Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 245 of 318
Found at i:77790657 original size:28 final size:29
Alignment explanation
Indices: 77790612--77790669 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 29
77790602 CATAAACCCA
* *
77790612 TTTTAAGAATATTCATATTAATTTTTTATT
1 TTTTAAAAATATTCATATT-ATTTTTAATT
77790642 TTTTAAAAATA-T-ATATTATTTTTAATT
1 TTTTAAAAATATTCATATTATTTTTAATT
77790669 T
1 T
77790670 AATATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 5 0.19
29 1 0.04
30 10 0.38
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTAAAAATATTCATATTATTTTTAATT
Found at i:77791205 original size:25 final size:24
Alignment explanation
Indices: 77791167--77791213 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
77791157 GATTACAATT
*
77791167 TTAAAATTAAAAAAAATAAAAGGA
1 TTAAAAATAAAAAAAATAAAAGGA
*
77791191 TTAAAAATAACAAAAAATTAAAG
1 TTAAAAATAA-AAAAAATAAAAG
77791214 TATAAGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.21
Consensus pattern (24 bp):
TTAAAAATAAAAAAAATAAAAGGA
Found at i:77795240 original size:14 final size:14
Alignment explanation
Indices: 77795221--77795249 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77795211 CTTACATGTG
77795221 AGATGTGTCTTCTT
1 AGATGTGTCTTCTT
77795235 AGATGTGTCTTCTT
1 AGATGTGTCTTCTT
77795249 A
1 A
77795250 TCCACCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (14 bp):
AGATGTGTCTTCTT
Found at i:77799789 original size:25 final size:25
Alignment explanation
Indices: 77799761--77799840 Score: 124
Period size: 25 Copynumber: 3.2 Consensus size: 25
77799751 TTACAAAGGG
**
77799761 AAAGTCCTAATCTAATTCCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
*
77799786 AAAGTCCTAGTAGAATTCCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
*
77799811 AAAGTTCTAATAGAATTCCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
77799836 AAAGT
1 AAAGT
77799841 TTATAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (25 bp):
AAAGTCCTAATAGAATTCCTAATTT
Found at i:77801896 original size:22 final size:22
Alignment explanation
Indices: 77801871--77801914 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
77801861 TGAAAGCATT
77801871 TTTCTTTAGAAGAGATGTTAAG
1 TTTCTTTAGAAGAGATGTTAAG
77801893 TTTCTTTAGAAGAGATGTTAAG
1 TTTCTTTAGAAGAGATGTTAAG
77801915 GGTTCAGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.41
Consensus pattern (22 bp):
TTTCTTTAGAAGAGATGTTAAG
Found at i:77804491 original size:25 final size:25
Alignment explanation
Indices: 77804463--77804542 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
77804453 TTACAAAGGG
** *
77804463 AAAGTCCTAATCTAATTTCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
*
77804488 AAAGT-CTGAGTAGAATTCCTAATTT
1 AAAGTCCT-AATAGAATTCCTAATTT
*
77804513 AAAGTCCGAATAGAATTCCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
77804538 AAAGT
1 AAAGT
77804543 TTATAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.04
25 44 0.94
26 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (25 bp):
AAAGTCCTAATAGAATTCCTAATTT
Found at i:77806386 original size:17 final size:17
Alignment explanation
Indices: 77806366--77806402 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
77806356 TGATTTAGGA
77806366 TTTTTAGGGTTTAAGGT
1 TTTTTAGGGTTTAAGGT
77806383 TTTTTAGGGTTTAAGGT
1 TTTTTAGGGTTTAAGGT
77806400 TTT
1 TTT
77806403 AGATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (17 bp):
TTTTTAGGGTTTAAGGT
Found at i:77806758 original size:125 final size:126
Alignment explanation
Indices: 77806529--77806791 Score: 456
Period size: 125 Copynumber: 2.1 Consensus size: 126
77806519 ATTCACTATT
*
77806529 AATTACGGAAAAAAGCTCCCACGTTGACACTCTTTTGCTACAATAGTATCTGAAAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACACTCTTTTGCTACAATAGTATCTGAAAAAATAATTTT
**
77806594 GAGAAGATGTTTCTGAATAAATAGTGTCAAAAATGCTTCAAAAAGGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAATAAATAGTGTCAAAAACACTTCAAAAAGGATGCACTGTCAGCAA
** *
77806655 AATTACGGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTATCT-AAAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACACTCTTTTGCTACAATAGTATCTGAAAAAATAATTTT
*
77806719 GAGAAGATGTTTCTGAATAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAATAAATAGTGTCAAAAACACTTCAAAAAGGATGCACTGTCAGCAA
77806780 AATTACGGAAAA
1 AATTACGGAAAA
77806792 TGTAACACCC
Statistics
Matches: 130, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 83 0.64
126 47 0.36
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACACTCTTTTGCTACAATAGTATCTGAAAAAATAATTTT
GAGAAGATGTTTCTGAATAAATAGTGTCAAAAACACTTCAAAAAGGATGCACTGTCAGCAA
Found at i:77808291 original size:29 final size:27
Alignment explanation
Indices: 77808273--77808342 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
77808263 ATATTAAGTC
*
77808273 CGCATACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
77808300 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
77808328 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
77808343 GTACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:77808336 original size:28 final size:28
Alignment explanation
Indices: 77808273--77808370 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
77808263 ATATTAAGTC
* *
77808273 CGCATACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
77808300 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
77808328 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
77808357 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77808371 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:77815038 original size:12 final size:12
Alignment explanation
Indices: 77815010--77815038 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
77815000 TATATCTATA
77815010 TGGTAGAATTTT
1 TGGTAGAATTTT
77815022 T-GTAGAATTTT
1 TGGTAGAATTTT
77815033 TGGTAG
1 TGGTAG
77815039 GGCCAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:77816361 original size:28 final size:28
Alignment explanation
Indices: 77816298--77816395 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
77816288 TTATTAAGTC
*
77816298 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
77816325 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
77816353 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
77816382 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77816396 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:77822999 original size:31 final size:31
Alignment explanation
Indices: 77822961--77823023 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
77822951 ATGCTATCTC
77822961 ATATCGATGCCATTGTCCCAGACAGGGTCTT
1 ATATCGATGCCATTGTCCCAGACAGGGTCTT
77822992 ATATCGATGCCATTGTCCCAGACAGGGTCTT
1 ATATCGATGCCATTGTCCCAGACAGGGTCTT
77823023 A
1 A
77823024 CACAAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (31 bp):
ATATCGATGCCATTGTCCCAGACAGGGTCTT
Found at i:77823099 original size:44 final size:43
Alignment explanation
Indices: 77822991--77823110 Score: 118
Period size: 41 Copynumber: 2.8 Consensus size: 43
77822981 GACAGGGTCT
* * *
77822991 TATATCGATGCCATTGTCCCAGACAGGGTCTTACACAAATCAA
1 TATATCGATGCCAATGTCCCAGACATGGTCTTACACAAACCAA
* * ***
77823034 -ATA-CGATGTCGATGTCCCAGACATGGTCTTACTTTAACCACA
1 TATATCGATGCCAATGTCCCAGACATGGTCTTACACAAACCA-A
* * *
77823076 TATATCGATGCCAATGTCTCAGACGTGGTATTACA
1 TATATCGATGCCAATGTCCCAGACATGGTCTTACA
77823111 TGAAAACACA
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
41 29 0.48
42 4 0.07
43 3 0.05
44 24 0.40
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
TATATCGATGCCAATGTCCCAGACATGGTCTTACACAAACCAA
Found at i:77824219 original size:14 final size:14
Alignment explanation
Indices: 77824202--77824231 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77824192 TTAAATCACG
*
77824202 AAAATTTCACACAT
1 AAAAATTCACACAT
77824216 AAAAATTCACACAT
1 AAAAATTCACACAT
77824230 AA
1 AA
77824232 TAAACACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATTCACACAT
Found at i:77824584 original size:130 final size:127
Alignment explanation
Indices: 77824406--77824773 Score: 511
Period size: 130 Copynumber: 2.9 Consensus size: 127
77824396 AAATTTATTT
* *
77824406 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAA-TATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATT-AAAAAAG-AAAGTAC
* *
77824471 AATTAAAATATAAAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAA
63 AATTAAAATAT-TAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAA
77824536 A
127 A
*
77824537 TAATAAAAATATTGGCTAATTTAAAAGAATATTTATTTTAATAAAATT-----A-AAA-TA-AAT
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAGAAAGTACAAT
* * *
77824594 TAAAATATTAAAAACAATTTTTATTTTATTAATTGAAACTGTATAAAAATTAAATATAAAAA
66 TAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
*
77824656 TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAATAAAATTTAAAAAAGATAAGTAC
1 TAAT-AAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAA-TTAAAAAAGA-AAGTAC
*
77824721 AATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTAAATAAAAAA
63 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
77824774 AGTTTCTACA
Statistics
Matches: 211, Mismatches: 14, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
119 53 0.25
120 51 0.24
121 4 0.02
122 3 0.01
124 1 0.00
126 1 0.00
127 1 0.00
128 2 0.01
129 4 0.02
130 82 0.39
131 9 0.04
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (127 bp):
TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAGAAAGTACAAT
TAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
Found at i:77827059 original size:9 final size:10
Alignment explanation
Indices: 77827032--77827082 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
77827022 TTAACAAAAA
77827032 TTGAGAGAAAT
1 TTGAGAG-AAT
77827043 TTGAGAGAAT
1 TTGAGAGAAT
77827053 TTGGAGAGAAT
1 TT-GAGAGAAT
77827064 TTAGAGAGAAT
1 TT-GAGAGAAT
77827075 TGTGAGAG
1 T-TGAGAG
77827083 GATTATTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
10 5 0.14
11 31 0.84
12 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:77827935 original size:33 final size:33
Alignment explanation
Indices: 77827898--77828033 Score: 167
Period size: 33 Copynumber: 4.3 Consensus size: 33
77827888 GTCTGCTTTA
*
77827898 TGTTTCTCTATTTTCTGTTTCTGTACCGTGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
77827931 TGTTTCTTTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
* * *
77827964 TGTTCCTCTATTTTCTGTAGT-GGT----T-TTT
1 TGTTTCTCTATTTTCTGT-TTCTGTACCATGTTT
77827992 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
77828025 TGTTCCTCT
1 TGTTTCTCT
77828034 TGCCATTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.26
29 1 0.01
32 1 0.01
33 60 0.70
34 1 0.01
ACGTcount: A:0.07, C:0.18, G:0.14, T:0.61
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:77827936 original size:18 final size:17
Alignment explanation
Indices: 77827913--77827967 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
77827903 CTCTATTTTC
77827913 TGTTTCTGTACCGTGTTT
1 TGTTTCTGTACC-TGTTT
*
77827931 TGTTTCTTTA--T-TTT
1 TGTTTCTGTACCTGTTT
77827945 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACC-TGTTT
77827964 TGTT
1 TGTT
77827968 CCTCTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
18 14 0.47
19 3 0.10
ACGTcount: A:0.07, C:0.15, G:0.16, T:0.62
Consensus pattern (17 bp):
TGTTTCTGTACCTGTTT
Found at i:77827979 original size:27 final size:28
Alignment explanation
Indices: 77827948--77828009 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
77827938 TTATTTTCTG
77827948 TTTCTGTA-CCATGTTTTGTTCCTCTAT
1 TTTCTGTAGCCATGTTTTGTTCCTCTAT
*** * *
77827975 TTTCTGTAGTGGTTTTTTGTTTCTCTAT
1 TTTCTGTAGCCATGTTTTGTTCCTCTAT
77828003 TTTCTGT
1 TTTCTGT
77828010 TTCTGTACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.08, C:0.16, G:0.15, T:0.61
Consensus pattern (28 bp):
TTTCTGTAGCCATGTTTTGTTCCTCTAT
Found at i:77829127 original size:21 final size:22
Alignment explanation
Indices: 77829101--77829156 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
77829091 AGTTTCCCCC
77829101 GTTTGCAGTGGCTATACAA-TT
1 GTTTGCAGTGGCTATACAATTT
*
77829122 GTTTGCAGTGGCTATATAATTT
1 GTTTGCAGTGGCTATACAATTT
*
77829144 ATTTGCAGTGGCT
1 GTTTGCAGTGGCT
77829157 CCATCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTTGCAGTGGCTATACAATTT
Found at i:77832612 original size:11 final size:11
Alignment explanation
Indices: 77832596--77832622 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
77832586 TAGAAATTAG
77832596 TTTGTGAAACT
1 TTTGTGAAACT
77832607 TTTGTGAAACT
1 TTTGTGAAACT
77832618 TTTGT
1 TTTGT
77832623 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:77834155 original size:93 final size:92
Alignment explanation
Indices: 77834023--77834217 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
77834013 TTGATTTTAG
* *
77834023 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
77834087 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
77834115 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
77834180 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
77834208 CAAATTCATA
1 TAAATTCATA
77834218 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:77834275 original size:17 final size:17
Alignment explanation
Indices: 77834250--77834283 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77834240 ATAATTTTAA
*
77834250 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
77834267 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
77834284 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:77834285 original size:15 final size:16
Alignment explanation
Indices: 77834250--77834288 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
77834240 ATAATTTTAA
*
77834250 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
77834267 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
77834282 ATTTAAT
1 ATTTAAT
77834289 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:77834292 original size:17 final size:18
Alignment explanation
Indices: 77834254--77834293 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
77834244 TTTTAAATTT
*
77834254 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
77834272 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
77834288 TATTAA
1 TATTAA
77834294 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:77834408 original size:15 final size:15
Alignment explanation
Indices: 77834373--77834507 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
77834363 TTAAGAATTT
*
77834373 TATTAAATTAT-ATA
1 TATTTAATTATAATA
77834387 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
77834401 TATTTAATAATAAT-
1 TATTTAATTATAATA
77834415 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
77834429 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
77834444 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
77834466 TATTAAATTAT-ATA
1 TATTTAATTATAATA
77834480 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
77834494 TATTTAATAATAAT
1 TATTTAATTATAAT
77834508 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:77834415 original size:120 final size:119
Alignment explanation
Indices: 77834249--77834467 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
77834239 AATAATTTTA
* *
77834249 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
77834312 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
77834368 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
77834432 TACAGTATCATATATTATGATTTGAGTAAATTCATA
64 TACAGTATCATATATTATGATTTGAGTAAATTCATA
77834468 TTAAATTATA
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 23 0.25
120 64 0.70
121 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:77834496 original size:16 final size:16
Alignment explanation
Indices: 77834475--77834516 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
77834465 ATATTAAATT
*
77834475 ATATATTTTAATTATA
1 ATATATTTTAATAATA
77834491 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
77834506 AT-TATGTTTAA
1 ATATAT-TTTAA
77834517 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:77834624 original size:154 final size:156
Alignment explanation
Indices: 77834466--77834763 Score: 537
Period size: 154 Copynumber: 1.9 Consensus size: 156
77834456 AGTAAATTCA
*
77834466 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
77834531 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
77834594 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
77834620 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
* *
77834685 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTATCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
77834750 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
77834764 GGGTATTCTA
Statistics
Matches: 137, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 59 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:77834644 original size:18 final size:17
Alignment explanation
Indices: 77834616--77834650 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77834606 ATTATTAAGA
*
77834616 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
77834633 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
77834651 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:77834914 original size:16 final size:16
Alignment explanation
Indices: 77834896--77834952 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
77834886 ACACAGTTTT
* *
77834896 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
77834912 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
77834928 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
77834944 TCCAATACA
1 TCCAATACA
77834953 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:77863885 original size:20 final size:20
Alignment explanation
Indices: 77863862--77863911 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
77863852 AAATCCAAAT
77863862 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
77863882 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAGGA
77863902 TAAGAATACT
1 TAA-AATACT
77863912 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 4 0.15
22 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:77865761 original size:42 final size:42
Alignment explanation
Indices: 77865708--77865787 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
77865698 TTTAAATCTC
77865708 ATTGTATATATATTTATTAATTTTTTAAAATAAAAAAAATTA
1 ATTGTATATATATTTATTAATTTTTTAAAATAAAAAAAATTA
77865750 ATTGTATATATATTTATTAATTTTTTAAAATAAAAAAA
1 ATTGTATATATATTTATTAATTTTTTAAAATAAAAAAA
77865788 TAAAATACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (42 bp):
ATTGTATATATATTTATTAATTTTTTAAAATAAAAAAAATTA
Found at i:77867091 original size:15 final size:16
Alignment explanation
Indices: 77867064--77867093 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77867054 GGATGGCGTT
77867064 TGTTTGATTTTTATTG
1 TGTTTGATTTTTATTG
77867080 TGTTTG-TTTTTATT
1 TGTTTGATTTTTATT
77867094 TCATAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.73
Consensus pattern (16 bp):
TGTTTGATTTTTATTG
Found at i:77875985 original size:40 final size:40
Alignment explanation
Indices: 77875941--77876030 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
77875931 TGGTGCAAAA
*
77875941 GTGC-ATTCAGGGGTACCGAAGAACAAATAGGGGCACGTAT
1 GTGCAATTCAGGGGTACC-AAGAACAAACAGGGGCACGTAT
* * * * *
77875981 GTGCAATTTAGGGGTATCAAGTACTAACAGTGGCACGTAT
1 GTGCAATTCAGGGGTACCAAGAACAAACAGGGGCACGTAT
77876021 GTGCAATTCA
1 GTGCAATTCA
77876031 AAAATATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 31 0.74
41 11 0.26
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (40 bp):
GTGCAATTCAGGGGTACCAAGAACAAACAGGGGCACGTAT
Found at i:77878407 original size:26 final size:25
Alignment explanation
Indices: 77878365--77878416 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
77878355 TCTCATCTCA
* *
77878365 ATTTTACTCTAGTAAAATTTTGACG
1 ATTTTACCCTAGGAAAATTTTGACG
77878390 ATTTTACCCCTAGGAAAATTTTGACG
1 ATTTTA-CCCTAGGAAAATTTTGACG
77878416 A
1 A
77878417 AAGTTCGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (25 bp):
ATTTTACCCTAGGAAAATTTTGACG
Found at i:77880883 original size:81 final size:81
Alignment explanation
Indices: 77880748--77880909 Score: 272
Period size: 81 Copynumber: 2.0 Consensus size: 81
77880738 GACTTTAGTA
*
77880748 AGGGTGGTTGGGACTCTGTTTTAGCTTGGACTGATGAGTTATCTGTAATCATTGCGC-TAATTTA
1 AGGGTGGTTAGGACTCTGTTTTAGCTTGGACTGATGAGTTATCTGTAATCATTGC-CTTAATTTA
77880812 ATGACTTGTTTAAGTGT
65 ATGACTTGTTTAAGTGT
* * *
77880829 AGGGTGGTTAGGACTCTGTTTTAGCTTGGACTTATGAGTTGTTTGTAATCATTGCCTTAATTTAA
1 AGGGTGGTTAGGACTCTGTTTTAGCTTGGACTGATGAGTTATCTGTAATCATTGCCTTAATTTAA
77880894 TGACTTGTTTAAGTGT
66 TGACTTGTTTAAGTGT
77880910 TAAGTGATGT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 1 0.01
81 75 0.99
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (81 bp):
AGGGTGGTTAGGACTCTGTTTTAGCTTGGACTGATGAGTTATCTGTAATCATTGCCTTAATTTAA
TGACTTGTTTAAGTGT
Found at i:77883209 original size:23 final size:22
Alignment explanation
Indices: 77883160--77883223 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
77883150 CCTAATCAGT
*
77883160 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
77883182 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
77883204 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
77883224 GATCAGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:77883224 original size:23 final size:23
Alignment explanation
Indices: 77883160--77883225 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
77883150 CCTAATCAGT
77883160 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
77883182 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
77883204 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
77883226 TCAGTAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:77890398 original size:18 final size:17
Alignment explanation
Indices: 77890368--77890410 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
77890358 TTTTCAATTT
*
77890368 TCTTTTTCTTCTC-ATAC
1 TCTTTTTCCTCTCGAT-C
77890385 TCTTTTTCGCTCTCGATC
1 TCTTTTTC-CTCTCGATC
77890403 TCTTTTTC
1 TCTTTTTC
77890411 TTTACAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 13 0.57
19 2 0.09
ACGTcount: A:0.07, C:0.30, G:0.05, T:0.58
Consensus pattern (17 bp):
TCTTTTTCCTCTCGATC
Found at i:77896571 original size:31 final size:31
Alignment explanation
Indices: 77896536--77896714 Score: 288
Period size: 31 Copynumber: 5.8 Consensus size: 31
77896526 CTTGTCACTT
* *
77896536 GTAGCCGAAGCTTCCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
77896567 GTAGCCGAAGCTA-CATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
77896597 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
77896628 GTAGCCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
77896659 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
77896690 GTAGTCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
77896715 TGTCATTTGT
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
30 27 0.20
31 110 0.80
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:77896798 original size:52 final size:51
Alignment explanation
Indices: 77896690--77896816 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 51
77896680 CACTGATTAG
* * *
77896690 GTAGTCGAAGCTACCACTTT-TCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCA-TTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
77896741 GTAGCCGAAGCTATCATTTATCACTT-TCACTTGTTCTTGATCAGAGATAAGT
1 GTAGCCGAAGCTATCATTTATCACTTGTCACTTGTCCTTGATC--AGATAAGT
*
77896793 GTAGCCGAAGCTATCACTTATCAC
1 GTAGCCGAAGCTATCATTTATCAC
77896817 ATGTTGCCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
50 17 0.25
51 20 0.29
52 31 0.46
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCATTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:77909656 original size:37 final size:37
Alignment explanation
Indices: 77909614--77909688 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
77909604 GATCTTGAGT
77909614 TAGCTGCGATTGTGTTTGCTTTGAAGATTTGGTGCCA
1 TAGCTGCGATTGTGTTTGCTTTGAAGATTTGGTGCCA
77909651 TAGCTGCGATTGTGTTTGCTTTGAAGATTTGGTGCCA
1 TAGCTGCGATTGTGTTTGCTTTGAAGATTTGGTGCCA
77909688 T
1 T
77909689 TATCTTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.16, C:0.13, G:0.29, T:0.41
Consensus pattern (37 bp):
TAGCTGCGATTGTGTTTGCTTTGAAGATTTGGTGCCA
Found at i:77937616 original size:942 final size:941
Alignment explanation
Indices: 77935744--77937628 Score: 3338
Period size: 942 Copynumber: 2.0 Consensus size: 941
77935734 TTATTTTGAT
77935744 TATGAGTTGAGGATTTTGCTTGAGGACAAACAAATGCTTAAGTGTGGGGTATTTGATAAACCGTA
1 TATGAGTTGAGGATTTTGCTTGAGGACAAACAAATGCTTAAGTGTGGGGTATTTGATAAACCGTA
*
77935809 ATTTATACATATTTTTACCCCATGTTTAACGCATTTTATGGATGATTTTCCATTAGAATTGGTGA
66 ATTTATACATATTTTTACCCCATGTCTAACGCATTTTATGGATGATTTTCCATTAGAATTGGTGA
77935874 ATTCGATGCTCCAAATGCTTTAATTTCATGTTTTATACTTAGAAGAGCATAGGAGAGCGAAAGGA
131 ATTCGATGCTCCAAATGCTTTAATTTCATGTTTTATACTTAGAAGAGCATAGGAGAGCGAAAGGA
* * *
77935939 ACGAGAAACGGGCCAAAAATAGAGAAAATGGGCCAAAGTACGAACTTCACACGGCCTGGACTTCC
196 ACGAGAAACGGGCCAAAAACAGAGAAAATGGGCCAAAGTACAAACTTCACACAGCCTGGACTTCC
* * * * *
77936004 TTATACAGGCAAACCACACGGCTGTGTCAATCTGGCAGAATCGAAGCACGACTCACACGGCTATA
261 TCACACAGGCAAACCACACAGCCGTGTCAATCTAGCAGAATCGAAGCACGACTCACACGGCTATA
* * *
77936069 GCACAAGCCTGTTCCATTCTAACAGGCTCGAGCACGGCCTGAATTAATCAAACACGAGCGTGCGC
326 GCACAAGCCCGTGCCATTCTAACAGGCTCGAGCACAGCCTGAATTAATCAAACACGAGCGTGCGC
*
77936134 CACAGGCGTGTCCCTACCGAGCCCAAGTTAAGTCCAATTCCGAAAAGGCCACTTTTGAGGGCTCA
391 CACAGGCGTGTCCCTACCAAGCCCAAGTTAAGTCCAATTCCGAAAAGGCCACTTTTGAGGGCTCA
* *
77936199 TAGGCATTCCAAAGCCTATAAATACACCCTAAAAGAGGAGAAAATAGGGCAAACAGAATAGGGAG
456 TAGGCATTCCAAAGCCTATAAATACACCCTAAAAGAAGAGAAAAGAGGGCAAACAGAATAGGGAG
77936264 TAAGGAATTACTCCAAGGAAGCCGATTGTTTCATCTCAGAAGCCGGATTCATCATCAAGACTGAA
521 TAAGGAATTACTCCAAGGAAGCCGATTGTTTCATCTCAGAAGCCGGATTCATCATCAAGACTGAA
*
77936329 GATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTATTTTTC
586 GATCTCCCCTCAATTCCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTATTTTTC
* *
77936394 TGAGATGTTTTCTTATTTAGTTATGAGCTAAATCCCCTAAATACCTAAGGGGAATGAAACCTAAG
651 TGAGATGTTTTCTTATTTAGTTATGAACTAAATCCCCTAAATACCTAAAGGGAATGAAACCTAAG
*
77936459 ACGAATCTTGTTATTATTTTCTGAATCATTTGATAAATATTTAACTTGTTCTTAATTATGTGTTC
716 ACGAATCTTGTTATTATTTTCTGAATCATATGATAAATATTTAACTTGTTCTTAATTATGTGTTC
* *
77936524 TTAATTCTTGTTTTGATATCCTAAAATACTGATTCAAGATAAGGTCTTATTTAGAGGAGGAATAG
781 TTAATTCTTGTTTTGATATCCCAAAATACTGATTCAAGATAAGGTCTTATTCAGAGGAGGAATAG
*
77936589 ACCCTGGCTAAGAGTACATTTATCATAATTAAGCGGAGTTGATTGCACGCCTAGACATAGGGTGA
846 ACCCTAGCTAAGAGTACATTTATCATAATTAAGCGGAGTTGATTGCACGCCTAGACATAGGGTGA
* *
77936654 CAAGATTTTGCCAGATTAGGGTGAAACCTAA
911 CAAGATTTTGCCAAATTAGGGTAAAACCTAA
*
77936685 TATGAGTTGAGGATTTTGCTTGAGGACAAGCAAATGCTTAAGTGTGGGGGTATTTGATAAACCGT
1 TATGAGTTGAGGATTTTGCTTGAGGACAAACAAATGCTTAAGTGT-GGGGTATTTGATAAACCGT
77936750 AATTTATACATATTTTTACCCCATGTCTAACGCATTTTATGGATGATTTTCCATTAGAATTGGTG
65 AATTTATACATATTTTTACCCCATGTCTAACGCATTTTATGGATGATTTTCCATTAGAATTGGTG
*
77936815 AATTCGATGCTCCTAATGCTTTAATTTCATGTTTTATACTTAGAAGAGCATAGGAGAGCGAAAGG
130 AATTCGATGCTCCAAATGCTTTAATTTCATGTTTTATACTTAGAAGAGCATAGGAGAGCGAAAGG
* * *
77936880 AACGAGAAACGGGCCAAAAACAGAGAACATTGGCCAAAGTACAAACTTCACATAGCCTGGACTTC
195 AACGAGAAACGGGCCAAAAACAGAGAAAATGGGCCAAAGTACAAACTTCACACAGCCTGGACTTC
** *
77936945 CTCACATGGGTAAACCACACAGCCGTGTCAATCTAGCAGAATCGAAGCACGACTCACACGGCTAT
260 CTCACACAGGCAAACCACACAGCCGTGTCAATCTAGCAGAATCGAAGCACGACTCACACGGCTAT
* * *
77937010 AGTACAAGCCCGTGCCATTCTAACAGGCTCGAGCACAGCCTGAATTAATCAAACACGGGCGTGTG
325 AGCACAAGCCCGTGCCATTCTAACAGGCTCGAGCACAGCCTGAATTAATCAAACACGAGCGTGCG
* *
77937075 CCACAGGCGTGTCCCTGCCAAGCCCAAGTTAAGTCCAATTCTGAAAAGGCCACTTTTGAGGGCTC
390 CCACAGGCGTGTCCCTACCAAGCCCAAGTTAAGTCCAATTCCGAAAAGGCCACTTTTGAGGGCTC
* *
77937140 ATAGGCATTCCAAAGCCTATAAATACACCCTAAAAGAAGAGAAAAGGGGGCACACAGAATAGGGA
455 ATAGGCATTCCAAAGCCTATAAATACACCCTAAAAGAAGAGAAAAGAGGGCAAACAGAATAGGGA
* *
77937205 GTAAGGAATTACTCTAAGGAAGCCGATTGTTTCATCTTAGAAGCCGGATTCATCATCAAGACTGA
520 GTAAGGAATTACTCCAAGGAAGCCGATTGTTTCATCTCAGAAGCCGGATTCATCATCAAGACTGA
77937270 AGATCTCCCCTCAATTCCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTATTTTT
585 AGATCTCCCCTCAATTCCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTATTTTT
77937335 CTGAGATGTTTTCTTATTTAGTTATGAACTAAATCCCCTAAATACCTAAAGGGAATGAAACCTAA
650 CTGAGATGTTTTCTTATTTAGTTATGAACTAAATCCCCTAAATACCTAAAGGGAATGAAACCTAA
*
77937400 GACGAATCTTGTTATTATTTTCTGAATCGTATGATAAATATTTAACTTGTTCTTAATTATGTGTT
715 GACGAATCTTGTTATTATTTTCTGAATCATATGATAAATATTTAACTTGTTCTTAATTATGTGTT
** *
77937465 CTTAATTCTTGTTTTGATATCCCAGGATACTGATTCAAGATAAGGTCTTATTCAGATGAGGAATA
780 CTTAATTCTTGTTTTGATATCCCAAAATACTGATTCAAGATAAGGTCTTATTCAGAGGAGGAATA
* *
77937530 GACCCTAGCTAAGAGTACATTTATCATAATTAAGTGGAGTTGATTGCACGCTTAGACATAGGGTG
845 GACCCTAGCTAAGAGTACATTTATCATAATTAAGCGGAGTTGATTGCACGCCTAGACATAGGGTG
77937595 ACAAGATTTTGCCAAATTAGGGTAAAACCTAA
910 ACAAGATTTTGCCAAATTAGGGTAAAACCTAA
77937627 TA
1 TA
77937629 AGGGGATCCA
Statistics
Matches: 896, Mismatches: 47, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
941 44 0.05
942 852 0.95
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (941 bp):
TATGAGTTGAGGATTTTGCTTGAGGACAAACAAATGCTTAAGTGTGGGGTATTTGATAAACCGTA
ATTTATACATATTTTTACCCCATGTCTAACGCATTTTATGGATGATTTTCCATTAGAATTGGTGA
ATTCGATGCTCCAAATGCTTTAATTTCATGTTTTATACTTAGAAGAGCATAGGAGAGCGAAAGGA
ACGAGAAACGGGCCAAAAACAGAGAAAATGGGCCAAAGTACAAACTTCACACAGCCTGGACTTCC
TCACACAGGCAAACCACACAGCCGTGTCAATCTAGCAGAATCGAAGCACGACTCACACGGCTATA
GCACAAGCCCGTGCCATTCTAACAGGCTCGAGCACAGCCTGAATTAATCAAACACGAGCGTGCGC
CACAGGCGTGTCCCTACCAAGCCCAAGTTAAGTCCAATTCCGAAAAGGCCACTTTTGAGGGCTCA
TAGGCATTCCAAAGCCTATAAATACACCCTAAAAGAAGAGAAAAGAGGGCAAACAGAATAGGGAG
TAAGGAATTACTCCAAGGAAGCCGATTGTTTCATCTCAGAAGCCGGATTCATCATCAAGACTGAA
GATCTCCCCTCAATTCCCCTTCAGGAGTTTTGGGTTTTCTTTATGTTTTGTATTCTTTATTTTTC
TGAGATGTTTTCTTATTTAGTTATGAACTAAATCCCCTAAATACCTAAAGGGAATGAAACCTAAG
ACGAATCTTGTTATTATTTTCTGAATCATATGATAAATATTTAACTTGTTCTTAATTATGTGTTC
TTAATTCTTGTTTTGATATCCCAAAATACTGATTCAAGATAAGGTCTTATTCAGAGGAGGAATAG
ACCCTAGCTAAGAGTACATTTATCATAATTAAGCGGAGTTGATTGCACGCCTAGACATAGGGTGA
CAAGATTTTGCCAAATTAGGGTAAAACCTAA
Found at i:77940694 original size:56 final size:56
Alignment explanation
Indices: 77940628--77940739 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
77940618 CTAAGCATGG
77940628 GATAAAAATATGTATAAATTACGATTTATCAACCATTAACATGGTTAATGGACATT
1 GATAAAAATATGTATAAATTACGATTTATCAACCATTAACATGGTTAATGGACATT
*
77940684 GATAAAAATATGTATAAATTACGGTTTATCAACCATTAACATGGTTAATGGACATT
1 GATAAAAATATGTATAAATTACGATTTATCAACCATTAACATGGTTAATGGACATT
77940740 AATGACCTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (56 bp):
GATAAAAATATGTATAAATTACGATTTATCAACCATTAACATGGTTAATGGACATT
Found at i:77941816 original size:43 final size:43
Alignment explanation
Indices: 77941697--77941856 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
77941687 TGTTTTCATA
* * *
77941697 TAAGACCACTTATGGGAAGTTGGCATTG-ACTTATGATTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATTGTA-TT-TGATTTACGTG
77941741 TAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTT-CGTG
1 TAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTTACGTG
* *
77941783 TAAGACC-CTGT-TCGGGACAG-TGGCATTGTTATTTGA-TTACATT
1 TAAGACCAC-GTCT-GGGAC-GTTGGCATTG-TATTTGATTTACGTG
* *
77941826 TAAGACCACATCTAGGACGTTGGCATTGTAT
1 TAAGACCACGTCTGGGACGTTGGCATTGTAT
77941857 GAGCTTTCTG
Statistics
Matches: 100, Mismatches: 7, Indels: 20
0.79 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 32 0.32
43 36 0.36
44 29 0.29
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTTACGTG
Found at i:77945132 original size:30 final size:30
Alignment explanation
Indices: 77945096--77945237 Score: 198
Period size: 30 Copynumber: 4.8 Consensus size: 30
77945086 GTGTGCTAAA
77945096 CGATGGTCAAAGCCATCCCTTTTGTTTAAT
1 CGATGGTCAAAGCCATCCCTTTTGTTTAAT
*
77945126 CGATGGTCAAAGCCATCCCTTTTTTTTAAT
1 CGATGGTCAAAGCCATCCCTTTTGTTTAAT
77945156 CGATGGTCAAAGCCATCCCTTTTGTTTAAT
1 CGATGGTCAAAGCCATCCCTTTTGTTTAAT
* ** *
77945186 TGATGGTCGAAA-CCATCCCTTTT-CATAGT
1 CGATGGTC-AAAGCCATCCCTTTTGTTTAAT
* *
77945215 CTATGGTCGAAGCCATCCCTTTT
1 CGATGGTCAAAGCCATCCCTTTT
77945238 CATATTTGAT
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
28 2 0.02
29 20 0.20
30 76 0.75
31 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (30 bp):
CGATGGTCAAAGCCATCCCTTTTGTTTAAT
Found at i:77945230 original size:29 final size:28
Alignment explanation
Indices: 77945098--77945358 Score: 181
Period size: 29 Copynumber: 8.9 Consensus size: 28
77945088 GTGCTAAACG
** *
77945098 ATGGTCAAAGCCATCCCTTTTGTTTAATCG
1 ATGGTCAAAGCCATCCCTTTT-CAT-ATCT
** *
77945128 ATGGTCAAAGCCATCCCTTTTTTTTAATCG
1 ATGGTCAAAGCCATCCC-TTTTCAT-ATCT
**
77945158 ATGGTCAAAGCCATCCCTTTTGTTTAAT-T
1 ATGGTCAAAGCCATCCCTTTT-CAT-ATCT
77945187 GATGGTCGAAA-CCATCCCTTTTCATAGTCT
1 -ATGGTC-AAAGCCATCCCTTTTCATA-TCT
* *
77945217 ATGGTCGAAGCCATCCCTTTTCATATTT
1 ATGGTCAAAGCCATCCCTTTTCATATCT
* *
77945245 GATGGTCAAAACTATCCCTTTTCATATGCT
1 -ATGGTCAAAGCCATCCCTTTTCATAT-CT
* *
77945275 ATGGTCATCA-CCATCCCTTTTCATATTCG
1 ATGGTCA-AAGCCATCCCTTTTCATA-TCT
** *
77945304 ATGGTCGTCA-CCATCCCTTTTCATATTT
1 ATGGTC-AAAGCCATCCCTTTTCATATCT
*
77945332 GATGGTCATCA-CCATCCCTTTTCATAT
1 -ATGGTCA-AAGCCATCCCTTTTCATAT
77945359 TCGATGGGCG
Statistics
Matches: 201, Mismatches: 16, Indels: 29
0.82 0.07 0.12
Matches are distributed among these distances:
28 6 0.03
29 119 0.59
30 69 0.34
31 7 0.03
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (28 bp):
ATGGTCAAAGCCATCCCTTTTCATATCT
Found at i:77945268 original size:58 final size:56
Alignment explanation
Indices: 77945098--77945365 Score: 236
Period size: 58 Copynumber: 4.6 Consensus size: 56
77945088 GTGCTAAACG
** * * ** *
77945098 ATGGTCAAAGCCATCCCTTTTGTTTAATCGATGGTCAAAGCCATCCCTTTTTTTTAATCG
1 ATGGTC-AAGCCATCCCTTTT-CATATTCGATGGTCAAAACCATCCC-TTTTCAT-ATCT
** *
77945158 ATGGTCAAAGCCATCCCTTTTGTTTAATT-GATGGTCGAAACCATCCCTTTTCATAGTCT
1 ATGGTC-AAGCCATCCCTTTT-CAT-ATTCGATGGTCAAAACCATCCCTTTTCATA-TCT
* *
77945217 ATGGTCGAAGCCATCCCTTTTCATATTTGATGGTCAAAACTATCCCTTTTCATATGCT
1 ATGGTC-AAGCCATCCCTTTTCATATTCGATGGTCAAAACCATCCCTTTTCATAT-CT
*** *
77945275 ATGGTCATCA-CCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTT
1 ATGGTCA--AGCCATCCCTTTTCATATTCGATGGTCAAAACCATCCCTTTTCATATCT
77945332 GATGGTCATCA-CCATCCCTTTTCATATTCGATGG
1 -ATGGTCA--AGCCATCCCTTTTCATATTCGATGG
77945366 GCGTCGATAC
Statistics
Matches: 184, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
57 6 0.03
58 107 0.58
59 28 0.15
60 41 0.22
61 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (56 bp):
ATGGTCAAGCCATCCCTTTTCATATTCGATGGTCAAAACCATCCCTTTTCATATCT
Found at i:77945297 original size:87 final size:87
Alignment explanation
Indices: 77945197--77945358 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
77945187 GATGGTCGAA
* *
77945197 ACCATCCCTTTTCATAGTCTATGGTCG-AAGCCATCCCTTTTCATATTTGATGGTCAAAACTATC
1 ACCATCCCTTTTCATAGTCGATGGTCGTAA-CCATCCCTTTTCATATTTGATGGTCAAAACCATC
77945261 CCTTTTCATATGCTATGGTCATC
65 CCTTTTCATATGCTATGGTCATC
* * **
77945284 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCATCACCATCC
1 ACCATCCCTTTTCATAGTCGATGGTCGTAACCATCCCTTTTCATATTTGATGGTCAAAACCATCC
77945349 CTTTTCATAT
66 CTTTTCATAT
77945359 TCGATGGGCG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 67 0.99
88 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (87 bp):
ACCATCCCTTTTCATAGTCGATGGTCGTAACCATCCCTTTTCATATTTGATGGTCAAAACCATCC
CTTTTCATATGCTATGGTCATC
Found at i:77945359 original size:29 final size:29
Alignment explanation
Indices: 77945197--77945365 Score: 202
Period size: 29 Copynumber: 5.8 Consensus size: 29
77945187 GATGGTCGAA
*
77945197 ACCATCCCTTTTCATAGTCT-ATGGTCGA--
1 ACCATCCCTTTTCATA-TTTGATGGTC-ATC
**
77945225 AGCCATCCCTTTTCATATTTGATGGTCAAA
1 A-CCATCCCTTTTCATATTTGATGGTCATC
* *
77945255 ACTATCCCTTTTCATATGCT-ATGGTCATC
1 ACCATCCCTTTTCATAT-TTGATGGTCATC
* *
77945284 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCATC
77945313 ACCATCCCTTTTCATATTTGATGGTCATC
1 ACCATCCCTTTTCATATTTGATGGTCATC
*
77945342 ACCATCCCTTTTCATATTCGATGG
1 ACCATCCCTTTTCATATTTGATGG
77945366 GCGTCGATAC
Statistics
Matches: 123, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
28 4 0.03
29 117 0.95
30 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTTGATGGTCATC
Found at i:77949920 original size:20 final size:19
Alignment explanation
Indices: 77949884--77949962 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 19
77949874 CAAAGTATAG
*
77949884 ATAGAGGCA-TGATAGTGCA
1 ATAGAGGCACCGA-AGTGCA
77949903 ATTAGAGGCACCGAAGTGCAA
1 A-TAGAGGCACCGAAGTGC-A
* * * *
77949924 ATAGAGACACTGACGTGTA
1 ATAGAGGCACCGAAGTGCA
*
77949943 ACAGAGGCACCGAAGTGCA
1 ATAGAGGCACCGAAGTGCA
77949962 A
1 A
77949963 ACCTATACTA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
19 17 0.36
20 26 0.55
21 4 0.09
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.15
Consensus pattern (19 bp):
ATAGAGGCACCGAAGTGCA
Found at i:77954481 original size:29 final size:29
Alignment explanation
Indices: 77954444--77954505 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
77954434 TCTTCAGTCT
*
77954444 TTCTGATCATATCAACCCCGTGAATCTTA
1 TTCTGATCATATCAACCCCGTGAATATTA
77954473 TTCTGATCATATCAACCCCGTGAATATTA
1 TTCTGATCATATCAACCCCGTGAATATTA
77954502 TTCT
1 TTCT
77954506 TACTAAGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (29 bp):
TTCTGATCATATCAACCCCGTGAATATTA
Found at i:77971857 original size:45 final size:45
Alignment explanation
Indices: 77971780--77971865 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
77971770 CCAGACATGG
*
77971780 TCTTACACTGGCTTTCATATAGCGAGGCCGATGCCATGTCCTAGA
1 TCTTACACTGGCTCTCATATAGCGAGGCCGATGCCATGTCCTAGA
* * *
77971825 TCTTACACTGGCTCTCATCTATCG-GTGTCGATGCCATGTCC
1 TCTTACACTGGCTCTCATATAGCGAG-GCCGATGCCATGTCC
77971866 CAAACAGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (45 bp):
TCTTACACTGGCTCTCATATAGCGAGGCCGATGCCATGTCCTAGA
Found at i:77972011 original size:46 final size:46
Alignment explanation
Indices: 77971943--77972069 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 46
77971933 TATATCGTGA
** * * *
77971943 GGCCGATGCACATCACAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCT-AAT
* **
77971990 -GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATGTTGT
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTAAT
* *
77972035 GGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
77972070 ATACATATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTAAT
Found at i:77973932 original size:24 final size:24
Alignment explanation
Indices: 77973897--77973942 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
77973887 CTTCATTTCA
*
77973897 AAACAATTTAAACAAA-AAATTAC
1 AAACAATATAAACAAATAAATTAC
77973920 AAACATATATAAACAAATAAATT
1 AAACA-ATATAAACAAATAAATT
77973943 TAAGATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (24 bp):
AAACAATATAAACAAATAAATTAC
Found at i:77975070 original size:172 final size:172
Alignment explanation
Indices: 77974784--77975129 Score: 674
Period size: 172 Copynumber: 2.0 Consensus size: 172
77974774 TGAAACAAGC
77974784 TAAAGAAGCTTAGTAAGCTCATAGTATAAACATCAAATTAACTTACCTTAATCAAAGTAAACACT
1 TAAAGAAGCTTAGTAAGCTCATAGTATAAACATCAAATTAACTTACCTTAATCAAAGTAAACACT
* *
77974849 TAAAGAGATAATTTATAATTCCTGATCCCCAAATACCAATTCACCATTCACATTAGTAATTGCTC
66 TAAAGAGATAATTTATAATTCCTGATCACCAAATACCAATTCACCATTCACATTAGTAATTACTC
77974914 ACATATTCAAGCATATCAAAACAACTTCCATCTCAAAGAACT
131 ACATATTCAAGCATATCAAAACAACTTCCATCTCAAAGAACT
77974956 TAAAGAAGCTTAGTAAGCTCATAGTATAAACATCAAATTAACTTACCTTAATCAAAGTAAACACT
1 TAAAGAAGCTTAGTAAGCTCATAGTATAAACATCAAATTAACTTACCTTAATCAAAGTAAACACT
77975021 TAAAGAGATAATTTATAATTCCTGATCACCAAATACCAATTCACCATTCACATTAGTAATTACTC
66 TAAAGAGATAATTTATAATTCCTGATCACCAAATACCAATTCACCATTCACATTAGTAATTACTC
77975086 ACATATTCAAGCATATCAAAACAACTTCCATCTCAAAGAACT
131 ACATATTCAAGCATATCAAAACAACTTCCATCTCAAAGAACT
77975128 TA
1 TA
77975130 CTCATACCAT
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (172 bp):
TAAAGAAGCTTAGTAAGCTCATAGTATAAACATCAAATTAACTTACCTTAATCAAAGTAAACACT
TAAAGAGATAATTTATAATTCCTGATCACCAAATACCAATTCACCATTCACATTAGTAATTACTC
ACATATTCAAGCATATCAAAACAACTTCCATCTCAAAGAACT
Found at i:77981323 original size:38 final size:38
Alignment explanation
Indices: 77981281--77981377 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 38
77981271 ATAGAGGCTT
* * *
77981281 ACATCTCATGGCAAACCACTACCCTTAAAACTAGGGAC
1 ACATCCCATGACAAACCACTACCCTTAAAACTAGGAAC
* *
77981319 ACATCCCATGACAAGCCACTACCCTTCAAACTAGGAAC
1 ACATCCCATGACAAACCACTACCCTTAAAACTAGGAAC
77981357 ACATCCCATGACAAACCACTA
1 ACATCCCATGACAAACCACTA
77981378 TGCTAGAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.16
Consensus pattern (38 bp):
ACATCCCATGACAAACCACTACCCTTAAAACTAGGAAC
Found at i:77981395 original size:38 final size:38
Alignment explanation
Indices: 77981281--77981395 Score: 115
Period size: 38 Copynumber: 3.0 Consensus size: 38
77981271 ATAGAGGCTT
* * * * *
77981281 ACATCTCATGGCAAACCACTACCCTTAAAACTAGGGAC
1 ACATCCCATGACAAACCACTACCCTGAAAACTAAGAAC
* ** *
77981319 ACATCCCATGACAAGCCACTACCCTTCAAACTAGGAAC
1 ACATCCCATGACAAACCACTACCCTGAAAACTAAGAAC
**
77981357 ACATCCCATGACAAACCACTATGCTAGAAAAC-AAGAAC
1 ACATCCCATGACAAACCACTACCCT-GAAAACTAAGAAC
77981395 A
1 A
77981396 ACTGATTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 61 0.94
39 4 0.06
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (38 bp):
ACATCCCATGACAAACCACTACCCTGAAAACTAAGAAC
Found at i:77994287 original size:23 final size:23
Alignment explanation
Indices: 77994257--77994302 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
77994247 AAATGACTTA
77994257 ATTTGTGATTGTGTTAGATTGAT
1 ATTTGTGATTGTGTTAGATTGAT
77994280 ATTTGTGATTGTGTTAGATTGAT
1 ATTTGTGATTGTGTTAGATTGAT
77994303 TGCGTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (23 bp):
ATTTGTGATTGTGTTAGATTGAT
Found at i:77998224 original size:22 final size:22
Alignment explanation
Indices: 77998196--77998237 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
77998186 CACATTTGTA
* *
77998196 TTTTTTATTTCATATTTTAAGT
1 TTTTTTAATTAATATTTTAAGT
77998218 TTTTTTAATTAATATTTTAA
1 TTTTTTAATTAATATTTTAA
77998238 ATTAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTTAATTAATATTTTAAGT
Found at i:77999216 original size:30 final size:30
Alignment explanation
Indices: 77999167--77999224 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
77999157 AAACTTTTGT
* *
77999167 ACTTTTCCCCAATACTTTTACTC-CCTCCC
1 ACTTTCCCCCAAAACTTTTACTCTCCTCCC
77999196 ACTTTCCCCACAAAACTTTTACTCTCCTC
1 ACTTTCCCC-CAAAACTTTTACTCTCCTC
77999225 TCATCCCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 13 0.52
31 4 0.16
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (30 bp):
ACTTTCCCCCAAAACTTTTACTCTCCTCCC
Found at i:78007343 original size:3 final size:3
Alignment explanation
Indices: 78007335--78007359 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
78007325 AATTTTGAAG
78007335 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
78007360 TTAATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:78009487 original size:26 final size:26
Alignment explanation
Indices: 78009423--78009474 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
78009413 AATTAAAAGC
* *
78009423 TAAATAATTATAAATAGTAATATATGA
1 TAAA-AATCATAAATAGTAATAAATGA
*
78009450 TAAAAATGATAAATAGTAATAAATG
1 TAAAAATCATAAATAGTAATAAATG
78009475 TTTAATAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.33
Consensus pattern (26 bp):
TAAAAATCATAAATAGTAATAAATGA
Found at i:78020846 original size:40 final size:40
Alignment explanation
Indices: 78020809--78020992 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
78020799 GCTACTCGTT
*
78020809 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
78020849 CAATTGCCTTCAGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
78020889 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
78020928 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
78020969 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
78020993 ACATCATTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 72 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:78020920 original size:79 final size:82
Alignment explanation
Indices: 78020776--78020993 Score: 231
Period size: 79 Copynumber: 2.7 Consensus size: 82
78020766 AAATCACGTA
** * *
78020776 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
78020836 ATAGTAACTCGCACAATTG
64 ATAGTAACTCGCACAAATG
*
78020855 CCTTCAGGA-CTTAACCCGGATTTAGTAACTCA-CACAAATGCCTTCGGG-CTTAGCCCGGAAT-
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
78020916 TAGTATCTCGCACAAATG
65 TAGTAACTCGCACAAATG
** * * *
78020934 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGA
78020994 CATCATTCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 17
0.80 0.09 0.12
Matches are distributed among these distances:
78 3 0.03
79 67 0.57
80 47 0.40
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (82 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATAT
AGTAACTCGCACAAATG
Found at i:78024793 original size:21 final size:20
Alignment explanation
Indices: 78024751--78024795 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
78024741 TTTCCCCTTT
**
78024751 CTTTCTTTTTATTTTTTTTC
1 CTTTCTTTTTATTTTTACTC
*
78024771 CTTTCTTTCTTCTTTTTACTC
1 CTTTCTTT-TTATTTTTACTC
78024792 CTTT
1 CTTT
78024796 GGTTCATCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTTCTTTTTATTTTTACTC
Found at i:78026124 original size:18 final size:18
Alignment explanation
Indices: 78026090--78026368 Score: 134
Period size: 18 Copynumber: 15.1 Consensus size: 18
78026080 TCATTAACTC
* *
78026090 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
78026107 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* **
78026125 TCGGTAACAATCAAATAT
1 TCAGTAACAATCAGTTAT
* * *
78026143 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
78026161 TCAGTATCGATCAATTGATCGATTAT
1 TCAGTA---A-CAA-TCA--G-TTAT
* * * *
78026187 CCAATAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
78026205 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
*
78026224 TCAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
78026242 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
78026260 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
78026278 TCAGTAATATTTAGTTAT
1 TCAGTAACAATCAGTTAT
* *
78026296 TCAGTAACAGTCTA-ATAT
1 TCAGTAACAATC-AGTTAT
* * *
78026314 CCAGTAACAGTCAATTA-
1 TCAGTAACAATCAGTTAT
* * *
78026331 TCTGGTAACAGTCAATTAT
1 TC-AGTAACAATCAGTTAT
*
78026350 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
78026368 T
1 T
78026369 TTATACCTTT
Statistics
Matches: 195, Mismatches: 51, Indels: 31
0.70 0.18 0.11
Matches are distributed among these distances:
17 8 0.04
18 149 0.76
19 20 0.10
21 3 0.02
22 4 0.02
23 2 0.01
25 1 0.01
26 8 0.04
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:78026346 original size:72 final size:72
Alignment explanation
Indices: 78026182--78026368 Score: 200
Period size: 72 Copynumber: 2.6 Consensus size: 72
78026172 CAATTGATCG
* * * * *
78026182 ATTATCCAATAACAGTCAATTATTCAGTAACAATTAAGTTATTCAGTAACAGTCATTCATTCAGT
1 ATTATTCAGTAACAGTCAATTATTCAGTAA-TATTAAGTTATTCAGTAACAGTCAATCATCCAGT
*
78026247 GACAATCA
65 AACAATCA
* * *
78026255 GTTATTCAGTAA-TGATCAATTATTCAGTAATATTTAGTTATTCAGTAACAGTCTAAT-ATCCAG
1 ATTATTCAGTAACAG-TCAATTATTCAGTAATATTAAGTTATTCAGTAACAGTC-AATCATCCAG
*
78026318 TAACAGTCA
64 TAACAATCA
* * *
78026327 ATTA-TCTGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 ATTATTC-AGTAACAGTCAATTATTCAGTAATATTAAGTTATT
78026369 TTATACCTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
71 2 0.02
72 66 0.69
73 27 0.28
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (72 bp):
ATTATTCAGTAACAGTCAATTATTCAGTAATATTAAGTTATTCAGTAACAGTCAATCATCCAGTA
ACAATCA
Found at i:78026667 original size:45 final size:45
Alignment explanation
Indices: 78026550--78026690 Score: 219
Period size: 45 Copynumber: 3.1 Consensus size: 45
78026540 CAGTAATAGT
* **
78026550 ACAGTAACAATATCCGACACACAAAGTACCGAATCGGTAACGGTA
1 ACAGTAACAATATTCGACACACAAAGTGTCGAATCGGTAACGGTA
78026595 ACAGTAACAATATTCGACACACAAAGTGTCGAATCGGTAACGGTA
1 ACAGTAACAATATTCGACACACAAAGTGTCGAATCGGTAACGGTA
* * *
78026640 ACAGTAACAATATTCGACACACAAAGTGTGGAATTGGTAACAGTA
1 ACAGTAACAATATTCGACACACAAAGTGTCGAATCGGTAACGGTA
*
78026685 GCAGTA
1 ACAGTA
78026691 GCGGTAACAG
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 89 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (45 bp):
ACAGTAACAATATTCGACACACAAAGTGTCGAATCGGTAACGGTA
Found at i:78028250 original size:5 final size:5
Alignment explanation
Indices: 78028237--78028278 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
78028227 TTCTTTAGTT
78028237 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
78028279 TAAAACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:78030590 original size:24 final size:26
Alignment explanation
Indices: 78030561--78030609 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
78030551 AGTTAATTAA
*
78030561 ATTATTTAATTTTATT-TA-ATTTTT
1 ATTATTTAATTATATTGTACATTTTT
78030585 ATTATTTAATTATATTGTACATTTT
1 ATTATTTAATTATATTGTACATTTT
78030610 GAAGTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTATTTAATTATATTGTACATTTTT
Found at i:78031724 original size:18 final size:18
Alignment explanation
Indices: 78031701--78031735 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78031691 TAAAAGAAAC
*
78031701 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
78031719 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
78031736 CGCACTTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:78042028 original size:12 final size:12
Alignment explanation
Indices: 78042006--78042047 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
78041996 TTCACTATCT
*
78042006 ATTATTATAATA
1 ATTAATATAATA
*
78042018 AATAATATAATA
1 ATTAATATAATA
*
78042030 ATTATTATAATA
1 ATTAATATAATA
78042042 ATTAAT
1 ATTAAT
78042048 TGGCTTGGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTAATATAATA
Found at i:78042483 original size:7 final size:7
Alignment explanation
Indices: 78042471--78042495 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
78042461 AATACAATAT
78042471 ATATTAA
1 ATATTAA
78042478 ATATTAA
1 ATATTAA
78042485 ATATTAA
1 ATATTAA
78042492 ATAT
1 ATAT
78042496 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATTAA
Found at i:78042534 original size:20 final size:19
Alignment explanation
Indices: 78042498--78042537 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
78042488 TTAAATATAA
* *
78042498 TTAAAAAATATTTTAAAAC
1 TTAAAAAATAATATAAAAC
78042517 TTAAAAAACTAATATAAAAC
1 TTAAAAAA-TAATATAAAAC
78042537 T
1 T
78042538 CTATGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAAATAATATAAAAC
Found at i:78046071 original size:16 final size:15
Alignment explanation
Indices: 78046042--78046091 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
78046032 TATTTTTTTC
*
78046042 AAATCAAGTCGAGTG
1 AAATCAAATCGAGTG
* *
78046057 AAATGAAATTCGAGTC
1 AAATCAAA-TCGAGTG
*
78046073 TAATCAAATCGAGTG
1 AAATCAAATCGAGTG
78046088 AAAT
1 AAAT
78046092 TGTTCAAGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (15 bp):
AAATCAAATCGAGTG
Found at i:78046350 original size:19 final size:19
Alignment explanation
Indices: 78046326--78046424 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 19
78046316 TTATTTATAT
78046326 ATTATTTAGAATTTTTTAA
1 ATTATTTAGAATTTTTTAA
*
78046345 ATTA-TTATAATTTTTTAAAA
1 ATTATTTAGAATTTTTT--AA
*
78046365 ATATAAATTTTTGAATTTTTATAA
1 AT-T--A-TTTAGAATTTTT-TAA
* **
78046389 A-TATTTTGAATTTTAAAA
1 ATTATTTAGAATTTTTTAA
78046407 ATTATTTAGAACTTTTTT
1 ATTATTTAGAA-TTTTTT
78046425 TTGTAATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
18 14 0.23
19 23 0.37
20 9 0.15
21 1 0.02
22 1 0.02
23 1 0.02
24 3 0.05
25 9 0.15
26 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTATTTAGAATTTTTTAA
Found at i:78046373 original size:17 final size:18
Alignment explanation
Indices: 78046335--78046376 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
78046325 TATTATTTAG
*
78046335 AATTTTTTAAATTATTAT
1 AATTTTTTAAAATATTAT
78046353 AATTTTTTAAAA-A-TAT
1 AATTTTTTAAAATATTAT
78046369 AAATTTTT
1 -AATTTTT
78046377 GAATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 8 0.36
18 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTTTAAAATATTAT
Found at i:78056327 original size:18 final size:17
Alignment explanation
Indices: 78056304--78056346 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
78056294 GCAAACGGGA
78056304 TGGTTTATGGAAAACTGC
1 TGGTTTATGG-AAACTGC
*
78056322 TGGTTT-TGGGAACTGC
1 TGGTTTATGGAAACTGC
*
78056338 TGGATTATG
1 TGGTTTATG
78056347 AGAGTGCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 5 0.23
18 6 0.27
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.37
Consensus pattern (17 bp):
TGGTTTATGGAAACTGC
Found at i:78056674 original size:21 final size:21
Alignment explanation
Indices: 78056633--78056676 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
78056623 TTTGAAAGAA
* *
78056633 TATTGTTTTAGAAAATTATTT
1 TATTATTTTAGAAAATAATTT
78056654 TATTATTTTA-AAAATAAATTT
1 TATTATTTTAGAAAAT-AATTT
78056675 TA
1 TA
78056677 CTTCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TATTATTTTAGAAAATAATTT
Found at i:78059967 original size:40 final size:40
Alignment explanation
Indices: 78059923--78060004 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
78059913 TAATGACTCT
* * * *
78059923 TTACACCTTTCACAATATGTACCACCATGTTGTCCAACCA
1 TTACACCTTCCACAATATATACCACCATATTATCCAACCA
** *
78059963 TTACACCTTCCACGGTGTATACCACCATATTATCCAACCA
1 TTACACCTTCCACAATATATACCACCATATTATCCAACCA
78060003 TT
1 TT
78060005 TACAAGTCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.30
Consensus pattern (40 bp):
TTACACCTTCCACAATATATACCACCATATTATCCAACCA
Found at i:78066911 original size:19 final size:20
Alignment explanation
Indices: 78066874--78066916 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
78066864 TATAATTCCA
*
78066874 AAAATATGAAAAAGTAAAT-
1 AAAATATGAAAAAGAAAATG
78066893 AAAATAT-AAAAATGAAAATG
1 AAAATATGAAAAA-GAAAATG
78066913 AAAA
1 AAAA
78066917 CAATGATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (20 bp):
AAAATATGAAAAAGAAAATG
Found at i:78072819 original size:20 final size:20
Alignment explanation
Indices: 78072796--78072840 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
78072786 AATTTGATTG
*
78072796 TTTGAAACACTATTTGAAAT
1 TTTGAAACACTATTTGAAAA
* *
78072816 TTTGAAACCCTGTTTGAAAA
1 TTTGAAACACTATTTGAAAA
78072836 TTTGA
1 TTTGA
78072841 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (20 bp):
TTTGAAACACTATTTGAAAA
Found at i:78087653 original size:181 final size:181
Alignment explanation
Indices: 78087342--78087702 Score: 488
Period size: 181 Copynumber: 2.0 Consensus size: 181
78087332 TGAGGTTTGT
* * * * *
78087342 AGTTAGGGTCAATGAATAGGTTGAGCTGTTGAATTTATTTTCGCAATTTAGTATTAGAATGAGCC
1 AGTTAGGGTCAATGAATAAGTCGAGCAGTTGAAATTATTTTCGCAATTTAGTACTAGAATGAGCC
** ** * *** *
78087407 TGTTGGTTTGGTGGTTGAATAAGTGTTAGTTTATCATTAGGTCTTGGGTTCAAGTCCTTATGTGT
66 TACTGGTTCAGTGGTTGAATAAGTGTTAGTCTATCATTAGGTCTCAAGTTCAAGTCCTCATGTGT
*
78087472 GTTATTTTAGTTTTGGTTCAAATCTAGTTTTGTTTTAAAGATTAATTATTA
131 GTTATTTTAGTTTCGGTTCAAATCTAGTTTTGTTTTAAAGATTAATTATTA
* * * *
78087523 AGTTAGGGTCAATGAGTAAGTCGAGCAGTTGAAATTATTTTCTCAATTTAGTGCTAGAATGAGTC
1 AGTTAGGGTCAATGAATAAGTCGAGCAGTTGAAATTATTTTCGCAATTTAGTACTAGAATGAGCC
* * **
78087588 TACTGGTTCAGTGGTTGAATGAGTGTTAGTCTATCATTGGGTCTCAAGTTTGAGTCCTCATGTGT
66 TACTGGTTCAGTGGTTGAATAAGTGTTAGTCTATCATTAGGTCTCAAGTTCAAGTCCTCATGTGT
* * *
78087653 GTTATTTTAGTTTCGGTTTAAGTCTAGTTTTGTTTTAAAGGTTAATTATT
131 GTTATTTTAGTTTCGGTTCAAATCTAGTTTTGTTTTAAAGATTAATTATT
78087703 TATTTACTTT
Statistics
Matches: 154, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
181 154 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (181 bp):
AGTTAGGGTCAATGAATAAGTCGAGCAGTTGAAATTATTTTCGCAATTTAGTACTAGAATGAGCC
TACTGGTTCAGTGGTTGAATAAGTGTTAGTCTATCATTAGGTCTCAAGTTCAAGTCCTCATGTGT
GTTATTTTAGTTTCGGTTCAAATCTAGTTTTGTTTTAAAGATTAATTATTA
Found at i:78090483 original size:27 final size:27
Alignment explanation
Indices: 78090453--78090508 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
78090443 TTGTAATGTT
*
78090453 TTCAAATTTTAGTGTTGACATCACAAC
1 TTCAAATTTTAGAGTTGACATCACAAC
*
78090480 TTCAAATTTTGGAGTTGACATCACAAC
1 TTCAAATTTTAGAGTTGACATCACAAC
78090507 TT
1 TT
78090509 TAAGGGTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (27 bp):
TTCAAATTTTAGAGTTGACATCACAAC
Found at i:78100022 original size:59 final size:59
Alignment explanation
Indices: 78099980--78100119 Score: 149
Period size: 59 Copynumber: 2.4 Consensus size: 59
78099970 TGTTTAGGAC
**
78099980 CTAACTT-AATAAAAAAAAAGTTTAGGCCTTAAAGTGAGAACAATTGCCAAGTTCACGGA
1 CTAACTTGAAT-AAAAAAAAGTTTAGGCCCCAAAGTGAGAACAATTGCCAAGTTCACGGA
* * * * * *
78100039 CTAATTTGGATAAAAAAAAGTTTAGGCCCCAATGTGAGAATAATTGTCAAGTTCA-GAGC
1 CTAACTTGAATAAAAAAAAGTTTAGGCCCCAAAGTGAGAACAATTGCCAAGTTCACG-GA
* * *
78100098 CTAATTTGGATAAAAGAAAGTT
1 CTAACTTGAATAAAAAAAAGTT
78100120 CAAGCTTCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 67 0.96
60 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (59 bp):
CTAACTTGAATAAAAAAAAGTTTAGGCCCCAAAGTGAGAACAATTGCCAAGTTCACGGA
Found at i:78100131 original size:59 final size:59
Alignment explanation
Indices: 78100013--78100150 Score: 179
Period size: 59 Copynumber: 2.3 Consensus size: 59
78100003 AGGCCTTAAA
* * *
78100013 GTGAGAACAATTGCCAAGTTCACGGACTAATTTGGATAAAAAAAAGTTTAGGCCCCAAT
1 GTGAGAACAATTGTCAAGTTCACGGACTAATTTGGATAAAAAAAAGTTCAAGCCCCAAT
* * * **
78100072 GTGAGAATAATTGTCAAGTTCA-GAGCCTAATTTGGATAAAAGAAAGTTCAAGCTTCAAT
1 GTGAGAACAATTGTCAAGTTCACG-GACTAATTTGGATAAAAAAAAGTTCAAGCCCCAAT
*
78100131 GTGAGAACATTTGTCAAGTT
1 GTGAGAACAATTGTCAAGTT
78100151 AAAAGGCTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 1 0.01
59 67 0.99
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (59 bp):
GTGAGAACAATTGTCAAGTTCACGGACTAATTTGGATAAAAAAAAGTTCAAGCCCCAAT
Found at i:78105511 original size:31 final size:31
Alignment explanation
Indices: 78105468--78105534 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
78105458 ATATATATAT
* *
78105468 ATATATATATGAAACTTTGATTATAATTCAA
1 ATATATACATGAAACTTTCATTATAATTCAA
*
78105499 ATATATACATGAAACTTTCATTTTAATTCAA
1 ATATATACATGAAACTTTCATTATAATTCAA
*
78105530 TTATA
1 ATATA
78105535 CACGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (31 bp):
ATATATACATGAAACTTTCATTATAATTCAA
Found at i:78116364 original size:5 final size:5
Alignment explanation
Indices: 78116354--78116382 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
78116344 CTTTTTCCTT
78116354 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
78116383 CACTTAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:78121469 original size:30 final size:30
Alignment explanation
Indices: 78121412--78121470 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78121402 CTATGTATAT
*
78121412 TTTTTTATTAAATTGAATGTTATTATATGA
1 TTTTTTATTAAATTGAATCTTATTATATGA
78121442 TTTTTT-TTAAA-TGAATCTATATATATATG
1 TTTTTTATTAAATTGAATCT-TAT-TATATG
78121471 TTATTATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 6 0.23
29 8 0.31
30 12 0.46
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (30 bp):
TTTTTTATTAAATTGAATCTTATTATATGA
Found at i:78124598 original size:57 final size:57
Alignment explanation
Indices: 78124525--78124638 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
78124515 AAGTTTCTTG
* *
78124525 GCACTGATCATTCCAGACGAACTAAAAATTCTTTTGCAACAACTTTGTCATCGGCAA
1 GCACTGATCATCCCAGACGAACTAAAAATTCTTTTGCAACAACTTTGTCATCAGCAA
78124582 GCACTGATCATCCCAGACGAACTAAAAATTCTTTTGCAACAACTTTGTCATCAGCAA
1 GCACTGATCATCCCAGACGAACTAAAAATTCTTTTGCAACAACTTTGTCATCAGCAA
78124639 AACTATCTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.27
Consensus pattern (57 bp):
GCACTGATCATCCCAGACGAACTAAAAATTCTTTTGCAACAACTTTGTCATCAGCAA
Found at i:78127100 original size:41 final size:42
Alignment explanation
Indices: 78127043--78127122 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
78127033 TTGCAAGGGA
*
78127043 CACACGGCCAAGTCACACA-CCCGTGTGT-TAGCCATGTGTCT
1 CACACGGCCAAGTCACA-AGCCCATGTGTCTAGCCATGTGTCT
* * *
78127084 CACACGGTCTAGTCACAAGCCCATGTGTCTAGCCGTGTG
1 CACACGGCCAAGTCACAAGCCCATGTGTCTAGCCATGTG
78127123 GACTCAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 23 0.70
42 9 0.27
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.23
Consensus pattern (42 bp):
CACACGGCCAAGTCACAAGCCCATGTGTCTAGCCATGTGTCT
Found at i:78128927 original size:17 final size:18
Alignment explanation
Indices: 78128900--78128933 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
78128890 AACCTTAGCT
78128900 TTTTCTCTTTTCTTTCTC
1 TTTTCTCTTTTCTTTCTC
78128918 TTTT-TCTTTTCTTTCT
1 TTTTCTCTTTTCTTTCT
78128934 TTCCTTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTCTTTTCTTTCTC
Found at i:78128936 original size:25 final size:24
Alignment explanation
Indices: 78128900--78128953 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
78128890 AACCTTAGCT
* *
78128900 TTTTCTCTTTTCTTTCTCTTTTTC
1 TTTTCTCTTTTCCTTCTCTGTTTC
*
78128924 TTTTCTTTCTTTCCTTCTCTGTTTC
1 TTTTCTCT-TTTCCTTCTCTGTTTC
*
78128949 ATTTC
1 TTTTC
78128954 AACGTTTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTCTCTTTTCCTTCTCTGTTTC
Found at i:78129869 original size:21 final size:22
Alignment explanation
Indices: 78129820--78129881 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 22
78129810 TTACATCATC
* *
78129820 AACAAAAGCTCATAAGAGCTGGT
1 AACAAAAGCTCGTAAGAGCT-GA
78129843 AACAAAAGCTCGTAAGAGCT-A
1 AACAAAAGCTCGTAAGAGCTGA
78129864 AACAAAAGCTCGTAAGAG
1 AACAAAAGCTCGTAAGAG
78129882 TTGATCCACC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 18 0.49
23 19 0.51
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (22 bp):
AACAAAAGCTCGTAAGAGCTGA
Found at i:78134346 original size:30 final size:30
Alignment explanation
Indices: 78134251--78134347 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
78134241 AGCTCACTCC
** * * *
78134251 TAGCTCATTTTCAACTCATGAGCTAAACCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
* * **
78134281 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAG-CT
* *
78134311 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
78134341 TAGCTCA
1 TAGCTCA
78134348 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
29 2 0.04
30 45 0.90
31 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAAGCT
Found at i:78134775 original size:13 final size:13
Alignment explanation
Indices: 78134757--78134781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78134747 GTATTGATCA
78134757 TGTGTTCACACCT
1 TGTGTTCACACCT
78134770 TGTGTTCACACC
1 TGTGTTCACACC
78134782 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:78139511 original size:8 final size:8
Alignment explanation
Indices: 78139498--78139528 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
78139488 ACGTTAGAAT
78139498 GCCGAAAA
1 GCCGAAAA
*
78139506 GCCGAAAT
1 GCCGAAAA
78139514 GCCGAAAA
1 GCCGAAAA
78139522 GCCGAAA
1 GCCGAAA
78139529 GTCTGGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.45, C:0.26, G:0.26, T:0.03
Consensus pattern (8 bp):
GCCGAAAA
Found at i:78139516 original size:16 final size:16
Alignment explanation
Indices: 78139495--78139528 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
78139485 CACACGTTAG
78139495 AATGCCGAAAAGCCGA
1 AATGCCGAAAAGCCGA
78139511 AATGCCGAAAAGCCGA
1 AATGCCGAAAAGCCGA
78139527 AA
1 AA
78139529 GTCTGGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.24, G:0.24, T:0.06
Consensus pattern (16 bp):
AATGCCGAAAAGCCGA
Found at i:78139786 original size:28 final size:27
Alignment explanation
Indices: 78139750--78139815 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
78139740 GCTTGGAATT
78139750 GATTCGGGCCAGATAGACCATATGAATGA
1 GATT-GGGCCAG-TAGACCATATGAATGA
* * *
78139779 GATTGGGCGTAGTGGGCCATATGAATGA
1 GATTGGGC-CAGTAGACCATATGAATGA
78139807 GATTGGGCC
1 GATTGGGCC
78139816 TAATGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (27 bp):
GATTGGGCCAGTAGACCATATGAATGA
Found at i:78139822 original size:28 final size:28
Alignment explanation
Indices: 78139767--78139829 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
78139757 GCCAGATAGA
* *
78139767 CCATATGAATGAGATTGGGCGTAGTGGG
1 CCATATGAATGAGATTGGGCCTAATGGG
78139795 CCATATGAATGAGATTGGGCCTAATGGG
1 CCATATGAATGAGATTGGGCCTAATGGG
78139823 CCATATG
1 CCATATG
78139830 CATGTACGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.25
Consensus pattern (28 bp):
CCATATGAATGAGATTGGGCCTAATGGG
Found at i:78142409 original size:105 final size:105
Alignment explanation
Indices: 78142227--78142432 Score: 322
Period size: 105 Copynumber: 2.0 Consensus size: 105
78142217 ACGCACTTTG
* *
78142227 AATCACTCGATTTAGATTTCAGGAGCTCAATTTATGATCGTTTTAGTGAAGATTGCATGAGTAGA
1 AATCACTCGATTTAGATTTCAGGAGCTCAATTTATGACCGTTTTAGTGAAGATTGCACGAGTAGA
* *
78142292 ATTTTTGGATGAAATTAGTACAAAAATTACGAGTTTTTTT
66 ATTTCTAGATGAAATTAGTACAAAAATTACGAGTTTTTTT
* * * **
78142332 AATCACTTGATTTCGATTTCAGGGGCTCAATTTATGACCGTTTTAGTGAAGATTGTGCGAGTAGA
1 AATCACTCGATTTAGATTTCAGGAGCTCAATTTATGACCGTTTTAGTGAAGATTGCACGAGTAGA
*
78142397 ATTTCTAGATGAAATTATTACAAAAATTACGAGTTT
66 ATTTCTAGATGAAATTAGTACAAAAATTACGAGTTT
78142433 AAGGCTTTTA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (105 bp):
AATCACTCGATTTAGATTTCAGGAGCTCAATTTATGACCGTTTTAGTGAAGATTGCACGAGTAGA
ATTTCTAGATGAAATTAGTACAAAAATTACGAGTTTTTTT
Found at i:78144532 original size:18 final size:18
Alignment explanation
Indices: 78144509--78144568 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
78144499 TTTTGTAAAA
*
78144509 TTTTTGTAATTTTTTATT
1 TTTTTGTAATTTTATATT
78144527 TTTTTGTAATTTTATATAT
1 TTTTTGTAATTTTATAT-T
** **
78144546 TTTCAGTAATTTCCTATT
1 TTTTTGTAATTTTATATT
78144564 TTTTT
1 TTTTT
78144569 AAAAAGTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 20 0.59
19 14 0.41
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTGTAATTTTATATT
Found at i:78144633 original size:18 final size:18
Alignment explanation
Indices: 78144612--78144670 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
78144602 ATACAATAAT
*
78144612 TTTTATATTTTTTTACAC
1 TTTTATATTTTTTTACAA
* * *
78144630 TTTTTTATTATTTTATAA
1 TTTTATATTTTTTTACAA
* * *
78144648 TTTTATAATTTTTAATAA
1 TTTTATATTTTTTTACAA
78144666 TTTTA
1 TTTTA
78144671 AAGAAAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATTTTTTTACAA
Found at i:78144667 original size:10 final size:9
Alignment explanation
Indices: 78144607--78144669 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 9
78144597 GTCATATACA
78144607 ATAATTTTT
1 ATAATTTTT
78144616 AT-ATTTTT
1 ATAATTTTT
*
78144624 TTACACTTTTT
1 ATA-A-TTTTT
*
78144635 -TATTATTTT
1 ATAAT-TTTT
78144644 ATAA-TTTT
1 ATAATTTTT
78144652 ATAATTTTT
1 ATAATTTTT
78144661 AATAATTTT
1 -ATAATTTT
78144670 AAAGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
8 16 0.36
9 10 0.23
10 13 0.30
11 5 0.11
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (9 bp):
ATAATTTTT
Found at i:78146506 original size:2 final size:2
Alignment explanation
Indices: 78146499--78146529 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
78146489 TAAGTCCTTG
*
78146499 CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
78146530 AAAATATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:78153161 original size:43 final size:43
Alignment explanation
Indices: 78153113--78153255 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
78153103 TTCAACTAAC
* * * *
78153113 TCGCACACTTAGTGACAATTAATTAGTCGAAGCTATAATTATT
1 TCGCACACTTAGTGACAAATAATTAGCCGAAGCTATAATTGTA
* * *
78153156 TCGCACATTTAGTGCCAAATAACTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGACAAATAATTAGCCGAAGCTATAATTGTA
*
78153199 TCGCACACTTAGTGTCAAATAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGACAAATAATTAGCCGAAGCTATAATTGTA
78153242 TCGCACACTTAGTG
1 TCGCACACTTAGTG
78153256 CCATTACATT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (43 bp):
TCGCACACTTAGTGACAAATAATTAGCCGAAGCTATAATTGTA
Found at i:78157024 original size:52 final size:51
Alignment explanation
Indices: 78156909--78157085 Score: 204
Period size: 52 Copynumber: 3.5 Consensus size: 51
78156899 ACATACCAAG
* * * * *
78156909 GCCATAGCCCAGCCATGGTCTTATACGGATCACATATCACA---CT--GAT
1 GCCATAGCCCAACTATGGTCTTATACGAAGCACATATCACATTTCTCCGAA
* *
78156955 GCCATATCCCAGA-TATGGTCTTATACAGTAGCACATATCACATTTCTCCGAA
1 GCCATAGCCCA-ACTATGGTCTTATAC-GAAGCACATATCACATTTCTCCGAA
*
78157007 GCCATAGCCCAACTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
1 GCCATAGCCCAACTATGGTCTTATAC-GAAGCACATATCACATTTCTCCGAA
*
78157059 GCCATAGCCCAGCTATGGTCTTATACG
1 GCCATAGCCCAACTATGGTCTTATACG
78157086 GAAATCACAT
Statistics
Matches: 112, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
46 22 0.20
47 13 0.12
50 2 0.02
51 2 0.02
52 73 0.65
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (51 bp):
GCCATAGCCCAACTATGGTCTTATACGAAGCACATATCACATTTCTCCGAA
Found at i:78157086 original size:52 final size:52
Alignment explanation
Indices: 78156955--78157088 Score: 214
Period size: 52 Copynumber: 2.6 Consensus size: 52
78156945 TCACACTGAT
* * * * *
78156955 GCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCTCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
*
78157007 GCCATAGCCCAACTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
78157059 GCCATAGCCCAGCTATGGTCTTATACGGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAA
78157089 ATCACATTTC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (52 bp):
GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
Found at i:78158786 original size:53 final size:53
Alignment explanation
Indices: 78158646--78158803 Score: 187
Period size: 54 Copynumber: 2.9 Consensus size: 53
78158636 GGACTATGGC
* * *
78158646 AACAAATGATAAGCGATATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAA
1 AACAAGTGATAAACGAT-CCCGTATAAGACCATAGCTGGGCTATGGCATCGGAA
* * *
78158700 AACAAGTGATAAATGATTCCCGTATAAGACCATAGCTGGGCTATGGCTTCGGATT
1 AACAAGTGATAAACGA-TCCCGTATAAGACCATAGCTGGGCTATGGCATCGGA-A
*
78158755 AA-AA-TGATACAAGCGA-CTCGTATAAGACCATAGCTGGGCTATGGCATCG
1 AACAAGTGATA-AA-CGATCCCGTATAAGACCATAGCTGGGCTATGGCATCG
78158804 AAGAAATGTG
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
53 36 0.40
54 50 0.55
55 5 0.05
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (53 bp):
AACAAGTGATAAACGATCCCGTATAAGACCATAGCTGGGCTATGGCATCGGAA
Found at i:78158816 original size:53 final size:51
Alignment explanation
Indices: 78158665--78158816 Score: 175
Period size: 53 Copynumber: 2.9 Consensus size: 51
78158655 TAAGCGATAT
*
78158665 CCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAACAAGTGATAAATGATTC
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGG-AAA-AAGTGATAAACGA-TC
*
78158719 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGATTAAAA-TGATACAAGCGA-C
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGA--AAAAGTGATA-AA-CGATC
*
78158772 TCGTATAAGACCATAGCTGGGCTATGGCATC-GAAGAAATGTGATA
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGAA-AAA-GTGATA
78158817 GGTGCTCCCG
Statistics
Matches: 87, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
50 1 0.01
51 3 0.03
52 2 0.02
53 41 0.47
54 36 0.41
55 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (51 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAGTGATAAACGATC
Found at i:78165183 original size:43 final size:43
Alignment explanation
Indices: 78165135--78165280 Score: 220
Period size: 43 Copynumber: 3.4 Consensus size: 43
78165125 TTCAACTAAC
* * * *
78165135 TCGCACACTTAGTGCCAATTAATTAGTCGAAGCTATAATTATT
1 TCGCACACTTAGTGCCAAATAATTAGCCGAAGCTATAATTGTA
* *
78165178 TCGCACATTTAGTGCCAAATAACTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAAATAATTAGCCGAAGCTATAATTGTA
*
78165221 TCGCACACTTAGTGTCAAATAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAAATAATTAGCCGAAGCTATAATTGTA
*
78165264 TCACACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
78165281 TTACATTAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAAATAATTAGCCGAAGCTATAATTGTA
Found at i:78171458 original size:127 final size:126
Alignment explanation
Indices: 78171321--78171623 Score: 383
Period size: 127 Copynumber: 2.4 Consensus size: 126
78171311 TCGAAACCCG
* * *
78171321 GCACGGTAGGGCATGATTCCTTGAACTTCCAAACATTGAACATTGCCTTGCTTTAAAATTTATAA
1 GCACGGTAGGGCATGATTCC-CGAATTTCCAAACATTGAACATTGCCTTGCTTTAAAATTTAGAA
* *
78171386 AACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCG-GAAATCAAAAACCA
65 AACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAA-CGAGAAACCAAAAACCA
* * * * * *
78171448 GCACGATAGGGCACGATTCCCCGAATTTCCAAACCTTGAACATTGCCTTGTTTTAGAATTTGGAA
1 GCACGGTAGGGCATGATT-CCCGAATTTCCAAACATTGAACATTGCCTTGCTTTAAAATTTAGAA
* * * * * *
78171513 AACACGAGTGAAATTCTAAAAGAATATTCGATTATTTTGAACAAACGAGAAACCGAAACCCA
65 AACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAACGAGAAACCAAAAACCA
* **
78171575 GCACGGTAGGGCATGATTTCCCGAATTTCTAAACATCAAACATTGCCTT
1 GCACGGTAGGGCATGA-TTCCCGAATTTCCAAACATTGAACATTGCCTT
78171624 CATTTTAAAG
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
126 2 0.01
127 144 0.96
128 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (126 bp):
GCACGGTAGGGCATGATTCCCGAATTTCCAAACATTGAACATTGCCTTGCTTTAAAATTTAGAAA
ACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAACGAGAAACCAAAAACCA
Found at i:78180970 original size:30 final size:30
Alignment explanation
Indices: 78180912--78180970 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
78180902 TATTTTATTG
* *
78180912 TTAATTTTATTATTATTTTAAAGGCATTTA
1 TTAATTTTATTATTATTGTAAAGACATTTA
* *
78180942 TTAATTTTGTTATTATTGTAGAGACATTT
1 TTAATTTTATTATTATTGTAAAGACATTT
78180971 GTTTGTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (30 bp):
TTAATTTTATTATTATTGTAAAGACATTTA
Found at i:78181860 original size:14 final size:15
Alignment explanation
Indices: 78181838--78181873 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
78181828 TTTCTTCTAA
78181838 TATAAATAAATATTT
1 TATAAATAAATATTT
*
78181853 TA-AAATAACTATTT
1 TATAAATAAATATTT
78181867 TATAAAT
1 TATAAAT
78181874 TCTGATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAAATAAATATTT
Found at i:78190411 original size:12 final size:12
Alignment explanation
Indices: 78190394--78190418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78190384 TCGGTTAATT
78190394 CGGTTAACCGAC
1 CGGTTAACCGAC
78190406 CGGTTAACCGAC
1 CGGTTAACCGAC
78190418 C
1 C
78190419 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:78190594 original size:9 final size:9
Alignment explanation
Indices: 78190580--78190658 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
78190570 TTTGGTTAAA
78190580 AATTACCCG
1 AATTACCCG
78190589 AATTACCCG
1 AATTACCCG
78190598 AATTACCCG
1 AATTACCCG
78190607 AATTACCCG
1 AATTACCCG
78190616 AATTACCCG
1 AATTACCCG
*
78190625 AATTAACCG
1 AATTACCCG
*
78190634 AATTAACCG
1 AATTACCCG
*
78190643 AATTAACCG
1 AATTACCCG
78190652 AATTACC
1 AATTACC
78190659 GAAAAATACC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:78192488 original size:47 final size:47
Alignment explanation
Indices: 78192435--78192540 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 47
78192425 CAACCAACAC
* * * **
78192435 ACAGTACGACACTCAGTGCCTCATTGGCTT-TGCCGAAGTAAACAGTA
1 ACAGTACGACACTCAGTACCTCATCGGATTAAACCGAAGT-AACAGTA
** *
78192482 ACAGTACGGTACTCAGTACCTCATCGGATTAAACCGATGTAACAGTA
1 ACAGTACGACACTCAGTACCTCATCGGATTAAACCGAAGTAACAGTA
*
78192529 GCAGTACGACAC
1 ACAGTACGACAC
78192541 ATATGGTGCC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (47 bp):
ACAGTACGACACTCAGTACCTCATCGGATTAAACCGAAGTAACAGTA
Done.