Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 49 of 145
Found at i:15944228 original size:17 final size:18
Alignment explanation
Indices: 15944206--15944239 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15944196 ATAATTGTAA
15944206 TTTAAAT-TCTAATTATT
1 TTTAAATATCTAATTATT
*
15944223 TTTAAATATGTAATTAT
1 TTTAAATATCTAATTAT
15944240 CACAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATATCTAATTATT
Found at i:15951276 original size:41 final size:41
Alignment explanation
Indices: 15951167--15951311 Score: 134
Period size: 41 Copynumber: 3.6 Consensus size: 41
15951157 ATAATAATGA
* * * *
15951167 TGAAC-TGCAAATACGTACCCCTCTTTGTACTTCGGTACCC
1 TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACCC
* * * * * *
15951207 TTGAAATAG-GCATACGTGCCTCTGTTTGTACTTCGGTACCTC
1 -TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACC-C
* *
15951249 TGAA-TTGCACATATATGCCCCTATTTGTACTTCGGTGCCC
1 TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACCC
*
15951289 TTAACTTGCACATACATGCCCCT
1 TGAACTTGCACATACATGCCCCT
15951312 GTTTAGACTT
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 6 0.07
41 76 0.90
42 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (41 bp):
TGAACTTGCACATACATGCCCCTATTTGTACTTCGGTACCC
Found at i:15956290 original size:13 final size:13
Alignment explanation
Indices: 15956274--15956299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15956264 TTAATTCACA
15956274 TATTTTCACGCCT
1 TATTTTCACGCCT
15956287 TATTTTCACGCCT
1 TATTTTCACGCCT
15956300 ACAGTAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
TATTTTCACGCCT
Found at i:15965230 original size:25 final size:25
Alignment explanation
Indices: 15965197--15965247 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15965187 TCATATATCT
15965197 TCTTACTATATCAATATCCATTTCA
1 TCTTACTATATCAATATCCATTTCA
15965222 TCTTACTATATCAATATCCATTTCA
1 TCTTACTATATCAATATCCATTTCA
15965247 T
1 T
15965248 GCATTTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (25 bp):
TCTTACTATATCAATATCCATTTCA
Found at i:15965642 original size:21 final size:23
Alignment explanation
Indices: 15965616--15965673 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
15965606 GCCAGAAGCA
*
15965616 ACACACGAAA-TGCCTGAAATTCG
1 ACACA-GAAAGTGCCTGAAATACG
*
15965639 ACACATAAAGTGCCTGAAATACG
1 ACACAGAAAGTGCCTGAAATACG
*
15965662 ACACATAAAGTG
1 ACACAGAAAGTG
15965674 TCTTCTCAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (23 bp):
ACACAGAAAGTGCCTGAAATACG
Found at i:15965652 original size:23 final size:23
Alignment explanation
Indices: 15965626--15965673 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
15965616 ACACACGAAA
*
15965626 TGCCTGAAATTCGACACATAAAG
1 TGCCTGAAATACGACACATAAAG
15965649 TGCCTGAAATACGACACATAAAG
1 TGCCTGAAATACGACACATAAAG
15965672 TG
1 TG
15965674 TCTTCTCAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (23 bp):
TGCCTGAAATACGACACATAAAG
Found at i:15966201 original size:11 final size:11
Alignment explanation
Indices: 15966185--15966209 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15966175 TTAAATTTTC
15966185 CTATTCAATTT
1 CTATTCAATTT
15966196 CTATTCAATTT
1 CTATTCAATTT
15966207 CTA
1 CTA
15966210 CCGTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:15970591 original size:23 final size:25
Alignment explanation
Indices: 15970556--15970619 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
15970546 TTTTTTTTTG
15970556 TATTTTCAATTTATTAGAAAAA-AT-
1 TATTTT-AATTTATTAGAAAAACATC
15970580 TATTTTAATTTATT-GAAAAACATC
1 TATTTTAATTTATTAGAAAAACATC
* *
15970604 TACTTTAATTTTTTAG
1 TATTTTAATTTATTAG
15970620 TATATTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 18 0.51
25 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (25 bp):
TATTTTAATTTATTAGAAAAACATC
Found at i:15974432 original size:6 final size:6
Alignment explanation
Indices: 15974421--15974508 Score: 176
Period size: 6 Copynumber: 14.7 Consensus size: 6
15974411 ACTCATATCA
15974421 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
15974469 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
15974509 CAATAATAAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.16, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTCAT
Found at i:15977107 original size:20 final size:22
Alignment explanation
Indices: 15977082--15977124 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15977072 TCAATGATTT
15977082 TGTTAAC-A-GAATATATTTAG
1 TGTTAACTATGAATATATTTAG
*
15977102 TGTTAACTATGAATTTATTTAG
1 TGTTAACTATGAATATATTTAG
15977124 T
1 T
15977125 TTTGTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (22 bp):
TGTTAACTATGAATATATTTAG
Found at i:15985315 original size:29 final size:29
Alignment explanation
Indices: 15985245--15985316 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
15985235 ATGTTTAAAT
*
15985245 TAAGATTGAAATTTTTTTATAATAGTATTAG
1 TAAGATT-AAATTTTTCTATAATAG-ATTAG
*
15985276 TAAGTTTAAATTGTTTCTATCAATAG-TTAG
1 TAAGATTAAATT-TTTCTAT-AATAGATTAG
15985306 -AAGATTAAATT
1 TAAGATTAAATT
15985317 AAGTGAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 10 0.28
30 9 0.25
31 12 0.33
32 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (29 bp):
TAAGATTAAATTTTTCTATAATAGATTAG
Found at i:15988965 original size:23 final size:23
Alignment explanation
Indices: 15988939--15988985 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15988929 TAAATTAGTC
*
15988939 TTTTTATTAATATATGAATTTTA
1 TTTTTATTAATATATGAATATTA
*
15988962 TTTTTGTTAATATATGAATATTA
1 TTTTTATTAATATATGAATATTA
15988985 T
1 T
15988986 GTTTGGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTTTATTAATATATGAATATTA
Found at i:15988990 original size:23 final size:23
Alignment explanation
Indices: 15988945--15988990 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15988935 AGTCTTTTTA
* *
15988945 TTAATATATGAATTTTATTTTTG
1 TTAATATATGAATATTATGTTTG
15988968 TTAATATATGAATATTATGTTTG
1 TTAATATATGAATATTATGTTTG
15988991 GATATTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (23 bp):
TTAATATATGAATATTATGTTTG
Found at i:15989328 original size:16 final size:16
Alignment explanation
Indices: 15989307--15989361 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
15989297 CAAGAATATT
*
15989307 ATTACAGTTCTATTTC
1 ATTACAGCTCTATTTC
15989323 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
*
15989338 AATTACAGCTCTATTCC
1 -ATTACAGCTCTATTTC
15989355 ATTACAG
1 ATTACAG
15989362 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 3 0.09
16 30 0.86
17 2 0.06
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:15998399 original size:5 final size:6
Alignment explanation
Indices: 15998381--15998409 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15998371 AATAGATGGA
15998381 GGAGGG GGAGGG GGAGGG GGAGGG GGAGG
1 GGAGGG GGAGGG GGAGGG GGAGGG GGAGG
15998410 AACCGCAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.83, T:0.00
Consensus pattern (6 bp):
GGAGGG
Found at i:16019201 original size:19 final size:19
Alignment explanation
Indices: 16019163--16019202 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16019153 CAATTTTCAT
* *
16019163 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGACTTG
*
16019182 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTGACTTG
16019201 AT
1 AT
16019203 CAAAATCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:16020988 original size:18 final size:19
Alignment explanation
Indices: 16020962--16020999 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16020952 GAAATGGCAA
*
16020962 AGATGAGAAATG-AATATG
1 AGATAAGAAATGAAATATG
16020980 AGATAAGAAATGAAATATG
1 AGATAAGAAATGAAATATG
16020999 A
1 A
16021000 AATGATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (19 bp):
AGATAAGAAATGAAATATG
Found at i:16021009 original size:19 final size:19
Alignment explanation
Indices: 16020964--16021031 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
16020954 AATGGCAAAG
*
16020964 ATGAGAAATG-AATATGAG
1 ATGAGAAATGAAATATGAA
*
16020982 ATAAGAAATGAAATATGAA
1 ATGAGAAATGAAATATGAA
* * *
16021001 ATGATAAATGAGATGTGAA
1 ATGAGAAATGAAATATGAA
**
16021020 ATTTGAAATGAA
1 ATGAGAAATGAA
16021032 TTCAAGTATT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 9 0.23
19 30 0.77
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAA
Found at i:16030617 original size:42 final size:42
Alignment explanation
Indices: 16030570--16030713 Score: 137
Period size: 45 Copynumber: 3.3 Consensus size: 42
16030560 GTGCCGATTT
16030570 TCATGCCATATAAATATAGGTACTATGTACCAGTGTTGGCTA
1 TCATGCCATATAAATATAGGTACTATGTACCAGTGTTGGCTA
* * * * *
16030612 TCATGCTATATGCATACA-ACAAGTACTATTTACCAGTGTTGGCTT
1 TCATGCCATAT--A-A-ATATAGGTACTATGTACCAGTGTTGGCTA
* * **
16030657 TCATGTCACATAAATACAATAGGTACTATGTACTGGTGTTGGCTA
1 TCATGCCATATAAAT---ATAGGTACTATGTACCAGTGTTGGCTA
16030702 TCATGCCATATA
1 TCATGCCATATA
16030714 CATACAACAG
Statistics
Matches: 78, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 11 0.14
43 1 0.01
44 1 0.01
45 63 0.81
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (42 bp):
TCATGCCATATAAATATAGGTACTATGTACCAGTGTTGGCTA
Found at i:16030646 original size:45 final size:45
Alignment explanation
Indices: 16030587--16030742 Score: 188
Period size: 45 Copynumber: 3.5 Consensus size: 45
16030577 ATATAAATAT
*
16030587 AGGTACTATGTACCAGTGTTGGCTATCATGCTATATGCATACAAC
1 AGGTACTATGTACCAGTGTTGGCTATCATGCTATATACATACAAC
* * * * * *
16030632 AAGTACTATTTACCAGTGTTGGCTTTCATG-TCACATAAATACAAT
1 AGGTACTATGTACCAGTGTTGGCTATCATGCT-ATATACATACAAC
** *
16030677 AGGTACTATGTACTGGTGTTGGCTATCATGCCATATACATACAAC
1 AGGTACTATGTACCAGTGTTGGCTATCATGCTATATACATACAAC
* *
16030722 AGGTACTATGTATCGGTGTTG
1 AGGTACTATGTACCAGTGTTG
16030743 ATTTTCTTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 90 0.99
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (45 bp):
AGGTACTATGTACCAGTGTTGGCTATCATGCTATATACATACAAC
Found at i:16032719 original size:91 final size:91
Alignment explanation
Indices: 16032557--16032722 Score: 206
Period size: 91 Copynumber: 1.8 Consensus size: 91
16032547 TTAATAATCC
* * * * *
16032557 GCAAACACTAGTAGTTTATCCACAATTTTTACTAACAACTTTAATCTGCAAAAAAGTTGTGCATT
1 GCAAACACTAGTAGTTTATCCACAATTTATACTAACAAATTTAATCTACAAAAAAGTTATGCAAT
16032622 CACAAATACTAGTAGCGTATTAACCT
66 CACAAATACTAGTAGCGTATTAACCT
* * ** * *** *
16032648 GCAAACACTAGTGGTTTATCCATAATTTATACTGGCAAATTTTATCTACAAACCCGTTATGTAAT
1 GCAAACACTAGTAGTTTATCCACAATTTATACTAACAAATTTAATCTACAAAAAAGTTATGCAAT
16032713 CACAAATACT
66 CACAAATACT
16032723 GGCTGTGTAT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
91 61 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (91 bp):
GCAAACACTAGTAGTTTATCCACAATTTATACTAACAAATTTAATCTACAAAAAAGTTATGCAAT
CACAAATACTAGTAGCGTATTAACCT
Found at i:16033254 original size:9 final size:9
Alignment explanation
Indices: 16033237--16033282 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
16033227 TGAGTTTTCG
16033237 AATTCGAAT
1 AATTCGAAT
*
16033246 AACTCGAAT
1 AATTCGAAT
16033255 AATTCGAAT
1 AATTCGAAT
16033264 AATTCGAAT
1 AATTCGAAT
16033273 AATTCGAAT
1 AATTCGAAT
16033282 A
1 A
16033283 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16033359 original size:21 final size:21
Alignment explanation
Indices: 16033318--16033360 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16033308 ACCCCAAACT
* *
16033318 CTCAAACCATTTTACTTTTCC
1 CTCAAAACATTTTACTCTTCC
16033339 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACATTTTACT-CTTCC
16033360 C
1 C
16033361 ACTTCCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (21 bp):
CTCAAAACATTTTACTCTTCC
Found at i:16034668 original size:23 final size:23
Alignment explanation
Indices: 16034642--16034695 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
16034632 GATCATTAAC
*
16034642 ATATTTATGAAAATATGTGTTTA
1 ATATTTATGAAAATATGTATTTA
** * *
16034665 ATATACATGAATATATTTATTTA
1 ATATTTATGAAAATATGTATTTA
*
16034688 ATGTTTAT
1 ATATTTAT
16034696 ACAAGTTTTC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (23 bp):
ATATTTATGAAAATATGTATTTA
Found at i:16034735 original size:42 final size:43
Alignment explanation
Indices: 16034678--16034762 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 43
16034668 TACATGAATA
*
16034678 TATTTATTTAATGTTT-ATACAAGTTTTCATTTAACTGAAACC
1 TATTTATTTAATGTTTAAAACAAGTTTTCATTTAACTGAAACC
*
16034720 TATTTATTTAATGTTTACAAACAAGTTTTCGTTTAACTGAAAC
1 TATTTATTTAATGTTTA-AAACAAGTTTTCATTTAACTGAAAC
16034763 AAATGGGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 16 0.41
44 23 0.59
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (43 bp):
TATTTATTTAATGTTTAAAACAAGTTTTCATTTAACTGAAACC
Found at i:16053661 original size:23 final size:25
Alignment explanation
Indices: 16053616--16053670 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 25
16053606 AACCACCAAG
16053616 TAAATTTAAGAAAACAATGAAAATAAA
1 TAAATTTAAG-AAACAA-GAAAATAAA
16053643 TAAATTTAAG-AACAA-AAAATAAA
1 TAAATTTAAGAAACAAGAAAATAAA
16053666 TAAAT
1 TAAAT
16053671 AAACGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.46
25 5 0.18
27 10 0.36
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (25 bp):
TAAATTTAAGAAACAAGAAAATAAA
Found at i:16055150 original size:17 final size:17
Alignment explanation
Indices: 16055125--16055158 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16055115 TTTAAATACT
* *
16055125 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
16055142 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
16055159 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:16055189 original size:32 final size:31
Alignment explanation
Indices: 16055133--16055194 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
16055123 CTTTTTTAAA
*
16055133 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTAAAATAATTTTAAAATAC
16055164 TTTTTTTAATTTTTTAAAA-AATTTTAAAATA
1 TTTTTTTAA--TTTTAAAATAATTTTAAAATA
16055195 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 9 0.32
32 11 0.39
33 8 0.29
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATAATTTTAAAATAC
Found at i:16057019 original size:33 final size:33
Alignment explanation
Indices: 16056985--16057239 Score: 171
Period size: 33 Copynumber: 7.4 Consensus size: 33
16056975 GTGGATTCAA
*
16056985 CACTTAGCAACCACCAATGATTCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
16057018 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
16057051 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAA
1 CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAG
* *
16057093 CACTTAGCAACCACCAATAATTCAGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
16057126 GACTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
16057153 CACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
*
16057195 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
16057228 CACTTAGCAACC
1 CACTTAGCAACC
16057240 CCTTGGGGGA
Statistics
Matches: 173, Mismatches: 25, Indels: 48
0.70 0.10 0.20
Matches are distributed among these distances:
27 20 0.12
28 2 0.01
29 1 0.01
31 1 0.01
32 2 0.01
33 80 0.46
34 8 0.05
36 4 0.02
37 1 0.01
38 2 0.01
39 5 0.03
41 11 0.06
42 36 0.21
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:16057199 original size:102 final size:102
Alignment explanation
Indices: 16056981--16057271 Score: 413
Period size: 102 Copynumber: 2.8 Consensus size: 102
16056971 ATCGGTGGAT
* * *
16056981 TCAACACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCACCAATGAATCGGGGA
1 TCAACACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACC-CC--T---TGGGGGA
* * * *
16057046 ATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGA
60 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAA
* *
16057089 TCAACACTTAGCAACCACCAATAATTCAGGGAATCAGGACTTAGCAACCCCTTGGGGGAATCAGC
1 TCAACACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGC
16057154 ACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAA
66 ACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAA
*
16057191 TCAGCACTTAGCAACCACCAATGAA-TCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAG
1 TCAACACTTAGCAACCACCAAT-AATTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAG
*
16057255 CACTTAACAACCCCCTT
65 CACTTAGCAACCCCCTT
16057272 ATATTCAATG
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
102 119 0.70
103 2 0.01
105 1 0.01
107 2 0.01
108 45 0.27
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.20
Consensus pattern (102 bp):
TCAACACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGC
ACTTAGCAACCCCCTTCACATTTAAAATACGGTAGAA
Found at i:16058479 original size:25 final size:25
Alignment explanation
Indices: 16058445--16058500 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
16058435 CCTAAAACAA
16058445 CAAATATGTTTAAAATCAAAGAGAT
1 CAAATATGTTTAAAATCAAAGAGAT
16058470 CAAATATGTTTAAAATCAAAGAGAT
1 CAAATATGTTTAAAATCAAAGAGAT
*
16058495 TAAATA
1 CAAATA
16058501 GAAAATCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.29
Consensus pattern (25 bp):
CAAATATGTTTAAAATCAAAGAGAT
Found at i:16064898 original size:48 final size:48
Alignment explanation
Indices: 16064866--16064963 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
16064856 CTAATACATG
* *
16064866 ATGAAAATCATTATCATTAGCATCATTAACAAACCACAACCATAACAC
1 ATGAAAATCACTATCATTAGCATCATTAACAAACCACAACAATAACAC
*
16064914 ATGAAAATCACTATCATTAGCATCATTAACAAACCACAACCATAACAC
1 ATGAAAATCACTATCATTAGCATCATTAACAAACCACAACAATAACAC
16064962 AT
1 AT
16064964 CCATCATCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (48 bp):
ATGAAAATCACTATCATTAGCATCATTAACAAACCACAACAATAACAC
Found at i:16065816 original size:41 final size:44
Alignment explanation
Indices: 16065752--16065849 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 44
16065742 ATGCTATCTC
*
16065752 ATATCGATGCCACTATCCCAGACAAT-GTCTTACACG-AATCA-A-
1 ATAT-GATGCCAATATCCCAGAC-ATGGTCTTACACGTAATCACAT
* * *
16065794 ATATGATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATATGATGCCAATATCCCAGACATGGTCTTACACGTAATCACAT
16065838 ATATTGATGCCA
1 ATA-TGATGCCA
16065850 TCGTCCCAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
40 2 0.04
41 24 0.51
42 9 0.19
43 1 0.02
44 3 0.06
45 8 0.17
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (44 bp):
ATATGATGCCAATATCCCAGACATGGTCTTACACGTAATCACAT
Found at i:16076180 original size:25 final size:26
Alignment explanation
Indices: 16076138--16076189 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
16076128 AAGTTGTAAA
16076138 TAAAAAAATATCTCCAGA-AATTTTC
1 TAAAAAAATATCTCCAGATAATTTTC
* * *
16076163 TAAAATAATTTCTTCAGATAATTTTC
1 TAAAAAAATATCTCCAGATAATTTTC
16076189 T
1 T
16076190 CTATAGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (26 bp):
TAAAAAAATATCTCCAGATAATTTTC
Found at i:16076286 original size:96 final size:96
Alignment explanation
Indices: 16076171--16076356 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 96
16076161 TCTAAAATAA
* * * * * *
16076171 TTTCTTCAGATAATTTTCTCTATAGAACTTTTCTCTTGAATTCAAGTGTGT-GAAATAATGACCA
1 TTTCTTCAGATAATCTTCTCTATACAAC-ATTCTATTGAATTCAAATGTATAGAAATAATGACCA
16076235 AAAACTCTCTTTATATAGGGAAAGTTAAAGGC
65 AAAACTCTCTTTATATAGGGAAAGTTAAAGGC
* * *
16076267 TTTCTTCAGATAATCTTCTCTCTACAACATTCTATTGAATTCAAATGTATATAAATAATGACCTA
1 TTTCTTCAGATAATCTTCTCTATACAACATTCTATTGAATTCAAATGTATAGAAATAATGACCAA
* *
16076332 AGACTCTCTTTATATAGGGAGAGTT
66 AAACTCTCTTTATATAGGGAAAGTT
16076357 TAGAAAGTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 18 0.23
96 60 0.77
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (96 bp):
TTTCTTCAGATAATCTTCTCTATACAACATTCTATTGAATTCAAATGTATAGAAATAATGACCAA
AAACTCTCTTTATATAGGGAAAGTTAAAGGC
Found at i:16076480 original size:17 final size:17
Alignment explanation
Indices: 16076445--16076477 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16076435 TTAAGATAAG
*
16076445 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
16076462 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
16076478 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:16077747 original size:15 final size:15
Alignment explanation
Indices: 16077708--16077739 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16077698 TATTCATGCA
16077708 AAATATGAAAGACAT
1 AAATATGAAAGACAT
*
16077723 AAATACGAAAGACAT
1 AAATATGAAAGACAT
16077738 AA
1 AA
16077740 TAGTGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (15 bp):
AAATATGAAAGACAT
Found at i:16087481 original size:16 final size:16
Alignment explanation
Indices: 16087457--16087489 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16087447 TTGATTTGCT
16087457 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
16087473 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
16087489 A
1 A
16087490 ATACAGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:16088620 original size:6 final size:7
Alignment explanation
Indices: 16088603--16088628 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16088593 ATTTAAAATC
16088603 TTTTTTA
1 TTTTTTA
16088610 TTTTTTA
1 TTTTTTA
16088617 TTTTTTA
1 TTTTTTA
16088624 TTTTT
1 TTTTT
16088629 GAATTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:16088899 original size:18 final size:18
Alignment explanation
Indices: 16088870--16089278 Score: 575
Period size: 18 Copynumber: 22.7 Consensus size: 18
16088860 AAGATTACAC
16088870 AATTCGGGTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16088888 AATTTGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
*
16088906 AATTCGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16088924 AATTCGGGTAATTTGGTT
1 AATTCGGGTAATTCGGGT
*
16088942 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGT
16088960 AATTCGGGTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16088978 AATTTGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
*
16088996 AATTCGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16089014 AATTCGGGTAATTTGGTT
1 AATTCGGGTAATTCGGGT
*
16089032 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGT
16089050 AATTCGGGTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16089068 AATTTGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
*
16089086 AATTCGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16089104 AATTCGGGTAATTTGGTT
1 AATTCGGGTAATTCGGGT
*
16089122 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGT
16089140 AATTCGGGTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16089158 AATTTGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
*
16089176 AATTCGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16089194 AATTCGGGTAATTTGGTT
1 AATTCGGGTAATTCGGGT
*
16089212 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGT
16089230 AATTCGGGTAATTCGGGT
1 AATTCGGGTAATTCGGGT
* *
16089248 AATTTGGTTAATTCGGGT
1 AATTCGGGTAATTCGGGT
*
16089266 AATTCGGTTAATT
1 AATTCGGGTAATT
16089279 TTTAACCAAA
Statistics
Matches: 356, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 356 1.00
ACGTcount: A:0.22, C:0.09, G:0.29, T:0.40
Consensus pattern (18 bp):
AATTCGGGTAATTCGGGT
Found at i:16088934 original size:45 final size:45
Alignment explanation
Indices: 16088870--16089278 Score: 818
Period size: 45 Copynumber: 9.1 Consensus size: 45
16088860 AAGATTACAC
16088870 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16088915 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16088960 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16089005 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16089050 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16089095 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16089140 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16089185 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16089230 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
16089275 AATT
1 AATT
16089279 TTTAACCAAA
Statistics
Matches: 364, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 364 1.00
ACGTcount: A:0.22, C:0.09, G:0.29, T:0.40
Consensus pattern (45 bp):
AATTCGGGTAATTCGGGTAATTTGGTTAATTCGGGTAATTCGGTT
Found at i:16090957 original size:24 final size:24
Alignment explanation
Indices: 16090912--16090958 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16090902 CTGAGTGCTG
* *
16090912 AAGCTCCAACTTCTTTGTCACAAC
1 AAGCACCAACTTCTTTGACACAAC
16090936 AAGCACCAACTTCTGTT-ACACAA
1 AAGCACCAACTTCT-TTGACACAA
16090959 GGTATATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.26
Consensus pattern (24 bp):
AAGCACCAACTTCTTTGACACAAC
Found at i:16102157 original size:2 final size:2
Alignment explanation
Indices: 16102150--16102177 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16102140 AGGTAGATTC
16102150 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
16102178 GAGAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16105489 original size:6 final size:6
Alignment explanation
Indices: 16105459--16105500 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
16105449 AATTTCATCG
* *
16105459 AATTG- AATTGTA CATTGA AAGTGA AATTGA AATTGA AATTGA
1 AATTGA AATTG-A AATTGA AATTGA AATTGA AATTGA AATTGA
16105501 GAAAGTGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.33
Consensus pattern (6 bp):
AATTGA
Found at i:16105925 original size:23 final size:23
Alignment explanation
Indices: 16105899--16106076 Score: 138
Period size: 23 Copynumber: 8.1 Consensus size: 23
16105889 GGATTTGCTG
* *
16105899 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACCTTATGTGTCGTAT
* * *
16105922 ATCAGGAACTTTATATGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* **
16105945 TTCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACCTTATGTGTCGTAT
*
16105967 -TCAGGCA-CTTATGTGTTGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* *
16105988 ATCAAGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* * **
16106011 TTCAGACACCTCGTGTGTCG--T
1 ATCAGGCACCTTATGTGTCGTAT
**
16106032 ATCAGGCACCTCGTGTGTC--AT
1 ATCAGGCACCTTATGTGTCGTAT
*
16106053 TTCAGGCA-CTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
16106075 AT
1 AT
16106077 TGATCAGGTA
Statistics
Matches: 122, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
20 17 0.14
21 34 0.28
22 10 0.08
23 61 0.50
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTAT
Found at i:16105970 original size:21 final size:21
Alignment explanation
Indices: 16105944--16106061 Score: 103
Period size: 21 Copynumber: 5.5 Consensus size: 21
16105934 ATATGTCGTA
16105944 TTTCAGGCACCTCGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
** *
16105965 TTTCAGGCA-CTTATGTGTTG
1 TTTCAGGCACCTCGTGTGTCG
* * **
16105985 TATATCAAGCACTTTATGTGTCG
1 T-T-TCAGGCACCTCGTGTGTCG
*
16106008 TATTTCAGACACCTCGTGTGTCG
1 --TTTCAGGCACCTCGTGTGTCG
* *
16106031 TATCAGGCACCTCGTGTGTCA
1 TTTCAGGCACCTCGTGTGTCG
16106052 TTTCAGGCAC
1 TTTCAGGCAC
16106062 TTATGTGTCG
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
20 9 0.12
21 37 0.48
22 6 0.08
23 23 0.30
24 1 0.01
25 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (21 bp):
TTTCAGGCACCTCGTGTGTCG
Found at i:16106007 original size:66 final size:66
Alignment explanation
Indices: 16105899--16106074 Score: 223
Period size: 66 Copynumber: 2.7 Consensus size: 66
16105889 GGATTTGCTG
** * * *
16105899 ATCAGGCACTTTATGTGTCATATATCAGGAACTTTATATGTCGTATTTCAGGCACCTCGTGTGTC
1 ATCAGGCAC-TTATGTGTTGTATATCAGGCACTTTATGTGTCGTATTTCAGACACCTCGTGTGTC
16105964 GT
65 GT
* *
16105966 TTCAGGCACTTATGTGTTGTATATCAAGCACTTTATGTGTCGTATTTCAGACACCTCGTGTGTCG
1 ATCAGGCACTTATGTGTTGTATATCAGGCACTTTATGTGTCGTATTTCAGACACCTCGTGTGTCG
16106031 T
66 T
* * *
16106032 ATCAGGCACCT-CGTG-TGTCATTTCAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTATGTGTTGT-ATATCAGGCACTTTATGTGTCGTAT
16106075 ATTGATCAGG
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
64 16 0.17
65 12 0.12
66 60 0.62
67 8 0.08
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (66 bp):
ATCAGGCACTTATGTGTTGTATATCAGGCACTTTATGTGTCGTATTTCAGACACCTCGTGTGTCG
T
Found at i:16111049 original size:45 final size:45
Alignment explanation
Indices: 16110985--16111155 Score: 193
Period size: 45 Copynumber: 3.8 Consensus size: 45
16110975 TACTGAGTAT
* ***
16110985 CATTGATTATAAAGGTGGTTGCTATATGTTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATATGCTGATTCCACCGAAAAC
* * *
16111030 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCGAAAAT
1 CATTGATTATAAAGGTGGTTGCTATATGCTGATTCCACCGAAAAC
** * *
16111075 CATTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACCGAATAT
1 CATTGATTATAAAGGTGGTTGCTATATGCTGATTCCACCGAAAAC
* * * *
16111120 AATTAATTATAAGGGTGG-TGCTATGTGCTGA-TCCAC
1 CATTGATTATAAAGGTGGTTGCTATATGCTGATTCCAC
16111156 AGTGTAACGG
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 5 0.05
44 12 0.11
45 91 0.84
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATATGCTGATTCCACCGAAAAC
Found at i:16111137 original size:90 final size:88
Alignment explanation
Indices: 16110983--16111155 Score: 247
Period size: 90 Copynumber: 1.9 Consensus size: 88
16110973 TGTACTGAGT
** * ** * *
16110983 ATCATTGATTATAAAGGTGGTTGCTATATGTTGATTCCACCGGGTACCATTGATTATAAAGGTGG
1 ATCATTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACCGAATACAATTAATTATAAAGGTGG
16111048 TTGCTATGTGCTGACTCCACCGAAA
66 -TGCTATGTGCTGA-TCCACCGAAA
* *
16111073 ATCATTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACCGAATATAATTAATTATAAGGGTGG
1 ATCATTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACCGAATACAATTAATTATAAAGGTGG
16111138 TGCTATGTGCTGATCCAC
66 TGCTATGTGCTGATCCAC
16111156 AGTGTAACGG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 5 0.07
89 13 0.18
90 56 0.76
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (88 bp):
ATCATTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACCGAATACAATTAATTATAAAGGTGG
TGCTATGTGCTGATCCACCGAAA
Found at i:16115404 original size:18 final size:16
Alignment explanation
Indices: 16115367--16115425 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
16115357 ATTATCCAAC
*
16115367 ATGTAT-TAGAAT-AG
1 ATGTATCTAGTATAAG
*
16115381 ATGTATCTAGTTTAATG
1 ATGTATCTAGTATAA-G
*
16115398 AATGTATTTAG-ATAAG
1 -ATGTATCTAGTATAAG
16115414 ATGTATCTAGTA
1 ATGTATCTAGTA
16115426 GTCATGCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.17
15 13 0.37
16 3 0.09
17 4 0.11
18 9 0.26
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (16 bp):
ATGTATCTAGTATAAG
Found at i:16116323 original size:13 final size:13
Alignment explanation
Indices: 16116305--16116332 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16116295 ACAAAATTGG
16116305 AAAGATGAAAAAT
1 AAAGATGAAAAAT
16116318 AAAGATGAAAAAT
1 AAAGATGAAAAAT
16116331 AA
1 AA
16116333 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:16117414 original size:23 final size:25
Alignment explanation
Indices: 16117363--16117415 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
16117353 TCTTTGTAAG
* *
16117363 CTTCCTGATTAGTGGCTCTCCTGAG
1 CTTCCTGATTAGTGGCTCGCCTGAA
*
16117388 CTTCCTGA-TA-TGGCTCGCTTGAA
1 CTTCCTGATTAGTGGCTCGCCTGAA
16117411 CTTCC
1 CTTCC
16117416 CAATATATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.60
24 2 0.08
25 8 0.32
ACGTcount: A:0.13, C:0.30, G:0.21, T:0.36
Consensus pattern (25 bp):
CTTCCTGATTAGTGGCTCGCCTGAA
Found at i:16117571 original size:25 final size:25
Alignment explanation
Indices: 16117493--16117575 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
16117483 GCTTCCCGAT
* *
16117493 TATGGCTCTTATGAGCTTCCCGTTA
1 TATGGCTCATATGAGCTTCCTGTTA
* * *
16117518 TATAGCCCGA-ATAAGCTTCCTGTTA
1 TATGGCTC-ATATGAGCTTCCTGTTA
16117543 TATGGCTCATATGAGCTTCCTGTTA
1 TATGGCTCATATGAGCTTCCTGTTA
16117568 TATGGCTC
1 TATGGCTC
16117576 GAGAGAGAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
TATGGCTCATATGAGCTTCCTGTTA
Found at i:16127201 original size:32 final size:33
Alignment explanation
Indices: 16127160--16127225 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
16127150 TGTACTTATA
*
16127160 TTTAATGAATGTA-TTAGAGTAGATGCATCTAG
1 TTTAATGAATGTATTTAGAGAAGATGCATCTAG
*
16127192 TTTAATGAATGTATTTGGAGAAGATGCATCTAG
1 TTTAATGAATGTATTTAGAGAAGATGCATCTAG
16127225 T
1 T
16127226 AGTCATGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (33 bp):
TTTAATGAATGTATTTAGAGAAGATGCATCTAG
Found at i:16128831 original size:238 final size:236
Alignment explanation
Indices: 16128364--16128832 Score: 663
Period size: 238 Copynumber: 2.0 Consensus size: 236
16128354 TTTTAGGATA
* *
16128364 TGTTTTCTAAGAATTGACCTTTGAGGGCTATAGGCTCAATTGCCACTACTTAATATTCATATGAT
1 TGTTTTCTAAGAATTGACCTTTGAGGGCTATAGACTAAATTGCCACTACTTAATATTCATATGAT
* * * *
16128429 AAGGTCATCTTACTTAGATCCTTGGCCTCACTTTTGGTTTCAATATGTAAAGGTTGTTTCTTTGT
66 AAGATAATCTTAATTAGATCCTTGGCCTCACTTTTGGTTTCAATATGTAAAGGTTGTTCCTTTGT
* * * *
16128494 GTGTGTTTCATTTTAGTGAAATACCAAAAAAATTATACTAAAATGGATGTTCTCTCTTTTGTTAA
131 GTGTGTTTCATTGTAATGAAATACCAAAAAAATGATACTAAAATGGATGTTCTCTCTTTTGTGAA
**
16128559 AAATGCTGGAAAGATAGGTTTTGCTGCAAAAGAGATAATTT
196 AAATGCTGGAAAGATAGCATTTGCTGCAAAAGAGATAATTT
* * * * *
16128600 TGTTTTCTAAAGAATTGATCTTTGAGGGCTATA-ACTAAACTTTGTCAGTATTTAATATTTATAT
1 TGTTTTCT-AAGAATTGACCTTTGAGGGCTATAGACTAAA--TTGCCACTACTTAATATTCATAT
* *
16128664 GGTAAGATAATCTTAATTAGATCCTTGGCTTCA-TTCTTGGTTTCAATATGTAAAGGTTGTTCCT
63 GATAAGATAATCTTAATTAGATCCTTGGCCTCACTT-TTGGTTTCAATATGTAAAGGTTGTTCCT
* * * * *
16128728 TTGTGTGTGTTTCATTGTAATGAAATTCCAAGACAATGATACTAAAATGGTTGTTGTCTCTTTTG
127 TTGTGTGTGTTTCATTGTAATGAAATACCAAAAAAATGATACTAAAATGGATGTTCTCTCTTTTG
*
16128793 TGAAAAATGCTGGAAAGATCGCATTTGCTGCAAAAGAGAT
192 TGAAAAATGCTGGAAAGATAGCATTTGCTGCAAAAGAGAT
16128833 CGATGTGGGA
Statistics
Matches: 204, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
236 12 0.06
237 25 0.12
238 167 0.82
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (236 bp):
TGTTTTCTAAGAATTGACCTTTGAGGGCTATAGACTAAATTGCCACTACTTAATATTCATATGAT
AAGATAATCTTAATTAGATCCTTGGCCTCACTTTTGGTTTCAATATGTAAAGGTTGTTCCTTTGT
GTGTGTTTCATTGTAATGAAATACCAAAAAAATGATACTAAAATGGATGTTCTCTCTTTTGTGAA
AAATGCTGGAAAGATAGCATTTGCTGCAAAAGAGATAATTT
Found at i:16135639 original size:20 final size:20
Alignment explanation
Indices: 16135604--16135643 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16135594 ACCATCCTAT
*
16135604 TTTATTTATATATATTTAAAA
1 TTTAATTATATATA-TTAAAA
16135625 TTTAATTAT-TATATTAAAA
1 TTTAATTATATATATTAAAA
16135644 CATTGCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATTATATATATTAAAA
Found at i:16135898 original size:5 final size:5
Alignment explanation
Indices: 16135871--16135918 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
16135861 TAATAAACAC
* * * *
16135871 CAAACG CAAAG CAAAA CATAG CAAAG CATAG CATAG CAAAG CAAAG CA
1 CAAA-G CAAAG CAAAG CAAAG CAAAG CAAAG CAAAG CAAAG CAAAG CA
16135919 GGCTGGTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.54, C:0.23, G:0.17, T:0.06
Consensus pattern (5 bp):
CAAAG
Found at i:16135918 original size:15 final size:15
Alignment explanation
Indices: 16135876--16135918 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
16135866 AACACCAAAC
*
16135876 GCAAAGCAAAACATA
1 GCAAAGCAAAGCATA
*
16135891 GCAAAGCATAGCATA
1 GCAAAGCAAAGCATA
16135906 GCAAAGCAAAGCA
1 GCAAAGCAAAGCA
16135919 GGCTGGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (15 bp):
GCAAAGCAAAGCATA
Found at i:16137132 original size:24 final size:24
Alignment explanation
Indices: 16137102--16137163 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
16137092 TTTTTTCAAA
*
16137102 TTTCGAGTTCGAATTGAGTTGAGT
1 TTTCGAGTTCGAATCGAGTTGAGT
*
16137126 TTTCGAGTTCGAATCGATTTGAGT
1 TTTCGAGTTCGAATCGAGTTGAGT
*
16137150 TTTCGAATTCGAAT
1 TTTCGAGTTCGAAT
16137164 AACTTGAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.23, C:0.11, G:0.24, T:0.42
Consensus pattern (24 bp):
TTTCGAGTTCGAATCGAGTTGAGT
Found at i:16137948 original size:5 final size:5
Alignment explanation
Indices: 16137938--16137968 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
16137928 GAACAAATAT
16137938 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
16137969 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:16142071 original size:17 final size:18
Alignment explanation
Indices: 16142039--16142072 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16142029 AGAACTCGAA
*
16142039 TGATTTAAACTCAAAATC
1 TGATTCAAACTCAAAATC
16142057 TGATTCAAA-TCAAAAT
1 TGATTCAAACTCAAAAT
16142073 GGCCGAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (18 bp):
TGATTCAAACTCAAAATC
Found at i:16143334 original size:32 final size:33
Alignment explanation
Indices: 16143283--16143352 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
16143273 GTTAACAACA
*
16143283 AGTGATAAAATAAAG-AAAAATTCAAATAGTTG
1 AGTGATAAAATAAAGAAAAAAGTCAAATAGTTG
* *
16143315 GGTGATCAAA-AAAGAAAAAAAGTCAAATAGTTG
1 AGTGATAAAATAAAG-AAAAAAGTCAAATAGTTG
16143348 AGTGA
1 AGTGA
16143353 CCATTTTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 4 0.12
32 8 0.25
33 20 0.62
ACGTcount: A:0.54, C:0.04, G:0.20, T:0.21
Consensus pattern (33 bp):
AGTGATAAAATAAAGAAAAAAGTCAAATAGTTG
Found at i:16147086 original size:16 final size:16
Alignment explanation
Indices: 16147057--16147098 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
16147047 TTACTTTAAA
*
16147057 AACTC-AAATGATTTG
1 AACTCAAAATTATTTG
16147072 AACTCAAAATTATTTG
1 AACTCAAAATTATTTG
*
16147088 AATTCAAAATT
1 AACTCAAAATT
16147099 GATCCAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (16 bp):
AACTCAAAATTATTTG
Found at i:16153879 original size:17 final size:19
Alignment explanation
Indices: 16153857--16153896 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
16153847 AAAATTAACC
16153857 TTTTTTAT-ATTTTCAAT-
1 TTTTTTATAATTTTCAATA
16153874 TTTTTTATAATTTTCAATA
1 TTTTTTATAATTTTCAATA
16153893 TTTT
1 TTTT
16153897 AAATAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 9 0.43
19 4 0.19
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATAATTTTCAATA
Found at i:16153897 original size:17 final size:17
Alignment explanation
Indices: 16153859--16153897 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
16153849 AATTAACCTT
*
16153859 TTTTATATTTTCAATTT
1 TTTTATATTTTCAATTA
16153876 TTTTATAATTTTCAA-TA
1 TTTTAT-ATTTTCAATTA
16153893 TTTTA
1 TTTTA
16153898 AATAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATTTTCAATTA
Found at i:16176641 original size:17 final size:17
Alignment explanation
Indices: 16176578--16176641 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
16176568 AAATATTTAT
**
16176578 TTTTTA-ATTTATGATA
1 TTTTTATATTTAAAATA
*
16176594 TGTTTATATTTAAAAT-
1 TTTTTATATTTAAAATA
*
16176610 TTTAATT-TATATAAAATA
1 TTT--TTATATTTAAAATA
16176628 TTTTTATATTTAAA
1 TTTTTATATTTAAA
16176642 TTCAAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
16 9 0.24
17 23 0.62
18 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTTATATTTAAAATA
Found at i:16184094 original size:23 final size:24
Alignment explanation
Indices: 16184033--16184095 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
16184023 TCTACTGGTT
16184033 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
16184057 AGAC-AATCAA-TACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
16184079 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
16184096 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 7 0.21
23 16 0.47
24 7 0.21
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:16184196 original size:107 final size:106
Alignment explanation
Indices: 16184009--16184292 Score: 398
Period size: 107 Copynumber: 2.7 Consensus size: 106
16183999 ACAAATCAAG
** * *
16184009 TTCCAGTTTCATATTCTACTGGTTAACAAATCAAGAACAATTTCCAGCAGACAATCAATACAATT
1 TTCCAGTTTCAT-TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATT
*
16184074 TCCAGAACAAATCAAGAACAATATCAAAACAAATGCAACAAT
65 TCCAGAACAAATCAAGAACAATATCAAAACAAATGCAACAAC
* *
16184116 TTCCAGTTTCATCTTCTACTGACTAACAAATCAAGAATAATTTCCAGCAGACTATCAAAACAACT
1 TTCCAGTTTCAT-TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATT
* *
16184181 GCCAGAACAATTCAAGAACAATATCAAAACAAATGCAACAAC
65 TCCAGAACAAATCAAGAACAATATCAAAACAAATGCAACAAC
* * * *
16184223 TTCCA---TC-TTT-TACTCACTAACAAATCAATAACATTTTCCAGTAGACTATCAAAACAATTT
1 TTCCAGTTTCATTTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATTT
16184283 CCAGAACAAA
66 CCAGAACAAA
16184293 CCAACAAAAT
Statistics
Matches: 159, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
101 52 0.33
102 2 0.01
103 1 0.01
104 2 0.01
107 102 0.64
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.25
Consensus pattern (106 bp):
TTCCAGTTTCATTTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATTT
CCAGAACAAATCAAGAACAATATCAAAACAAATGCAACAAC
Found at i:16188172 original size:16 final size:16
Alignment explanation
Indices: 16188151--16188181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16188141 TTCACTATTA
*
16188151 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
16188167 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
16188182 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:16189835 original size:37 final size:39
Alignment explanation
Indices: 16189793--16189870 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 39
16189783 TTTAATAGTT
16189793 TAATATTAAATTAAATTAA-ATTAAA-T-ACTTATCTTAA
1 TAATATTAAATTAAATTAATATTAAAGTGAC-TATCTTAA
** *
16189830 TAATATTTTATTAACTTAATATTAAAGTGACTATCTTAA
1 TAATATTAAATTAAATTAATATTAAAGTGACTATCTTAA
16189869 TA
1 TA
16189871 TTAAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 16 0.46
38 6 0.17
39 11 0.31
40 2 0.06
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (39 bp):
TAATATTAAATTAAATTAATATTAAAGTGACTATCTTAA
Found at i:16192806 original size:14 final size:14
Alignment explanation
Indices: 16192777--16192818 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
16192767 TCAAAATGAC
16192777 TAATTAATTTAA-TT
1 TAATT-ATTTAATTT
16192791 TAATT-TTTGAATTT
1 TAATTATTT-AATTT
16192805 TAATTATTTAATTT
1 TAATTATTTAATTT
16192819 AATAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 2 0.08
14 17 0.68
15 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
TAATTATTTAATTT
Found at i:16197746 original size:25 final size:26
Alignment explanation
Indices: 16197687--16197806 Score: 85
Period size: 25 Copynumber: 4.8 Consensus size: 26
16197677 AATTCATATT
16197687 CAGGAATGCTC-ATGTGAG-CATATAAA
1 CAGGAA-GCTCTATGTGAGCCATAT-AA
* * *
16197713 CGGGTAGCTCTTTG-GAGCCATATAA
1 CAGGAAGCTCTATGTGAGCCATATAA
* *
16197738 TAGGAAGCTC-ATGTGAGCCATGTAA
1 CAGGAAGCTCTATGTGAGCCATATAA
* *
16197763 CGGGAAGCTCTA-GAGAGCCAT-TAA
1 CAGGAAGCTCTATGTGAGCCATATAA
*
16197787 C-GAGAAGCTC-ATATGAGCCA
1 CAG-GAAGCTCTATGTGAGCCA
16197807 ATATCGGGAA
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
23 2 0.03
24 19 0.25
25 42 0.56
26 12 0.16
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (26 bp):
CAGGAAGCTCTATGTGAGCCATATAA
Found at i:16197765 original size:50 final size:49
Alignment explanation
Indices: 16197688--16197806 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 49
16197678 ATTCATATTC
* *
16197688 AGGAATGCTCATGTGAG-CATATAAACGGGTAGCTCTTTG-GAGCCATATAA
1 AGGAA-GCTCATGTGAGCCATATAAACGGGAAGCTC-TAGAGAGCCAT-TAA
*
16197738 TAGGAAGCTCATGTGAGCCATGT-AACGGGAAGCTCTAGAGAGCCATTAA
1 -AGGAAGCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCATTAA
* *
16197787 CGAGAAGCTCATATGAGCCA
1 AG-GAAGCTCATGTGAGCCA
16197807 ATATCGGGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
48 1 0.02
49 21 0.35
50 29 0.48
51 9 0.15
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (49 bp):
AGGAAGCTCATGTGAGCCATATAAACGGGAAGCTCTAGAGAGCCATTAA
Found at i:16197804 original size:24 final size:25
Alignment explanation
Indices: 16197741--16197806 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
16197731 CATATAATAG
* *
16197741 GAAGCTCATGTGAGCCATGTAACGG
1 GAAGCTCATATGAGCCATGTAACGA
*
16197766 GAAGCTC-TAGAGAGCCAT-TAACGA
1 GAAGCTCATA-TGAGCCATGTAACGA
16197790 GAAGCTCATATGAGCCA
1 GAAGCTCATATGAGCCA
16197807 ATATCGGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.18
Consensus pattern (25 bp):
GAAGCTCATATGAGCCATGTAACGA
Found at i:16197817 original size:24 final size:24
Alignment explanation
Indices: 16197740--16197817 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
16197730 CCATATAATA
* *
16197740 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATATGAGCCA-ATAACG
* *
16197765 GGAAGCTC-TAGAGAGCCATTAACG
1 GGAAGCTCATA-TGAGCCAATAACG
* *
16197789 AGAAGCTCATATGAGCCAATATCG
1 GGAAGCTCATATGAGCCAATAACG
16197813 GGAAG
1 GGAAG
16197818 GTTCAAACGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
24 27 0.63
25 16 0.37
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATATGAGCCAATAACG
Found at i:16197832 original size:25 final size:25
Alignment explanation
Indices: 16197804--16197867 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
16197794 CTCATATGAG
*
16197804 CCAATATCGGGAAGGTTCAAACGAA
1 CCAATATCGGGAAGATTCAAACGAA
* * *
16197829 CCAATATCGGGAATATTCAAGCGAG
1 CCAATATCGGGAAGATTCAAACGAA
*
16197854 CCAATATCAGGAAG
1 CCAATATCGGGAAG
16197868 CTCCGGAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.17
Consensus pattern (25 bp):
CCAATATCGGGAAGATTCAAACGAA
Found at i:16205685 original size:26 final size:26
Alignment explanation
Indices: 16205656--16205722 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 26
16205646 TCATATGAGT
* *
16205656 ATATAAACGGGTAGCTCTTTCGAGCC
1 ATATAAACAGGAAGCTCTTTCGAGCC
*
16205682 ATAT-AACAGGAAGCTTTTTCGAGCC
1 ATATAAACAGGAAGCTCTTTCGAGCC
16205707 ATAT-AACAGGAAGCTC
1 ATATAAACAGGAAGCTC
16205723 ATGGGAGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (26 bp):
ATATAAACAGGAAGCTCTTTCGAGCC
Found at i:16205696 original size:25 final size:25
Alignment explanation
Indices: 16205668--16205747 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
16205658 ATAAACGGGT
16205668 AGCTCTTTCGAGCCATATAACAGGA
1 AGCTCTTTCGAGCCATATAACAGGA
*
16205693 AGCTTTTTCGAGCCATATAACAGGA
1 AGCTCTTTCGAGCCATATAACAGGA
* ** * *
16205718 AGCTCATGGGAGCCATGTAACGGGA
1 AGCTCTTTCGAGCCATATAACAGGA
16205743 AGCTC
1 AGCTC
16205748 ATACGAGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTCTTTCGAGCCATATAACAGGA
Found at i:16205785 original size:25 final size:24
Alignment explanation
Indices: 16205757--16205818 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
16205747 CATACGAGAT
*
16205757 AATATCTAGAAGATTCAAACGAACC
1 AATATCGAGAAG-TTCAAACGAACC
* * *
16205782 AATATCGAGAATGTTTAAGCGAGCC
1 AATATCGAGAA-GTTCAAACGAACC
16205807 AATATCGAGAAG
1 AATATCGAGAAG
16205819 CTCCAAAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (24 bp):
AATATCGAGAAGTTCAAACGAACC
Found at i:16208755 original size:40 final size:41
Alignment explanation
Indices: 16208684--16208760 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
16208674 TTTATTACTT
* *
16208684 ATTTTATTACTATAATATAATATATATACTTAAACATTAAG
1 ATTTTATTACTATAATATAATAAATACACTTAAACATTAAG
* *
16208725 ATTTTA-TATTATAATAT-ATAGAATACACTTACACAT
1 ATTTTATTACTATAATATAATA-AATACACTTAAACAT
16208761 ATTTTAACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 3 0.10
40 22 0.71
41 6 0.19
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (41 bp):
ATTTTATTACTATAATATAATAAATACACTTAAACATTAAG
Found at i:16221197 original size:14 final size:14
Alignment explanation
Indices: 16221178--16221207 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16221168 AGTTAGAGAG
*
16221178 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
16221192 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
16221206 GA
1 GA
16221208 ACGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:16223272 original size:15 final size:13
Alignment explanation
Indices: 16223232--16223264 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
16223222 TGAGTAGGGT
16223232 CACGCCCGTGTCA
1 CACGCCCGTGTCA
*
16223245 CACGGCCGTGTCA
1 CACGCCCGTGTCA
16223258 CACGCCC
1 CACGCCC
16223265 ATGTGTCAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.48, G:0.24, T:0.12
Consensus pattern (13 bp):
CACGCCCGTGTCA
Found at i:16224201 original size:41 final size:41
Alignment explanation
Indices: 16224156--16224364 Score: 208
Period size: 41 Copynumber: 5.1 Consensus size: 41
16224146 TACAAAAGTT
*
16224156 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATATGCA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCA
* * * *
16224197 ATTCAGAGGTATCGAAGTACAAATAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCA
* * *
16224238 ATTTAGGGGTACCGAAGTAC-AAC-AGGGTCACATATGTTCA
1 ATTCAGGGGTACCGAAGTACAAACAAGGG-CACGTATGTGCA
* * * ** *
16224278 ATTCAAGGGTACCAAAGTACAAACAGGGGCATATATGTGTA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCA
* ** * *
16224319 ATTCAGGGTTATTGAGGTACAAAC-AGAGGTACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAAG-GGCACGTATGTGCA
16224360 ATTCA
1 ATTCA
16224365 ACAATAATAT
Statistics
Matches: 134, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.02
40 30 0.22
41 98 0.73
42 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (41 bp):
ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCA
Found at i:16224339 original size:81 final size:82
Alignment explanation
Indices: 16224156--16224365 Score: 221
Period size: 81 Copynumber: 2.6 Consensus size: 82
16224146 TACAAAAGTT
* * * * *
16224156 ATTCAGGGGTACCGAAGTACAAACA-AGGGCACGTATATGCAATTC-AGAGGTATCGAAGTACAA
1 ATTCAGGGGTACCGAAGTACAAACAGA-GGTACATATGTGCAATTCAAG-GGTACCAAAGTACAA
* *
16224219 ATAGGGGCACGTATGTGCA
64 ACAGGGGCACATATGTGCA
* *
16224238 ATTTAGGGGTACCGAAGTAC-AACAG-GGTCACATATGTTCAATTCAAGGGTACCAAAGTACAAA
1 ATTCAGGGGTACCGAAGTACAAACAGAGGT-ACATATGTGCAATTCAAGGGTACCAAAGTACAAA
* *
16224301 CAGGGGCATATATGTGTA
65 CAGGGGCACATATGTGCA
* ** * *
16224319 ATTCAGGGTTATTGAGGTACAAACAGAGGTACGTATGTGCAATTCAA
1 ATTCAGGGGTACCGAAGTACAAACAGAGGTACATATGTGCAATTCAA
16224366 CAATAATATT
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
80 2 0.02
81 59 0.56
82 41 0.39
83 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (82 bp):
ATTCAGGGGTACCGAAGTACAAACAGAGGTACATATGTGCAATTCAAGGGTACCAAAGTACAAAC
AGGGGCACATATGTGCA
Found at i:16228879 original size:198 final size:198
Alignment explanation
Indices: 16228541--16228936 Score: 765
Period size: 198 Copynumber: 2.0 Consensus size: 198
16228531 CGATACCACT
16228541 GTAGGTGGTCTTCATCTTTGGGGCCTGTTTGAGGTATCACGATTCCAAGGGTAGGATAGTGCAAT
1 GTAGGTGGTCTTCATCTTTGGGGCCTGTTTGAGGTATCACGATTCCAAGGGTAGGATAGTGCAAT
16228606 ACCCTCTCCCTTGGTGATGTTCTCACTCGATTCCGACCTCCAATGTGTCCCTACAACACAATCAC
66 ACCCTCTCCCTTGGTGATGTTCTCACTCGATTCCGACCTCCAATGTGTCCCTACAACACAATCAC
16228671 ATATTAGGGCCTCCAATGGCACAATTGGCCAATTTGGGTATCAAAATAAGTAAAAAGAGACATTT
131 ATATTAGGGCCTCCAATGGCACAATTGGCCAATTTGGGTATCAAAATAAGTAAAAAGAGACATTT
16228736 ACA
196 ACA
*
16228739 GTAGGTGGTCTTCATCTTTGGGGCCTGTTTGAGGTATCATGATTCCAAGGGTAGGATAGTGCAAT
1 GTAGGTGGTCTTCATCTTTGGGGCCTGTTTGAGGTATCACGATTCCAAGGGTAGGATAGTGCAAT
16228804 ACCCTCTCCCTTGGTGATGTTCTCACTCGATTCCGACCTCCAATGTGTCCCTACAACACAATCAC
66 ACCCTCTCCCTTGGTGATGTTCTCACTCGATTCCGACCTCCAATGTGTCCCTACAACACAATCAC
* *
16228869 ATATTAGGGCCTCCACTGGCACAATTGGCCAATTTGGGTATCAAAATAAGTAAAACGAGACATTT
131 ATATTAGGGCCTCCAATGGCACAATTGGCCAATTTGGGTATCAAAATAAGTAAAAAGAGACATTT
16228934 ACA
196 ACA
16228937 CTTAGTAAAT
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
198 195 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (198 bp):
GTAGGTGGTCTTCATCTTTGGGGCCTGTTTGAGGTATCACGATTCCAAGGGTAGGATAGTGCAAT
ACCCTCTCCCTTGGTGATGTTCTCACTCGATTCCGACCTCCAATGTGTCCCTACAACACAATCAC
ATATTAGGGCCTCCAATGGCACAATTGGCCAATTTGGGTATCAAAATAAGTAAAAAGAGACATTT
ACA
Found at i:16233869 original size:100 final size:100
Alignment explanation
Indices: 16233691--16233891 Score: 276
Period size: 100 Copynumber: 2.0 Consensus size: 100
16233681 CAATTCGGCA
* * * * *
16233691 TGAACTTTTGGATGGGATCTAAGTAGTTACAGGTTGAGATGTTTGTATAGCATTTGAAGAATTAT
1 TGAACTTTTGGATGGGATCCAAGTAGTTACAGGCTGAAATGCTTGCATAGCATTTGAAGAATTAT
* * *
16233756 TTTTTAGTTTCGAAATGCACATTGAATCACTTGAT
66 ATATTAGTTTCGAAATGCACATTGAATCACTCGAT
* ** *
16233791 TGAATTTTTGGATGGGATCCAAGTAGTTATGGGCTGAAATGCTTGCATAGCGTTTGAAGAATTAT
1 TGAACTTTTGGATGGGATCCAAGTAGTTACAGGCTGAAATGCTTGCATAGCATTTGAAGAATTAT
* *
16233856 ATATTAGTTTCGAAATGTACTTTGAATCACTCGAT
66 ATATTAGTTTCGAAATGCACATTGAATCACTCGAT
16233891 T
1 T
16233892 TTGAGTTCGG
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (100 bp):
TGAACTTTTGGATGGGATCCAAGTAGTTACAGGCTGAAATGCTTGCATAGCATTTGAAGAATTAT
ATATTAGTTTCGAAATGCACATTGAATCACTCGAT
Found at i:16240792 original size:13 final size:13
Alignment explanation
Indices: 16240774--16240798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16240764 CGTGTGCCAT
16240774 ACACAGCCTCTCC
1 ACACAGCCTCTCC
16240787 ACACAGCCTCTC
1 ACACAGCCTCTC
16240799 AACAAGTCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.52, G:0.08, T:0.16
Consensus pattern (13 bp):
ACACAGCCTCTCC
Found at i:16244165 original size:26 final size:26
Alignment explanation
Indices: 16244131--16244185 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
16244121 CTCGAGTAAG
16244131 AAGAAGCTCCTAGGCAATGAAAAGGT
1 AAGAAGCTCCTAGGCAATGAAAAGGT
* *
16244157 AAGATGCTCCTGGGCAATGAAAAGGT
1 AAGAAGCTCCTAGGCAATGAAAAGGT
16244183 AAG
1 AAG
16244186 TGCCGGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.16
Consensus pattern (26 bp):
AAGAAGCTCCTAGGCAATGAAAAGGT
Found at i:16248203 original size:26 final size:27
Alignment explanation
Indices: 16248165--16248219 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
16248155 CCTAACACTC
16248165 AAACAAACACCAATTACACAAAACCCA
1 AAACAAACACCAATTACACAAAACCCA
* *
16248192 AAACAAAC-CCAATTCCCCAAAACCCA
1 AAACAAACACCAATTACACAAAACCCA
16248218 AA
1 AA
16248220 CAAGCCAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.56, C:0.36, G:0.00, T:0.07
Consensus pattern (27 bp):
AAACAAACACCAATTACACAAAACCCA
Found at i:16252781 original size:26 final size:26
Alignment explanation
Indices: 16252750--16252811 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
16252740 TAACCCTAAC
*
16252750 AAAATTTTGATGATTTTACCTCTGGT
1 AAAATTTTGATGATTTTACCCCTGGT
*
16252776 AAAATTTTGATGATTTTGCCCCTGGT
1 AAAATTTTGATGATTTTACCCCTGGT
16252802 AAAATTTTGA
1 AAAATTTTGA
16252812 GAAATATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (26 bp):
AAAATTTTGATGATTTTACCCCTGGT
Found at i:16252972 original size:6 final size:6
Alignment explanation
Indices: 16252956--16252996 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
16252946 GCAAATAGAT
* * *
16252956 CATTTC TATTTC CATTTT CATTTT CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
16252997 TTGGAAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (6 bp):
CATTTC
Found at i:16252978 original size:18 final size:18
Alignment explanation
Indices: 16252958--16252997 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16252948 AAATAGATCA
16252958 TTTCTATTTCCATTTTCAT
1 TTTC-ATTTCCATTTTCAT
*
16252977 TTTCATTTCCATTTCCAT
1 TTTCATTTCCATTTTCAT
16252995 TTT
1 TTT
16252998 TGGAAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCATTTCCATTTTCAT
Found at i:16259642 original size:32 final size:32
Alignment explanation
Indices: 16259587--16259725 Score: 154
Period size: 32 Copynumber: 4.4 Consensus size: 32
16259577 GAATGGCTAC
* *
16259587 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
16259618 AAGCCATCAGTAGCAGTGATATGATCGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * * *
16259650 CAGCCATTAGTAACGGTAATATAATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
** *
16259682 AAGCCATCAGTAATGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
16259714 AAGCCATCAGTA
1 AAGCCATCAGTA
16259726 GCATCGTAGC
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
31 10 0.11
32 78 0.89
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:16259942 original size:48 final size:48
Alignment explanation
Indices: 16259883--16259979 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
16259873 TCAGTCATAC
*
16259883 AAATCACAAACAAATCAGTCATACCAATCACAGG-CAAATCAATCATTT
1 AAATCACAAACAAATCAGTCATACAAATCAC-GGACAAATCAATCATTT
** *
16259931 AAATCACAAACAAATCAGTCATTTAAATCACGGACAAATTAATCATTT
1 AAATCACAAACAAATCAGTCATACAAATCACGGACAAATCAATCATTT
16259979 A
1 A
16259980 CACTCGAAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.05
48 42 0.95
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.24
Consensus pattern (48 bp):
AAATCACAAACAAATCAGTCATACAAATCACGGACAAATCAATCATTT
Found at i:16259967 original size:24 final size:24
Alignment explanation
Indices: 16259871--16259979 Score: 110
Period size: 24 Copynumber: 4.5 Consensus size: 24
16259861 CCATGCTCAG
**
16259871 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATTTAAATCACAAACA
*** **
16259895 AATCAGTCATACCAATCACAGGCA
1 AATCAGTCATTTAAATCACAAACA
*
16259919 AATCAATCATTTAAATCACAAACA
1 AATCAGTCATTTAAATCACAAACA
**
16259943 AATCAGTCATTTAAATCACGGACA
1 AATCAGTCATTTAAATCACAAACA
* *
16259967 AATTAATCATTTA
1 AATCAGTCATTTA
16259980 CACTCGAAGG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.24
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAAACA
Found at i:16260056 original size:27 final size:27
Alignment explanation
Indices: 16260017--16260289 Score: 290
Period size: 27 Copynumber: 10.1 Consensus size: 27
16260007 CTTCAGAGGA
*
16260017 ATTACGATCATTTTA-CCTTACAGGGGT
1 ATTACGGTCATTTTATCC-TACAGGGGT
* * * * *
16260044 ATTTCGGTTATTTAACCCTA-TGAGGGT
1 ATTACGGTCATTTTATCCTACAG-GGGT
*
16260071 ATTACGGTCATTTTATCCTACAGGGGC
1 ATTACGGTCATTTTATCCTACAGGGGT
16260098 ATTACGGTCATTTTA-CCTTATCA-GGGT
1 ATTACGGTCATTTTATCC-TA-CAGGGGT
* **
16260125 TTTTTGGTCATTTTATCCTACAGGGGT
1 ATTACGGTCATTTTATCCTACAGGGGT
*
16260152 ATTACGGTCATTTTATCCTACAGGGGC
1 ATTACGGTCATTTTATCCTACAGGGGT
16260179 ATTACGGTCATTTTA-CCTTATCA-GGGT
1 ATTACGGTCATTTTATCC-TA-CAGGGGT
* **
16260206 TTTTTGGTCATTTTATCCTACAGGGGT
1 ATTACGGTCATTTTATCCTACAGGGGT
16260233 ATTACGGTCATTTTATCCTACAGGGGT
1 ATTACGGTCATTTTATCCTACAGGGGT
* *
16260260 ATTATGGTCATTTTACCCTAC-GAGGGT
1 ATTACGGTCATTTTATCCTACAG-GGGT
16260287 ATT
1 ATT
16260290 TTTGCCATTT
Statistics
Matches: 206, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
26 10 0.05
27 185 0.90
28 11 0.05
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTACGGTCATTTTATCCTACAGGGGT
Found at i:16260328 original size:81 final size:81
Alignment explanation
Indices: 16260017--16260301 Score: 407
Period size: 81 Copynumber: 3.5 Consensus size: 81
16260007 CTTCAGAGGA
* * * * * * *
16260017 ATTACGATCATTTTACCTTA-CAGGGGTATTTCGGTTATTTAACCCTA-TGAGGGTATTACGGTC
1 ATTACGGTCATTTTACCTTATCA-GGGTTTTTTGGTCATTTTATCCTACAG-GGGTATTACGGTC
16260080 ATTTTATCCTACAGGGGC
64 ATTTTATCCTACAGGGGC
16260098 ATTACGGTCATTTTACCTTATCAGGGTTTTTTGGTCATTTTATCCTACAGGGGTATTACGGTCAT
1 ATTACGGTCATTTTACCTTATCAGGGTTTTTTGGTCATTTTATCCTACAGGGGTATTACGGTCAT
16260163 TTTATCCTACAGGGGC
66 TTTATCCTACAGGGGC
16260179 ATTACGGTCATTTTACCTTATCAGGGTTTTTTGGTCATTTTATCCTACAGGGGTATTACGGTCAT
1 ATTACGGTCATTTTACCTTATCAGGGTTTTTTGGTCATTTTATCCTACAGGGGTATTACGGTCAT
*
16260244 TTTATCCTACAGGGGT
66 TTTATCCTACAGGGGC
* * *
16260260 ATTATGGTCATTTTACCCTA-CGAGGGTATTTTT-GCCATTTTA
1 ATTACGGTCATTTTACCTTATC-AGGGT-TTTTTGGTCATTTTA
16260302 CCCATCAATG
Statistics
Matches: 189, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
80 1 0.01
81 180 0.95
82 8 0.04
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (81 bp):
ATTACGGTCATTTTACCTTATCAGGGTTTTTTGGTCATTTTATCCTACAGGGGTATTACGGTCAT
TTTATCCTACAGGGGC
Found at i:16260356 original size:54 final size:54
Alignment explanation
Indices: 16260269--16260506 Score: 273
Period size: 54 Copynumber: 4.4 Consensus size: 54
16260259 TATTATGGTC
**** * * * *
16260269 ATTTTACCC-TACGAGGGTATTTTTGCCATTTTACCCATCAATGGTATTTTGGTA
1 ATTTTACCCAT-CGAGGGTATTTCAATCATTTTACCCATCGAGGGTATTTCGATA
* * * * *
16260323 ATTTTACCCATCAAGGGTATTTCAATCAATTTACCCATTGAGGATATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCAATCATTTTACCCATCGAGGGTATTTCGATA
* *
16260377 ATTTTACCCATCGAGGGTATTTCAGTCATTTTACCCATCGGGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCAATCATTTTACCCATCGAGGGTATTTCGATA
** *
16260431 ATTTTACCCATCGAGGGTATTTTGATCGTTTTACCCATCG-GGAGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCAATCATTTTACCCATCGAGG-GTATTTCGATA
*
16260485 ATTTTACCCATCGAGTGTATTT
1 ATTTTACCCATCGAGGGTATTT
16260507 AGGTCATTTA
Statistics
Matches: 157, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
53 2 0.01
54 154 0.98
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTATTTCAATCATTTTACCCATCGAGGGTATTTCGATA
Found at i:16260356 original size:81 final size:80
Alignment explanation
Indices: 16260269--16260506 Score: 239
Period size: 81 Copynumber: 2.9 Consensus size: 80
16260259 TATTATGGTC
* * *
16260269 ATTTTACCC-TACGAGGGTATTTTTGCCATTTTACCCATCAATGGTATTTTGGTAATTTTACCCA
1 ATTTTACCCAT-CGAGGGTATTTTTGTCATTTTACCCATC-AGGGTATTTCGGTAATTTTACCCA
*
16260333 TCAAGGGTATTTCAATCA
64 TCGAGGGTATTTCAAT-A
* * *** * * *
16260351 A-TTTACCCATTGAGGATATTTCAATAATTTTACCCATCGAGGGTATTTCAGTCATTTTACCCAT
1 ATTTTACCCATCGAGGGTATTTTTGTCATTTTACCCATC-AGGGTATTTCGGTAATTTTACCCAT
* *
16260415 CGGGGGTATTTCGATA
65 CGAGGGTATTTCAATA
* * *
16260431 ATTTTACCCATCGAGGGTA-TTTTGATCGTTTTACCCATCGGGAGTATTTCGATAATTTTACCCA
1 ATTTTACCCATCGAGGGTATTTTTG-TCATTTTACCCATCAGG-GTATTTCGGTAATTTTACCCA
*
16260495 TCGAGTGTATTT
64 TCGAGGGTATTT
16260507 AGGTCATTTA
Statistics
Matches: 124, Mismatches: 28, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
80 6 0.05
81 116 0.94
82 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (80 bp):
ATTTTACCCATCGAGGGTATTTTTGTCATTTTACCCATCAGGGTATTTCGGTAATTTTACCCATC
GAGGGTATTTCAATA
Found at i:16260515 original size:27 final size:27
Alignment explanation
Indices: 16260267--16260515 Score: 213
Period size: 27 Copynumber: 9.2 Consensus size: 27
16260257 GGTATTATGG
*
16260267 TCATTTTACCC-TACGAGGGTATTTTTG-
1 TCATTTTACCCAT-CGAGGGTA-TTTAGA
* * * * *
16260294 CCATTTTACCCATCAATGGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTAGA
* *
16260321 TAATTTTACCCATCAAGGGTATTTCA-A
1 TCATTTTACCCATCGAGGGTATTT-AGA
* * *
16260348 TCAATTTACCCATTGAGGATATTTCA-A
1 TCATTTTACCCATCGAGGGTATTT-AGA
*
16260375 TAATTTTACCCATCGAGGGTATTTCAG-
1 TCATTTTACCCATCGAGGGTATTT-AGA
* *
16260402 TCATTTTACCCATCGGGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTAGA
* *
16260429 TAATTTTACCCATCGAGGGTATTTTGA
1 TCATTTTACCCATCGAGGGTATTTAGA
* *
16260456 TCGTTTTACCCATCG-GGAGTATTTCGA
1 TCATTTTACCCATCGAGG-GTATTTAGA
* * *
16260483 TAATTTTACCCATCGAGTGTATTTAGG
1 TCATTTTACCCATCGAGGGTATTTAGA
16260510 TCATTT
1 TCATTT
16260516 AACAAATATT
Statistics
Matches: 183, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.04
27 173 0.95
28 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTAGA
Found at i:16263347 original size:18 final size:19
Alignment explanation
Indices: 16263319--16263354 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16263309 ATAAAATTTT
16263319 TAAATACAATAAAGAAAAA
1 TAAATACAATAAAGAAAAA
*
16263338 TAAATA-AATAAATAAAA
1 TAAATACAATAAAGAAAA
16263355 TGGGAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
TAAATACAATAAAGAAAAA
Found at i:16275684 original size:41 final size:41
Alignment explanation
Indices: 16275625--16275707 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
16275615 ATTTTTTTTT
* *
16275625 TCCAAAGTTCTGATTTTACCCAAAATTATTCAAAGCAAAAA
1 TCCAAAGTTCTGACTTTACCCAAAATCATTCAAAGCAAAAA
* *
16275666 TCCAAAGTTTTGGCTTTACCCAAAATCATTCAAAGCAAAAA
1 TCCAAAGTTCTGACTTTACCCAAAATCATTCAAAGCAAAAA
16275707 T
1 T
16275708 TTAACCCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (41 bp):
TCCAAAGTTCTGACTTTACCCAAAATCATTCAAAGCAAAAA
Found at i:16276962 original size:15 final size:15
Alignment explanation
Indices: 16276942--16276973 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16276932 TATGAATTAC
*
16276942 ATGTTATATGTAAAA
1 ATGTTATAAGTAAAA
16276957 ATGTTATAAGTAAAA
1 ATGTTATAAGTAAAA
16276972 AT
1 AT
16276974 CGACTAGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (15 bp):
ATGTTATAAGTAAAA
Found at i:16277663 original size:24 final size:23
Alignment explanation
Indices: 16277623--16277739 Score: 74
Period size: 24 Copynumber: 4.8 Consensus size: 23
16277613 GGCTCTTTGT
*
16277623 GAGCTTCTAGTTAATGGCTCTCCG
1 GAGCTTCTCGTT-ATGGCTCTCCG
* **
16277647 GAGCTTCTCGATTATGGCTCGCTT
1 GAGCTTCTCG-TTATGGCTCTCCG
* * *
16277671 GAACTTCTCGATATATGGCTATCTG
1 GAGCTTCTCG-T-TATGGCTCTCCG
* *
16277696 GAGCTTCAT-GTTAATGGCTTTTCG
1 GAGCTTC-TCGTT-ATGGCTCTCCG
*
16277720 GAGCTACTCGTTATTGGCTC
1 GAGCTTCTCGTTA-TGGCTC
16277740 GCATGAGCTT
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.04
24 51 0.70
25 18 0.25
26 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (23 bp):
GAGCTTCTCGTTATGGCTCTCCG
Found at i:16277702 original size:25 final size:25
Alignment explanation
Indices: 16277613--16277702 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 25
16277603 CCCGATTAAA
* * *
16277613 GGCTCTTTGTGAGCTTCTAGTTA-AT
1 GGCTCTCTG-GAGCTTCTCGATATAT
*
16277638 GGCTCTCCGGAGCTTCTCGAT-TAT
1 GGCTCTCTGGAGCTTCTCGATATAT
* * *
16277662 GGCTCGCTTGAACTTCTCGATATAT
1 GGCTCTCTGGAGCTTCTCGATATAT
*
16277687 GGCTATCTGGAGCTTC
1 GGCTCTCTGGAGCTTC
16277703 ATGTTAATGG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
24 29 0.57
25 22 0.43
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (25 bp):
GGCTCTCTGGAGCTTCTCGATATAT
Found at i:16277712 original size:73 final size:72
Alignment explanation
Indices: 16277623--16277762 Score: 178
Period size: 73 Copynumber: 1.9 Consensus size: 72
16277613 GGCTCTTTGT
* *
16277623 GAGCTTCTAGTTAATGGCTCTCCGGAGCTTCTCGATTA-TGGCTCGCTTGAACTT-CTCGATATA
1 GAGCTTCTAGTTAATGGCTCTCCGGAGCTACTCG-TTATTGGCTCGCATGAACTTCCT-GAT-TA
16277686 TGGCTATCTG
63 TGGCTATCTG
* * *
16277696 GAGCTTC-ATGTTAATGGCTTTTCGGAGCTACTCGTTATTGGCTCGCATGAGCTTCCTGATTATG
1 GAGCTTCTA-GTTAATGGCTCTCCGGAGCTACTCGTTATTGGCTCGCATGAACTTCCTGATTATG
16277760 GCT
65 GCT
16277763 CTTATGAGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
72 11 0.19
73 46 0.78
74 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (72 bp):
GAGCTTCTAGTTAATGGCTCTCCGGAGCTACTCGTTATTGGCTCGCATGAACTTCCTGATTATGG
CTATCTG
Found at i:16289551 original size:13 final size:13
Alignment explanation
Indices: 16289533--16289561 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16289523 ACAGACTGTC
16289533 ATATCTTTCATAT
1 ATATCTTTCATAT
16289546 ATATCTTTCATAT
1 ATATCTTTCATAT
16289559 ATA
1 ATA
16289562 AAAAGATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATCTTTCATAT
Found at i:16294533 original size:50 final size:49
Alignment explanation
Indices: 16294418--16294564 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 49
16294408 GATAATAACA
* * **
16294418 TGCCAAAGCCATGTCGCAGACATGGTCTTACATGGGAAGTTCTCATATCGG
1 TGCCAAA-CCATGTCCCAGACATGGTCTTACA-GGGGACCTCTCATATCGG
** * *
16294469 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAAACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* *
16294519 TGCCAACACCATGTCCCAGACATGGTCTAACATGGGACCTCTCATA
1 TGCCAA-ACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
16294565 ACCTCAATGA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.04
50 50 0.62
51 24 0.30
52 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (49 bp):
TGCCAAACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:16296273 original size:19 final size:19
Alignment explanation
Indices: 16296249--16296286 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16296239 TTCCACAGGG
16296249 ATACTTTCAAAAACACTTT
1 ATACTTTCAAAAACACTTT
16296268 ATACTTTCAAAAACACTTT
1 ATACTTTCAAAAACACTTT
16296287 GTCACCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
ATACTTTCAAAAACACTTT
Found at i:16302079 original size:56 final size:51
Alignment explanation
Indices: 16301959--16302107 Score: 169
Period size: 50 Copynumber: 2.8 Consensus size: 51
16301949 TGATAATAAC
*
16301959 ATGCCAAAGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCAG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCAG
*
16302010 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC-A-G
* * *
16302065 ATGCCAATGACATGTCCCA-AGCATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGA-CATGGTCTTACATGGGACCTCT
16302108 TTACCTAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
50 41 0.48
51 1 0.01
53 3 0.04
54 1 0.01
55 2 0.02
56 37 0.44
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (51 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:16311349 original size:36 final size:36
Alignment explanation
Indices: 16311302--16311373 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
16311292 TTTAAGGAAG
*
16311302 ATCGAGAAATCCCCATTCTATTGGGTAGGTCATTTC
1 ATCGAGAAATCCCCATTCTATTCGGTAGGTCATTTC
* *
16311338 ATCGAGAAATCCCCATTTTGTTCGGTAGGTCATTTC
1 ATCGAGAAATCCCCATTCTATTCGGTAGGTCATTTC
16311374 TGGTCACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (36 bp):
ATCGAGAAATCCCCATTCTATTCGGTAGGTCATTTC
Found at i:16312720 original size:29 final size:29
Alignment explanation
Indices: 16312678--16312735 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
16312668 TTTCCCGCAC
16312678 TTAATGATAACTTTATGTCGACAAGCAAA
1 TTAATGATAACTTTATGTCGACAAGCAAA
16312707 TTAATGATAACTTTATGTCGACAAGCAAA
1 TTAATGATAACTTTATGTCGACAAGCAAA
16312736 GGTGCCGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (29 bp):
TTAATGATAACTTTATGTCGACAAGCAAA
Found at i:16317422 original size:13 final size:12
Alignment explanation
Indices: 16317405--16317440 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
16317395 ATTTAAGTCG
16317405 TTTATTTATTTT
1 TTTATTTATTTT
16317417 TCTTATTTATTTT
1 T-TTATTTATTTT
*
16317430 TTTAGTTATTT
1 TTTATTTATTT
16317441 AATTTCTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:16318453 original size:20 final size:20
Alignment explanation
Indices: 16318428--16318466 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16318418 ATTCAACAAC
16318428 TTCTCTTTTAAGTTAATAAA
1 TTCTCTTTTAAGTTAATAAA
*
16318448 TTCTCTTTTGAGTTAATAA
1 TTCTCTTTTAAGTTAATAA
16318467 GTTCCCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (20 bp):
TTCTCTTTTAAGTTAATAAA
Found at i:16318475 original size:20 final size:20
Alignment explanation
Indices: 16318432--16318480 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
16318422 AACAACTTCT
* *
16318432 CTTTTAAGTTAATAAATTCT
1 CTTTTGAGTTAATAAATTCC
*
16318452 CTTTTGAGTTAATAAGTTCC
1 CTTTTGAGTTAATAAATTCC
16318472 C-TTTGAGTT
1 CTTTTGAGTT
16318481 TTATTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (20 bp):
CTTTTGAGTTAATAAATTCC
Found at i:16323890 original size:12 final size:12
Alignment explanation
Indices: 16323852--16323883 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
16323842 GGAAGATATA
16323852 AAATATATTTCT
1 AAATATATTTCT
*
16323864 AAATATATTTTT
1 AAATATATTTCT
16323876 AAATATAT
1 AAATATAT
16323884 GCCTAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
AAATATATTTCT
Found at i:16326409 original size:25 final size:26
Alignment explanation
Indices: 16326372--16326439 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 26
16326362 ATTTGACCCT
*
16326372 ATTAATTTAAATTTAAA-TTCGATGCA
1 ATTAATTTAAATTTAAATTTC-ATCCA
*
16326398 ATT-ATTTAAATTTAAATTTCATCCC
1 ATTAATTTAAATTTAAATTTCATCCA
16326423 ATTAATTTAAATTTAAA
1 ATTAATTTAAATTTAAA
16326440 CTAAATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTAATTTAAATTTAAATTTCATCCA
Found at i:16327078 original size:14 final size:16
Alignment explanation
Indices: 16327058--16327097 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
16327048 ACCCAAAACT
16327058 CAAATTTTATATG-AA
1 CAAATTTTATATGTAA
*
16327073 -AAATTTTCTATGTAA
1 CAAATTTTATATGTAA
16327088 CAAATTTTAT
1 CAAATTTTAT
16327098 TTCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 11 0.52
15 2 0.10
16 8 0.38
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (16 bp):
CAAATTTTATATGTAA
Found at i:16327543 original size:19 final size:19
Alignment explanation
Indices: 16327519--16327570 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
16327509 AAATTTTATT
* *
16327519 TTTATTACTTTTACACAAA
1 TTTATTAATTTAACACAAA
16327538 TTTATTAATTTAACACAAA
1 TTTATTAATTTAACACAAA
**
16327557 AGTATTAATATTAA
1 TTTATTAAT-TTAA
16327571 TTAATTCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTATTAATTTAACACAAA
Found at i:16327821 original size:29 final size:28
Alignment explanation
Indices: 16327789--16327849 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
16327779 AAAAAGCCCT
16327789 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** * *
16327818 TTTTTTGATTATTTACCGGAATGGTCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
16327846 TTTT
1 TTTT
16327850 CTGGGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Done.