 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAGTTC
TGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGTACATGTCGAGGTATTT
TCAATTTCTGTTTTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTATATCTTTCAA
Found at i:93498330 original size:70 final size:72
Alignment explanation
Indices: 93498177--93498330 Score: 197
Period size: 70 Copynumber: 2.2 Consensus size: 72
93498167 ATTTCTGTTT
* ** *
93498177 TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTTTCAATTTATATGTTTCAAAAATCAACTCATATTGCGAGAGAAGAGTTGAGCCTCAGGACAC
93498242 GCTGAGG
66 GCTGAGG
* * *
93498249 TTTTGTTAATTT-T-TGTTTCAACACTCAACTCATATTGCGAGA-AAGAGTTGAGCCTCAGGACA
1 TTTT-TCAATTTATATGTTTCAAAAATCAACTCATATTGCGAGAGAAGAGTTGAGCCTCAGGACA
*
93498311 TGCTGAGG
65 CGCTGAGG
93498319 TATTTTCAATTT
1 T-TTTTCAATTT
93498331 CTATTTTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
70 31 0.44
71 29 0.41
72 5 0.07
73 6 0.08
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (72 bp):
TTTTTCAATTTATATGTTTCAAAAATCAACTCATATTGCGAGAGAAGAGTTGAGCCTCAGGACAC
GCTGAGG
Found at i:93498344 original size:18 final size:18
Alignment explanation
Indices: 93498321--93498356 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93498311 TGCTGAGGTA
*
93498321 TTTTCAATTTCTATTTTT
1 TTTTCAATTTATATTTTT
93498339 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
93498357 CAAAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCAATTTATATTTTT
Found at i:93498412 original size:163 final size:163
Alignment explanation
Indices: 93497938--93498665 Score: 1089
Period size: 163 Copynumber: 4.5 Consensus size: 163
93497928 AATTTATGCT
* * *
93497938 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
* * *
93498003 TTTCTG---CTTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
66 TTTCTGTTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
93498065 CCTCAGGG-CACGCTGAGGTGCTT-TTCAAGTTCTTCT-
131 CCTC-GGGACACGCTGAGGT-ATTGTT-AA-TT-TT-TG
*
93498101 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACATGCTGAGGTATTTTC
1 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
93498166 AATTTCTGTTTTTTTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTG
64 AATTTCTGTTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
93498229 AGCCTCGGGACACGCTGAGGTTTTGTTAATTTTTG
129 AGCCTCGGGACACGCTGAGGTATTGTTAATTTTTG
* * **
93498264 TTTCAACACTCAACTCATATTGCGAGA-AAGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
*
93498328 TTTCTATTTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TTTCT-GTTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
93498393 GCCTCGGGACACACTGAGGTATTGTTAATTTTTG
130 GCCTCGGGACACGCTGAGGTATTGTTAATTTTTG
* * ** *
93498427 TTTTAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
* *
93498492 TTTCTGTTTTTTTTCAATTTATATTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAG
66 TTTCTGTTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
93498557 CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
131 CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
* *
93498590 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
93498654 TTTCTGTTTTTT
66 TTTCTGTTTTTT
93498666 CAAAAAAAAT
Statistics
Matches: 522, Mismatches: 31, Indels: 25
0.90 0.05 0.04
Matches are distributed among these distances:
160 39 0.07
161 44 0.08
162 67 0.13
163 192 0.37
164 42 0.08
165 70 0.13
166 50 0.10
168 18 0.03
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (163 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
TTTCTGTTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
Found at i:93498446 original size:71 final size:71
Alignment explanation
Indices: 93498360--93498501 Score: 196
Period size: 71 Copynumber: 2.0 Consensus size: 71
93498350 TATTTTTCAA
** * *
93498360 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTGTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACACACTGAGGTATT-TTCAATTT
*
93498424 TTGTTTT
65 CTGTTTT
* **
93498431 AAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
93498496 TGTTTT
66 TGTTTT
93498502 TTTTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 2 0.03
71 60 0.97
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
TGTTTT
Found at i:93498518 original size:17 final size:17
Alignment explanation
Indices: 93498485--93498520 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93498475 TGCTGAGGTA
* *
93498485 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATATTTT
93498502 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
93498519 TT
1 TT
93498521 AAAAAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:93498601 original size:70 final size:74
Alignment explanation
Indices: 93498523--93498715 Score: 261
Period size: 70 Copynumber: 2.6 Consensus size: 74
93498513 TATTTTTTAA
* * *
93498523 AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGGACACGCTGAGGT-ATTGTTAA-TT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTT
93498586 -T-TTGTTTC
65 CTGTTGTTTC
93498594 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
93498658 TGTTTTTTC
66 TGTTGTTTC
* *
93498667 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACG
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
93498716 TTACATGTTA
Statistics
Matches: 108, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
70 53 0.49
71 5 0.05
72 1 0.01
73 6 0.06
77 43 0.40
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTGTTTC
Found at i:93500179 original size:75 final size:75
Alignment explanation
Indices: 93500082--93501131 Score: 720
Period size: 73 Copynumber: 13.3 Consensus size: 75
93500072 TACTCTGATG
93500082 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
93500146 CGCTGAGGTA
66 TGCTGAGGTA
* * * *
93500156 TTTTCAATTTCTATTTTTC--AAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
93500219 TGCTGAGGTA
66 TGCTGAGGTA
* * * * * * **
93500229 ATTCCAATTTCTGTTTGTC-AAAAAATCAACTCGTACTGCGAGAGGCGAGTTGAGCCTTGGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
93500293 CGCTGAGGTA
66 TGCTGAGGTA
* * * * * *
93500303 ATTTCAATTTCTGTTTATC-AAAAAATCAACTCGTATTGCAAGAGGCGAGTTGGGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
93500367 CATGCTGAGGTA
64 CATGCTGAGGTA
* *
93500379 TTTTCAATTTATG--TTTC--AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
93500440 CACGCTGAGGTA
64 CATGCTGAGGTA
* * * * *
93500452 TTTTCAATTTCTTTTTTTTAAAAAAAAGTCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGT
1 TTTTCAATTTC-TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
*
93500517 TACACG-TCGAGGTA
63 -ACATGCT-GAGGTA
* *** *
93500531 TTTTCAATTTTTGTTTTTCAATTTCTGCTTTTCAAAAA--AA-TCAACTCATATTGTGAGAGGTG
1 TTTTCAATTTCTGTTTTTCAA------------AAAAATCAACTC-A-T-ATTGCGAGAG--GTG
*
93500593 AGTTGAGCCTCAGGACACGCTGAGGTA
49 AGTTGAGCCTCAGGACATGCTGAGGTA
* *
93500620 TTTTCAATTTCTGTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATACTGTGAGAGGTGAGT
1 TTTTCAATTTCTG--TTTTTC-----A-A------AAAAATCAACTCATATTGCGAGAGGTGAGT
* *
93500685 TGAACCTCGGGTCACATG-TCGAGGTA
52 TGAGCCTCAGG--ACATGCT-GAGGTA
* * *
93500711 TTTGCAAAATTTGCTTTTCAAATTAAGTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGT
1 TTTTC--AATTT-C-TGT----TT---TTC-A--AAAAAATCAACTCATATTGCGAGAGGTGAGT
* *
93500776 TAAGCCTC-GGCTCCAATGCTGAGGTA
52 TGAGCCTCAGG--AC-ATGCTGAGGTA
* *
93500802 --TTCAATTTCTGTTTTTCAATTCATGTTTTCAAAAATCAACGCATATTGTGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTTTTTC-A---A-------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
93500865 GCCTCAGGTCATGCTGAGGTA
55 GCCTCAGGACATGCTGAGGTA
* ** *
93500886 TTTTCAATTTATGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
93500951 TGCTGAGGTA
66 TGCTGAGGTA
* * * * *
93500961 ATTTCAATTTCTGTTTGTC--AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCTTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
93501024 CGCTGAGGTAA
66 TGCTGAGGT-A
* *
93501035 TTTT-AATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTC-GGTTC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
93501098 ACATGCTGAGGTA
63 ACATGCTGAGGTA
* **
93501111 TTTTTAGCTTCTGTTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
93501132 TTTCTGTTCT
Statistics
Matches: 798, Mismatches: 103, Indels: 147
0.76 0.10 0.14
Matches are distributed among these distances:
73 185 0.23
74 115 0.14
75 111 0.14
76 31 0.04
77 24 0.03
78 18 0.02
79 56 0.07
81 2 0.00
82 1 0.00
84 11 0.01
85 4 0.01
86 53 0.07
87 9 0.01
88 1 0.00
89 47 0.06
90 10 0.01
91 96 0.12
92 2 0.00
93 9 0.01
94 3 0.00
95 1 0.00
96 2 0.00
97 4 0.01
100 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
TGCTGAGGTA
Found at i:93500405 original size:147 final size:148
Alignment explanation
Indices: 93500096--93501114 Score: 614
Period size: 148 Copynumber: 6.4 Consensus size: 148
93500086 AATTTCTGTT
93500096 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTATTTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGTATTTT
* * * *
93500160 CAATTTCTATTTTTC-AAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTC-GG-GACATGC
64 CAATTTCTATTTTTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACATGC
* * *
93500222 TGAGGTAATTCCAATTTCTG
129 TGAGGTATTTTCAATTTATG
* * * * *
93500242 TTTGTCAAAAAATCAACTCGTACTGCGAGAGGCGAGTTGAGCCTTGGGACACGCTGAGGTAATTT
1 -TT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGACACGCTGAGGTATTTT
* * ** *
93500307 CAATTTCTGTTTATCAAAAAATCAACTCGTATTGCAAGAGGCGAGTTGGGCCTCAGGTCACATGC
64 CAATTTCTATTTTTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACATGC
93500372 TGAGGTATTTTCAATTTATG
129 TGAGGTATTTTCAATTTATG
* *
93500392 TTTC-AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGG-GACACGCTGAGGTATTTT
* * *
93500456 CAATTTCTTTTTTTTAAAAAAAAGTCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACA
64 CAATTTC-TATTTTT-CAAAAAA-TCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACA
*
93500521 CG-TCGAGGTATTTTCAATTTTTGTTTTTCAATTTCTG
126 TGCT-GAGGTATTTTCAA--------TTT--A----TG
*
93500558 CTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTATT
1 --TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGTATT
* * * *
93500622 TTCAATTTCTGTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATACTGTGAGAGGTGAGTTG
62 TTCAATTTC--TATTTTTC-------A------AAAAATCAACTCGTATTGTGAGAGGCGAGTTG
* * *
93500687 AACCTCGGGTCACATG-TCGAGGTATTTGCAAAATTTGCTTTTCAAAT-
112 AGCCTCAGGTCACATGCT-GAGGTATTTTC--AA------TTT---ATG
* * * ** *
93500734 TAAGTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGCTCCAATGCTGAG
1 T---TTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-GAC-ACGCTGAG
** * * *
93500799 GTATTCAATTTCTGTTTTTCAATTCATGTTTTC-AAAAATCAACGCATATTGTGAGAGGTGAGTT
57 GTA-T---TTTC--AATTTC---T-AT-TTTTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTT
93500863 GAGCCTCAGGT--CATGCTGAGGTATTTTCAATTTATG
111 GAGCCTCAGGTCACATGCTGAGGTATTTTCAATTTATG
* * * *
93500899 TTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCA-GGACATGCTGAGGTAAT
1 -TTT--CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGTATT
* * * * ** * * *
93500963 TTCAATTTCTGTTTGTC-AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCTTCAGG--ACAC
62 TTCAATTTCTATTTTTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACAT
*
93501025 GCTGAGGTAATTTT-AATTTCTG
127 GCTGAGGT-ATTTTCAATTTATG
* * * *
93501047 TTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCGGTTCACATGCTGAGGTAT
1 -T-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--GACACGCTGAGGTAT
93501112 TTT
61 TTT
93501115 TAGCTTCTGT
Statistics
Matches: 708, Mismatches: 87, Indels: 151
0.75 0.09 0.16
Matches are distributed among these distances:
147 101 0.14
148 134 0.19
149 35 0.05
150 45 0.06
151 7 0.01
152 51 0.07
153 4 0.01
155 4 0.01
159 11 0.02
160 4 0.01
161 36 0.05
162 1 0.00
163 2 0.00
164 2 0.00
166 3 0.00
167 3 0.00
168 28 0.04
169 8 0.01
170 37 0.05
173 2 0.00
174 1 0.00
175 15 0.02
176 1 0.00
177 42 0.06
180 95 0.13
181 8 0.01
182 12 0.02
183 1 0.00
186 4 0.01
188 4 0.01
189 1 0.00
190 1 0.00
191 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (148 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGACACGCTGAGGTATTTTCA
ATTTCTATTTTTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACATGCTG
AGGTATTTTCAATTTATG
Found at i:93500550 original size:14 final size:14
Alignment explanation
Indices: 93500531--93500565 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
93500521 CGTCGAGGTA
* *
93500531 TTTTCAATTTTTGT
1 TTTTCAATTTCTGC
93500545 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
93500559 TTTTCAA
1 TTTTCAA
93500566 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:93500584 original size:91 final size:90
Alignment explanation
Indices: 93500452--93500902 Score: 428
Period size: 91 Copynumber: 5.0 Consensus size: 90
93500442 CGCTGAGGTA
* * * *
93500452 TTTTCAATTTCTTTTTTTTAAAAAAAAGTCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGT
1 TTTTCAATTTC--TGTTTTCAAAAAAA-TCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-
93500517 TACACGTC-GAGGTATTTTCAATTTTTGT
62 TACACGTCTGAGGTATTTTCAATTTTTGT
93500545 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTAC
*
93500609 ACG-CTGAGGTATTTTCAATTTCTGTTT
65 ACGTCTGAGGTATTTTCAATTT-T-TGT
* * * * *
93500636 TTTTCAATTTATATTTTTC--AAAAATCAACTCATACTGTGAGAGGTGAGTTGAACCTCGGGTCA
1 TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGT-A
* * ** *
93500699 CATGTC-GAGGTATTTGCAAAATTTGC
64 CACGTCTGAGGTATTTTCAATTTTTGT
* ** *** * *
93500725 TTTTCAAATTAAGTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTC-GGCTC
1 TTTTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-TA
* *
93500789 CA-ATGCTGAGGTA--TTCAATTTCTGT
64 CACGT-CTGAGGTATTTTCAATTTTTGT
*
93500814 TTTTCAA-TTCATGTTTTC--AAAAATCAACGCATATTGTGAGAGGTGAGTTGAGCCTCAGGT-C
1 TTTTCAATTTC-TGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTAC
* *
93500875 ATG-CTGAGGTATTTTCAATTTATGT
65 ACGTCTGAGGTATTTTCAATTTTTGT
93500900 TTT
1 TTT
93500903 AAAAAAAAAT
Statistics
Matches: 298, Mismatches: 41, Indels: 45
0.78 0.11 0.12
Matches are distributed among these distances:
84 8 0.03
85 2 0.01
86 51 0.17
87 2 0.01
88 5 0.02
89 88 0.30
90 7 0.02
91 112 0.38
92 12 0.04
93 11 0.04
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (90 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTACA
CGTCTGAGGTATTTTCAATTTTTGT
Found at i:93500652 original size:16 final size:16
Alignment explanation
Indices: 93500620--93500653 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93500610 CGCTGAGGTA
* *
93500620 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
93500636 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
93500652 TT
1 TT
93500654 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:93500711 original size:180 final size:169
Alignment explanation
Indices: 93500474--93501366 Score: 590
Period size: 180 Copynumber: 5.3 Consensus size: 169
93500464 TTTTTTTAAA
* * *
93500474 AAAAAGTCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACACGTCGAGGTATTTTCAAT
1 AAAAA-TCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-TACATGTCGAGGTATTTTCAAT
93500539 TTTTGTTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC
64 TTTTG-TTTTCAA--T-TG---TT-AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC
* * *
93500604 AGGACACGCTGAGGTATTTTCAATTTCTGTTTTTTTCAATTTATATTTTTC
121 AGGACATGCTGAGGTA-TTTCAATTTCTGTTTTTTTCAATTCAT-GTTTTC
* * * * **
93500655 AAAAATCAACTCATACTGTGAGAGGTGAGTTGAACCTCGGGTCACATGTCGAGGTATTTGCAAAA
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGT-ACATGTCGAGGTATTTTCAATT
*
93500720 TTTGCTTTTCAAATTAAGTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTC-
65 TTTG-TTTTC-AATT--GTT----AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA
*
93500784 GGCTCCAATGCTGAGGTA-TTCAATTTCTG--TTTTTCAATTCATGTTTTC
122 GG--AC-ATGCTGAGGTATTTCAATTTCTGTTTTTTTCAATTCATGTTTTC
*
93500832 AAAAATCAACGCATATTGTGAGAGGTGAGTTGAGCCTCAGGT-CATG-CTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTACATGTC-GAGGTATTTTCAATT
* * *
93500895 TATGTTTT-AA-----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACATGC
65 TTTGTTTTCAATTGTTAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGC
93500954 TGAGGTAATTTCAATTTCTG----------TT--TG---TC
130 TGAGGT-ATTTCAATTTCTGTTTTTTTCAATTCATGTTTTC
* ** * *
93500980 AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCTTCAGG-ACACG-CTGAGGTAATTTT-AAT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTACATGTC-GAGGT-ATTTTCAAT
* * * *
93501042 TTCTG--TTC---T-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTC-GGTTCAC
64 TTTTGTTTTCAATTGTTAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG---AC
* **
93501100 ATGCTGAGGTATTTTTAGCTTCTG--TTTTTCAATTTC-TGTTCTTC
126 ATGCTGAGGTA-TTTCAATTTCTGTTTTTTTCAA-TTCATGTT-TTC
* *
93501144 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATC-GGCTCACATG-CTGAGGTATTT
1 ----AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-T-ACATGTC-GAGGTATTT
* * *
93501207 TCAATTTTTG--TT---TTG-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-GG
59 TCAATTTTTGTTTTCAATTGTTAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG
* * ** * * * *
93501265 ACATGTTGAGGCAGTTTCCGTTTATG-TTTTCTAAATTCAGTTTTTATC
124 ACATGCTGAGGTA-TTTCAATTTCTGTTTTTTTCAATTCA-TGTTT-TC
* ** * * *
93501313 AAAAGTCAGTTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGG
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGT-ACATGTCGAGG
93501367 ATAAAGATTG
Statistics
Matches: 597, Mismatches: 61, Indels: 124
0.76 0.08 0.16
Matches are distributed among these distances:
146 2 0.00
147 2 0.00
148 93 0.16
149 6 0.01
150 21 0.04
151 2 0.00
153 2 0.00
159 12 0.02
160 4 0.01
161 48 0.08
162 2 0.00
164 2 0.00
165 45 0.08
166 3 0.01
167 24 0.04
168 42 0.07
169 10 0.02
170 62 0.10
172 2 0.00
174 5 0.01
175 19 0.03
177 45 0.08
178 13 0.02
179 4 0.01
180 109 0.18
181 8 0.01
182 10 0.02
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (169 bp):
AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTACATGTCGAGGTATTTTCAATTT
TTGTTTTCAATTGTTAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCT
GAGGTATTTCAATTTCTGTTTTTTTCAATTCATGTTTTC
Found at i:93501029 original size:73 final size:72
Alignment explanation
Indices: 93500815--93501085 Score: 348
Period size: 75 Copynumber: 3.7 Consensus size: 72
93500805 AATTTCTGTT
* * * *
93500815 TTTCAA-TTCATGTTTTCAAAAATCAACGCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCATGC
1 TTTCAATTTC-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACATGC
*
93500879 TGAGGTAT
65 TGAGGTAA
* *
93500887 TTTCAATTTATGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-TCTCAGGACA
1 TTTCAATTTCTGTTTT---CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCT-TCAGGACA
93500951 TGCTGAGGTAA
62 TGCTGAGGTAA
* * *
93500962 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTACGAGAGGTGAGTTGAGCTTCAGGACACGC
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACATGC
93501027 TGAGGTAA
65 TGAGGTAA
*
93501035 TTTTAATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTCAATTTCTGTT-TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTT
93501086 TAGCCTCGGT
Statistics
Matches: 174, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
72 12 0.07
73 67 0.39
74 2 0.01
75 92 0.53
76 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACATGCT
GAGGTAA
Found at i:93501196 original size:93 final size:90
Alignment explanation
Indices: 93501035--93501207 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 90
93501025 GCTGAGGTAA
* * *
93501035 TTTTAATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCGGTTCAC
1 TTTTAATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGCTCAC
93501100 ATGCTGAGGTATTTTTAGCTTCTGT
66 ATGCTGAGGTATTTTTAGCTTCTGT
93501125 TTTTCAATTTCTGTTCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGCT
1 TTTT-AATTTCTGTTCTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGCT
93501190 CACATGCTGAGGTATTTT
63 CACATGCTGAGGTATTTT
93501208 CAATTTTTGT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
90 4 0.05
91 14 0.18
93 59 0.77
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (90 bp):
TTTTAATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGCTCAC
ATGCTGAGGTATTTTTAGCTTCTGT
Found at i:93501344 original size:658 final size:646
Alignment explanation
Indices: 93500156--93501366 Score: 1462
Period size: 658 Copynumber: 1.8 Consensus size: 646
93500146 CGCTGAGGTA
* * *
93500156 TTTTCAATTTCTATTTTTCAAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACATG
1 TTTTCAATTTCTATTTTTCAAAAATCAACGCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATG
* * *
93500221 CTGAGGTAATTCCAATTTCTGTTTGTCAAAAAATCAACTCGTACTGCGAGAGGCGAGTTGAGCCT
66 CTGAGGTAATTCCAATTTATGTTTGTAAAAAAATCAACTCATACTGCGAGAGGCGAGTTGAGCCT
** * *
93500286 TGGGACACGCTGAGGTAATTTCAATTTCTGTTTATCAAAAAATCAACTCGTATTGCAAGAGGCGA
131 CAGGACACGCTGAGGTAATTTCAATTTCTGTTTATCAAAAAATCAACTCATATTACAAGAGGCGA
* * *
93500351 GTTGGGCCTCAGGTCACATGCTGAGGTATTTTCAATTTATGTTTCAAAACTCAACTCATATTGCG
196 GTTGAGCCTCAGG-CACACGCTGAGGTATTTTCAATTTATGTTTCAAAAATCAACTCATATTGCG
*
93500416 AGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCTTTTTTTTAAAAAAAAGT
260 AGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCTTTTTTTTAAAAAAAAAT
* * * *
93500481 CAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACACGTCGAGGTATTTTCAATTTTTGTT
325 CAACTCATATTGCGAGAGGCGAGTTGAGCATCAGGTCACACGTCGAGGTATTTTCAATTTTTG--
* *
93500546 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
388 --T---TTTCTG----TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACAC
* * * * * * *
93500611 GCTGAGGTATTTTCAATTTCTGTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATACTGTGA
444 GCTGAGGCAGTTTCAATTTATGTTTTTCTAAATTCATATTTTTCAAAAATCAACTCATACTGCGA
*
93500676 GAGGTGAGTTGAACCTCGGGTCACATGTCGAGGTATTTGCAAAATTTGCTTTTCAAATTAAGTTC
509 GAGGTGAGTTGAACCTCGGGTCACATGCCGAGGTATTTGCAAAATTTGCTTTTCAAATTAAGTTC
93500741 AAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGCTCCAATGCTGAGGTATTCA
574 AAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGCTCCAATGCTGAGGTATTCA
93500806 ATTTCTGT
639 ATTTCTGT
*
93500814 TTTTCAA-TTC-ATGTTTTCAAAAATCAACGCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCAT
1 TTTTCAATTTCTAT-TTTTCAAAAATCAACGCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAT
* * * *
93500877 GCTGAGGTATTTTCAATTTATGTTT-TAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
65 GCTGAGGTAATTCCAATTTATGTTTGT--AAAAAAATCAACTCATACTGCGAGAGGCGAGTTGAG
* * * * *
93500941 TCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAATTAACTCATATTACGAGAGG
128 CCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTATCAAAAAATCAACTCATATTACAAGAGG
* * *
93501005 TGAGTTGAGCTTCAGG-ACACGCTGAGGTAATTTT-AATTTCTGTTCTTCAAAAAAATCAACTCA
193 CGAGTTGAGCCTCAGGCACACGCTGAGGT-ATTTTCAATTTATG-T-TTC--AAAAATCAACTCA
* * **
93501068 TATTGCGAGAGGTGAGTTTAGCCTC-GGTTCACATGCTGAGGTATTTTTAGCTTCTGTTTTTCAA
253 TATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCTGAGGTA---TT---TTC--AATTTC--
* *
93501132 TTTCTGTTCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATC-GGCTCACATG
307 TTT-T-TT-TT-AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCATCAGG-TCACACG
93501196 -CTGAGGTATTTTCAATTTTTG-TTT-TG-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
367 TC-GAGGTATTTTCAATTTTTGTTTTCTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * ** *
93501257 AACCTC-GGACATGTTGAGGCAGTTTCCGTTTATG-TTTTCTAAATTCAGT-TTTTATCAAAAGT
431 AACCTCAGGACACGCTGAGGCAGTTTCAATTTATGTTTTTCTAAATTCA-TATTTT-TCAAAAAT
** * *
93501319 CAGTTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGG
494 CAACTCATACTGCGAGAGGTGAGTTGAACCTCGGGTCACATGCCGAGG
93501367 ATAAAGATTG
Statistics
Matches: 470, Mismatches: 56, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
655 18 0.04
656 9 0.02
657 122 0.26
658 146 0.31
659 89 0.19
662 2 0.00
664 2 0.00
665 6 0.01
667 4 0.01
669 3 0.01
670 1 0.00
671 2 0.00
672 5 0.01
673 61 0.13
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (646 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACGCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATG
CTGAGGTAATTCCAATTTATGTTTGTAAAAAAATCAACTCATACTGCGAGAGGCGAGTTGAGCCT
CAGGACACGCTGAGGTAATTTCAATTTCTGTTTATCAAAAAATCAACTCATATTACAAGAGGCGA
GTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCTTTTTTTTAAAAAAAAATC
AACTCATATTGCGAGAGGCGAGTTGAGCATCAGGTCACACGTCGAGGTATTTTCAATTTTTGTTT
TCTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGCAGTT
TCAATTTATGTTTTTCTAAATTCATATTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGA
ACCTCGGGTCACATGCCGAGGTATTTGCAAAATTTGCTTTTCAAATTAAGTTCAAAAAAAAAATC
AACTCATATTGTGAGAGGTGAGTTAAGCCTCGGCTCCAATGCTGAGGTATTCAATTTCTGT
Found at i:93501528 original size:63 final size:63
Alignment explanation
Indices: 93501408--93501530 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 63
93501398 TTTGCCTCCT
** * **
93501408 TGAAGTTACAGTGAAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGCAGAGCCC
1 TGAAGTTACAGTGAAGCACATTGAAGTTACAAGTCTTATCTCCCTGAAGATACAGCAGAGCCC
* * *
93501471 TGAAGTTGCAGTGGAGCACATTGAAGTTAC-AGATCTTATCTTCCTGAAGATACAGCAGAG
1 TGAAGTTACAGTGAAGCACATTGAAGTTACAAG-TCTTATCTCCCTGAAGATACAGCAGAG
93501531 GAGCAGATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (63 bp):
TGAAGTTACAGTGAAGCACATTGAAGTTACAAGTCTTATCTCCCTGAAGATACAGCAGAGCCC
Found at i:93501856 original size:23 final size:23
Alignment explanation
Indices: 93501830--93501873 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
93501820 AGCCCATGAT
93501830 CCATTTACACTAAACCCCAAAAC
1 CCATTTACACTAAACCCCAAAAC
*
93501853 CCATTTACATTAAACCCCAAA
1 CCATTTACACTAAACCCCAAA
93501874 TTAAACTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.20
Consensus pattern (23 bp):
CCATTTACACTAAACCCCAAAAC
Found at i:93503012 original size:3 final size:3
Alignment explanation
Indices: 93503006--93503185 Score: 75
Period size: 3 Copynumber: 58.7 Consensus size: 3
93502996 TTTTTTAATG
* * * *
93503006 TAT TAT TAT TGCT AAT TAT TAT TAT TAC TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
93503052 TAA TCT TAGT GTAT GTTT TAT TAT ACAT GTAT GTA- TAT ATAT TTT TA-
1 TAT TAT TA-T -TAT -TAT TAT TAT -TAT -TAT -TAT TAT -TAT TAT TAT
* * * * *
93503099 TAT ATAG TAT TAT T-T TAAT TAC T-T TAT T-C TAA TAT TAT TAT T-C
1 TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
93503142 TAA TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
93503186 CATTTATTTT
Statistics
Matches: 134, Mismatches: 30, Indels: 26
0.71 0.16 0.14
Matches are distributed among these distances:
2 9 0.07
3 103 0.77
4 20 0.15
5 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:93503131 original size:14 final size:15
Alignment explanation
Indices: 93503106--93503154 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
93503096 TTATATATAG
*
93503106 TATTATTTTAATTAC
1 TATTATTCTAATTAC
*
93503121 T-TTATTCTAA-TAT
1 TATTATTCTAATTAC
*
93503134 TATTATTCTAA-TAT
1 TATTATTCTAATTAC
93503148 TATTATT
1 TATTATT
93503155 ATTGTTGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 3 0.10
14 27 0.87
15 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTCTAATTAC
Found at i:93503222 original size:21 final size:21
Alignment explanation
Indices: 93503181--93503250 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
93503171 TTATTATTAT
*
93503181 TATTACATTTATTTTTATCCC
1 TATTATATTTATTTTTATCCC
93503202 TATTATATTTATTATTT-TCCC
1 TATTATATTTATT-TTTATCCC
**
93503223 TATTAT-TATTATTTTTATCAT
1 TATTATAT-TTATTTTTATCCC
93503244 TATTATA
1 TATTATA
93503251 CGTATATACA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 4 0.10
21 35 0.83
22 3 0.07
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTATATTTATTTTTATCCC
Found at i:93503403 original size:15 final size:16
Alignment explanation
Indices: 93503383--93503412 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93503373 TATATTATGT
93503383 ATATTAT-TTTTTTAA
1 ATATTATATTTTTTAA
93503398 ATATTATATTTTTTA
1 ATATTATATTTTTTA
93503413 TATTATGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTATATTTTTTAA
Found at i:93503404 original size:29 final size:30
Alignment explanation
Indices: 93503354--93503418 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
93503344 AATTTTTTAT
93503354 TTATTATTTTAAATACTCTTATATTATGTATA
1 TTATTATTTTAAATA--CTTATATTATGTATA
* * *
93503386 TTATTTTTTTAAATA-TTATATTTTTTATA
1 TTATTATTTTAAATACTTATATTATGTATA
93503415 TTAT
1 TTAT
93503419 GTAAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 16 0.53
32 14 0.47
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (30 bp):
TTATTATTTTAAATACTTATATTATGTATA
Found at i:93503659 original size:24 final size:23
Alignment explanation
Indices: 93503631--93503679 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
93503621 ATGTAAATGC
*
93503631 TATGTAAATATTTTAATACTATAT
1 TATGTAAACATTTTAATA-TATAT
* *
93503655 TATGTATACATTTTTATATATAT
1 TATGTAAACATTTTAATATATAT
93503678 TA
1 TA
93503680 CATATATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
TATGTAAACATTTTAATATATAT
Found at i:93503685 original size:23 final size:24
Alignment explanation
Indices: 93503640--93503685 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
93503630 CTATGTAAAT
**
93503640 ATTTTAATACTATATTATGTATAC
1 ATTTTAATACTATATTACATATAC
*
93503664 ATTTTTATA-TATATTACATATA
1 ATTTTAATACTATATTACATATA
93503686 TATGTCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTTTAATACTATATTACATATAC
Found at i:93503796 original size:26 final size:26
Alignment explanation
Indices: 93503749--93503842 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 26
93503739 ATACTATATC
* * *
93503749 ATATTTTTTTATATTATCTTATGTAT
1 ATATTTTTTAATACTATATTATGTAT
93503775 ATATTTTTTAATACTATATTATGTAT
1 ATATTTTTTAATACTATATTATGTAT
* * ** *
93503801 GTATTTTTCAACGCCATATTATGTAT
1 ATATTTTTTAATACTATATTATGTAT
*
93503827 ATA-TTTTTAATGCTAT
1 ATATTTTTTAATACTAT
93503843 GTATACACTT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
25 10 0.18
26 46 0.82
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.56
Consensus pattern (26 bp):
ATATTTTTTAATACTATATTATGTAT
Found at i:93503863 original size:21 final size:20
Alignment explanation
Indices: 93503820--93503873 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
93503810 AACGCCATAT
* * *
93503820 TATGTATATATTTTTAATGC
1 TATGTATACATTTGTAATAC
93503840 TATGTATACACTTTGTAATAC
1 TATGTATACA-TTTGTAATAC
93503861 TAT-TATTACATTT
1 TATGTA-TACATTT
93503874 ATATTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (20 bp):
TATGTATACATTTGTAATAC
Found at i:93524340 original size:2 final size:2
Alignment explanation
Indices: 93524335--93524376 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
93524325 AAAGAGAGCG
93524335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93524377 TACAAAGGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93526138 original size:16 final size:15
Alignment explanation
Indices: 93526107--93526149 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
93526097 CCTTCATTCC
*
93526107 ATTATTATTATTACT
1 ATTATTATTTTTACT
93526122 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
93526138 ATCATTATTTTT
1 ATTATTATTTTT
93526150 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:93526275 original size:16 final size:16
Alignment explanation
Indices: 93526254--93526285 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93526244 CTATTGTTAC
93526254 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
93526270 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
93526286 ATTATTACAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:93526303 original size:3 final size:3
Alignment explanation
Indices: 93526297--93526522 Score: 125
Period size: 3 Copynumber: 77.3 Consensus size: 3
93526287 TTATTACAAT
* * * * *
93526297 TTA TTA TTG TTA CTTA TTA TT- TTA CTA TCA TCA TTA TCA TTA TT-
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
93526341 TTCA TTA TAA CTTA ATA -GA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** *
93526387 TTA -TA TTA TTA TTA TT- TAA TATA TTA TTT TTA CTA TTA TCG TCA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * * * *
93526431 -TA TTG TTA CTA TTA CTA TTA -TA TTA TTA -TG TTA TTA -TA TCTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
93526473 TTA CTA TTA TTA TTA TTA TT- GTA TT- TT- TCTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
93526516 TTA TTA T
1 TTA TTA T
93526523 ATTTTCCTTT
Statistics
Matches: 169, Mismatches: 37, Indels: 34
0.70 0.15 0.14
Matches are distributed among these distances:
2 18 0.11
3 139 0.82
4 12 0.07
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:93526477 original size:31 final size:31
Alignment explanation
Indices: 93526361--93526522 Score: 114
Period size: 31 Copynumber: 5.5 Consensus size: 31
93526351 CTTAATAGAT
*
93526361 TATTATTATTATTATTAT-TATTAT-TATTA-
1 TATTATTATTATTATTGTAT-TTATCTATTAC
** *
93526390 TATTATTATTATT-TAATATATTAT-TTTTAC
1 TATTATTATTATTATTGTAT-TTATCTATTAC
** *
93526420 TATTATCGTCA-TATTG---TTA-CTATTAC
1 TATTATTATTATTATTGTATTTATCTATTAC
*
93526446 TATTA-TATTATTA-TGTTATTATATCTTTTAC
1 TATTATTATTATTATTG-TATT-TATCTATTAC
* *
93526477 TATTATTATTATTATTGTATTTTTCTATTAT
1 TATTATTATTATTATTGTATTTATCTATTAC
93526508 TATTATTATTATTAT
1 TATTATTATTATTAT
93526523 ATTTTCCTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
25 4 0.04
26 15 0.14
28 3 0.03
29 25 0.24
30 11 0.10
31 33 0.31
32 12 0.11
33 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (31 bp):
TATTATTATTATTATTGTATTTATCTATTAC
Found at i:93526505 original size:25 final size:27
Alignment explanation
Indices: 93526367--93526519 Score: 106
Period size: 25 Copynumber: 5.7 Consensus size: 27
93526357 AGATTATTAT
* * *
93526367 TATTATTATTATTATTAT-TATTATAT
1 TATTATTATTATTATTATATCTTTTAC
*
93526393 TATTATTATT-TAATATATTAT-TTTTAC
1 TATTATTATTATTAT-TA-TATCTTTTAC
* *
93526420 TATTATCGTCA-TATTGTTACTATTACTATTA-
1 TATTAT--T-ATTATTATTA-TA-T-CTTTTAC
*
93526451 TATTATTA-TGTTATTATATCTTTTAC
1 TATTATTATTATTATTATATCTTTTAC
*
93526477 TATTATTATTATTATTGTAT-TTTT-C
1 TATTATTATTATTATTATATCTTTTAC
93526502 TATTATTATTATTATTAT
1 TATTATTATTATTATTAT
93526520 TATATTTTCC
Statistics
Matches: 102, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
25 26 0.25
26 25 0.25
27 22 0.22
28 8 0.08
29 7 0.07
30 4 0.04
31 6 0.06
32 4 0.04
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (27 bp):
TATTATTATTATTATTATATCTTTTAC
Found at i:93530353 original size:26 final size:26
Alignment explanation
Indices: 93530316--93530399 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
93530306 TGATACAAAT
* *
93530316 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93530342 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93530368 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93530394 TGATAA
1 TGATAA
93530400 GAATATCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:93532421 original size:135 final size:136
Alignment explanation
Indices: 93532179--93532462 Score: 516
Period size: 135 Copynumber: 2.1 Consensus size: 136
93532169 TGAGTAGTCT
93532179 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
93532244 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TTGCCCAGTATCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
93532308 CTGTTA
131 CTGTTA
*
93532314 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
93532379 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
93532444 CTGTTA
131 CTGTTA
**
93532450 CCTGAATGGGCTT
1 CCCAAATGGGCTT
93532463 AGGCCCAATA
Statistics
Matches: 143, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
135 115 0.80
136 28 0.20
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:93536210 original size:26 final size:26
Alignment explanation
Indices: 93536173--93536308 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
93536163 TGATACAAAT
* *
93536173 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93536199 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
93536225 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93536251 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93536277 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93536303 TGATAA
1 TGATAA
93536309 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:93538284 original size:132 final size:136
Alignment explanation
Indices: 93538093--93538374 Score: 500
Period size: 132 Copynumber: 2.1 Consensus size: 136
93538083 GAGTAGTCTC
93538093 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGA-GTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
93538158 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTA-C
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
93538221 ACTGTTA
130 ACTGTTA
*
93538228 CCCAAATGGGCTTGCATATG-TTATTGA-TTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTTACTGAGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
93538291 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
93538356 CTGTTA
131 CTGTTA
**
93538362 CCTGAATGGGCTT
1 CCCAAATGGGCTT
93538375 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
132 87 0.61
133 10 0.07
134 25 0.18
135 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGAGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:93538379 original size:64 final size:62
Alignment explanation
Indices: 93538173--93538381 Score: 149
Period size: 64 Copynumber: 3.2 Consensus size: 62
93538163 TCTGAATAAG
**
93538173 GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCAGTACACTGTTACCCAAAT
1 GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCAGTACACTGTTACCTGAAT
* ** * * * *
93538235 GGGCT--TGCATATGTTATTGATTGCATGTATTTTGAAATGGGCCTATGGGCCA-T--ACTGTTA
1 GGGCTAAGGCCCA-G-T-TT-A-T---TGTAATCTGAAAAGGG-CT-TGGCCCAGTACACTGTTA
*
93538295 TCTGAAT
56 CCTGAAT
93538302 AAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCTGA
1 ---GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTA-CACTGTTACCTGA
93538367 AT
61 AT
*
93538369 GGGCTTAGGCCCA
1 GGGCTAAGGCCCA
93538382 ATAGGCTTGA
Statistics
Matches: 108, Mismatches: 20, Indels: 36
0.66 0.12 0.22
Matches are distributed among these distances:
60 3 0.03
61 1 0.01
62 6 0.06
63 10 0.09
64 27 0.25
65 1 0.01
67 25 0.23
68 14 0.13
69 5 0.05
70 12 0.11
71 1 0.01
72 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (62 bp):
GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCAGTACACTGTTACCTGAAT
Found at i:93539944 original size:88 final size:88
Alignment explanation
Indices: 93539828--93540059 Score: 367
Period size: 88 Copynumber: 2.6 Consensus size: 88
93539818 TGACCTTCGC
93539828 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTG
*
93539893 ATTTGGCTTTCACGTGTTTGCAT
66 ATTTGGCTTTCACGTGTTTACAT
* *
93539916 TGAAGTAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTG
*
93539981 ATTTGGCTTTCACGTGTTTACGT
66 ATTTGGCTTTCACGTGTTTACAT
* * * * * *
93540004 TGGAGCAAATCCAAGATGATTTGGCGTCTCTGTAGC-GGCGGAGAACAGATCGAAGA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
93540060 TTACAGATTT
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 17 0.13
88 115 0.87
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (88 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACAT
Found at i:93539967 original size:41 final size:41
Alignment explanation
Indices: 93539831--93539972 Score: 101
Period size: 41 Copynumber: 3.3 Consensus size: 41
93539821 CCTTCGCTGA
*
93539831 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGG
* * * * * *
93539872 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-T--TGCATTGA
1 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCA-GGG
*
93539919 AGTAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGG
*
93539960 AGCAGATCGAAGA
1 AGCAGATCCAAGA
93539973 CATAGCTGAT
Statistics
Matches: 73, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
39 3 0.04
40 4 0.05
41 31 0.42
42 5 0.07
46 4 0.05
47 19 0.26
48 4 0.05
49 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (41 bp):
AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGG
Found at i:93540009 original size:47 final size:47
Alignment explanation
Indices: 93539870--93540019 Score: 109
Period size: 47 Copynumber: 3.3 Consensus size: 47
93539860 TATCAGGCGG
* *
93539870 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTGCATT
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
* * * * * * * **
93539917 GAAGTAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCAG
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACG-TT
93539958 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
* *
93540005 GGAGCAAATCCAAGA
1 GGAGCAGATCGAAGA
93540020 TGATTTGGCG
Statistics
Matches: 71, Mismatches: 22, Indels: 20
0.63 0.19 0.18
Matches are distributed among these distances:
39 3 0.04
40 4 0.06
41 19 0.27
42 2 0.03
46 2 0.03
47 32 0.45
48 6 0.08
49 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (47 bp):
GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
Found at i:93540094 original size:44 final size:44
Alignment explanation
Indices: 93540046--93541385 Score: 1122
Period size: 44 Copynumber: 30.5 Consensus size: 44
93540036 TAGCGGCGGA
*
93540046 GAACAGATCGAAGATTA-CAGATTTGGCATCCCTGTCCTTATAGG
1 GAACAGATCGAAGA-TAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
93540090 GAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * * *
93540134 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTCCTTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* ** *
93540178 GAAGTAGATCGAAGATTTCAGCA--TGGCATCTCTGTGCTTATAGG
1 GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGG
* * *
93540222 GAACA-AGTTGAAAATAGCAGATTCGGCATCCCTGTGCTTATA-G
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * *
93540265 GAACATATCGAAGATAGCAGATTTGACATTCCTGTGCTTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
** * ** *
93540309 GAAGCAGATCGAAGATTTCAACAAGTGGCATCCCTATGCTTATAGG
1 GAA-CAGATCGAAGATAGC-AGATTTGGCATCCCTGTGCTTATAGG
* * * ** *
93540355 GAACA-AGTTGAAAACAATAGATTTGGCATCCCTATGCTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * *
93540399 GAACAGATCGAAGATAGCAGATCTGGCATTCCTGTGCTTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
*** *
93540443 GAAGCAGATCGAAGATTTTAGCA--TGGCATCCCTGTGTTTATAGG
1 GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGG
* * *
93540487 GAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAAG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * *
93540531 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTATAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
** *
93540575 GAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTACTTATAGG
1 GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGG
* * *
93540619 GAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * *
93540663 GAACAGATCGAAGATAGCAGATTTGACATTCCTGTGCCTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
**
93540707 GAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGG
1 GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGG
* * * * *
93540751 GAACA-AGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTTTAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * * * *
93540795 GAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
** ** *
93540839 GAAGCAGATCGAAGATTTCA-ACATGGCATCTCTGTGCTTATAGG
1 GAA-CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
93540883 GAACA-AGTTGAAAATAGCAGATTTGGCATTCCTGTGCTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * *
93540927 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
93540971 GAAGCAGATCGAAGAT-TCAGCA--TGGCATCCCTGTGCTTATAGG
1 GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGG
* * * *
93541014 GAACA-AGTTGAAAACAGCAGATTTGGTATCCCTGTGCTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * * *
93541058 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
** *
93541102 GAAGCAGATCGAAGATTTCAGCA--TGACATCCCTGTGCTTATAGG
1 GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGG
* * *
93541146 GAACA-AGTTGAAAACAGCAGATTT-GCATCCCTGTGCTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * *
93541189 GAACAGATCGAAGATAGCAGATTTGACATTCCTGTGCTTACAGT
1 GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* **
93541233 AAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGG
1 GAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGG
* * * * * *
93541277 GAACA-AGTTGAAAACAGTAGGTTTGGCATCCCTATGCTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * *
93541321 GAACA-AGTTGAAGACAGCAGATTTGGCATCCTTGTGTTTATAGG
1 GAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
93541365 TAACAGATCGAAGA-AGCAGAT
1 GAACAGATCGAAGATAGCAGAT
93541386 CAAGAGCTCA
Statistics
Matches: 1023, Mismatches: 217, Indels: 113
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.00
42 20 0.02
43 173 0.17
44 661 0.65
45 141 0.14
46 27 0.03
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
GAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
Found at i:93540205 original size:132 final size:132
Alignment explanation
Indices: 93540049--93541342 Score: 2139
Period size: 132 Copynumber: 9.8 Consensus size: 132
93540039 CGGCGGAGAA
* * *
93540049 CAGATCGAAGATTACAG-ATTTGGCATCCCTGTCCTTATAGGGAACAAGTTGAAAATAGCAGATT
1 CAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
*
93540113 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTCCTTACAGT
64 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
93540178 GAAG
129 GAAG
* * * *
93540182 TAGATCGAAGATTTCAGCATGGCATCTCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTCG
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
* *
93540247 GCATCCCTGTGCTTATA-GGAACATATCGAAGATAGCAGATTTGACATTCCTGTGCTTACAGTGA
66 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
93540311 AG
131 AG
* * **
93540313 CAGATCGAAGATTTCAACAAGTGGCATCCCTATGCTTATAGGGAACAAGTTGAAAACAATAGATT
1 CAGATCGAAGATTTCAGC-A-TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
* *
93540378 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGGCATTCCTGTGCTTACAGT
64 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
93540443 GAAG
129 GAAG
* * *
93540447 CAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTG
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
* *
93540512 GCATCCCTGTGCTTATAAGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGA
66 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
93540577 AG
131 AG
*
93540579 CAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGGAACAAGTTGAAAACAGCAGATTTG
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
* *
93540644 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATTTGACATTCCTGTGCCTACAGTGA
66 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
93540709 AG
131 AG
*
93540711 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTG
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
* * *
93540776 GCATCCCTGTGCTTTTAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAGTGA
66 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
93540841 AG
131 AG
* * *
93540843 CAGATCGAAGATTTCAACATGGCATCTCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTG
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
*
93540908 GCATTCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
66 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
93540973 AG
131 AG
93540975 CAGATCGAAGA-TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
*
93541039 GTATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
66 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
93541104 AG
131 AG
*
93541106 CAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTT-
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
* *
93541170 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATTTGACATTCCTGTGCTTACAGTAA
66 GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
93541235 AG
131 AG
* *
93541237 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGGTTTG
1 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
* * *
93541302 GCATCCCTATGCTTATAGGGAACA-AGTTGAAGACAGCAGAT
66 GCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGAT
93541343 TTGGCATCCT
Statistics
Matches: 1085, Mismatches: 69, Indels: 15
0.93 0.06 0.01
Matches are distributed among these distances:
131 314 0.29
132 636 0.59
133 72 0.07
134 63 0.06
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
GCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
AG
Found at i:93542149 original size:26 final size:26
Alignment explanation
Indices: 93542071--93542152 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
93542061 TGGTACAAAC
*
93542071 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
93542097 CGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93542123 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93542149 TGAT
1 TGAT
93542153 GGGCATTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93543658 original size:17 final size:17
Alignment explanation
Indices: 93543612--93543652 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
93543602 CCAACATCTA
*
93543612 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
93543627 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
93543644 AAAGCCCAA
1 AAAACCCAA
93543653 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:93543729 original size:13 final size:13
Alignment explanation
Indices: 93543711--93543781 Score: 87
Period size: 13 Copynumber: 5.8 Consensus size: 13
93543701 TCTTCACTCC
93543711 AACCACCCCACTA
1 AACCACCCCACTA
*
93543724 AACCACTCCACTA
1 AACCACCCCACTA
*
93543737 AACCA-CTC-C--
1 AACCACCCCACTA
93543746 AACCACCCCACTA
1 AACCACCCCACTA
93543759 AACCACCCCACTA
1 AACCACCCCACTA
*
93543772 AACCATCCCA
1 AACCACCCCA
93543782 ACCACTCCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 2 0.04
12 1 0.02
13 39 0.80
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:93543751 original size:35 final size:35
Alignment explanation
Indices: 93543705--93543792 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
93543695 CAAACATCTT
*
93543705 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
1 CACTCCAACCACCCCACTAAACCACCCCACTAAAC
93543740 CACTCCAACCACCCCACTAAACCACCCCACTAAAC
1 CACTCCAACCACCCCACTAAACCACCCCACTAAAC
*
93543775 CA-TCCCAACCACTCCACT
1 CACT-CCAACCACCCCACT
93543793 TGCCTATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
34 1 0.02
35 49 0.98
ACGTcount: A:0.35, C:0.53, G:0.00, T:0.11
Consensus pattern (35 bp):
CACTCCAACCACCCCACTAAACCACCCCACTAAAC
Found at i:93544195 original size:19 final size:18
Alignment explanation
Indices: 93544158--93544199 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
93544148 GGGGAGAGTG
*
93544158 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
93544176 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
93544195 TTATT
1 TTATT
93544200 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:93548549 original size:16 final size:15
Alignment explanation
Indices: 93548518--93548560 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
93548508 CCTTCATTCC
*
93548518 ATTATTATTATTACT
1 ATTATTATTTTTACT
93548533 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
93548549 ATCATTATTTTT
1 ATTATTATTTTT
93548561 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:93548777 original size:3 final size:3
Alignment explanation
Indices: 93548769--93548924 Score: 112
Period size: 3 Copynumber: 53.7 Consensus size: 3
93548759 AACTTAATAG
*
93548769 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TA ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * * * *
93548814 TTT ACT ATT ATC GTC A-T ATT GTT ACT ATT ACT ATT A-T ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
93548859 GTT ATT A-T ATCT TTT ACT ATT ATT ATT ATT ATT -GT ATT -TT -TCT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
93548902 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
93548925 ATTTTCCTTT
Statistics
Matches: 119, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
2 11 0.09
3 103 0.87
4 5 0.04
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:93548876 original size:31 final size:29
Alignment explanation
Indices: 93548841--93548929 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 29
93548831 ATTGTTACTA
93548841 TTACTATTATATTATTATGTTATTATATCTT
1 TTACTATTATATTATTAT-TTATTATAT-TT
*
93548872 TTACTA-T-TATTATTA-TTATTGTATTT
1 TTACTATTATATTATTATTTATTATATTT
93548898 TT-CTATTATTATTATTATTATTATTATATTT
1 TTACTATTA-TATTATTA-T-TTATTATATTT
93548929 T
1 T
93548930 CCTTTATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
25 3 0.06
26 5 0.10
27 8 0.16
28 8 0.16
29 8 0.16
30 1 0.02
31 17 0.34
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (29 bp):
TTACTATTATATTATTATTTATTATATTT
Found at i:93551462 original size:20 final size:19
Alignment explanation
Indices: 93551433--93551473 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
93551423 AAGGTAAATA
93551433 TAAAATATTTTA-ACATTTT
1 TAAAATATTTTATAC-TTTT
93551452 TAAATATATTTTATACTTTT
1 TAAA-ATATTTTATACTTTT
93551472 TA
1 TA
93551474 GAATTTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAAATATTTTATACTTTT
Found at i:93555546 original size:26 final size:25
Alignment explanation
Indices: 93555509--93555557 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
93555499 TTTTTTTGAG
* * *
93555509 TTTTTTTTTATTTTTTTTATTTTCA
1 TTTTTTTGTATTTTATGTATTTTCA
93555534 TTTTTTTGGTATTTTATGTATTTT
1 TTTTTTT-GTATTTTATGTATTTT
93555558 TTAAAACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (25 bp):
TTTTTTTGTATTTTATGTATTTTCA
Found at i:93556857 original size:20 final size:21
Alignment explanation
Indices: 93556834--93556872 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
93556824 AAGTTTTCTA
*
93556834 AAATTTTAAATAT-ATTAAAG
1 AAATGTTAAATATAATTAAAG
*
93556854 AAATGTTAAGTATAATTAA
1 AAATGTTAAATATAATTAA
93556873 TTTTAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (21 bp):
AAATGTTAAATATAATTAAAG
Found at i:93556895 original size:18 final size:18
Alignment explanation
Indices: 93556861--93556907 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
93556851 AAGAAATGTT
*
93556861 AAGTATAAT-TAATTTTAA
1 AAGTTTAATATAATTTT-A
93556879 AAGTTTAATATAA-TTTA
1 AAGTTTAATATAATTTTA
*
93556896 AATTTTAATATA
1 AAGTTTAATATA
93556908 CTTAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 12 0.46
18 11 0.42
19 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
AAGTTTAATATAATTTTA
Found at i:93556996 original size:17 final size:16
Alignment explanation
Indices: 93556958--93556996 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
93556948 CTTAATATAT
93556958 TTAAAATTTAAAAAAA
1 TTAAAATTTAAAAAAA
* *
93556974 TAAAAATATTAAAAATA
1 TTAAAAT-TTAAAAAAA
93556991 TTAAAA
1 TTAAAA
93556997 AATGTTAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAATTTAAAAAAA
Found at i:93560186 original size:81 final size:81
Alignment explanation
Indices: 93560092--93560256 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 81
93560082 TTGGAGGAGT
* * *
93560092 AGGAACAGATCCAAAAAGAAAGAGACTTTTCAAATTTTCACAATTCGTAACTATGATCTTAGTCA
1 AGGAACAGATCCAAAAAGAAAGAGACTTTTCAAATTTCCACAATTCGTAACTACGATCTAAGTCA
*
93560157 AATTTGGAAAGCTTAG
66 AATTTGAAAAGCTTAG
* *
93560173 AGGAACATATCCAAAAGGAAAGAGACTTTTCAAATTTCCACAATTCGTAACTACGATCTAAGTCA
1 AGGAACAGATCCAAAAAGAAAGAGACTTTTCAAATTTCCACAATTCGTAACTACGATCTAAGTCA
93560238 AATTTGAAAAGCTTAG
66 AATTTGAAAAGCTTAG
93560254 AGG
1 AGG
93560257 TTGGAGGCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (81 bp):
AGGAACAGATCCAAAAAGAAAGAGACTTTTCAAATTTCCACAATTCGTAACTACGATCTAAGTCA
AATTTGAAAAGCTTAG
Found at i:93568659 original size:61 final size:54
Alignment explanation
Indices: 93568551--93568670 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 54
93568541 ATGGGCACGG
*
93568551 TTTTTTAACTAATAGTTAATTTAATTAATTAACCATAAACCCTAATTTAATTAT
1 TTTTTTAACTAATAGTTAATTTAATTAATTAACCATAAACCCTAATTTAATTAC
*
93568605 TTTTTTAATTAATAGTTAATTTAATTAATTAACTCTAAACATTAAACCCTAATTTAATTAC
1 TTTTTTAACTAATAGTTAATTTAATTAATTAA--C----CA-TAAACCCTAATTTAATTAC
93568666 TTTTT
1 TTTTT
93568671 CTTTAAAACC
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
54 31 0.54
56 1 0.02
60 2 0.04
61 23 0.40
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (54 bp):
TTTTTTAACTAATAGTTAATTTAATTAATTAACCATAAACCCTAATTTAATTAC
Found at i:93568704 original size:15 final size:16
Alignment explanation
Indices: 93568673--93568715 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
93568663 TACTTTTTCT
93568673 TTAAAACCCTAAACCC
1 TTAAAACCCTAAACCC
*
93568689 TTAAAACTCT-AACCC
1 TTAAAACCCTAAACCC
*
93568704 -TAAAACCATAAA
1 TTAAAACCCTAAA
93568716 TTAAGTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 7 0.30
15 7 0.30
16 9 0.39
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (16 bp):
TTAAAACCCTAAACCC
Found at i:93573059 original size:15 final size:15
Alignment explanation
Indices: 93573035--93573066 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
93573025 TATGCGTGCA
*
93573035 AAATATAAAAGACAT
1 AAATACAAAAGACAT
93573050 AAATACAAAAGACAT
1 AAATACAAAAGACAT
93573065 AA
1 AA
93573067 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:93579160 original size:27 final size:27
Alignment explanation
Indices: 93579123--93579184 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
93579113 AGAGAAGAAA
93579123 TTTTTTTGAGATTCAAGAAGAGATTTT
1 TTTTTTTGAGATTCAAGAAGAGATTTT
* *
93579150 TTTTTTTGAGATTCAAGAGGGGATTTT
1 TTTTTTTGAGATTCAAGAAGAGATTTT
93579177 TCTTTTTT
1 T-TTTTTT
93579185 TTTTTTGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (27 bp):
TTTTTTTGAGATTCAAGAAGAGATTTT
Found at i:93579667 original size:3 final size:3
Alignment explanation
Indices: 93579659--93579687 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
93579649 TGCATTTTAA
93579659 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
93579688 GTGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:93579927 original size:16 final size:15
Alignment explanation
Indices: 93579896--93579938 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
93579886 CCTTCATTCC
*
93579896 ATTATTATTATTACT
1 ATTATTATTTTTACT
93579911 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
93579927 ATCATTATTTTT
1 ATTATTATTTTT
93579939 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:93580063 original size:16 final size:16
Alignment explanation
Indices: 93580042--93580073 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93580032 CTATTGTTAC
93580042 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
93580058 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
93580074 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:93580115 original size:11 final size:13
Alignment explanation
Indices: 93580085--93580116 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
93580075 TTATTATAAT
93580085 TTATTATTGTTAC
1 TTATTATTGTTAC
93580098 TTATTATT-TTAC
1 TTATTATTGTTAC
93580110 -TATTATT
1 TTATTATT
93580117 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:93580314 original size:22 final size:21
Alignment explanation
Indices: 93580284--93580343 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
93580274 CTATTATATC
*
93580284 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATT-TTGTTATA
* *
93580306 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATT-TTGTTATA
*
93580328 TTTTCCT-TTATTTTGT
1 TTTTACTATTATTTTGT
93580344 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 3 0.09
21 5 0.16
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTACTATTATTTTGTTATA
Found at i:93580317 original size:19 final size:20
Alignment explanation
Indices: 93580293--93580347 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
93580283 CTTTTACTAT
93580293 TATTATTGTTGTATTTTT-C
1 TATTATTGTTGTATTTTTCC
*
93580312 TATTATTGTTATTATATTTTCC
1 TATTATTGTT-GTAT-TTTTCC
93580334 T-TTATT-TTGTATTT
1 TATTATTGTTGTATTT
93580348 ACTTATACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 5 0.16
21 9 0.29
22 2 0.06
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.69
Consensus pattern (20 bp):
TATTATTGTTGTATTTTTCC
Found at i:93580318 original size:3 final size:3
Alignment explanation
Indices: 93580073--93580299 Score: 94
Period size: 3 Copynumber: 75.3 Consensus size: 3
93580063 TTCTCATCAC
* * *
93580073 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
93580119 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * *
93580164 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAT TACT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * ** * *
93580209 TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT CGT CA- TAT TGT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
93580253 TAT TAC TAT TA- TAT TAT TAT GCTAT TA- TAT CTTT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT -TAT TAT TAT TAT TAT
93580299 T
1 T
93580300 GTTGTATTTT
Statistics
Matches: 165, Mismatches: 40, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
2 15 0.09
3 130 0.79
4 17 0.10
5 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:93584110 original size:14 final size:14
Alignment explanation
Indices: 93584091--93584117 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93584081 AAGATATTCT
93584091 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
93584105 TTTTCTAAATAAA
1 TTTTCTAAATAAA
93584118 GTTGAACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:93584253 original size:15 final size:15
Alignment explanation
Indices: 93584233--93584262 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93584223 GTTTACTTTC
93584233 CAGAGAGGTAGAAAA
1 CAGAGAGGTAGAAAA
93584248 CAGAGAGGTAGAAAA
1 CAGAGAGGTAGAAAA
93584263 GAAATCTGGA
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:0.53, C:0.07, G:0.33, T:0.07
Consensus pattern (15 bp):
CAGAGAGGTAGAAAA
Found at i:93592288 original size:25 final size:24
Alignment explanation
Indices: 93592238--93592291 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
93592228 TTGTATCAGG
93592238 GGGAGAGAAAAAAAAGGAGAGAGA
1 GGGAGAGAAAAAAAAGGAGAGAGA
93592262 GGGA-AGAAAAGAGAAAGG-GAGAGGA
1 GGGAGAGAAAA-A-AAAGGAGAGA-GA
93592287 GGGAG
1 GGGAG
93592292 CACTGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (24 bp):
GGGAGAGAAAAAAAAGGAGAGAGA
Found at i:93593862 original size:24 final size:24
Alignment explanation
Indices: 93593830--93593894 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 24
93593820 ATTAAATTTG
*
93593830 GTGAAATTAAAAGTAATAATAATA
1 GTGAGATTAAAAGTAATAATAATA
93593854 GTGAGATT---AGTTAAT-ATAATA
1 GTGAGATTAAAAG-TAATAATAATA
* *
93593875 GTAAGATTAAAACTAATAAT
1 GTGAGATTAAAAGTAATAAT
93593895 GTGATATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
21 15 0.45
22 4 0.12
23 4 0.12
24 10 0.30
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (24 bp):
GTGAGATTAAAAGTAATAATAATA
Found at i:93594578 original size:6 final size:6
Alignment explanation
Indices: 93594545--93594627 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
93594535 TAATTATTTA
* * ** *
93594545 TTTTTAC TTTTTC --TTTC TTTTCC TTTTTC TTTTTA TCGTTC TTTCTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
93594592 TTCCATTC TTTTTC TTCATTTC TTTTTC TTTTTC TT
1 TT--TTTC TTTTTC TT--TTTC TTTTTC TTTTTC TT
93594628 CTCTTTCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
4 4 0.07
6 39 0.67
7 5 0.09
8 10 0.17
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (6 bp):
TTTTTC
Found at i:93594586 original size:28 final size:26
Alignment explanation
Indices: 93594555--93594627 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 26
93594545 TTTTTACTTT
93594555 TTCTTTCTTTTCCTTTTTCTTTTTATC
1 TTCTTTCTTTTCCTTTTTCTTTTT-TC
* *
93594582 GTTCTTTCTCTTCC--ATTC-TTTTTC
1 -TTCTTTCTTTTCCTTTTTCTTTTTTC
*
93594606 TTCATTTCTTTTTCTTTTTCTT
1 TTC-TTTCTTTTCCTTTTTCTT
93594628 CTCTTTCCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
23 3 0.08
24 10 0.28
25 4 0.11
26 6 0.17
27 1 0.03
28 12 0.33
ACGTcount: A:0.04, C:0.23, G:0.01, T:0.71
Consensus pattern (26 bp):
TTCTTTCTTTTCCTTTTTCTTTTTTC
Found at i:93594602 original size:14 final size:14
Alignment explanation
Indices: 93594583--93594621 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
93594573 CTTTTTATCG
*
93594583 TTCTTTCTCTTCCA-
1 TTCTTTTTCTT-CAT
93594597 TTCTTTTTCTTCAT
1 TTCTTTTTCTTCAT
93594611 TTCTTTTTCTT
1 TTCTTTTTCTT
93594622 TTTCTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTTTTCTTCAT
Found at i:93597242 original size:24 final size:24
Alignment explanation
Indices: 93597210--93597259 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
93597200 CTTTTAAACT
93597210 AATAAAACTCATGTAACTCCCCAA
1 AATAAAACTCATGTAACTCCCCAA
*
93597234 AATAGAACTCATGTAACTCCCCAA
1 AATAAAACTCATGTAACTCCCCAA
93597258 AA
1 AA
93597260 CTTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.28, G:0.06, T:0.20
Consensus pattern (24 bp):
AATAAAACTCATGTAACTCCCCAA
Found at i:93598871 original size:6 final size:6
Alignment explanation
Indices: 93598860--93598885 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93598850 ACTGCATATT
93598860 TGTATC TGTATC TGTATC TGTATC TG
1 TGTATC TGTATC TGTATC TGTATC TG
93598886 AGATGGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (6 bp):
TGTATC
Found at i:93601997 original size:23 final size:22
Alignment explanation
Indices: 93601925--93602001 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
93601915 TTATAATTTA
* *
93601925 AAAATATTTGTATTAAATATAT
1 AAAATATTTATATTAGATATAT
* * *
93601947 AAAATATCTATA-TAGTTGTAT
1 AAAATATTTATATTAGATATAT
*
93601968 AATATAATTTATATTAGATATAT
1 AAAAT-ATTTATATTAGATATAT
93601991 AAAATAATTTA
1 AAAAT-ATTTA
93602002 CTCCTTAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 10 0.23
22 16 0.37
23 17 0.40
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (22 bp):
AAAATATTTATATTAGATATAT
Found at i:93603105 original size:10 final size:10
Alignment explanation
Indices: 93603076--93603121 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
93603066 TAGGGTTCAA
93603076 GGTTTTTTAG
1 GGTTTTTTAG
93603086 GGTTTATTTAG
1 GGTTT-TTTAG
* *
93603097 GGATTTTTAT
1 GGTTTTTTAG
93603107 GGTTTTTTAG
1 GGTTTTTTAG
*
93603117 TGTTT
1 GGTTT
93603122 AAGGTTTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (10 bp):
GGTTTTTTAG
Found at i:93607563 original size:25 final size:25
Alignment explanation
Indices: 93607534--93607581 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93607524 CTATACCATG
* * *
93607534 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
93607559 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
93607582 GTTTAGTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:93607647 original size:20 final size:20
Alignment explanation
Indices: 93607622--93607699 Score: 147
Period size: 20 Copynumber: 3.9 Consensus size: 20
93607612 TAAATATGGT
93607622 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
93607642 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
93607662 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
93607682 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
93607700 GGTAATCATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:93607682 original size:11 final size:11
Alignment explanation
Indices: 93607626--93607699 Score: 61
Period size: 11 Copynumber: 7.3 Consensus size: 11
93607616 TATGGTATGT
93607626 ATGATATGCAC
1 ATGATATGCAC
* *
93607637 ATGAAATG--T
1 ATGATATGCAC
93607646 ATGATATGCAC
1 ATGATATGCAC
* *
93607657 ATGAAATG--T
1 ATGATATGCAC
93607666 ATGATATGCAC
1 ATGATATGCAC
*
93607677 ATGATATG--T
1 ATGATATGCAC
93607686 ATGATATGCAC
1 ATGATATGCAC
93607697 ATG
1 ATG
93607700 GGTAATCATA
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
9 22 0.47
11 25 0.53
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Done.