Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 223 of 770
Found at i:66747851 original size:2 final size:2
Alignment explanation
Indices: 66747844--66747869 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66747834 GAACAGATGC
66747844 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
66747870 GGCGAAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66755345 original size:31 final size:32
Alignment explanation
Indices: 66755288--66755349 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
66755278 ACGAAGTCAC
*
66755288 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCTAAGCCACCAGAA
*
66755320 CAGATATATATA-TGTGG-TGAAGCCACCAGA
1 CAGATATAGATATTGTGGCT-AAGCCACCAGA
66755350 TTGCAACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 1 0.04
31 15 0.56
32 11 0.41
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCTAAGCCACCAGAA
Found at i:66757383 original size:52 final size:51
Alignment explanation
Indices: 66757254--66757385 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
66757244 AGGTGTTCTA
* * **
66757254 CATTTAATAAAGTCATGCATTATGTAACTATCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* * *
66757305 CA-TAAATTATGACATGCATTATGTAACTCCCTTGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
* *
66757356 CATTAAATTAAGTCATGCAATAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
66757386 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 31 0.46
51 14 0.21
52 23 0.34
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:66757402 original size:51 final size:52
Alignment explanation
Indices: 66757287--66757392 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
66757277 GTAACTATCA
* * * *
66757287 TGTTAGTT-AAGTTTGCATCA-TAAATTATGACATGCATTATGTAACTCCCT
1 TGTTAGTTAAAGTTTGCATCATTAAATTAAGACATGCAATAAGTAACTCACT
* *
66757337 TGTTAGTTAAAGTTTGCATCATTAAATTAAGTCATGCAATAAGTAACTCATT
1 TGTTAGTTAAAGTTTGCATCATTAAATTAAGACATGCAATAAGTAACTCACT
66757389 TGTT
1 TGTT
66757393 CATTTAGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 8 0.17
51 12 0.25
52 28 0.58
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (52 bp):
TGTTAGTTAAAGTTTGCATCATTAAATTAAGACATGCAATAAGTAACTCACT
Found at i:66759590 original size:29 final size:29
Alignment explanation
Indices: 66759558--66759684 Score: 202
Period size: 29 Copynumber: 4.4 Consensus size: 29
66759548 TTCGGGCTGG
66759558 ATGGGCCATATGAACGTGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
*
66759587 ATGGGCCATATAAACGTGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
*
66759616 ATGGGCCATATGAACATGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
* *
66759645 ATAGGCCATATGAATGTGA-TTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
*
66759673 GTGGGCCATATG
1 ATGGGCCATATG
66759685 CATGTATGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 19 0.21
29 71 0.79
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAACGTGATTTGGGCCTA
Found at i:66764743 original size:10 final size:10
Alignment explanation
Indices: 66764728--66764754 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
66764718 TACTCCTTCA
66764728 AGCTCAAATC
1 AGCTCAAATC
66764738 AGCTCAAATC
1 AGCTCAAATC
66764748 AGCTCAA
1 AGCTCAA
66764755 CTTCAGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:66764762 original size:21 final size:21
Alignment explanation
Indices: 66764728--66764776 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
66764718 TACTCCTTCA
66764728 AGCTCAA-ATCAGCTCAAATC
1 AGCTCAACATCAGCTCAAATC
* * * *
66764748 AGCTCAACTTCAGCTTAACTT
1 AGCTCAACATCAGCTCAAATC
66764769 AGCTCAAC
1 AGCTCAAC
66764777 GAGCTCGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (21 bp):
AGCTCAACATCAGCTCAAATC
Found at i:66766322 original size:15 final size:15
Alignment explanation
Indices: 66766302--66766348 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
66766292 CAAAGATGGC
66766302 TTTATGGATATGAAG
1 TTTATGGATATGAAG
* * *
66766317 TTTATGTAGATG-GG
1 TTTATGGATATGAAG
*
66766331 TTTATGGATATAAAG
1 TTTATGGATATGAAG
66766346 TTT
1 TTT
66766349 TTGTAGGTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
TTTATGGATATGAAG
Found at i:66766364 original size:29 final size:29
Alignment explanation
Indices: 66766295--66766354 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
66766285 AAGGATTCAA
* *
66766295 AGATGGCTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
66766324 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
66766353 AG
1 AG
66766355 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:66767011 original size:14 final size:14
Alignment explanation
Indices: 66766989--66767033 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
66766979 TTAAAGAAGC
66766989 AACTCATTAAATTA
1 AACTCATTAAATTA
*
66767003 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
66767016 AACTCATTTAATTA
1 AACTCATTAAATTA
66767030 AACT
1 AACT
66767034 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:66767071 original size:22 final size:22
Alignment explanation
Indices: 66767045--66767114 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
66767035 AGATGAGTTG
66767045 TATTAATGACCAGCAACTCATT
1 TATTAATGACCAGCAACTCATT
* *
66767067 TATTAA--ACTA--AGA-TGAGTT
1 TATTAATGACCAGCA-ACTCA-TT
66767086 GTATTAATGACCAGCAACTCATT
1 -TATTAATGACCAGCAACTCATT
66767109 TATTAA
1 TATTAA
66767115 ACTAAGAGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 9 0.25
22 15 0.42
23 3 0.08
24 3 0.08
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
TATTAATGACCAGCAACTCATT
Found at i:66767077 original size:42 final size:42
Alignment explanation
Indices: 66767016--66767121 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
66767006 TCATTAAATA
66767016 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAGTTGTATTAATGACCAGC
66767059 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
66767101 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
66767122 GGCTTAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 54 0.86
43 9 0.14
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:66767583 original size:10 final size:10
Alignment explanation
Indices: 66767568--66767594 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
66767558 TAAGTTGAAG
66767568 TTGAGCTGAT
1 TTGAGCTGAT
66767578 TTGAGCTGAT
1 TTGAGCTGAT
66767588 TTGAGCT
1 TTGAGCT
66767595 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:66769451 original size:20 final size:20
Alignment explanation
Indices: 66769405--66769452 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
66769395 AGTAAGCTCG
*
66769405 GTTGAGCTCAAACGAGTTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
66769425 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
66769445 GTTGAGCT
1 GTTGAGCT
66769453 GGACAGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:66769481 original size:20 final size:20
Alignment explanation
Indices: 66769434--66769482 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
66769424 AAACGAGCTC
66769434 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
66769455 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
66769474 AAATGAGCT
1 AAATGAGCT
66769483 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:66771846 original size:22 final size:22
Alignment explanation
Indices: 66771821--66771863 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
66771811 GACTTATGGA
*
66771821 AATTCA-ATCTTGATAATTCGAC
1 AATTCAGATC-TGACAATTCGAC
66771843 AATTCAGATCTGACAATTCGA
1 AATTCAGATCTGACAATTCGA
66771864 GAAGCGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (22 bp):
AATTCAGATCTGACAATTCGAC
Found at i:66775278 original size:20 final size:20
Alignment explanation
Indices: 66775231--66775279 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
66775221 AAGTAAGATC
*
66775231 AGTTGAGTTCAAACGAGCTG
1 AGTTGAGCTCAAACGAGCTG
*** *
66775251 AAACGAGCTCAAATGAGCTG
1 AGTTGAGCTCAAACGAGCTG
66775271 AGTTGAGCT
1 AGTTGAGCT
66775280 GGACAGAGCT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (20 bp):
AGTTGAGCTCAAACGAGCTG
Found at i:66775308 original size:20 final size:20
Alignment explanation
Indices: 66775261--66775309 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
66775251 AAACGAGCTC
66775261 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
66775282 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
66775301 AAATGAGCT
1 AAATGAGCT
66775310 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:66776858 original size:18 final size:19
Alignment explanation
Indices: 66776835--66776873 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66776825 TTTATCTCAA
*
66776835 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
66776853 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
66776872 TT
1 TT
66776874 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:66776912 original size:18 final size:18
Alignment explanation
Indices: 66776891--66776940 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
66776881 AAACTCTTTT
66776891 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
66776909 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
66776927 TCACTCTCTTTTTC
1 TCATTCTCTTTTTC
66776941 TTTTTCTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:66776999 original size:42 final size:42
Alignment explanation
Indices: 66776952--66777040 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
66776942 TTTTCTTTAA
* * *
66776952 TTTCTTTATTTCTTTTCTCGATTTCATTCAAGATTCTCTCAT
1 TTTCTTTATTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
*
66776994 TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
1 TTTCTTTATTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
66777036 TTTCT
1 TTTCT
66777041 CTCATAATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.16, C:0.24, G:0.04, T:0.56
Consensus pattern (42 bp):
TTTCTTTATTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
Found at i:66779546 original size:20 final size:20
Alignment explanation
Indices: 66779499--66779547 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
66779489 AAACGAGCTC
66779499 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
66779520 ATA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
66779539 AAATGAGCT
1 AAATGAGCT
66779548 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.12, G:0.37, T:0.20
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:66784234 original size:50 final size:52
Alignment explanation
Indices: 66784118--66784238 Score: 165
Period size: 50 Copynumber: 2.4 Consensus size: 52
66784108 ATGAACAAAT
* * * *
66784118 GAGTTACTTATTGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* * *
66784170 GAGTTAAATGATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
66784220 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
66784239 TTTATTAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 28 0.47
51 11 0.19
52 20 0.34
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:66784355 original size:39 final size:39
Alignment explanation
Indices: 66784257--66784382 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
66784247 ATGCAAAACA
* *
66784257 CATATTAATGATGTTCAAATTATGACATAATTAAAGACT
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
*
66784296 CATTGCTAATGATGTTCAAACTATGACATAATTAAAGACT
1 CA-TACTAATGATGTTCAAACTATGACATAATTAAAGACT
** *
66784336 CATACTAATGATGTTCAAACTACAACATAATTAAAGACA
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
*
66784375 CAAACTAA
1 CATACTAA
66784383 AATAACTAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 42 0.54
40 36 0.46
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (39 bp):
CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
Found at i:66786116 original size:21 final size:20
Alignment explanation
Indices: 66786079--66786117 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
66786069 CTTTTTCAAT
* *
66786079 TTTTTTTTCTTTCATTTCTC
1 TTTTTCTTCTCTCATTTCTC
66786099 TTTTTCTTCTCTCAATTTC
1 TTTTTCTTCTCTC-ATTTC
66786118 ATTCCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTCTTCTCTCATTTCTC
Found at i:66791536 original size:15 final size:16
Alignment explanation
Indices: 66791503--66791544 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
66791493 AGAGAAAAAG
66791503 AAAAAGAAAGTTGTAA
1 AAAAAGAAAGTTGTAA
66791519 AAAAAGAAAGTTGTAA
1 AAAAAGAAAGTTGTAA
*
66791535 AAAAATAAAG
1 AAAAAGAAAG
66791545 GAAGAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAAAGAAAGTTGTAA
Found at i:66795370 original size:30 final size:30
Alignment explanation
Indices: 66795336--66795432 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
66795326 TAGACTAAAA
*
66795336 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
66795366 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
66795396 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
66795426 TGAGCTA
1 TGAGCTA
66795433 GGAGTGAGCA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:66797920 original size:19 final size:19
Alignment explanation
Indices: 66797896--66797935 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66797886 AGCTCCCATG
66797896 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
66797915 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
66797934 TA
1 TA
66797936 TCAGCTCACG
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:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:66799196 original size:14 final size:14
Alignment explanation
Indices: 66799174--66799221 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
66799164 ACCTAAACCG
* *
66799174 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
66799188 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
66799202 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
66799216 ACCATT
1 ACCATT
66799222 CCATTCATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:66800316 original size:42 final size:42
Alignment explanation
Indices: 66800254--66800350 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
66800244 AGATTATGAG
* * * *
66800254 AGAAAATGAGAGGATTTTGAATGAAATTGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
66800296 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
66800338 AG-AAATGAAAGAA
1 AGAAAATGAGAGAA
66800351 AAAGAAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 10 0.20
42 40 0.80
ACGTcount: A:0.57, C:0.04, G:0.24, T:0.15
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:66800321 original size:21 final size:21
Alignment explanation
Indices: 66800255--66800321 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
66800245 GATTATGAGA
* *
66800255 GAAAATGAGAGGATTTTGAAT
1 GAAAATGAGAGAATATTGAAT
* * *** *
66800276 GAAATTGAGAGAAGAAACAAA
1 GAAAATGAGAGAATATTGAAT
*
66800297 GAAAATGAGAGAATCTTGAAT
1 GAAAATGAGAGAATATTGAAT
66800318 GAAA
1 GAAA
66800322 TCGAGAAAAG
Statistics
Matches: 31, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.25, T:0.19
Consensus pattern (21 bp):
GAAAATGAGAGAATATTGAAT
Found at i:66800377 original size:18 final size:18
Alignment explanation
Indices: 66800354--66800403 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
66800344 GAAAGAAAAA
*
66800354 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
66800372 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
66800390 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
66800404 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:66800380 original size:24 final size:24
Alignment explanation
Indices: 66800347--66800428 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
66800337 AAGAAATGAA
66800347 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
66800371 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
66800395 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
66800419 AGAAAAAGAA
1 AGAAAAAGAA
66800429 TGTGAACAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:66800442 original size:48 final size:48
Alignment explanation
Indices: 66800345--66800465 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
66800335 CAAAGAAATG
* * * **
66800345 AAAGAAAAAGAAAAAGAGATTGAGAGTGAAAAAGAAAATGAGATTGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGAAAGAA
* **
66800393 AAAGAGAATGAAAAAGAGTTTGAGAGAGAAAAAGAATGTGA-ACAAGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGA-AAGAA
* *
66800441 AAA-AGAGTGGAAAAAGAAATTGAGA
1 AAAGAGAAT-GAAAAAGAGATTGAGA
66800466 TAAAAGAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 5 0.08
48 55 0.92
ACGTcount: A:0.60, C:0.01, G:0.26, T:0.12
Consensus pattern (48 bp):
AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGAAAGAA
Found at i:66800457 original size:18 final size:19
Alignment explanation
Indices: 66800421--66800459 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66800411 TTTGAGAGAG
*
66800421 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
66800440 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
66800458 AA
1 AA
66800460 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:66802063 original size:20 final size:20
Alignment explanation
Indices: 66802040--66802087 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
66802030 AGCTCTGTCC
66802040 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
66802060 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
66802080 AGCTCAAC
1 AGCTCAAC
66802088 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:66811061 original size:27 final size:27
Alignment explanation
Indices: 66811032--66811256 Score: 218
Period size: 27 Copynumber: 8.4 Consensus size: 27
66811022 TACCTAGACC
* *
66811032 CCCTTATGTGGTAAAATGACTATTTTC
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * *
66811059 CCCTCATGAGGTAAAATGATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * **
66811086 CCCTCATGAGGTAAAATGGTTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * * *
66811113 CCCTCATGAGGTAAAATGATTGTTTTA
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * * *
66811140 CCCTCATATGGTAAAATGGCTATTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
** *
66811167 CCCTTATGTGGTAAAACAATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
66811194 -CCATATGTGGTAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
66811220 CCCTTATATGGTAAGATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
*
66811247 CCCCTATGTG
1 CCCTTATGTG
66811257 ATGTATAGAT
Statistics
Matches: 165, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.13
27 144 0.87
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTGTTTTG
Found at i:66811117 original size:54 final size:54
Alignment explanation
Indices: 66811032--66811249 Score: 244
Period size: 54 Copynumber: 4.1 Consensus size: 54
66811022 TACCTAGACC
* * * *
66811032 CCCTTATGTGGTAAAATGACTATTTTCCCCTCATGAGGTAAAATGATTGTTTTG
1 CCCTCATGAGGTAAAATGGCTATTTTGCCCTCATGAGGTAAAATGATTGTTTTG
* * *
66811086 CCCTCATGAGGTAAAATGGTTGTTTTGCCCTCATGAGGTAAAATGATTGTTTTA
1 CCCTCATGAGGTAAAATGGCTATTTTGCCCTCATGAGGTAAAATGATTGTTTTG
* * **
66811140 CCCTCAT-ATGGTAAAATGGCTATTTTGCCCTTATGTGGTAAAACAATTGTTTTG
1 CCCTCATGA-GGTAAAATGGCTATTTTGCCCTCATGAGGTAAAATGATTGTTTTG
* * * * * *
66811194 CCAT-ATGTGGTAAAATGACTATTTTGCCCTTAT-ATGGTAAGATGACTGTTTTG
1 CCCTCATGAGGTAAAATGGCTATTTTGCCCTCATGA-GGTAAAATGATTGTTTTG
66811247 CCC
1 CCC
66811250 CTATGTGATG
Statistics
Matches: 138, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
53 43 0.31
54 95 0.69
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (54 bp):
CCCTCATGAGGTAAAATGGCTATTTTGCCCTCATGAGGTAAAATGATTGTTTTG
Found at i:66811155 original size:81 final size:80
Alignment explanation
Indices: 66811036--66811249 Score: 259
Period size: 81 Copynumber: 2.7 Consensus size: 80
66811026 TAGACCCCCT
* *
66811036 TATGTGGTAAAATGACTATTTTCCCCTCATGA-GGTAAAATGATTGTTTTGCCCTCATGAGGTAA
1 TATGTGGTAAAATGACTATTTTACCCTCAT-ATGGTAAAATGACTGTTTTGCCCTCATGAGGTAA
***
66811100 AATGGTTGTTTTGCCC
65 AACAATTGTTTTGCCC
* * * * * * *
66811116 TCATGAGGTAAAATGATTGTTTTACCCTCATATGGTAAAATGGCTATTTTGCCCTTATGTGGTAA
1 T-ATGTGGTAAAATGACTATTTTACCCTCATATGGTAAAATGACTGTTTTGCCCTCATGAGGTAA
*
66811181 AACAATTGTTTTGCCA
65 AACAATTGTTTTGCCC
* * *
66811197 TATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAGATGACTGTTTTGCCC
1 TATGTGGTAAAATGACTATTTTACCCTCATATGGTAAAATGACTGTTTTGCCC
66811250 CTATGTGATG
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 46 0.41
81 65 0.59
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (80 bp):
TATGTGGTAAAATGACTATTTTACCCTCATATGGTAAAATGACTGTTTTGCCCTCATGAGGTAAA
ACAATTGTTTTGCCC
Found at i:66815597 original size:29 final size:31
Alignment explanation
Indices: 66815558--66815615 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
66815548 AAAATGCATA
*
66815558 TTAGGGATT-AATTTGTGAA-AATATGAAAAT
1 TTAGGGATTAAATGTGTGAATAA-ATGAAAAT
66815588 TTAGGG-TTAAATGTGTGAATAAATGAAA
1 TTAGGGATTAAATGTGTGAATAAATGAAA
66815616 GATATGGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.84
31 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.34
Consensus pattern (31 bp):
TTAGGGATTAAATGTGTGAATAAATGAAAAT
Found at i:66818926 original size:52 final size:50
Alignment explanation
Indices: 66818859--66818975 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
66818849 ATGAACAAAT
* * * * * *
66818859 GAGTTACTTATTGCATGACTTAGTTTAATGATGCAGACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTT-ATGATGCAAAC-TTAACTAACATGA
* *
66818911 GAGTTACATAATGCATGTCATAATTTATTATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTATGATGCAAACTTAACTAACATGA
66818961 GAGTTACATAATGCA
1 GAGTTACATAATGCA
66818976 CAACTTTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 27 0.47
51 9 0.16
52 21 0.37
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACATAATTTATGATGCAAACTTAACTAACATGA
Found at i:66819051 original size:9 final size:9
Alignment explanation
Indices: 66819037--66819061 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
66819027 ATTAAAGACA
66819037 AACTAAAGT
1 AACTAAAGT
66819046 AACTAAAGT
1 AACTAAAGT
66819055 AACTAAA
1 AACTAAA
66819062 ATGAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.08, T:0.20
Consensus pattern (9 bp):
AACTAAAGT
Found at i:66821683 original size:46 final size:45
Alignment explanation
Indices: 66821556--66821693 Score: 197
Period size: 45 Copynumber: 3.0 Consensus size: 45
66821546 AAAGTGTGGC
* *
66821556 GTTCATTTATACCGAGGTTCCTATCATTCTTGATAGTGGATCGAG
1 GTTCATATATACCGAGGTTCCTATCATTCTTGATAGTGGGTCGAG
* * * *
66821601 ATTCATTTATATCGAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATATATACCGAGGTTCCTATCATTCTTGATAGTGGGTCGAG
66821646 GTTCATCATATACC-AGGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCAT-ATATACCGA-GGTTCCTATCATTCTTGATAGTGGGTCGAG
66821692 GT
1 GT
66821694 CTTTTCTTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
45 47 0.57
46 36 0.43
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (45 bp):
GTTCATATATACCGAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:66822443 original size:37 final size:37
Alignment explanation
Indices: 66822369--66822443 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
66822359 ATTTGAAAGA
* *
66822369 AAATATGGGTTGATATGAGCATAGTAAATCTTCGGCT
1 AAATATGGGCTGATATGAGCATAGTAAAGCTTCGGCT
* *
66822406 AAATATGGGCTGATATGAGCATAGTAAAGGTTTGGCT
1 AAATATGGGCTGATATGAGCATAGTAAAGCTTCGGCT
66822443 A
1 A
66822444 GCTTGGGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (37 bp):
AAATATGGGCTGATATGAGCATAGTAAAGCTTCGGCT
Found at i:66828406 original size:28 final size:28
Alignment explanation
Indices: 66828360--66828428 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
66828350 TTTAAAACCC
*
66828360 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
66828387 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
66828415 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
66828429 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:66830080 original size:20 final size:20
Alignment explanation
Indices: 66830057--66830094 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66830047 CACATCCAAA
*
66830057 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
66830077 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
66830095 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:66836416 original size:28 final size:28
Alignment explanation
Indices: 66836370--66836438 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
66836360 TTTAAAACCC
*
66836370 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
66836397 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
66836425 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
66836439 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:66838089 original size:20 final size:20
Alignment explanation
Indices: 66838066--66838103 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66838056 CACATCCAAA
*
66838066 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
66838086 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
66838104 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:66849126 original size:30 final size:30
Alignment explanation
Indices: 66849090--66849190 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
66849080 GACAAGATTG
* * *
66849090 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66849120 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66849148 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
66849177 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66849191 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:66849202 original size:29 final size:28
Alignment explanation
Indices: 66849119--66849194 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
66849109 AAAATTGTAC
* *
66849119 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
66849147 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
66849176 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
66849195 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:66852857 original size:41 final size:40
Alignment explanation
Indices: 66852680--66852860 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
66852670 AATCAAGCAT
** ** * *
66852680 CTTCGGGGTTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
66852718 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66852758 CTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
66852798 CTTC-GGATCCTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
66852839 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
66852861 CATTCGAGTA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 11 0.09
39 18 0.15
40 59 0.50
41 26 0.22
42 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:66853576 original size:2 final size:2
Alignment explanation
Indices: 66853569--66853598 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
66853559 ATGTGCAAAC
*
66853569 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66853599 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:66860471 original size:47 final size:47
Alignment explanation
Indices: 66860399--66860679 Score: 330
Period size: 47 Copynumber: 5.7 Consensus size: 47
66860389 CCTTTCGGGA
* * * * *
66860399 CTTATCACATTTATACA-TTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTT-CACATTCATCACATCGGCCATTCGGC
* * *
66860446 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
66860493 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCAT--CA-----CATCGGCCATTCGGC
*
66860549 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
66860596 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
66860643 CTTATCACATATATATACACCTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
66860680 AAAATCCTAA
Statistics
Matches: 209, Mismatches: 13, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
47 114 0.55
48 3 0.01
49 47 0.22
51 2 0.01
52 2 0.01
54 21 0.10
56 20 0.10
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:66860670 original size:150 final size:150
Alignment explanation
Indices: 66860399--66860679 Score: 456
Period size: 150 Copynumber: 1.9 Consensus size: 150
66860389 CCTTTCGGGA
* * * *
66860399 CTTATCACATTTATACATTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACATTTCCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
66860464 TTTCACATTCATCACATTGGCCATTCGACCTTATCACATATATATACACCTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATATACACCTTCACATTCATCACA
66860529 TCGGCCATCGGCCATTAGGC
131 TCGGCCATCGGCCATTAGGC
* * *
66860549 CTTATCACATATATACACTTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACATATATACA-TTTCCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACA
*
66860613 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCAC
65 CTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATATACACCTTCACATTCATCAC
66860678 AT
130 AT
66860680 AAAATCCTAA
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
150 117 0.98
151 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (150 bp):
CTTATCACATATATACATTTCCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATCGGCCATTAGGC
Found at i:66867354 original size:30 final size:31
Alignment explanation
Indices: 66867290--66867368 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 31
66867280 ATATCAGCCT
* * *
66867290 CTGGGCCTAAACCTTTACATTATTCATGTCA
1 CTGGGCCGAAGCCTTTACATTATTCATATCA
*
66867321 CTGGGCCGAAGCCTTTTCATTATT-ATATCA
1 CTGGGCCGAAGCCTTTACATTATTCATATCA
66867351 CTGGGCCGAAGCCTTTAC
1 CTGGGCCGAAGCCTTTAC
66867369 TACAAACGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 22 0.51
31 21 0.49
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (31 bp):
CTGGGCCGAAGCCTTTACATTATTCATATCA
Found at i:66867608 original size:24 final size:25
Alignment explanation
Indices: 66867581--66867632 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
66867571 GCCTAGCCTC
*
66867581 TTTTAAT-AACTAGGGTAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* *
66867605 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
66867630 TTT
1 TTT
66867633 GCACTTCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:66867633 original size:24 final size:23
Alignment explanation
Indices: 66867575--66867633 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
66867565 CTGGAGGCCT
* *
66867575 AGCCTCTTTTAATAACTAGGGTAA
1 AGCC-CTTTTGATAACTAGGGCAA
*
66867599 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGAT-AACTAGGGCAA
66867624 AGCCCTTTTG
1 AGCCCTTTTG
66867634 CACTTCCTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 15 0.50
25 14 0.47
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (23 bp):
AGCCCTTTTGATAACTAGGGCAA
Found at i:66869135 original size:3 final size:3
Alignment explanation
Indices: 66869127--66869184 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
66869117 GTTACATATT
66869127 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66869175 TAA TAA TAA T
1 TAA TAA TAA T
66869185 TTCATAAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:66872146 original size:11 final size:11
Alignment explanation
Indices: 66872130--66872154 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66872120 CCTGTAACAC
66872130 TCAAAACATTA
1 TCAAAACATTA
66872141 TCAAAACATTA
1 TCAAAACATTA
66872152 TCA
1 TCA
66872155 TACTTTCCTT
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:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (11 bp):
TCAAAACATTA
Found at i:66872320 original size:49 final size:49
Alignment explanation
Indices: 66872248--66872711 Score: 363
Period size: 49 Copynumber: 9.8 Consensus size: 49
66872238 GGGTTAAGTT
*
66872248 GCCGATGCCATGTCCCAGACATGGTCTTTCACTGGCTATCTTCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAG
* * *
66872297 GCCGATGCCATGTCCCAGTCATGGTCTTACACTGGTTATCTTCATCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAG
** *
66872346 GCTAATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAG
* * *
66872395 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGT-ATAC-AT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-T-TCAT-CGAG
** * * ** * *
66872445 GTTGATG-CATGTCTCAGACAT-GTCTTACACTAGC-A-C-GAAGCTTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATC-GAG
* * * * * *
66872489 GCTGATG-CATGTCCCAAACA-CGTCTTACACTGGCTACCATCATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAG
* * * *
66872536 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATC-TCTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCTTCATCGAG
* * * *
66872582 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-ATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAG
* * * ** * * *
66872629 GCTGATG-CATGTCCCAGACA-CGTCTTACACTAGCCCTCATC-TCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAG
* * *
66872675 ACCGATGCCATGTCCTAGACATGGACTTACACTGGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
66872712 CTCACATAAC
Statistics
Matches: 336, Mismatches: 58, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.00
44 30 0.09
45 16 0.05
46 31 0.09
47 70 0.21
48 39 0.12
49 138 0.41
50 9 0.03
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAG
Found at i:66872421 original size:98 final size:94
Alignment explanation
Indices: 66872251--66872711 Score: 381
Period size: 93 Copynumber: 4.9 Consensus size: 94
66872241 TTAAGTTGCC
* * *
66872251 GATGCCATGTCCCAGACATGGTCTTTCACTGGCTATCTTCATCGAGGCCGATGCCATGTCCCAGT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTTTATCGA-GCCGATGCCATGTCCCAGA
*
66872316 CATGGTCTTACACTGGTTATCTTCATCAAGGCT
63 CATGGTCTTACACTGGCTATCTTCAT-AAGGCT
*
66872349 AATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTTATCGAGGCCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTTTATCGA-GCCGATGCCATGTCCCAGA
* * * *
66872414 CATGGTCTTACACTAGCTCTCGTGT-ATACATGTT
63 CATGGTCTTACACTGGCTATC-T-TCATA-AGGCT
* * ** * * * *
66872448 GATGCATGTCTCAGACATGTCTTACACTAGC-A-C-GAAGCTTAGCTGATG-CATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTTTATC-GAGCCGATGCCATGTCCCAGACA
* * * *
66872509 -CGTCTTACACTGGCTACCATCATTGAGGCT
65 TGGTCTTACACTGGCTATCTTCA-TAAGGCT
*
66872539 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTA-C-A-CCGATGCCATGTCCCAGA
1 GATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTTTATCGAGCCGATGCCATGTCCCAGA
* * **
66872601 CATGGTCTTACACTGGCTAT-ATAATGTGGCT
63 CATGGTCTTACACTGGCTATCTTCATAAGGCT
* * ** *
66872632 GATGCATGTCCCAGACACGTCTTACACTAGCCCTCATCTCAAT--A-CCGATGCCATGTCCTAGA
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCT-ATCTTTATCGAGCCGATGCCATGTCCCAGA
*
66872694 CATGGACTTACACTGGCT
63 CATGGTCTTACACTGGCT
66872712 CTCACATAAC
Statistics
Matches: 305, Mismatches: 41, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
90 1 0.00
91 32 0.10
92 15 0.05
93 95 0.31
94 25 0.08
95 18 0.06
96 3 0.01
97 13 0.04
98 93 0.30
99 9 0.03
100 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTTTATCGAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTATCTTCATAAGGCT
Found at i:66872514 original size:44 final size:46
Alignment explanation
Indices: 66872447--66872659 Score: 172
Period size: 47 Copynumber: 4.6 Consensus size: 46
66872437 GTATACATGT
* *
66872447 TGATGCATGTCTCAGACATGTCTTACACTAGCACGAAGC-TT-A-GC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCAC-AAGCATTGAGGC
* * * *
66872491 TGATGCATGTCCCAAACACGTCTTACACTGGCTACCATCATTGAGGC
1 TGATGCATGTCCCAGACATGTCTTACACTGGC-ACAAGCATTGAGGC
* * **
66872538 TGATGCATGTCCCAGACATGTCTTACACTGGCAC--TCATCTCTACAC
1 TGATGCATGTCCCAGACATGTCTTACACTGGCACAAGCAT-T-GAGGC
* * *
66872584 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATATA--A-TGTGGC
1 TGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACA-AGCATTGAGGC
*
66872631 TGATGCATGTCCCAGACACGTCTTACACT
1 TGATGCATGTCCCAGACATGTCTTACACT
66872660 AGCCCTCATC
Statistics
Matches: 138, Mismatches: 19, Indels: 23
0.77 0.11 0.13
Matches are distributed among these distances:
44 34 0.25
45 15 0.11
46 22 0.16
47 51 0.37
48 14 0.10
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
TGATGCATGTCCCAGACATGTCTTACACTGGCACAAGCATTGAGGC
Found at i:66872682 original size:46 final size:46
Alignment explanation
Indices: 66872539--66872695 Score: 135
Period size: 47 Copynumber: 3.4 Consensus size: 46
66872529 CATTGAGGCT
* * *
66872539 GATG-CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACACC
1 GATGCCATGTCCCAGACACGTCTTACACT-GCACTCATCTCAATACC
* * * * *
66872585 GATGCCATGTCCCAGACATGGTCTTACACTG-GCT-ATAT-AATGTGGCT
1 GATGCCATGTCCCAGACA-CGTCTTACACTGCACTCATCTCAA--T-ACC
*
66872632 GATG-CATGTCCCAGACACGTCTTACACTAGCCCTCATCTCAATACC
1 GATGCCATGTCCCAGACACGTCTTACACT-GCACTCATCTCAATACC
*
66872678 GATGCCATGTCCTAGACA
1 GATGCCATGTCCCAGACA
66872696 TGGACTTACA
Statistics
Matches: 88, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
44 1 0.01
45 13 0.15
46 25 0.28
47 34 0.39
48 13 0.15
49 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCCAGACACGTCTTACACTGCACTCATCTCAATACC
Found at i:66874931 original size:18 final size:17
Alignment explanation
Indices: 66874897--66874942 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
66874887 TTAAAATTTA
*
66874897 TAAAATATTAAATAAAAT
1 TAAAA-ATTAAAAAAAAT
66874915 TAAAAATTACAAAAAAAT
1 TAAAAATTA-AAAAAAAT
*
66874933 TAATAATTAA
1 TAAAAATTAA
66874943 TAATCATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAATTAAAAAAAAT
Found at i:66875216 original size:39 final size:39
Alignment explanation
Indices: 66875173--66875254 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 39
66875163 TATATCCCAT
*
66875173 TAAAAAATGTATATCAATTATTTTATTACATGTGTAACC
1 TAAAAAAGGTATATCAATTATTTTATTACATGTGTAACC
* * * *
66875212 T--AAAAGGTGTATCAATTATTTTCTTACATGTGTAGCT
1 TAAAAAAGGTATATCAATTATTTTATTACATGTGTAACC
66875249 TAAAAA
1 TAAAAA
66875255 GTTTAAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
37 32 0.89
39 4 0.11
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (39 bp):
TAAAAAAGGTATATCAATTATTTTATTACATGTGTAACC
Found at i:66876327 original size:17 final size:16
Alignment explanation
Indices: 66876295--66876329 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
66876285 AAATTGTTTT
66876295 TTAAAATATAAAATTA
1 TTAAAATATAAAATTA
*
66876311 TTAAAATTATTAAATTA
1 TTAAAA-TATAAAATTA
66876328 TT
1 TT
66876330 TTAATTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAATATAAAATTA
Found at i:66876522 original size:29 final size:29
Alignment explanation
Indices: 66876490--66876553 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
66876480 AAAATCAAAC
*
66876490 TTAAAAACTTGGGTTTTCAAAACCTATTT
1 TTAAAAACATGGGTTTTCAAAACCTATTT
** *
66876519 TT-AAAACATGGGTTTTTGAAACTTATTT
1 TTAAAAACATGGGTTTTCAAAACCTATTT
66876547 TTAAAAA
1 TTAAAAA
66876554 TCCACCTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (29 bp):
TTAAAAACATGGGTTTTCAAAACCTATTT
Found at i:66877294 original size:11 final size:11
Alignment explanation
Indices: 66877278--66877322 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
66877268 TGATGATGAC
66877278 AATTTTAAAAT
1 AATTTTAAAAT
66877289 AATTTTAAAAT
1 AATTTTAAAAT
66877300 --TTTT-AAA-
1 AATTTTAAAAT
66877307 AATTTTAAAAT
1 AATTTTAAAAT
*
66877318 CATTT
1 AATTT
66877323 GCTATATTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
8 3 0.10
9 8 0.28
10 3 0.10
11 15 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:66877310 original size:10 final size:9
Alignment explanation
Indices: 66877278--66877316 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
66877268 TGATGATGAC
66877278 AATTTTAAAA
1 AATTTT-AAA
66877288 TAATTTTAAA
1 -AATTTTAAA
*
66877298 ATTTTTAAA
1 AATTTTAAA
66877307 AATTTTAAA
1 AATTTTAAA
66877316 A
1 A
66877317 TCATTTGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 17 0.65
10 3 0.12
11 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTTTAAA
Found at i:66877312 original size:18 final size:19
Alignment explanation
Indices: 66877278--66877317 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
66877268 TGATGATGAC
66877278 AATTTTAAAATAATTTTAA
1 AATTTTAAAATAATTTTAA
*
66877297 AATTTTTAAA-AATTTTAA
1 AATTTTAAAATAATTTTAA
66877315 AAT
1 AAT
66877318 CATTTGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTTAAAATAATTTTAA
Found at i:66877692 original size:29 final size:29
Alignment explanation
Indices: 66877650--66877719 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
66877640 GTAATAATAC
* **
66877650 TAAAT-TTAAGATTTATATTCCAAATAAA
1 TAAATATTAAAATTTATAAGCCAAATAAA
*
66877678 TAAATATTAAAATTTATAAGCCGAATAAA
1 TAAATATTAAAATTTATAAGCCAAATAAA
*
66877707 TAATTATTAAAAT
1 TAAATATTAAAAT
66877720 ATGAAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (29 bp):
TAAATATTAAAATTTATAAGCCAAATAAA
Found at i:66878450 original size:24 final size:24
Alignment explanation
Indices: 66878423--66878470 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
66878413 ATATATTAGA
66878423 TATTAGTAAT-ATAATAACAATTAC
1 TATTAGT-ATGATAATAACAATTAC
*
66878447 TATTAGTTTGATAATAACAATTAC
1 TATTAGTATGATAATAACAATTAC
66878471 CATCAAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (24 bp):
TATTAGTATGATAATAACAATTAC
Found at i:66880189 original size:30 final size:33
Alignment explanation
Indices: 66880153--66880214 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 33
66880143 ATTTGATACA
66880153 TAAACTTTAATT-TGGTGC-AAT-TATACATAT
1 TAAACTTTAATTCTGGTGCAAATGTATACATAT
*
66880183 TAAACTTTAATTCTGGTTCAAATGTATACATA
1 TAAACTTTAATTCTGGTGCAAATGTATACATA
66880215 AAATTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.43
31 5 0.18
32 3 0.11
33 8 0.29
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (33 bp):
TAAACTTTAATTCTGGTGCAAATGTATACATAT
Found at i:66882827 original size:42 final size:43
Alignment explanation
Indices: 66882722--66882860 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 43
66882712 GTGAAAGACG
* *
66882722 TGTCTGGGACACAGGCATCGATTTGAAATTTACGTGTAAGACCA
1 TGTCTGGGACACAGGCATCGATCTG-AATTTACGTATAAGACCA
* * *
66882766 TGTCTGGGACATC-GACATCGTATCTG-TTTTA-GTATAAGACCC
1 TGTCTGGGACA-CAGGCATCG-ATCTGAATTTACGTATAAGACCA
* * *
66882808 TGTTTGGGACACAGGCATCGATACTGAA-TTACATGTAAGACCA
1 TGTCTGGGACACAGGCATCGAT-CTGAATTTACGTATAAGACCA
*
66882851 CGTCTGGGAC
1 TGTCTGGGAC
66882861 GTCGACATTG
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
41 3 0.04
42 31 0.41
43 20 0.26
44 17 0.22
45 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TGTCTGGGACACAGGCATCGATCTGAATTTACGTATAAGACCA
Found at i:66883337 original size:12 final size:13
Alignment explanation
Indices: 66883320--66883351 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
66883310 GCAAATGTTA
66883320 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
66883332 AGTTTTGATGCAT
1 AGTTTTGATGCAT
66883345 -GTTTTGA
1 AGTTTTGA
66883352 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:66886166 original size:27 final size:27
Alignment explanation
Indices: 66886135--66886384 Score: 277
Period size: 27 Copynumber: 9.3 Consensus size: 27
66886125 TTACTTTACC
66886135 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *** **
66886162 AAATTACAAAAATACATTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
66886189 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ***
66886216 AAATTACTAAAATACCCTTGGTTTACC
1 AAATTACCAAAATACCCCTGGTTTGTA
66886243 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
66886270 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
66886297 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
66886324 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
66886351 AAATTACCCAAATA-TCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
66886378 AAATTAC
1 AAATTAC
66886385 TGAAATAAGA
Statistics
Matches: 182, Mismatches: 40, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 2 0.01
27 180 0.99
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:66886200 original size:54 final size:54
Alignment explanation
Indices: 66886129--66886391 Score: 332
Period size: 54 Copynumber: 4.9 Consensus size: 54
66886119 AATACTTTAC
* * *
66886129 TTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACATTTGG
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGG
*
66886183 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGG
*
66886237 TTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTT-G
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCTTTGG
* * * * *** *
66886291 TTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGG
* * * * *
66886345 TTTATAAAATTACCCAAATA-TCCTCGATTTGTAAAATTACTGAAATA
1 TTTACAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATA
66886392 AGATAGGATT
Statistics
Matches: 184, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 5 0.03
54 175 0.95
55 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGG
Found at i:66886429 original size:27 final size:27
Alignment explanation
Indices: 66886399--66886770 Score: 455
Period size: 27 Copynumber: 13.8 Consensus size: 27
66886389 ATAAGATAGG
*
66886399 ATTACCATTTTACCCTCGATTTACAGA
1 ATTACCGTTTTACCCTCGATTTACAGA
66886426 ATTACCGTTTTACCCTC-AGTTTACAGA
1 ATTACCGTTTTACCCTCGA-TTTACAGA
* * *
66886453 ATTACTGTTTTAGCCTCGATTTATAGA
1 ATTACCGTTTTACCCTCGATTTACAGA
* ** *
66886480 ATTGCCGTTTTACCCTCGATTTGTAAA
1 ATTACCGTTTTACCCTCGATTTACAGA
66886507 ATTACCGTTTTACCCTCGATTTACAGA
1 ATTACCGTTTTACCCTCGATTTACAGA
* *
66886534 ATTACTGTTTTACCCT-TAGTTTACAGA
1 ATTACCGTTTTACCCTCGA-TTTACAGA
** *
66886561 ATTACTATTTTACCCTCGATTTATAGA
1 ATTACCGTTTTACCCTCGATTTACAGA
*
66886588 ATTACCATTTTACCCTC-AGTTTACAGA
1 ATTACCGTTTTACCCTCGA-TTTACAGA
**
66886615 ATTACTATTTTACCCTCGATTTACAGA
1 ATTACCGTTTTACCCTCGATTTACAGA
** *
66886642 ATTACCGTTTTACCCTCGATTTGTAAA
1 ATTACCGTTTTACCCTCGATTTACAGA
*
66886669 ATTACCGTTTTACCCTTGATTTACAGA
1 ATTACCGTTTTACCCTCGATTTACAGA
* * *
66886696 ATTACTGGTTTACCCTC-AGTTTACAAA
1 ATTACCGTTTTACCCTCGA-TTTACAGA
*
66886723 ATTATCGTTTTACCCTCGATTTACAGA
1 ATTACCGTTTTACCCTCGATTTACAGA
*
66886750 ATTACCGTTTTACCCTTGATT
1 ATTACCGTTTTACCCTCGATT
66886771 GTGAAATTAC
Statistics
Matches: 297, Mismatches: 40, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.01
27 289 0.97
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTACCGTTTTACCCTCGATTTACAGA
Found at i:66886513 original size:81 final size:83
Alignment explanation
Indices: 66886399--66886765 Score: 507
Period size: 81 Copynumber: 4.5 Consensus size: 83
66886389 ATAAGATAGG
* *
66886399 ATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTGTTT
1 ATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTT
* *
66886463 TAGCCTCGA-TTTATAGA
66 TACCCTCGAGTTTACAGA
* * *
66886480 ATTGCCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTC-GATTTACAGAATTACTGTTT
1 ATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTT
*
66886544 TACCCT-TAGTTTACAGA
66 TACCCTCGAGTTTACAGA
** * *
66886561 ATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTATTT
1 ATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTT
66886625 TACCCTCGA-TTTACAGA
66 TACCCTCGAGTTTACAGA
* * * *
66886642 ATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCT-TGATTTACAGAATTACTGGTT
1 ATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTT
*
66886706 TACCCTC-AGTTTACAAA
66 TACCCTCGAGTTTACAGA
* *
66886723 ATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 ATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
66886766 TGATTGTGAA
Statistics
Matches: 251, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
80 4 0.02
81 245 0.98
82 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (83 bp):
ATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTT
TACCCTCGAGTTTACAGA
Found at i:66886805 original size:27 final size:27
Alignment explanation
Indices: 66886775--66886969 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
66886765 TTGATTGTGA
66886775 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
66886802 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
66886829 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
66886856 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
66886883 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
66886910 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
66886937 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
66886964 AATTAC
1 AATTAC
66886970 CATTTTGCCC
Statistics
Matches: 140, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:66886843 original size:54 final size:54
Alignment explanation
Indices: 66886782--66886970 Score: 272
Period size: 54 Copynumber: 3.5 Consensus size: 54
66886772 TGAAATTACT
* * *
66886782 GAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAGAATTA-C
1 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * *
66886835 TGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTATC
1 -GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
*
66886890 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * *
66886944 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
66886971 ATTTTGCCCT
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
54 119 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
Found at i:66886980 original size:27 final size:27
Alignment explanation
Indices: 66886950--66887013 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
66886940 TATCGAGATA
*
66886950 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
66886977 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
66887004 CCCTTGTGGG
1 CCCTTGTGGG
66887014 CAAGTGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:66887207 original size:27 final size:26
Alignment explanation
Indices: 66887169--66887251 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
66887159 CGGAGGAAGC
*
66887169 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
66887196 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
66887222 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
66887249 GTT
1 GTT
66887252 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:66887584 original size:27 final size:27
Alignment explanation
Indices: 66887562--66887635 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
66887552 TAGGTGGGTT
*
66887562 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
66887589 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
*
66887616 TGTCACAATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
66887636 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:66887762 original size:6 final size:6
Alignment explanation
Indices: 66887753--66887951 Score: 178
Period size: 6 Copynumber: 32.8 Consensus size: 6
66887743 TTGCATTCAC
* * *
66887753 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG GTTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
66887802 -TTACTA ATACTG ATTCTG ATTTTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* *
66887850 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
66887899 -TTACTA ATAT-TG ATTCTG ATTCTG GTTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
66887947 ATTCT
1 ATTCT
66887952 CATTTTGTTT
Statistics
Matches: 158, Mismatches: 19, Indels: 32
0.76 0.09 0.15
Matches are distributed among these distances:
5 11 0.07
6 134 0.85
7 10 0.06
8 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:66887913 original size:97 final size:97
Alignment explanation
Indices: 66887753--66887951 Score: 353
Period size: 97 Copynumber: 2.1 Consensus size: 97
66887743 TTGCATTCAC
* *
66887753 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGGTTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
66887818 TGATTTTGATTCTGTTACTGATTCTGATTCTG
66 TGATTCTGATTCTGTTACTGATTCTGATTCTG
*
66887850 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
66887915 TGATTCTGGTTCTGTTACTGATTCTGATTCTG
66 TGATTCTGATTCTGTTACTGATTCTGATTCTG
66887947 ATTCT
1 ATTCT
66887952 CATTTTGTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.49
Consensus pattern (97 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTGATTCTGATTCTG
Found at i:66887969 original size:30 final size:30
Alignment explanation
Indices: 66887753--66887972 Score: 217
Period size: 30 Copynumber: 7.1 Consensus size: 30
66887743 TTGCATTCAC
* *
66887753 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
* * *
66887784 ATTCTGGTTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
66887814 ATTCTGATTTTGATTCTGTTACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTAC-----C-AATTCTG
*
66887850 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
66887881 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
* **
66887911 ATTCTGATTCTGGTTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* * *
66887941 ATTCTGATTCTCATTTTGTTTCCAATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
66887971 AT
1 AT
66887973 AATGTTTCTT
Statistics
Matches: 160, Mismatches: 21, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
29 1 0.01
30 84 0.52
31 50 0.31
36 25 0.16
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:66891571 original size:46 final size:46
Alignment explanation
Indices: 66891518--66891693 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
66891508 TATTTGGGCA
66891518 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
66891564 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
66891611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
66891657 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66891694 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:66891673 original size:93 final size:93
Alignment explanation
Indices: 66891514--66891685 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66891504 GGGATATTTG
* *
66891514 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
66891579 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
66891607 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
66891672 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
66891686 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:66895995 original size:44 final size:43
Alignment explanation
Indices: 66895930--66896080 Score: 139
Period size: 42 Copynumber: 3.5 Consensus size: 43
66895920 CCTGAATTAT
* * *
66895930 CATGTAAGGCCGTGTCTGGGACACAGGCATCGATTTTAAATTTA
1 CATGTAAGACCATGTCTGGGACACAGGCATCGATTCT-AATTTA
* * *
66895974 CGTGTAAGACCATGTCTGGGACATC-GGCATCG-TATCT-GTTTT
1 CATGTAAGACCATGTCTGGGACA-CAGGCATCGAT-TCTAATTTA
* * * *
66896016 CATATAAGACCCTGTCTGGGACATAGGCATCGATACTGAA-TTA
1 CATGTAAGACCATGTCTGGGACACAGGCATCGATTCT-AATTTA
*
66896059 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCATGTCTGGGAC
66896081 GTCGGCATTG
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 32 0.38
43 23 0.27
44 29 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACACAGGCATCGATTCTAATTTA
Found at i:66896037 original size:42 final size:43
Alignment explanation
Indices: 66895921--66896088 Score: 137
Period size: 42 Copynumber: 3.9 Consensus size: 43
66895911 TGGTATTAAC
* * * *
66895921 CTGAATTATCATGTAAGGCCGTGTCTGGGACA-CAGGCATCGATT
1 CTGAATTA-CATATAAGACCCTGTCTGGGACATC-GGCATCGATA
* * * * *
66895965 TTAAATTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TA
1 CTGAA-TTACATATAAGACCCTGTCTGGGACATCGGCATCGATA
* * *
66896008 TCTG-TTTTCATATAAGACCCTGTCTGGGACATAGGCATCGATA
1 -CTGAATTACATATAAGACCCTGTCTGGGACATCGGCATCGATA
* *
66896051 CTGAATTACATGTAAGACCAC-GTCTGGGACGTCGGCAT
1 CTGAATTACATATAAGACC-CTGTCTGGGACATCGGCAT
66896089 TGTACTTGTC
Statistics
Matches: 99, Mismatches: 19, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
42 33 0.33
43 30 0.30
44 32 0.32
45 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (43 bp):
CTGAATTACATATAAGACCCTGTCTGGGACATCGGCATCGATA
Found at i:66898807 original size:12 final size:13
Alignment explanation
Indices: 66898790--66898821 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
66898780 GAAAATGTTA
66898790 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
66898802 AGTTTTGATGCAT
1 AGTTTTGATGCAT
66898815 -GTTTTGA
1 AGTTTTGA
66898822 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:66900187 original size:40 final size:40
Alignment explanation
Indices: 66900143--66900221 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
66900133 AATTCATCTC
66900143 TTGTTCATATTTTCTCACGTCAAAATTTTGCCTATTGAAA
1 TTGTTCATATTTTCTCACGTCAAAATTTTGCCTATTGAAA
*
66900183 TTGTTCATATTTTCTCATGTCAAAATTTTGCCTATTGAA
1 TTGTTCATATTTTCTCACGTCAAAATTTTGCCTATTGAA
66900222 CTTATTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (40 bp):
TTGTTCATATTTTCTCACGTCAAAATTTTGCCTATTGAAA
Found at i:66900653 original size:65 final size:65
Alignment explanation
Indices: 66900549--66900695 Score: 206
Period size: 65 Copynumber: 2.3 Consensus size: 65
66900539 GTATCAGGAT
* * *
66900549 GCTCATAAAGAGCTACGTTTATGTCCACAACATATGCAGGATCACAACCGATCACAT-AACAAGA
1 GCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACAGATCA-ATAAACAAGA
66900613 C
65 C
* * * * *
66900614 GCTCACAAAGAGCTGTGTTTGTGTCCGCAACATATGCAGGATCACAACAGATCAATAAACATGAT
1 GCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACAGATCAATAAACAAGAC
66900679 GCTCACAAAGAGCTGCG
1 GCTCACAAAGAGCTGCG
66900696 GTAGTCGCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 2 0.03
65 70 0.97
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (65 bp):
GCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACAGATCAATAAACAAGAC
Found at i:66900908 original size:17 final size:17
Alignment explanation
Indices: 66900882--66900917 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
66900872 CGAGACTTAA
*
66900882 CATTTTTCGGGCTTTAT
1 CATTTATCGGGCTTTAT
66900899 CATTTATCGGGCTTTAT
1 CATTTATCGGGCTTTAT
66900916 CA
1 CA
66900918 GATATGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (17 bp):
CATTTATCGGGCTTTAT
Found at i:66903682 original size:45 final size:46
Alignment explanation
Indices: 66903618--66903792 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
66903608 TGTAACCCGC
*
66903618 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
66903663 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
66903713 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
66903756 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66903793 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:66903783 original size:93 final size:92
Alignment explanation
Indices: 66903625--66903795 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
66903615 CGCCCATAAG
*
66903625 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66903690 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
66903717 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66903782 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
66903796 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66911293 original size:93 final size:93
Alignment explanation
Indices: 66911180--66911351 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66911170 CGCCCATAAG
* *
66911180 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66911245 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
66911273 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66911338 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
66911352 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66911348 original size:46 final size:46
Alignment explanation
Indices: 66911173--66911348 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
66911163 TGTAACCCGC
* * *
66911173 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
66911219 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
66911269 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
66911312 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66911349 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:66913426 original size:6 final size:6
Alignment explanation
Indices: 66913415--66913441 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
66913405 GAGCATCTAT
66913415 GAAAAG GAAAAG GAAAAG GAAAAG GAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAA
66913442 TGATTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:66913645 original size:17 final size:17
Alignment explanation
Indices: 66913625--66913663 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
66913615 TTATGAAAAG
*
66913625 TATGATTTTATATGATT
1 TATGATTTCATATGATT
66913642 TATGATTTCATATGATT
1 TATGATTTCATATGATT
66913659 TATGA
1 TATGA
66913664 AAAGGGATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (17 bp):
TATGATTTCATATGATT
Found at i:66913697 original size:140 final size:140
Alignment explanation
Indices: 66913523--66913788 Score: 514
Period size: 140 Copynumber: 1.9 Consensus size: 140
66913513 AATGGGTATA
*
66913523 AAAAGGGATGAACTGGTAAGGGTTCTGATGGATTTCACTATGAAATTGTGGAAAGGTATGAAGTA
1 AAAAGGGATGAACCGGTAAGGGTTCTGATGGATTTCACTATGAAATTGTGGAAAGGTATGAAGTA
*
66913588 TTGATAAATAAAGTATGTATATCCATGTTATGAAAAGTATGATTTTATATGATTTATGATTTCAT
66 TTGATAAATAAAGTATGTATATCCATGTTATGAAAAGTATGATTTCATATGATTTATGATTTCAT
66913653 ATGATTTATG
131 ATGATTTATG
66913663 AAAAGGGATGAACCGGTAAGGGTTCTGATGGATTTCACTATGAAATTGTGGAAAGGTATGAAGTA
1 AAAAGGGATGAACCGGTAAGGGTTCTGATGGATTTCACTATGAAATTGTGGAAAGGTATGAAGTA
66913728 TTGATAAATAAAGTATGTATATCCATGTTATGAAAAGTATGATTTCATATGATTTATGATT
66 TTGATAAATAAAGTATGTATATCCATGTTATGAAAAGTATGATTTCATATGATTTATGATT
66913789 ATAAGATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (140 bp):
AAAAGGGATGAACCGGTAAGGGTTCTGATGGATTTCACTATGAAATTGTGGAAAGGTATGAAGTA
TTGATAAATAAAGTATGTATATCCATGTTATGAAAAGTATGATTTCATATGATTTATGATTTCAT
ATGATTTATG
Found at i:66922765 original size:21 final size:22
Alignment explanation
Indices: 66922740--66922786 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
66922730 GTTTTCGTAA
*
66922740 TATTTTGTCTCAAG-TTTTGAT
1 TATTTTATCTCAAGATTTTGAT
* *
66922761 TATTTTATGTCAAGATTTTGCT
1 TATTTTATCTCAAGATTTTGAT
66922783 TATT
1 TATT
66922787 AAATCAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (22 bp):
TATTTTATCTCAAGATTTTGAT
Found at i:66939045 original size:43 final size:43
Alignment explanation
Indices: 66938984--66939165 Score: 204
Period size: 43 Copynumber: 4.2 Consensus size: 43
66938974 AGGATTTTCA
* **
66938984 ATATATGATTAC-ATGTAAGACCACGTCTGGGAAATTGGCATCG
1 ATATGTGATTACGA-GTAAGACCACGTCTGGGACGTTGGCATCG
* *
66939027 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTCGGCATCG
1 ATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCG
* * * * * *
66939070 ATATGTGATTATGAGTAAGACTACGTTTAGTACGTTGGCATTG
1 ATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCG
* *** *
66939113 ATATGTGATTACGAGTAAGACCACGTTTAATACGTTGGCATCA
1 ATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCG
66939156 ATATGTGATT
1 ATATGTGATT
66939166 CTGATATGTG
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:66946844 original size:29 final size:29
Alignment explanation
Indices: 66946811--66946942 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
66946801 GTGACGAGAT
66946811 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66946840 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
66946869 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
66946898 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
66946927 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66946943 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:66950423 original size:40 final size:40
Alignment explanation
Indices: 66950378--66950569 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
66950368 ATAACCACAA
* *
66950378 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
* *
66950418 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
* *
66950458 GCACAAATGCCTTCGGGTCTTAACCCGAGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
* * * *
66950498 GCACAAATGCCTTCAGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTAT-AGCAACTC
* *
66950538 GCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGGTAT
66950570 CATTCAAATG
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 131 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGGTATAGCAACTC
Found at i:66950463 original size:80 final size:79
Alignment explanation
Indices: 66950358--66950569 Score: 318
Period size: 80 Copynumber: 2.7 Consensus size: 79
66950348 TCTTCGGAAT
* *
66950358 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
66950422 AAATGCCTTCGGGTC
65 AAATGCCTTCAGGTC
* *
66950437 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGAGTATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
66950502 AAATGCCTTCAGGTC
65 AAATGCCTTCAGGTC
* * *
66950517 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
66950570 CATTCAAATG
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
79 5 0.04
80 114 0.95
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCAGGTC
Found at i:66953060 original size:15 final size:15
Alignment explanation
Indices: 66953028--66953056 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66953018 ATTTTCAGTG
66953028 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
66953043 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
66953057 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:66956765 original size:30 final size:30
Alignment explanation
Indices: 66956708--66956766 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
66956698 ACCCCTTTCC
*
66956708 GGTGATGGATACGGGTTAAGGGGGTTACAA
1 GGTGATGGACACGGGTTAAGGGGGTTACAA
* *
66956738 GGTGTTGGACACGGG-TATAGGGTGTTACA
1 GGTGATGGACACGGGTTA-AGGGGGTTACA
66956767 TTATAGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.24, C:0.08, G:0.42, T:0.25
Consensus pattern (30 bp):
GGTGATGGACACGGGTTAAGGGGGTTACAA
Found at i:66961685 original size:40 final size:40
Alignment explanation
Indices: 66961557--66961705 Score: 138
Period size: 40 Copynumber: 3.7 Consensus size: 40
66961547 CCGCACCAAG
* * * * * * *
66961557 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
* * * *
66961597 GCCTTCGGGTCTTAGCCCAGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
** *
66961637 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
* *
66961677 GTCC-TCGGGACTTAGCCCGGATATCACAA
1 G-CCTTCGGGTCTTAGCCCGGATATAACAA
66961706 TTTGCTCATG
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 86 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
Found at i:66972740 original size:18 final size:18
Alignment explanation
Indices: 66972717--66972781 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
66972707 GTTTAACTCG
66972717 ATTTTTGATAATTTCTAC
1 ATTTTTGATAATTTCTAC
* *
66972735 ATTTTTGAGATTGTTGACT-C
1 ATTTTTGATAAT-TT--CTAC
66972755 GATTTTTGATAATTTCTAC
1 -ATTTTTGATAATTTCTAC
*
66972774 GTTTTTGA
1 ATTTTTGA
66972782 GATCGTTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
18 19 0.51
19 3 0.08
20 3 0.08
21 12 0.32
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTTTGATAATTTCTAC
Found at i:66972766 original size:39 final size:39
Alignment explanation
Indices: 66972712--66972789 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
66972702 TATGAGTTTA
*
66972712 ACTCGATTTTTGATAATTTCTACATTTTTGAGATTGTTG
1 ACTCGATTTTTGATAATTTCTACATTTTTGAGATCGTTG
*
66972751 ACTCGATTTTTGATAATTTCTACGTTTTTGAGATCGTTG
1 ACTCGATTTTTGATAATTTCTACATTTTTGAGATCGTTG
66972790 CTTCGAGTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.50
Consensus pattern (39 bp):
ACTCGATTTTTGATAATTTCTACATTTTTGAGATCGTTG
Found at i:66973858 original size:20 final size:20
Alignment explanation
Indices: 66973820--66973875 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
66973810 TATGAGAACT
* *
66973820 ATGATTAAATAGA-ATGTCA
1 ATGATTATATAAATATGTCA
66973839 ATGATTATATAAATATGTCA
1 ATGATTATATAAATATGTCA
*
66973859 ATGATTATATATATATG
1 ATGATTATATAAATATG
66973876 GTTTTGGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGATTATATAAATATGTCA
Found at i:66976843 original size:40 final size:39
Alignment explanation
Indices: 66976788--66976951 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 39
66976778 TGAATGATAC
* * *
66976788 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
66976828 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * * *
66976868 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTTCTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT-TATAT
* *
66976908 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-GTTATAT
66976948 CCGG
1 CCGG
66976952 TTAAATCCCG
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.04
40 97 0.91
41 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:66981543 original size:29 final size:29
Alignment explanation
Indices: 66981509--66981586 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
66981499 GTGACGAGAT
* *
66981509 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
66981538 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
66981567 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
66981587 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:66989393 original size:29 final size:29
Alignment explanation
Indices: 66989359--66989436 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
66989349 GTGACGAGAT
* *
66989359 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
66989388 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
66989417 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
66989437 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:67002154 original size:30 final size:30
Alignment explanation
Indices: 67002106--67002165 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
67002096 GAACTTTAAC
* * *
67002106 AAATTACAATGTGATCACTAATGTTTTTGA
1 AAATTACAATATGATCACTAACGTTATTGA
67002136 AAATTACAATAT-ATTCACTAACGTTATTGA
1 AAATTACAATATGA-TCACTAACGTTATTGA
67002166 TTTATTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (30 bp):
AAATTACAATATGATCACTAACGTTATTGA
Found at i:67002434 original size:22 final size:22
Alignment explanation
Indices: 67002403--67002446 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
67002393 AATTATTAAC
*
67002403 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
67002425 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAAATAATTTT
67002447 GATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:67019681 original size:2 final size:2
Alignment explanation
Indices: 67019674--67019699 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67019664 ATTAAGTTAT
67019674 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
67019700 AAGTAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67019728 original size:19 final size:19
Alignment explanation
Indices: 67019704--67019746 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
67019694 TATATAAAGT
67019704 AAAAGAAAAAAAAAAGAAA
1 AAAAGAAAAAAAAAAGAAA
* *
67019723 AAAAGAATAGAAAAAGAAA
1 AAAAGAAAAAAAAAAGAAA
*
67019742 GAAAG
1 AAAAG
67019747 GATGAAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAGAAA
Done.