Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 50 of 290
Found at i:16599880 original size:14 final size:13
Alignment explanation
Indices: 16599850--16599893 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
16599840 CTTCTATTTC
*
16599850 AAAA-AGAAAAGA
1 AAAAGAGAAAAAA
16599862 AAAAGAGAAAAAA
1 AAAAGAGAAAAAA
16599875 ATAAAGAGAAAAAA
1 A-AAAGAGAAAAAA
16599889 GAAAA
1 -AAAA
16599894 AATAGAGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 8 0.29
14 15 0.54
15 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAGAGAAAAAA
Found at i:16599902 original size:20 final size:22
Alignment explanation
Indices: 16599850--16599895 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
16599840 CTTCTATTTC
*
16599850 AAAAAGAAA-AGAAAAAGAGAA
1 AAAAATAAAGAGAAAAAGAGAA
16599871 AAAAATAAAGAGAAAAA-AGAA
1 AAAAATAAAGAGAAAAAGAGAA
16599892 AAAA
1 AAAA
16599896 TAGAGAGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAAATAAAGAGAAAAAGAGAA
Found at i:16600958 original size:119 final size:119
Alignment explanation
Indices: 16600746--16600977 Score: 394
Period size: 119 Copynumber: 1.9 Consensus size: 119
16600736 AAATTGAAAA
* * *
16600746 TAGCAGATCTAACCTTCAGATGTTTATACTGAGGCAGATCCAAGATGATTGAGTATTCTTGTGTT
1 TAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTGAGTATTCTTGTATT
16600811 TACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATG
66 TACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATG
16600865 TAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTG-GTATTCTTGTAT
1 TAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGA-TTGAGTATTCTTGTAT
* * *
16600929 TTACAAGGAACAAATTGAGGACATTGCAGATATGACTCTCAAATGTTCT
65 TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCT
16600978 TAAACAAACT
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
119 103 0.97
120 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (119 bp):
TAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTGAGTATTCTTGTATT
TACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATG
Found at i:16601016 original size:83 final size:83
Alignment explanation
Indices: 16600905--16601060 Score: 204
Period size: 83 Copynumber: 1.9 Consensus size: 83
16600895 AAAGCAGATC
* * * * * *
16600905 CAAGATGATTTGGTATTCTTGTATTTACAAGGAACAAATTGAGGACATTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGAGGACATAGCAGATATAACTCTCA
*
16600970 AATGTTCTTAAACAAACT
66 AACGTTCTTAAACAAACT
* * * * *
16600988 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTAATTCTCA
1 CAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGAGGACATAGCAGATATAACTCTCA
16601053 AACGTTCT
66 AACGTTCT
16601061 CAGATATAGC
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
83 61 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (83 bp):
CAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGAGGACATAGCAGATATAACTCTCA
AACGTTCTTAAACAAACT
Found at i:16601136 original size:202 final size:202
Alignment explanation
Indices: 16600803--16601173 Score: 598
Period size: 202 Copynumber: 1.8 Consensus size: 202
16600793 ATTGAGTATT
* * *
16600803 CTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATAACTCTCAAAAGTTCTCAAATATAG
*
16600868 CAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTATTTAC
66 CAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCCTGTATTTAC
* *
16600933 AAGGAACAAATTGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTT
131 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTT
16600998 TGGCATC
196 TGGCATC
* * * * *
16601005 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTAATTCTCAAACGTTCTCAGATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATAACTCTCAAAAGTTCTCAAATATAG
* * * *
16601070 CATATTTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCCTGTGTTTAC
66 CAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCCTGTATTTAC
*
16601135 AAGGAACAAATCGAGGACATAGCAGATATGGCTCTCAAA
131 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAA
16601174 AGTTTTCAAA
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
202 153 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (202 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATAACTCTCAAAAGTTCTCAAATATAG
CAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCCTGTATTTAC
AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTT
TGGCATC
Found at i:16601199 original size:119 final size:119
Alignment explanation
Indices: 16600988--16601298 Score: 426
Period size: 119 Copynumber: 2.6 Consensus size: 119
16600978 TAAACAAACT
* * * * * * *
16600988 CAAGATGGTTTGGCA-TCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTAATTCTC
1 CAAGATGATTTGGTATTCC-TGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTC
* * * * *
16601052 AAACGTTCTCAGATATAGCATATTTAACCTTCAGATGTTTATACTGAAGCAGATC
65 AAAAGTTCTCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
*
16601107 CAAGATGATTTGGTATTCCTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGGCTCTCA
1 CAAGATGATTTGGTATTCCTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCA
* * *
16601172 AAAGTTTTCAAATGTAACAGATCTAACCTTCAGATGTTTATACTGAAGTAGATC
66 AAAGTTCTCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
* * *
16601226 CAAGATGATTTGGTCTTCTTGTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGATTTGGTATTCCTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCA
*
16601291 AATGTTCT
66 AAAGTTCT
16601299 TAAACAAACT
Statistics
Matches: 169, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 166 0.98
120 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (119 bp):
CAAGATGATTTGGTATTCCTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCA
AAAGTTCTCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
Found at i:16601337 original size:321 final size:321
Alignment explanation
Indices: 16600745--16601363 Score: 1078
Period size: 321 Copynumber: 1.9 Consensus size: 321
16600735 CAAATTGAAA
* *
16600745 ATAGCAGATCTAACCTTCAGATGTTTATACTGAGGCAGATCCAAGATGATTGAGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTGAGTATTCCTGTGT
*
16600810 TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAGATCT
66 TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAACAGATCT
16600875 AACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTATTTACAAGGAAC
131 AACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTATTTACAAGGAAC
*
16600940 AAATTGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTTTGGCATC
196 AAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTTTGGCATC
* * *
16601005 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTAATTCTCAAACGTTCTCAGAT
261 CTTGGGCTTACAAGGGAAAAAACGAGGACATAGCAGATTTAATTCTCAAACGTTCTCAGAT
* *
16601066 ATAGCATATTTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTG-GTATTCCTGTG
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGA-TTGAGTATTCCTGTG
* *
16601130 TTTACAAGGAACAAATCGAGGACATAGCAGATATGGCTCTCAAAAGTTTTCAAATGTAACAGATC
65 TTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAACAGATC
* * * *
16601195 TAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTCTTCTTGTGTTTACAAGGAA
130 TAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTATTTACAAGGAA
16601260 CAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTTTGGCAT
195 CAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTTTGGCAT
*
16601325 CCTTGGGCTTACAAGGGAAAAAACGAGGACATTGCAGAT
260 CCTTGGGCTTACAAGGGAAAAAACGAGGACATAGCAGAT
16601364 ATGACTCTCA
Statistics
Matches: 281, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
321 278 0.99
322 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (321 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTGAGTATTCCTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAACAGATCT
AACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTATTTACAAGGAAC
AAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTTTGGCATC
CTTGGGCTTACAAGGGAAAAAACGAGGACATAGCAGATTTAATTCTCAAACGTTCTCAGAT
Found at i:16601340 original size:83 final size:83
Alignment explanation
Indices: 16601250--16601490 Score: 326
Period size: 83 Copynumber: 2.9 Consensus size: 83
16601240 CTTCTTGTGT
* *
16601250 TTACAA-GGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGA
1 TTACAAGGGAA-AAAACGAGGACATTGCAGATATGACTCTCAAATGTTCTAAAACAAACTCAAGA
16601314 TGGTTTGGCATCCTTGGGC
65 TGGTTTGGCATCCTTGGGC
* **
16601333 TTACAAGGGAAAAAACGAGGACATTGCAGATATGACTCTCAAATGTGCTAAAACAAACTTGAGAT
1 TTACAAGGGAAAAAACGAGGACATTGCAGATATGACTCTCAAATGTTCTAAAACAAACTCAAGAT
*
16601398 GGTTTGGCATCCTTGTGC
66 GGTTTGGCATCCTTGGGC
* * * * * *
16601416 TTACAAGGGAAAAAACAAGGACATAGCAGATATGATTCTCAACA-GTTCTCAAATAGA-TCAAGA
1 TTACAAGGGAAAAAACGAGGACATTGCAGATATGACTCTCAA-ATGTTCTAAAACAAACTCAAGA
*
16601479 TGATTTGGCATC
65 TGGTTTGGCATC
16601491 TCTACAAATC
Statistics
Matches: 140, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
82 15 0.11
83 120 0.86
84 5 0.04
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (83 bp):
TTACAAGGGAAAAAACGAGGACATTGCAGATATGACTCTCAAATGTTCTAAAACAAACTCAAGAT
GGTTTGGCATCCTTGGGC
Found at i:16603337 original size:20 final size:19
Alignment explanation
Indices: 16603304--16603341 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16603294 CGTACCGCAA
16603304 ATTATATTATTTATGTTTAT
1 ATTATATTATTTAT-TTTAT
16603324 ATTATA-TATATTATTTTA
1 ATTATATTAT-TTATTTTA
16603342 AAAATGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTATATTATTTATTTTAT
Found at i:16606249 original size:29 final size:27
Alignment explanation
Indices: 16606231--16606300 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
16606221 ATATTAAGTC
16606231 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
16606258 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
16606286 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
16606301 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:16606294 original size:28 final size:28
Alignment explanation
Indices: 16606231--16606328 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
16606221 ATATTAAGTC
*
16606231 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
16606258 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
16606286 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
16606315 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16606329 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16613317 original size:35 final size:35
Alignment explanation
Indices: 16613277--16613346 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16613267 GGGTGTCAAA
16613277 GGTAACCCACTCACAAAGTCCATTGTTACTCTTTC
1 GGTAACCCACTCACAAAGTCCATTGTTACTCTTTC
16613312 GGTAACCCACTCACAAAGTCCATTGTTACTCTTTC
1 GGTAACCCACTCACAAAGTCCATTGTTACTCTTTC
16613347 CCACTTCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.31
Consensus pattern (35 bp):
GGTAACCCACTCACAAAGTCCATTGTTACTCTTTC
Found at i:16617252 original size:28 final size:28
Alignment explanation
Indices: 16617187--16617337 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
16617177 GAGATTGGCG
* * * *
16617187 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
16617216 CTAAGTGTGCAAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16617244 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16617272 CTAAGTGTGCGAGTTTGACTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16617300 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16617327 CTGAGTGTGCG
1 CTAAGTGTGCG
16617338 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 23 0.21
28 74 0.67
29 14 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:16623866 original size:21 final size:19
Alignment explanation
Indices: 16623826--16623866 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16623816 TGGTGGCGAC
*
16623826 TCCCATTTTTAAAATCGAT
1 TCCCATTTTCAAAATCGAT
16623845 TCCCATTTTCCAAAACTCGAT
1 TCCCATTTT-CAAAA-TCGAT
16623866 T
1 T
16623867 TGAAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (19 bp):
TCCCATTTTCAAAATCGAT
Found at i:16630411 original size:15 final size:15
Alignment explanation
Indices: 16630393--16630444 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
16630383 TTAATATATT
16630393 TTTAATTAAAAATTA
1 TTTAATTAAAAATTA
* *
16630408 TTTAATTATAGATTA
1 TTTAATTAAAAATTA
* *
16630423 TTTAATGAAATA-TA
1 TTTAATTAAAAATTA
16630437 TTTAATTA
1 TTTAATTA
16630445 GTGTTAAGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
TTTAATTAAAAATTA
Found at i:16630697 original size:14 final size:14
Alignment explanation
Indices: 16630678--16630708 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16630668 AAACAAGGTC
16630678 TTGTTGCCTCATTT
1 TTGTTGCCTCATTT
16630692 TTGTTGCCTCATTT
1 TTGTTGCCTCATTT
16630706 TTG
1 TTG
16630709 AAAGCCACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.16, T:0.58
Consensus pattern (14 bp):
TTGTTGCCTCATTT
Found at i:16633534 original size:41 final size:40
Alignment explanation
Indices: 16633407--16633551 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
16633397 CTCGCACAAG
* * * * *
16633407 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
16633447 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
16633487 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
16633528 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
16633552 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:16634780 original size:38 final size:38
Alignment explanation
Indices: 16634738--16634813 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
16634728 CAAGAACTCC
*
16634738 TTCCTCCTTCCTTAGAATTTTTGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
16634776 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
16634814 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:16639606 original size:46 final size:46
Alignment explanation
Indices: 16639556--16639733 Score: 134
Period size: 46 Copynumber: 3.8 Consensus size: 46
16639546 CACTAACACA
*
16639556 TCTCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTTATG
1 TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATG
** * * *
16639602 TCTCG-AGGTTGACGCATGTCCCAGACATGTCTTACACCAGCGC-T-CG
1 TCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACA-CTG-GCTTATG
* **
16639648 TCTCAATA-CCGATGCCATGTCCCAGACATGATCTTACACCAGCTCTCAT-
1 TCTC-GTAGCCGATG-CATGTCCCAGACATG-TCTTACACTGGCT-T-ATG
** *
16639697 AAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
1 TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
16639734 AACTTACACA
Statistics
Matches: 102, Mismatches: 18, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
45 1 0.01
46 48 0.47
47 35 0.34
48 17 0.17
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
TCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATG
Found at i:16639714 original size:47 final size:45
Alignment explanation
Indices: 16639615--16639732 Score: 143
Period size: 47 Copynumber: 2.5 Consensus size: 45
16639605 CGAGGTTGAC
16639615 GCATGTCCCAGACATGTCTTACACCAGCGCTCGTCTCAATACCGAT
1 GCATGTCCCAGACATGTCTTACACCA-CGCTCGTCTCAATACCGAT
*
16639661 GCCATGTCCCAGACATGATCTTACACCA-GCTC-TCAT-AATGTGGCCGAT
1 G-CATGTCCCAGACATG-TCTTACACCACGCTCGTC-TCAA--T-ACCGAT
16639709 GCATGTCCCAGACATGTCTTACAC
1 GCATGTCCCAGACATGTCTTACAC
16639733 TAACTTACAC
Statistics
Matches: 65, Mismatches: 1, Indels: 12
0.83 0.01 0.15
Matches are distributed among these distances:
45 4 0.06
46 14 0.22
47 31 0.48
48 16 0.25
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACCACGCTCGTCTCAATACCGAT
Found at i:16642822 original size:35 final size:35
Alignment explanation
Indices: 16642774--16642842 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
16642764 CTGTATCAAC
*
16642774 TCTTTGTTTGTTTATCCGACTAGTGCTGGGCACAA
1 TCTTTGTTAGTTTATCCGACTAGTGCTGGGCACAA
*
16642809 TCTTTGTTAGTTTATCTGACTAGTGCTGGGCACA
1 TCTTTGTTAGTTTATCCGACTAGTGCTGGGCACA
16642843 CAATTATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (35 bp):
TCTTTGTTAGTTTATCCGACTAGTGCTGGGCACAA
Found at i:16642906 original size:75 final size:74
Alignment explanation
Indices: 16642783--16642927 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 74
16642773 CTCTTTGTTT
* * * *
16642783 GTTTATCCGACTAGTGCTGGGCACAATCTTTGTTAGTTTATCTGACTAGTGCTGGGCACA-CAAT
1 GTTTATCCGACTAGTGCTAGACACAATCTTCGTTAGTTTATCTAACTAGTG-TGGGCACATC-AT
16642847 TATACTCGTCA
64 TATACTCGTCA
* ** *
16642858 GTTTATCCGTCTAGTGCTAGATGCAATCTTCGTTAGTTTATCTAACTAGTGTTGGCACATCATTA
1 GTTTATCCGACTAGTGCTAGACACAATCTTCGTTAGTTTATCTAACTAGTGTGGGCACATCATTA
16642923 TACTC
66 TACTC
16642928 ATTGGTTTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 16 0.26
75 45 0.74
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (74 bp):
GTTTATCCGACTAGTGCTAGACACAATCTTCGTTAGTTTATCTAACTAGTGTGGGCACATCATTA
TACTCGTCA
Found at i:16651622 original size:34 final size:35
Alignment explanation
Indices: 16651564--16651658 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 35
16651554 CCCGTAGTTA
* * *
16651564 GGGCCTTAGTCCCTTTTCATTAACAGTA-TCAG-CGT
1 GGGCCTTAG-CCCATTTCAGTAACAGTAGGCAGTC-T
*
16651599 GGGCCTGAGCCCATTTCAGTAACAG-AGGCAGTCT
1 GGGCCTTAGCCCATTTCAGTAACAGTAGGCAGTCT
*
16651633 GGGCCTTAGCCCATTTTAGT-ACAGTA
1 GGGCCTTAGCCCATTTCAGTAACAGTA
16651659 AATATGGCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
33 5 0.10
34 37 0.73
35 9 0.18
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.28
Consensus pattern (35 bp):
GGGCCTTAGCCCATTTCAGTAACAGTAGGCAGTCT
Found at i:16652791 original size:35 final size:35
Alignment explanation
Indices: 16652746--16652814 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
16652736 GAATCGAGAG
*
16652746 AGAGATGAGGGTTAGA-AAATGAAAGAGGGAAAGAT
1 AGAGATGAGGG-TAGACAAATGAAAGAGGAAAAGAT
* *
16652781 AGAGATGAGGGTCGACAAATGAAGGAGGAAAAGA
1 AGAGATGAGGGTAGACAAATGAAAGAGGAAAAGA
16652815 GATCGATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 3 0.10
35 27 0.90
ACGTcount: A:0.48, C:0.03, G:0.38, T:0.12
Consensus pattern (35 bp):
AGAGATGAGGGTAGACAAATGAAAGAGGAAAAGAT
Found at i:16654143 original size:63 final size:64
Alignment explanation
Indices: 16654023--16654149 Score: 152
Period size: 63 Copynumber: 2.0 Consensus size: 64
16654013 ACACATTGCC
* * * *
16654023 TGTGACAGCCCTAATATGGCCCTAGTCAGAAAGTGGTTTCAGGACCATAAAATCGAGTC-CCGA
1 TGTGACAGCCCAAATATGACCCTAGTCAGAAAGTGGTTTCAGAACCATAAAACCGAGTCACCGA
* * *
16654086 TGTGACAGCCCAAA-ATTGACCCTAGTCTGGAAGTGGTTTCAGAACCGCT-AAACCGAGTCACCG
1 TGTGACAGCCCAAATA-TGACCCTAGTCAGAAAGTGGTTTCAGAACC-ATAAAACCGAGTCACCG
16654149 A
64 A
16654150 AATGTTTGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
62 1 0.02
63 48 0.89
64 5 0.09
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (64 bp):
TGTGACAGCCCAAATATGACCCTAGTCAGAAAGTGGTTTCAGAACCATAAAACCGAGTCACCGA
Found at i:16655814 original size:79 final size:81
Alignment explanation
Indices: 16655679--16655862 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 81
16655669 TGAATGATGT
* *
16655679 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
* *
16655743 GTGCGAGATACTA-ATT
66 GTACGAGATACTATA-A
* * * * **
16655759 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
16655821 TGTACGAGTTACTATAA
65 TGTACGAGATACTATAA
*
16655838 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16655863 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.63
80 31 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTACGAGATACTATAA
Found at i:16655868 original size:40 final size:40
Alignment explanation
Indices: 16655678--16655869 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
16655668 TTGAATGATG
* * * * *
16655678 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
* * * *
16655718 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
16655758 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* *
16655797 TCCGGGTTAAGTCCCGAAGGCAATTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
16655838 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
16655870 AGCTATATCC
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 34 0.27
40 84 0.66
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:16659267 original size:52 final size:52
Alignment explanation
Indices: 16659184--16659286 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
16659174 TTACCACCTG
* *
16659184 TTCGGGAGATAGAGTTTGGTATTGAGCTTGTACCTGGGTCTACGCCGATTTT
1 TTCGGGAGATAGAGTTTGGTATTGAGATTGTACCTGGGACTACGCCGATTTT
16659236 TTCGGGAGATAGAGTTTGGTATTGAGATTGTACCTGGGACTACGCCGATTT
1 TTCGGGAGATAGAGTTTGGTATTGAGATTGTACCTGGGACTACGCCGATTT
16659287 CGATGGCTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (52 bp):
TTCGGGAGATAGAGTTTGGTATTGAGATTGTACCTGGGACTACGCCGATTTT
Found at i:16659700 original size:53 final size:53
Alignment explanation
Indices: 16659620--16659725 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
16659610 TTCAGAACGA
*
16659620 GATATGGTCACTACGAGTTCTTAGTGATGCCATTTGGGCTCACTAATGCCCCT
1 GATATGGTCACTACGAGTTCTTAGTGATGCCATTTGGGCTCACTAATACCCCT
*
16659673 GATATGGTCACTACGAGTTCTTAGTGATGCCGTTTGGGCTCACTAATACCCCT
1 GATATGGTCACTACGAGTTCTTAGTGATGCCATTTGGGCTCACTAATACCCCT
16659726 ACGGTATTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (53 bp):
GATATGGTCACTACGAGTTCTTAGTGATGCCATTTGGGCTCACTAATACCCCT
Found at i:16662889 original size:27 final size:27
Alignment explanation
Indices: 16662859--16663036 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
16662849 ATATTGAGCC
* *
16662859 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
16662886 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
16662913 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
16662941 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
16662968 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
16662995 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
16663022 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16663037 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:16662971 original size:55 final size:54
Alignment explanation
Indices: 16662859--16663036 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
16662849 ATATTGAGCC
* * * * *
16662859 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
16662913 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
16662968 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
16663022 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16663037 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:16663331 original size:50 final size:50
Alignment explanation
Indices: 16663273--16663372 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
16663263 ATGACTTACC
16663273 TCGTGTTGGGTAAGACGGTTCCAACTCGGCTACTCGATAACCTTTTCTTT
1 TCGTGTTGGGTAAGACGGTTCCAACTCGGCTACTCGATAACCTTTTCTTT
16663323 TCGTGTTGGGTAAGACGGTTCCAACTCGGCTACTCGATAACCTTTTCTTT
1 TCGTGTTGGGTAAGACGGTTCCAACTCGGCTACTCGATAACCTTTTCTTT
16663373 GCCTTTGCTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (50 bp):
TCGTGTTGGGTAAGACGGTTCCAACTCGGCTACTCGATAACCTTTTCTTT
Found at i:16664534 original size:78 final size:78
Alignment explanation
Indices: 16664424--16664578 Score: 274
Period size: 78 Copynumber: 2.0 Consensus size: 78
16664414 CCTTACCATA
*
16664424 CATCACTAACACAACATGTTGGTGACATGTTTCCACCCATAGCATGGCCGGCCACTACATATTAG
1 CATCACTAACACAACATGTTGGAGACATGTTTCCACCCATAGCATGGCCGGCCACTACATATTAG
16664489 GGAGGGGGAATTG
66 GGAGGGGGAATTG
* * *
16664502 CATCACTAGCATAACATGTTGGAGACATGTTTCCACCTATAGCATGGCCGGCCACTACATATTAG
1 CATCACTAACACAACATGTTGGAGACATGTTTCCACCCATAGCATGGCCGGCCACTACATATTAG
16664567 GGAGGGGGAATT
66 GGAGGGGGAATT
16664579 TGACATGCAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (78 bp):
CATCACTAACACAACATGTTGGAGACATGTTTCCACCCATAGCATGGCCGGCCACTACATATTAG
GGAGGGGGAATTG
Found at i:16671162 original size:27 final size:27
Alignment explanation
Indices: 16670991--16671165 Score: 190
Period size: 27 Copynumber: 6.4 Consensus size: 27
16670981 ATATTGAGTC
* * * *
16670991 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
16671018 CGCACACCTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16671045 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16671073 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16671100 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16671127 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16671154 CGCACACTTAGT
1 CGCACACTTAGT
16671166 TCTGTACAAT
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16675427 original size:65 final size:65
Alignment explanation
Indices: 16675342--16676184 Score: 1686
Period size: 65 Copynumber: 13.0 Consensus size: 65
16675332 TAGCTCTCTT
16675342 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675407 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675472 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675537 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675602 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675667 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675732 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675797 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675862 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675927 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16675992 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16676057 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
16676122 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCT
1 GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCT
16676185 TTCTTGTACA
Statistics
Matches: 778, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 778 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (65 bp):
GTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTACATGGTATCTTGAAGCTAG
Found at i:16676235 original size:68 final size:68
Alignment explanation
Indices: 16676149--16676301 Score: 306
Period size: 68 Copynumber: 2.2 Consensus size: 68
16676139 CCCGTATCAC
16676149 ACATGTGACCTAGCTACTACATGGTATCTTGAAGCTTTCTTGTACACATGATGTCCACTCAGCAC
1 ACATGTGACCTAGCTACTACATGGTATCTTGAAGCTTTCTTGTACACATGATGTCCACTCAGCAC
16676214 CAT
66 CAT
16676217 ACATGTGACCTAGCTACTACATGGTATCTTGAAGCTTTCTTGTACACATGATGTCCACTCAGCAC
1 ACATGTGACCTAGCTACTACATGGTATCTTGAAGCTTTCTTGTACACATGATGTCCACTCAGCAC
16676282 CAT
66 CAT
16676285 ACATGTGACCTAGCTAC
1 ACATGTGACCTAGCTAC
16676302 GCTCCATCTA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (68 bp):
ACATGTGACCTAGCTACTACATGGTATCTTGAAGCTTTCTTGTACACATGATGTCCACTCAGCAC
CAT
Found at i:16681744 original size:28 final size:28
Alignment explanation
Indices: 16681681--16681778 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
16681671 ATATTAAGTC
*
16681681 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
16681708 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
16681736 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
16681765 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16681779 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16689953 original size:90 final size:90
Alignment explanation
Indices: 16689800--16689979 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
16689790 CAAAATTGGG
16689800 TCTAGTTGGAATAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATT
1 TCTAGTTGGAATAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATT
16689865 TTGAGGTCTATGATATGATTTCATA
66 TTGAGGTCTATGATATGATTTCATA
16689890 TCTAGTTGGAATAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATT
1 TCTAGTTGGAATAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATT
*
16689955 TTTAGGTCTATGATATGATTTCATA
66 TTGAGGTCTATGATATGATTTCATA
16689980 ATTGTGTGAA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.37
Consensus pattern (90 bp):
TCTAGTTGGAATAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATT
TTGAGGTCTATGATATGATTTCATA
Found at i:16696077 original size:40 final size:40
Alignment explanation
Indices: 16696033--16696216 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
16696023 AAGTGAATAT
* *
16696033 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGATTAAG-TCCCGAAGGCATTCGTGCGAGATACTAA
* **
16696073 ATCCGGGA-TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCC-GGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* **
16696113 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAA
* * * *
16696153 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
** *
16696192 ATCCGGGCTATGTCCCGAAGGCATT
1 ATCCGGATTAAGTCCCGAAGGCATT
16696217 TGAACGAGGA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 36 0.29
40 87 0.69
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
Found at i:16696131 original size:80 final size:79
Alignment explanation
Indices: 16695994--16696218 Score: 233
Period size: 80 Copynumber: 2.8 Consensus size: 79
16695984 TTGAATGCTG
* * * * * *
16695994 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGATAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
16696057 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
16696074 TCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGATAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
16696139 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * * *
16696154 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGATAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
16696218 G
65 G
16696219 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 80 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGATAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:16696236 original size:79 final size:80
Alignment explanation
Indices: 16696069--16696237 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 80
16696059 GTGCGAGATA
** *
16696069 CTAAATCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
16696134 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * * *
16696149 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
16696213 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
*
16696228 CTATATCCGG
1 CTAAATCCGG
16696238 TTAAATCCCA
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
79 47 0.64
80 26 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:16696236 original size:119 final size:120
Alignment explanation
Indices: 16695994--16696251 Score: 272
Period size: 119 Copynumber: 2.2 Consensus size: 120
16695984 TTGAATGCTG
* * * * *
16695994 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
** ** *
16696059 GTGCGAGATACTAAATCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGATAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
16696114 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * * *
16696176 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGATAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* *
16696233 TCC-GGTTAAATCCCAAAGG
1 TCCGGGTTAAGTCCCGAAGG
16696252 TACGTGATTT
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
118 14 0.12
119 51 0.45
120 39 0.34
121 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGATAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:16699664 original size:36 final size:36
Alignment explanation
Indices: 16699617--16699686 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
16699607 TTTCCATACT
*
16699617 TTGATAACTTTTTAAATTAATCCCCCAAATAGATAG
1 TTGATAACTTTTCAAATTAATCCCCCAAATAGATAG
16699653 TTGATAACTTTTCAAATTAATCCCCCAAATAGAT
1 TTGATAACTTTTCAAATTAATCCCCCAAATAGAT
16699687 TGTTTAAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.36
Consensus pattern (36 bp):
TTGATAACTTTTCAAATTAATCCCCCAAATAGATAG
Found at i:16709400 original size:20 final size:20
Alignment explanation
Indices: 16709371--16709417 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
16709361 ATTTTGATAA
*
16709371 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
16709391 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
16709411 ACATGAT
1 ACATGAT
16709418 GTAATCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:16709498 original size:23 final size:23
Alignment explanation
Indices: 16709468--16709540 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
16709458 AGGAAGTGAA
16709468 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
16709491 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
16709514 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
16709538 AAA
1 AAA
16709541 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:16709523 original size:24 final size:24
Alignment explanation
Indices: 16709467--16709561 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
16709457 GAGGAAGTGA
16709467 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
16709491 -AAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
16709514 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
16709538 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
16709562 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.35
24 30 0.48
25 11 0.17
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:16709790 original size:31 final size:31
Alignment explanation
Indices: 16709755--16709818 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
16709745 CGTTTACAGT
16709755 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGA
*
16709786 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGA
16709817 AA
1 AA
16709819 TATGAAGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGA
Found at i:16720809 original size:39 final size:40
Alignment explanation
Indices: 16720764--16720874 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
16720754 CGGGGTTTAG
* * *
16720764 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
16720803 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
16720843 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
16720875 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:16720834 original size:40 final size:40
Alignment explanation
Indices: 16720787--16720931 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
16720777 CTCGCACAAG
* * * * *
16720787 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
16720827 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
16720867 GCCTTC-GGATCTTAGTCCAGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
16720908 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
16720932 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:16724473 original size:50 final size:50
Alignment explanation
Indices: 16724360--16724492 Score: 187
Period size: 50 Copynumber: 2.7 Consensus size: 50
16724350 CTGGTACGCA
* * ** ** *
16724360 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACACG
*
16724409 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACACG
16724459 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
16724493 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.41
50 44 0.59
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACACG
Found at i:16729109 original size:27 final size:27
Alignment explanation
Indices: 16729045--16729256 Score: 131
Period size: 27 Copynumber: 7.9 Consensus size: 27
16729035 AATACTTTAG
* * * * *
16729045 TTTACCAAATTACTAAAATGCCCTCAA
1 TTTACAAAATTACCAAATTACCCTCGA
** *
16729072 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAATTACCCTCGA
* ***
16729099 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAATTACCCTCGA
* * ***
16729126 CTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAATTACCCTCGA
***
16729153 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAATTACCCTCGA
* * * *
16729180 TTTACAAAATTACTAAAATACCAT-TA
1 TTTACAAAATTACCAAATTACCCTCGA
* *
16729206 GTTTACAAAATTACCAAAATACCCTTGA
1 -TTTACAAAATTACCAAATTACCCTCGA
* * *
16729234 -TCAGTAAAATTACCAAAATACCC
1 TTTA-CAAAATTACCAAATTACCC
16729257 CTAGTTTGTA
Statistics
Matches: 153, Mismatches: 29, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
26 3 0.02
27 149 0.97
28 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAATTACCCTCGA
Found at i:16729137 original size:54 final size:54
Alignment explanation
Indices: 16729077--16729220 Score: 173
Period size: 54 Copynumber: 2.7 Consensus size: 54
16729067 CTCAATTTGT
* *
16729077 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGACTTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGACTTAC
* **** *
16729131 AGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGACTTAC
* * *
16729185 AAAATTACTAAAATACCAT-TAGTTTACAAAATTACC
1 AAAATTACCAAAATACCCTCGA-TTTACAAAATTACC
16729221 AAAATACCCT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 73 0.99
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGACTTAC
Found at i:16729229 original size:54 final size:54
Alignment explanation
Indices: 16729153--16729283 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 54
16729143 TTACCCTCGA
**** * * *
16729153 TTTACAAAATTACCGTTTTACCCTCGATTTA-CAAAATTACTAAAATACCATTAG
1 TTTACAAAATTACCAAAATACCCTCGA-TCAGCAAAATTACCAAAATACCACTAG
* * *
16729207 TTTACAAAATTACCAAAATACCCTTGATCAGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACCACTAG
** *
16729261 TTTGTAAAATTACTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
16729284 CTGATTTGTG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
53 2 0.03
54 61 0.97
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.31
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACCACTAG
Found at i:16729267 original size:27 final size:28
Alignment explanation
Indices: 16729185--16729366 Score: 117
Period size: 27 Copynumber: 6.8 Consensus size: 28
16729175 CTCGATTTAC
* ** **
16729185 AAAATTACTAAAATACCATTAG-TTTAC
1 AAAATTACCAAAATACCCCTAGATTTGT
* **
16729212 AAAATTACCAAAATA-CCCTTGATCAGT
1 AAAATTACCAAAATACCCCTAGATTTGT
16729239 AAAATTACCAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCCTAGATTTGT
*
16729266 AAAATTACTAAAATACCCCT-GATTTGT
1 AAAATTACCAAAATACCCCTAGATTTGT
* ** * * *
16729293 GAAATTATGAAAATAACCAT-GTTTTGT
1 AAAATTACCAAAATACCCCTAGATTTGT
* * * * *
16729320 GAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCTAGATTTGT
* *
16729347 AAAA-TATCGAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
16729367 TAGGGTAGAA
Statistics
Matches: 124, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
26 16 0.13
27 103 0.83
28 5 0.04
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (28 bp):
AAAATTACCAAAATACCCCTAGATTTGT
Found at i:16729299 original size:54 final size:54
Alignment explanation
Indices: 16729185--16729288 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
16729175 CTCGATTTAC
* * *
16729185 AAAATTACTAAAATACCATTAGTTTACAAAATTACCAAAATACCCTTGATCAGT
1 AAAATTACCAAAATACCACTAGTTTACAAAATTACCAAAATACCCCTGATCAGT
* ** *
16729239 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGAT
1 AAAATTACCAAAATACCACTAGTTTACAAAATTACCAAAATACCCCTGAT
16729289 TTGTGAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCACTAGTTTACAAAATTACCAAAATACCCCTGATCAGT
Found at i:16729319 original size:54 final size:54
Alignment explanation
Indices: 16729185--16729335 Score: 135
Period size: 54 Copynumber: 2.8 Consensus size: 54
16729175 CTCGATTTAC
* ** *
16729185 AAAATTACTAAAAT-ACCATTAGTTTACAAAATTACCAAAATACCCTTGATCAGT
1 AAAATTACCAAAATAACCA-TAGTTTGTAAAATTACCAAAATACCCCTGATCAGT
* * * **
16729239 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGT
1 AAAATTACCAAAATAACCATAGTTTGTAAAATTACCAAAATACCCCTGATCAGT
* ** * * *
16729293 GAAATTATGAAAATAACCAT-GTTTTGTGAAATTATCGAAATAC
1 AAAATTACCAAAATAACCATAG-TTTGTAAAATTACCAAAATAC
16729336 TCTCGATTTG
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
53 1 0.01
54 74 0.96
55 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATAACCATAGTTTGTAAAATTACCAAAATACCCCTGATCAGT
Found at i:16729397 original size:27 final size:27
Alignment explanation
Indices: 16729355--16729535 Score: 206
Period size: 27 Copynumber: 6.7 Consensus size: 27
16729345 GTAAAATATC
* *
16729355 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
16729382 GAAATAACCC-TGTAGGGTAGAATTA-T
1 GAAAT-ACCCTTGTAGGGTAGAATTACT
*
16729408 CGAAATACCCTTGTAGGGTGGAATTACT
1 -GAAATACCCTTGTAGGGTAGAATTACT
* * *
16729436 GAAATACCCTTTTAGGGTAGACTTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
16729463 GAAATACCCTTGTAGGGTAAAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACT
*
16729490 GAAATACCCCTGTAGGGTAGAATTAC-
1 GAAATACCCTTGTAGGGTAGAATTACT
* *
16729516 CAAGATACCCTTGTGGGGTA
1 GAA-ATACCCTTGTAGGGTA
16729536 AAGTTACCAT
Statistics
Matches: 133, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.05
27 121 0.91
28 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACT
Found at i:16729415 original size:54 final size:54
Alignment explanation
Indices: 16729351--16729535 Score: 230
Period size: 54 Copynumber: 3.4 Consensus size: 54
16729341 ATTTGTAAAA
* *
16729351 TATCGAAATACCCCTATAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAAT
1 TATCGAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAAT
* * *
16729405 TATCGAAATACCCTTGTAGGGTGGAATTACTGAAAT-ACCCTTTTAGGGTAGACT
1 TATCGAAATACCCTTGTAGGGTAGAATTACTGAAATAACCC-TGTAGGGTAGAAT
* * * * *
16729459 TACCGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAAT
* *
16729513 TA-CCAAGATACCCTTGTGGGGTA
1 TATCGAA-ATACCCTTGTAGGGTA
16729536 AAGTTACCAT
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
53 7 0.06
54 103 0.91
55 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (54 bp):
TATCGAAATACCCTTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAAT
Found at i:16729853 original size:25 final size:25
Alignment explanation
Indices: 16729819--16729902 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
16729809 GGTTTTATAA
16729819 GCCCCAGTTTACCGAAAAGGGCTTT
1 GCCCCAGTTTACCGAAAAGGGCTTT
16729844 GCCCCAGTTTACCGAAAAGGGCTTT
1 GCCCCAGTTTACCGAAAAGGGCTTT
* *
16729869 GCCCCAGTTTATC-AAAATGGACTTT
1 GCCCCAGTTTACCGAAAA-GGGCTTT
*
16729894 GTCCCAGTT
1 GCCCCAGTT
16729903 ATTAAAAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 4 0.07
25 51 0.93
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (25 bp):
GCCCCAGTTTACCGAAAAGGGCTTT
Found at i:16736398 original size:31 final size:31
Alignment explanation
Indices: 16736357--16736420 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
16736347 CCTTTTCATA
*
16736357 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
16736388 TTTCAAATTTCATATTAGTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
16736419 TT
1 TT
16736421 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:16736660 original size:24 final size:24
Alignment explanation
Indices: 16736613--16736732 Score: 147
Period size: 24 Copynumber: 5.0 Consensus size: 24
16736603 GCTTTATCAT
*
16736613 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
16736638 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
* *
16736663 ATAACTGAGCCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
16736686 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16736710 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16736733 GCACTTCCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
23 21 0.25
24 33 0.40
25 23 0.28
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16736689 original size:23 final size:23
Alignment explanation
Indices: 16736634--16736731 Score: 126
Period size: 23 Copynumber: 4.1 Consensus size: 23
16736624 CCTAGCCTCT
16736634 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
16736656 TTTTTTAATAACTGAGCCATAAGCCC
1 ---TTTAATAACTGGGGCATAAGCCC
*
16736682 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
16736705 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
16736729 TTT
1 TTT
16736732 TGCACTTCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 23 0.35
24 22 0.34
25 14 0.22
26 6 0.09
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:16736724 original size:47 final size:47
Alignment explanation
Indices: 16736634--16736731 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 47
16736624 CCTAGCCTCT
16736634 TTTAATAACTGGGGCAAAGCCCTTTTTTAATAACTGAGCCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCC-TTTTTAATAACTGAGCCATAAGCCC
* * *
16736682 TTTAATAATTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGAGCCATAAGCCC
16736729 TTT
1 TTT
16736732 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 25 0.54
48 15 0.33
49 6 0.13
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTGAGCCATAAGCCC
Found at i:16736809 original size:20 final size:20
Alignment explanation
Indices: 16736786--16736888 Score: 188
Period size: 20 Copynumber: 5.2 Consensus size: 20
16736776 GAACATCTCG
16736786 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
16736806 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
16736826 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
16736846 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
16736866 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
16736886 TGT
1 TGT
16736889 TTATCAAAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:16744531 original size:31 final size:31
Alignment explanation
Indices: 16744490--16744553 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
16744480 CCTTTTCATA
*
16744490 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
16744521 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
16744552 TT
1 TT
16744554 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:16744821 original size:23 final size:23
Alignment explanation
Indices: 16744766--16744863 Score: 126
Period size: 23 Copynumber: 4.1 Consensus size: 23
16744756 CCTAACCTCT
16744766 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
** *
16744788 TTTTTTAATAACTACGACATAAGCCC
1 ---TTTAATAACTGGGGCATAAGCCC
16744814 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
16744837 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
16744861 TTT
1 TTT
16744864 TGCACTTCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 23 0.35
24 23 0.35
25 13 0.20
26 6 0.09
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:16744846 original size:24 final size:24
Alignment explanation
Indices: 16744745--16744864 Score: 147
Period size: 24 Copynumber: 5.0 Consensus size: 24
16744735 GCTTTATCAT
*
16744745 ATAACTGGAGGCCTAA-CCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
16744770 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
** *
16744795 ATAACTACGACATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16744818 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16744842 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16744865 GCACTTCCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
23 23 0.28
24 32 0.39
25 22 0.27
26 6 0.07
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16744856 original size:47 final size:47
Alignment explanation
Indices: 16744766--16744863 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 47
16744756 CCTAACCTCT
16744766 TTTAATAACTGGGGCAAAGCCCTTTTTTAATAACTACGACATAAGCCC
1 TTTAATAACTGGGGCAAAGCCC-TTTTTAATAACTACGACATAAGCCC
** *
16744814 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTACGACATAAGCCC
16744861 TTT
1 TTT
16744864 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 24 0.52
48 16 0.35
49 6 0.13
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTACGACATAAGCCC
Found at i:16744936 original size:9 final size:9
Alignment explanation
Indices: 16744922--16744998 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
16744912 ATCTCGGGTG
16744922 CATATCATA
1 CATATCATA
*
16744931 CATATCATGTG
1 CATATCA--TA
16744942 CATATCATA
1 CATATCATA
* *
16744951 CATGTCATGTG
1 CATATCA--TA
16744962 CATATCATA
1 CATATCATA
*
16744971 CATATCATGTG
1 CATATCA--TA
16744982 CATATCATA
1 CATATCATA
16744991 CATATCAT
1 CATATCAT
16744999 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:16744942 original size:20 final size:20
Alignment explanation
Indices: 16744919--16745000 Score: 155
Period size: 20 Copynumber: 4.1 Consensus size: 20
16744909 AACATCTCGG
16744919 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
*
16744939 GTGCATATCATACATGTCAT
1 GTGCATATCATACATATCAT
16744959 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
16744979 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
16744999 GT
1 GT
16745001 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
GTGCATATCATACATATCAT
Found at i:16744947 original size:11 final size:11
Alignment explanation
Indices: 16744919--16744989 Score: 64
Period size: 11 Copynumber: 7.0 Consensus size: 11
16744909 AACATCTCGG
16744919 GTGCATATCA-
1 GTGCATATCAT
*
16744929 -TACATATCAT
1 GTGCATATCAT
16744939 GTGCATATCA-
1 GTGCATATCAT
* *
16744949 -TACATGTCAT
1 GTGCATATCAT
16744959 GTGCATATCA-
1 GTGCATATCAT
*
16744969 -TACATATCAT
1 GTGCATATCAT
16744979 GTGCATATCAT
1 GTGCATATCAT
16744990 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
GTGCATATCAT
Found at i:16747378 original size:72 final size:72
Alignment explanation
Indices: 16747260--16747401 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 72
16747250 TAAGAAGAAG
* *
16747260 ATAGCCATTTAGGGCTTTTGATATTTGGTACACATTTGGCTAGATTGAGATCAAGAAAGGAGGAA
1 ATAGCCATTTAGGGCTTTTGATATTCGGCACACATTTGGCTAGATTGAGATCAAGAAAGGAGGAA
16747325 TTCGGAT
66 TTCGGAT
*
16747332 ATAGCCATTTAGGGCTTTTGATATTCGGCACACATTTGGCTTGATTGAGATCAAGAAAGGAGGAA
1 ATAGCCATTTAGGGCTTTTGATATTCGGCACACATTTGGCTAGATTGAGATCAAGAAAGGAGGAA
16747397 TTCGG
66 TTCGG
16747402 GTCTAGATCG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.31
Consensus pattern (72 bp):
ATAGCCATTTAGGGCTTTTGATATTCGGCACACATTTGGCTAGATTGAGATCAAGAAAGGAGGAA
TTCGGAT
Found at i:16748887 original size:33 final size:33
Alignment explanation
Indices: 16748850--16748983 Score: 214
Period size: 33 Copynumber: 4.1 Consensus size: 33
16748840 ACAACACATT
* * * *
16748850 AATGCTCGTAAAAGCTAATCCAACCACCAAACC
1 AATGCTCATAAGAGCTAATCCAACCATCACACC
16748883 AATGCTCATAAGAGCTAATCCAACCATCACACC
1 AATGCTCATAAGAGCTAATCCAACCATCACACC
*
16748916 AATGCTCATAAGAGCTAATCCAGCCATCACACC
1 AATGCTCATAAGAGCTAATCCAACCATCACACC
*
16748949 AATGCTCATAAGAGCTAAACCAACCATCACACC
1 AATGCTCATAAGAGCTAATCCAACCATCACACC
16748982 AA
1 AA
16748984 ACAGAGAGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 94 1.00
ACGTcount: A:0.41, C:0.33, G:0.10, T:0.16
Consensus pattern (33 bp):
AATGCTCATAAGAGCTAATCCAACCATCACACC
Found at i:16752507 original size:42 final size:41
Alignment explanation
Indices: 16752348--16752508 Score: 263
Period size: 40 Copynumber: 4.0 Consensus size: 41
16752338 CTCGATATAT
16752348 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-AA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
*
16752388 TATATATCCGGGTTATATCCCGCAGGCTTCGTGCTGG-AAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
16752428 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-A
* * *
16752470 TATATATCCAGGTTAAATCCCGCAGGCTTAGTACTGGTA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
16752509 CTATATCCGG
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 74 0.65
41 2 0.02
42 37 0.33
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
Found at i:16759637 original size:80 final size:82
Alignment explanation
Indices: 16759518--16759704 Score: 265
Period size: 82 Copynumber: 2.3 Consensus size: 82
16759508 ATATATTATA
16759518 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-ATATATATCCGGGTTAAATCCCGCAGGC
1 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCCCGCAGGC
*
16759581 TTCGTGCTGGAAATATT
66 TTAGTGCTGGAAATATT
* * *
16759598 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATATATATATCTGGGTTAAATCCCGCAGGC
1 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCCCGCAGGC
* *
16759663 TTAGTGCTGGTACTA--
66 TTAGTGCTGGAAATATT
*
16759678 TATCCAGGCTTAAAGTTCCGCAGGCTT
1 TATCCAGG-TTAAA-TCCCGCAGGCTT
16759705 TGAGCTAGTG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
80 39 0.41
81 6 0.06
82 49 0.52
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (82 bp):
TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCCCGCAGGC
TTAGTGCTGGAAATATT
Found at i:16759704 original size:40 final size:40
Alignment explanation
Indices: 16759514--16759680 Score: 253
Period size: 40 Copynumber: 4.1 Consensus size: 40
16759504 CTCGATATAT
*
16759514 TATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
16759554 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
16759594 TATTTATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-A
* * *
16759636 TATATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
16759676 TATAT
1 TATAT
16759681 CCAGGCTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 78 0.68
41 2 0.02
42 35 0.30
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:16761409 original size:35 final size:35
Alignment explanation
Indices: 16761361--16761457 Score: 142
Period size: 35 Copynumber: 2.8 Consensus size: 35
16761351 TTCACGGTTA
16761361 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
1 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
*
16761396 ACCATCTATCACACTAGATGCTCATAAGAGCCAAT
1 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
* * *
16761431 ACCAT-TCAGCATACCAAATGCTCATAA
1 ACCATCT-AGCACACTAGATGCTCATAA
16761458 AAGCTAGACT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 1 0.02
35 55 0.98
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (35 bp):
ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
Found at i:16763185 original size:12 final size:12
Alignment explanation
Indices: 16763162--16763192 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
16763152 AACAAACATA
16763162 ATCATATCTTCAC
1 ATCAT-TCTTCAC
16763175 ATCATTCTTCAC
1 ATCATTCTTCAC
16763187 ATCATT
1 ATCATT
16763193 AGCAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (12 bp):
ATCATTCTTCAC
Found at i:16763656 original size:26 final size:26
Alignment explanation
Indices: 16763627--16763704 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
16763617 ACTCCAAATA
16763627 AAGATCCGCTAATTTTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
* *
16763653 AAGATCTGCTAATTCTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
*
16763679 AAGATCCACTAATTTTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
16763705 GGACTTACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (26 bp):
AAGATCCGCTAATTTTCCCTGAAACT
Found at i:16766295 original size:47 final size:47
Alignment explanation
Indices: 16766243--16766552 Score: 449
Period size: 47 Copynumber: 6.6 Consensus size: 47
16766233 GATAATTGTG
* *
16766243 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16766290 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
16766337 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAGGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
16766386 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTTATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16766433 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
16766480 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16766527 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
16766553 TCCCGAAGGG
Statistics
Matches: 235, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
47 191 0.81
49 44 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:16766391 original size:143 final size:141
Alignment explanation
Indices: 16766242--16766552 Score: 471
Period size: 143 Copynumber: 2.2 Consensus size: 141
16766232 GGATAATTGT
* * *
16766242 GATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 GATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* *
16766307 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAAGGCCGAAT
*
16766372 GGCCAATGTGA-G
129 GGCCAACGTGATG
* *
16766384 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTTATGAATGTGAAAGTGTATAT
1 G-ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
16766449 ATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
65 ATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATG
16766514 GCCAACGTGATG
130 GCCAACGTGATG
*
16766526 GATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGAAAGTGTATATATGTGATAAG
16766553 TCCCGAAGGG
Statistics
Matches: 154, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
141 53 0.34
142 3 0.02
143 98 0.64
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
GATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGG
CCAACGTGATG
Found at i:16770508 original size:16 final size:15
Alignment explanation
Indices: 16770482--16770516 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16770472 TGATGTGAAT
16770482 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16770497 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16770513 AATA
1 AATA
16770517 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16770688 original size:20 final size:20
Alignment explanation
Indices: 16770631--16770690 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
16770621 AATACTACAT
16770631 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
16770650 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
16770673 AAATATGTACATAATATA
1 AAATATGTACATAATATA
16770691 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:16770729 original size:22 final size:23
Alignment explanation
Indices: 16770668--16770738 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
16770658 ACGTGATAAT
*
16770668 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
16770691 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
16770716 ATT-AAAATATATACATAAGATA
1 ATTAAAAATATATACATAATATA
16770738 A
1 A
16770739 CATGTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 18 0.45
23 1 0.03
24 2 0.05
25 19 0.47
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:16770778 original size:15 final size:14
Alignment explanation
Indices: 16770751--16770805 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
16770741 TGTAAAAAAA
16770751 ATATATATATAAATG
1 ATATATATATAAA-G
16770766 ATATAGTAT-TAAAG
1 ATATA-TATATAAAG
*
16770780 ATATATACATAAA-
1 ATATATATATAAAG
16770793 ATAGTATAATATA
1 ATA-TAT-ATATA
16770806 TATATACGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.15
14 13 0.38
15 13 0.38
16 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (14 bp):
ATATATATATAAAG
Found at i:16770784 original size:14 final size:15
Alignment explanation
Indices: 16770751--16770792 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
16770741 TGTAAAAAAA
16770751 ATATATATATAAATG
1 ATATATATATAAATG
16770766 ATATAGTAT-TAAA-G
1 ATATA-TATATAAATG
*
16770780 ATATATACATAAA
1 ATATATATATAAA
16770793 ATAGTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 10 0.42
15 9 0.38
16 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (15 bp):
ATATATATATAAATG
Found at i:16770796 original size:25 final size:25
Alignment explanation
Indices: 16770768--16770886 Score: 65
Period size: 25 Copynumber: 5.0 Consensus size: 25
16770758 TATAAATGAT
16770768 ATAGTATTAAAGATATATACATAAA
1 ATAGTATTAAAGATATATACATAAA
* * *
16770793 ATAGTA-TAATATATATATACGTAAT
1 ATAGTATTAA-AGATATATACATAAA
* * *
16770818 ATAGAATT-TAGA-ATATACCT--A
1 ATAGTATTAAAGATATATACATAAA
* *
16770839 ATA-TATTAAAAGAATATATATATAAT
1 ATAGTATT-AAAG-ATATATACATAAA
* *
16770865 ATAATATT-AAGAAATATA-ATAA
1 ATAGTATTAAAGATATATACATAA
16770887 TAACAAAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
20 3 0.04
21 3 0.04
22 2 0.03
23 12 0.17
24 17 0.24
25 26 0.37
26 4 0.06
27 4 0.06
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (25 bp):
ATAGTATTAAAGATATATACATAAA
Found at i:16770864 original size:24 final size:23
Alignment explanation
Indices: 16770837--16770888 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
16770827 AGAATATACC
*
16770837 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
16770861 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
16770884 TAATA
1 TAATA
16770889 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:16771412 original size:30 final size:30
Alignment explanation
Indices: 16771370--16771468 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
16771360 TAGGTACAAG
*
16771370 TGGTGGTAGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
16771400 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
16771430 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16771460 TGGTGGTGG
1 TGGTGGTGG
16771469 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.05, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:16771458 original size:18 final size:17
Alignment explanation
Indices: 16771401--16771458 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
16771391 TAGTGGAGTA
16771401 GGTAGTGGAGCAAGTGT
1 GGTAGTGGAGCAAGTGT
16771418 GGCTAGT-G-G--AGT-T
1 GG-TAGTGGAGCAAGTGT
*
16771431 GGTGGTGGAGCAAGTGT
1 GGTAGTGGAGCAAGTGT
16771448 GGTTAGTGGAG
1 GG-TAGTGGAG
16771459 TTGGTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 13
0.68 0.04 0.28
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 4 0.12
16 4 0.12
17 6 0.19
18 11 0.34
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (17 bp):
GGTAGTGGAGCAAGTGT
Found at i:16772435 original size:92 final size:89
Alignment explanation
Indices: 16772184--16772689 Score: 530
Period size: 92 Copynumber: 5.6 Consensus size: 89
16772174 ACGTGAGCCA
* * *
16772184 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAACA-AAATTTG-TAAAATAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAA-TTGAAAAAAAAGAA
* ** ** *
16772244 TTTGAAAATACCTCGGTATGTGACTCG
65 ATTGAAAATACCTTAGCGTGT-CCT-G
* *
16772271 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGACAAACATAAATTGAAAAAAAAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTGAAAAAAAAGAA
16772336 ATTGAAAATACCTTAGCGTGTCCTG
65 ATTGAAAATACCTTAGCGTGTCCTG
* * *
16772361 AGGTTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTG--AAAAAAAAG
*
16772426 AAACTGAAAATACCTTAGCGTGTCCTG
63 AAATTGAAAATACCTTAGCGTGTCCTG
* *
16772453 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAGAAACA-AAATTTG-AAAAACAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GA-AAACAGAAA-TTGAAAAAAAAG
* ** *
16772516 AATTTGAAAATACCTTAGCGTGTGAGTCA
63 AAATTGAAAATACCTTAGCGTGT-CCT-G
* * * *
16772545 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTG-AAGAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAAAAAAGAA
* *
16772609 ATGGAAAACACCTTAGC--G-CCTTG
65 ATTGAAAATACCTTAGCGTGTCC-TG
* * *
16772632 AGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAA
16772690 TACCTCATTA
Statistics
Matches: 366, Mismatches: 37, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
87 80 0.22
88 3 0.01
89 6 0.02
90 83 0.23
91 42 0.11
92 142 0.39
93 10 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAAAAAGAAA
TTGAAAATACCTTAGCGTGTCCTG
Found at i:16772490 original size:182 final size:177
Alignment explanation
Indices: 16772148--16772689 Score: 505
Period size: 179 Copynumber: 3.0 Consensus size: 177
16772138 ACTAGACATT
* * * ** **
16772148 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAAAGAAATTGAAAATACCTTAGCGTGTGA-CTCAAGGCTCAACTCACCACTCGCAATATGAG
* * * * * * * * *
16772212 TTGA--TTTTT-AAA-ACA-AAATTTGTAAAATAGAATTTGAAAATACCTCGGTATGTGACTCGA
65 CTGATTTTTTTGAAACACAGAAA-TTGAAAAAAAGAAATGGAAAACACCT---TA-GCGCCTTGA
*
16772272 GGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGACAAACATAAATTGAA
125 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACA-AAATTGAA
* * * * * *
16772327 AAAAAAGAAATTGAAAATACCTTAGCGTGT-CCT-GAGGTTGAACTCACCTCTCGCAATATGAGT
1 AAAAAAGAAATTGAAAATACCTTAGCGTGTGACTCAAGGCTCAACTCACCACTCGCAATATGAGC
* *
16772390 TGATTTTTTTGACAA-ACATAAATTGAAAAAAAAAAGAAACT-GAAAATACCTTAGCGTGTCC-T
66 TGATTTTTTTGA-AACACAGAAATTG---AAAAAAAGAAA-TGGAAAACACCTTAGC--G-CCTT
*
16772452 GAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAGAAACAAAATTTG-A
123 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GA-AAACAAAA-TTGAA
* * *
16772509 AAAACAGAATTTGAAAATACCTTAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGC
1 AAAAAAGAAATTGAAAATACCTTAGCGTGTGACTCAAGGCTCAACTCACCACTCGCAATATGAGC
* * *
16772574 TGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTTAGCGCCTTGAGGTTCA
66 TGATTTTTTTGAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTTAGCGCCTTGAGGCTCA
* *
16772639 ACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAA
131 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACA-AAATTGAA
16772688 AA
1 AA
16772690 TACCTCATTA
Statistics
Matches: 304, Mismatches: 36, Indels: 46
0.79 0.09 0.12
Matches are distributed among these distances:
177 32 0.11
178 10 0.03
179 74 0.24
180 3 0.01
181 32 0.11
182 74 0.24
183 14 0.05
184 64 0.21
185 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (177 bp):
AAAAAAGAAATTGAAAATACCTTAGCGTGTGACTCAAGGCTCAACTCACCACTCGCAATATGAGC
TGATTTTTTTGAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTTAGCGCCTTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAATTGAA
Found at i:16772519 original size:14 final size:14
Alignment explanation
Indices: 16772496--16772525 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16772486 TTTTTTGGAG
16772496 AAACAAAATTTGAA
1 AAACAAAATTTGAA
*
16772510 AAACAGAATTTGAA
1 AAACAAAATTTGAA
16772524 AA
1 AA
16772526 TACCTTAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (14 bp):
AAACAAAATTTGAA
Found at i:16772724 original size:75 final size:75
Alignment explanation
Indices: 16772628--16773147 Score: 599
Period size: 75 Copynumber: 6.9 Consensus size: 75
16772618 ACCTTAGCGC
* *
16772628 CTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
1 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
16772693 CTCATTATGT
66 CTCATTATGT
16772703 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
1 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
16772768 CTCATTATGT
66 CTCATTATGT
* * * *
16772778 CTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTGACAA-ACAAAAATTGAAATTA
1 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAGACAGAAATTGAAAATA
**
16772840 CCTCA--GCGT
65 CCTCATTATGT
* *
16772849 CTTGAGGTTTAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA-AC
1 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
* * *
16772913 AGAAATGGAAAACACCTTAGCGC
66 ----CT------CA--TTA-TGT
* *
16772936 CTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
1 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
16773001 CTCATTATGT
66 CTCATTATGT
* * *
16773011 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAA-ACAAAAATTGAAATTA
1 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAGACAGAAATTGAAAATA
***
16773073 CCTCAGCGTGT
65 CCTCATTATGT
* * * * * *
16773084 CCTGAGGCTCAACTTACCTATCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATA
1 CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATA
16773148 GAAATGGAAA
Statistics
Matches: 385, Mismatches: 36, Indels: 48
0.82 0.08 0.10
Matches are distributed among these distances:
71 34 0.09
72 4 0.01
73 106 0.28
74 6 0.02
75 162 0.42
76 4 0.01
78 2 0.01
82 2 0.01
84 1 0.00
87 62 0.16
88 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATAC
CTCATTATGT
Found at i:16772909 original size:14 final size:14
Alignment explanation
Indices: 16772890--16772924 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16772880 GCTGATTTTT
*
16772890 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
16772904 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
16772918 TGGAAAA
1 TTGAAAA
16772925 CACCTTAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.20, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:16772968 original size:87 final size:87
Alignment explanation
Indices: 16772839--16773232 Score: 292
Period size: 87 Copynumber: 4.8 Consensus size: 87
16772829 AATTGAAATT
* *
16772839 ACCTCAGCGTCTTGAGGTTTAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
16772904 TTGAAAAACAGAAATGGAAAAC
66 TTGAAAAACAGAAATGGAAAAC
* *
16772926 ACCTTAGCGCCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
*
16772991 TTGAAAATAC----CT------C
66 TTGAAAA-ACAGAAATGGAAAAC
* * * * * *
16773004 A--TTA-TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAA-ACAAAA
1 ACCTCAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAGACAGAA
* *
16773063 ATTGAAATTAC----CT------C
65 ATTGAAA-AACAGAAATGGAAAAC
* * * * * * * *
16773077 AGCGT--G-TCC-TGAGGCTCAACTTACCTATCACAATATGAGTTGATTTTTTTGAAAAACAGAA
1 A-CCTCAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAA
*
16773138 ATTG-AAAATAGAAATGGAAAAC
65 ATTGAAAAACAGAAATGGAAAAC
* * * *
16773160 ACCTCAGAGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAA
1 ACCTCAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
*
16773225 TTAAAAAA
66 TTGAAAAA
16773233 AAAGAAATTA
Statistics
Matches: 250, Mismatches: 32, Indels: 50
0.75 0.10 0.15
Matches are distributed among these distances:
73 57 0.23
74 7 0.03
75 50 0.20
76 4 0.02
77 1 0.00
78 2 0.01
82 2 0.01
83 2 0.01
84 2 0.01
85 1 0.00
86 48 0.19
87 72 0.29
88 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (87 bp):
ACCTCAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
TTGAAAAACAGAAATGGAAAAC
Found at i:16772969 original size:233 final size:233
Alignment explanation
Indices: 16772669--16773231 Score: 876
Period size: 233 Copynumber: 2.4 Consensus size: 233
16772659 GCTGATTTTT
* * * * *
16772669 TTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATGGAAAACACCTCA-GA-GCCTTGAGGTTCAACTCACCTCTCGCAATATGA
16772734 GCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCT
63 GCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCT
* * *
16772799 CGCAATATAAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-GTCTTGAGGTTTAACT
128 CGCAATATAAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAACT
* * *
16772863 CACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
193 CACCTATCACAATATGAGCTGATTTTTTTGAAAAACAGAAA
* * *
16772904 TTGAAAAACAGAAATGGAAAACACCTTAGCGCCTTGAGGTTCAACTCATCTCTCGCAATATGAGC
1 TTG-AAAACAGAAATGGAAAACACCTCAGAGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGC
16772969 TGATTTTTTTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCG
65 TGATTTTTTTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCG
* *
16773034 CAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTT
130 CAATATAAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCG-GTCCTGAGGCTCAACTC
*
16773099 ACCTATCACAATATGAGTTGATTTTTTTGAAAAACAGAAA
194 ACCTATCACAATATGAGCTGATTTTTTTGAAAAACAGAAA
* *
16773139 TTGAAAATAGAAATGGAAAACACCTCAGAGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCT
1 TTGAAAACAGAAATGGAAAACACCTCAGAGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCT
* * *
16773204 GATTTTTTTGAAACACATAAATTAAAAA
66 GATTTTTTTGAAAGACAGAAATTGAAAA
16773232 AAAAGAAATT
Statistics
Matches: 300, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
233 142 0.47
234 82 0.27
235 73 0.24
236 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (233 bp):
TTGAAAACAGAAATGGAAAACACCTCAGAGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCT
GATTTTTTTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCGC
AATATAAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAACTCAC
CTATCACAATATGAGCTGATTTTTTTGAAAAACAGAAA
Found at i:16773052 original size:73 final size:73
Alignment explanation
Indices: 16772908--16773147 Score: 270
Period size: 73 Copynumber: 3.3 Consensus size: 73
16772898 CAGAAATTGA
* * * * * * *
16772908 AAAACAGAAATGGAAAACACCTTAGC--GCCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
16772971 ATTTTTTTG
66 A-TTTTTTG
**
16772980 AAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
16773045 GA-TTTTTG
65 GATTTTTTG
* * * * * * *
16773053 ACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTACCTATCACAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
16773118 GATTTTTTTG
65 GA-TTTTTTG
16773128 AAAAACAGAAATTGAAAATA
1 -AAAACAGAAATTGAAAATA
16773148 GAAATGGAAA
Statistics
Matches: 141, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
72 3 0.02
73 79 0.56
74 2 0.01
75 56 0.40
76 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:16773128 original size:308 final size:307
Alignment explanation
Indices: 16772549--16773759 Score: 1334
Period size: 308 Copynumber: 3.9 Consensus size: 307
16772539 GAGTCAAGGC
* *
16772549 TCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGA
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAAAACAGAAATGGA
*
16772614 AAACACCTTAGCGCCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACA
66 AAACACCTTAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACA
** *
16772679 GAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
131 GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTT
* *** * * *
16772744 TTGAAAGACAGAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCGCAATATAA
195 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
16772809 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGT
260 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGT
* *
16772857 TTAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAAACAGAAATGGA
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAAAACAGAAATGGA
*
16772922 AAACACCTTAGCGCCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGACA
66 AAACACCTTAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACA
** * *
16772987 GAAATTGAAAATACCTCATTATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
131 GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* * *
16773051 TGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTACCTATCACAATATGA
196 TGA-AAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
* * *
16773115 GTTGATTTTTTTGAAAAACAGAAATTGAAAATAGAAATGGAAAACACCTCAGAGTCTTGAGGT
260 GTTGA--TTTTTGACAAACAAAAATTG-AAAT-----T-------ACCTCAGCGTCTTGAGGT
* * * **
16773178 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTA
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATT-GAAAAACAGAAATGG
** * *
16773243 AAAACAAAATTTGAAAG-GACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGTAATATGAG
65 AAAAC--ACCTT---AGCG-CCTTGA-G-GT----------TCAACTCACCTCTCGCAATATGAG
* * * * *
16773307 TTGATTCTTTTGAAA-AGCAGAAATTGAAAATACCTCAGCGTGTCCCGAAGCTCAACTCACCTCT
112 CTGATTTTTTTGAAAGA-CAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
* *
16773371 CGCAATATGAGTTGAGTTTTTTGATAA-A-AATAGAATTTGAAAATATCTCAGCGTGTCCTGAGG
176 CGCAATATGAGCTGA-TTTTTTGA-AAGACAA-A-AA-TTGAAAATACCTCAGCGTGTCCTGAGG
*
16773434 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTC
236 CTCAACTCACCTCTCACAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTC
16773499 TTGAGGT
301 TTGAGGT
* *
16773506 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAA-ACAAAAATT--------GAAAT--
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AACACAGAAATTGAAAAACAGAAATGG
* * *
16773558 ----TACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGAC
65 AAAACACCTTAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGAC
* * *
16773619 AGAAATTGAAAATCCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
130 AGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT
* ** * ** * *
16773684 TTTGAAAGACAGAAATTGAAAATACCTCAAAGTGTCTTGAGGCTCAACTCAGTTCACGCAATATG
194 TTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATG
16773749 AGTTGATTTTT
259 AGTTGATTTTT
16773760 TTTGAAACAT
Statistics
Matches: 785, Mismatches: 72, Indels: 108
0.81 0.07 0.11
Matches are distributed among these distances:
292 54 0.07
293 4 0.01
294 103 0.13
295 2 0.00
304 2 0.00
305 1 0.00
306 66 0.08
307 3 0.00
308 203 0.26
309 6 0.01
314 1 0.00
317 5 0.01
321 63 0.08
322 16 0.02
324 3 0.00
326 16 0.02
327 9 0.01
328 45 0.06
329 2 0.00
335 1 0.00
338 1 0.00
339 91 0.12
340 6 0.01
341 29 0.04
342 2 0.00
343 51 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (307 bp):
TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAAAACAGAAATGGA
AAACACCTTAGCGCCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACA
GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
TGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAG
TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGT
Found at i:16773242 original size:15 final size:16
Alignment explanation
Indices: 16773222--16773251 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16773212 TGAAACACAT
16773222 AAATTAAAAA-AAAAG
1 AAATTAAAAACAAAAG
16773237 AAATTAAAAACAAAA
1 AAATTAAAAACAAAA
16773252 TTTGAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAATTAAAAACAAAAG
Found at i:16773378 original size:75 final size:74
Alignment explanation
Indices: 16773282--16773760 Score: 573
Period size: 75 Copynumber: 6.5 Consensus size: 74
16773272 TGGCCCGAGA
*
16773282 CTCAACTCACCTCTCGTAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
* *
16773347 TGTCCCGAAG
65 TGTCCTGAGG
** * *
16773357 CTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG--AAAAGCAGAAATTGAAAATACCTCAG
16773422 CGTGTCCTGAGG
63 CGTGTCCTGAGG
* *
16773434 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAA-CAAAAATTGAAATTACCTCAGC-
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAAGCAGAAATTGAAAATACCTCAGCG
*
16773496 -GTCTTGAGG
65 TGTCCTGAGG
* * *
16773505 TTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAA-CAAAAATTGAAATTACCTCAGC-
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAAGCAGAAATTGAAAATACCTCAGCG
*
16773567 -GTCTTGAGG
65 TGTCCTGAGG
* * *
16773576 TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAGACAGAAATTGAAAATCCCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAG-CAGAAATTGAAAATACCTCAGC
*
16773640 GTGCCCTGAGG
64 GTGTCCTGAGG
* **
16773651 CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAGACAGAAATTGAAAATACCTCAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAG-CAGAAATTGAAAATACCTCAGC
*
16773715 GTGTCTTGAGG
64 GTGTCCTGAGG
** *
16773726 CTCAACTCAGTTCACGCAATATGAGTTGATTTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
16773761 TTGAAACATA
Statistics
Matches: 364, Mismatches: 30, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
71 109 0.30
73 43 0.12
74 9 0.02
75 140 0.38
76 2 0.01
77 61 0.17
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
GTCCTGAGG
Found at i:16773984 original size:14 final size:13
Alignment explanation
Indices: 16773949--16773993 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
16773939 TTGATTTTTG
*
16773949 AAAAATAGAAATT
1 AAAAACAGAAATT
*
16773962 AAAAGCAGAAATT
1 AAAAACAGAAATT
16773975 GAAAAACAGAAATT
1 -AAAAACAGAAATT
16773989 AAAAA
1 AAAAA
16773994 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:16774014 original size:100 final size:101
Alignment explanation
Indices: 16773777--16774065 Score: 408
Period size: 100 Copynumber: 2.9 Consensus size: 101
16773767 CATAAATTAA
*
16773777 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
16773841 TGA--TTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGAAGAAATTGAAAAGCAAAAATTG
*
16773876 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCATCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
16773941 GATTTTTGAAAA-ATAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGA-AGAAATTGAAAAGCAAAAATTG
* * * * *
16773976 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCCCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
16774041 GATTTTTGAAAAGCATAAATTGAAA
66 GATTTTTGAAAAGAAGAAATTGAAA
16774066 TTACCTCAGC
Statistics
Matches: 170, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
99 63 0.37
100 90 0.53
101 17 0.10
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGAAGAAATTGAAAAGCAAAAATTG
Found at i:16774098 original size:73 final size:74
Alignment explanation
Indices: 16773973--16774140 Score: 239
Period size: 73 Copynumber: 2.3 Consensus size: 74
16773963 AAAGCAGAAA
* * * * * *
16773973 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCCCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACCCACCTCTCACAATATGA
16774038 GTTGA-TTT
66 GTTGATTTT
* * * *
16774046 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACCCACCTCTCACAATATGA
16774111 GTTGATTTT
66 GTTGATTTT
16774120 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
16774141 AACGAAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 60 0.72
74 23 0.28
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACCCACCTCTCACAATATGA
GTTGATTTT
Found at i:16785732 original size:39 final size:40
Alignment explanation
Indices: 16785528--16785750 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
16785518 TTGAATGCTG
* * * * * *
16785528 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
16785568 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
16785608 TCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
16785648 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
16785688 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
16785727 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16785751 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:16785770 original size:79 final size:80
Alignment explanation
Indices: 16785603--16785785 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
16785593 GTGCGAGATA
* * * *
16785603 CTAAATCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
16785668 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
16785683 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
16785747 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* * *
16785762 CTATATCC-GGTTAAATCCTGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
16785786 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 13 0.15
79 46 0.54
80 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:16789213 original size:16 final size:15
Alignment explanation
Indices: 16789187--16789221 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16789177 TGATGTGAAT
16789187 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16789202 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16789218 AATA
1 AATA
16789222 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16789395 original size:20 final size:20
Alignment explanation
Indices: 16789338--16789397 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
16789328 AATACTACAT
16789338 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
16789357 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
16789380 AAATATGTACATAATATA
1 AAATATGTACATAATATA
16789398 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:16789406 original size:25 final size:25
Alignment explanation
Indices: 16789351--16789524 Score: 115
Period size: 25 Copynumber: 7.0 Consensus size: 25
16789341 TATGTACATA
* * *
16789351 TATAAAAAATAAATACGTGATA-A-
1 TATAAAAAATATATACATAATATAG
* *
16789374 TATTAAAAATATGTACATAATATAG
1 TATAAAAAATATATACATAATATAG
* *
16789399 TGTAAAAAATACATACATAATATA-
1 TATAAAAAATATATACATAATATAG
* * *
16789423 -AT-TAAAATATATACATAAGATAACA
1 TATAAAAAATATATACATAATAT-A-G
* *
16789448 TGTAAAATATATATATAAATAATATAG
1 TATAAAA-A-ATATATACATAATATAG
* * *
16789475 TATTAAAGATATATACATAAAATAG
1 TATAAAAAATATATACATAATATAG
* * *
16789500 TATAATATATATATACGTAATATAG
1 TATAAAAAATATATACATAATATAG
16789525 AATTTAGAAT
Statistics
Matches: 114, Mismatches: 28, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
22 16 0.14
23 19 0.17
24 1 0.01
25 55 0.48
26 1 0.01
27 7 0.06
28 2 0.02
29 13 0.11
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (25 bp):
TATAAAAAATATATACATAATATAG
Found at i:16789427 original size:48 final size:49
Alignment explanation
Indices: 16789353--16789523 Score: 150
Period size: 48 Copynumber: 3.4 Consensus size: 49
16789343 TGTACATATA
* * * * *
16789353 TAAAAAATAAATACGTGATA-ATATTAAAAATATGTACATAATATAGTG
1 TAAAAAATATATACATAATATATATTAAAAATATATACATAAAATAGTG
* * *
16789401 TAAAAAATACATACATAATATA-ATT-AAAATATATACATAAGATAACATG
1 TAAAAAATATATACATAATATATATTAAAAATATATACATAAAAT-A-GTG
* * *
16789450 TAAAATATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTA
1 TAAAA-A-ATATATACATAATATA-TATTAAAAATATATACATAAAATAGTG
* * *
16789502 TAATATATATATACGTAATATA
1 TAAAAAATATATACATAATATA
16789524 GAATTTAGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
47 16 0.16
48 21 0.21
49 8 0.08
50 15 0.15
51 14 0.14
52 5 0.05
53 4 0.04
54 16 0.16
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (49 bp):
TAAAAAATATATACATAATATATATTAAAAATATATACATAAAATAGTG
Found at i:16789469 original size:29 final size:29
Alignment explanation
Indices: 16789429--16789495 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
16789419 TATAATTAAA
*
16789429 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
16789458 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
16789487 ATACATAAA
1 ATATATAAA
16789496 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:16789587 original size:23 final size:25
Alignment explanation
Indices: 16789544--16789589 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16789534 TATACCTAAT
16789544 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
16789569 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
16789590 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:16790109 original size:30 final size:30
Alignment explanation
Indices: 16790069--16790133 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
16790059 AGTACAAGTG
*
16790069 GTGGTGGAGCAAGTGTGGCTT-GTGGAGTTA
1 GTGGTAGAGCAAGTGTGG-TTAGTGGAGTTA
*
16790099 GTGGTAGAGCAAGTGTGGTTAGTGGAGTTG
1 GTGGTAGAGCAAGTGTGGTTAGTGGAGTTA
16790129 GTGGT
1 GTGGT
16790134 GGCAAAGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.17, C:0.05, G:0.48, T:0.31
Consensus pattern (30 bp):
GTGGTAGAGCAAGTGTGGTTAGTGGAGTTA
Found at i:16793027 original size:23 final size:23
Alignment explanation
Indices: 16792997--16793067 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
16792987 TAAAGAGAGA
16792997 GATTCGGTCTCGGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
*
16793020 GATTCGGTCTCAGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
* *
16793043 GATTTGGCCTCGGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
16793066 GA
1 GA
16793068 ACATGGCACA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (23 bp):
GATTCGGTCTCGGTTTACACCAT
Found at i:16793803 original size:26 final size:27
Alignment explanation
Indices: 16793772--16793833 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
16793762 TCTCATCCCT
16793772 ATTTTACCCCCAGTAAAA-TTTTAACG
1 ATTTTACCCCCAGTAAAATTTTTAACG
* * *
16793798 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCCCAGTAAAATTTTTAACG
16793825 ATTTTACCC
1 ATTTTACCC
16793834 TAGGTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTTTACCCCCAGTAAAATTTTTAACG
Found at i:16793841 original size:27 final size:27
Alignment explanation
Indices: 16793772--16793834 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
16793762 TCTCATCCCT
*
16793772 ATTTTACCCCCAGTAAAA-TTTTAACG
1 ATTTTACCCTCAGTAAAATTTTTAACG
* *
16793798 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCTCAGTAAAATTTTTAACG
16793825 ATTTTACCCT
1 ATTTTACCCT
16793835 AGGTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTCAGTAAAATTTTTAACG
Found at i:16793842 original size:26 final size:26
Alignment explanation
Indices: 16793772--16793845 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
16793762 TCTCATCCCT
* *
16793772 ATTTTACCCCCAGTAAAATTTTAACG
1 ATTTTACCCTCAGTAAATTTTTAACG
* *
16793798 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCTCAGT-AAATTTTTAACG
16793825 ATTTTACCCT-AGGTAAATTTT
1 ATTTTACCCTCA-GTAAATTTT
16793846 CAAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTCAGTAAATTTTTAACG
Found at i:16796646 original size:17 final size:18
Alignment explanation
Indices: 16796624--16796664 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16796614 CTTGTTCTTC
16796624 TTTCTTCCCTA-CTTTCT
1 TTTCTTCCCTACCTTTCT
**
16796641 TTTCTTTGCTACCTTTCT
1 TTTCTTCCCTACCTTTCT
16796659 TTTCTT
1 TTTCTT
16796665 GTTGTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.05, C:0.29, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTCTTCCCTACCTTTCT
Found at i:16797572 original size:31 final size:31
Alignment explanation
Indices: 16797528--16797607 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
16797518 TGATTTGGAG
16797528 GGTCACACA--CCCGTGTGGGTAGGCCATGT
1 GGTCACACACGCCCGTGTGGGTAGGCCATGT
* *
16797557 GGTCACACACGCCCGTGTGGGTAGGTCGTGT
1 GGTCACACACGCCCGTGTGGGTAGGCCATGT
16797588 GGTCACACACGCCCGTGTGG
1 GGTCACACACGCCCGTGTGG
16797608 CTTAGGACAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 9 0.19
31 38 0.81
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.20
Consensus pattern (31 bp):
GGTCACACACGCCCGTGTGGGTAGGCCATGT
Found at i:16799513 original size:40 final size:40
Alignment explanation
Indices: 16799458--16799682 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
16799448 TATTCGGATG
*
16799458 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
16799498 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
16799538 ATATCTGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCA-TT-TGTG-CTAG-TGACT
* *
16799581 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
16799621 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
16799661 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
16799683 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 17 0.10
40 104 0.63
41 8 0.05
42 6 0.04
43 26 0.16
44 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Done.