Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 75 of 91
Found at i:27479235 original size:20 final size:20
Alignment explanation
Indices: 27479210--27479250 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27479200 CATCAATATC
27479210 GTTCATGCTCCTAGACATCT
1 GTTCATGCTCCTAGACATCT
27479230 GTTCATGCTCCTAGACATCT
1 GTTCATGCTCCTAGACATCT
27479250 G
1 G
27479251 CAGCTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (20 bp):
GTTCATGCTCCTAGACATCT
Found at i:27482189 original size:30 final size:29
Alignment explanation
Indices: 27482149--27482206 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
27482139 CTCGTTTCCT
* *
27482149 GTTTTCTACTCGTATTTTTTTTTTTTTTATC
1 GTTTTCTACTC-T-TTTGTTTTCTTTTTATC
27482180 GTTTT-TACTCTTTTGTTTTCTTTTTAT
1 GTTTTCTACTCTTTTGTTTTCTTTTTAT
27482207 TTTATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.56
29 1 0.04
30 5 0.20
31 5 0.20
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (29 bp):
GTTTTCTACTCTTTTGTTTTCTTTTTATC
Found at i:27493990 original size:15 final size:15
Alignment explanation
Indices: 27493970--27494002 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
27493960 AATTTAAATA
27493970 AATATATA-ATATATT
1 AATATATATATA-ATT
27493985 AATATATATATAATT
1 AATATATATATAATT
27494000 AAT
1 AAT
27494003 TTGATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATATATAATT
Found at i:27493993 original size:19 final size:19
Alignment explanation
Indices: 27493954--27493998 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
27493944 TATTATATTT
27493954 TATATAA-ATTTAAATAAA
1 TATATAATATTTAAATAAA
*
27493972 TATATAATATATT-AATATA
1 TATATAATAT-TTAAATAAA
27493991 TATATAAT
1 TATATAAT
27493999 TAATTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 15 0.62
20 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATAATATTTAAATAAA
Found at i:27497449 original size:19 final size:19
Alignment explanation
Indices: 27497427--27497485 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
27497417 TAAAATTATT
* *
27497427 ATTTAATTGATAAATAATA
1 ATTTAATTAATTAATAATA
27497446 ATTT-ATTAATTAATAA-A
1 ATTTAATTAATTAATAATA
*
27497463 ATATTAATTTATTAA-AATA
1 AT-TTAATTAATTAATAATA
27497482 ATTT
1 ATTT
27497486 TTTATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 16 0.47
19 15 0.44
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTTAATTAATTAATAATA
Found at i:27497464 original size:23 final size:22
Alignment explanation
Indices: 27497406--27497477 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
27497396 TCACGAAAAG
27497406 TTATTAATTAATAAAAT-T-A-
1 TTATTAATTAATAAAATATAAT
*
27497425 TTATTTAATTGAT-AAATAATAAT
1 TTA-TTAATTAATAAAAT-ATAAT
27497448 TTATTAATTAATAAAATATTAAT
1 TTATTAATTAATAAAATA-TAAT
27497471 TTATTAA
1 TTATTAA
27497478 AATAATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 7 0.16
20 8 0.18
21 1 0.02
22 10 0.23
23 18 0.41
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
TTATTAATTAATAAAATATAAT
Found at i:27497480 original size:16 final size:15
Alignment explanation
Indices: 27497407--27497481 Score: 50
Period size: 16 Copynumber: 5.1 Consensus size: 15
27497397 CACGAAAAGT
27497407 TATTAATTAATAAAA
1 TATTAATTAATAAAA
* **
27497422 TTATTATTTAAT-TGA
1 -TATTAATTAATAAAA
**
27497437 TA--AA-TAATAATT
1 TATTAATTAATAAAA
27497449 TATTAATTAATAAAA
1 TATTAATTAATAAAA
*
27497464 TATTAATTTATTAAAA
1 TATTAA-TTAATAAAA
27497480 TA
1 TA
27497482 ATTTTTTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
11 4 0.09
12 3 0.07
14 4 0.09
15 13 0.30
16 20 0.45
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
TATTAATTAATAAAA
Found at i:27514800 original size:18 final size:18
Alignment explanation
Indices: 27514779--27514816 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27514769 GTTGGTGTTT
27514779 GAGATGACAAAGTTGGGG
1 GAGATGACAAAGTTGGGG
* *
27514797 GAGATGACAGATTTGGGG
1 GAGATGACAAAGTTGGGG
27514815 GA
1 GA
27514817 AATGTCATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.45, T:0.18
Consensus pattern (18 bp):
GAGATGACAAAGTTGGGG
Found at i:27528803 original size:46 final size:46
Alignment explanation
Indices: 27528750--27528848 Score: 180
Period size: 46 Copynumber: 2.2 Consensus size: 46
27528740 CTTAATTGTA
27528750 TTTTTGGAAAAATTTATGTAATCATCTCCAAAACGTTTGTCAAATG
1 TTTTTGGAAAAATTTATGTAATCATCTCCAAAACGTTTGTCAAATG
* *
27528796 TTTTTGGAAAAATTTATGTAATCATCTCCACAACGTTTTTCAAATG
1 TTTTTGGAAAAATTTATGTAATCATCTCCAAAACGTTTGTCAAATG
27528842 TTTTTGG
1 TTTTTGG
27528849 GCAAAACAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (46 bp):
TTTTTGGAAAAATTTATGTAATCATCTCCAAAACGTTTGTCAAATG
Found at i:27531307 original size:83 final size:81
Alignment explanation
Indices: 27531164--27531333 Score: 259
Period size: 83 Copynumber: 2.1 Consensus size: 81
27531154 ATAATAATGC
27531164 CGATTACTACTATAATAAGATGAAAAGGAAACGAGAACAATATTTAATTAAAGGGATAAATATAT
1 CGATTACTACTATAATAAGATGAAAAGGAAACGAGAACAATATTTAATTAAAGGGAT-AA-ATAT
* *
27531229 ATATAAGTGGATGCTGAA
64 ACATAAGTGGATGCAGAA
* * * *
27531247 CGATTATTACTATGATAAGATGAAAAGGAAACGAGAGCAATATTTAATTAAAGGGGTAAATATAC
1 CGATTACTACTATAATAAGATGAAAAGGAAACGAGAACAATATTTAATTAAAGGGATAAATATAC
27531312 ATAAGTGGATGCAGAA
66 ATAAGTGGATGCAGAA
*
27531328 TGATTA
1 CGATTA
27531334 GGATCATTCT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 25 0.31
82 2 0.03
83 53 0.66
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.26
Consensus pattern (81 bp):
CGATTACTACTATAATAAGATGAAAAGGAAACGAGAACAATATTTAATTAAAGGGATAAATATAC
ATAAGTGGATGCAGAA
Found at i:27561915 original size:87 final size:87
Alignment explanation
Indices: 27561769--27561944 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
27561759 TATGATGAAT
*
27561769 ATGGGAAGGGAGACGCCTCCAATTTATAGGGGAAAAAAGATACCCATGTGGGTTAGTCTTGCATA
1 ATGGGAAGGGAGACGCCTCCAATTTATAGGGGAAAAAAGATACCAATGTGGGTTAGTCTTGCATA
* *
27561834 CCTGGTATAATTGGTGGAGTAA
66 CCTGATATAATTGGCGGAGTAA
*
27561856 ATGGGAAGGGAGACGCCTCCAATTTATAGGGGAAAAAAGATACCAATGTGGGTTAGTCTTGCATT
1 ATGGGAAGGGAGACGCCTCCAATTTATAGGGGAAAAAAGATACCAATGTGGGTTAGTCTTGCATA
27561921 CCTGATATAATTGGCGGAGTAA
66 CCTGATATAATTGGCGGAGTAA
27561943 AT
1 AT
27561945 CGATAGGGGT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.26
Consensus pattern (87 bp):
ATGGGAAGGGAGACGCCTCCAATTTATAGGGGAAAAAAGATACCAATGTGGGTTAGTCTTGCATA
CCTGATATAATTGGCGGAGTAA
Found at i:27574251 original size:22 final size:22
Alignment explanation
Indices: 27574209--27574306 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 22
27574199 ATTGCATTAT
*
27574209 TAATTTTTA-AATATTATGTGAC
1 TAATTTTTAGAA-ATTACGTGAC
*
27574231 TAATTTTTAGAAATTGCGTGAC
1 TAATTTTTAGAAATTACGTGAC
* * *
27574253 TGA-TTGTAGACATTACGTGAC
1 TAATTTTTAGAAATTACGTGAC
* * * * *
27574274 TGATTAGTTAGACATTGCATGAC
1 TAATT-TTTAGAAATTACGTGAC
27574297 TAATTTTTAG
1 TAATTTTTAG
27574307 GCATTGTGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 18 0.30
22 24 0.39
23 19 0.31
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (22 bp):
TAATTTTTAGAAATTACGTGAC
Found at i:27574271 original size:21 final size:23
Alignment explanation
Indices: 27574237--27574289 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 23
27574227 TGACTAATTT
* *
27574237 TTAGAAATTGCGTGACTGATT-G
1 TTAGACATTACGTGACTGATTAG
27574259 -TAGACATTACGTGACTGATTAG
1 TTAGACATTACGTGACTGATTAG
27574281 TTAGACATT
1 TTAGACATT
27574290 GCATGACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 18 0.67
22 1 0.04
23 8 0.30
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (23 bp):
TTAGACATTACGTGACTGATTAG
Found at i:27574318 original size:22 final size:22
Alignment explanation
Indices: 27574226--27574319 Score: 91
Period size: 22 Copynumber: 4.3 Consensus size: 22
27574216 TAAATATTAT
*
27574226 GTGACTAATTTTTAGAAATTGC
1 GTGACTAATTTTTAGACATTGC
* * *
27574248 GTGACTGA-TTGTAGACATTAC
1 GTGACTAATTTTTAGACATTGC
* *
27574269 GTGACTGATTAGTTAGACATTGC
1 GTGACTAATT-TTTAGACATTGC
* * *
27574292 ATGACTAATTTTTAGGCATTGT
1 GTGACTAATTTTTAGACATTGC
27574314 GTGACT
1 GTGACT
27574320 TAAGCATTGT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 18 0.32
22 22 0.39
23 17 0.30
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (22 bp):
GTGACTAATTTTTAGACATTGC
Found at i:27574358 original size:22 final size:22
Alignment explanation
Indices: 27574330--27574381 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
27574320 TAAGCATTGT
* *
27574330 CTAAAAATTAGTTACGTAATAC
1 CTAAAAATTAGTCACGCAATAC
*
27574352 CTAAAAACTAGTCACGCAATAC
1 CTAAAAATTAGTCACGCAATAC
27574374 CTAAAAAT
1 CTAAAAAT
27574382 CAGAGACGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (22 bp):
CTAAAAATTAGTCACGCAATAC
Found at i:27574390 original size:22 final size:22
Alignment explanation
Indices: 27574347--27574393 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
27574337 TTAGTTACGT
*
27574347 AATACCTAAAAACTAGTCACGC
1 AATACCTAAAAACTAGACACGC
*
27574369 AATACCTAAAAA-TCAGAGACGC
1 AATACCTAAAAACT-AGACACGC
27574391 AAT
1 AAT
27574394 GATTAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (22 bp):
AATACCTAAAAACTAGACACGC
Found at i:27578981 original size:12 final size:12
Alignment explanation
Indices: 27578966--27578991 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27578956 CAAAAATTAT
27578966 AACTTATAAAAA
1 AACTTATAAAAA
27578978 AACTTATAAAAA
1 AACTTATAAAAA
27578990 AA
1 AA
27578992 AATTTACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AACTTATAAAAA
Found at i:27579187 original size:2 final size:2
Alignment explanation
Indices: 27579175--27579212 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
27579165 ATCAACCTCC
27579175 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
27579213 CAAATCATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:27595925 original size:2 final size:2
Alignment explanation
Indices: 27595918--27595967 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
27595908 TAGTAACACA
27595918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
27595959 GT AT AT AT A
1 AT AT AT AT A
27595968 GTTATTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27614830 original size:16 final size:15
Alignment explanation
Indices: 27614809--27614841 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
27614799 ACCTCTCTCC
27614809 TTTTTTCATTCTTTCA
1 TTTTTTCATT-TTTCA
27614825 TTTTTTCATTTTTCA
1 TTTTTTCATTTTTCA
27614840 TT
1 TT
27614842 ATTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:27615812 original size:35 final size:35
Alignment explanation
Indices: 27615764--27615833 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 35
27615754 ATCAAGTTAA
27615764 TATATCATGTCATCATAATTATGATATGTAAATATAT
1 TATATCATGTCATC--AATTATGATATGTAAATATAT
*
27615801 TATATC-T-TCATCAATTATGATATGTTAATATAT
1 TATATCATGTCATCAATTATGATATGTAAATATAT
27615834 CACGTAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 20 0.62
35 5 0.16
36 1 0.03
37 6 0.19
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (35 bp):
TATATCATGTCATCAATTATGATATGTAAATATAT
Found at i:27615820 original size:33 final size:32
Alignment explanation
Indices: 27615731--27615835 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 32
27615721 ATATTGATAA
* * *
27615731 ATATCATATAATCATATTATTAT-ATCAAGTTAAT
1 ATATCATATCATCATA--ATTATGAT-ATGTAAAT
*
27615765 ATATCATGTCATCATAATTATGATATGTAAAT
1 ATATCATATCATCATAATTATGATATGTAAAT
* * *
27615797 ATATTATATCTTCATCAATTATGATATGTTAAT
1 ATATCATATCATCAT-AATTATGATATGTAAAT
27615830 ATATCA
1 ATATCA
27615836 CGTAGTATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
32 23 0.38
33 23 0.38
34 14 0.23
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.44
Consensus pattern (32 bp):
ATATCATATCATCATAATTATGATATGTAAAT
Found at i:27623653 original size:16 final size:16
Alignment explanation
Indices: 27623632--27623663 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27623622 TGGATGACGT
27623632 GGTGGTGGGGTATGAA
1 GGTGGTGGGGTATGAA
27623648 GGTGGTGGGGTATGAA
1 GGTGGTGGGGTATGAA
27623664 ACAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.56, T:0.25
Consensus pattern (16 bp):
GGTGGTGGGGTATGAA
Found at i:27624463 original size:67 final size:67
Alignment explanation
Indices: 27624337--27624463 Score: 150
Period size: 67 Copynumber: 1.9 Consensus size: 67
27624327 AAAATCAACT
* * * *
27624337 GCTCCATTTCCGGTTGGAGCCCACATTGAACCTCGTCTTGGACCTCTTAGTTGAAAATAAGATAT
1 GCTCCATTTCCGGTTGGAGCCCACATTGAACCTCGTCTTGAACCTCTCAGGTCAAAATAAGATAT
27624402 CA
66 CA
* * * *
27624404 GCTCCGTTTCCGGTTGGAGCCC-CGGA-TGAACCTCGTCTTGAACTTGTCAGGTCAGAATAA
1 GCTCCATTTCCGGTTGGAGCCCAC--ATTGAACCTCGTCTTGAACCTCTCAGGTCAAAATAA
27624464 TTTCTTCCTC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
66 1 0.02
67 48 0.96
68 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (67 bp):
GCTCCATTTCCGGTTGGAGCCCACATTGAACCTCGTCTTGAACCTCTCAGGTCAAAATAAGATAT
CA
Found at i:27656076 original size:15 final size:15
Alignment explanation
Indices: 27656056--27656095 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
27656046 TTTTATAATG
*
27656056 TAATGTGATTACAGA
1 TAATGTGATTACAAA
*
27656071 TAATGTGATTATAAA
1 TAATGTGATTACAAA
27656086 TAATGTGATT
1 TAATGTGATT
27656096 GCAGGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (15 bp):
TAATGTGATTACAAA
Found at i:27656367 original size:26 final size:27
Alignment explanation
Indices: 27656325--27656379 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
27656315 TATATTTTAT
*
27656325 TTTTAGTTTTTATTATAATTGTATATA
1 TTTTAGTTTTTAATATAATTGTATATA
* *
27656352 TTTTA-TTTTTAATATAATTTTTTATA
1 TTTTAGTTTTTAATATAATTGTATATA
27656378 TT
1 TT
27656380 ATATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTAGTTTTTAATATAATTGTATATA
Found at i:27656383 original size:33 final size:32
Alignment explanation
Indices: 27656297--27656461 Score: 110
Period size: 33 Copynumber: 5.0 Consensus size: 32
27656287 TCATCTCTTA
* *
27656297 AATATATTTTTAATGTTATATATTTTATTTTT
1 AATATATTTTTTATATTATATATTTTATTTTT
* *
27656329 AGT-T-TTTATTATAATTGTATATATTTTATTTTT
1 AATATATTTTTTAT-A-T-TATATATTTTATTTTT
*
27656362 AATATAATTTTTTATATTATATATTATA-TTTT
1 AATAT-ATTTTTTATATTATATATTTTATTTTT
27656394 AAT-T-TTTTACTTATATTATATAAATTTTAATTTGTT
1 AATATATTTT--TTATATTATAT--ATTTT-ATTT-TT
* * *
27656430 -ATATTTTATTTTAT-TTTTATATTTTATATTT
1 AATATATT-TTTTATATTATATATTTTATTTTT
27656461 A
1 A
27656462 TTTTAATTTT
Statistics
Matches: 106, Mismatches: 10, Indels: 34
0.71 0.07 0.23
Matches are distributed among these distances:
29 4 0.04
30 6 0.06
31 15 0.14
32 13 0.12
33 37 0.35
34 3 0.03
35 10 0.09
36 14 0.13
37 2 0.02
38 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (32 bp):
AATATATTTTTTATATTATATATTTTATTTTT
Found at i:27656386 original size:66 final size:65
Alignment explanation
Indices: 27656297--27656465 Score: 175
Period size: 66 Copynumber: 2.6 Consensus size: 65
27656287 TCATCTCTTA
* * *
27656297 AATATATTTTTAATGTTATATATTTTATTTTTAGTTTTTA-TTATAATTGTATATATTTT-ATTT
1 AATATATTTTTTAT-TTATATATTTTATTTTTA-TTTTTACTTAT-ATTATATAAATTTTAATTT
27656360 -TT
63 GTT
* *
27656362 AATATAATTTTTTATATTATATATTATATTTTAATTTTTTACTTATATTATATAAATTTTAATTT
1 AATAT-ATTTTTTAT-TTATATATTTTATTTTTA-TTTTTACTTATATTATATAAATTTTAATTT
27656427 GTT
63 GTT
* * *
27656430 -ATATTTTATTTTATTTTTATATTTTATATTTATTTT
1 AATATATT-TTTTATTTATATATTTTATTTTTATTTT
27656466 AATTTTTTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
65 9 0.10
66 58 0.67
67 18 0.21
68 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (65 bp):
AATATATTTTTTATTTATATATTTTATTTTTATTTTTACTTATATTATATAAATTTTAATTTGTT
Found at i:27656393 original size:19 final size:19
Alignment explanation
Indices: 27656348--27656471 Score: 86
Period size: 18 Copynumber: 6.8 Consensus size: 19
27656338 TATAATTGTA
27656348 TATATTTTAT-TTTTAATAT
1 TATATTTTATATTTT-ATAT
* * *
27656367 AATTTTTTATATTATATAT
1 TATATTTTATATTTTATAT
*
27656386 TATATTTTA-ATTTTTTACT
1 TATATTTTATATTTTATA-T
*
27656405 TATATTATATAAATTTTA-A-
1 TATATT-T-TATATTTTATAT
* *
27656424 T-T-TGTTATATTTTATTT
1 TATATTTTATATTTTATAT
27656441 TAT-TTTTATATTTTATAT
1 TATATTTTATATTTTATAT
27656459 T-TATTTTA-ATTTT
1 TATATTTTATATTTT
27656472 TTAATTTTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
15 8 0.10
16 1 0.01
17 8 0.10
18 27 0.33
19 27 0.33
20 4 0.05
21 3 0.04
22 5 0.06
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.68
Consensus pattern (19 bp):
TATATTTTATATTTTATAT
Found at i:27656408 original size:24 final size:24
Alignment explanation
Indices: 27656381--27656474 Score: 79
Period size: 24 Copynumber: 3.9 Consensus size: 24
27656371 TTTTATATTA
27656381 TATATTATATTTTAATTTTTTACT
1 TATATTATATTTTAATTTTTTACT
* **
27656405 TATATTATA--TAAATTTTAATTTGT
1 TATATTATATTTTAATTTT--TTACT
* *
27656429 TATATTTTATTTT-ATTTTTATATTT
1 TATATTATATTTTAATTTTT-TA-CT
27656454 TATATT-TATTTTAATTTTTTA
1 TATATTATATTTTAATTTTTTA
27656475 ATTTTAATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
22 7 0.12
23 1 0.02
24 29 0.52
25 18 0.32
26 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (24 bp):
TATATTATATTTTAATTTTTTACT
Found at i:27656449 original size:6 final size:6
Alignment explanation
Indices: 27656417--27656472 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
27656407 TATTATATAA
* * *
27656417 ATTTTA ATTTGTT ATATTTT A-TTTT ATTTTT ATATTTT ATATTT ATTTTA
1 ATTTTT ATTT-TT AT-TTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT
27656467 ATTTTT
1 ATTTTT
27656473 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
5 5 0.12
6 22 0.54
7 12 0.29
8 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:27656480 original size:19 final size:18
Alignment explanation
Indices: 27656430--27656480 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
27656420 TTAATTTGTT
*
27656430 ATATTTTATTTTATTTTT
1 ATATTTTATTTTATTTTA
27656448 ATATTTTATATTTATTTTA
1 ATATTTTAT-TTTATTTTA
*
27656467 ATTTTTTAATTTTA
1 ATATTTT-ATTTTA
27656481 ATTATAACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 18 0.62
20 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATATTTTATTTTATTTTA
Found at i:27657234 original size:20 final size:20
Alignment explanation
Indices: 27657209--27657248 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27657199 AGCTAATTGA
27657209 AATCTTAATAATCTTTTCTT
1 AATCTTAATAATCTTTTCTT
27657229 AATCTTAATAATCTTTTCTT
1 AATCTTAATAATCTTTTCTT
27657249 TCCTTTGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (20 bp):
AATCTTAATAATCTTTTCTT
Found at i:27661347 original size:6 final size:6
Alignment explanation
Indices: 27661336--27661361 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27661326 TCAAGAGACA
27661336 AGTGGC AGTGGC AGTGGC AGTGGC AG
1 AGTGGC AGTGGC AGTGGC AGTGGC AG
27661362 CAAGCGGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.50, T:0.15
Consensus pattern (6 bp):
AGTGGC
Found at i:27662695 original size:2 final size:2
Alignment explanation
Indices: 27662690--27662722 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
27662680 GAGAGTTCGA
27662690 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27662723 TTCTATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:27676692 original size:29 final size:29
Alignment explanation
Indices: 27676650--27676707 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
27676640 GACATACTCC
27676650 CCCAGCTATAATAAAACAAATTCAAAAGG
1 CCCAGCTATAATAAAACAAATTCAAAAGG
27676679 CCCAGCTATAATAAAACAAATTCAAAAGG
1 CCCAGCTATAATAAAACAAATTCAAAAGG
27676708 TTTATCCCTC
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:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (29 bp):
CCCAGCTATAATAAAACAAATTCAAAAGG
Found at i:27687377 original size:25 final size:26
Alignment explanation
Indices: 27687337--27687386 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
27687327 TTCTTTTTGC
*
27687337 ACTTTAAACTCCAAAG-GAAAAAACA
1 ACTTTAAACTCAAAAGAGAAAAAACA
*
27687362 ACTTTAAACTGAAAAGAAGAAAAAA
1 ACTTTAAACTCAAAAG-AGAAAAAA
27687387 AAAGATCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
27 7 0.33
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.16
Consensus pattern (26 bp):
ACTTTAAACTCAAAAGAGAAAAAACA
Found at i:27687901 original size:33 final size:33
Alignment explanation
Indices: 27687860--27687924 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
27687850 ATATTAATGG
*
27687860 TGGTTGGGGCCAAGCAAGTGCAGATACCGACAT
1 TGGTTGGGGCCAAGCAAGAGCAGATACCGACAT
27687893 TGGTTGGGGCCAAGCAAGAGCAGATACCGACA
1 TGGTTGGGGCCAAGCAAGAGCAGATACCGACA
27687925 ATATGGGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.34, T:0.15
Consensus pattern (33 bp):
TGGTTGGGGCCAAGCAAGAGCAGATACCGACAT
Found at i:27688775 original size:10 final size:10
Alignment explanation
Indices: 27688760--27688807 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
27688750 GTAGGATATT
27688760 TATTATCATA
1 TATTATCATA
27688770 TATTAT-A-A
1 TATTATCATA
27688778 TATTATCATA
1 TATTATCATA
27688788 TATTAT-A-A
1 TATTATCATA
*
27688796 TATTAACATA
1 TATTATCATA
27688806 TA
1 TA
27688808 AATTATATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 13 0.39
9 4 0.12
10 16 0.48
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (10 bp):
TATTATCATA
Found at i:27688783 original size:18 final size:18
Alignment explanation
Indices: 27688760--27688807 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
27688750 GTAGGATATT
27688760 TATTATCATATATTATAA
1 TATTATCATATATTATAA
27688778 TATTATCATATATTATAA
1 TATTATCATATATTATAA
*
27688796 TATTAACATATA
1 TATTATCATATA
27688808 AATTATATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTATCATATATTATAA
Found at i:27689015 original size:18 final size:17
Alignment explanation
Indices: 27688975--27689019 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
27688965 ATTCTTCTTA
27688975 ATATATATATAAAAAAT
1 ATATATATATAAAAAAT
*
27688992 AT-TATATAT-ATAAAT
1 ATATATATATAAAAAAT
27689007 ATATATATA-AAAA
1 ATATATATATAAAA
27689020 CTTAGTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 7 0.29
16 15 0.62
17 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATATATAAAAAAT
Found at i:27689724 original size:16 final size:16
Alignment explanation
Indices: 27689703--27689736 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27689693 TTAATATATT
*
27689703 TTAAGTATATTATTAA
1 TTAAGTATATTATCAA
*
27689719 TTAAGTTTATTATCAA
1 TTAAGTATATTATCAA
27689735 TT
1 TT
27689737 CTCAATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTAAGTATATTATCAA
Found at i:27696270 original size:2 final size:2
Alignment explanation
Indices: 27696263--27696315 Score: 74
Period size: 2 Copynumber: 26.5 Consensus size: 2
27696253 GACTTGATTA
27696263 AT AT AT AT AT A- AT AT AT AT AGT AT ACT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT AT AT AT
27696305 AT AT AT AT AT A
1 AT AT AT AT AT A
27696316 ATTAACACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.04
2 41 0.87
3 4 0.09
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:27696292 original size:23 final size:21
Alignment explanation
Indices: 27696263--27696317 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
27696253 GACTTGATTA
27696263 ATATATATATAATATATATAGT
1 ATATATATATAATATATATA-T
27696285 ATACTATA-AT-ATATATATAT
1 ATA-TATATATAATATATATAT
27696305 ATATATATATAAT
1 ATATATATATAAT
27696318 TAACACAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 11 0.37
22 5 0.17
23 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATATATATAATATATATAT
Found at i:27701807 original size:18 final size:19
Alignment explanation
Indices: 27701759--27701806 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
27701749 TTTCTTTTTT
27701759 AATATTTTTTTAAAATACA
1 AATATTTTTTTAAAATACA
27701778 AATATTTTTTTAAAATACA
1 AATATTTTTTTAAAATACA
27701797 AATATTTTTT
1 AATATTTTTT
27701807 ATTTTACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTTTTTTAAAATACA
Found at i:27730068 original size:17 final size:17
Alignment explanation
Indices: 27730046--27730078 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27730036 GTACAATTTT
27730046 TTATTTA-ATACGGTATC
1 TTATTTATATA-GGTATC
27730063 TTATTTATATAGGTAT
1 TTATTTATATAGGTAT
27730079 TCATCTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
TTATTTATATAGGTATC
Found at i:27731544 original size:29 final size:28
Alignment explanation
Indices: 27731485--27731560 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
27731475 AAGGATTAAA
* *
27731485 GTGTAACAAAAT-GTTTTTGAATATGTC
1 GTGTAACAAAATATTTTTTCAATATGTC
27731512 GTGTAACAACAATATTTTTTCAATATGAT-
1 GTGTAACAA-AATATTTTTTCAATATG-TC
27731541 GTGTAACAATAATATTTTTT
1 GTGTAACAA-AATATTTTTT
27731561 TTTCAACATG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 9 0.21
28 3 0.07
29 30 0.70
30 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (28 bp):
GTGTAACAAAATATTTTTTCAATATGTC
Found at i:27731705 original size:45 final size:45
Alignment explanation
Indices: 27731656--27731741 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
27731646 TAACATGACG
* *
27731656 TGTAACAACCTAATCATGGCTTGTCACAGGTTTTTGTACATGGCA
1 TGTAACAACCTAACCATAGCTTGTCACAGGTTTTTGTACATGGCA
*
27731701 TGTAACAAGCTAACCATAGCTTGTCACAGGTTTTTGTACAT
1 TGTAACAACCTAACCATAGCTTGTCACAGGTTTTTGTACAT
27731742 AACTTGTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (45 bp):
TGTAACAACCTAACCATAGCTTGTCACAGGTTTTTGTACATGGCA
Found at i:27731819 original size:45 final size:44
Alignment explanation
Indices: 27731743--27731884 Score: 182
Period size: 45 Copynumber: 3.2 Consensus size: 44
27731733 TTTGTACATA
* *
27731743 ACTTGTCATATATTTTTATACATG-GTATGTAACAAGCTAACCATG
1 ACTTGTCACATATTTTTATATATGCG--TGTAACAAGCTAACCATG
* *
27731788 ACTTGTCACATATTTTTGTATATAGCGTGTAACACGCTAACCATG
1 ACTTGTCACATATTTTTATATAT-GCGTGTAACAAGCTAACCATG
*
27731833 ACTTGTCACAGATTTTTATATATGACGTGTAACAAGCTAACCA-G
1 ACTTGTCACATATTTTTATATATG-CGTGTAACAAGCTAACCATG
27731877 -CTTGTCAC
1 ACTTGTCAC
27731885 GGGTTTTTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
43 8 0.09
44 2 0.02
45 75 0.86
46 1 0.01
47 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (44 bp):
ACTTGTCACATATTTTTATATATGCGTGTAACAAGCTAACCATG
Found at i:27731908 original size:24 final size:24
Alignment explanation
Indices: 27731876--27731923 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27731866 AAGCTAACCA
* *
27731876 GCTTGTCACGGGTTTTTGTACATG
1 GCTTGTCACAGATTTTTGTACATG
*
27731900 GCTTGTCACATATTTTTGTACATG
1 GCTTGTCACAGATTTTTGTACATG
27731924 ACATGTAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.44
Consensus pattern (24 bp):
GCTTGTCACAGATTTTTGTACATG
Found at i:27731939 original size:112 final size:113
Alignment explanation
Indices: 27731784--27732015 Score: 326
Period size: 112 Copynumber: 2.1 Consensus size: 113
27731774 ACAAGCTAAC
* * *
27731784 CATGACTTGTCACATATTTTTGTATATAGCGTGTAACACGCTAACCATGACTTGTCACAGATTTT
1 CATGACTTGTCACATATTTTTGTACATAGCATGTAACAAGCTAACCATGACTTGTCACAGATTTT
* *
27731849 TATATAT-GACGTGTAACAAGCTAACCA-GCTTGTCACGGGTTTTTGTA
66 TATACATAG-CGTGTAACAAGCTAACCAGGCTTGTCACAGGTTTTTGTA
* *
27731896 CATGGCTTGTCACATATTTTTGTACAT-GACATGTAACAAGCTAACCATGACTTGTCACATATTT
1 CATGACTTGTCACATATTTTTGTACATAG-CATGTAACAAGCTAACCATGACTTGTCACAGATTT
* * *
27731960 TTGTACATAGCGTGTAACACGCTAACCATGGTTTGTCACAGGTTTTTGTA
65 TTATACATAGCGTGTAACAAGCTAACCA-GGCTTGTCACAGGTTTTTGTA
27732010 CATGAC
1 CATGAC
27732016 GTGTAACAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
111 1 0.01
112 80 0.76
113 1 0.01
114 23 0.22
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (113 bp):
CATGACTTGTCACATATTTTTGTACATAGCATGTAACAAGCTAACCATGACTTGTCACAGATTTT
TATACATAGCGTGTAACAAGCTAACCAGGCTTGTCACAGGTTTTTGTA
Found at i:27731942 original size:67 final size:69
Alignment explanation
Indices: 27731829--27731967 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 69
27731819 ACACGCTAAC
* * * *
27731829 CATGACTTGTCACAGATTTTTATATATGACGTGTAACAAGCTAACCA-G-CTTGTCACGGGTTTT
1 CATGACTTGTCACAGATTTTTATACATGACATGTAACAAGCTAACCATGACTTGTCACAGATTTT
27731892 TGTA
66 TGTA
* * * *
27731896 CATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAACCATGACTTGTCACATATTTT
1 CATGACTTGTCACAGATTTTTATACATGACATGTAACAAGCTAACCATGACTTGTCACAGATTTT
27731961 TGTA
66 TGTA
27731965 CAT
1 CAT
27731968 AGCGTGTAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 42 0.68
68 1 0.02
69 19 0.31
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (69 bp):
CATGACTTGTCACAGATTTTTATACATGACATGTAACAAGCTAACCATGACTTGTCACAGATTTT
TGTA
Found at i:27731965 original size:45 final size:45
Alignment explanation
Indices: 27731896--27732058 Score: 204
Period size: 45 Copynumber: 3.6 Consensus size: 45
27731886 GGTTTTTGTA
* * *
27731896 CATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAAC
1 CATGACTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAAC
* *
27731941 CATGACTTGTCACATATTTTTGTACAT-AGCGTGTAACACGCTAAC
1 CATGACTTGTCACAGATTTTTGTACATGA-CGTGTAACAAGCTAAC
** *
27731986 CATGGTTTGTCACAGGTTTTTGTACATGACGTGTAACAAGCTAAC
1 CATGACTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAAC
* *
27732031 CAT-AGCTTGTCACGGGTTTTTGTACATG
1 CATGA-CTTGTCACAGATTTTTGTACATG
27732059 GCTTGTCACA
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 102 0.98
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (45 bp):
CATGACTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAAC
Found at i:27732066 original size:114 final size:114
Alignment explanation
Indices: 27731941--27732174 Score: 362
Period size: 114 Copynumber: 2.1 Consensus size: 114
27731931 ACAAGCTAAC
* * * *
27731941 CATGACTTGTCACATATTTTTGTACAT-AGCGTGTAACACGCTAACCATGGTTTGTCACAGGTTT
1 CATGGCTTGTCACATATTTTTGTACATGA-CATGTAACACGCTAACCATGGCTTGTCACAGATTT
* *
27732005 TTGTACATGACGTGTAACAAGCTAACCATAGCTTGTCACGGGTTTTTGTA
65 TTGTACATGACGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTA
* *
27732055 CATGGCTTGTCACATATTTTTGTTCATGACATGTAACACGCTAACCATGGCTTGTCACATATTTT
1 CATGGCTTGTCACATATTTTTGTACATGACATGTAACACGCTAACCATGGCTTGTCACAGATTTT
* *
27732120 TGTACATGACGTGTAATACGCTAACCATAGCTTGTCACAGATTTTTGTA
66 TGTACATGACGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTA
27732169 CATGGC
1 CATGGC
27732175 GTGTAACAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 108 0.99
115 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (114 bp):
CATGGCTTGTCACATATTTTTGTACATGACATGTAACACGCTAACCATGGCTTGTCACAGATTTT
TGTACATGACGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTA
Found at i:27732067 original size:69 final size:69
Alignment explanation
Indices: 27731986--27732127 Score: 194
Period size: 69 Copynumber: 2.1 Consensus size: 69
27731976 ACACGCTAAC
* * * * *
27731986 CATGGTTTGTCACAGGTTTTTGTACATGACGTGTAACAAGCTAACCATAGCTTGTCACGGGTTTT
1 CATGGCTTGTCACAGATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGTCACAGATTTT
27732051 TGTA
66 TGTA
* * * * *
27732055 CATGGCTTGTCACATATTTTTGTTCATGACATGTAACACGCTAACCATGGCTTGTCACATATTTT
1 CATGGCTTGTCACAGATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGTCACAGATTTT
27732120 TGTA
66 TGTA
27732124 CATG
1 CATG
27732128 ACGTGTAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (69 bp):
CATGGCTTGTCACAGATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGTCACAGATTTT
TGTA
Found at i:27732121 original size:159 final size:159
Alignment explanation
Indices: 27731654--27732374 Score: 943
Period size: 159 Copynumber: 4.6 Consensus size: 159
27731644 TTTAACATGA
* * * *
27731654 CGTGTAACAAC-CTAATCATGGCTTGTCACAGGTTTTTGTACATGGCATGTAACAAGCTAACCAT
1 CGTGTAAC-ACGCTAACCATGGCTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAACCAT
** * * **
27731718 AGCTTGTCACAGGTTTTTGTACATAACTTGTCATATATTTTTATACATGGTATGTAACAAGCTAA
65 AGCTTGTCACAGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAA
*
27731783 CCATGACTTGTCACATATTTTTGTATATAG
130 CCATGACTTGTCACATATTTTTGTACATAG
* * *
27731813 CGTGTAACACGCTAACCATGACTTGTCACAGATTTTTATATATGACGTGTAACAAGCTAACC--A
1 CGTGTAACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAACCATA
*
27731876 GCTTGTCACGGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAAC
66 GCTTGTCACAGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAAC
27731941 CATGACTTGTCACATATTTTTGTACATAG
131 CATGACTTGTCACATATTTTTGTACATAG
* *
27731970 CGTGTAACACGCTAACCATGGTTTGTCACAGGTTTTTGTACATGACGTGTAACAAGCTAACCATA
1 CGTGTAACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAACCATA
* * *
27732035 GCTTGTCACGGGTTTTTGTACATGGCTTGTCACATATTTTTGTTCATGACATGTAACACGCTAAC
66 GCTTGTCACAGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAAC
*
27732100 CATGGCTTGTCACATATTTTTGTACAT-G
131 CATGACTTGTCACATATTTTTGTACATAG
* * *
27732128 ACGTGTAATACGCTAACCATAGCTTGTCACAGATTTTTGTACATGGCGTGTAACAAGCTAACCAT
1 -CGTGTAACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAACCAT
* * ** * * *
27732193 AACTTGTCATAGGTTTTTGTACATGGCTTACCAAAT-TTTTTGTACATAACGTGTAACAAGCTAA
65 AGCTTGTCACAGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAA
* * * * *
27732257 TCATGGCTTGTTACATATTTTTGTAAATAA
130 CCATGACTTGTCACATATTTTTGTACATAG
* * * ** * * *
27732287 TGTGTAACAAGCTAACTATAACTTGTCACATATTTTTGTACATAGA-GTATAACATGCTAACCAT
1 CGTGTAACACGCTAACCATGGCTTGTCACAGATTTTTGTACAT-GACGTGTAACAAGCTAACCAT
* *
27732351 -GACTTGTCATAAGTTTTTGTACAT
65 AG-CTTGTCACAGGTTTTTGTACAT
27732375 AGCGTGTAAC
Statistics
Matches: 502, Mismatches: 53, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
157 144 0.29
158 126 0.25
159 232 0.46
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (159 bp):
CGTGTAACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGACGTGTAACAAGCTAACCATA
GCTTGTCACAGGTTTTTGTACATGGCTTGTCACATATTTTTGTACATGACATGTAACAAGCTAAC
CATGACTTGTCACATATTTTTGTACATAG
Found at i:27732219 original size:45 final size:45
Alignment explanation
Indices: 27732059--27732217 Score: 219
Period size: 45 Copynumber: 3.5 Consensus size: 45
27732049 TTTGTACATG
* * * *
27732059 GCTTGTCACATATTTTTGTTCATGACATGTAACACGCTAACCATG
1 GCTTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATA
* *
27732104 GCTTGTCACATATTTTTGTACATGACGTGTAATACGCTAACCATA
1 GCTTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATA
* *
27732149 GCTTGTCACAGATTTTTGTACATGGCGTGTAACAAGCTAACCATA
1 GCTTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATA
* * *
27732194 ACTTGTCATAGGTTTTTGTACATG
1 GCTTGTCACAGATTTTTGTACATG
27732218 GCTTACCAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (45 bp):
GCTTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATA
Found at i:27732277 original size:113 final size:113
Alignment explanation
Indices: 27732116--27732329 Score: 293
Period size: 113 Copynumber: 1.9 Consensus size: 113
27732106 TTGTCACATA
* * * * **
27732116 TTTTTGTACATGACGTGTAATACGCTAACCATAGCTTGTCACAGATTTTTGTACATGGCGTGTAA
1 TTTTTGTACATAACGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTAAATAACGTGTAA
* *
27732181 CAAGCTAACCATAACTTGTCATAGGTTTTTGTACATGGCTTACCAAAT
66 CAAGCTAACCATAACTTGTCACAGATTTTTGTACATGGCTTACCAAAT
* * * * *
27732229 TTTTTGTACATAACGTGTAACAAGCTAATCATGGCTTGTTACATATTTTTGTAAATAATGTGTAA
1 TTTTTGTACATAACGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTAAATAACGTGTAA
* *
27732294 CAAGCTAACTATAACTTGTCACATATTTTTGTACAT
66 CAAGCTAACCATAACTTGTCACAGATTTTTGTACAT
27732330 AGAGTATAAC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
113 86 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (113 bp):
TTTTTGTACATAACGTGTAACAAGCTAACCATAGCTTGTCACAGATTTTTGTAAATAACGTGTAA
CAAGCTAACCATAACTTGTCACAGATTTTTGTACATGGCTTACCAAAT
Found at i:27732281 original size:45 final size:44
Alignment explanation
Indices: 27732229--27732385 Score: 167
Period size: 45 Copynumber: 3.5 Consensus size: 44
27732219 CTTACCAAAT
*
27732229 TTTTTGTACATAACGTGTAACAAGCTAATCATGGCTTGTTACATA
1 TTTTTGTACATAACGTGTAACAAGCTAA-CATGACTTGTTACATA
* * * *
27732274 TTTTTGTAAATAATGTGTAACAAGCTAACTATAACTTGTCACATA
1 TTTTTGTACATAACGTGTAACAAGCTAAC-ATGACTTGTTACATA
* *
27732319 TTTTTGTACATAGA-GTATAACATGCTAACCATGACTTG-T-CATAA
1 TTTTTGTACATA-ACGTGTAACAAGCTAA-CATGACTTGTTACAT-A
*
27732363 GTTTTTGTACATAGCGTGTAACA
1 -TTTTTGTACATAACGTGTAACA
27732386 TCAGAGCGTG
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 87 0.93
46 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (44 bp):
TTTTTGTACATAACGTGTAACAAGCTAACATGACTTGTTACATA
Found at i:27733560 original size:24 final size:23
Alignment explanation
Indices: 27733528--27733587 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
27733518 CTTTTAAAAA
* * *
27733528 TTTATAATTTTATTTTTGTTTTAT
1 TTTAAAATTTTATCTTTATTTT-T
27733552 TTTAAAATTTTATCTTTATTTTT
1 TTTAAAATTTTATCTTTATTTTT
**
27733575 TAAAAAATTTTAT
1 TTTAAAATTTTAT
27733588 AATTTTACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTAAAATTTTATCTTTATTTTT
Found at i:27733628 original size:29 final size:30
Alignment explanation
Indices: 27733579--27733641 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
27733569 ATTTTTTAAA
27733579 AAATTTTATAATTTTACCTC-TCAAATATTG
1 AAATTTTATAATTTTACCTCTTCAAAT-TTG
* *
27733609 AAATTTT-TATTTTTATCTCTTCAAATTTG
1 AAATTTTATAATTTTACCTCTTCAAATTTG
27733638 AAAT
1 AAAT
27733642 CCTCATTCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (30 bp):
AAATTTTATAATTTTACCTCTTCAAATTTG
Found at i:27757892 original size:15 final size:15
Alignment explanation
Indices: 27757865--27757916 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
27757855 GTTTAGTATT
27757865 TTATAATATAATATAA
1 TTATAA-ATAATATAA
* **
27757881 TTGTAAATAATATGG
1 TTATAAATAATATAA
27757896 TTATAAATAATATAA
1 TTATAAATAATATAA
27757911 TTATAA
1 TTATAA
27757917 GAAAAATAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 25 0.83
16 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
TTATAAATAATATAA
Found at i:27758911 original size:27 final size:26
Alignment explanation
Indices: 27758856--27758911 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
27758846 ATTTAAATTT
* *
27758856 TATTTATGTAATTTATTTATTTTTTA
1 TATTTATGTAATTTATTTATTTGTAA
27758882 TATTTGATGTAATTTATTTATTTGTAA
1 TATTT-ATGTAATTTATTTATTTGTAA
27758909 TAT
1 TAT
27758912 GTTTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (26 bp):
TATTTATGTAATTTATTTATTTGTAA
Found at i:27758969 original size:15 final size:16
Alignment explanation
Indices: 27758942--27758971 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27758932 GAATTAAATC
27758942 ATAGAACAATTTATTG
1 ATAGAACAATTTATTG
27758958 ATAGAA-AATTTATT
1 ATAGAACAATTTATT
27758972 AAGTAGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (16 bp):
ATAGAACAATTTATTG
Found at i:27758978 original size:16 final size:16
Alignment explanation
Indices: 27758942--27758979 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27758932 GAATTAAATC
*
27758942 ATAGAACAATTTATTG
1 ATAGAACAATTTATTA
27758958 ATAGAA-AATTTATTA
1 ATAGAACAATTTATTA
27758973 AGTAGAA
1 A-TAGAA
27758980 TTATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (16 bp):
ATAGAACAATTTATTA
Found at i:27759655 original size:25 final size:25
Alignment explanation
Indices: 27759621--27759669 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
27759611 ATTATGGACA
* *
27759621 AAGAAGAAGCATGGACCTTAGCTAG
1 AAGAAAAAGCAAGGACCTTAGCTAG
*
27759646 AAGAAAAAGCAAGGACTTTAGCTA
1 AAGAAAAAGCAAGGACCTTAGCTA
27759670 AATGAAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.16
Consensus pattern (25 bp):
AAGAAAAAGCAAGGACCTTAGCTAG
Found at i:27770360 original size:15 final size:16
Alignment explanation
Indices: 27770340--27770370 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27770330 TTAATTTATT
27770340 TTATTA-ATTTTAAAA
1 TTATTATATTTTAAAA
27770355 TTATTATATTTTAAAA
1 TTATTATATTTTAAAA
27770371 AAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTATATTTTAAAA
Found at i:27786703 original size:27 final size:29
Alignment explanation
Indices: 27786655--27786714 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 29
27786645 TTTTATTTAT
* *
27786655 TTTATTTTTAAATATTAGTATTTT-ATAA
1 TTTATTTTAAAATATTAATATTTTGATAA
27786683 TTTA-TTTAAAATATTAATATTTTGATAA
1 TTTATTTTAAAATATTAATATTTTGATAA
27786711 TTTA
1 TTTA
27786715 AATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATTTTAAAATATTAATATTTTGATAA
Found at i:27787142 original size:26 final size:26
Alignment explanation
Indices: 27787085--27787143 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
27787075 AAAATTAATA
27787085 TTTTAAAATATTAATATTTTATTTAT
1 TTTTAAAATATTAATATTTTATTTAT
** *
27787111 AATTAAAATATTAATATTTT-TTCTTT
1 TTTTAAAATATTAATATTTTATT-TAT
27787137 TTTTAAA
1 TTTTAAA
27787144 TGTAAATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTTAAAATATTAATATTTTATTTAT
Found at i:27793799 original size:33 final size:33
Alignment explanation
Indices: 27793737--27793800 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
27793727 GTTATCGTGT
* * *
27793737 TATATTAGCATGTCATATCGTCATTAATTATAA
1 TATATTACCATGTCATATCATCATCAATTATAA
27793770 TATATTACCATGTCATA-CAATCATCAATTAT
1 TATATTACCATGTCATATC-ATCATCAATTAT
27793801 GACATGTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (33 bp):
TATATTACCATGTCATATCATCATCAATTATAA
Found at i:27794254 original size:31 final size:28
Alignment explanation
Indices: 27794217--27794290 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 28
27794207 ACTATTAGTA
*
27794217 AAAAAATTTATTTAACTCAAAACAAAAATAT
1 AAAAAA-TTATTTAA-ACAAAACAAAAA-AT
* *
27794248 AAAAAATTAATTAAACAAAATAAAAAAT
1 AAAAAATTATTTAAACAAAACAAAAAAT
27794276 AAAAAATTATTTAAA
1 AAAAAATTATTTAAA
27794291 AAACATCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 16 0.41
29 10 0.26
30 7 0.18
31 6 0.15
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (28 bp):
AAAAAATTATTTAAACAAAACAAAAAAT
Found at i:27799093 original size:55 final size:54
Alignment explanation
Indices: 27798925--27799110 Score: 194
Period size: 55 Copynumber: 3.4 Consensus size: 54
27798915 TGAACTGTTA
* * * *
27798925 TTTTAGCGTGTCACGGCTGTTACTGGTGTGTTGTGAGTTAATTAGTTATTTGGGT
1 TTTTAGCGTGTCACGGCTGTTCCTGGTGTGTTGTGGGTTAA-TGGTTATTTAGGT
* * * * * *
27798980 TGTTAGTGTGTCACGGCTATTCCTGGGGTGTGGTGGGTTAATGG-AATTTATGGAT
1 TTTTAGCGTGTCACGGCTGTTCCTGGTGTGTTGTGGGTTAATGGTTATTTA-GG-T
* * *
27799035 TTTTGGCGTGTCATGGCTGTTCCTGGTGTGTTGTGGGTTAACTGGTTTTTTAGGT
1 TTTTAGCGTGTCACGGCTGTTCCTGGTGTGTTGTGGGTTAA-TGGTTATTTAGGT
* *
27799090 TTTTAGCGTGTTACGGATGTT
1 TTTTAGCGTGTCACGGCTGTT
27799111 GGTGTAACCA
Statistics
Matches: 104, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
53 4 0.04
54 4 0.04
55 87 0.84
56 5 0.05
57 4 0.04
ACGTcount: A:0.13, C:0.10, G:0.33, T:0.44
Consensus pattern (54 bp):
TTTTAGCGTGTCACGGCTGTTCCTGGTGTGTTGTGGGTTAATGGTTATTTAGGT
Found at i:27799254 original size:31 final size:31
Alignment explanation
Indices: 27799180--27799261 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
27799170 AACGATACTG
*
27799180 ATGCATGGCGTGTCACGACATTTGACTTGAT
1 ATGCATGGCGTGTCACAACATTTGACTTGAT
* * * *
27799211 ATGTATGACGTGTTACAACATTTTACGTT-AT
1 ATGCATGGCGTGTCACAACATTTGAC-TTGAT
* *
27799242 TTGCATGGCGTGTCATAACA
1 ATGCATGGCGTGTCACAACA
27799262 CGATTGAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 38 0.95
32 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACTTGAT
Found at i:27802774 original size:31 final size:31
Alignment explanation
Indices: 27802728--27803035 Score: 314
Period size: 31 Copynumber: 10.0 Consensus size: 31
27802718 AATAAGGAAT
* *
27802728 AAATG-TGAGACACGCCATGCATAATAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
27802758 AAATGTTGTGACACGCCGTGCATATCAAATA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
** * * *
27802789 AAATACTGTAACACGCCATTCATAACAAGAA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
***
27802820 AAATGAAATGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
27802851 AAATGTTGTGACACGCCATTCATAACAAGATA
1 AAATGTTGTGACACGCCATGCATAACAAG-TA
* * * * * *
27802883 AACT-TGGTGACACACCAAGGATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
27802913 AAATGTTCTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
27802944 AAAGGTTGTGACACGCCATGCATCACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
27802975 AAACGTTATGACACGCCATGCATAACAATTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
27803006 AATTGTTCTGACCCGCGATGCATAACAAGT
1 AAATGTTGTGACACGCCATGCATAACAAGT
27803036 TATGGTGTGT
Statistics
Matches: 222, Mismatches: 53, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
30 9 0.04
31 208 0.94
32 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:27803657 original size:19 final size:21
Alignment explanation
Indices: 27803611--27803652 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
27803601 TCTTGGTATC
27803611 AAATTAATTGTGTATAGGCAAAA
1 AAATTAATTGTGTAT--GCAAAA
27803634 AAATTAATTGTGTAT-CAAA
1 AAATTAATTGTGTATGCAAA
27803653 TAATTGTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
AAATTAATTGTGTATGCAAAA
Found at i:27803711 original size:14 final size:14
Alignment explanation
Indices: 27803694--27803759 Score: 69
Period size: 14 Copynumber: 4.5 Consensus size: 14
27803684 AGAATTATAT
* *
27803694 TTGTTTACAATGAA
1 TTGTATACAATAAA
27803708 TTGTATACAATAAA
1 TTGTATACAATAAA
*
27803722 TTGTGTATACAAAAAA
1 -T-TGTATACAATAAA
*
27803738 TGTGTATAAAATAAA
1 T-TGTATACAATAAA
27803753 TTGTATA
1 TTGTATA
27803760 ACAAAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
14 18 0.40
15 15 0.33
16 12 0.27
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (14 bp):
TTGTATACAATAAA
Found at i:27803730 original size:16 final size:16
Alignment explanation
Indices: 27803709--27803756 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
27803699 TACAATGAAT
27803709 TGTATACAATAAATTG
1 TGTATACAATAAATTG
*
27803725 TGTATACAA-AAAATG
1 TGTATACAATAAATTG
*
27803740 TGTATAAAATAAATTG
1 TGTATACAATAAATTG
27803756 T
1 T
27803757 ATAACAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (16 bp):
TGTATACAATAAATTG
Found at i:27803760 original size:14 final size:15
Alignment explanation
Indices: 27803709--27803760 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
27803699 TACAATGAAT
*
27803709 TGTATACAATAAATTG
1 TGTATAAAATAAA-TG
27803725 TGTATACAAA-AAATG
1 TGTATA-AAATAAATG
27803740 TGTATAAAATAAAT-
1 TGTATAAAATAAATG
27803754 TGTATAA
1 TGTATAA
27803761 CAAAATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.30
15 12 0.36
16 9 0.27
17 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.35
Consensus pattern (15 bp):
TGTATAAAATAAATG
Found at i:27805342 original size:62 final size:62
Alignment explanation
Indices: 27805234--27805561 Score: 331
Period size: 62 Copynumber: 5.3 Consensus size: 62
27805224 CATAGACAGT
* * * * * * * *
27805234 AAAATGTTGTGACACG-CAGTGCATACCAAG-TAAAATGTTGTCACACG-CAATGCAAAACAAGT
1 AAAATGTTGTGACACGCCA-TGCATAACAAGATAAACT-TGGTGACACGCCAA-GGATAACGAGG
** * *
27805296 AAAATGTCATGACATGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAATGAGG
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACGAGG
* *
27805358 AAAATGTTGTGACACGCCATACATAATAAGATAAACTTGGTGACACGCCAAGGATAACGAGG
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACGAGG
* * *
27805420 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACACCAAGGATAACAAGC
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACGAGG
* * * * * * * * * * *
27805482 AAAATGTTCTAACACGCCATGTATATCAAAATCAAAAGTT-GTGACACGTCATGAATAACAAGT
1 AAAATGTTGTGACACGCCATGCATAACAAGAT--AAACTTGGTGACACGCCAAGGATAACGAGG
27805545 AAAATGTTGTGACACGC
1 AAAATGTTGTGACACGC
27805562 TAAAGCTGAC
Statistics
Matches: 225, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
62 177 0.79
63 43 0.19
64 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (62 bp):
AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACGAGG
Found at i:27805554 original size:31 final size:31
Alignment explanation
Indices: 27805231--27805561 Score: 226
Period size: 31 Copynumber: 10.6 Consensus size: 31
27805221 ACCCATAGAC
* *
27805231 AGTAAAATGTTGTGACACG-CAGTGCATACCA
1 AGTAAAATGTTGTGACACGCCA-TGAATAACA
* *
27805262 AGTAAAATGTTGTCACACGCAATGCAA-AACA
1 AGTAAAATGTTGTGACACGCCATG-AATAACA
** * *
27805293 AGTAAAATGTCATGACATGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGAATAACA
* * * * **
27805324 AGATAAACT-TGGTGACACGCCAAGGATAATG
1 AG-TAAAATGTTGTGACACGCCATGAATAACA
* *
27805355 AGGAAAATGTTGTGACACGCCAT-ACATAATA
1 AGTAAAATGTTGTGACACGCCATGA-ATAACA
* * * * *
27805386 AGATAAACT-TGGTGACACGCCAAGGATAACG
1 AG-TAAAATGTTGTGACACGCCATGAATAACA
* *
27805417 AGGAAAATGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGAATAACA
* * * * *
27805448 AGATAAACT-TGGTGACACACCAAGGATAACA
1 AG-TAAAATGTTGTGACACGCCATGAATAACA
* * * * *
27805479 AGCAAAATGTTCTAACACGCCATGTATATCAA
1 AGTAAAATGTTGTGACACGCCATGAATAAC-A
* *
27805511 AATCAAAA-GTTGTGACACGTCATGAATAACA
1 AGT-AAAATGTTGTGACACGCCATGAATAACA
27805542 AGTAAAATGTTGTGACACGC
1 AGTAAAATGTTGTGACACGC
27805562 TAAAGCTGAC
Statistics
Matches: 225, Mismatches: 61, Indels: 28
0.72 0.19 0.09
Matches are distributed among these distances:
30 17 0.08
31 170 0.76
32 34 0.15
33 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGAATAACA
Found at i:27806394 original size:156 final size:155
Alignment explanation
Indices: 27805908--27806403 Score: 645
Period size: 156 Copynumber: 3.2 Consensus size: 155
27805898 CGACTAGGTC
* * * * *
27805908 AACTACAATAACATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCA
1 AACTGCAATAACATAAATTACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACCG
* * * *
27805973 TTACAATTTTAATATCCTAACCAGTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGATCGATCAGTG
66 TTACAACTTTAATATCCTTACC-GTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTG
* * *
27806038 CTTCAAGATCTGTCGTCGTTTCCGTA
130 CTTCAGGACCTGTCGTCGCTTCCGTA
* * * * * *
27806064 TACTGTAATTACAT-ATTTAACTGTGTTATTCAATAATCATGTATAAAATTGTTGAACATTAACT
1 AACTGCAATAACATAAATT-ACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACC
*
27806128 GTTACAACTTTAATATCCTTACCGGTGGCTCGTTAGCAGTCTGCGATGGAGCCGGACCGATCGGT
65 GTTACAACTTTAATATCCTTACC-GTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGT
*
27806193 GCTTCAGGACCTGTCGTCGCTTTCGTA
129 GCTTCAGGACCTGTCGTCGCTTCCGTA
* * *
27806220 AACTGCAATAACAAAAATTACTGTGTTATTCAATAATCATGTTTGGAATTGTTGAACATTAACCG
1 AACTGCAATAACATAAATTACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACCG
** * * *
27806285 TTACAACTTTAATATCCTTACCGCCAGCTCGTTAGCTGTTTGCGGTTGGA-CTGGACCGATCGGT
66 TTACAACTTTAATATCCTTACCG-TGGCTCGTTAGCAGTCTGCGG-TGGAGCCGGACCGATCGGT
* *
27806349 GCTTGAGGACCTGTCCTCGCTTCCGTA
129 GCTTCAGGACCTGTCGTCGCTTCCGTA
* *
27806376 AACTGCAATTACATAAATTACTATGTTA
1 AACTGCAATAACATAAATTACTGTGTTA
27806404 CTCGATAAAC
Statistics
Matches: 294, Mismatches: 42, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
155 2 0.01
156 285 0.97
157 7 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (155 bp):
AACTGCAATAACATAAATTACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACCG
TTACAACTTTAATATCCTTACCGTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTGC
TTCAGGACCTGTCGTCGCTTCCGTA
Found at i:27808095 original size:31 final size:31
Alignment explanation
Indices: 27808052--27808235 Score: 253
Period size: 31 Copynumber: 5.9 Consensus size: 31
27808042 AATAAGGAAT
**
27808052 AAATGTTGTGACACGCCATGCATTGCAA-TCA
1 AAATGTTGTGACACGCCATGCATAACAAGT-A
* *
27808083 AAATGTTATGACACACCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
27808114 AAATGTTGTGACACGCCATGTATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
27808145 AAACGTTGTGACACGCCATGCGTAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
27808176 AATTGTTCTGACCCGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
27808207 AAATGTTGTGACACGCCATGCATAACAAG
1 AAATGTTGTGACACGCCATGCATAACAAG
27808236 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
31 131 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:27809381 original size:47 final size:47
Alignment explanation
Indices: 27809326--27809482 Score: 165
Period size: 47 Copynumber: 3.3 Consensus size: 47
27809316 CTTAATCTAG
* *
27809326 CGTGTCACAGATTCCCTTCATGGCGTCTCACCAACTTTGAAAGCTGT
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTTTGAAAGCTGC
* * * * ** *
27809373 CGTGTCACAGATTCTCACCATGGCGTGTCACTAACTCTT-AACTCTGG
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACT-TTGAAAGCTGC
* * *
27809420 CGTGTCACAGATTTCCTCCATGGCGTCTCACCAACTCTGAGCAG-TGC
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTTTGA-AAGCTGC
*
27809467 CGTGTCACACATTCCC
1 CGTGTCACAGATTCCC
27809483 AACACGACGT
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 1 0.01
47 84 0.97
48 2 0.02
ACGTcount: A:0.20, C:0.32, G:0.19, T:0.28
Consensus pattern (47 bp):
CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTTTGAAAGCTGC
Found at i:27809399 original size:23 final size:23
Alignment explanation
Indices: 27809373--27809450 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
27809363 TGAAAGCTGT
27809373 CGTGTCACAGATTCTCACCATGG
1 CGTGTCACAGATTCTCACCATGG
* *
27809396 CGTGTCACTA-ACTCTTAACTC-TGG
1 CGTGTCAC-AGATTC-TCAC-CATGG
*
27809420 CGTGTCACAGATT-TCCTCCATGG
1 CGTGTCACAGATTCT-CACCATGG
*
27809443 CGTCTCAC
1 CGTGTCAC
27809451 CAACTCTGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 2 0.05
23 23 0.53
24 17 0.40
25 1 0.02
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (23 bp):
CGTGTCACAGATTCTCACCATGG
Found at i:27809471 original size:94 final size:93
Alignment explanation
Indices: 27809303--27809480 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 93
27809293 CCCTCCACGT
* *
27809303 CGTGTCACCAACTCTTAATCTAGCGTGTCACAGATTCCCTTCATGGCGTCTCACCAACTTTGAAA
1 CGTGTCACCAACTCTTAATCTAGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAAA
* *
27809368 GCTGTCGTGTCACAGATTCTCACCATGG
66 GCTGCCGTGTCACACATTCTCACCATGG
* * *
27809396 CGTGTCACTAACTCTTAACTCTGGCGTGTCACAGATTTCCTCCATGGCGTCTCACCAACTCTGAG
1 CGTGTCACCAACTCTTAA-TCTAGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGA-
*
27809461 CAG-TGCCGTGTCACACATTC
64 AAGCTGCCGTGTCACACATTC
27809481 CCAACACGAC
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
93 17 0.23
94 56 0.75
95 2 0.03
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (93 bp):
CGTGTCACCAACTCTTAATCTAGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAAA
GCTGCCGTGTCACACATTCTCACCATGG
Found at i:27809503 original size:94 final size:93
Alignment explanation
Indices: 27809298--27809504 Score: 254
Period size: 94 Copynumber: 2.2 Consensus size: 93
27809288 NNNNNCCCTC
* * * *
27809298 CACGTCGTGTCACCAACTCTTAATCTAGCGTGTCACAGATTCCCTTCATGGCGTCTCACCAACTT
1 CACGACGTGTCACAAACTCTTAATCTAGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTC
* * * *
27809363 TGAAAGCTGTCGTGTCACAGATTCTCAC
66 TGAAAGCTGCCGTGTCACACATTCCCAA
* * * * *
27809391 CATGGCGTGTCACTAACTCTTAACTCTGGCGTGTCACAGATTTCCTCCATGGCGTCTCACCAACT
1 CACGACGTGTCACAAACTCTTAA-TCTAGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACT
*
27809456 CTGAGCAG-TGCCGTGTCACACATTCCCAA
65 CTGA-AAGCTGCCGTGTCACACATTCCCAA
*
27809485 CACGACGTTTCACAAACTCT
1 CACGACGTGTCACAAACTCT
27809505 AAACCCTACC
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
93 20 0.21
94 74 0.77
95 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (93 bp):
CACGACGTGTCACAAACTCTTAATCTAGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTC
TGAAAGCTGCCGTGTCACACATTCCCAA
Found at i:27813927 original size:2 final size:2
Alignment explanation
Indices: 27813916--27813950 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
27813906 GGTTCATGAT
*
27813916 TC TC -C TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27813951 ACACACACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:27825454 original size:17 final size:17
Alignment explanation
Indices: 27825432--27825465 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27825422 TAAAGGGTTA
27825432 TTTGTCACTATAACTAT
1 TTTGTCACTATAACTAT
* *
27825449 TTTGTCATTATTACTAT
1 TTTGTCACTATAACTAT
27825466 ATATTTATAA
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:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTGTCACTATAACTAT
Found at i:27826437 original size:22 final size:21
Alignment explanation
Indices: 27826402--27826455 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
27826392 TTTTTTTACC
27826402 TTTTCATATAAAAAACATTAAA
1 TTTT-ATATAAAAAACATTAAA
* **
27826424 TATTTATATTAAAAATTTTAAA
1 T-TTTATATAAAAAACATTAAA
27826446 TTTTATATAA
1 TTTTATATAA
27826456 TATATATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 16 0.59
23 3 0.11
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTATATAAAAAACATTAAA
Found at i:27834534 original size:35 final size:35
Alignment explanation
Indices: 27834451--27834542 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 35
27834441 AAATGCCTTC
* * * * * *
27834451 ACGCAGAATAAATAAAACAAGTGAAGCGTTATTTC
1 ACGCAGAATAACTAGAACAAATGAAGCGCTACTTA
* * *
27834486 ACGTAGAACAACTAGAACAAATGAAGTGCTACTTA
1 ACGCAGAATAACTAGAACAAATGAAGCGCTACTTA
*
27834521 ACGCAGAATAACTAGAATAAAT
1 ACGCAGAATAACTAGAACAAAT
27834543 AGAACACTAC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (35 bp):
ACGCAGAATAACTAGAACAAATGAAGCGCTACTTA
Found at i:27834820 original size:29 final size:28
Alignment explanation
Indices: 27834788--27834858 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 28
27834778 TCTCATATAT
27834788 TTATTCATGTACAGCTTATTCTCTTGTAC
1 TTATTC-TGTACAGCTTATTCTCTTGTAC
*
27834817 TTATTCTCGTACAGCTTCTTCTCTTGTAC
1 TTATTCT-GTACAGCTTATTCTCTTGTAC
*
27834846 CTATTCTTGTACA
1 TTATTC-TGTACA
27834859 CCTCTTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 1 0.03
29 36 0.95
30 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.10, T:0.48
Consensus pattern (28 bp):
TTATTCTGTACAGCTTATTCTCTTGTAC
Found at i:27836209 original size:50 final size:49
Alignment explanation
Indices: 27836153--27836340 Score: 141
Period size: 50 Copynumber: 3.8 Consensus size: 49
27836143 TTCAGCCGCT
*
27836153 AGCTTTATCGCTTATATTTTGGCTGTAATTATATTATACTATTGGTTGCA
1 AGCTTTATCGCTTATATTTTGACTGTAATTATATTATACT-TTGGTTGCA
* ** * * **
27836203 AGCTTTATCGTTTAT-TCTTTGACCATAGTTCATCATTCTTACTTCAGTTGCA
1 AGCTTTATCGCTTATAT-TTTGACTGTAATT-AT-ATT-ATACTTTGGTTGCA
* * * * *
27836255 AGCTTTACCG-TTCATATTTTGACTGTAATGATATTCTTCTTTTGGTCGCA
1 AGCTTTATCGCTT-ATATTTTGACTGTAATTATATTATAC-TTTGGTTGCA
**
27836305 AGCTTTATCGCTTAT-TCTTTGACCATAATT-TATTAT
1 AGCTTTATCGCTTATAT-TTTGACTGTAATTATATTAT
27836341 TCACATTCCA
Statistics
Matches: 106, Mismatches: 23, Indels: 19
0.72 0.16 0.13
Matches are distributed among these distances:
49 9 0.08
50 54 0.51
51 8 0.08
52 30 0.28
53 5 0.05
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.47
Consensus pattern (49 bp):
AGCTTTATCGCTTATATTTTGACTGTAATTATATTATACTTTGGTTGCA
Found at i:27836363 original size:102 final size:101
Alignment explanation
Indices: 27836153--27836422 Score: 274
Period size: 102 Copynumber: 2.7 Consensus size: 101
27836143 TTCAGCCGCT
* * * * *
27836153 AGCTTTATCGCTTATATTTTGGCTGTAATTATATTATACTATTGGTTGCAAGCTTTATCGTTTAT
1 AGCTTTACCGCTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTATCGCTTAT
* ****
27836218 TCTTTGACCATAGTTCATCATTCTTACTTCAGTTGCA
66 TCTTTGACCATAATTCATCATTC-TACTTCAACCACA
* * * * *
27836255 AGCTTTACCGTTCATATTTTGACTGTAATGATATTCTTCTTTTGGTCGCAAGCTTTATCGCTTAT
1 AGCTTTACCGCTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTATCGCTTAT
* *
27836320 TCTTTGACCATAATTTATTATTC-ACATTCCAACCACTA
66 TCTTTGACCATAATTCATCATTCTAC-TT-CAACCAC-A
* * * * * **
27836358 A-CTTTATCGCTCATAATTTGGCTGTAATGATGTTATGCTATTGGCCGTTAGCTTTATCGCTTAT
1 AGCTTTACCGCTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTATCGCTTAT
27836422 T
66 T
27836423 TCTTGGCCTT
Statistics
Matches: 137, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
100 2 0.01
101 2 0.01
102 131 0.96
103 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.45
Consensus pattern (101 bp):
AGCTTTACCGCTCATATTTTGGCTGTAATGATATTATACTATTGGTCGCAAGCTTTATCGCTTAT
TCTTTGACCATAATTCATCATTCTACTTCAACCACA
Found at i:27840784 original size:64 final size:66
Alignment explanation
Indices: 27840710--27840840 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
27840700 TATAAGCGAC
* *
27840710 ATAGAATCAAG-GTTTTTAT-GAAAAAGATATTAAATATTATTGCATAATCAATAAAATATTACA
1 ATAGAATCAAGAGTTTTTATAAAAAAAGATATTAAATATTATTACATAATCAATAAAATATTACA
27840773 A
66 A
* *
27840774 ATAGAGTCAAGATTTTTTATAAAAAAAGATATTAAATATTATTACATAATCAATAAAATATTACA
1 ATAGAATCAAGAGTTTTTATAAAAAAAGATATTAAATATTATTACATAATCAATAAAATATTACA
27840839 A
66 A
27840840 A
1 A
27840841 AGATATTGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 10 0.16
65 7 0.11
66 44 0.72
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (66 bp):
ATAGAATCAAGAGTTTTTATAAAAAAAGATATTAAATATTATTACATAATCAATAAAATATTACA
A
Found at i:27840845 original size:41 final size:41
Alignment explanation
Indices: 27840797--27840929 Score: 144
Period size: 41 Copynumber: 3.2 Consensus size: 41
27840787 TTTTTATAAA
*
27840797 AAAAGATATTAAATATTATTACATAATCAATAAAATATTAC
1 AAAAGATATTAAATATTATTACATAATCAATCAAATATTAC
* * * * *
27840838 AAAAGATATTGACA-ATTA-AAAAAAATGCAATCCAATATTAC
1 AAAAGATATT-AAATATTATTACATAAT-CAATCAAATATTAC
* * *
27840879 GAAAGATATTATATATTATTGCATAATCAATCAAATATTAC
1 AAAAGATATTAAATATTATTACATAATCAATCAAATATTAC
*
27840920 GAAAGATATT
1 AAAAGATATT
27840930 GACATTAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 7 0.09
41 62 0.83
42 6 0.08
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.32
Consensus pattern (41 bp):
AAAAGATATTAAATATTATTACATAATCAATCAAATATTAC
Found at i:27841272 original size:35 final size:35
Alignment explanation
Indices: 27841224--27841367 Score: 198
Period size: 35 Copynumber: 4.1 Consensus size: 35
27841214 GAGAACAACC
27841224 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
* *
27841259 AAAACAAGTGAAGTGCTACTTCACGTAGAATAAGT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
* * * *
27841294 AGAACAAGTGAAGCGTTACTTCACGCAGAACAACT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
* * * *
27841329 AGAACAAGCGAAATGCTACTTAACGCAGAATAACT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
27841364 AGAA
1 AGAA
27841368 TAAATAAAAC
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 95 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (35 bp):
AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
Found at i:27841651 original size:29 final size:29
Alignment explanation
Indices: 27841603--27841688 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
27841593 ACCCTCTTAC
* * * *
27841603 CTTATTCTCGTATACTTATTCATGTACAG
1 CTTATTCTCTTGTACCTATTCTTGTACAG
27841632 CTTATTCTCTTGTACCTATT-TTCGTACAG
1 CTTATTCTCTTGTACCTATTCTT-GTACAG
*
27841661 CTTCTTCTCTTGTACCTATTCTTGTACA
1 CTTATTCTCTTGTACCTATTCTTGTACA
27841689 CCTCTTTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
28 1 0.02
29 47 0.94
30 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.48
Consensus pattern (29 bp):
CTTATTCTCTTGTACCTATTCTTGTACAG
Found at i:27845781 original size:202 final size:203
Alignment explanation
Indices: 27845422--27845886 Score: 539
Period size: 202 Copynumber: 2.3 Consensus size: 203
27845412 TTTAAAATGC
* * * * *
27845422 GGGCATGTGGCATTCCTATTATACATTACGGTATAATGATGTCAATATGTGAATTTTAAATCTTA
1 GGGCATGTGACATTCCTATTATACATTACGGTATAAAGATGCCAACATGTGAATTTGAAATCTTA
* * * *
27845487 CTATATGGTGCGTTCCTGTTATTTGATCGAAGGTACAATGATGTAAATTAGATATTTAAAGTACT
66 CTATATGGTGCATCCCTATTATTTGATCGAAGGTACAATGATGTAAATCAGATATTTAAAGTACT
* * *
27845552 TAACAAGGCATTGCTATTGTGTAATAATGGCACAATGGTGCTTATAGAAA-TAAAATGAAAAATT
131 TAACAAGACATTGCTATTGTATAATAATGGCACAATGATGCTTATAGAAATTAAAATGAAAAATT
27845616 TAAGGTGT
196 TAAGGTGT
* * * * *
27845624 GGGCATGTGATATTTCTATTATACATTACGGTATAAAGGTGCCAACGTGTGAATTTGAAATCTTT
1 GGGCATGTGACATTCCTATTATACATTACGGTATAAAGATGCCAACATGTGAATTTGAAATCTTA
* * * *
27845689 GTATATGGTGCATCCCTATTATTTGATCGAAGGTATAATGGTGTAAATCAGATTTTTAAAGTACT
66 CTATATGGTGCATCCCTATTATTTGATCGAAGGTACAATGATGTAAATCAGATATTTAAAGTACT
* * * * *
27845754 TGACATGACATT-CATATTGTATAATAATGGCACAATTATGTTTATAGAAATT--AA--AAAATT
131 TAACAAGACATTGC-TATTGTATAATAATGGCACAATGATGCTTATAGAAATTAAAATGAAAAAT
27845814 TTAAGGTGT
195 TTAAGGTGT
* ** * * * * * * * *
27845823 AGATATGTG-CATTCCTATTATACATTAAGATATAATGGTACCAATACGAGAATTTGAAATCTTA
1 GGGCATGTGACATTCCTATTATACATTACGGTATAAAGATGCCAACATGTGAATTTGAAATCTTA
27845887 ATACATTAAG
Statistics
Matches: 221, Mismatches: 40, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
198 44 0.20
199 20 0.09
201 3 0.01
202 153 0.69
203 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (203 bp):
GGGCATGTGACATTCCTATTATACATTACGGTATAAAGATGCCAACATGTGAATTTGAAATCTTA
CTATATGGTGCATCCCTATTATTTGATCGAAGGTACAATGATGTAAATCAGATATTTAAAGTACT
TAACAAGACATTGCTATTGTATAATAATGGCACAATGATGCTTATAGAAATTAAAATGAAAAATT
TAAGGTGT
Found at i:27848131 original size:199 final size:199
Alignment explanation
Indices: 27847757--27848118 Score: 519
Period size: 199 Copynumber: 1.8 Consensus size: 199
27847747 ATTTGAAGTT
* * *
27847757 CTTGACATGGCATTTCTATTATGTAATATTGGCACAATGGTTCTTATAGAAACAACAAAACTTTA
1 CTTGACATGGCATTTCTATTATATAATAATGGCACAATGGTTCTTACAGAAACAACAAAACTTTA
* * *
27847822 AGATGTGAGTATGTGACATTCTTATTATACATTAAGGTATAATGGTGCCTATATGTGTATATGAA
66 AGATGTGAGCATGTGACATTCTTATTATACATTAAGGTATAATGGTGCCAATATGTGAATATGAA
* *
27847887 ATCTTTGTATAAGATGCATTTTCATTATTTGATCAAAAGTATAATGGTGCAAATTAAATATTCAT
131 ATCTTAGAATAAGATGCATTTTCATTATTTGATCAAAAGTATAATGGTGCAAATTAAATATTCAT
27847952 AGTA
196 AGTA
* * *
27847956 CTTGACATGGCATTTCTATTGTATAATAATGGCACAATGGTTCTTACAGAAATAATAAAACTTTA
1 CTTGACATGGCATTTCTATTATATAATAATGGCACAATGGTTCTTACAGAAACAACAAAACTTTA
* * * * * * *
27848021 AGGTGTGGGCATGTGGCATTTTTATTATACATTAAGGTATAATGTTGTCAATATGTGAATTTGAA
66 AGATGTGAGCATGTGACATTCTTATTATACATTAAGGTATAATGGTGCCAATATGTGAATATGAA
* * *
27848086 ATCTTAGAATATGGTGTA-TTTCTATTATTTGAT
131 ATCTTAGAATAAGATGCATTTTC-ATTATTTGAT
27848119 TGAAGGTATA
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
198 4 0.03
199 137 0.97
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (199 bp):
CTTGACATGGCATTTCTATTATATAATAATGGCACAATGGTTCTTACAGAAACAACAAAACTTTA
AGATGTGAGCATGTGACATTCTTATTATACATTAAGGTATAATGGTGCCAATATGTGAATATGAA
ATCTTAGAATAAGATGCATTTTCATTATTTGATCAAAAGTATAATGGTGCAAATTAAATATTCAT
AGTA
Found at i:27848627 original size:163 final size:161
Alignment explanation
Indices: 27848322--27848640 Score: 428
Period size: 163 Copynumber: 2.0 Consensus size: 161
27848312 ATAAATTAGA
*
27848322 TATTTAAAGTACTTGACATGACATATCTACTGTCTAATAATGGCACAATGGTGCTTATAAAAATA
1 TATTTAAAGTACTTGACATGACATATCTACTGTCTAATAATGGCACAATGGTGCGTATAAAAATA
* * * * **
27848387 AAACACTTTAATCTGTGTGGATGTGGCATTCTTATTATACATTAAGGTATAATGGTGTTTATATG
66 AAAAACTTTAA-CGGTGTGGATGTGGCATTCTTATTATACAATAAGATATAATGGTGCCTATATG
27848452 TGAATTTGAAATCTTAGTATATGGTGAATTCT
130 TGAATTTGAAATCTTAGTATATGGTGAATTCT
* * * *
27848484 TATTTAAAGTACTTGACATGGCAT-TCTTATTGTGTAATAATGGCACAATGGTGCGTATAGAAAT
1 TATTTAAAGTACTTGACATGACATATC-TACTGTCTAATAATGGCACAATGGTGCGTATAAAAAT
* *
27848548 AATAAAATTTTAA-GGTGTGGACATGTGGCATT-TCTATTATATAATAAGATATAATGGTGCCTA
65 AA-AAAACTTTAACGGTGTGG--ATGTGGCATTCT-TATTATACAATAAGATATAATGGTGCCTA
* *
27848611 TATTTGAATTTGAAATCTTATTATATGGTG
126 TATGTGAATTTGAAATCTTAGTATATGGTG
27848641 CGTTCCAATT
Statistics
Matches: 137, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
161 8 0.06
162 59 0.43
163 70 0.51
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (161 bp):
TATTTAAAGTACTTGACATGACATATCTACTGTCTAATAATGGCACAATGGTGCGTATAAAAATA
AAAAACTTTAACGGTGTGGATGTGGCATTCTTATTATACAATAAGATATAATGGTGCCTATATGT
GAATTTGAAATCTTAGTATATGGTGAATTCT
Found at i:27848877 original size:199 final size:198
Alignment explanation
Indices: 27848484--27849245 Score: 925
Period size: 199 Copynumber: 3.8 Consensus size: 198
27848474 GGTGAATTCT
* *
27848484 TATTTAAAGTACTTGACATGGCATTCTTATTGTGTAATAATGGCACAATGGTGCGTATAGAAATA
1 TATTTAAAGTACTTGACATGGCATTCCTATTGTGTAATAATGGCACAATGGTGCTTATAGAAATA
* * * * * *
27848549 ATAAAATTTTAAGGTGTGGACATGTGGCATTTCTATTATATAATAAGATATAATGGTGCCTATAT
66 AAAAAACTTTAAGGTGTGGACATGTGGCATTCCTATTATACATTAAG-TATAATGGTGCCAATAT
* * * * * ** * *
27848614 TTGAATTTGAAATCTTATTATATGGTGCGTTCCAATTATTTGATTGAAATTTTAATGGTGTAAAT
130 GTGAATTTGAAATCTTAGTATATGGTGCATTCCTATTATTTGATCGAAGGTATAATGATGTAAAT
*
27848679 TGGA
195 TAGA
* * * **
27848683 TATTTAAAGTACTTGACATGGTATTCCTAATGTGTAAAAATGATACAATGGTGCTTATAGAAATA
1 TATTTAAAGTACTTGACATGGCATTCCTATTGTGTAATAATGGCACAATGGTGCTTATAGAAATA
* * * *
27848748 AAAAAACTGTAAGGTGTGAACATGTGGGATTCCTATTATACATTACGCTATAATGGTGCCAATAT
66 AAAAAACTTTAAGGTGTGGACATGTGGCATTCCTATTATACATTAAG-TATAATGGTGCCAATAT
* * * * *
27848813 GTGAATTTAAAAT-TGTAGTATATGTTGCCTTCCTATTATGTGATCGAAGGTATAATAATGTAAA
130 GTGAATTTGAAATCT-TAGTATATGGTGCATTCCTATTATTTGATCGAAGGTATAATGATGTAAA
27848877 TTAGA
194 TTAGA
** * * * *
27848882 TATCGAAGGTACTTGACATGGCATTCTTATTATGTAATAATGGCACAATGATGCTTATAGAAATA
1 TATTTAAAGTACTTGACATGGCATTCCTATTGTGTAATAATGGCACAATGGTGCTTATAGAAATA
* * * *
27848947 AAAAAATCTTGAAGGTGTGGATATGTGGCATTCCTACTATACATTATAGTATAATGGTGCTAATA
66 AAAAAA-CTTTAAGGTGTGGACATGTGGCATTCCTATTATACATTA-AGTATAATGGTGCCAATA
* * *
27849012 TGTGAATTTGAAATCTTAGGATATGGTGCATTCTTATTATTTGATCGAAGGTATAATGATTTAAA
129 TGTGAATTTGAAATCTTAGTATATGGTGCATTCCTATTATTTGATCGAAGGTATAATGATGTAAA
*
27849077 TTAAA
194 TTAGA
* * * *
27849082 TTTTTAAAGTACTTAACATGGTATTCCTATTGTGTAATAATGGC-CTAATGGTCCTTATAGAAAT
1 TATTTAAAGTACTTGACATGGCATTCCTATTGTGTAATAATGGCAC-AATGGTGCTTATAGAAAT
* * * * * *
27849146 AAAAATACTTTAAGGTATGGGCATATGGCATTCCTATTATACATTAAGGTATAGTGGTGCTAATA
65 AAAAAAACTTTAAGGTGTGGACATGTGGCATTCCTATTATACATTAA-GTATAATGGTGCCAATA
* *
27849211 TGTAAATTTGAAATCTTAGTATATGGTGTATTCCT
129 TGTGAATTTGAAATCTTAGTATATGGTGCATTCCT
27849246 CTTGCTTTTT
Statistics
Matches: 475, Mismatches: 82, Indels: 12
0.83 0.14 0.02
Matches are distributed among these distances:
198 2 0.00
199 306 0.64
200 165 0.35
201 2 0.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (198 bp):
TATTTAAAGTACTTGACATGGCATTCCTATTGTGTAATAATGGCACAATGGTGCTTATAGAAATA
AAAAAACTTTAAGGTGTGGACATGTGGCATTCCTATTATACATTAAGTATAATGGTGCCAATATG
TGAATTTGAAATCTTAGTATATGGTGCATTCCTATTATTTGATCGAAGGTATAATGATGTAAATT
AGA
Found at i:27849233 original size:399 final size:398
Alignment explanation
Indices: 27848492--27849235 Score: 1019
Period size: 399 Copynumber: 1.9 Consensus size: 398
27848482 CTTATTTAAA
* * *
27848492 GTACTTGACATGGCATTCTTATTGTGTAATAATGGCACAATGGTGCGTATAGAAATAATAAAATT
1 GTACTTGACATGGCATTCTTATTATGTAATAATGGCACAATGATGCGTATAGAAATAAAAAAATT
* * * * *
27848557 TTAAGGTGTGGACATGTGGCATTTCTATTATATAATAAGATATAATGGTGCCTATATTTGAATTT
66 TGAAGGTGTGGACATGTGGCATTCCTACTATACAATAAGATATAATGGTGCCTATATGTGAATTT
** * * * * * **
27848622 GAAATCTTATTATATGGTGCGTTCCAATTATTTGATTGAAATTTTAATGGTGTAAATTGGATATT
131 GAAATCTTAGGATATGGTGCATTCCAATTATTTGATCGAAAGTATAATGATGTAAATTAAATATT
* * *
27848687 TAAAGTACTTGACATGGTATTCCTAATGTGTAAAAATGATACAATGGTGCTTATAGAAATAAAAA
196 TAAAGTACTTAACATGGTATTCCTAATGTGTAAAAATGAGACAATGGTCCTTATAGAAATAAAAA
* * * * *
27848752 AACTGTAAGGTGTGAACATGTGGGATTCCTATTATACATTACGCTATAATGGTGCCAATATGTGA
261 AACTGTAAGGTATGAACATATGGCATTCCTATTATACATTAAGCTATAATGGTGCCAATATGTAA
27848817 ATTTAAAATTGTAGTATATGTTGCCTTCCTATTATGTGATCGAAGGTATAATAATGTAAATTAGA
326 ATTTAAAATTGTAGTATATGTTGCCTTCCTATTATGTGATCGAAGGTATAATAATGTAAATTAGA
27848882 TATCGAAG
391 TATCGAAG
*
27848890 GTACTTGACATGGCATTCTTATTATGTAATAATGGCACAATGATGCTTATAGAAATAAAAAAATC
1 GTACTTGACATGGCATTCTTATTATGTAATAATGGCACAATGATGCGTATAGAAATAAAAAAAT-
* *
27848955 TTGAAGGTGTGGATATGTGGCATTCCTACTATACATTATAG-TATAATGGTG-CTAATATGTGAA
65 TTGAAGGTGTGGACATGTGGCATTCCTACTATACAATA-AGATATAATGGTGCCT-ATATGTGAA
** * *
27849018 TTTGAAATCTTAGGATATGGTGCATTCTTATTATTTGATCGAAGGTATAATGATTTAAATTAAAT
128 TTTGAAATCTTAGGATATGGTGCATTCCAATTATTTGATCGAAAGTATAATGATGTAAATTAAAT
* * * *
27849083 TTTTAAAGTACTTAACATGGTATTCCTATTGTGTAATAATG-GCCTAATGGTCCTTATAGAAATA
193 ATTTAAAGTACTTAACATGGTATTCCTAATGTGTAAAAATGAGAC-AATGGTCCTTATAGAAATA
* * ** * * *
27849147 AAAATACTTTAAGGTATGGGCATATGGCATTCCTATTATACATTAAGGTATAGTGGTGCTAATAT
257 AAAAAACTGTAAGGTATGAACATATGGCATTCCTATTATACATTAAGCTATAATGGTGCCAATAT
*
27849212 GTAAATTTGAAATCT-TAGTATATG
322 GTAAATTTAAAAT-TGTAGTATATG
27849236 GTGTATTCCT
Statistics
Matches: 297, Mismatches: 44, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
398 63 0.21
399 231 0.78
400 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (398 bp):
GTACTTGACATGGCATTCTTATTATGTAATAATGGCACAATGATGCGTATAGAAATAAAAAAATT
TGAAGGTGTGGACATGTGGCATTCCTACTATACAATAAGATATAATGGTGCCTATATGTGAATTT
GAAATCTTAGGATATGGTGCATTCCAATTATTTGATCGAAAGTATAATGATGTAAATTAAATATT
TAAAGTACTTAACATGGTATTCCTAATGTGTAAAAATGAGACAATGGTCCTTATAGAAATAAAAA
AACTGTAAGGTATGAACATATGGCATTCCTATTATACATTAAGCTATAATGGTGCCAATATGTAA
ATTTAAAATTGTAGTATATGTTGCCTTCCTATTATGTGATCGAAGGTATAATAATGTAAATTAGA
TATCGAAG
Found at i:27855654 original size:30 final size:30
Alignment explanation
Indices: 27855619--27855698 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
27855609 GTTATTAAAT
*
27855619 TTTTATTTTGAGTCAAATAAGTCCTTGTAA
1 TTTTATTTTGAATCAAATAAGTCCTTGTAA
* ** *
27855649 TTTTATTTTTAATCAAATAAGTTTTTGTAC
1 TTTTATTTTGAATCAAATAAGTCCTTGTAA
27855679 TTTTATTTTGAATCAAATAA
1 TTTTATTTTGAATCAAATAA
27855699 ATCTTTATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (30 bp):
TTTTATTTTGAATCAAATAAGTCCTTGTAA
Found at i:27857255 original size:4 final size:4
Alignment explanation
Indices: 27857248--27857272 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27857238 AAGGTTAAAT
27857248 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
27857273 TCAAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:27874258 original size:30 final size:29
Alignment explanation
Indices: 27874218--27874314 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 29
27874208 TATTCTTGTT
27874218 ATTATTTATTAAACTAATTTTTAAATGACTA
1 ATTATTTATTAAACTAATTTTTAAAT-A-TA
* ** *
27874249 ATT-TTTATTATAA-TTATTTTATCCATATT
1 ATTATTTATTA-AACTAATTTT-TAAATATA
*
27874278 ATTATTTATTAAACTAATTTTT-ATTATA
1 ATTATTTATTAAACTAATTTTTAAATATA
27874306 A-TATTTATT
1 ATTATTTATT
27874315 TTAAAATTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
27 8 0.15
28 4 0.07
29 7 0.13
30 27 0.50
31 8 0.15
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (29 bp):
ATTATTTATTAAACTAATTTTTAAATATA
Found at i:27893961 original size:2 final size:2
Alignment explanation
Indices: 27893948--27893981 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
27893938 TGACATCCAA
*
27893948 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27893982 CCATCTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27898976 original size:2 final size:2
Alignment explanation
Indices: 27898969--27898994 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27898959 GTATACACAT
27898969 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
27898995 GAGGAGACGT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27905314 original size:26 final size:25
Alignment explanation
Indices: 27905278--27905328 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
27905268 GTCATCGATT
27905278 CCGTAAATCTCCCTCTCTCTCTCTC
1 CCGTAAATCTCCCTCTCTCTCTCTC
*
27905303 NCCGTAAATCTCTCTCTCTCTCTCTC
1 -CCGTAAATCTCCCTCTCTCTCTCTC
27905329 TCTCTCTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.45, G:0.04, T:0.37
Consensus pattern (25 bp):
CCGTAAATCTCCCTCTCTCTCTCTC
Found at i:27905316 original size:2 final size:2
Alignment explanation
Indices: 27905311--27905366 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
27905301 TCNCCGTAAA
27905311 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27905353 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
27905367 CTCCTTTCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27907575 original size:6 final size:6
Alignment explanation
Indices: 27907564--27907589 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27907554 AGCGAAGCCC
27907564 TGGTGT TGGTGT TGGTGT TGGTGT TG
1 TGGTGT TGGTGT TGGTGT TGGTGT TG
27907590 TTACCATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TGGTGT
Found at i:27909683 original size:23 final size:23
Alignment explanation
Indices: 27909657--27909711 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
27909647 GTGTTGGATC
*
27909657 ATACAAATTT-AATAATGATGTAA
1 ATACAAATTTCAA-AATGATATAA
*
27909680 ATAC-AATTTCAAAATGATATAT
1 ATACAAATTTCAAAATGATATAA
*
27909702 ATATAAATTT
1 ATACAAATTT
27909712 GGAAACACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (23 bp):
ATACAAATTTCAAAATGATATAA
Found at i:27910412 original size:21 final size:21
Alignment explanation
Indices: 27910388--27910461 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
27910378 CTTAAAATTA
27910388 ATTCAATAAACTCTAAAATCG
1 ATTCAATAAACTCTAAAATCG
* * *
27910409 ATTCACA-AAA-TCATAATACCA
1 ATTCA-ATAAACTC-TAAAATCG
* **
27910430 ATTCAATAAACCCTCGAATCG
1 ATTCAATAAACTCTAAAATCG
*
27910451 ATTCAACAAAC
1 ATTCAATAAAC
27910462 CTTAAAACTA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
20 3 0.08
21 34 0.87
22 2 0.05
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.24
Consensus pattern (21 bp):
ATTCAATAAACTCTAAAATCG
Found at i:27910475 original size:42 final size:42
Alignment explanation
Indices: 27910217--27910498 Score: 121
Period size: 42 Copynumber: 6.8 Consensus size: 42
27910207 ATAAAATGAT
* * *
27910217 AAACTAATTCAATAAACCCTAAAATTGATTCATC--ACCTTA
1 AAACTAATTCAATAAACCCTAAAATCGATTCAACAAATCTTA
** * * * * * *
27910257 AAACTAATTTGACAAATCCTAAAACCGATTAAAAAAATCTTC
1 AAACTAATTCAATAAACCCTAAAATCGATTCAACAAATCTTA
* ** * * **
27910299 AAA-TCAGTTC-ATGAAACTTTGAAATCAATAAAACAAA-CTTTA
1 AAACT-AATTCAAT-AAACCCTAAAATCGATTCAACAAATC-TTA
* ** * * * *
27910341 AAA-TCATTCAGCAAACCCT-TAAGCTAGTTCAACAGATCTTA
1 AAACTAATTCAATAAACCCTAAAATCGA-TTCAACAAATCTTA
* * *
27910382 AAATTAATTCAATAAACTCTAAAATCGATTC-ACAAAATCATA
1 AAACTAATTCAATAAACCCTAAAATCGATTCAAC-AAATCTTA
* * ** *
27910424 ATACCAATTCAATAAACCCTCGAATCGATTCAACAAACCTTA
1 AAACTAATTCAATAAACCCTAAAATCGATTCAACAAATCTTA
** ***
27910466 AAACTAATTCGGTAAATTTTAAAATCGATTCAA
1 AAACTAATTCAATAAACCCTAAAATCGATTCAA
27910499 AAAGCCCTCC
Statistics
Matches: 169, Mismatches: 61, Indels: 22
0.67 0.24 0.09
Matches are distributed among these distances:
40 29 0.17
41 25 0.15
42 109 0.64
43 6 0.04
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (42 bp):
AAACTAATTCAATAAACCCTAAAATCGATTCAACAAATCTTA
Found at i:27923078 original size:90 final size:91
Alignment explanation
Indices: 27922923--27923092 Score: 279
Period size: 90 Copynumber: 1.9 Consensus size: 91
27922913 TTCTCTCAAG
* * *
27922923 TATGCTGTTCGGTGTTAATAACAAACTCTTGCATTGCAATTCATGCTGGTTAAGAACACTAGACT
1 TATGCTGGTCAGTGTTAATAACAAACTCTTGCACTGCAATTCATGCTGGTTAAGAACACTAGACT
27922988 GTTGCATGTTGGTAGCCTTGCTGCAT
66 GTTGCATGTTGGTAGCCTTGCTGCAT
** *
27923014 TATGCTGGTCAGTGTTAAT-ACTTACTCTTGCACTGCAATTCATGCTGGTTAAGAACACTGGACT
1 TATGCTGGTCAGTGTTAATAACAAACTCTTGCACTGCAATTCATGCTGGTTAAGAACACTAGACT
27923078 GTTGCATGTTGGTAG
66 GTTGCATGTTGGTAG
27923093 TCGGACTGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 56 0.77
91 17 0.23
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (91 bp):
TATGCTGGTCAGTGTTAATAACAAACTCTTGCACTGCAATTCATGCTGGTTAAGAACACTAGACT
GTTGCATGTTGGTAGCCTTGCTGCAT
Found at i:27925259 original size:6 final size:6
Alignment explanation
Indices: 27925248--27925282 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
27925238 ACCGAAGGTG
*
27925248 GAGGAA GAGGAA GAGGAA GAGGAA GATGAA G-GGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
27925283 AAGTGAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 3 0.11
6 24 0.89
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (6 bp):
GAGGAA
Found at i:27928104 original size:5 final size:6
Alignment explanation
Indices: 27928087--27928112 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27928077 TGTTTGGAAT
27928087 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
27928113 TTAACTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:27929379 original size:21 final size:21
Alignment explanation
Indices: 27929355--27929424 Score: 131
Period size: 21 Copynumber: 3.3 Consensus size: 21
27929345 GTGATAGAAA
27929355 TGGAGGCGGTGGTAGGTACTC
1 TGGAGGCGGTGGTAGGTACTC
27929376 TGGAGGCGGTGGTAGGTACTC
1 TGGAGGCGGTGGTAGGTACTC
*
27929397 TGGAGGCGGTGGTAGGTTCTC
1 TGGAGGCGGTGGTAGGTACTC
27929418 TGGAGGC
1 TGGAGGC
27929425 AAAGGTGGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.13, C:0.14, G:0.49, T:0.24
Consensus pattern (21 bp):
TGGAGGCGGTGGTAGGTACTC
Found at i:27937588 original size:2 final size:2
Alignment explanation
Indices: 27937577--27937611 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
27937567 TCCTTCTCTT
*
27937577 GA GA -A GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27937612 AAGTTAGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27944942 original size:30 final size:30
Alignment explanation
Indices: 27944906--27944965 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
27944896 AGTGAAAGTA
27944906 AGAAAGCTTTTTGATACGAATTTTGTTTGG
1 AGAAAGCTTTTTGATACGAATTTTGTTTGG
27944936 AGAAAGCTTTTTGATACGAATTTTGTTTGG
1 AGAAAGCTTTTTGATACGAATTTTGTTTGG
27944966 TTCTCCCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (30 bp):
AGAAAGCTTTTTGATACGAATTTTGTTTGG
Found at i:27947077 original size:18 final size:18
Alignment explanation
Indices: 27947062--27947096 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27947052 TTTTAAAATT
27947062 TTATTTTTTAAAAAAAAG
1 TTATTTTTTAAAAAAAAG
27947080 TTATTTTTTAAAAAAAA
1 TTATTTTTTAAAAAAAA
27947097 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATTTTTTAAAAAAAAG
Done.