Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 182 of 373
Found at i:60973973 original size:13 final size:13
Alignment explanation
Indices: 60973955--60973979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60973945 TAACCTACAA
60973955 AATTAAATAACAT
1 AATTAAATAACAT
60973968 AATTAAATAACA
1 AATTAAATAACA
60973980 CACAACTATT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:60974238 original size:10 final size:10
Alignment explanation
Indices: 60974205--60974250 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
60974195 AAAAAGGAAT
60974205 GAGCTGAAAC
1 GAGCTGAAAC
60974215 GAGCT-AAATTC
1 GAGCTGAAA--C
60974226 GAGCTGAAAC
1 GAGCTGAAAC
*
60974236 GAGCTAAAAC
1 GAGCTGAAAC
60974246 GAGCT
1 GAGCT
60974251 CAAGTGAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 3 0.09
10 20 0.62
11 6 0.19
12 3 0.09
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (10 bp):
GAGCTGAAAC
Found at i:60976397 original size:19 final size:20
Alignment explanation
Indices: 60976373--60976413 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
60976363 AATCTCATTT
60976373 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
60976392 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
60976412 TC
1 TC
60976414 GATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:60978587 original size:13 final size:13
Alignment explanation
Indices: 60978569--60978593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60978559 TAACCTACAA
60978569 AATTAAATAACAT
1 AATTAAATAACAT
60978582 AATTAAATAACA
1 AATTAAATAACA
60978594 CAACTATTCA
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:60990968 original size:30 final size:30
Alignment explanation
Indices: 60990934--60991030 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
60990924 AGCTCACTCC
60990934 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
60990964 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
60990994 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
60991024 TAGCTCA
1 TAGCTCA
60991031 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:61001009 original size:19 final size:19
Alignment explanation
Indices: 61000978--61001028 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
61000968 CTAAATTAAG
*
61000978 TGTCCATTTGGCTGCCAAT
1 TGTCCATTCGGCTGCCAAT
*
61000997 TGTTCATTCGGCTGCCAAT
1 TGTCCATTCGGCTGCCAAT
61001016 TGTCCATTCGGCT
1 TGTCCATTCGGCT
61001029 AGCCTTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (19 bp):
TGTCCATTCGGCTGCCAAT
Found at i:61004015 original size:27 final size:27
Alignment explanation
Indices: 61003984--61004161 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
61003974 TAAATTGTAC
61003984 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
61004011 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61004037 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61004065 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
61004093 AGCACTAAGTGTACGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61004120 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
**
61004147 AGCACTGGGTGTGCG
1 AGCACTAAGTGTGCG
61004162 GAATCAATAT
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 102 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61004125 original size:82 final size:81
Alignment explanation
Indices: 61003985--61004140 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61003975 AAATTGTACA
* * *
61003985 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAACGAATACGATGCACTAAGTGT
61004050 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
61004066 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTACGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAACGAATACGAT-GCACTAAGT
*
61004130 GTGCGAGTTGA
64 GTGCGAATTGA
61004141 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61018882 original size:50 final size:50
Alignment explanation
Indices: 61018742--61018883 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 50
61018732 ATCCATCTGA
** * *
61018742 TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAGTCAACCGG
** * ** *
61018793 TATGCATAGTAGCCTGCACTTTGTACTACACGTGCGACCTA-TCAATCCGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAGTCAA-CCGG
*
61018843 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA
61018884 AAACTGTCTT
Statistics
Matches: 73, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
49 3 0.04
50 39 0.53
51 31 0.42
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAGTCAACCGG
Found at i:61022304 original size:32 final size:32
Alignment explanation
Indices: 61022263--61022324 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
61022253 AAATTTGACA
61022263 TAAGAAAATTTATTTTTATTGTATTTTTATGG
1 TAAGAAAATTTATTTTTATTGTATTTTTATGG
61022295 TAAGAAAATTTATTTTTATTGTATTTTTAT
1 TAAGAAAATTTATTTTTATTGTATTTTTAT
61022325 AGTCTACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (32 bp):
TAAGAAAATTTATTTTTATTGTATTTTTATGG
Found at i:61028432 original size:40 final size:40
Alignment explanation
Indices: 61028364--61028569 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
61028354 GGGATTTAGT
** * *
61028364 CGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
61028403 CGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
61028443 CGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * * *
61028483 GGGATATAG-CAACTCGCACAAATGCCTTCGGATCTCAGTC
1 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
61028523 CGAATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
61028563 CGGATAT
1 CGGATAT
61028570 CATTCGAATA
Statistics
Matches: 135, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 15 0.11
40 119 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:61036539 original size:40 final size:40
Alignment explanation
Indices: 61036465--61036674 Score: 221
Period size: 40 Copynumber: 5.3 Consensus size: 40
61036455 TATCTTCGGA
** * *
61036465 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
61036503 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* **
61036543 TTAGCCCGGATATAATTGCTAG-ACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
61036582 TTAGCCCAGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
61036622 TCAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
61036662 TTAGCCCGGATAT
1 TTAGCCCGGATAT
61036675 CATTCGAATA
Statistics
Matches: 138, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
38 4 0.03
39 46 0.33
40 87 0.63
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:61036611 original size:79 final size:80
Alignment explanation
Indices: 61036458--61036674 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 80
61036448 ACCCAAGTAT
* * * *
61036458 CTTCGGAT-T-AG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGATCTCAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
*
61036519 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* ** * *
61036534 CTTCGGGA-CTTAGCCCGGATATAATTGCTAG-ACAAATGCCTTCGGGTCTTAGCCCAGATATAG
1 CTTC-GGATCTCAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
61036597 -CAACTCGCACAAATGC
65 TC-ACTAGCACAAATGC
* * * *
61036613 CTTCGGATCTCAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTCAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
61036675 CATTCGAATA
Statistics
Matches: 115, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
76 4 0.03
77 4 0.03
78 8 0.07
79 73 0.63
80 26 0.23
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGATCTCAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:61038590 original size:17 final size:17
Alignment explanation
Indices: 61038560--61038598 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
61038550 TTGGAAAAAG
61038560 AAAACAAATAAATCTTA
1 AAAACAAATAAATCTTA
* *
61038577 AAAACGAATGAATCTTA
1 AAAACAAATAAATCTTA
61038594 AAAAC
1 AAAAC
61038599 TTAATAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATAAATCTTA
Found at i:61046455 original size:68 final size:68
Alignment explanation
Indices: 61046382--61046533 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 68
61046372 CATCATGTGT
* * *
61046382 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTATGTG-T-ACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACCAGGTGATGACACCA
61046445 TGTAG
64 TGTAG
* * * *
61046450 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAATGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGGGTGATACCAGGTG-ATGACACCAT
61046513 GTAG
65 GTAG
61046517 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
61046534 TAAACTGGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
64 26 0.36
65 3 0.04
66 2 0.03
67 26 0.36
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGGGTGATACCAGGTGATGACACCATG
TAG
Found at i:61050405 original size:40 final size:40
Alignment explanation
Indices: 61050350--61050567 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
61050340 CGGATGATAA
61050350 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
61050390 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
61050430 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
61050470 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
61050510 CCGGGCTAAGTCCCGAAGGCATTTGAGCGA-TTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTATTT
**
61050550 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61050568 TACTTGGTTG
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 16 0.10
40 151 0.90
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:61058648 original size:40 final size:40
Alignment explanation
Indices: 61058593--61058770 Score: 277
Period size: 40 Copynumber: 4.5 Consensus size: 40
61058583 CGGATGATAA
*
61058593 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61058633 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61058673 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61058713 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
61058753 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61058771 TACTTGGTTG
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 14 0.11
40 115 0.89
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61060425 original size:13 final size:13
Alignment explanation
Indices: 61060407--61060446 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
61060397 GCTTGACAGG
*
61060407 GACACGCCCGTGT
1 GACACGCCCATGT
61060420 GACACGCCCATGT
1 GACACGCCCATGT
61060433 GACACGCCCATGT
1 GACACGCCCATGT
61060446 G
1 G
61060447 CGATTACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:61061701 original size:25 final size:27
Alignment explanation
Indices: 61061664--61061716 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
61061654 TCAAACATGC
61061664 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
61061690 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
61061716 A
1 A
61061717 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:61063233 original size:26 final size:26
Alignment explanation
Indices: 61063202--61063309 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
61063192 TGAAATGCCC
*
61063202 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
61063228 ATCATGGAACATTTGCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
61063254 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
61063280 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61063306 ATCA
1 ATCA
61063310 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61065257 original size:14 final size:14
Alignment explanation
Indices: 61065238--61065273 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
61065228 ACATAAGTTA
61065238 AGCTTAGTGATTGC
1 AGCTTAGTGATTGC
61065252 AGCTTAGTGATTGC
1 AGCTTAGTGATTGC
61065266 AGCTTAGT
1 AGCTTAGT
61065274 CTTGAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (14 bp):
AGCTTAGTGATTGC
Found at i:61068105 original size:33 final size:33
Alignment explanation
Indices: 61068063--61068128 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
61068053 CCTAAAAGTA
61068063 TATCTACTTCTAATTAAAACACCTTTTAACCCC
1 TATCTACTTCTAATTAAAACACCTTTTAACCCC
61068096 TATCTACTTCTAATTAAAACACCTTTTAACCCC
1 TATCTACTTCTAATTAAAACACCTTTTAACCCC
61068129 CCTCTCAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.36
Consensus pattern (33 bp):
TATCTACTTCTAATTAAAACACCTTTTAACCCC
Found at i:61073065 original size:43 final size:43
Alignment explanation
Indices: 61072988--61073210 Score: 331
Period size: 43 Copynumber: 5.2 Consensus size: 43
61072978 ATATTGTACA
* * *
61072988 ATGCCAACGTCCTAGACATGGTCTTTCACATAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
61073031 ATGCC-ACTGTCCCAGACGTGATCTTACACGTAATCACATATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCACATATCG
*
61073074 ATGCCAACGTCCCAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
*
61073117 ATGCCAACGTCCTAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
61073160 ATGCCAACGTCCAAAACGTGGTCTTGCACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
61073203 ATGCCAAC
1 ATGCCAAC
61073211 TCAAAAATGT
Statistics
Matches: 164, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 2 0.01
43 160 0.98
44 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:61073871 original size:23 final size:23
Alignment explanation
Indices: 61073842--61073886 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
61073832 TAACTCAAAA
61073842 TATTCATAAAAATCAGAAATTAT
1 TATTCATAAAAATCAGAAATTAT
61073865 TATTCATAAAAATCAGAAATTA
1 TATTCATAAAAATCAGAAATTA
61073887 AAGCATGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
TATTCATAAAAATCAGAAATTAT
Found at i:61094583 original size:15 final size:15
Alignment explanation
Indices: 61094551--61094579 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61094541 ATTTTTTATG
61094551 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
61094566 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
61094580 ATTTTTGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:61096615 original size:40 final size:40
Alignment explanation
Indices: 61096544--61096761 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
61096534 AAACCAAGTA
* * *
61096544 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
61096583 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61096623 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61096663 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
61096703 CCTTTGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61096743 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61096762 TTATCATCCG
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61098966 original size:45 final size:45
Alignment explanation
Indices: 61098914--61099108 Score: 194
Period size: 45 Copynumber: 4.5 Consensus size: 45
61098904 TATCTGTTTT
*
61098914 CGTGTAAGACCACGTCTCGGACATTGACATCGATATATGTGGTTA
1 CGTGTAAGACCACGTCTGGGACATTGACATCGATATATGTGGTTA
* * * *
61098959 TGTGTAAGACCATGTCTGAGACATTGGA-ATCG-TAT-T-TGATT-
1 CGTGTAAGACCACGTCTGGGACATT-GACATCGATATATGTGGTTA
* * *
61099000 CGTGTAAGACCACGTTTGGGACGTTGGCATCGATATATGTGGTTA
1 CGTGTAAGACCACGTCTGGGACATTGACATCGATATATGTGGTTA
* * * *
61099045 CGTGTAAGACCATGTCTGGGACATCGATATCG-TAT-T-TGATT-
1 CGTGTAAGACCACGTCTGGGACATTGACATCGATATATGTGGTTA
61099086 CGTGTAAGACC-CTGTCTGGGACA
1 CGTGTAAGACCAC-GTCTGGGACA
61099109 GTGGCATTGA
Statistics
Matches: 123, Mismatches: 20, Indels: 18
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 45 0.37
42 11 0.09
43 3 0.02
44 10 0.08
45 51 0.41
46 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (45 bp):
CGTGTAAGACCACGTCTGGGACATTGACATCGATATATGTGGTTA
Found at i:61099057 original size:86 final size:86
Alignment explanation
Indices: 61098912--61099121 Score: 300
Period size: 86 Copynumber: 2.4 Consensus size: 86
61098902 GATATCTGTT
* * * *
61098912 TTCGTGTAAGACCACGTCTCGGACATTGACATCGATATATGTGGTTATGTGTAAGACCATGTCTG
1 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTG
*
61098977 AGACATTGGA-ATCGTATTTGA
66 AGACA-TCGATATCGTATTTGA
*
61098998 TTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTG
1 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTG
*
61099063 GGACATCGATATCGTATTTGA
66 AGACATCGATATCGTATTTGA
*
61099084 TTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATAT
1 TTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATAT
61099122 GAGATAGTAT
Statistics
Matches: 112, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
85 4 0.04
86 107 0.96
87 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (86 bp):
TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTG
AGACATCGATATCGTATTTGA
Found at i:61099102 original size:41 final size:40
Alignment explanation
Indices: 61098912--61099108 Score: 160
Period size: 41 Copynumber: 4.6 Consensus size: 40
61098902 GATATCTGTT
* * * *
61098912 TTCGTGTAAGACCACGTCTCGGACATTGACATCGATATATGTGG
1 TTCGTGTAAGACCATGTCTGGGACATCGA-ATCG-TAT-T-TGA
* * *
61098956 TTATGTGTAAGACCATGTCTGAGACATTGGAATCGTATTTGA
1 TT-CGTGTAAGACCATGTCTGGGACA-TCGAATCGTATTTGA
* * * * * *
61098998 TTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATATATGTGG
1 TTCGTGTAAGACCATGTCTGGGAC-ATCGAATCG-TAT-T-TGA
61099042 TTACGTGTAAGACCATGTCTGGGACATCGATATCGTATTTGA
1 TT-CGTGTAAGACCATGTCTGGGACATCGA-ATCGTATTTGA
*
61099084 TTCGTGTAAGACCCTGTCTGGGACA
1 TTCGTGTAAGACCATGTCTGGGACA
61099109 GTGGCATTGA
Statistics
Matches: 125, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
41 47 0.38
42 11 0.09
43 3 0.02
44 14 0.11
45 47 0.38
46 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
TTCGTGTAAGACCATGTCTGGGACATCGAATCGTATTTGA
Found at i:61099146 original size:43 final size:43
Alignment explanation
Indices: 61099088--61099203 Score: 205
Period size: 43 Copynumber: 2.7 Consensus size: 43
61099078 ATTTGATTCG
**
61099088 TGTAAGACCCTGTCTGGGACAGTGGCATTGATATGAGATAGTA
1 TGTAAGACCAGGTCTGGGACAGTGGCATTGATATGAGATAGTA
61099131 TGTAAGACCAGGTCTGGGACAGTGGCATTGATATGAGATAGTA
1 TGTAAGACCAGGTCTGGGACAGTGGCATTGATATGAGATAGTA
*
61099174 TGTAAGACCAGGTCTGGGACATTGGCATTG
1 TGTAAGACCAGGTCTGGGACAGTGGCATTG
61099204 TTCGATATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.27
Consensus pattern (43 bp):
TGTAAGACCAGGTCTGGGACAGTGGCATTGATATGAGATAGTA
Found at i:61101153 original size:32 final size:32
Alignment explanation
Indices: 61101117--61101182 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
61101107 GTACAAAACT
61101117 TAGATGTTTGTGGTCAAAAGTGGTAAGTCAAC
1 TAGATGTTTGTGGTCAAAAGTGGTAAGTCAAC
61101149 TAGATGTTTGTGGTCAAAAGTGGTAAGTCAAC
1 TAGATGTTTGTGGTCAAAAGTGGTAAGTCAAC
61101181 TA
1 TA
61101183 CTCATCATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (32 bp):
TAGATGTTTGTGGTCAAAAGTGGTAAGTCAAC
Found at i:61118624 original size:47 final size:47
Alignment explanation
Indices: 61118497--61119083 Score: 958
Period size: 47 Copynumber: 12.4 Consensus size: 47
61118487 CAGCCAAGAC
61118497 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
61118544 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
61118593 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
61118640 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
61118687 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
61118734 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
61118783 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
61118830 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
61118877 AGTGTATATGTGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
61118924 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
61118971 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
61119018 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
61119065 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
61119084 CCCCGAAGGG
Statistics
Matches: 514, Mismatches: 22, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
47 420 0.82
49 94 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:61118820 original size:190 final size:190
Alignment explanation
Indices: 61118497--61119083 Score: 1016
Period size: 190 Copynumber: 3.1 Consensus size: 190
61118487 CAGCCAAGAC
61118497 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
61118562 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATG
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATG
61118627 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
131 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
61118687 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
61118752 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATG
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATG
61118817 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
131 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
61118877 AGTGTATATGTGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTG--TATATATGTAAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
* *
61118940 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATG
* * * * * * * * *
61119005 TGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
131 TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
61119065 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
61119084 CCCCGAAGGG
Statistics
Matches: 380, Mismatches: 17, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 141 0.37
190 239 0.63
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATG
TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:61119257 original size:37 final size:37
Alignment explanation
Indices: 61119201--61119279 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
61119191 TCGAGCTCTA
* * *
61119201 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
61119238 AAGACCCGATAACTTCGTGTGGAGATTATGTGCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
61119275 AAGAC
1 AAGAC
61119280 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:61120821 original size:27 final size:27
Alignment explanation
Indices: 61120791--61120968 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
61120781 ATATTGAGTC
* *
61120791 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61120818 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61120845 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
61120873 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61120900 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
61120927 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
61120954 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61120969 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61120930 original size:82 final size:81
Alignment explanation
Indices: 61120812--61120967 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
61120802 TGCTATATAA
*
61120812 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCT-ACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTG-TAACATAGTCAAA-TCGC
61120876 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
61120894 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGTAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCA
61120958 CACTTAGTGC
65 CACTTAGTGC
61120968 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61128416 original size:41 final size:41
Alignment explanation
Indices: 61128359--61128441 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
61128349 AATATAAAAG
* *
61128359 ACCAATCTCAACCATTAACAAAAGGTGTTACGGCATACCAA
1 ACCAAGCTCAACCATTAACAAAAGGTGTTAAGGCATACCAA
61128400 ACCAAGCTCAACCATTAACAAAAGGTGTTAAGGCATACCAA
1 ACCAAGCTCAACCATTAACAAAAGGTGTTAAGGCATACCAA
61128441 A
1 A
61128442 AATTGGAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.18
Consensus pattern (41 bp):
ACCAAGCTCAACCATTAACAAAAGGTGTTAAGGCATACCAA
Found at i:61141178 original size:39 final size:40
Alignment explanation
Indices: 61141061--61141245 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
61141051 GCTACTCGTT
*
61141061 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61141101 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
61141141 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* ** * * * *
61141180 CAAATGCCTTC-GGATCTTAGTCTAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
61141221 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61141246 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 74 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61147968 original size:55 final size:55
Alignment explanation
Indices: 61147886--61148011 Score: 153
Period size: 55 Copynumber: 2.3 Consensus size: 55
61147876 GGCCGTGGGT
* ** * *
61147886 GAACCTGCCAAAACAACATGGGCGTGCGACACGCCCGTGCCTAGAAACCGTGGCC
1 GAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCGAGAAACCGTGGCC
* * * *
61147941 GAACCTGTCAAATTAACACGGGTGTGCGACAGGCCCGTGCCGAGCAACCGTGGGC
1 GAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCGAGAAACCGTGGCC
* *
61147996 GAACCTATCAGATTAA
1 GAACCTGTCAAATTAA
61148012 AACGAGAGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (55 bp):
GAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCGAGAAACCGTGGCC
Found at i:61148023 original size:55 final size:55
Alignment explanation
Indices: 61147909--61148023 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 55
61147899 CAACATGGGC
* * * * *
61147909 GTGCGACACGCCCGTGCCTAGAAACCGTGGCCGAACCTGTCAAATTAACACGGGT
1 GTGCGACACGCCCGTGCCGAGAAACCGTGGCCGAACCTATCAAATTAAAACGAGA
* * * *
61147964 GTGCGACAGGCCCGTGCCGAGCAACCGTGGGCGAACCTATCAGATTAAAACGAGA
1 GTGCGACACGCCCGTGCCGAGAAACCGTGGCCGAACCTATCAAATTAAAACGAGA
61148019 GTGCG
1 GTGCG
61148024 CCTGCATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.15
Consensus pattern (55 bp):
GTGCGACACGCCCGTGCCGAGAAACCGTGGCCGAACCTATCAAATTAAAACGAGA
Found at i:61156783 original size:61 final size:61
Alignment explanation
Indices: 61156668--61156783 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
61156658 ATGTGAAATA
* *
61156668 AACATGGCCTGGACTTCCGTACACGGGCAAACCACACGCCCCTGTAGTTCTAGCAGGCTCT
1 AACATGGCCTGGACTTCCGTACACGGGCAAACCACACGCCCATGTACTTCTAGCAGGCTCT
* * * *
61156729 AACATGGCTTGGACTTCC-TCACACGGGTAAACCACACGCCCATGTCCTTTTAGCA
1 AACATGGCCTGGACTTCCGT-ACACGGGCAAACCACACGCCCATGTACTTCTAGCA
61156784 AAATCGAGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 1 0.02
61 47 0.98
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.22
Consensus pattern (61 bp):
AACATGGCCTGGACTTCCGTACACGGGCAAACCACACGCCCATGTACTTCTAGCAGGCTCT
Found at i:61160697 original size:29 final size:28
Alignment explanation
Indices: 61160661--61160738 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
61160651 TCATGAGATT
61160661 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
61160691 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
61160718 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
61160739 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:61160953 original size:171 final size:173
Alignment explanation
Indices: 61160691--61161184 Score: 883
Period size: 171 Copynumber: 2.9 Consensus size: 173
61160681 AAATTGTACA
*
61160691 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTT-AAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
61160756 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
65 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
61160821 TTTTGGACAGCGG-AAAGGTAAGTGTGCGAACTTGAAATGCATG
130 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
61160864 GCACTAAGTGTGTGAGTTTAAGT-CATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGT
1 GCACTAAGTGTGTGAGTTTAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
61160928 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
61160993 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
61161036 GCACTAAGTGTGTGAG-TTAAGTACAAGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 GCACTAAGTGTGTGAGTTTAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
* * *
61161100 GTGC-AACTC-A-ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
61161162 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
61161185 ACCTTGAGTT
Statistics
Matches: 312, Mismatches: 7, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
169 73 0.23
170 1 0.00
171 127 0.41
172 93 0.30
173 18 0.06
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGTGAGTTTAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:61168991 original size:29 final size:28
Alignment explanation
Indices: 61168955--61169031 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 28
61168945 TCATGAGATT
61168955 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
61168985 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
61169012 TGGCACTAAGTGTGCGGGTT
1 -GGCACTAAGTGTGCGGGTT
61169032 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
29 38 0.88
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:61169430 original size:170 final size:169
Alignment explanation
Indices: 61168985--61169471 Score: 821
Period size: 170 Copynumber: 2.9 Consensus size: 169
61168975 AAATTGTACA
61168985 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCG-GGTTGATTATTAAGCACTATG
1 GCACTAAGTGT--GAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
61169049 TGTGCGAACC-A-ATATATTTTCTAT-AATTATTTACATTAAGGGTGCGAC-TTA-CGAGTCGA-
64 TGTGCGAACCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
61169108 TTTGGACAGCGG-AAAGGTAAGTGTGCGAACTTGAATGCAT
129 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAATGCAT
*
61169148 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAA--GTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
61169213 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
64 TGTGCGAA-CCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
61169278 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCAT
128 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTG-AATGCAT
61169321 GGCACTAAGTGTGAGTTTAAAGT-CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 -GCACTAAGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
* *
61169385 GTGCGAACCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
65 GTGCGAACCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
61169450 TTGGACAGCGGAAAAGGTAAGT
130 TTGGACAGCGGAAAAGGTAAGT
61169472 ACCTTGAGTT
Statistics
Matches: 308, Mismatches: 3, Indels: 19
0.93 0.01 0.06
Matches are distributed among these distances:
163 36 0.12
164 29 0.09
165 6 0.02
166 1 0.00
167 13 0.04
168 24 0.08
169 3 0.01
170 86 0.28
171 60 0.19
172 36 0.12
173 7 0.02
174 7 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (169 bp):
GCACTAAGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
TGCGAACCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTT
TGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAATGCAT
Found at i:61177281 original size:29 final size:28
Alignment explanation
Indices: 61177245--61177322 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
61177235 TCATGAGATT
61177245 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
61177275 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
61177302 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
61177323 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:61177540 original size:173 final size:173
Alignment explanation
Indices: 61177275--61177600 Score: 591
Period size: 173 Copynumber: 1.9 Consensus size: 173
61177265 AAATTGTACA
*
61177275 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
61177340 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTA-CGAGTCAA
61177405 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
61177449 GCACTAAGTGTGTGAGTTTAAAGT-CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
61177513 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACGAGTCAAT
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACGAGTCAAT
61177578 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
61177601 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
172 31 0.21
173 93 0.63
174 23 0.16
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:61190946 original size:40 final size:40
Alignment explanation
Indices: 61190902--61191062 Score: 200
Period size: 40 Copynumber: 4.0 Consensus size: 40
61190892 GGATTTATCC
*
61190902 GATATAACAACTCGCACAAATGCCTTCGAGTCTTAGCTCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCTCG
* *
61190942 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCTCG
* * * *
61190982 GATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCTCG
1 GATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCTCG
* * *
61191022 GATATAGA-AACTCGCACGAATGCCTTCGGATCTTAGTTCG
1 GATATA-ACAACTCGCACAAATGCCTTCGGGTCTTAGCTCG
61191062 G
1 G
61191063 TTATCATCCG
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 100 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCTCG
Found at i:61191035 original size:80 final size:80
Alignment explanation
Indices: 61190902--61191057 Score: 224
Period size: 80 Copynumber: 1.9 Consensus size: 80
61190892 GGATTTATCC
* * * *
61190902 GATATAACAACTCGCACAAATGCCTTCGAGTCTTAGCTCGGATATAGCAACTCGCACAAATGCCT
1 GATATAACAACTAGCACAAATGCCTTCGAGACATAGCTCGGATATAGAAACTCGCACAAATGCCT
*
61190967 TCGGGTCTTAGCCCG
66 TCGGATCTTAGCCCG
* * *
61190982 GATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCTCGGATATAGAAACTCGCACGAATGCC
1 GATATAA-CAACTAGCACAAATGCCTTCGAGACATAGCTCGGATATAGAAACTCGCACAAATGCC
61191046 TTCGGATCTTAG
65 TTCGGATCTTAG
61191058 TTCGGTTATC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 66 0.99
81 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (80 bp):
GATATAACAACTAGCACAAATGCCTTCGAGACATAGCTCGGATATAGAAACTCGCACAAATGCCT
TCGGATCTTAGCCCG
Found at i:61193070 original size:16 final size:16
Alignment explanation
Indices: 61193028--61193063 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
61193018 GTAGCTAAAC
*
61193028 TTTCAACTTTTCAGCA
1 TTTCGACTTTTCAGCA
*
61193044 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCAGCA
61193060 TTTC
1 TTTC
61193064 TGCTTTTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.47
Consensus pattern (16 bp):
TTTCGACTTTTCAGCA
Found at i:61200713 original size:27 final size:27
Alignment explanation
Indices: 61200674--61200727 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
61200664 ATCATAGCAC
61200674 AAATCAGTCATTTACCCTCGAGGGGTA
1 AAATCAGTCATTTACCCTCGAGGGGTA
**
61200701 AAAT-AGTCAATTTACCCTTTAGGGGTA
1 AAATCAGTC-ATTTACCCTCGAGGGGTA
61200728 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGTA
Found at i:61201152 original size:8 final size:8
Alignment explanation
Indices: 61201141--61201167 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
61201131 AAGGCCATTC
61201141 TTTCGGCT
1 TTTCGGCT
61201149 TTTCGGCT
1 TTTCGGCT
61201157 TTTCGGCT
1 TTTCGGCT
61201165 TTT
1 TTT
61201168 GCTATTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:61209036 original size:28 final size:28
Alignment explanation
Indices: 61208996--61209066 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
61208986 CTCGATAAAG
61208996 TCGCACACTTAGTGCT-TA-ATAGTCAAAC
1 TCGCACACTTAGTGCTGTACA-A-TCAAAC
*
61209024 TCGCACACTTAGTGCTGTACAATTAAAC
1 TCGCACACTTAGTGCTGTACAATCAAAC
61209052 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
61209067 CAATCTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTGTACAATCAAAC
Found at i:61216576 original size:28 final size:28
Alignment explanation
Indices: 61216536--61216603 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
61216526 AATAAAGTCA
61216536 CACACTTAGTGCT-TA-ATAGTCAAACTCG
1 CACACTTAGTGCTATACA-A-TCAAACTCG
*
61216564 CACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCTATACAATCAAACTCG
61216592 CACACTTAGTGC
1 CACACTTAGTGC
61216604 CAATCTCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 33 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATCAAACTCG
Found at i:61220951 original size:18 final size:18
Alignment explanation
Indices: 61220928--61220965 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
61220918 CTAAATGGAT
61220928 TAGTTAATTATGCCTAAA
1 TAGTTAATTATGCCTAAA
61220946 TAGTTAATTATGCCTAAA
1 TAGTTAATTATGCCTAAA
61220964 TA
1 TA
61220966 ATCAAGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
TAGTTAATTATGCCTAAA
Found at i:61226704 original size:40 final size:40
Alignment explanation
Indices: 61226621--61226840 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
61226611 ACCCAAGTAT
** * *
61226621 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
61226659 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
61226699 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
61226739 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
61226779 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
61226819 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
61226841 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 125 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:61234792 original size:38 final size:38
Alignment explanation
Indices: 61234741--61234951 Score: 197
Period size: 38 Copynumber: 5.6 Consensus size: 38
61234731 ACCCAAGTAT
*
61234741 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCACAAGGC
1 CTTCGGG-TCTTAGCCCGGATATAA-CACTCGCACAATGC
** * *
61234779 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AACACTCGCA-CAATGC
61234819 CTTCGGGTCTTAGCCCGGATATAACACTCGCACAATGC
1 CTTCGGGTCTTAGCCCGGATATAACACTCGCACAATGC
*
61234857 CTTCGGGACTTAGCCCGGA-ATAGTA-ACTCG-ACCAATGC
1 CTTCGGGTCTTAGCCCGGATATA--ACACTCGCA-CAATGC
* *
61234895 CTTC-GGACTTAGCCCGAAT-TATA-ACT-GCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATA-ACACTCGCAC-AATGC
*
61234931 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGTCTTAGCCCGGATA
61234952 ATCACTGACA
Statistics
Matches: 149, Mismatches: 12, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
35 2 0.01
36 15 0.10
37 34 0.23
38 49 0.33
39 23 0.15
40 26 0.17
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CTTCGGGTCTTAGCCCGGATATAACACTCGCACAATGC
Found at i:61234942 original size:74 final size:78
Alignment explanation
Indices: 61234741--61234951 Score: 247
Period size: 78 Copynumber: 2.8 Consensus size: 78
61234731 ACCCAAGTAT
* * * * * *
61234741 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCCGAATATAA-CACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
*
61234805 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* *
61234819 CTTCGGGTCTTAGCCCGGATATAACACTCGCACAATGCCTTCGGGACTTAGCCCGGA-ATAGTAA
1 CTTCGGGACTTAGCCCGAATATAACACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTAA
* *
61234883 CTCG-ACCAATGC
66 CTAGCACAAATGC
61234895 CTTC-GGACTTAGCCCGAAT-TATA-ACT-GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGAATATA-ACACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATA
61234952 ATCACTGACA
Statistics
Matches: 118, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
73 4 0.03
74 29 0.25
75 15 0.13
76 10 0.08
77 8 0.07
78 42 0.36
79 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGAATATAACACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTAA
CTAGCACAAATGC
Found at i:61247992 original size:51 final size:49
Alignment explanation
Indices: 61247887--61248169 Score: 276
Period size: 51 Copynumber: 5.8 Consensus size: 49
61247877 GGTGCCGACA
* * * * * * *
61247887 CCATGTCCCGGACATGGTCTTACACTGGCTCAC-ACATCAAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATCGAGGCCGATG
*
61247935 CCATGTCCCAAACATGGGTCTTACACT-GACTCTCGTATATCGAGGCCGATG
1 CCATGTCCCAGACAT-GGTCTTACACTAG-CTCTC-TATATCGAGGCCGATG
* * **
61247986 CCATGTCCCAGACATGGTCTTACACTAAC-C-C-ATATC-AAGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATCGAGGCCGATG
* * * *
61248031 CCATGTCTCAGACATGGTCTTACACTAGCTCTCAAATCTCGAGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATATCGAGGCCGATG
*
61248081 CCATGTCCCAGACACGGTCTTACACTAGCTCT-TATATCTTGAGGCCGGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATC--GAGGCC-GATG
* *
61248132 CCATGTCCCAAACATGGTCTTACACTAGTTCTC-ATATC
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATC
61248170 TCCCTAGCAT
Statistics
Matches: 196, Mismatches: 25, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
45 33 0.17
46 6 0.03
47 1 0.01
48 19 0.10
49 20 0.10
50 54 0.28
51 63 0.32
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATCGAGGCCGATG
Found at i:61248082 original size:95 final size:99
Alignment explanation
Indices: 61247887--61248157 Score: 293
Period size: 95 Copynumber: 2.8 Consensus size: 99
61247877 GGTGCCGACA
* **
61247887 CCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAGTCGATGCCATGTCCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAACTCACACATCAAAGTCGATGCCATGTCCCAAACATGG
**
61247952 GTCTTACACTGACTCTCGTATATCGAGGCCGATG
66 GTCTTACACTGACTCTCAAATATCGAGGCCGATG
* * * *
61247986 CCATGTCCCAGACATGGTCTTACACTAAC-C-CATATC-AAGTTGATGCCATGTCTCAGACAT-G
1 CCATGTCCCAGACATGGTCTTACACTAACTCACACATCAAAGTCGATGCCATGTCCCAAACATGG
* *
61248047 GTCTTACACT-AGCTCTCAAATCTCGAGGCTGATG
66 GTCTTACACTGA-CTCTCAAATATCGAGGCCGATG
* * ** * * * *
61248081 CCATGTCCCAGACACGGTCTTACACTAGCTCTTATATCTTGAGGCCGGATGCCATGTCCCAAACA
1 CCATGTCCCAGACATGGTCTTACACTAACTCACACATC--AAAGTC-GATGCCATGTCCCAAACA
61248146 T-GGTCTTACACT
63 TGGGTCTTACACT
61248158 AGTTCTCATA
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
94 1 0.01
95 56 0.38
96 22 0.15
97 10 0.07
98 1 0.01
99 26 0.18
100 2 0.01
101 28 0.19
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (99 bp):
CCATGTCCCAGACATGGTCTTACACTAACTCACACATCAAAGTCGATGCCATGTCCCAAACATGG
GTCTTACACTGACTCTCAAATATCGAGGCCGATG
Found at i:61248149 original size:146 final size:143
Alignment explanation
Indices: 61247887--61248158 Score: 361
Period size: 146 Copynumber: 1.9 Consensus size: 143
61247877 GGTGCCGACA
* * * * *
61247887 CCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAGTCGATGCCATGTCCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACAAATCAAAGGCGATGCCATGTCCCAAACATCG
*
61247952 GTCTTACACTGACTCTCGTATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAACCC
66 GTCTTACACTGACTCTC-TATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAACCC
61248017 ATATCAAGTTGATG
130 ATATCAAGTTGATG
* * ** *
61248031 CCATGTCTCAGACATGGTCTTACACTAGCTCTCAAATCTCGAGGCTGATGCCATGTCCCAGACA-
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACAAATC-AAAGGC-GATGCCATGTCCCAAACAT
61248095 CGGTCTTACACT-AGCTCT-TATATCTTGAGGCCGGATGCCATGTCCCAAACATGGTCTTACACT
64 CGGTCTTACACTGA-CTCTCTATATC--GAGGCC-GATGCCATGTCCCAAACATGGTCTTACACT
61248158 A
125 A
61248159 GTTCTCATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
143 6 0.05
144 34 0.31
145 24 0.22
146 47 0.42
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (143 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACAAATCAAAGGCGATGCCATGTCCCAAACATCG
GTCTTACACTGACTCTCTATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAACCCA
TATCAAGTTGATG
Found at i:61248170 original size:51 final size:50
Alignment explanation
Indices: 61247887--61248171 Score: 289
Period size: 50 Copynumber: 5.8 Consensus size: 50
61247877 GGTGCCGACA
* * * * ** *
61247887 CCATGTCCCGGACATGGTCTTACACTGGCTCACACATC-AAAGTC-GATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATG
* * * *
61247935 CCATGTCCCAAACATGGGTCTTACACT-GACTCTCGTATATCGAGGCCGATG
1 CCATGTCCCAGACAT-GGTCTTACACTAG-CTCTCATATCTCGAGGCTGATG
* * *
61247986 CCATGTCCCAGACATGGTCTTACACTAAC-C-CATA--TC-AAGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATG
* *
61248031 CCATGTCTCAGACATGGTCTTACACTAGCTCTCAAATCTCGAGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATG
* * * *
61248081 CCATGTCCCAGACACGGTCTTACACTAGCTCTTATATCTTGAGGCCGGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGG-CTGATG
* *
61248132 CCATGTCCCAAACATGGTCTTACACTAGTTCTCATATCTC
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
61248172 CCTAGCATTA
Statistics
Matches: 195, Mismatches: 31, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
45 33 0.17
46 3 0.02
47 3 0.02
48 17 0.09
49 20 0.10
50 61 0.31
51 58 0.30
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATG
Found at i:61249739 original size:46 final size:48
Alignment explanation
Indices: 61249557--61249828 Score: 235
Period size: 46 Copynumber: 5.8 Consensus size: 48
61249547 AGGGTATAAT
* * *
61249557 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-CGTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTCTA
* * * ** * *
61249604 GTCAATGCCATGTCCCAGACATAGTCTTACACTGAATTTAACATATCCGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG-GCTT-ACATCTTC-TA
* * *
61249654 GCCGATGCCGTGTCCCAGACATGGTCTTACACT-G-ATACATCTTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTCTA
*
61249700 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTCTA
* * *
61249745 GGCCGATG-CATG-CCCTAGACAT-GCCTTACACTAGCTCT-CAT-TTCAA
1 -GCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCT-TACATCTTCTA
*
61249791 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
61249829 CTCGTAATGT
Statistics
Matches: 181, Mismatches: 30, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.06
45 20 0.11
46 59 0.33
47 43 0.24
48 16 0.09
49 3 0.02
50 30 0.17
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTCTA
Found at i:61249845 original size:94 final size:92
Alignment explanation
Indices: 61249703--61249873 Score: 219
Period size: 94 Copynumber: 1.8 Consensus size: 92
61249693 TCTTGTAGCC
*
61249703 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCCAGGCCGATGCATG-CCCTAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCCGATGCATGTCCC-AGACAT
61249767 GC-CTTACACTAGCTCTCATTTCAATGCT
65 -CTCTTACACTAGCTCTCATTTCAATGCT
61249795 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-C-TCGT-AATGTGTCCGATGCATGTCCCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TCAA-G-G-CCGATGCATGTCCCA
61249856 GACATCTCTTACACTAGC
60 GACATCTCTTACACTAGC
61249874 ACACAATTAG
Statistics
Matches: 70, Mismatches: 1, Indels: 14
0.82 0.01 0.16
Matches are distributed among these distances:
91 3 0.04
92 7 0.10
93 17 0.24
94 40 0.57
95 3 0.04
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCCGATGCATGTCCCAGACATC
TCTTACACTAGCTCTCATTTCAATGCT
Found at i:61249852 original size:47 final size:46
Alignment explanation
Indices: 61249556--61249870 Score: 210
Period size: 46 Copynumber: 6.7 Consensus size: 46
61249546 TAGGGTATAA
*
61249556 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACGTCAAG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ACTC-TCAAG
* ** * *
61249605 T--CAATGCCATGTCCCAGACATAGTCTTACACTGAATTTAACATATC-CG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTG--GCT-AC-TCTCAAG
* * *
61249653 TGCCGATGCCGTGTCCCAGACATGGTCTTACACT-GATACATCT--TG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTAC-TCTCAAG
*
61249698 TAGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACATCTCCAG
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTGGC-TAC-TCTCAAG
* *
61249746 -GCCGATG-CATG-CCCTAGACATGCCTTACACTAGCT-CTCATTTCAA-
1 TGCCGATGCCATGTCCC-AGACATGTCTTACACTGGCTACTC---TCAAG
*
61249791 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCGT-AATG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTACTC-TCAA-G
*
61249838 TGTCCGATG-CATGTCCCAGACATCTCTTACACT
1 TG-CCGATGCCATGTCCCAGACATGTCTTACACT
61249871 AGCACACAAT
Statistics
Matches: 218, Mismatches: 27, Indels: 45
0.75 0.09 0.16
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 22 0.10
46 66 0.30
47 57 0.26
48 26 0.12
49 6 0.03
50 28 0.13
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTACTCTCAAG
Found at i:61256749 original size:47 final size:47
Alignment explanation
Indices: 61256695--61256927 Score: 340
Period size: 47 Copynumber: 5.0 Consensus size: 47
61256685 TTAGGATTTT
** * *
61256695 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61256742 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61256789 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61256836 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
61256883 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
61256928 TAATATGAAA
Statistics
Matches: 166, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 166 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61256795 original size:22 final size:22
Alignment explanation
Indices: 61256724--61256842 Score: 73
Period size: 22 Copynumber: 5.1 Consensus size: 22
61256714 GTATATATGA
*
61256724 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
* *
61256746 GATGAATG-TGAACAT-GCATACATGT
1 GAT-AAGGCTG-A-ATGGC-CA-ATGT
*
61256771 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
* * *
61256793 GATGAATG-TGAACGTGCATATATGT
1 GAT-AAGGCTGAATG-GC-CA-ATGT
61256818 GATAAGGCTGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
61256840 GAT
1 GAT
61256843 GAATGTGAGC
Statistics
Matches: 72, Mismatches: 13, Indels: 24
0.66 0.12 0.22
Matches are distributed among these distances:
22 22 0.31
23 15 0.21
24 15 0.21
25 20 0.28
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCTGAATGGCCAATGT
Found at i:61256829 original size:25 final size:24
Alignment explanation
Indices: 61256741--61256829 Score: 60
Period size: 25 Copynumber: 3.7 Consensus size: 24
61256731 CCGAATGGCC
* *
61256741 AATGTGATGAATG-TGAACATGCAT
1 AATGTGAT-AAGGCTGAACGTGCAT
* * *
61256765 ACATGTGATAAGGCCGAATG-GC-C
1 A-ATGTGATAAGGCTGAACGTGCAT
*
61256788 AATGTGATGAATG-TGAACGTGCAT
1 AATGTGAT-AAGGCTGAACGTGCAT
61256812 ATATGTGATAAGGCTGAA
1 A-ATGTGATAAGGCTGAA
61256830 TGGCCAATGT
Statistics
Matches: 48, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
22 11 0.23
23 6 0.12
24 10 0.21
25 21 0.44
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (24 bp):
AATGTGATAAGGCTGAACGTGCAT
Found at i:61257060 original size:98 final size:96
Alignment explanation
Indices: 61256906--61257089 Score: 307
Period size: 98 Copynumber: 1.9 Consensus size: 96
61256896 GAACATGCAT
*
61256906 ATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
61256971 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
61257002 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATATG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
61257066 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
61257090 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 53 0.65
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:61257105 original size:50 final size:48
Alignment explanation
Indices: 61256905--61257089 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
61256895 TGAACATGCA
*
61256905 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
61256953 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
61257001 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
61257051 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
61257090 GGCGATGTGC
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 80 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:61257274 original size:37 final size:37
Alignment explanation
Indices: 61257224--61257299 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
61257214 ACATGAAACT
61257224 TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
*
61257261 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
61257298 TG
1 TG
61257300 ACAGCCCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
Found at i:61258965 original size:40 final size:39
Alignment explanation
Indices: 61258928--61259064 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 39
61258918 ATATCCGGAC
61258928 TAAGATCCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
* * * *
61258968 TAAGTCTTGAAGGCCTTTGTGCGAGATACTAATTCCGGGT
1 TAAGTC-CGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
* * *
61259008 TAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATCTGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGT
61259048 TAAGTCCCGAAGGCATT
1 TAAGT-CCGAAGGCATT
61259065 GTATGAGTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.04
40 79 0.95
41 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
Found at i:61259060 original size:80 final size:81
Alignment explanation
Indices: 61258881--61259061 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 81
61258871 TTGAATGCTG
* *
61258881 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
61258945 TGTGCGAGTTATTAAT
66 CGTGCGAGTTATTAAA
** **
61258961 TCCGGGTTAAGTCTTGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
61259022 ATTCGTGCGAGTT-TTAAAA
63 ATTCGTGCGAGTTATT-AAA
*
61259041 TCTGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
61259062 ATTGTATGAG
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
79 4 0.05
80 72 0.85
81 9 0.11
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTATTAAA
Found at i:61273819 original size:30 final size:29
Alignment explanation
Indices: 61273784--61273858 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 29
61273774 GAAGCTATCA
*
61273784 CTTTTCATATTTTGATGGTTGTCACCATCC
1 CTTTTCATA-TTTGATGGTCGTCACCATCC
* *
61273814 CTTTTCATAGTTGATGGTCGTCACTATCC
1 CTTTTCATATTTGATGGTCGTCACCATCC
61273843 CTTTTCATAATTTGAT
1 CTTTTCAT-ATTTGAT
61273859 AGCCAAAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (29 bp):
CTTTTCATATTTGATGGTCGTCACCATCC
Found at i:61273836 original size:29 final size:29
Alignment explanation
Indices: 61273784--61273963 Score: 107
Period size: 30 Copynumber: 6.1 Consensus size: 29
61273774 GAAGCTATCA
* *
61273784 CTTTTCATATTTTGATGGTTGTCACCATCC
1 CTTTTCATA-GTTGATGGTCGTCACCATCC
*
61273814 CTTTTCATAGTTGATGGTCGTCACTATCC
1 CTTTTCATAGTTGATGGTCGTCACCATCC
* * *** * *
61273843 CTTTTCATAATTTGATAG-CCAAAGCTAT-T
1 CTTTTCAT-AGTTGATGGTCGTCA-CCATCC
* * *
61273872 CTTATTCATAGTTCGATAG-C-TAAAGCTATCC
1 CTT-TTCATAGTT-GATGGTCGT-CA-CCATCC
* *
61273903 CTTTTCATAGTTCGATGGTCATCACCGTCC
1 CTTTTCATAGTT-GATGGTCGTCACCATCC
* *
61273933 CTTTTTATTGTTGATGGTCGTCACCATCC
1 CTTTTCATAGTTGATGGTCGTCACCATCC
61273962 CT
1 CT
61273964 CTTCCTAATT
Statistics
Matches: 122, Mismatches: 20, Indels: 17
0.77 0.13 0.11
Matches are distributed among these distances:
29 50 0.41
30 66 0.54
31 5 0.04
32 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (29 bp):
CTTTTCATAGTTGATGGTCGTCACCATCC
Found at i:61273910 original size:30 final size:30
Alignment explanation
Indices: 61273837--61274059 Score: 121
Period size: 30 Copynumber: 7.5 Consensus size: 30
61273827 ATGGTCGTCA
* *
61273837 CTATCCCTTTTCATAATTTGATAGCCAAAG
1 CTATCCCTTTTCATAGTTCGATAGCCAAAG
* *
61273867 CTAT-TCTTATTCATAGTTCGATAGCTAAAG
1 CTATCCCTT-TTCATAGTTCGATAGCCAAAG
* * *
61273897 CTATCCCTTTTCATAGTTCGATGGTCATCA-
1 CTATCCCTTTTCATAGTTCGATAGCCA-AAG
** * * * ***
61273927 CCGTCCCTTTTTATTGTT-GATGGTCGTCA-
1 CTATCCCTTTTCATAGTTCGATAG-CCAAAG
* * * * *
61273956 CCATCCCTCTTCCTAATTTGATAGCCAAAG
1 CTATCCCTTTTCATAGTTCGATAGCCAAAG
* * * * *
61273986 CTATCCGTTTTCAGAATTTGACAGCCAAAG
1 CTATCCCTTTTCATAGTTCGATAGCCAAAG
* * * *
61274016 CTATCCCTTTTCATAATTCGATAGTCGAAC
1 CTATCCCTTTTCATAGTTCGATAGCCAAAG
*
61274046 CTATCCCATTTCAT
1 CTATCCCTTTTCAT
61274060 TGGTCGATGA
Statistics
Matches: 147, Mismatches: 40, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
29 24 0.16
30 119 0.81
31 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.37
Consensus pattern (30 bp):
CTATCCCTTTTCATAGTTCGATAGCCAAAG
Found at i:61273975 original size:119 final size:119
Alignment explanation
Indices: 61273754--61274037 Score: 372
Period size: 119 Copynumber: 2.4 Consensus size: 119
61273744 GTCACCGTCC
* * * * **
61273754 TTTTCCATAATTCGATAGCCGAAGCTATCACTTTTCATATTTTGATGGTTGTCACCATCCCTTTT
1 TTTT-CATAATTCGATAGCCAAAGCTATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTT
* * *
61273819 CATAGTTGATGGTCGTCACTATCCCTTTTCATAATTTGATAGCCAAAGCTATTC-
65 CATAGTTGATGGTCGTCACCATCCCTCTTCATAATTTGATAGCCAAAGCTATCCG
* * * *
61273873 TTATTCATAGTTCGATAGCTAAAGCTATCCCTTTTCATAGTTCGATGGTCATCACCGTCCCTTTT
1 TT-TTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTT
* * *
61273938 TATTGTTGATGGTCGTCACCATCCCTCTTCCTAATTTGATAGCCAAAGCTATCCG
65 CATAGTTGATGGTCGTCACCATCCCTCTTCATAATTTGATAGCCAAAGCTATCCG
* * *
61273993 TTTTCAGAATTTGACAGCCAAAGCTATCCCTTTTCATAATTCGAT
1 TTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAATTCGAT
61274038 AGTCGAACCT
Statistics
Matches: 142, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
119 138 0.97
120 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (119 bp):
TTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTTC
ATAGTTGATGGTCGTCACCATCCCTCTTCATAATTTGATAGCCAAAGCTATCCG
Found at i:61276093 original size:13 final size:13
Alignment explanation
Indices: 61276072--61276104 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61276062 TTTAGTTAAA
*
61276072 TTAGTTAATTAGT
1 TTAGATAATTAGT
61276085 TTAGATAATTAGT
1 TTAGATAATTAGT
61276098 TTA-ATAA
1 TTAGATAA
61276105 ACAAACCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:61281423 original size:7 final size:7
Alignment explanation
Indices: 61281411--61281477 Score: 77
Period size: 7 Copynumber: 9.6 Consensus size: 7
61281401 TTATTCTAAT
61281411 TTTTTTA
1 TTTTTTA
61281418 TTTTTTA
1 TTTTTTA
61281425 TTTTTTA
1 TTTTTTA
61281432 TTTTTTA
1 TTTTTTA
61281439 TTTATTTTA
1 -TT-TTTTA
61281448 TTTTTT-
1 TTTTTTA
61281454 TCTTTTT-
1 T-TTTTTA
*
61281461 CTTTTTA
1 TTTTTTA
61281468 -TTTTTA
1 TTTTTTA
61281474 TTTT
1 TTTT
61281478 CATTTCAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
6 12 0.22
7 33 0.61
8 4 0.07
9 5 0.09
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:61281428 original size:6 final size:6
Alignment explanation
Indices: 61281412--61281502 Score: 67
Period size: 6 Copynumber: 14.7 Consensus size: 6
61281402 TATTCTAATT
* * * *
61281412 TTTTTA TTTTTTA TTTTTTA TTTTT- TATTTA TTTTATT TTTTTC TTTTTC
1 TTTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA
* ** *
61281462 TTTTTA TTTTTA TTTTCA TTTCAA TTTTTT TATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTT
61281503 GAAAGACATA
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
5 4 0.06
6 42 0.61
7 23 0.33
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:61281449 original size:30 final size:31
Alignment explanation
Indices: 61281396--61281482 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
61281386 AATCCTCCTA
*
61281396 TCTTTTTA-TTCTA-ATTT-TTTTATTTTTT
1 TCTTTTTATTTTTATATTTATTTTATTTTTT
61281424 AT-TTTTTATTTTT-TATTTATTTTATTTTTT
1 -TCTTTTTATTTTTATATTTATTTTATTTTTT
* *
61281454 TCTTTTTCTTTTTATTTTTATTTTCATTT
1 TCTTTTTATTTTTATATTTATTTT-ATTT
61281483 CAATTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 6 0.12
29 9 0.18
30 21 0.43
31 9 0.18
32 4 0.08
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (31 bp):
TCTTTTTATTTTTATATTTATTTTATTTTTT
Found at i:61281453 original size:25 final size:24
Alignment explanation
Indices: 61281410--61281502 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 24
61281400 TTTATTCTAA
61281410 TTTTTTTATTTT-TTATTTTTTATT
1 TTTTTTTATTTTATT-TTTTTTATT
61281434 TTTTATTTATTTTATTTTTTTCT-TT
1 TTTT-TTTATTTTATTTTTTT-TATT
* *
61281459 TTCTTTTTATTTTTATTTTCATTTCA-A
1 TT-TTTTTA-TTTTATTTT--TTTTATT
61281486 TTTTTTTATTTTATTTT
1 TTTTTTTATTTTATTTT
61281503 GAAAGACATA
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
24 4 0.07
25 30 0.51
26 20 0.34
27 2 0.03
28 3 0.05
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTTTATTTTATTTTTTTTATT
Found at i:61282622 original size:12 final size:12
Alignment explanation
Indices: 61282605--61282636 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
61282595 ATTTATTCTT
61282605 AAAAAAATAAAA
1 AAAAAAATAAAA
61282617 AAAAAAATAAAA
1 AAAAAAATAAAA
61282629 AAGAAAAA
1 AA-AAAAA
61282637 CTTAGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.91, C:0.00, G:0.03, T:0.06
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:61284839 original size:6 final size:6
Alignment explanation
Indices: 61284828--61284989 Score: 165
Period size: 6 Copynumber: 26.8 Consensus size: 6
61284818 AACCAAAATG
*
61284828 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
61284876 AGTAA-C AGAATC AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
61284925 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
61284973 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
61284990 GTGAATACAA
Statistics
Matches: 133, Mismatches: 10, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:61284843 original size:30 final size:30
Alignment explanation
Indices: 61284828--61284989 Score: 221
Period size: 30 Copynumber: 5.6 Consensus size: 30
61284818 AACCAAAATG
*
61284828 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
61284858 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
61284888 AGAATCAGAATTAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
61284913 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
61284943 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
61284973 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
61284990 GTGAATACAA
Statistics
Matches: 116, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
24 2 0.02
25 18 0.16
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 88 0.76
31 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:61285393 original size:22 final size:22
Alignment explanation
Indices: 61285345--61285403 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
61285335 GTAAATACGT
*
61285345 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
61285367 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
61285389 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
61285404 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:61285530 original size:27 final size:26
Alignment explanation
Indices: 61285491--61285573 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
61285481 TCGATCGGTC
* *
61285491 AACAGATATTGTGATAGAGTCACCAG
1 AACAGATATTGTGACAGAGCCACCAG
*
61285517 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
* *
61285544 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAG
61285571 AAC
1 AAC
61285574 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:61285820 original size:27 final size:27
Alignment explanation
Indices: 61285773--61285967 Score: 198
Period size: 27 Copynumber: 7.2 Consensus size: 27
61285763 GGGCAAAATG
* * *
61285773 GTAATTTTA-CCTCACAAGGGTATCTCA
1 GTAATTCTACCCT-ACAGGGGTATTTCA
* *
61285800 CTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
61285827 GTATTTCTATCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
61285853 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
61285881 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
61285908 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
61285934 GAAAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
61285962 GTAATT
1 GTAATT
61285968 TCACAATTAA
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 132 0.95
28 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:61285844 original size:54 final size:53
Alignment explanation
Indices: 61285772--61285959 Score: 243
Period size: 54 Copynumber: 3.5 Consensus size: 53
61285762 GGGGCAAAAT
* *
61285772 GGTAATTTTA-CCTCACAAGGGTATCTCACTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTATCCT-ACAAGGGTATTTCA-TAATTCTACCCTACAGGGGTATTTC
* *
61285826 GGTATTTCTATCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTATCCTACAAGGGTATTTC-ATAATTCTACCCTACAGGGGTATTTC
* *
61285880 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTATCCTACAAGGGTATTTCA-TAATTCTACCCTACAGGGGTATTTC
** * *
61285934 GAAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTATCCTACAAGGGTATTT
61285960 TAGTAATTTC
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 113 0.96
55 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (53 bp):
GGTAATTCTATCCTACAAGGGTATTTCATAATTCTACCCTACAGGGGTATTTC
Found at i:61285916 original size:81 final size:81
Alignment explanation
Indices: 61285801--61285967 Score: 244
Period size: 81 Copynumber: 2.1 Consensus size: 81
61285791 GGTATCTCAC
* * * * *
61285801 TAATTCTACCCTACAGGGGTATTTCGGTATTTCTATCCTACAAGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAAAATTCTACCC
*
61285866 TACAGGGGTATTTTGG
66 TACAGGGGTATTTTAG
* * * *
61285882 TAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGAAAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAAAATTCTACCC
61285947 TACAGGGGTATTTTAG
66 TACAGGGGTATTTTAG
61285963 TAATT
1 TAATT
61285968 TCACAATTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAAAATTCTACCC
TACAGGGGTATTTTAG
Found at i:61286006 original size:27 final size:27
Alignment explanation
Indices: 61285977--61286612 Score: 650
Period size: 27 Copynumber: 23.0 Consensus size: 27
61285967 TTCACAATTA
*
61285977 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
61286004 AGGGTAAAACGATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* *
61286031 AGGGT-AAACTAGTAATTCTGTAAATCA
1 AGGGTAAAAC-GGTAATTCTGTAAATCG
* * ** *
61286058 AGGGTAAAACGATAATTTTACAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
61286085 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
61286112 AGGGTAAAACAGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
61286139 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
61286166 AGGGTAAAACGATAATTTTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
61286193 AGGGTAAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
61286220 AGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
61286247 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
** * *
61286274 AGGGTAAAATAGTAATTCTATAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
61286301 AGGGTAAAACGGCAATTCTGTAAAATAG
1 AGGGTAAAACGGTAATTCTGT-AAATCG
*** *
61286329 TAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTAAATCG
1 --A--GGGTAAA---ACGGT-A-------ATTCTGTAAATCG
** *
61286371 AGGGTAAAATAGTAATTCTGTAAA-CTA
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* *
61286398 AGGGTAAAACGATAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
61286425 AGGGTAAAACAGTAATTCTGTAAAAT-G
1 AGGGTAAAACGGTAATTCTGT-AAATCG
*
61286452 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * **
61286479 AGGGTAAAACAGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
61286506 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
61286533 AGGGTAAAACGGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
61286560 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
61286587 AGGGTAAAACGGTAATTCTGTAAATC
1 AGGGTAAAACGGTAATTCTGTAAATC
61286613 AGGAGTACTT
Statistics
Matches: 502, Mismatches: 83, Indels: 48
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.02
27 447 0.89
28 15 0.03
30 1 0.00
32 4 0.01
34 1 0.00
35 6 0.01
36 1 0.00
38 4 0.01
40 1 0.00
42 5 0.01
43 7 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:61286048 original size:54 final size:54
Alignment explanation
Indices: 61285972--61286611 Score: 747
Period size: 54 Copynumber: 12.1 Consensus size: 54
61285962 GTAATTTCAC
* * *
61285972 AATTAAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
* * * * **
61286026 AACTGAGGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACA
1 AATTGAGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
61286080 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTA
*
61286134 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
* * * * * **
61286188 AATTGAGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
* * *
61286242 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTATA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTA
* *
61286296 AATTGAGGGTAAAACGGCAATTCTGTAAA---A---T---A-G-TAATTCTATA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
*
61286339 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTA
* * * *
61286393 AACTAAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAAC-AGTAATTCTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTA
* * * **
61286447 AAATGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTTTAAA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTA
* * * * **
61286501 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAAA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
* *
61286555 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
61286609 AAT
1 AAT
61286612 CAGGAGTACT
Statistics
Matches: 515, Mismatches: 53, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
43 38 0.07
45 1 0.00
46 1 0.00
48 1 0.00
49 1 0.00
51 1 0.00
52 1 0.00
53 5 0.01
54 461 0.90
55 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
Found at i:61286089 original size:81 final size:81
Alignment explanation
Indices: 61285977--61286612 Score: 755
Period size: 81 Copynumber: 8.0 Consensus size: 81
61285967 TTCACAATTA
* *
61285977 AGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTGTAAA-CTGAGGGT-AAAC
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGGTAAAAC
*
61286040 TAGTAATTCTGTAAATCA
65 -AGTAATTCTGTAAATCG
* * ** * *
61286058 AGGGTAAAACGATAATTTTACAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACA
*
61286123 GTAATTCTGTAAATTG
66 GTAATTCTGTAAATCG
* * *
61286139 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAACCA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACA
*
61286204 GTAATTCTGTAAATCA
66 GTAATTCTGTAAATCG
* ** * *
61286220 AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACA
* *
61286285 GTAATTCTATAAATTG
66 GTAATTCTGTAAATCG
* * * *
61286301 AGGGTAAAACGGCAATTCTGTAAA---A---T---A-G-TAATTCTATAAATTGAGGGTAAAACG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACA
61286355 GTAATTCTGTAAATCG
66 GTAATTCTGTAAATCG
** * *
61286371 AGGGTAAAATAGTAATTCTGTAAA-CTAAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAAC
1 AGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
61286435 AGTAATTCTGTAAAAT-G
65 AGTAATTCTGT-AAATCG
* * **
61286452 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTTTAAAAATCGAGGGTAAAAC
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAAC
* *
61286516 GGTAATTCTATAAATCG
65 AGTAATTCTGTAAATCG
* ** * *
61286533 AGGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACA
61286598 GTAATTCTGTAAATC
66 GTAATTCTGTAAATC
61286613 AGGAGTACTT
Statistics
Matches: 471, Mismatches: 66, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
70 57 0.12
71 1 0.00
72 1 0.00
73 1 0.00
75 1 0.00
76 1 0.00
78 1 0.00
79 1 0.00
80 6 0.01
81 391 0.83
82 10 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACA
GTAATTCTGTAAATCG
Found at i:61286326 original size:43 final size:43
Alignment explanation
Indices: 61286277--61286367 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
61286267 TAAATCGAGG
61286277 GTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGCAATTCT
1 GTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGCAATTCT
*
61286320 GTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCT
1 GTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGCAATTCT
61286363 GTAAA
1 GTAAA
61286368 TCGAGGGTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.31
Consensus pattern (43 bp):
GTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGCAATTCT
Found at i:61286628 original size:81 final size:81
Alignment explanation
Indices: 61286328--61286644 Score: 372
Period size: 81 Copynumber: 3.9 Consensus size: 81
61286318 CTGTAAAATA
* *
61286328 GTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT-
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TA
* *
61286392 AAACT-AAGGGTAAAACG
64 AAAATCGAGGGTAAAACG
* * * * * **
61286409 ATAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAAAT-GAGGGTAAAATGGTAATTCTGT
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT-AAATCGAGGGTAAAATGGTAATTTTAA
*
61286473 AAATCGAGGGTAAAACA
65 AAATCGAGGGTAAAACG
* * * *
61286490 GTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAAA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAA
61286555 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* *** *
61286571 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-AGGAGTACTTTGGTAATTTTAC
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAATGGTAATTTTAA
*
61286635 AAGTCGAGGG
65 AAATCGAGGG
61286645 CATTTCAGTA
Statistics
Matches: 198, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 10 0.05
81 183 0.92
82 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAA
AATCGAGGGTAAAACG
Found at i:61287107 original size:13 final size:13
Alignment explanation
Indices: 61287089--61287118 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61287079 TATGTTAGCT
61287089 TCCCGATGTGGGA
1 TCCCGATGTGGGA
*
61287102 TCCCGATGTGGGG
1 TCCCGATGTGGGA
61287115 TCCC
1 TCCC
61287119 TCCATCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.30, G:0.37, T:0.23
Consensus pattern (13 bp):
TCCCGATGTGGGA
Found at i:61290412 original size:12 final size:12
Alignment explanation
Indices: 61290386--61290454 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 12
61290376 AATTGGTCAT
61290386 GGAGAGA-TTGAA
1 GGAGAGATTTG-A
*
61290398 GGAGGGATTTGA
1 GGAGAGATTTGA
*
61290410 GGAGAGATATGA
1 GGAGAGATTTGA
*
61290422 GGAGAGATTTTA
1 GGAGAGATTTGA
* *
61290434 GGAGAAAATTGTA
1 GGAGAGATTTG-A
61290447 GGAGAGAT
1 GGAGAGAT
61290455 GAAGGGAAGA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
12 35 0.78
13 10 0.22
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.22
Consensus pattern (12 bp):
GGAGAGATTTGA
Found at i:61290424 original size:24 final size:24
Alignment explanation
Indices: 61290386--61290454 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
61290376 AATTGGTCAT
*
61290386 GGAGAGATTGAAGGAGGGATTTGA
1 GGAGAGATTGAAGGAGAGATTTGA
*
61290410 GGAGAGATATG-AGGAGAGATTTTA
1 GGAGAGAT-TGAAGGAGAGATTTGA
* *
61290434 GGAGAAAATTGTAGGAGAGAT
1 GGAG-AGATTGAAGGAGAGAT
61290455 GAAGGGAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
24 25 0.64
25 14 0.36
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.22
Consensus pattern (24 bp):
GGAGAGATTGAAGGAGAGATTTGA
Found at i:61291927 original size:54 final size:54
Alignment explanation
Indices: 61291810--61291931 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
61291800 ACCCTTATTT
* * *
61291810 GATAAAATGATAGAAATGCCCTCATAGGGTAAAATGACTGAAATACCCCCATAG
1 GATAAAATGACAGAAATCCCCTCATAGGGTAAAATGACTGAAATACCCCCATAA
* * * *
61291864 GGTAGAATGACCGAAATACCCCT-ATAGGGTAAAATGACT-ATAATACCCCGATAA
1 GATAAAATGACAGAAAT-CCCCTCATAGGGTAAAATGACTGA-AATACCCCCATAA
61291918 GATAAAATGACAGA
1 GATAAAATGACAGA
61291932 TTTTTTCTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.02
54 51 0.91
55 4 0.07
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (54 bp):
GATAAAATGACAGAAATCCCCTCATAGGGTAAAATGACTGAAATACCCCCATAA
Found at i:61291928 original size:27 final size:26
Alignment explanation
Indices: 61291823--61291928 Score: 113
Period size: 27 Copynumber: 4.0 Consensus size: 26
61291813 AAAATGATAG
* *
61291823 AAATGCCCTCATAGGGTAAAATGACT
1 AAATACCCCCATAGGGTAAAATGACT
* *
61291849 GAAATACCCCCATAGGGTAGAATGACCG
1 -AAATACCCCCATAGGGTAAAATGA-CT
*
61291877 AAATACCCCTATAGGGTAAAATGACT
1 AAATACCCCCATAGGGTAAAATGACT
* * *
61291903 ATAATACCCCGATAAGATAAAATGAC
1 A-AATACCCCCATAGGGTAAAATGAC
61291929 AGATTTTTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.03
27 64 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (26 bp):
AAATACCCCCATAGGGTAAAATGACT
Found at i:61294183 original size:46 final size:46
Alignment explanation
Indices: 61294131--61294311 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 46
61294121 TATTTGGGCA
61294131 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
61294177 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---G
* * *
61294222 CATCCGAGCTCGTTGAGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTC-----GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
61294275 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61294312 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 32
0.72 0.07 0.21
Matches are distributed among these distances:
42 7 0.06
43 4 0.04
45 2 0.02
46 52 0.48
47 8 0.07
51 8 0.07
52 16 0.15
53 2 0.02
55 4 0.04
56 6 0.06
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:61294237 original size:93 final size:94
Alignment explanation
Indices: 61294127--61294302 Score: 264
Period size: 98 Copynumber: 1.8 Consensus size: 94
61294117 CGGATATTTG
*
61294127 GGCATCCGAACTC-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGA
1 GGCATCCGAACTCGGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
61294191 GTTGAGTCCGAGTTTGTGAGATGTAACTA
66 GTTGAGTCCGAGTTTGTGAGATGTAACTA
* * * *
61294220 GGCATCCGAGCTCGTTGAGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCG
1 GGCATCCGAACTC---G-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCG
61294285 TTGAGTTGAGTCCGAGTT
62 TTGAGTTGAGTCCGAGTT
61294303 CGCTTATGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
93 12 0.16
98 61 0.84
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (94 bp):
GGCATCCGAACTCGGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
GTTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:61297927 original size:20 final size:20
Alignment explanation
Indices: 61297904--61297953 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
61297894 AAGGCCGATT
*
61297904 TGGGCCATGTTCGGCCGAAA
1 TGGGTCATGTTCGGCCGAAA
* * *
61297924 TGGGTCATGTTGGGCTGGAA
1 TGGGTCATGTTCGGCCGAAA
61297944 TGGGTCATGT
1 TGGGTCATGT
61297954 GGGCCCCACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (20 bp):
TGGGTCATGTTCGGCCGAAA
Found at i:61298274 original size:27 final size:27
Alignment explanation
Indices: 61298244--61298321 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
61298234 AAAATGTCTG
*
61298244 AAATACCCTCATATGGTAAAATGATCA
1 AAATACCCTCATAGGGTAAAATGATCA
* * *
61298271 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCTCATAGGGTAAAATGATCA
**
61298298 AAATACCCTTGTAGGGTAAAATGA
1 AAATACCCTCATAGGGTAAAATGA
61298322 CTGTAATACC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATGATCA
Found at i:61298329 original size:27 final size:28
Alignment explanation
Indices: 61298233--61298349 Score: 91
Period size: 27 Copynumber: 4.3 Consensus size: 28
61298223 CCTTATTTGA
* * *
61298233 TAAAATGTCT-GAAATACCCTC-ATATGG
1 TAAAATGACTCGAAATACCC-CGGTAGGG
* **
61298260 TAAAATGA-TCAAAATACCCCCATAGGG
1 TAAAATGACTCGAAATACCCCGGTAGGG
* **
61298287 TAGAATGA-TCGAAATACCCTTGTAGGG
1 TAAAATGACTCGAAATACCCCGGTAGGG
* *
61298314 TAAAATGACT-GTAATACCCCGGTAAGG
1 TAAAATGACTCGAAATACCCCGGTAGGG
61298341 TAAAATGAC
1 TAAAATGAC
61298350 AGATTTGTTC
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.03
27 71 0.96
28 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (28 bp):
TAAAATGACTCGAAATACCCCGGTAGGG
Found at i:61298348 original size:54 final size:55
Alignment explanation
Indices: 61298233--61298348 Score: 121
Period size: 54 Copynumber: 2.1 Consensus size: 55
61298223 CCTTATTTGA
* *
61298233 TAAAATG-TCTGAAATACCCTCATATGGTAAAATGATCAAAATACCCCCATAGGG
1 TAAAATGATCTGAAATACCCTCATAGGGTAAAATGATCAAAATACCCCCATAAGG
* ** ** **
61298287 TAGAATGATC-GAAATACCCTTGTAGGGTAAAATGA-CTGTAATACCCCGGTAAGG
1 TAAAATGATCTGAAATACCCTCATAGGGTAAAATGATC-AAAATACCCCCATAAGG
61298341 TAAAATGA
1 TAAAATGA
61298349 CAGATTTGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
53 1 0.02
54 47 0.94
55 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (55 bp):
TAAAATGATCTGAAATACCCTCATAGGGTAAAATGATCAAAATACCCCCATAAGG
Found at i:61298427 original size:23 final size:23
Alignment explanation
Indices: 61298384--61298433 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
61298374 CTATATTTGA
61298384 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
61298407 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
61298430 GCAT
1 GCAT
61298434 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:61298718 original size:18 final size:18
Alignment explanation
Indices: 61298695--61298747 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
61298685 GCTTGCATAT
61298695 TGCATTGATTACTGTTAC
1 TGCATTGATTACTGTTAC
*
61298713 TGCATTGATCA-TGGTTAC
1 TGCATTGATTACT-GTTAC
* *
61298731 TGCACTGGTTACTGTTA
1 TGCATTGATTACTGTTA
61298748 TTGAAATAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (18 bp):
TGCATTGATTACTGTTAC
Found at i:61299513 original size:22 final size:21
Alignment explanation
Indices: 61299485--61299526 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
61299475 TCTTTAAGGC
61299485 TGTGTCACGACACCCTCTAGCT
1 TGTGTCACGACACCCT-TAGCT
* *
61299507 TGTGTCATGACATCCTTAGC
1 TGTGTCACGACACCCTTAGC
61299527 AGATTGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (21 bp):
TGTGTCACGACACCCTTAGCT
Found at i:61300262 original size:26 final size:26
Alignment explanation
Indices: 61300195--61300267 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
61300185 TCTCAGCCTT
* * *
61300195 ATTTTACCCTTAGAAAAAATTTGACG
1 ATTTTACCCTTAGTAAAATTTTGACA
61300221 ATTTTACCCTTAGTAAAATTTTGACA
1 ATTTTACCCTTAGTAAAATTTTGACA
*
61300247 ATTTTTCACCTT-GTAAAATTT
1 ATTTTAC-CCTTAGTAAAATTT
61300268 CAAGAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 38 0.90
27 4 0.10
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTTAGTAAAATTTTGACA
Found at i:61300421 original size:6 final size:6
Alignment explanation
Indices: 61300410--61300460 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
61300400 GGATTGCAAG
* * *
61300410 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTCCA TTTCCA TTTCCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
61300458 TTT
1 TTT
61300461 CCTTTTTTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTTCA
Found at i:61300433 original size:18 final size:18
Alignment explanation
Indices: 61300410--61300466 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
61300400 GGATTGCAAG
*
61300410 TTTTCATTTTCATTTTCA
1 TTTTCATTTTCATTTCCA
61300428 TTTTCATTTTCATTTCCA
1 TTTTCATTTTCATTTCCA
* *
61300446 TTTCCATTTCCATTTCC-
1 TTTTCATTTTCATTTCCA
61300463 TTTT
1 TTTT
61300467 TTGGAATTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
17 3 0.09
18 32 0.91
ACGTcount: A:0.14, C:0.23, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTCATTTTCATTTCCA
Found at i:61301090 original size:89 final size:89
Alignment explanation
Indices: 61300939--61301102 Score: 274
Period size: 89 Copynumber: 1.8 Consensus size: 89
61300929 ATAGTGATTG
* * * *
61300939 ACTTTTCATCAACTATGTAATGTCAATGAGAGGATATCATTTACCTATGTTTTCGGCTATGAATT
1 ACTTTTCATCAACCATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTCGGCTATGAATT
*
61301004 CTACTGTTGTAAGTTACCACGTTT
66 CCACTGTTGTAAGTTACCACGTTT
*
61301028 ACTTTTCATCAACCATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTGGGCTATGAATT
1 ACTTTTCATCAACCATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTCGGCTATGAATT
61301093 CCACTGTTGT
66 CCACTGTTGT
61301103 GAATCACGCT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (89 bp):
ACTTTTCATCAACCATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTCGGCTATGAATT
CCACTGTTGTAAGTTACCACGTTT
Found at i:61304256 original size:79 final size:81
Alignment explanation
Indices: 61304147--61304329 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
61304137 TACTCGTTCA
* *
61304147 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
61304210 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
61304227 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
61304290 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
61304306 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61304330 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:61304329 original size:40 final size:40
Alignment explanation
Indices: 61304126--61304329 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
61304116 CAGAATTTAA
** *
61304126 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61304166 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61304206 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61304245 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
61304285 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61304325 CCGGA
1 CCGGA
61304330 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61312333 original size:40 final size:40
Alignment explanation
Indices: 61312289--61312473 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
61312279 GCTACTCATT
* *
61312289 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61312329 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
61312369 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
61312408 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
61312449 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61312474 CATCATTCGA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 28 0.23
40 76 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:61312433 original size:79 final size:80
Alignment explanation
Indices: 61312291--61312471 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
61312281 TACTCATTCA
* ** *
61312291 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
* *
61312356 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
61312371 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
61312433 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
61312450 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
61312472 GACATCATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 57 0.67
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:61314948 original size:19 final size:19
Alignment explanation
Indices: 61314924--61314963 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61314914 TGTGTTATCA
*
61314924 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
61314943 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
61314962 TA
1 TA
61314964 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:61323687 original size:93 final size:93
Alignment explanation
Indices: 61323528--61323698 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
61323518 GGATGGTTGA
* * *
61323528 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
61323593 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
61323621 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
61323686 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
61323699 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61323701 original size:46 final size:45
Alignment explanation
Indices: 61323535--61323703 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
61323525 TGAGCATCCA
* * *
61323535 AACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGCCCG
* * * *
61323581 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---GC--CCG
61323628 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGCCCG
*
61323674 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
61323704 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 56 0.55
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGCCCG
Done.