Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 70 of 89
Found at i:16789295 original size:30 final size:30
Alignment explanation
Indices: 16789243--16789310 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
16789233 ATAACTTTAG
* *
16789243 AAAATTAATACTTTTAGTCCCTAAACTTTT
1 AAAATTTATACTTTTAGTCCCTAAACTTTC
* *
16789273 ACAAATTTATAC-TTTGGTCCCTAGACTTTC
1 A-AAATTTATACTTTTAGTCCCTAAACTTTC
16789303 AAAATTTA
1 AAAATTTA
16789311 CTTTTCAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 7 0.21
30 17 0.52
31 9 0.27
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (30 bp):
AAAATTTATACTTTTAGTCCCTAAACTTTC
Found at i:16791460 original size:25 final size:25
Alignment explanation
Indices: 16791412--16791460 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16791402 TAAAATATGA
*
16791412 TTTTTCAACTTGAATAATTCGAATT
1 TTTTTCAACTTGAATAATTAGAATT
*
16791437 TTTTTTAACTTGAATCAA-TAGAAT
1 TTTTTCAACTTGAAT-AATTAGAAT
16791461 GCTCACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (25 bp):
TTTTTCAACTTGAATAATTAGAATT
Found at i:16792099 original size:18 final size:19
Alignment explanation
Indices: 16792076--16792112 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16792066 AAAAATCGAG
16792076 TTATTTTAAT-AAAATATT
1 TTATTTTAATCAAAATATT
*
16792094 TTATTTTTATCAAAATATT
1 TTATTTTAATCAAAATATT
16792113 GAGTTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTTTAATCAAAATATT
Found at i:16792916 original size:28 final size:27
Alignment explanation
Indices: 16792868--16792920 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
16792858 GTCCTAAAAG
* *
16792868 ATTTAAAAGTTTGGGACCTAAATTAATA
1 ATTTAAAAGTTTAGGAACT-AATTAATA
16792896 ATTTATAAAG-TTAGGAACTAATTAA
1 ATTTA-AAAGTTTAGGAACTAATTAA
16792921 AATCTCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 6 0.27
28 12 0.55
29 4 0.18
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (27 bp):
ATTTAAAAGTTTAGGAACTAATTAATA
Found at i:16793233 original size:16 final size:16
Alignment explanation
Indices: 16793212--16793245 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16793202 AAAAAACAAT
16793212 AAATAAACATAAATTA
1 AAATAAACATAAATTA
16793228 AAATAAACATAAATTA
1 AAATAAACATAAATTA
16793244 AA
1 AA
16793246 GGTGAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAACATAAATTA
Found at i:16793239 original size:6 final size:5
Alignment explanation
Indices: 16793165--16793290 Score: 66
Period size: 5 Copynumber: 25.0 Consensus size: 5
16793155 CAAACTTAAT
*
16793165 TAAAA TAAAA TAAAA T-AAA TACAA TAATAA -AAACA TTAAAA -AACAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAA-A -TAAAA TAA-AA
* * * *
16793211 T-AAA TAAACA TAAAT TAAAA TAAACA TAAAT TAAAGG T-GAA TAAAA
1 TAAAA TAAA-A TAAAA TAAAA TAAA-A TAAAA TAAA-A TAAAA TAAAA
* * **
16793257 TTAAA TAACA T-AAA TAAAA TGTAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
16793291 GTCAATAATT
Statistics
Matches: 91, Mismatches: 17, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
4 14 0.15
5 60 0.66
6 14 0.15
7 3 0.03
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:16793274 original size:19 final size:19
Alignment explanation
Indices: 16793250--16793289 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16793240 ATTAAAGGTG
*
16793250 AATAAAAT-TAAATAACATA
1 AATAAAATGT-AATAAAATA
16793269 AATAAAATGTAATAAAATA
1 AATAAAATGTAATAAAATA
16793288 AA
1 AA
16793290 AGTCAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AATAAAATGTAATAAAATA
Found at i:16793385 original size:131 final size:130
Alignment explanation
Indices: 16793250--16793698 Score: 379
Period size: 131 Copynumber: 3.4 Consensus size: 130
16793240 ATTAAAGGTG
* * * *
16793250 AATAAAATTAAATAACATAAATAAAATGTAATAAAATAAAAGTCAATAATTAACAGAGTCCGAAT
1 AATAAAA-TAAATAACATAAATAAAATGCAATAAAATAAAAGTCAATAGTTAGCAGAGTCCGAAC
* * * * **
16793315 TTTAATAATGCGGATTATACCCTAAATTAG-GTCACCACAAGATTGAATCAAATATTAGAAATAA
65 CTTAATAATGCGGATCATACCCCAAA-TAGAATCACCACAAGACCGAATCAAATATTAGAAATAA
16793379 TA
129 TA
* *
16793381 AAT-AAATAAATAA-ATAAAAGTTAGAATGCAATAAAATAAAAGTCAGTAGTTAGCAGAGGT-CG
1 AATAAAATAAATAACAT-AAA--TAAAATGCAATAAAATAAAAGTCAATAGTTAGCAGA-GTCCG
** * * *
16793443 AACCTTAATAATGCGGATCATACCCCGGATCGAATCACCACAAGGCCGAATCGAATATTAGAAAT
62 AACCTTAATAATGCGGATCATACCCCAAATAGAATCACCACAAGACCGAATCAAATATTAGAAAT
16793508 AATA
127 AATA
* * * * *
16793512 AATAAATAAATAAATAACAATGATTAAAGTGCAATAAAATAAAAGTTAATAGTTAGCAAAGTCCG
1 AAT--A-AAATAAATAAC-ATAAATAAAATGCAATAAAATAAAAGTCAATAGTTAGCAGAGTCCG
* * * * * * * * ** *
16793577 AACCATAATAATACAGATCATA-CCCGAATCGGATTACCATAAGACCGAATTGAATATTAGAAAG
62 AACCTTAATAATGCGGATCATACCCCAAATAGAATCACCACAAGACCGAATCAAATATTAGAAAT
*
16793641 AGTA
127 AATA
* * * * *
16793645 AATAAATATATAAATAACA-ATATTAAAGTGCAGTAAAATAAAAGTTAGTAGTTA
1 AAT-AA-A-ATAAATAACATA-AATAAAATGCAATAAAATAAAAGTCAATAGTTA
16793699 ATATGCAATA
Statistics
Matches: 265, Mismatches: 38, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
128 2 0.01
129 10 0.04
130 5 0.02
131 94 0.35
132 37 0.14
133 52 0.20
134 52 0.20
135 10 0.04
136 1 0.00
137 2 0.01
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (130 bp):
AATAAAATAAATAACATAAATAAAATGCAATAAAATAAAAGTCAATAGTTAGCAGAGTCCGAACC
TTAATAATGCGGATCATACCCCAAATAGAATCACCACAAGACCGAATCAAATATTAGAAATAATA
Found at i:16793600 original size:134 final size:133
Alignment explanation
Indices: 16793346--16793698 Score: 466
Period size: 133 Copynumber: 2.7 Consensus size: 133
16793336 CTAAATTAGG
** *
16793346 TCACCACAAGATTGAATCAAATATTAGAAATAATAAATAAATAAATAAATAA-AA-G-TTAGAA-
1 TCACCACAAGACCGAATCGAATATTAGAAATAATAAATAAATAAATAAATAACAATGATTA-AAG
* * * * * *
16793407 TGCAATAAAATAAAAGTCAGTAGTTAGCAGAGGTCGAACCTTAATAATGCGGATCATACCCCGGA
65 TGCAATAAAATAAAAGTTAGTAGTTAGCAGAAGTCGAACCATAATAATACAGATCATA-CCCGAA
16793472 TCGAA
129 TCGAA
*
16793477 TCACCACAAGGCCGAATCGAATATTAGAAATAATAAATAAATAAATAAATAACAATGATTAAAGT
1 TCACCACAAGACCGAATCGAATATTAGAAATAATAAATAAATAAATAAATAACAATGATTAAAGT
*
16793542 GCAATAAAATAAAAGTTAATAGTTAGCA-AAGTCCGAACCATAATAATACAGATCATACCCGAAT
66 GCAATAAAATAAAAGTTAGTAGTTAGCAGAAGT-CGAACCATAATAATACAGATCATACCCGAAT
*
16793606 CGGA
130 CGAA
* * * * * *
16793610 TTACCATAAGACCGAATTGAATATTAGAAAGAGTAAATAAATATATAAATAACAAT-ATTAAAGT
1 TCACCACAAGACCGAATCGAATATTAGAAATAATAAATAAATAAATAAATAACAATGATTAAAGT
*
16793674 GCAGTAAAATAAAAGTTAGTAGTTA
66 GCAATAAAATAAAAGTTAGTAGTTA
16793699 ATATGCAATA
Statistics
Matches: 196, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
131 48 0.24
132 33 0.17
133 64 0.33
134 51 0.26
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (133 bp):
TCACCACAAGACCGAATCGAATATTAGAAATAATAAATAAATAAATAAATAACAATGATTAAAGT
GCAATAAAATAAAAGTTAGTAGTTAGCAGAAGTCGAACCATAATAATACAGATCATACCCGAATC
GAA
Found at i:16793705 original size:29 final size:28
Alignment explanation
Indices: 16793673--16793773 Score: 103
Period size: 29 Copynumber: 3.3 Consensus size: 28
16793663 AATATTAAAG
*
16793673 TGCAGTAAAATAAAAGTTAGTAGTTAATA
1 TGCAATAAAATAAAAGTTAGT-GTTAATA
*
16793702 TGCAATAAAATAAAATAAAAATTAGTGGTTAATA
1 TGC-----AATAAAATAAAAGTTAGT-GTTAATA
16793736 TGCAATAAAATAAAAGTTAGTGATTAATA
1 TGCAATAAAATAAAAGTTAGTG-TTAATA
*
16793765 TGTAATAAA
1 TGCAATAAA
16793774 TAATATACCT
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
28 1 0.02
29 34 0.56
34 26 0.43
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (28 bp):
TGCAATAAAATAAAAGTTAGTGTTAATA
Found at i:16793718 original size:34 final size:34
Alignment explanation
Indices: 16793678--16793750 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
16793668 TAAAGTGCAG
*
16793678 TAAAATAAAAGTTAGTAGTTAATATGCAATAAAA
1 TAAAATAAAAATTAGTAGTTAATATGCAATAAAA
*
16793712 TAAAATAAAAATTAGTGGTTAATATGCAATAAAA
1 TAAAATAAAAATTAGTAGTTAATATGCAATAAAA
16793746 TAAAA
1 TAAAA
16793751 GTTAGTGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (34 bp):
TAAAATAAAAATTAGTAGTTAATATGCAATAAAA
Found at i:16799085 original size:8 final size:9
Alignment explanation
Indices: 16799063--16799089 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16799053 AAAATAAAAA
16799063 TAAAAATAT
1 TAAAAATAT
16799072 TAAAAATAT
1 TAAAAATAT
16799081 TAAAAATAT
1 TAAAAATAT
16799090 AAATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAATAT
Found at i:16799106 original size:24 final size:24
Alignment explanation
Indices: 16799047--16799107 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
16799037 TATTAATAAC
16799047 ATAAATAAAA-TAAAAATAAAAAT
1 ATAAATAAAATTAAAAATAAAAAT
* *
16799070 ATTAAA-AATATTAAAAATATAAAT
1 A-TAAATAAAATTAAAAATAAAAAT
16799094 ATAAATAAAATTAA
1 ATAAATAAAATTAA
16799108 TAGTAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 8 0.25
24 24 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (24 bp):
ATAAATAAAATTAAAAATAAAAAT
Found at i:16799470 original size:24 final size:25
Alignment explanation
Indices: 16799425--16799471 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
16799415 TAACAAAGAA
*
16799425 ATATAATTAAAAAGGATTAGTAAGG
1 ATATAATTAAAAAGGATAAGTAAGG
*
16799450 ATATAA-TAAAAATGATAAGTAA
1 ATATAATTAAAAAGGATAAGTAA
16799472 TTAAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (25 bp):
ATATAATTAAAAAGGATAAGTAAGG
Found at i:16799479 original size:15 final size:16
Alignment explanation
Indices: 16799459--16799491 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16799449 GATATAATAA
*
16799459 AAATGATA-AGTAATT
1 AAATGATATAGAAATT
16799474 AAATGATATAGAAATT
1 AAATGATATAGAAATT
16799490 AA
1 AA
16799492 TAAAAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (16 bp):
AAATGATATAGAAATT
Found at i:16801188 original size:49 final size:48
Alignment explanation
Indices: 16801133--16801313 Score: 170
Period size: 49 Copynumber: 3.7 Consensus size: 48
16801123 ATATGCCACA
16801133 TAGAATATGCACACAAAGTACCTCGAAGAATTGTACACAAAGTTCATCG
1 TAGAATATGCACACAAAGTACCTCGAAGAATTGTACACAAAGTTC-TCG
* * * * *
16801182 TAGAATATGCACACAAAGTTCCTCGTAGAATATGCACACAAAGTGCCTAG
1 TAGAATATGCACACAAAGTACCTCGAAGAAT-TGTACACAAAGT-TCTCG
* * *
16801232 TAGAAT-TGCACACAAAGTGA-CTC-ATAGAACATGTAAACAAAGTGTCTCA
1 TAGAATATGCACACAAAGT-ACCTCGA-AGAA-TTGTACACAAAGT-TCTCG
* ** *
16801281 TAGAATATACACACAAAGTGGCTCGTAGAATTG
1 TAGAATATGCACACAAAGTACCTCGAAGAATTG
16801314 CACAAATAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
49 69 0.64
50 37 0.35
51 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (48 bp):
TAGAATATGCACACAAAGTACCTCGAAGAATTGTACACAAAGTTCTCG
Found at i:16801199 original size:25 final size:25
Alignment explanation
Indices: 16801133--16801317 Score: 189
Period size: 25 Copynumber: 7.5 Consensus size: 25
16801123 ATATGCCACA
*
16801133 TAGAATATGCACACAAAGTACCTCG
1 TAGAATATGCACACAAAGTTCCTCG
* * *
16801158 AAGAAT-TGTACACAAAGTTCATCG
1 TAGAATATGCACACAAAGTTCCTCG
16801182 TAGAATATGCACACAAAGTTCCTCG
1 TAGAATATGCACACAAAGTTCCTCG
* *
16801207 TAGAATATGCACACAAAGTGCCTAG
1 TAGAATATGCACACAAAGTTCCTCG
** *
16801232 TAGAAT-TGCACACAAAGTGACTCA
1 TAGAATATGCACACAAAGTTCCTCG
* * * *
16801256 TAGAACATGTAAACAAAGTGT-CTCA
1 TAGAATATGCACACAAAGT-TCCTCG
* **
16801281 TAGAATATACACACAAAGTGGCTCG
1 TAGAATATGCACACAAAGTTCCTCG
16801306 TAGAAT-TGCACA
1 TAGAATATGCACA
16801318 AATAATGCTA
Statistics
Matches: 133, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
24 45 0.34
25 88 0.66
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (25 bp):
TAGAATATGCACACAAAGTTCCTCG
Found at i:16801215 original size:74 final size:74
Alignment explanation
Indices: 16801131--16801317 Score: 234
Period size: 74 Copynumber: 2.5 Consensus size: 74
16801121 CAATATGCCA
* * * * * *
16801131 CATAGAATATGCACACAAAGTACCTCGAAGAATTGTACACAAAGTTCA-TCGTAGAATATGCACA
1 CATAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAG-TCACTCATAGAACATGCAAA
16801195 CAAAGT-TCCT
65 CAAAGTGT-CT
* * * *
16801205 CGTAGAATATGCACACAAAGTGCCTAGTAGAATTGCACACAAAGTGACTCATAGAACATGTAAAC
1 CATAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTCACTCATAGAACATGCAAAC
16801270 AAAGTGTCT
66 AAAGTGTCT
* *
16801279 CATAGAATATACACACAAAGTGGCTCGTAGAATTGCACA
1 CATAGAATATGCACACAAAGTGCCTCGTAGAATTGCACA
16801318 AATAATGCTA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
73 2 0.02
74 94 0.97
75 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (74 bp):
CATAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTCACTCATAGAACATGCAAAC
AAAGTGTCT
Found at i:16805760 original size:25 final size:25
Alignment explanation
Indices: 16805698--16805932 Score: 262
Period size: 25 Copynumber: 9.6 Consensus size: 25
16805688 AATATGCCAT
** *
16805698 GTAGAATATGCACA-TGAGTGCCTT
1 GTAGAATATGCACACAAAGTGCCTC
* * * * *
16805722 GAAGAA-CTGTACACAAAGAGCCTT
1 GTAGAATATGCACACAAAGTGCCTC
* *
16805746 GTAGAACATGCACACAGAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
* *
16805771 ATAGAATTTGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
*
16805796 GTAGAATATGCGCACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
*
16805821 GTAGAATATGCGCACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
* *
16805846 GTAGAAT-TGCACAAAAAGTGACTC
1 GTAGAATATGCACACAAAGTGCCTC
* *
16805870 ATAGAATATGTACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
* *
16805895 ATAGAATATGCACACAAAGTGTCTC
1 GTAGAATATGCACACAAAGTGCCTC
16805920 GTAGAAT-TGCACA
1 GTAGAATATGCACA
16805933 AATAATGCTC
Statistics
Matches: 179, Mismatches: 29, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
23 5 0.03
24 43 0.24
25 131 0.73
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (25 bp):
GTAGAATATGCACACAAAGTGCCTC
Found at i:16805887 original size:74 final size:74
Alignment explanation
Indices: 16805729--16805934 Score: 286
Period size: 74 Copynumber: 2.8 Consensus size: 74
16805719 CTTGAAGAAC
* * * * * * *
16805729 TGTACACAAAGAGCCTTGTAGAACATGCACACAGAGTGCCTCATAGAATTTGCACACAAAGTGCC
1 TGTACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAA-TTGCACAAAAAGTGAC
*
16805794 TCGTAGAATA
65 TCATAGAATA
** *
16805804 TGCGCACAAAGTGCCTCGTAGAATATGCGCACAAAGTGCCTCGTAGAATTGCACAAAAAGTGACT
1 TGTACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACAAAAAGTGACT
16805869 CATAGAATA
66 CATAGAATA
* *
16805878 TGTACACAAAGTGCCTCATAGAATATGCACACAAAGTGTCTCGTAGAATTGCACAAA
1 TGTACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACAAA
16805935 TAATGCTCTA
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 75 0.65
75 40 0.35
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (74 bp):
TGTACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACAAAAAGTGACT
CATAGAATA
Found at i:16809960 original size:9 final size:9
Alignment explanation
Indices: 16809942--16810001 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
16809932 TTATATTATT
*
16809942 AATAACATA
1 AATAAAATA
16809951 AATAAAAT-
1 AATAAAATA
* *
16809959 AATAATATT
1 AATAAAATA
16809968 AATAATAATA
1 AATAA-AATA
16809978 ATATAAATATA
1 A-ATAAA-ATA
*
16809989 AATAAAATT
1 AATAAAATA
16809998 AATA
1 AATA
16810002 GCATTAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 7 0.17
9 18 0.43
10 9 0.21
11 8 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAAAATA
Found at i:16809976 original size:15 final size:15
Alignment explanation
Indices: 16809956--16810001 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
16809946 ACATAAATAA
16809956 AATAATAATATTAAT
1 AATAATAATATTAAT
*
16809971 AATAATAATATAAAT
1 AATAATAATATTAAT
*
16809986 -ATAAATAAAATTAAT
1 AAT-AATAATATTAAT
16810001 A
1 A
16810002 GCATTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 2 0.08
15 24 0.92
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATAATATTAAT
Found at i:16810428 original size:49 final size:50
Alignment explanation
Indices: 16810375--16810487 Score: 185
Period size: 49 Copynumber: 2.3 Consensus size: 50
16810365 CAATGTGTCA
*
16810375 CGTAGAATATGCTCACAAAGTGCCTCGTAGAAT-TGCACACAAAGTGCCT
1 CGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCT
* *
16810424 CGTAGAATATGCACACAAAGTTCCTCGTAGAATATGCACACAATGTGCCT
1 CGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCT
16810474 CGTAGAAT-TGCACA
1 CGTAGAATATGCACA
16810488 AATAATGCTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 37 0.62
50 23 0.38
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
CGTAGAATATGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTGCCT
Found at i:16810442 original size:25 final size:25
Alignment explanation
Indices: 16810375--16810487 Score: 185
Period size: 25 Copynumber: 4.6 Consensus size: 25
16810365 CAATGTGTCA
*
16810375 CGTAGAATATGCTCACAAAGTGCCT
1 CGTAGAATATGCACACAAAGTGCCT
16810400 CGTAGAAT-TGCACACAAAGTGCCT
1 CGTAGAATATGCACACAAAGTGCCT
*
16810424 CGTAGAATATGCACACAAAGTTCCT
1 CGTAGAATATGCACACAAAGTGCCT
*
16810449 CGTAGAATATGCACACAATGTGCCT
1 CGTAGAATATGCACACAAAGTGCCT
16810474 CGTAGAAT-TGCACA
1 CGTAGAATATGCACA
16810488 AATAATGCTC
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
24 29 0.35
25 54 0.65
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (25 bp):
CGTAGAATATGCACACAAAGTGCCT
Found at i:16811513 original size:15 final size:15
Alignment explanation
Indices: 16811493--16811523 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16811483 GTATCTTGGT
16811493 CCTTCATTATTTTTA
1 CCTTCATTATTTTTA
16811508 CCTTCATTATTTTTA
1 CCTTCATTATTTTTA
16811523 C
1 C
16811524 TTATTCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (15 bp):
CCTTCATTATTTTTA
Found at i:16812563 original size:20 final size:20
Alignment explanation
Indices: 16812538--16812578 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16812528 TTAGAGGTAA
*
16812538 TAGGGTTATGGTTTAAGGTT
1 TAGGGTTATAGTTTAAGGTT
* *
16812558 TAGGGTTTTAGTTTAGGGTT
1 TAGGGTTATAGTTTAAGGTT
16812578 T
1 T
16812579 TAAGTTAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (20 bp):
TAGGGTTATAGTTTAAGGTT
Found at i:16812584 original size:14 final size:14
Alignment explanation
Indices: 16812549--16812588 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
16812539 AGGGTTATGG
16812549 TTTAAGGTTTAGGGT
1 TTTAA-GTTTAGGGT
16812564 TTT-AGTTTAGGGT
1 TTTAAGTTTAGGGT
16812577 TTTAAG-TTAGGG
1 TTTAAGTTTAGGG
16812589 GAAGGGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 18 0.75
14 3 0.12
15 3 0.12
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
TTTAAGTTTAGGGT
Found at i:16812849 original size:15 final size:16
Alignment explanation
Indices: 16812824--16812853 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16812814 AAATGTCCCT
16812824 TATTATTTTTTAAAAG
1 TATTATTTTTTAAAAG
16812840 TATT-TTTTTTAAAA
1 TATTATTTTTTAAAA
16812854 TTTGACCATG
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TATTATTTTTTAAAAG
Found at i:16813417 original size:20 final size:20
Alignment explanation
Indices: 16813394--16813435 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
16813384 ATAAGGTAAA
*
16813394 GTAAAATAGCATAAGAATAG
1 GTAAAATAGCATAACAATAG
*
16813414 GTAAAATAGCTTAACAATAG
1 GTAAAATAGCATAACAATAG
16813434 GT
1 GT
16813436 GATGATCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.24
Consensus pattern (20 bp):
GTAAAATAGCATAACAATAG
Found at i:16815555 original size:12 final size:12
Alignment explanation
Indices: 16815540--16815569 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
16815530 TCGACCTCGA
16815540 CCACGACCATGC
1 CCACGACCATGC
16815552 CCACGACCATGC
1 CCACGACCATGC
16815564 CCACGA
1 CCACGA
16815570 GCACGAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.50, G:0.17, T:0.07
Consensus pattern (12 bp):
CCACGACCATGC
Found at i:16821291 original size:13 final size:13
Alignment explanation
Indices: 16821273--16821299 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16821263 ATGCAATTAG
16821273 TGCATCGATGCAT
1 TGCATCGATGCAT
16821286 TGCATCGATGCAT
1 TGCATCGATGCAT
16821299 T
1 T
16821300 AGGAGTGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (13 bp):
TGCATCGATGCAT
Found at i:16821362 original size:77 final size:76
Alignment explanation
Indices: 16821213--16821362 Score: 194
Period size: 77 Copynumber: 2.0 Consensus size: 76
16821203 TTTAGAGTGT
* *
16821213 ATCGATGCACAGGAAGTGCATCGATGCACCCCTAAAAATGGAAACATCGAATGCAATTAGTGCAT
1 ATCGATGCACAGGAAGTGCATCGATGCACCCCTAAAAATGAAAACATCGAAGGCAATTAGTGCAT
16821278 CGATGCATTGC
66 CGATGCATTGC
* * * ** * *
16821289 ATCGATGCATTAGG-AGTGCATCGATGCACCCCCTTAAAATGAAAACATTGAAGGTGATTGGTGT
1 ATCGATGCA-CAGGAAGTGCATCGATGCA-CCCCTAAAAATGAAAACATCGAAGGCAATTAGTGC
16821353 ATCGATGCAT
64 ATCGATGCAT
16821363 GGGTAGTGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
76 23 0.37
77 40 0.63
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (76 bp):
ATCGATGCACAGGAAGTGCATCGATGCACCCCTAAAAATGAAAACATCGAAGGCAATTAGTGCAT
CGATGCATTGC
Found at i:16822610 original size:23 final size:23
Alignment explanation
Indices: 16822543--16822610 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
16822533 CATTTTATAT
* * *
16822543 GGCACTTCGGTGCAATCCTATGT
1 GGCACTTCGGTGCAATTCTACGC
* *
16822566 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
16822589 GGCACTTCGGTGCAATTATACG
1 GGCACTTCGGTGCAATTCTACG
16822611 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:16824101 original size:21 final size:21
Alignment explanation
Indices: 16824054--16824104 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
16824044 TTTTCAGTCG
*
16824054 TTTGTAACATATGTAATTACT
1 TTTGTAACTTATGTAATTACT
* *
16824075 TCTGTAACTTGTGTAATTA-T
1 TTTGTAACTTATGTAATTACT
16824095 ATTTGTAACT
1 -TTTGTAACT
16824105 GGCTCATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (21 bp):
TTTGTAACTTATGTAATTACT
Found at i:16825640 original size:6 final size:6
Alignment explanation
Indices: 16825629--16825653 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16825619 GACACGTATT
16825629 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
16825654 TAGGACGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:16826176 original size:20 final size:19
Alignment explanation
Indices: 16826153--16826228 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 19
16826143 AATCTTAAAA
16826153 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGAC-T
*
16826173 TCGCGTTGCGAATTTGGAACC
1 TCGCGTTGCGAATTT-G-ACT
* *
16826194 T-GGGTTGCGAAATTTGAAT
1 TCGCGTTGCG-AATTTGACT
16826213 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
16826229 TTGGTAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.17
20 30 0.64
21 7 0.15
22 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.29, T:0.36
Consensus pattern (19 bp):
TCGCGTTGCGAATTTGACT
Found at i:16826183 original size:40 final size:40
Alignment explanation
Indices: 16826138--16826227 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
16826128 CACTTAAATA
* *
16826138 TTGCGAATCTTAAAATC-GCGTTGCG-AATTTGACTTTCGCG
1 TTGCGAAT-TTAAAACCTGCGTTGCGAAATTTGA-ATTCGCG
** *
16826178 TTGCGAATTTGGAACCTGGGTTGCGAAATTTGAATTCGCG
1 TTGCGAATTTAAAACCTGCGTTGCGAAATTTGAATTCGCG
16826218 TTGCGAATTT
1 TTGCGAATTT
16826228 GTTGGTAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 5 0.12
40 31 0.72
41 7 0.16
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.36
Consensus pattern (40 bp):
TTGCGAATTTAAAACCTGCGTTGCGAAATTTGAATTCGCG
Found at i:16827324 original size:48 final size:48
Alignment explanation
Indices: 16827271--16827367 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
16827261 TAAGGACTCA
**
16827271 ACAAAGCAGTGATTTAAAGTCGAGAGACCATTTTTTACTTTACCCTTT
1 ACAAAGCAGTGACCTAAAGTCGAGAGACCATTTTTTACTTTACCCTTT
*
16827319 ACAAAGCAGTGACCTAAAGTCGAGGGACCATTTTTTACTTTACCCTTT
1 ACAAAGCAGTGACCTAAAGTCGAGAGACCATTTTTTACTTTACCCTTT
16827367 A
1 A
16827368 TTTTTTCTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (48 bp):
ACAAAGCAGTGACCTAAAGTCGAGAGACCATTTTTTACTTTACCCTTT
Found at i:16833683 original size:20 final size:18
Alignment explanation
Indices: 16833655--16833752 Score: 56
Period size: 18 Copynumber: 5.1 Consensus size: 18
16833645 ATTATGTAAA
16833655 TATTAAAAAGTATAATAATT
1 TATTAAAAA-T-TAATAATT
* *
16833675 TATTTAAAATTAATCATT
1 TATTAAAAATTAATAATT
** *
16833693 TATTAAATTTTAATAGAAT
1 TATTAAAAATTAATA-ATT
*
16833712 T-TTAATTAAATT-ATATTT
1 TATTAA--AAATTAATAATT
16833730 TATTTAAAATATTAATTAATT
1 TA-TTAAAA-ATTAA-TAATT
16833751 TA
1 TA
16833753 AGAAAATTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
18 26 0.45
19 10 0.17
20 16 0.28
21 6 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (18 bp):
TATTAAAAATTAATAATT
Found at i:16833750 original size:27 final size:27
Alignment explanation
Indices: 16833673--16833750 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
16833663 AGTATAATAA
* * *
16833673 TTTATTTAAAATTAATCATTTATTAAAT
1 TTTATTTAAAA-TATTAATTAATTAAAT
* * * *
16833701 TTTA-ATAGAATTTTAATTAAATTATAT
1 TTTATTTAAAATATTAATT-AATTAAAT
16833728 TTTATTTAAAATATTAATTAATT
1 TTTATTTAAAATATTAATTAATT
16833751 TAAGAAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
26 5 0.13
27 18 0.47
28 15 0.39
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
TTTATTTAAAATATTAATTAATTAAAT
Found at i:16833763 original size:18 final size:17
Alignment explanation
Indices: 16833731--16833773 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
16833721 ATTATATTTT
*
16833731 ATTTAAAATATTAATTA
1 ATTTAAAAAATTAATTA
*
16833748 ATTTAAGAAAATTAATTT
1 ATTTAA-AAAATTAATTA
16833766 ATTTAAAA
1 ATTTAAAA
16833774 TTAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTTAAAAAATTAATTA
Found at i:16835119 original size:22 final size:23
Alignment explanation
Indices: 16835094--16835148 Score: 58
Period size: 27 Copynumber: 2.3 Consensus size: 23
16835084 TGACGTCGTA
16835094 CGATTC-TTCCGATCAGTCGAAT
1 CGATTCTTTCCGATCAGTCGAAT
*
16835116 CGATTCAACTTTTCCGATCGGTCGAAT
1 CGATT---C-TTTCCGATCAGTCGAAT
16835143 CGATTC
1 CGATTC
16835149 AACTTGTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
22 5 0.19
24 1 0.04
25 1 0.04
27 20 0.74
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (23 bp):
CGATTCTTTCCGATCAGTCGAAT
Found at i:16835139 original size:27 final size:27
Alignment explanation
Indices: 16835100--16835153 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
16835090 CGTACGATTC
16835100 TTCCGATCAGTCGAATCGATTCAACTT
1 TTCCGATCAGTCGAATCGATTCAACTT
*
16835127 TTCCGATCGGTCGAATCGATTCAACTT
1 TTCCGATCAGTCGAATCGATTCAACTT
16835154 GTTGAACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (27 bp):
TTCCGATCAGTCGAATCGATTCAACTT
Found at i:16837151 original size:2 final size:2
Alignment explanation
Indices: 16837144--16837174 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16837134 CTAATTTCAA
16837144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16837175 AGACATGATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16838759 original size:29 final size:29
Alignment explanation
Indices: 16838717--16838795 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
16838707 TGGTGATCGG
*
16838717 TATATTTATCGATCTAACACCAGTTAGAT
1 TATATTTCTCGATCTAACACCAGTTAGAT
16838746 TATATTTCTCGATCTAACACCAGTTAGAT
1 TATATTTCTCGATCTAACACCAGTTAGAT
16838775 TATATTTCTCGATCTAACACC
1 TATATTTCTCGATCTAACACC
16838796 CGTAGCAGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (29 bp):
TATATTTCTCGATCTAACACCAGTTAGAT
Found at i:16839153 original size:17 final size:18
Alignment explanation
Indices: 16839116--16839156 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
16839106 ATATTATGTA
*
16839116 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
16839134 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
16839151 TTTACT
1 TTTACT
16839157 AATATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:16841181 original size:9 final size:9
Alignment explanation
Indices: 16841167--16841192 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16841157 TGCTCAGGAC
16841167 GACGACGAT
1 GACGACGAT
16841176 GACGACGAT
1 GACGACGAT
16841185 GACGACGA
1 GACGACGA
16841193 CGATGATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.35, T:0.08
Consensus pattern (9 bp):
GACGACGAT
Found at i:16841181 original size:12 final size:12
Alignment explanation
Indices: 16841164--16841198 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16841154 ACCTGCTCAG
* *
16841164 GACGACGACGAT
1 GACGACGATGAC
16841176 GACGACGATGAC
1 GACGACGATGAC
16841188 GACGACGATGA
1 GACGACGATGA
16841199 TGGTGATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.34, T:0.09
Consensus pattern (12 bp):
GACGACGATGAC
Found at i:16845220 original size:18 final size:18
Alignment explanation
Indices: 16845192--16845234 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16845182 TTAAATATTT
16845192 TAATTTTAAATAAATTAA
1 TAATTTTAAATAAATTAA
*
16845210 -AATTATTAAATTAATTAA
1 TAATT-TTAAATAAATTAA
16845228 TAATTTT
1 TAATTTT
16845235 GCTAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTTTAAATAAATTAA
Found at i:16845276 original size:28 final size:29
Alignment explanation
Indices: 16845205--16845280 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 29
16845195 TTTTAAATAA
*
16845205 ATTAAAATTATTAAA-TTAATTAATAATTTT
1 ATTAAAATTA--AAATTTAATTAATAATTCT
** *
16845235 GCTAAAATT-CAATTTAATT-ATAATTCT
1 ATTAAAATTAAAATTTAATTAATAATTCT
16845262 ATTAAAATTAAAATTTAAT
1 ATTAAAATTAAAATTTAAT
16845281 AAATGATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
27 16 0.43
28 14 0.38
30 7 0.19
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (29 bp):
ATTAAAATTAAAATTTAATTAATAATTCT
Found at i:16845701 original size:23 final size:23
Alignment explanation
Indices: 16845666--16845717 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
16845656 AAAAACATAT
* * **
16845666 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAACACTTATATAATAAAA
16845689 TAGGTAACACTTATATAATAAAA
1 TAGGTAACACTTATATAATAAAA
16845712 TAGGTA
1 TAGGTA
16845718 TTTAACCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (23 bp):
TAGGTAACACTTATATAATAAAA
Found at i:16846247 original size:199 final size:199
Alignment explanation
Indices: 16845814--16846515 Score: 823
Period size: 200 Copynumber: 3.5 Consensus size: 199
16845804 GAAGTAAAGT
* * * *
16845814 GGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATTATTATCTGTTTCGATGTTT
1 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGATGTTT
** * * * * *
16845879 TTTAGATTGATACAATTT--TAAATGTATCGACACTTTATGCTTGCACCTCGGTGGGCATTCATA
66 TTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCA-T-ATA
* * * * * *
16845942 TTTCATTCTGGAAAAAAATATCGACATAAA-CTAAAAAGTGTCGATACATTAT-TTAGACATATT
128 -TT-A---TGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGTT-GACCTATT
*
16846005 TTCTCATAAAATC
187 TTCTCATAAAACC
* * * *
16846018 AGTATATTTATACCAGG-TACATTATAAATTTACCTATCACATTGTAATT-TTTGTTTCGATGTT
1 GGTATATTTATACC-GGTTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGATGTT
*
16846081 TTTGGGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCATCC-CGTTTGGCATATAT
65 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCA-CCTCGTTTGGCATATAT
* *
16846145 TATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGCTGACCTATTTTCTCA
129 TATGGACAAAA-GTATCGACACAAATTTAACAAGTGTCGATACATTATGTTGACCTATTTTCTCA
16846210 TAAAACC
193 TAAAACC
* *
16846217 GGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTA-TCGATTTCGATGTT
1 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTG-TTTCGATGTT
* *
16846281 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGTACCTCGTTTGGGCATTTAT
65 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTT-GGCATATAT
* ** * *
16846346 TCTGGACAATAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTTGACCTGTTTTCTAA
129 TATGGACAA-AAGTATCGACACAAATTTAACAAGTGTCGATACATTATGTTGACCTATTTTCTCA
*
16846411 T-TAACC
193 TAAAACC
* * *
16846417 GGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGATGTTT
1 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGATG-TT
*
16846482 TTTGGG-TCGATACTTGTAGA-AAATGTATCGACAC
65 TTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
16846516 ATATTTAGGT
Statistics
Matches: 435, Mismatches: 47, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
197 8 0.02
198 13 0.03
199 83 0.19
200 146 0.34
201 77 0.18
202 8 0.02
203 25 0.06
204 71 0.16
205 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (199 bp):
GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTTGTTTCGATGTTT
TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATATATTA
TGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGTTGACCTATTTTCTCATAA
AACC
Found at i:16847259 original size:96 final size:96
Alignment explanation
Indices: 16847095--16847268 Score: 348
Period size: 96 Copynumber: 1.8 Consensus size: 96
16847085 TGCACACCTG
16847095 CTCATTCTAAACGAAGGGTACTTCTTTTTGAAGTAGTTTGGTTAGTGAGGTGACTATTATCGATA
1 CTCATTCTAAACGAAGGGTACTTCTTTTTGAAGTAGTTTGGTTAGTGAGGTGACTATTATCGATA
16847160 AGCCTTGAATGAAGGGTACTTCTCCTCCTTT
66 AGCCTTGAATGAAGGGTACTTCTCCTCCTTT
16847191 CTCATTCTAAACGAAGGGTACTTCTTTTTGAAGTAGTTTGGTTAGTGAGGTGACTATTATCGATA
1 CTCATTCTAAACGAAGGGTACTTCTTTTTGAAGTAGTTTGGTTAGTGAGGTGACTATTATCGATA
16847256 AGCCTTGAATGAA
66 AGCCTTGAATGAA
16847269 TTGATTATAG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (96 bp):
CTCATTCTAAACGAAGGGTACTTCTTTTTGAAGTAGTTTGGTTAGTGAGGTGACTATTATCGATA
AGCCTTGAATGAAGGGTACTTCTCCTCCTTT
Found at i:16849001 original size:3 final size:3
Alignment explanation
Indices: 16848995--16849022 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16848985 ATAATAATAA
16848995 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
16849023 TTACAAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:16849348 original size:23 final size:25
Alignment explanation
Indices: 16849289--16849348 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 25
16849279 TTTCATTACT
16849289 TTATAATTTTTTGAAGTAATTGTTAA
1 TTATAA-TTTTTGAAGTAATTGTTAA
*
16849315 TTA-CATATTTT-AA-TAATTGTTAA
1 TTATAAT-TTTTGAAGTAATTGTTAA
16849338 TTATAATTTTT
1 TTATAATTTTT
16849349 TAATGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 17 0.57
24 5 0.17
25 5 0.17
26 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (25 bp):
TTATAATTTTTGAAGTAATTGTTAA
Found at i:16859602 original size:20 final size:20
Alignment explanation
Indices: 16859564--16859604 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16859554 TTTTATGGGT
* **
16859564 TGTAGTATCGATAGTGTTCA
1 TGTAGTATCAATACAGTTCA
16859584 TGTAGTATCAATACAGTTCA
1 TGTAGTATCAATACAGTTCA
16859604 T
1 T
16859605 ATTCTAGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTAGTATCAATACAGTTCA
Found at i:16859760 original size:20 final size:21
Alignment explanation
Indices: 16859737--16859794 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
16859727 CTTGTTATCC
16859737 ATACCAGAAGGCTGGTATA-A
1 ATACCAGAAGGCTGGTATATA
* ** *
16859757 ATACCAGATGAATGG-ATATC
1 ATACCAGAAGGCTGGTATATA
16859777 ATACCAGAAGGCTGGTAT
1 ATACCAGAAGGCTGGTAT
16859795 TTATACTAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.83
21 2 0.07
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (21 bp):
ATACCAGAAGGCTGGTATATA
Found at i:16859780 original size:40 final size:41
Alignment explanation
Indices: 16859736--16859828 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 41
16859726 GCTTGTTATC
16859736 CATACCAGAAGGCTGGTATAAATACCAGATGA-ATGGATAT-
1 CATACCAGAAGGCTGGTATAAATACCAGATGATAT-GATATA
** *
16859776 CATACCAGAAGGCTGGTATTTATACTAGATGATATGATATA
1 CATACCAGAAGGCTGGTATAAATACCAGATGATATGATATA
*
16859817 CATACCAAAAGG
1 CATACCAGAAGG
16859829 ATAGTATCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 34 0.72
41 13 0.28
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (41 bp):
CATACCAGAAGGCTGGTATAAATACCAGATGATATGATATA
Found at i:16862362 original size:7 final size:7
Alignment explanation
Indices: 16862347--16862470 Score: 89
Period size: 8 Copynumber: 17.4 Consensus size: 7
16862337 AGTAGTGTTT
16862347 TATTATA
1 TATTATA
*
16862354 TATTTTA
1 TATTATA
* *
16862361 TAGTATC
1 TATTATA
16862368 T-TATATA
1 TAT-TATA
16862375 TATT-TA
1 TATTATA
16862381 TA-TATTA
1 TATTA-TA
16862388 TATTATA
1 TATTATA
16862395 TATTAT-
1 TATTATA
**
16862401 TAAAATA
1 TATTATA
16862408 TA-TATA
1 TATTATA
16862414 TA-TATA
1 TATTATA
16862420 TATATATA
1 TAT-TATA
16862428 TATATATA
1 TAT-TATA
16862436 TATATATA
1 TAT-TATA
16862444 TATATATA
1 TAT-TATA
16862452 TATATATA
1 TAT-TATA
16862460 TATATATA
1 TAT-TATA
16862468 TAT
1 TAT
16862471 GTAAGATTAA
Statistics
Matches: 100, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
5 1 0.01
6 19 0.19
7 30 0.30
8 50 0.50
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (7 bp):
TATTATA
Found at i:16862371 original size:22 final size:20
Alignment explanation
Indices: 16862345--16862464 Score: 82
Period size: 22 Copynumber: 5.6 Consensus size: 20
16862335 CTAGTAGTGT
16862345 TTTATTATATATTTTATAGTA
1 TTTATTATATATTTTATA-TA
16862366 TCTTA-TATATA-TTTATATA
1 T-TTATTATATATTTTATATA
*
16862385 TTATATTATATATTATTAAAATA
1 TT-TATTATATATT-TT-ATATA
* *
16862408 TATATATATATATATATATATA
1 TTTAT-TATATAT-TTTATATA
* *
16862430 TATATATATATATATATATATA
1 TTTAT-TATATAT-TTTATATA
*
16862452 TATATATATATAT
1 TTTAT-TATATAT
16862465 ATATATGTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.01
19 5 0.06
20 12 0.14
21 8 0.09
22 47 0.54
23 13 0.15
24 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (20 bp):
TTTATTATATATTTTATATA
Found at i:16862374 original size:2 final size:2
Alignment explanation
Indices: 16862369--16862470 Score: 151
Period size: 2 Copynumber: 53.5 Consensus size: 2
16862359 TATAGTATCT
* *
16862369 TA TA TA TA TT TA TA TA T- TA TA T- TA TA TA T- TA T- TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16862406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16862448 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
16862471 GTAAGATTAA
Statistics
Matches: 92, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
1 5 0.05
2 87 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16864012 original size:2 final size:2
Alignment explanation
Indices: 16863999--16864101 Score: 63
Period size: 2 Copynumber: 51.0 Consensus size: 2
16863989 TAGTATTTTG
* * * *
16863999 TA TA TA -A T- TA TA TA TA CA AA GTA TA TA GTA TT TA TA TA TA GTG
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA
* *
16864042 TA TA TA T- TA TA GTG TA TA TA TA TA -A TA TA GCA TA TA TA T- TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
16864083 TA GTA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA
16864102 AATCAACGTC
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
1 5 0.06
2 66 0.84
3 8 0.10
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.46
Consensus pattern (2 bp):
TA
Found at i:16864078 original size:32 final size:31
Alignment explanation
Indices: 16864022--16864101 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 31
16864012 ATACAAAGTA
* **
16864022 TATAGTATTTATATATAGTGTATATATTATAG
1 TATA-TATATATATATAGCATATATATTATAG
*
16864054 TGTATATATATAATATAGCATATATATTATAG
1 TATATATATAT-ATATAGCATATATATTATAG
16864086 TATATATATATATATA
1 TATATATATATATATA
16864102 AATCAACGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 11 0.26
32 31 0.74
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.47
Consensus pattern (31 bp):
TATATATATATATATAGCATATATATTATAG
Found at i:16869421 original size:17 final size:18
Alignment explanation
Indices: 16869390--16869429 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
16869380 TTTTGCAGCA
*
16869390 TTTATCATTTATTTTTAT
1 TTTATCATTTATTTTAAT
*
16869408 TTTATCCTTT-TTTTAAT
1 TTTATCATTTATTTTAAT
16869425 TTTAT
1 TTTAT
16869430 TTTTAAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATCATTTATTTTAAT
Found at i:16872615 original size:19 final size:18
Alignment explanation
Indices: 16872567--16872630 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
16872557 TGTATGGATA
16872567 AAAATTTATAATATTATTT
1 AAAATTTA-AATATTATTT
*
16872586 AATAAATTAAATATTATTT
1 AA-AATTTAAATATTATTT
16872605 AAAATTATAAA-ATATATTT
1 AAAATT-TAAATAT-TATTT
*
16872624 ATAATTT
1 AAAATTT
16872631 TTATTTTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 6 0.15
19 28 0.72
20 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAATTTAAATATTATTT
Found at i:16873987 original size:65 final size:63
Alignment explanation
Indices: 16873862--16874010 Score: 167
Period size: 65 Copynumber: 2.3 Consensus size: 63
16873852 TTTCATTAAG
* * * *
16873862 AAAAAAA-CTCATCTTTCTCAAGATCATTTTTCCCTCTCTTAATGACATCCTTAAAATTTTCAAA
1 AAAAAAATCTTATCTTTCTTAAGATCATTTTTCCCTCTCTTAAGGACATACTTAAAATTTTC--A
* * * * *
16873926 AAAAAAATCTTATCTTTCTTAAGATCATTTTT-CTTTTCTTGAGGATATATTTAAAATTTTTCA
1 AAAAAAATCTTATCTTTCTTAAGATCATTTTTCCCTCTCTTAAGGACATACTTAAAA-TTTTCA
*
16873989 AAAAAAGTCTTATCTTTCTTAA
1 AAAAAAATCTTATCTTTCTTAA
16874011 TATTGTTTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
63 22 0.30
64 24 0.33
65 27 0.37
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.43
Consensus pattern (63 bp):
AAAAAAATCTTATCTTTCTTAAGATCATTTTTCCCTCTCTTAAGGACATACTTAAAATTTTCA
Found at i:16874042 original size:63 final size:64
Alignment explanation
Indices: 16873862--16874047 Score: 164
Period size: 63 Copynumber: 2.9 Consensus size: 64
16873852 TTTCATTAAG
* * * * * * **
16873862 AAAAAAA-CTCATCTTTCTCAAGATCATTTTTCCCTCTCTTAATGACATCCTTAAAA-TTTTCAA
1 AAAAAAATCTTATCTTTCTTAAGATCATTTCT-CCTCTCTTGAGGATATATTTAAAATTTTTC-A
16873925 A
64 A
* * *
16873926 AAAAAAATCTTATCTTTCTTAAGATCATTTTTCTTTTCTTGAGGATATATTTAAAATTTTTC-A
1 AAAAAAATCTTATCTTTCTTAAGATCATTTCTCCTCTCTTGAGGATATATTTAAAATTTTTCAA
* * ** * *
16873989 AAAAAAGTCTTATCTTTCTTAATATTGTTTCTCCTCTCTT-AGAGATGTTTTTAAAATTT
1 AAAAAAATCTTATCTTTCTTAAGATCATTTCTCCTCTCTTGAG-GATATATTTAAAATTT
16874048 CTCTTTTAAA
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
62 2 0.02
63 48 0.48
64 24 0.24
65 27 0.27
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (64 bp):
AAAAAAATCTTATCTTTCTTAAGATCATTTCTCCTCTCTTGAGGATATATTTAAAATTTTTCAA
Found at i:16874223 original size:36 final size:36
Alignment explanation
Indices: 16874177--16874343 Score: 117
Period size: 36 Copynumber: 4.6 Consensus size: 36
16874167 AAATACCAAA
* *
16874177 TTTATTTCACTTGAGATAGTTTTTCTTTATATAAAT
1 TTTATCTCACTTGAGATAGTTTTTCTTTAAATAAAT
* * * *
16874213 TTTATCTCACTCGAAAT-G-TTTTCCTTAAATGAAAAA
1 TTTATCTCACTTGAGATAGTTTTTCTTTAAAT--AAAT
* * *
16874249 TTTATCTGACTTGAGATAGTTTCTCTTGAAATAAAT
1 TTTATCTCACTTGAGATAGTTTTTCTTTAAATAAAT
* * * * * *
16874285 TTTA-CATTACTCGAAACA-TTTTTCCTTGAAATAAAAA
1 TTTATC-TCACTTGAGATAGTTTTT-CTTTAAAT-AAAT
*
16874322 TTTATCTCACATGAGATAGTTT
1 TTTATCTCACTTGAGATAGTTT
16874344 CCCTTGAAAC
Statistics
Matches: 98, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
34 10 0.10
35 6 0.06
36 54 0.55
37 15 0.15
38 13 0.13
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (36 bp):
TTTATCTCACTTGAGATAGTTTTTCTTTAAATAAAT
Found at i:16874261 original size:72 final size:73
Alignment explanation
Indices: 16874163--16874352 Score: 235
Period size: 72 Copynumber: 2.6 Consensus size: 73
16874153 AATTGTTCCT
* * * * *
16874163 CTTGAAATACCAAATTTATTTCACTTGAGATAGTTTTTCTTTATATAAATTTTATC-TCACTCG-
1 CTTGAAATA-AAAATTTATCTCACTTGAGATAGTTTCTCTTGAAATAAATTTTA-CATCACTCGA
16874226 AA-ATGTTTTC
64 AACAT-TTTTC
* *
16874236 CTT-AAATGAAAAATTTATCTGACTTGAGATAGTTTCTCTTGAAATAAATTTTACATTACTCGAA
1 CTTGAAAT-AAAAATTTATCTCACTTGAGATAGTTTCTCTTGAAATAAATTTTACATCACTCGAA
16874300 ACATTTTTC
65 ACATTTTTC
* *
16874309 CTTGAAATAAAAATTTATCTCACATGAGATAGTTTCCCTTGAAA
1 CTTGAAATAAAAATTTATCTCACTTGAGATAGTTTCTCTTGAAA
16874353 CAATTTTTGT
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
71 1 0.01
72 48 0.47
73 47 0.46
74 6 0.06
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (73 bp):
CTTGAAATAAAAATTTATCTCACTTGAGATAGTTTCTCTTGAAATAAATTTTACATCACTCGAAA
CATTTTTC
Found at i:16874345 original size:36 final size:35
Alignment explanation
Indices: 16874163--16874352 Score: 111
Period size: 36 Copynumber: 5.2 Consensus size: 35
16874153 AATTGTTCCT
* * *
16874163 CTTGAAATACCAAATTTATTTCACTTGAGATAGTTTTT
1 CTTGAAATA-AAAATTTATCTCAC-TGAGATAG-TTTC
* * * *
16874201 CTTTATAT-AAATTTTATCTCACTCGAAAT-GTTTTC
1 CTTGAAATAAAAATTTATCTCACT-GAGATAG-TTTC
*
16874236 CTT-AAATGAAAAATTTATCTGACTTGAGATAGTTTC
1 CTTGAAAT-AAAAATTTATCTCAC-TGAGATAGTTTC
* * * * *
16874272 TCTTGAAAT-AAATTTTA-CATTACTCGAAACATTTTTC
1 -CTTGAAATAAAAATTTATC-TCACT-GAGATA-GTTTC
16874309 CTTGAAATAAAAATTTATCTCACATGAGATAGTTTCC
1 CTTGAAATAAAAATTTATCTCAC-TGAGATAGTTT-C
16874346 CTTGAAA
1 CTTGAAA
16874353 CAATTTTTGT
Statistics
Matches: 117, Mismatches: 21, Indels: 29
0.70 0.13 0.17
Matches are distributed among these distances:
34 3 0.03
35 11 0.09
36 60 0.51
37 31 0.26
38 12 0.10
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (35 bp):
CTTGAAATAAAAATTTATCTCACTGAGATAGTTTC
Found at i:16874692 original size:69 final size:70
Alignment explanation
Indices: 16874604--16874735 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
16874594 AAAAAATTTA
* *
16874604 TCTCACTTTAGATAATTTCTCTTGAAAT-AAATTTCATCTCACTCGAGGCATTTTCCCTTGAATT
1 TCTCACTTGAGATAATTTCTCTTGAAATAAAATTTCATCTCACTCGAGACATTTTCCCTTGAATT
16874668 TTTTC
66 TTTTC
* * * * **
16874673 TCTCACTTGAGTTAGTTTCTTTTGAAATAAAATTTTATCTTGCTCGAGACATTTTCCCTTGAA
1 TCTCACTTGAGATAATTTCTCTTGAAATAAAATTTCATCTCACTCGAGACATTTTCCCTTGAA
16874736 ACAAAATTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
69 24 0.44
70 30 0.56
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.45
Consensus pattern (70 bp):
TCTCACTTGAGATAATTTCTCTTGAAATAAAATTTCATCTCACTCGAGACATTTTCCCTTGAATT
TTTTC
Found at i:16877047 original size:8 final size:8
Alignment explanation
Indices: 16877033--16877071 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
16877023 GACCGGTCAC
16877033 GACCCGTT
1 GACCCGTT
*
16877041 TACCCGTT
1 GACCCGTT
*
16877049 GACCCGATC
1 GACCCG-TT
16877058 GACCCGTT
1 GACCCGTT
16877066 GACCCG
1 GACCCG
16877072 ACCAACCCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.15, C:0.41, G:0.23, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:16877064 original size:17 final size:17
Alignment explanation
Indices: 16877042--16877104 Score: 90
Period size: 17 Copynumber: 3.6 Consensus size: 17
16877032 CGACCCGTTT
*
16877042 ACCCGTTGACCCGATCG
1 ACCCGTTGACCCGACCG
*
16877059 ACCCGTTGACCCGACCA
1 ACCCGTTGACCCGACCG
*
16877076 ACCCGTTGACTCGACCCG
1 ACCCGTTGACCCGA-CCG
16877094 ACCCGTTGACC
1 ACCCGTTGACC
16877105 GTTAACCGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 28 0.70
18 12 0.30
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.16
Consensus pattern (17 bp):
ACCCGTTGACCCGACCG
Found at i:16877173 original size:29 final size:28
Alignment explanation
Indices: 16877112--16877290 Score: 121
Period size: 29 Copynumber: 6.3 Consensus size: 28
16877102 ACCGTTAACC
* *** *
16877112 GGTGCTATTCTGGGAATTGATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTC-AAATA
16877141 GGTGCTATTCTGGGAATTAATTCGAAATA
1 GGTGCTATTCTGGGAATTAATTC-AAATA
* * *
16877170 GGTGCTATTTTGGTAATT-TTTCAAA-A
1 GGTGCTATTCTGGGAATTAATTCAAATA
* * *
16877196 AGTGATATTCTGGGAATTAATTCAATATT
1 GGTGCTATTCTGGGAATTAATTCAA-ATA
* * *
16877225 GATGCTATT-TTGGAATTAATTCAAAAA
1 GGTGCTATTCTGGGAATTAATTCAAATA
* * * * *
16877252 GGGTGCTATTTTGGTAATTATTTTAAAAA
1 -GGTGCTATTCTGGGAATTAATTCAAATA
16877281 GGGTGCTATT
1 -GGTGCTATT
16877291 TGTTTAAAAT
Statistics
Matches: 120, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
26 15 0.12
27 9 0.08
28 26 0.22
29 70 0.58
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.41
Consensus pattern (28 bp):
GGTGCTATTCTGGGAATTAATTCAAATA
Found at i:16877209 original size:55 final size:55
Alignment explanation
Indices: 16877146--16877252 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 55
16877136 GTTTTGGTGC
* *
16877146 TATTCTGGGAATTAATTCGAA-ATAGGTGCTATTTTGGTAATT-TTTCAAAAAGTGA
1 TATTCTGGGAATTAATTC-AATATAGATGCTATTTTGG-AATTAATTCAAAAAGTGA
*
16877201 TATTCTGGGAATTAATTCAATATTGATGCTATTTTGGAATTAATTCAAAAAG
1 TATTCTGGGAATTAATTCAATATAGATGCTATTTTGGAATTAATTCAAAAAG
16877253 GGTGCTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
54 6 0.13
55 41 0.87
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (55 bp):
TATTCTGGGAATTAATTCAATATAGATGCTATTTTGGAATTAATTCAAAAAGTGA
Found at i:16877213 original size:26 final size:29
Alignment explanation
Indices: 16877146--16877218 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 29
16877136 GTTTTGGTGC
* *
16877146 TATTCTGGGAATTAATTCGAAATAGGTGC
1 TATTCTGGGAATTAATTCGAAATAAGTGA
* * *
16877175 TATTTTGGTAATT-TTTC-AAA-AAGTGA
1 TATTCTGGGAATTAATTCGAAATAAGTGA
16877201 TATTCTGGGAATTAATTC
1 TATTCTGGGAATTAATTC
16877219 AATATTGATG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 15 0.43
27 6 0.17
28 3 0.09
29 11 0.31
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (29 bp):
TATTCTGGGAATTAATTCGAAATAAGTGA
Found at i:16877291 original size:29 final size:29
Alignment explanation
Indices: 16877141--16877291 Score: 141
Period size: 29 Copynumber: 5.3 Consensus size: 29
16877131 ATTCGGTTTT
* * *
16877141 GGTGCTATTCTGGGAATTAATTCGAAATA-
1 GGTGCTATTTTGGTAATTAATTC-AAAAAG
*
16877170 GGTGCTATTTTGGTAATT-TTTCAAAAA-
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
* * * * **
16877197 -GTGATATTCTGGGAATTAATTCAATATT
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
*
16877225 GATGCTATTTTGG-AATTAATTCAAAAAG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
* *
16877253 GGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
16877282 GGTGCTATTT
1 GGTGCTATTT
16877292 GTTTAAAATG
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.14
27 10 0.10
28 27 0.27
29 48 0.48
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTCAAAAAG
Found at i:16886578 original size:13 final size:13
Alignment explanation
Indices: 16886560--16886589 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16886550 CTGTTGACCC
*
16886560 GACCCGACCCGTT
1 GACCCGACCAGTT
16886573 GACCCGACCAGTT
1 GACCCGACCAGTT
16886586 GACC
1 GACC
16886590 GTTGACCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCAGTT
Found at i:16886581 original size:18 final size:18
Alignment explanation
Indices: 16886511--16886581 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
16886501 TGACCGGTCA
16886511 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
16886529 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
* *
16886547 TGA-CTGTTGACCCGACC
1 CGACCCGTTGACCCGACC
16886564 CGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACC
16886582 AGTTGACCGT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.31
18 33 0.69
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
CGACCCGTTGACCCGACC
Found at i:16886658 original size:29 final size:29
Alignment explanation
Indices: 16886626--16886779 Score: 114
Period size: 29 Copynumber: 5.3 Consensus size: 29
16886616 ATTCGGTTTT
* *
16886626 GGTGCTATTCTGGGAATTAATTCAAAATG
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* * * *
16886655 GGTGTTATTTTGGTAATT-TTTCAAAAAA
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* * * * * **
16886683 AGTGATATTCTGGGAATTAAATCGAAATT
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* *
16886712 CGTGCTATTTTGGGAATT-ATTTAGAAAAG
1 GGTGCTATTTTGGGAATTAATTCA-AAAAG
* * **
16886741 GGTGCTATTTTGGTAATTATTTTGAAAAG
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
16886770 GGTGCTATTT
1 GGTGCTATTT
16886780 GTGTAAAATG
Statistics
Matches: 95, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
28 23 0.24
29 69 0.73
30 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTCAAAAAG
Found at i:16886785 original size:29 final size:29
Alignment explanation
Indices: 16886713--16886779 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
16886703 ATCGAAATTC
*
16886713 GTGCTATTTTGGGAATTATTTAGAAAAGG
1 GTGCTATTTTGGTAATTATTTAGAAAAGG
*
16886742 GTGCTATTTTGGTAATTATTTTGAAAAGG
1 GTGCTATTTTGGTAATTATTTAGAAAAGG
16886771 GTGCTATTT
1 GTGCTATTT
16886780 GTGTAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.43
Consensus pattern (29 bp):
GTGCTATTTTGGTAATTATTTAGAAAAGG
Found at i:16887515 original size:24 final size:24
Alignment explanation
Indices: 16887483--16887551 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
16887473 ATAGTTTATT
*
16887483 TGATTTTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * *
16887507 TGATATTTGACCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
16887531 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
16887552 TTTTGTACTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:16887806 original size:2 final size:2
Alignment explanation
Indices: 16887799--16887830 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16887789 TATTCATAAA
16887799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16887831 GTTTGATAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16888345 original size:45 final size:47
Alignment explanation
Indices: 16888251--16888345 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 47
16888241 AGCTACTCGA
* * * *
16888251 AAAAAAATATTATATTATAATTTTAGATTTTTTAAAATTACATTATT
1 AAAAAAATATTATATGATAATTATAGAATTTTTAAAAATACATTATT
* * *
16888298 AAAAATATATTAT-TGATAATTATA-AATTTTTAAAAATATATTTTT
1 AAAAAAATATTATATGATAATTATAGAATTTTTAAAAATACATTATT
16888343 AAA
1 AAA
16888346 TGAATATAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 20 0.49
46 9 0.22
47 12 0.29
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (47 bp):
AAAAAAATATTATATGATAATTATAGAATTTTTAAAAATACATTATT
Found at i:16888353 original size:16 final size:14
Alignment explanation
Indices: 16888279--16888345 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
16888269 AATTTTAGAT
* *
16888279 TTTTTAAAATTACA
1 TTTTTAAAAATATA
*
16888293 TTATTAAAAATATA
1 TTTTTAAAAATATA
** *
16888307 TTATTGATAATTATAAA
1 TT-TT--TAAAAATATA
16888324 TTTTTAAAAATATA
1 TTTTTAAAAATATA
16888338 TTTTTAAA
1 TTTTTAAA
16888346 TGAATATAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
14 28 0.70
15 1 0.03
16 2 0.05
17 9 0.22
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (14 bp):
TTTTTAAAAATATA
Found at i:16890181 original size:29 final size:28
Alignment explanation
Indices: 16890094--16890182 Score: 88
Period size: 31 Copynumber: 3.0 Consensus size: 28
16890084 TTTTTCATCC
* * *
16890094 AAGTATCTAAAATATTTTTTGTCAAAGT
1 AAGTAACTAAAATATTTTTGGTCAAAAT
* *
16890122 AAGTAATTAAACTTATCCTTTTGGTCAAAAT
1 AAGTAACTAAA-ATAT--TTTTGGTCAAAAT
*
16890153 AAGTACCTAAAATATTTGTTGGTCAAAAT
1 AAGTAACTAAAATATTT-TTGGTCAAAAT
16890182 A
1 A
16890183 GGCACTTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
28 11 0.22
29 15 0.31
30 3 0.06
31 20 0.41
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (28 bp):
AAGTAACTAAAATATTTTTGGTCAAAAT
Found at i:16890198 original size:29 final size:29
Alignment explanation
Indices: 16890142--16890198 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
16890132 ACTTATCCTT
* *
16890142 TTGGTCAAAATAAGTACCTAAAATATTTG
1 TTGGTCAAAATAAGCACCTAAAACATTTG
* * *
16890171 TTGGTCAAAATAGGCACTTAAAGCATTT
1 TTGGTCAAAATAAGCACCTAAAACATTT
16890199 AATCTTTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (29 bp):
TTGGTCAAAATAAGCACCTAAAACATTTG
Found at i:16893454 original size:3 final size:3
Alignment explanation
Indices: 16893446--16893501 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
16893436 ATAATATTTT
16893446 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16893494 ATA ATA AT
1 ATA ATA AT
16893502 TAATGGTTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16894894 original size:24 final size:24
Alignment explanation
Indices: 16894834--16894906 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
16894824 ACAAACGGAT
* * *
16894834 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAATAGAATCC
* * *
16894858 AGATAAGATATCAGAATAGAATCC
1 ATATCAGAAATCAGAATAGAATCC
16894882 ATATCAGAAATCAGAATAGAATCC
1 ATATCAGAAATCAGAATAGAATCC
16894906 A
1 A
16894907 GGTCAGGTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAATAGAATCC
Found at i:16894912 original size:24 final size:24
Alignment explanation
Indices: 16894836--16894921 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 24
16894826 AAACGGATAT
* * *
16894836 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAATAGAATCCAG
* * *
16894860 ATAAGATATCAGAATAGAATCCAT
1 ATCAGAAATCAGAATAGAATCCAG
16894884 ATCAGAAATCAGAATAGAATCCAG
1 ATCAGAAATCAGAATAGAATCCAG
* **
16894908 GTCAGGTATCAGAA
1 ATCAGAAATCAGAA
16894922 CATAATTCAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAGAATAGAATCCAG
Found at i:16895311 original size:12 final size:12
Alignment explanation
Indices: 16895294--16895323 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
16895284 TTGTCCATAG
16895294 ATCATCTTCGGA
1 ATCATCTTCGGA
16895306 ATCATCTTCGGA
1 ATCATCTTCGGA
16895318 ATCATC
1 ATCATC
16895324 ACTGAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (12 bp):
ATCATCTTCGGA
Found at i:16897100 original size:13 final size:14
Alignment explanation
Indices: 16897081--16897113 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16897071 TCAAAGTCAA
16897081 CGAGTTGACCCAGT
1 CGAGTTGACCCAGT
*
16897095 -GAGTTGACTCAGT
1 CGAGTTGACCCAGT
16897108 CGAGTT
1 CGAGTT
16897114 AACACAACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (14 bp):
CGAGTTGACCCAGT
Found at i:16902954 original size:19 final size:20
Alignment explanation
Indices: 16902930--16902972 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16902920 AGCATTTATC
*
16902930 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
16902949 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
16902969 TTCA
1 TTCA
16902973 AAGGGGTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:16903500 original size:15 final size:15
Alignment explanation
Indices: 16903480--16903525 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
16903470 TTTGATATCA
16903480 TTTCTTTCCATTTCC
1 TTTCTTTCCATTTCC
16903495 TTTCTTAT-CATTTCC
1 TTTCTT-TCCATTTCC
16903510 TTTCTTCTTCCATTTC
1 TTTC-T-TTCCATTTC
16903526 TTATTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 17 0.63
16 3 0.11
17 7 0.26
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTCTTTCCATTTCC
Found at i:16905844 original size:23 final size:23
Alignment explanation
Indices: 16905818--16905869 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
16905808 AAAAACGATT
16905818 AATAAAC-ATAAT-TAAAATACTAA
1 AATAAACAATAATATAAAA-A-TAA
16905841 AAT-AACAATAATAATAAAAATAA
1 AATAAACAATAAT-ATAAAAATAA
16905864 AATAAA
1 AATAAA
16905870 AACAGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
22 3 0.12
23 14 0.56
24 3 0.12
25 5 0.20
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (23 bp):
AATAAACAATAATATAAAAATAA
Found at i:16905862 original size:12 final size:11
Alignment explanation
Indices: 16905838--16905871 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16905828 ATTAAAATAC
*
16905838 TAAAATAACAA
1 TAAAATAAAAA
16905849 TAATAATAAAAA
1 TAA-AATAAAAA
16905861 TAAAATAAAAA
1 TAAAATAAAAA
16905872 CAGTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:16915280 original size:14 final size:14
Alignment explanation
Indices: 16915263--16915297 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16915253 TTTTTTGTCC
* *
16915263 TTTATTTTCAGTAT
1 TTTAATTTCAGTAA
16915277 TTTAATTTCAGTAA
1 TTTAATTTCAGTAA
16915291 TTTAATT
1 TTTAATT
16915298 ATTGCACTTT
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:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTAATTTCAGTAA
Found at i:16918026 original size:174 final size:174
Alignment explanation
Indices: 16917835--16920946 Score: 4456
Period size: 174 Copynumber: 17.8 Consensus size: 174
16917825 AATTTCTTAT
* * *
16917835 CATCTTTTTTCAAGAGAGAAAATAAAAGAAATATAAACCGATCAAAATTTAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * *
16917900 GATTTATCCATTAGTACATGTTATTGAAACTTACCCACTTTCTTTGGACAGTAGAGAATAAGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * **
16917965 TCGGTTTATAACATATTCTTTTCATGTTTTCTCTGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
*
16918009 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTTTAGACCGATCCAAATTTAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * *
16918074 GATTTATCCATTACTACATGTTACTCAAACTTACCAACTTTCTTTGGATAGTATAGAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * *
16918139 TTGGTTTATAACATATTCTTTTCCA-CCATTCTCTGTTTTCTGAC
131 TTGGTTTATAACAGATTCTTTT-CATGCATTCTCTGTTTCCTGAC
*
16918183 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGGTCCAAATTTAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * *
16918248 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTCGGACAGTAAAAAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * *
16918313 TTGGTTTATAACATATTCTTTTCTTGCATTCTCCGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * *
16918357 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAAACCGATCAAAATTTAAATTTGTAGCAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * * *
16918422 GATTTATCCATTAGTACATGCTATTGAAACTTACAAACTTTATTTGGATAGTAGATAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * *
16918487 TTGGTTTATAACAGATTCTTTTCTTGCAATCTTTGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
*
16918531 CATATTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* *
16918596 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * * *
16918661 TTGGTTTAGATCATATTCTTTTCATGCATTCTCCGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
16918705 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * * * **
16918770 GATTTATTCATTACTACATGTTATTCAAACTTACCAACTTTATTCGGATAGTAGAAAATTTGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * *
16918835 TTGGTTTATAACAGATTCTTTTCCTGCATTCTCTATTTCCTAAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * ** *
16918879 CATCTTTTTTCAAGAGAGAAAATAAAAGAAGAGAAAATAAAAGAATTATAAACCAATTAAAATTC
1 CATCTTTTTTC--------------AAG-AGAGAAAATAAAAGAATTATAGACCGATCCAAATTT
* * *
16918944 AAATTTGTAACAAAAGATTTACCCATTACTACATGTTATTGAAACGTACCAACTTTCTTCGGATA
51 AAATTTGTAACAAAAGATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATA
* * ** * * *
16919009 GTAAAAAATATTAATTTGGTTTATAACAGAATCTTTTCCTGCATTCTCTGTTTCCTAAC
116 GTAGAGAATAGGAATTTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * * * *
16919068 CATCATTTTTCAAGAGAGAAAATAAAAGAATTATAAACTGATCAAAATTCAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
*
16919133 GATTTATCCATTAGTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* *
16919198 TTGGTTTATAACAGATTCTTTTCATGCATTCTCCT-TTTACTTAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCT-CTGTTTCCTGAC
* * * * *
16919242 CATCTTTTTTGAAAAGAGAAAATAAAAGAATTTTAGACCGATCCAAATTTAAAATTGCAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * * *
16919307 TATTTATCCATTACTACATGTTACTCAAACTTACCAACTTTCTTTGGATAGTAAATAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * *
16919372 TTGGTTTATAACAGATTCTTTTCCTGCATACTCCGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * *
16919416 CATCTTTTTTCAAGAGAAAAAAATAAAAGAATTATAGACTGAACCAAATTTAAATTTGTAACAAA
1 CATCTTTTTTCAAGAG-AGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAA
* * * * *
16919481 AGATTTATCCATTAGTACTTGTTATTGAAACTTACCATCTTTCTTTTGATAGTAGAGAATATGAA
65 AGATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAA
* * * *
16919546 TTTGGTTTATAACAGATTCTTTTCCTGCATACTCCGTTTCCTAAC
130 TTTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
16919591 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * *
16919656 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTCGGACAGTAAAAAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * *
16919721 TTGGTTTGTAACAGATTCTTTTCTTGCATTCTCCGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * *
16919765 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAAACCGATCAAAATTCAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * **
16919830 GATTTATCCATTACTACATGTTATTGAAACGTACCAACTTTCTTCGGATAGTAGAAAATATTAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
*
16919895 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAT
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * *
16919939 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAAACCGATCAAAATTCAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* *
16920004 TATTTATCCATTAGTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
*
16920069 TTGGTTTATAACAGATTATTTTCATGCATTCTCTGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * *
16920113 CATCTTTTTTCAAAAGAGAAAATAAAAGAATTTTAGACCGATCCAAATTTAAAATTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * * *
16920178 GATTTATCCATTACTACATGTTACTCAAACTAACCAACTTTCTTTGGATAGTAAAGAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* * * * *
16920243 TTGGTTTATGACATATTCTTTTCCTGCATACTCCGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* ** *
16920287 AATCTTTTTTCAAGAGA-AAAA-AAAAGAATTATAGACCGAAGCAAATTTAAACTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* * *
16920350 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTCTCTTCGGATAGTAGAAAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* *
16920415 TTGGTTTATAACAGATTCTTTTCTTGCATTCTCCGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * *
16920459 CATCTTTTTTCAAGAGAGAAAATAAAATAATTATAAACCGATCAAAATTTAAATTTGTAACAAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
* *
16920524 GATTTATCCATTAGTACTTGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
66 GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
* *
16920589 TTGGTTTATAACATATTCTTTTCATGCATTCTCCGTTTCCTGAC
131 TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
* * * * *
16920633 CATCTTTTTTCAAGAGAGAAAATAAAAGTATTATAAACCGGTCAAAATTTAATTTTGGT-ACAAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTT-GTAACAAA
* * * * *
16920697 AGATTTATCCATTAGTACATGTTATTGAAACTTAGCAACTTTCTTTGGATAATACATAATAGGAA
65 AGATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAA
* *
16920762 TTTGGTTTATAACAGATTCTTTTCCTGCATACTCCT-TTTCCTGAC
130 TTTGGTTTATAACAGATTCTTTTCATGCATTCT-CTGTTTCCTGAC
*
16920807 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAACTTAAATTTGTATA-AAA
1 CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTA-ACAAA
* * * *
16920871 AGTTTTATCCATTACTATATGTTATTAAAACTTACCAACTTTCTTTGGATAATAGAGAATAGGAA
65 AGATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAA
*
16920936 TTTGATTTATA
130 TTTGGTTTATA
16920947 TTCATTAATT
Statistics
Matches: 2654, Mismatches: 258, Indels: 52
0.90 0.09 0.02
Matches are distributed among these distances:
172 152 0.06
173 12 0.00
174 2164 0.82
175 168 0.06
188 3 0.00
189 155 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (174 bp):
CATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAA
GATTTATCCATTACTACATGTTATTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAAT
TTGGTTTATAACAGATTCTTTTCATGCATTCTCTGTTTCCTGAC
Found at i:16918913 original size:15 final size:15
Alignment explanation
Indices: 16918893--16918923 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16918883 TTTTTTCAAG
16918893 AGAGAAAATAAAAGA
1 AGAGAAAATAAAAGA
16918908 AGAGAAAATAAAAGA
1 AGAGAAAATAAAAGA
16918923 A
1 A
16918924 TTATAAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (15 bp):
AGAGAAAATAAAAGA
Found at i:16919046 original size:189 final size:189
Alignment explanation
Indices: 16918719--16919097 Score: 616
Period size: 189 Copynumber: 2.0 Consensus size: 189
16918709 TTTTTTCAAG
* * * * **
16918719 AGAGAAAATAAAAGAATTATAGACCGATCCAAATTTAAATTTGTAACAAAAGATTTATTCATTAC
1 AGAGAAAATAAAAGAATTATAAACCAATCAAAATTCAAATTTGTAACAAAAGATTTACCCATTAC
* *
16918784 TACATGTTATTCAAACTTACCAACTTTATTCGGATAGTAGAAAATTTGAATTTGGTTTATAACAG
66 TACATGTTATTCAAACGTACCAACTTTATTCGGATAGTAAAAAATTTGAATTTGGTTTATAACAG
* *
16918849 ATTCTTTTCCTGCATTCTCTATTTCCTAACCATCTTTTTTCAAGAGAGAAAATAAAAGA
131 AATCTTTTCCTGCATTCTCTATTTCCTAACCATCATTTTTCAAGAGAGAAAATAAAAGA
*
16918908 AGAGAAAATAAAAGAATTATAAACCAATTAAAATTCAAATTTGTAACAAAAGATTTACCCATTAC
1 AGAGAAAATAAAAGAATTATAAACCAATCAAAATTCAAATTTGTAACAAAAGATTTACCCATTAC
* *
16918973 TACATGTTATTGAAACGTACCAACTTTCTTCGGATAGTAAAAAATATT-AATTTGGTTTATAACA
66 TACATGTTATTCAAACGTACCAACTTTATTCGGATAGTAAAAAAT-TTGAATTTGGTTTATAACA
*
16919037 GAATCTTTTCCTGCATTCTCTGTTTCCTAACCATCATTTTTCAAGAGAGAAAATAAAAGA
130 GAATCTTTTCCTGCATTCTCTATTTCCTAACCATCATTTTTCAAGAGAGAAAATAAAAGA
16919097 A
1 A
16919098 TTATAAACTG
Statistics
Matches: 175, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
189 173 0.99
190 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (189 bp):
AGAGAAAATAAAAGAATTATAAACCAATCAAAATTCAAATTTGTAACAAAAGATTTACCCATTAC
TACATGTTATTCAAACGTACCAACTTTATTCGGATAGTAAAAAATTTGAATTTGGTTTATAACAG
AATCTTTTCCTGCATTCTCTATTTCCTAACCATCATTTTTCAAGAGAGAAAATAAAAGA
Found at i:16920984 original size:22 final size:22
Alignment explanation
Indices: 16920940--16920985 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16920930 TAGGAATTTG
**
16920940 ATTTATATTCATTAATTTGTTA
1 ATTTATATTCATTAATTCATTA
**
16920962 ATTTATATTTTTTAATTCATTA
1 ATTTATATTCATTAATTCATTA
16920984 AT
1 AT
16920986 ATAAAATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTATATTCATTAATTCATTA
Found at i:16921528 original size:15 final size:15
Alignment explanation
Indices: 16921508--16921539 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16921498 CTAGTAACCT
16921508 TCATAAAACTCATCG
1 TCATAAAACTCATCG
16921523 TCATAAAACTCATCG
1 TCATAAAACTCATCG
16921538 TC
1 TC
16921540 TCTGTTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (15 bp):
TCATAAAACTCATCG
Found at i:16923975 original size:131 final size:131
Alignment explanation
Indices: 16923743--16924091 Score: 437
Period size: 131 Copynumber: 2.7 Consensus size: 131
16923733 GAGAAAATAG
** *
16923743 TAATATCTAATTATTTCCAATCGAGAATAAACAACCTCTCATACCTTAAAACAATCATTTATTAC
1 TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATTAC
* * * ** * * * *
16923808 TCTAATCGAAATGAAAAGATATCATTATTCTGTCTTAAAATTCAATATCGATCCGAGTGAAAATG
66 TCCAATCGAAATGAAAAGATATCAGTATGCCATCTTAAAAATCAATATCAATCCGAGAGAAAACG
16923873 A
131 A
* * * * * * **
16923874 TATTATCTAATAATTTCCAATTGAGAATAAATGACCTCTCATACCTTAAAGTAGTCATTTACTGT
1 TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATTAC
* * *
16923939 TCCAATCGAAATGAAGAGATATCAGTATGCCATCTTAAAAATCAATATTAATTCGAGAGAAAACG
66 TCCAATCGAAATGAAAAGATATCAGTATGCCATCTTAAAAATCAATATCAATCCGAGAGAAAACG
*
16924004 G
131 A
* * * *
16924005 TAATATCAAATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGCATTCATTTATTAC
1 TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATTAC
*
16924070 TCCAACCGAAATGAAAAGATAT
66 TCCAATCGAAATGAAAAGATAT
16924092 TATTATTCTC
Statistics
Matches: 181, Mismatches: 37, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
131 181 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (131 bp):
TAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATTAC
TCCAATCGAAATGAAAAGATATCAGTATGCCATCTTAAAAATCAATATCAATCCGAGAGAAAACG
A
Found at i:16926179 original size:3 final size:3
Alignment explanation
Indices: 16926152--16926195 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
16926142 ATTAGCCTAC
*
16926152 AAT AAA AAT AA- AAT -AT AAT -AT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16926196 CAGACAGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:16926708 original size:23 final size:23
Alignment explanation
Indices: 16926662--16926708 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
16926652 TCTAACGTTA
*
16926662 GTGAACATATTCGTTTATTATTC
1 GTGAACATATTCGTTTAATATTC
* *
16926685 GTGAACATTTTCGTTTAATGTTC
1 GTGAACATATTCGTTTAATATTC
16926708 G
1 G
16926709 GCAACCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (23 bp):
GTGAACATATTCGTTTAATATTC
Found at i:16927220 original size:21 final size:20
Alignment explanation
Indices: 16927196--16927234 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16927186 ATAATATCAA
*
16927196 TTCTTCACATCGACGAACAAG
1 TTCTCCACATCGA-GAACAAG
*
16927217 TTCTCCACATTGAGAACA
1 TTCTCCACATCGAGAACA
16927235 TATTTTATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCTCCACATCGAGAACAAG
Found at i:16943719 original size:16 final size:18
Alignment explanation
Indices: 16943679--16943719 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
16943669 TAATTAAAAC
16943679 AATAAAACAATAAATAAA
1 AATAAAACAATAAATAAA
* *
16943697 TAGAAAA-AA-AAATAAA
1 AATAAAACAATAAATAAA
16943713 AATAAAA
1 AATAAAA
16943720 TAAACCTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
16 12 0.63
17 2 0.11
18 5 0.26
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (18 bp):
AATAAAACAATAAATAAA
Found at i:16945508 original size:96 final size:97
Alignment explanation
Indices: 16945335--16945518 Score: 291
Period size: 96 Copynumber: 1.9 Consensus size: 97
16945325 AAAGTTCTTC
* *
16945335 TCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCGCATTATGAACTCTCTATCAGAAAT
1 TCATTATAAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCGCATTATGAACTCTCCATCAGAAAT
16945400 GTCAATCCCTCAAGCGAGGCGTTGTTGATAGG
66 GTCAATCCCTCAAGCGAGGCGTTGTTGATAGG
* **
16945432 TCATTATAAACTTCTTCTCCCT-TTATCGGATGAGTT-TTCTCATTATGAACTCTCCATTGGAAA
1 TCATTATAAACTTCTTCTCCCTCTT-TCGGATGAGTTCTTCGCATTATGAACTCTCCATCAGAAA
*
16945495 TGTCAATCCCTCAAGTGAGGCGTT
65 TGTCAATCCCTCAAGCGAGGCGTT
16945519 ACTGATTCGA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
96 48 0.60
97 32 0.40
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (97 bp):
TCATTATAAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCGCATTATGAACTCTCCATCAGAAAT
GTCAATCCCTCAAGCGAGGCGTTGTTGATAGG
Found at i:16945676 original size:136 final size:136
Alignment explanation
Indices: 16945432--16945905 Score: 704
Period size: 135 Copynumber: 3.5 Consensus size: 136
16945422 TGTTGATAGG
* * * *
16945432 TCATTATAAACTTCTTCTCCCTTTATCGGATGAGTT-TTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
* * *
16945496 GTCAATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
*
16945561 TTATTT
131 TTATTC
16945567 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
* * * *
16945632 GTTAATCCCTCAAGCGAGGCGTTGCTTATTCGAAGTTTTGTGAATCGAGCAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
16945697 -TACTTC
131 TTA-TTC
* * *
16945703 TCATTATGAACTTCTTCTCCCTTTGTCGAATGAGTTCTTCTCATTA-GAACTCTTAATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
* * *
16945767 GTTAATCCCTCAAGCGAGGTGTTTCTGATTCGAAGTGTTATGAATCGAACAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
*
16945832 TTCTTC
131 TTATTC
* * *
16945838 TCATTATGAACTT-TCTCTCCCTCTGTCGGATGAGCTCTTCTCATTATGAACTCTCTATTAGAAA
1 TCATTATGAACTTCT-TCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAA
16945902 TGTT
65 TGTT
16945906 GATCGGTTTA
Statistics
Matches: 306, Mismatches: 28, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
134 1 0.00
135 155 0.51
136 150 0.49
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (136 bp):
TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
TTATTC
Found at i:16945706 original size:232 final size:231
Alignment explanation
Indices: 16945268--16945714 Score: 524
Period size: 232 Copynumber: 1.9 Consensus size: 231
16945258 GGGAATGTTG
* * * * * * *
16945268 ATCCCTCAAGTGAGGTGTCGCTGATTCGAAGTGTTGTTAATTTAGCGATAGGTCGAAAAAGTTCT
1 ATCCCTCAAGTGAGGCGTCACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAAAAAGTTAT
* *
16945333 TCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCGCATTATGAACTCTCTATCAGAA
66 TCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCGCATTATGAACTCTCAATCAGAA
* *** ** ** * *
16945398 ATGTCAATCCCTCAAGCGAGGCGTTGTTGATAGGTCATTATAAACTTCTTCTCCCTTTATCGGAT
131 ATGTCAATCCCTCAAGCGAGGCGTTGTTGATAAGTCATTATAAAC-TCTGAGCAATAGATCGAAC
* *
16945463 GAGTTTTCTCATTATGAACTCTCCATTGGAAATGTCA
195 AAGTCTTCTCATTATGAACTCTCCATTGGAAATGTCA
* *
16945500 ATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAGTTAT
1 ATCCCTCAAGTGAGGCGTCACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAAAAAGTTAT
* * **
16945565 TTTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAA
66 TCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCGCATTATGAACTCTCAATCAGAA
* * * * *
16945630 ATGTTAATCCCTCAAGCGAGGCGTTGCTT-ATTCGAAGT-TTTGTGAA-TC-GAGCAATAGGTCG
131 ATGTCAATCCCTCAAGCGAGGCGTTG-TTGA-T--AAGTCATTATAAACTCTGAGCAATAGATCG
16945691 AACAAGTACTTCTCATTATGAACT
192 AACAAGT-CTTCTCATTATGAACT
16945715 TCTTCTCCCT
Statistics
Matches: 178, Mismatches: 32, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
231 9 0.05
232 158 0.89
233 3 0.02
234 5 0.03
235 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (231 bp):
ATCCCTCAAGTGAGGCGTCACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAAAAAGTTAT
TCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCGCATTATGAACTCTCAATCAGAA
ATGTCAATCCCTCAAGCGAGGCGTTGTTGATAAGTCATTATAAACTCTGAGCAATAGATCGAACA
AGTCTTCTCATTATGAACTCTCCATTGGAAATGTCA
Found at i:16947076 original size:27 final size:27
Alignment explanation
Indices: 16947052--16947117 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
16947042 TATTAAAAAC
16947052 AAAACTTGAAAATAAAAGAAAAAAATG
1 AAAACTTGAAAATAAAAGAAAAAAATG
16947079 AAAACTTGAAAATAAAAGAAAAAAATG
1 AAAACTTGAAAATAAAAGAAAAAAATG
16947106 AAAACTTGAAAA
1 AAAACTTGAAAA
16947118 AGTAAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.15
Consensus pattern (27 bp):
AAAACTTGAAAATAAAAGAAAAAAATG
Found at i:16949724 original size:12 final size:12
Alignment explanation
Indices: 16949704--16949736 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
16949694 TCGAAAAAAT
16949704 AAAAT-AAAACA
1 AAAATAAAAACA
16949715 AAAATAAAAACA
1 AAAATAAAAACA
16949727 AAAATAAAAA
1 AAAATAAAAA
16949737 TGTAATGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAATAAAAACA
Found at i:16954796 original size:21 final size:21
Alignment explanation
Indices: 16954772--16954821 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
16954762 ACCTAATTAA
16954772 AAAATAAAAC-A-ATAAATAAT
1 AAAATAAAACAACATAAA-AAT
*
16954792 CAAAAAAAAACAACATAAAAAT
1 -AAAATAAAACAACATAAAAAT
16954814 AAAATAAA
1 AAAATAAA
16954822 CCTAAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 16 0.64
22 4 0.16
23 5 0.20
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAATAAAACAACATAAAAAT
Found at i:16954809 original size:23 final size:22
Alignment explanation
Indices: 16954769--16954817 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
16954759 TAAACCTAAT
*
16954769 TAAAAAATAAAACAATAAATAA
1 TAAAAAAAAAAACAATAAATAA
16954791 TCAAAAAAAAACAAC-ATAAA-AA
1 T-AAAAAAAAA-AACAATAAATAA
16954813 TAAAA
1 TAAAA
16954818 TAAACCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 13 0.54
24 3 0.12
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (22 bp):
TAAAAAAAAAAACAATAAATAA
Found at i:16959204 original size:33 final size:33
Alignment explanation
Indices: 16959159--16959234 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
16959149 TATAATAGTC
*
16959159 ATAACCATAATAATAAATAAAATCATATGTTTA
1 ATAACCACAATAATAAATAAAATCATATGTTTA
16959192 ATAACCACAATAATAAATAAAATCATATGTTTA
1 ATAACCACAATAATAAATAAAATCATATGTTTA
16959225 ATAACCACAA
1 ATAACCACAA
16959235 GCATTAAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (33 bp):
ATAACCACAATAATAAATAAAATCATATGTTTA
Found at i:16963430 original size:360 final size:358
Alignment explanation
Indices: 16962730--16963447 Score: 1370
Period size: 360 Copynumber: 2.0 Consensus size: 358
16962720 TTTTCGTTAT
16962730 AGTCAAATTGAACATTGGGAGACAAAAATAGAAACGTAGTTAGAAATGGTTGTGAAAAAAAAGTT
1 AGTCAAATTGAACATTGGGAGACAAAAATAGAAACGTAGTTAGAAATGGTTGTGAAAAAAAAGTT
16962795 GAGTGACCAAAACAAAAACATGAGAATAGATGGGTGACAAATAATTAGTTAACCTAAAAATAATT
66 GAGTGACCAAAACAAAAACATGAGAATAGATGGGTGACAAATAATTAGTTAACCTAAAAATAATT
16962860 AAGTCCTCAAATTTTATAGAAAATCATTTAAATTTTATGCCATATCATCATTCACATGTTATCTG
131 AAGTCCTCAAATTTTATAGAAAATCATTTAAATTTTATGCCATATCATCATTCACATGTTATCTG
16962925 TTTCTTTGAAAGCTCTAAGAAGATTAATACCAATAATCAAAACAGAAAATGAGAATAGATGGTTT
196 TTTCTTTGAAAGCTCTAAGAAGATTAATACCAATAATCAAAACAGAAAATGAGAATAGATGGTTT
16962990 TGACTGGACCGGTTCGATTTAGCTGGATCGGTTTCAGAAGCTTCCTGGAGCGGCGGACAAATCTC
261 TGACTGGACCGGTTCGATTTAGCTGGATCGGTTTCAGAAGCTTCCTGGAGCGGCGGACAAATCTC
16963055 ACGCGCACTATAGGCGAGTGACGGCTTTGTACGG
326 ACGCGCACTATAGGCGAGTGACGGCTTT-TACGG
16963089 AGTC-AATTGAACATTGGGAGACAAAAATAGAAACGTAGTATTAGAAATGGTTGTGAAAAAAAAG
1 AGTCAAATTGAACATTGGGAGACAAAAATAGAAACGTAG--TTAGAAATGGTTGTGAAAAAAAAG
16963153 TTGAGTGACCAAAACAAAAACATGAGAATAGATGGGTGACAAATAATTAGTTTAACCTAAAAATA
64 TTGAGTGACCAAAACAAAAACATGAGAATAGATGGGTGACAAATAATTAG-TTAACCTAAAAATA
16963218 ATTAAGTCCTCAAATTTTATAGAAAATCATTTAAATTTTATGCCATATCATCATTCACATGTTAT
128 ATTAAGTCCTCAAATTTTATAGAAAATCATTTAAATTTTATGCCATATCATCATTCACATGTTAT
16963283 CTGTTT-TCTTGAAAGCTCTAAGAAGATTAATACCAATAATCAAAACAGAAAATGAGAATAGATG
193 CTGTTTCT-TTGAAAGCTCTAAGAAGATTAATACCAATAATCAAAACAGAAAATGAGAATAGATG
16963347 G-TTTGACTGGACCGGTTCGATTTAGCTGGATCGGTTTCAGAAGCTTCCTGGAGCGGCGGACAAA
257 GTTTTGACTGGACCGGTTCGATTTAGCTGGATCGGTTTCAGAAGCTTCCTGGAGCGGCGGACAAA
16963411 TCTCACGCGCACTATAGGCGAGTGACGGCTTTTACGG
322 TCTCACGCGCACTATAGGCGAGTGACGGCTTTTACGG
16963448 CGGCAACAAG
Statistics
Matches: 355, Mismatches: 0, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
358 34 0.10
359 9 0.03
360 170 0.48
361 142 0.40
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (358 bp):
AGTCAAATTGAACATTGGGAGACAAAAATAGAAACGTAGTTAGAAATGGTTGTGAAAAAAAAGTT
GAGTGACCAAAACAAAAACATGAGAATAGATGGGTGACAAATAATTAGTTAACCTAAAAATAATT
AAGTCCTCAAATTTTATAGAAAATCATTTAAATTTTATGCCATATCATCATTCACATGTTATCTG
TTTCTTTGAAAGCTCTAAGAAGATTAATACCAATAATCAAAACAGAAAATGAGAATAGATGGTTT
TGACTGGACCGGTTCGATTTAGCTGGATCGGTTTCAGAAGCTTCCTGGAGCGGCGGACAAATCTC
ACGCGCACTATAGGCGAGTGACGGCTTTTACGG
Found at i:16965283 original size:174 final size:174
Alignment explanation
Indices: 16964994--16966426 Score: 2226
Period size: 174 Copynumber: 8.3 Consensus size: 174
16964984 AATTCCGTCT
* * *
16964994 CAAAAGA-TTATCTATTTCTACATG-TACTTAAACTTACTAA-TTT-TTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
16965055 GGAATT-GGATTATAACATATTCTTTTCCTGCATTGTCCATTTCTTGACCATCTATTTATAAAAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
16965119 ATAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTCGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
16965163 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * * * *
16965228 GGAATTGGATTTATAACAGATTCTTTTTCTGCATTATCTATTTCCTGATCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
16965293 ATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* * *
16965339 CAAAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAACA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
16965404 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATGTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
16965469 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
16965513 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTGCCAACTTTCTTCGGATGGTAAAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
16965578 GGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
16965643 ATAAAATAAAAGAGTTATAGACCGATCAAAATTTAAATTTATAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
16965687 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
16965752 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
16965817 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
16965861 CAAAAGATTTTTCCATTTCTACATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
16965926 GGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
16965991 ATAAAATAAAAGAATTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* * * *
16966035 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
16966100 GGAATTGGGTTTATAACATATTCTTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* *
16966164 GATAAAATAAAATAATTATAGACCGATCAAAATTTAAATTTGTAG
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
16966209 C--AATATTTATCCATTTCTACATGTTACTGAAACTTATCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * * *
16966272 GGAATTGGGTTTATAACATATTCTTTTCATGTATTATCCATTTCATGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
16966337 ATAAAATAAAATAATTATAGATCGATCAAAATTT-AATTTCTTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT-GTAA
* *
16966381 CAGAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCT
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCT
16966427 GAAACTTTTC
Statistics
Matches: 1166, Mismatches: 83, Indels: 27
0.91 0.07 0.02
Matches are distributed among these distances:
169 7 0.01
170 16 0.01
171 20 0.02
172 171 0.15
173 42 0.04
174 750 0.64
175 1 0.00
176 141 0.12
177 18 0.02
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (174 bp):
CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
Found at i:16967707 original size:22 final size:22
Alignment explanation
Indices: 16967679--16967724 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16967669 TTAAATTAAT
16967679 ATTTATATTCATT-AATTTGTTA
1 ATTTATATT-ATTAAATTTGTTA
*
16967701 ATTTATATTTTTAAATTTGTTA
1 ATTTATATTATTAAATTTGTTA
16967723 AT
1 AT
16967725 ATGAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
ATTTATATTATTAAATTTGTTA
Found at i:16968400 original size:57 final size:56
Alignment explanation
Indices: 16968338--16968623 Score: 206
Period size: 58 Copynumber: 5.1 Consensus size: 56
16968328 CCCAAACGAC
16968338 ATGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
1 ATGAT-TTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * * *
16968395 ATGATGATTTCCAATGAATTTTTATAATAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
1 ATGAT-TTTTCAAAAGAATTTTTA-AAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * ** * *
16968453 AT-A-TTTTCAAATG-A-TTTTATAGAAACTAAGTCTGATTTTCAAAGGATTCATG
1 ATGATTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * * * * *
16968505 ATGATTATTTCCAAATAATTTTTAAAGAAGCAAAACCTAATTTTTAGGGGATTCTTT
1 ATGATT-TTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * * *
16968562 ATGATAATTGT-AAACGATATATTTT-AAGAAACTAAGCTTGATTTTCAAGGGTTTCTTA
1 ATGAT--TTTTCAAAAGA-AT-TTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
16968620 ATGA
1 ATGA
16968624 GTAAGTCCTT
Statistics
Matches: 174, Mismatches: 45, Indels: 19
0.73 0.19 0.08
Matches are distributed among these distances:
52 25 0.14
53 6 0.03
54 2 0.01
55 14 0.08
56 1 0.01
57 57 0.33
58 64 0.37
59 5 0.03
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (56 bp):
ATGATTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
Found at i:16968691 original size:42 final size:41
Alignment explanation
Indices: 16968620--16968730 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 41
16968610 GGGTTTCTTA
* *
16968620 ATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
1 ATGA-TAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAG
* *
16968662 ATGCTTAAATCCTTCGGGTCATCTA-TAAGTCTTTCGAGCAAG
1 ATG-ATAAATCCTTCGGGCCATC-AGTAAGTCTTTCGAGCAAG
* *
16968704 ATGATAAGTCCTTCGGACCATCA-TAAG
1 ATGATAAATCCTTCGGGCCATCAGTAAG
16968731 ACCTTCAGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 5 0.08
41 15 0.25
42 38 0.64
43 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (41 bp):
ATGATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAG
Done.