Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 164 of 438
Found at i:50047330 original size:39 final size:39
Alignment explanation
Indices: 50047242--50047363 Score: 138
Period size: 39 Copynumber: 3.1 Consensus size: 39
50047232 GCCCGGTTAC
*
50047242 AGTAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTT
1 AGTAACTCGCACGAATGCCTTC-GGATCTT-ACTCGGATTT
* * * *
50047282 AGTAGCTCGCTCGAAAGCCTTCGGATCTTAGTCGGATTT
1 AGTAACTCGCACGAATGCCTTCGGATCTTACTCGGATTT
* * *
50047321 AGTAACTCGCACGTATGCCGTCGGATCTTATTCCGGATTT
1 AGTAACTCGCACGAATGCCTTCGGATCTTACT-CGGATTT
50047361 AGT
1 AGT
50047364 CACTTAGCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.54
40 32 0.46
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (39 bp):
AGTAACTCGCACGAATGCCTTCGGATCTTACTCGGATTT
Found at i:50047397 original size:40 final size:40
Alignment explanation
Indices: 50047218--50047398 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
50047208 ACATTCAAAT
* * *
50047218 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAAA
* * *
50047258 GCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCGAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
* * *
50047298 GCCTTC-GGATCTTAG-TCGGATTTAGTAACTCGCACGTAT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAAA
* ** * *
50047337 GCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACGAAA
50047377 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
50047399 ATCATTCGAA
Statistics
Matches: 114, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
39 35 0.31
40 69 0.61
41 10 0.09
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
Found at i:50054706 original size:39 final size:40
Alignment explanation
Indices: 50054528--50054710 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
50054518 CCGCACCAAG
* * * * * * * *
50054528 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
50054568 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
50054608 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
50054648 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
50054687 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
50054711 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:50062608 original size:39 final size:39
Alignment explanation
Indices: 50062550--50062733 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 39
50062540 CCGCACCAAG
* * * *
50062550 GCCTACGGGACTTAACCCGGATATCACGATTTG-ACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCAC-ACTTGCACAAAT
* * *
50062589 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATCAC-ACTTGCACAAAT
** * *
50062629 GCCTTCGGGTCTTAGCCCGGATATGGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATCAC-ACTTGCACAAAT
* *
50062669 GCCTTCGGGTCTTAACCCGGATAT-A-A-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATCACACTTGCA-CA-AA-T
* *
50062708 GTCTTCGGGGCTTAGCCCGGATATCA
1 GCCTTCGGGTCTTAGCCCGGATATCA
50062734 TTCAATTTCT
Statistics
Matches: 117, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
36 3 0.03
37 3 0.03
38 1 0.01
39 48 0.41
40 62 0.53
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATCACACTTGCACAAAT
Found at i:50084956 original size:40 final size:40
Alignment explanation
Indices: 50084911--50085040 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
50084901 CGGAATACAA
50084911 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
50084951 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
50084991 CCGGATGTAGCCACTAGCAC-AATTGACTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
50085031 CCGGATATAA
1 CCGGATATAA
50085041 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:50087762 original size:17 final size:20
Alignment explanation
Indices: 50087740--50087779 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50087730 AACCCTAACA
50087740 TTCCC-TTTT-CTT-TTTCT
1 TTCCCTTTTTCCTTCTTTCT
50087757 TTCCCTTTTTCCTTCTTTCT
1 TTCCCTTTTTCCTTCTTTCT
50087777 TTC
1 TTC
50087780 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 3 0.15
20 8 0.40
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCCCTTTTTCCTTCTTTCT
Found at i:50087797 original size:18 final size:18
Alignment explanation
Indices: 50087769--50087814 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
50087759 CCCTTTTTCC
*
50087769 TTCTTTCTTTCTTTT-TT
1 TTCTTTATTTCTTTTATT
*
50087786 TATTTTTATTTCTTTTATT
1 T-TCTTTATTTCTTTTATT
50087805 TTCTTTATTT
1 TTCTTTATTT
50087815 AATCAATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 3 0.12
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTTTATTTCTTTTATT
Found at i:50090916 original size:2 final size:2
Alignment explanation
Indices: 50090909--50090933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50090899 GAGACTAGTC
50090909 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50090934 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50092975 original size:30 final size:30
Alignment explanation
Indices: 50092941--50093001 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
50092931 TCCTTAACTC
50092941 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
50092971 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
50093001 A
1 A
50093002 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:50095367 original size:2 final size:2
Alignment explanation
Indices: 50095360--50095384 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50095350 GAGACTAGTC
50095360 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50095385 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50096326 original size:21 final size:22
Alignment explanation
Indices: 50096302--50096350 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
50096292 ATAACCTTAC
*
50096302 CACATCCTGGTCACTTAAT-CA
1 CACATCCTGGTCACTTAATGAA
50096323 CACATCCTGGTCACTTAATGAA
1 CACATCCTGGTCACTTAATGAA
50096345 CACATC
1 CACATC
50096351 ATTCACATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.27
Consensus pattern (22 bp):
CACATCCTGGTCACTTAATGAA
Found at i:50097438 original size:30 final size:30
Alignment explanation
Indices: 50097404--50097464 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
50097394 TCCTTAACTC
50097404 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
50097434 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
50097464 A
1 A
50097465 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:50099832 original size:2 final size:2
Alignment explanation
Indices: 50099825--50099851 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50099815 GAGACTAGTC
50099825 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
50099852 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50106990 original size:20 final size:18
Alignment explanation
Indices: 50106952--50106995 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
50106942 AAACCCTAAT
50106952 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
50106969 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
50106989 TTTCCCT
1 TTTCCCT
50106996 GCTAATCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:50108785 original size:16 final size:16
Alignment explanation
Indices: 50108764--50108795 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50108754 CCAACGCCCC
*
50108764 AAAAATCTTGAAATCT
1 AAAAATCTCGAAATCT
50108780 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
50108796 TGAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAATCTCGAAATCT
Found at i:50110299 original size:29 final size:29
Alignment explanation
Indices: 50110254--50110372 Score: 136
Period size: 29 Copynumber: 4.2 Consensus size: 29
50110244 GTGAGCATGA
*
50110254 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
50110282 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
50110311 ATAAGAATATGAATTGGGCC-AGATGGGTC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
50110340 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
50110368 ATATG
1 ATATG
50110373 CTTGTATGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 22 0.29
29 53 0.71
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:50110320 original size:58 final size:57
Alignment explanation
Indices: 50110258--50110370 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
50110248 GCATGAATAT
* **
50110258 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
* *
50110316 AATATGAATTGGGCCAGATGGGTCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAATTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
50110371 TGCTTGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 21 0.43
58 28 0.57
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.27
Consensus pattern (57 bp):
AATATGAATTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:50137822 original size:20 final size:20
Alignment explanation
Indices: 50137793--50137837 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50137783 AGCACATGTA
* * *
50137793 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTGTACAACTT
*
50137813 TTCATCAAATTGTACAACTT
1 TTCATAAAATTGTACAACTT
50137833 TTCAT
1 TTCAT
50137838 TTTAGTCCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTGTACAACTT
Found at i:50140157 original size:30 final size:30
Alignment explanation
Indices: 50140105--50140161 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
50140095 TGATTTGAGT
*
50140105 TGATGAGCATGTGATGTTTGTGTATGATAGA
1 TGATGAGCATGTGATGTATGTGT-TGATAGA
50140136 TGAT-AGCATGTGAATG-ATGTGTTGAT
1 TGATGAGCATGTG-ATGTATGTGTTGAT
50140162 GTCTTGGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.17
30 13 0.54
31 7 0.29
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.39
Consensus pattern (30 bp):
TGATGAGCATGTGATGTATGTGTTGATAGA
Found at i:50154977 original size:59 final size:60
Alignment explanation
Indices: 50154865--50154996 Score: 180
Period size: 59 Copynumber: 2.2 Consensus size: 60
50154855 TTCAAAAATA
* *
50154865 ATATTATTTTAAT-AGTTTAATATTAAATTAAATTTAATGTTTATCTTGTGATAAACATT
1 ATATTATTTTAATAAGTTTAATATTAAATTAAATCTAATATTTATCTTGTGATAAACATT
* * *
50154924 CTATTATTTTAATAAGATTTAATATTAAATTTAATCTAATATTTATC-T-TGATAAATATT
1 ATATTATTTTAATAAG-TTTAATATTAAATTAAATCTAATATTTATCTTGTGATAAACATT
*
50154983 ATATTAATTTAATA
1 ATATTATTTTAATA
50154997 TTAAATTAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
59 34 0.53
60 3 0.05
61 27 0.42
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (60 bp):
ATATTATTTTAATAAGTTTAATATTAAATTAAATCTAATATTTATCTTGTGATAAACATT
Found at i:50166674 original size:40 final size:40
Alignment explanation
Indices: 50166600--50166742 Score: 160
Period size: 40 Copynumber: 3.6 Consensus size: 40
50166590 CCGCACCAAG
* * * * * * *
50166600 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAC
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
50166640 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
50166680 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
50166720 GCCTTCGGGTCTTAACCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
50166743 AAATTTTCAG
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:50166760 original size:40 final size:41
Alignment explanation
Indices: 50166640--50166782 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 41
50166630 TTGCACAAAC
** * *
50166640 GCCTTCGGGTCTTAGCCCGGATTTAA-CAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCAC-AATT
*
50166680 GCCTTCGGGTCTTAGCCCGGAT-ATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCACAATT
* ** * *
50166720 GCCTTCGGGTCTTAACCCGGATAAAATTTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCACAATT
* *
50166760 GTCTTCGGGGCTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
50166783 TCATTCAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 80 0.92
41 4 0.05
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (41 bp):
GCCTTCGGGTCTTAGCCCGGATAAAAGCTACTAGCACAATT
Found at i:50168657 original size:20 final size:19
Alignment explanation
Indices: 50168601--50168654 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
50168591 AATTTAATAC
* * *
50168601 TTATCTTAATAGTATTTTA
1 TTATCTTAATATTAATTGA
*
50168620 TTATTTTAATATTGAATTGA
1 TTATCTTAATATT-AATTGA
50168640 TTATCTTAATATTAA
1 TTATCTTAATATTAA
50168655 ATTTAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (19 bp):
TTATCTTAATATTAATTGA
Found at i:50174410 original size:43 final size:43
Alignment explanation
Indices: 50174363--50174512 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 43
50174353 CTAGACGTAT
* *
50174363 TCTTACATGTAACCAAATATCGATGCCACTGTCCCAGACAAGG
1 TCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAAGG
* * * *
50174406 TCTTACACGAAATCATATAT-GATGTCAATGTCCCAGACATA-G
1 TCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACA-AGG
* * **
50174448 TCTTACGCGTAAATCACAA-ATC-ACTGCCACAGTCCCAGACGTGG
1 TCTTACACGT-AATCA-AATATCGA-TGCCACTGTCCCAGACAAGG
*
50174492 TCTTACATGATAA-CAAATATC
1 TCTTACACG-TAATCAAATATC
50174513 AGAATCCTAT
Statistics
Matches: 83, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
42 28 0.34
43 30 0.36
44 24 0.29
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
TCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAAGG
Found at i:50175950 original size:34 final size:34
Alignment explanation
Indices: 50175904--50175973 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
50175894 AACAGTCCAG
*
50175904 TATCAGTATGGGCCTTAGCCCATTACAATAACAA
1 TATCAGTATGGGCCTAAGCCCATTACAATAACAA
* * * *
50175938 TATCAGTGTGGGCCTAAGCTCATTATAGTAACAA
1 TATCAGTATGGGCCTAAGCCCATTACAATAACAA
50175972 TA
1 TA
50175974 ACAGAAATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
TATCAGTATGGGCCTAAGCCCATTACAATAACAA
Found at i:50179520 original size:28 final size:29
Alignment explanation
Indices: 50179480--50179552 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
50179470 CCTCCGAGCT
** * *
50179480 CGCACACCCAGTGCCGTAT-TTTTCAGCT
1 CGCACACTTAGTGCCGTATATTTCCAGCA
* *
50179508 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
50179537 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
50179553 ATCTCGTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:50187349 original size:29 final size:29
Alignment explanation
Indices: 50187317--50187394 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
50187307 ATACCCTCCG
** *
50187317 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
50187346 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
50187375 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
50187395 ATCTCGTCAC
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:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:50193911 original size:2 final size:2
Alignment explanation
Indices: 50193904--50193937 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50193894 TCACTTGGCC
50193904 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50193938 CTCAAAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50197706 original size:42 final size:44
Alignment explanation
Indices: 50197605--50197762 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 44
50197595 AGCTCATACA
*** *
50197605 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACAAAATCAAATATCG
* * *
50197648 ATGCCACTGTCTCAGACAG-GGTCTTACACAAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACAAAATCAAATATCG
*
50197690 ATGCCAATGTCCCAGACA-TGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACAC-AAAATCA-AATATCG
** *
50197734 ATGCCAACATCCCAGA-TGTGGTCTTACAC
1 ATGCCAATGTCCCAGACAGTGGTCTTACAC
50197763 GACAACACAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.29
43 38 0.40
44 29 0.31
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGTGGTCTTACACAAAATCAAATATCG
Found at i:50199511 original size:42 final size:42
Alignment explanation
Indices: 50199452--50199537 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
50199442 AAACGGAGTA
50199452 AGCATTACATGCTTAGTAAGTTCATATAACGGTAACTAAACT
1 AGCATTACATGCTTAGTAAGTTCATATAACGGTAACTAAACT
50199494 AGCATTACATGCTTAGTAAGTTCATATAACGGTAACTAAACT
1 AGCATTACATGCTTAGTAAGTTCATATAACGGTAACTAAACT
50199536 AG
1 AG
50199538 TCTCGTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (42 bp):
AGCATTACATGCTTAGTAAGTTCATATAACGGTAACTAAACT
Found at i:50218793 original size:27 final size:27
Alignment explanation
Indices: 50218754--50218866 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
50218744 GGTCGTTAAG
*
50218754 ACCCTCGATTTGTAAAATTACTAAAAT
1 ACCCTCAATTTGTAAAATTACTAAAAT
*** *
50218781 ACCCTCGGGTTGTAAAATTA-TCGAAAT
1 ACCCTCAATTTGTAAAATTACT-AAAAT
* *
50218808 ACCCTTAATTTGTGAAATTACTAAAAT
1 ACCCTCAATTTGTAAAATTACTAAAAT
*
50218835 ACCCTCAATTTGTAAAATTACTGAAAT
1 ACCCTCAATTTGTAAAATTACTAAAAT
50218862 ACCCT
1 ACCCT
50218867 TGTAGCGTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 70 0.97
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
ACCCTCAATTTGTAAAATTACTAAAAT
Found at i:50218836 original size:54 final size:54
Alignment explanation
Indices: 50218761--50218867 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
50218751 AAGACCCTCG
**
50218761 ATTTGTAAAATTACTAAAATACCCTCGGGTTGTAAAATTA-TCGAAATACCCTTA
1 ATTTGTAAAATTACTAAAATACCCTCAAGTTGTAAAATTACT-GAAATACCCTTA
* *
50218815 ATTTGTGAAATTACTAAAATACCCTCAATTTGTAAAATTACTGAAATACCCTT
1 ATTTGTAAAATTACTAAAATACCCTCAAGTTGTAAAATTACTGAAATACCCTT
50218868 GTAGCGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (54 bp):
ATTTGTAAAATTACTAAAATACCCTCAAGTTGTAAAATTACTGAAATACCCTTA
Found at i:50218891 original size:27 final size:26
Alignment explanation
Indices: 50218846--50218936 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 26
50218836 CCCTCAATTT
* *
50218846 GTAAAATTACTGAAATACCCTTGTAG
1 GTAAAATGACTGTAATACCCTTGTAG
** **
50218872 CGTAAAATGACTGTTGTACCCCAGTAAG
1 -GTAAAATGACTGTAATACCCTTGT-AG
*
50218900 GTAAAATGATTGTAATACCCTTGTATG
1 GTAAAATGACTGTAATACCCTTGTA-G
50218927 GTAAAATGAC
1 GTAAAATGAC
50218937 GATTATGCCC
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 47 0.94
28 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (26 bp):
GTAAAATGACTGTAATACCCTTGTAG
Found at i:50219113 original size:27 final size:26
Alignment explanation
Indices: 50219073--50219156 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
50219063 TGGAGGAAGT
*
50219073 ACTGTACTGGTGGCTATGTCACATTC
1 ACTGTACTGGTGGCTATGCCACATTC
* *
50219099 ACTGTTACTAGTGGCTACGCCACAATT-
1 ACTG-TACTGGTGGCTATGCCAC-ATTC
*
50219126 ACTGATACTGGTGGCTTTGCCACATTC
1 ACTG-TACTGGTGGCTATGCCACATTC
50219153 ACTG
1 ACTG
50219157 GTTCTGGCAG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.15
27 38 0.79
28 3 0.06
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (26 bp):
ACTGTACTGGTGGCTATGCCACATTC
Found at i:50219163 original size:27 final size:27
Alignment explanation
Indices: 50219079--50219172 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
50219069 AAGTACTGTA
*
50219079 CTGGTGGCTATGTCACATTCACT-GTT
1 CTGGTGGCTATGCCACATTCACTGGTT
* * * *
50219105 ACTAGTGGCTACGCCACAATT-ACTGATA
1 -CTGGTGGCTATGCCAC-ATTCACTGGTT
*
50219133 CTGGTGGCTTTGCCACATTCACTGGTT
1 CTGGTGGCTATGCCACATTCACTGGTT
**
50219160 CTGGCAGCTATGC
1 CTGGTGGCTATGC
50219173 TGCATTATTA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
26 3 0.06
27 44 0.86
28 4 0.08
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATTCACTGGTT
Found at i:50219366 original size:33 final size:33
Alignment explanation
Indices: 50219315--50219410 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
50219305 TTACATTGTT
*
50219315 CTGATACTATATAGGGCTAAGGCCCAAACTGTA
1 CTGATACTGTATAGGGCTAAGGCCCAAACTGTA
* *
50219348 CTGTTACTGTATAGGGCTAAGGCCCAGACTGTA
1 CTGATACTGTATAGGGCTAAGGCCCAAACTGTA
* *
50219381 CTGATACTGAATAAGGCTCAA-GCCCAAACT
1 CTGATACTGTATAGGGCT-AAGGCCCAAACT
50219411 ATTACTACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (33 bp):
CTGATACTGTATAGGGCTAAGGCCCAAACTGTA
Found at i:50228255 original size:40 final size:40
Alignment explanation
Indices: 50228210--50228376 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
50228200 CGGAATATAA
50228210 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50228250 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
50228290 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50228330 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50228369 CCGGATAT
1 CCGGATAT
50228377 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50228360 original size:80 final size:79
Alignment explanation
Indices: 50228210--50228376 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
50228200 CGGAATATAA
* *
50228210 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
50228275 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
50228290 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
50228352 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
50228369 CCGGATAT
1 CCGGATAT
50228377 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:50230178 original size:5 final size:5
Alignment explanation
Indices: 50230168--50230201 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
50230158 ATGGTTAGGG
50230168 TTTCT TTTCT TTTCT TTTCTT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTC-T TTTCT TTTCT TTT
50230202 TTAGTTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:50230193 original size:11 final size:11
Alignment explanation
Indices: 50230168--50230202 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
50230158 ATGGTTAGGG
50230168 TTTCTTTTC-T
1 TTTCTTTTCTT
50230178 TTTCTTTTCTT
1 TTTCTTTTCTT
50230189 TTTCTTTTCTT
1 TTTCTTTTCTT
50230200 TTT
1 TTT
50230203 TAGTTTAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:50234006 original size:25 final size:25
Alignment explanation
Indices: 50233978--50234094 Score: 128
Period size: 25 Copynumber: 4.7 Consensus size: 25
50233968 TTCGATCCAC
50233978 AGCTCATGTGAGCATACCGATTTAT
1 AGCTCATGTGAGCATACCGATTTAT
* *
50234003 AGCTCATGAGAGCATATCGATTTAT
1 AGCTCATGTGAGCATACCGATTTAT
* ** *
50234028 AGCTCGTGAAAGCATACCGATCTAT
1 AGCTCATGTGAGCATACCGATTTAT
* *
50234053 AGCTCGA-GTGAGCATACCGATTCAC
1 AGCTC-ATGTGAGCATACCGATTTAT
* *
50234078 AGCTCGTATGAGCATAC
1 AGCTCATGTGAGCATAC
50234095 ATGTATAGGA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
AGCTCATGTGAGCATACCGATTTAT
Found at i:50234032 original size:50 final size:50
Alignment explanation
Indices: 50233970--50234094 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
50233960 AGCTAAGTTT
* * * *
50233970 CGATCCACAGCTCATGTGAGCATACCGATTTATAGCTC-ATGAGAGCATAT
1 CGATTCACAGCTCGTGTGAGCATACCGATCTATAGCTCGA-GAGAGCATAC
* * ** *
50234020 CGATTTATAGCTCGTGAAAGCATACCGATCTATAGCTCGAGTGAGCATAC
1 CGATTCACAGCTCGTGTGAGCATACCGATCTATAGCTCGAGAGAGCATAC
*
50234070 CGATTCACAGCTCGTATGAGCATAC
1 CGATTCACAGCTCGTGTGAGCATAC
50234095 ATGTATAGGA
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 59 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (50 bp):
CGATTCACAGCTCGTGTGAGCATACCGATCTATAGCTCGAGAGAGCATAC
Found at i:50239759 original size:26 final size:26
Alignment explanation
Indices: 50239709--50239763 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
50239699 TATTTTCTCG
*
50239709 AAATTTTACTAAGGGTAATATCATCA
1 AAATTTTACTAAGGGTAATACCATCA
*
50239735 AAATTTTACTAGGGGTAA-ACCCATCA
1 AAATTTTACTAAGGGTAATA-CCATCA
50239761 AAA
1 AAA
50239764 ATTTGTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (26 bp):
AAATTTTACTAAGGGTAATACCATCA
Found at i:50242486 original size:40 final size:40
Alignment explanation
Indices: 50242441--50242568 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
50242431 ATAATTCGGT
* **
50242441 TATGTATAGCACTCAGTGTGTTATTCAAGATAGCTTCAGC
1 TATGTATAGCACTTAGTGTGAGATTCAAGATAGCTTCAGC
* * * *
50242481 TATGTATAGCACTTAGTGTGCGATTCGAGATAAC-TCTGGC
1 TATGTATAGCACTTAGTGTGAGATTCAAGATAGCTTC-AGC
* *
50242521 TATGTATGGCACTTAGTGTGCGAGATTGAA-ATAGCTTCAGC
1 TATGTATAGCACTTAGTGT--GAGATTCAAGATAGCTTCAGC
50242562 TATGTAT
1 TATGTAT
50242569 TGGTACTTAG
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.03
40 49 0.68
41 13 0.18
42 8 0.11
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (40 bp):
TATGTATAGCACTTAGTGTGAGATTCAAGATAGCTTCAGC
Found at i:50252008 original size:79 final size:80
Alignment explanation
Indices: 50251906--50252090 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
50251896 GCTACTCGTT
* * *
50251906 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACCAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
50251969 GGATTTAGTAAC-TCGCAC
63 GGATATAGTAACTTAGC-C
* **
50251987 CAAGGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
50252051 TATAGTCACTTAGCG
66 TATAGTAACTTAGCC
50252066 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
50252091 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCC
Found at i:50252090 original size:40 final size:40
Alignment explanation
Indices: 50251906--50252090 Score: 200
Period size: 40 Copynumber: 4.6 Consensus size: 40
50251896 GCTACTCGTT
* *
50251906 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * *
50251947 CAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
50251987 CAAGGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA-
1 CAAAGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAC
* * * *
50252025 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGC-G
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAC
50252066 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
50252091 CATCATTCGA
Statistics
Matches: 123, Mismatches: 13, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
38 5 0.04
39 28 0.23
40 76 0.62
41 14 0.11
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:50256054 original size:40 final size:40
Alignment explanation
Indices: 50255996--50256146 Score: 187
Period size: 40 Copynumber: 3.7 Consensus size: 40
50255986 TTGACGACAA
* *
50255996 TTCGGTTATGTACGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
* * *
50256036 TTCGGCTATGTATAGCACTTAGTGTGCGACTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
*
50256076 TTCGGCTATGTATGGCACTTAGTGTGCGAGATTGAA-ATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGC--GATTCAAGATAGC
* * *
50256117 TTTGGCTATGTATTGGAACTTAATGTGCGA
1 TTCGGCTATGTA-TGGCACTTAGTGTGCGA
50256147 GAATTTGAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 63 0.66
41 16 0.17
42 17 0.18
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
Found at i:50260492 original size:47 final size:46
Alignment explanation
Indices: 50260295--50260655 Score: 247
Period size: 47 Copynumber: 7.7 Consensus size: 46
50260285 GATATAGTTT
* * * * *
50260295 CGATGCCAAGTCCTAGACATGGTCTTACACTGGCTCTCATATACGCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGC
* * * *
50260345 TGATGCATGTCCCAGACATGTATTACACTAGCA--CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GC
* * *
50260389 CGATGCATGTCCCAAACATGTCTTATACT--AACT-ATCTCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT----GC
50260436 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
* * * *
50260482 CGTTGCCATGTCCCAAACATGGTCTTACACTGGCTA-TCATAGTATG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-CTCTGTGC
* * * * * *
50260530 TGATGCATGTCTCAGACATGTCTTACACTAGCCCTCGTCT-GGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGC
* * * **
50260576 TGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTGT-GC
*
50260624 CGAAGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
50260656 GCACAAATCA
Statistics
Matches: 248, Mismatches: 42, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 29 0.12
45 2 0.01
46 44 0.18
47 80 0.32
48 55 0.22
49 19 0.08
50 12 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
Found at i:50260546 original size:94 final size:94
Alignment explanation
Indices: 50260295--50260652 Score: 365
Period size: 94 Copynumber: 3.8 Consensus size: 94
50260285 GATATAGTTT
* * * * * *
50260295 CGATGCCAAGTCCTAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATGCATGTCCCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTCCCA
* *
50260359 GACATGTATTACACTAGCA--CAACTCT-TAGC
63 GACATGTCTTACACTAGCACTCATCTCTGT-GC
* ** *
50260389 CGATG-CATGTCCCAAACAT-GTCTTATACTAACTATC-TCTGTCGA-GGCCGATGCATGTCCCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGTCCCA
*
50260450 GACATGTCTTACACTGGCACTCATCTCTGTGC
63 GACATGTCTTACACTAGCACTCATCTCTGTGC
* * *
50260482 CGTTGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCTCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGAC
* * *
50260547 ATGTCTTACACTAGCCCTCGTCT-GGATGC
66 ATGTCTTACACTAGCACTCATCTCTG-TGC
* * * * *
50260576 TGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGAC
50260641 ATGTCTTACACT
66 ATGTCTTACACT
50260653 GGCGCACAAA
Statistics
Matches: 221, Mismatches: 31, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
91 33 0.15
92 14 0.06
93 26 0.12
94 130 0.59
95 17 0.08
96 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTGTGC
Found at i:50260553 original size:141 final size:140
Alignment explanation
Indices: 50260295--50260655 Score: 331
Period size: 141 Copynumber: 2.6 Consensus size: 140
50260285 GATATAGTTT
* * * * * * * * *
50260295 CGATGCCAAGTCCTAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATA-ATGTG-GCCGAAGCATGTCCCAA
* * * * * * * *
50260360 ACATGTATTACACTAGC-A-CA-ACTCTTAGCCGATGCATGTCCCAAACATGTCTTATACTAACT
64 ACATGTCTTACACTGGCTATCATAGT-ATGGCTGATGCATGTCCCAAACATGTCTTACACTAACC
50260422 ATC-TCTGTCGAGGC
128 ATCGTCTG--GAGGC
* * * **
50260436 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCTGTGCCGTTGCCATGTCCCAA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATAATGTG-GCCGAAG-CATGTCCCAA
* * *
50260498 ACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCTCAGACATGTCTTACACTAGCC
64 ACAT-GTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAAACATGTCTTACACTAACC
* *
50260563 CTCGTCTGGATGC
128 ATCGTCTGGAGGC
* * *
50260576 TGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAAAC
50260641 ATGTCTTACACTGGC
66 ATGTCTTACACTGGC
50260656 GCACAAATCA
Statistics
Matches: 180, Mismatches: 31, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
137 7 0.04
138 13 0.07
139 29 0.16
140 34 0.19
141 65 0.36
142 29 0.16
143 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAAAC
ATGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAAACATGTCTTACACTAACCATC
GTCTGGAGGC
Found at i:50261032 original size:30 final size:30
Alignment explanation
Indices: 50260991--50261048 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
50260981 AAATTCACAT
*
50260991 CTTTGATAAAATAACCATTTTGCCCCTAGA
1 CTTTGACAAAATAACCATTTTGCCCCTAGA
*
50261021 CTTTGACAAAATAATCATTTTGCCCCTA
1 CTTTGACAAAATAACCATTTTGCCCCTA
50261049 TGCTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (30 bp):
CTTTGACAAAATAACCATTTTGCCCCTAGA
Found at i:50267218 original size:9 final size:9
Alignment explanation
Indices: 50267204--50267231 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50267194 AAGGACCATT
50267204 TTGTAAAAG
1 TTGTAAAAG
50267213 TTGTAAAAG
1 TTGTAAAAG
50267222 TTGTAAAAG
1 TTGTAAAAG
50267231 T
1 T
50267232 GGTATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (9 bp):
TTGTAAAAG
Found at i:50268271 original size:51 final size:51
Alignment explanation
Indices: 50268180--50268299 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 51
50268170 ATCACATATG
* * * *
50268180 TGGTACTAAGTGTAGGCCACTATATGTAAAAGATATCTTTG-GTCACAAGTC
1 TGGTACTATGTGTAGGCCACTATATGTAAAAGATAGCTTTGACT-ACAAGGC
* * *
50268231 TGGTACTATGTGAAGGCCACT-T-TGTGAAGAAGGTAGCTTTGACTACAAGGG
1 TGGTACTATGTGTAGGCCACTATATGT-AA-AAGATAGCTTTGACTACAAGGC
50268282 TGGTACTATGTGTAGGCC
1 TGGTACTATGTGTAGGCC
50268300 GGGCATCCGT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.05
50 3 0.05
51 51 0.88
52 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (51 bp):
TGGTACTATGTGTAGGCCACTATATGTAAAAGATAGCTTTGACTACAAGGC
Found at i:50269818 original size:30 final size:30
Alignment explanation
Indices: 50269784--50269854 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
50269774 TACACGGGAT
50269784 GAGACACGGCCGTGTGTCTCAACCGTGTGA
1 GAGACACGGCCGTGTGTCTCAACCGTGTGA
*
50269814 GAGACACGGCCGTGTGTCTCATCCGTGTGA
1 GAGACACGGCCGTGTGTCTCAACCGTGTGA
*
50269844 GGGACACGGCC
1 GAGACACGGCC
50269855 TGGTGACACG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.18
Consensus pattern (30 bp):
GAGACACGGCCGTGTGTCTCAACCGTGTGA
Found at i:50279441 original size:28 final size:30
Alignment explanation
Indices: 50279390--50279451 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
50279380 TGCATATTTT
50279390 TTTTTATTTTTGAATGTTATTTTCTTGTTG
1 TTTTTATTTTTGAATGTTATTTTCTTGTTG
50279420 TTTTT-TTTTTGAATGTTA-TTTCTTGTTG
1 TTTTTATTTTTGAATGTTATTTTCTTGTTG
50279448 TTTT
1 TTTT
50279452 CTCCTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 14 0.44
29 13 0.41
30 5 0.16
ACGTcount: A:0.11, C:0.03, G:0.13, T:0.73
Consensus pattern (30 bp):
TTTTTATTTTTGAATGTTATTTTCTTGTTG
Found at i:50279567 original size:30 final size:30
Alignment explanation
Indices: 50279533--50279595 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
50279523 ATTTATTTTA
*
50279533 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
*
50279563 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
50279593 TTG
1 TTG
50279596 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:50279692 original size:25 final size:23
Alignment explanation
Indices: 50279636--50279692 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
50279626 TTAAGTCTAC
*
50279636 ATATTTTTT-AAAATTTATTTTT
1 ATATTTTTTGAAAATTTATTTTG
50279658 A-ATTTGTTTGGAAATATTTATTTTG
1 ATATTT-TTT-GAAA-ATTTATTTTG
50279683 ATATTTTTTG
1 ATATTTTTTG
50279693 TATTTCTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
24 4 0.14
25 13 0.45
26 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
ATATTTTTTGAAAATTTATTTTG
Found at i:50280318 original size:6 final size:5
Alignment explanation
Indices: 50280296--50280331 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
50280286 TGTATTCTTG
*
50280296 ATTTT ATTTT ATTTT ATTTTT ATTTA ATTTT ATTTT
1 ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT
50280332 CACAAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:50280318 original size:16 final size:16
Alignment explanation
Indices: 50280297--50280331 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
50280287 GTATTCTTGA
*
50280297 TTTTATTTTATTTTAT
1 TTTTATTTAATTTTAT
50280313 TTTTATTTAATTTTAT
1 TTTTATTTAATTTTAT
50280329 TTT
1 TTT
50280332 CACAAATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTAATTTTAT
Found at i:50285860 original size:46 final size:49
Alignment explanation
Indices: 50285754--50285875 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
50285744 TGTCTTCGAC
** * *
50285754 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * *
50285804 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
50285850 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
50285876 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:50290187 original size:46 final size:49
Alignment explanation
Indices: 50290081--50290202 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
50290071 TGTCTTCGAC
** * *
50290081 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * *
50290131 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
50290177 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
50290203 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:50292092 original size:2 final size:2
Alignment explanation
Indices: 50292085--50292111 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50292075 GATTTTCATC
50292085 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50292112 TAAAAGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50295183 original size:52 final size:52
Alignment explanation
Indices: 50295105--50295205 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
50295095 GCATACAATC
50295105 TTACCATATATTTCATACCTAATAGTATCAGCTTATTATAAAACTTAACATT
1 TTACCATATATTTCATACCTAATAGTATCAGCTTATTATAAAACTTAACATT
*
50295157 TTACCATATATTTCATACCTAATAGTATCAGCTTATTCTAAAACTTAAC
1 TTACCATATATTTCATACCTAATAGTATCAGCTTATTATAAAACTTAAC
50295206 TTGTAACGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (52 bp):
TTACCATATATTTCATACCTAATAGTATCAGCTTATTATAAAACTTAACATT
Found at i:50297982 original size:53 final size:53
Alignment explanation
Indices: 50297912--50298028 Score: 173
Period size: 53 Copynumber: 2.2 Consensus size: 53
50297902 TCAAGGTTTT
* * *
50297912 TAGACACGGGCTCGGACACGAGCT-TGTCATGACCGTGTGAGGAACACGGGCCA
1 TAGACACAGGCTAGGACACGAG-TGTGTCATGACCGTGTGAGGAACACGAGCCA
**
50297965 TAGACACAGGCTAGGACACGAGTGTGTCATGGTCGTGTGAGGAACACGAGCCA
1 TAGACACAGGCTAGGACACGAGTGTGTCATGACCGTGTGAGGAACACGAGCCA
50298018 TAGACACAGGC
1 TAGACACAGGC
50298029 GTGTATCAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 1 0.02
53 57 0.98
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.15
Consensus pattern (53 bp):
TAGACACAGGCTAGGACACGAGTGTGTCATGACCGTGTGAGGAACACGAGCCA
Found at i:50304940 original size:28 final size:28
Alignment explanation
Indices: 50304898--50304951 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
50304888 TTACCCAAAA
50304898 AAAACTTATTAGATTAGGTCAATTTTTC
1 AAAACTTATTAGATTAGGTCAATTTTTC
* * *
50304926 AAAATTTATTGGATTAGGTTAATTTT
1 AAAACTTATTAGATTAGGTCAATTTT
50304952 AGAAAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (28 bp):
AAAACTTATTAGATTAGGTCAATTTTTC
Found at i:50305129 original size:25 final size:23
Alignment explanation
Indices: 50305064--50305148 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
50305054 TCTCCAGGGT
* *
50305064 TTTTTTAGTGATTTT-TTTTAGA
1 TTTTTTAGGGTTTTTGTTTTAGA
***
50305086 TTTTTTAGGGTTAGGGTTTTAGA
1 TTTTTTAGGGTTTTTGTTTTAGA
* *
50305109 TTCTTTTAAGGGTTTTTGTTTAAGG
1 TT-TTTT-AGGGTTTTTGTTTTAGA
* *
50305134 TTTGTAAGGGTTTTT
1 TTTTTTAGGGTTTTT
50305149 AAAGTTTAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
22 10 0.21
23 18 0.38
24 6 0.12
25 14 0.29
ACGTcount: A:0.16, C:0.01, G:0.24, T:0.59
Consensus pattern (23 bp):
TTTTTTAGGGTTTTTGTTTTAGA
Found at i:50305237 original size:20 final size:21
Alignment explanation
Indices: 50305212--50305254 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
50305202 AAATTTTTAA
50305212 TTTTTA-ACATTTTTAT-ATAT
1 TTTTTAGA-ATTTTTATAATAT
50305232 TTTTTAGAATTTTTATAATAT
1 TTTTTAGAATTTTTATAATAT
50305253 TT
1 TT
50305255 ATATTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTAGAATTTTTATAATAT
Found at i:50306992 original size:21 final size:21
Alignment explanation
Indices: 50306968--50307011 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50306958 TTCTTGTTGT
*
50306968 CTTTG-TTGCCCTTGCTGCTGC
1 CTTTGCTT-CCCTCGCTGCTGC
*
50306989 CTTTGCTTCCCTCGCTGTTGC
1 CTTTGCTTCCCTCGCTGCTGC
50307010 CT
1 CT
50307012 CTACTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.00, C:0.36, G:0.20, T:0.43
Consensus pattern (21 bp):
CTTTGCTTCCCTCGCTGCTGC
Found at i:50320278 original size:43 final size:43
Alignment explanation
Indices: 50320222--50320377 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 43
50320212 TGCCATATCT
* * * *
50320222 CAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCC
1 CAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCC
* * * *
50320265 CAGACAGGGTCTTACACGAAATCATATAAT-GATGTCAATGTCC
1 CAGACATGGTCTTACACGTAATCACAT-ATCGATGCCAATGTCC
* *
50320308 TAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCC
1 CAGACATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCC
*
50320351 CAGACATGGTCTTACATGTAATCACAT
1 CAGACATGGTCTTACACGTAATCACAT
50320378 CTCGGTAATC
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
43 89 0.96
44 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
CAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCC
Found at i:50320566 original size:35 final size:36
Alignment explanation
Indices: 50320498--50320571 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
50320488 CATTCGTAGC
**
50320498 AATTCAATGATAATGAAACATATATAATTCAA-TTA
1 AATTCAATGATAATGAAACATATATAACACAATTTA
* *
50320533 AATTCAATGATAAAT-AAGCATTTATAACACAATTTA
1 AATTCAATGAT-AATGAAACATATATAACACAATTTA
50320569 AAT
1 AAT
50320572 ACGTTATTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 24 0.73
36 9 0.27
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.34
Consensus pattern (36 bp):
AATTCAATGATAATGAAACATATATAACACAATTTA
Found at i:50323719 original size:32 final size:31
Alignment explanation
Indices: 50323682--50323788 Score: 144
Period size: 32 Copynumber: 3.5 Consensus size: 31
50323672 ATTAATTTTC
50323682 ATTTTATATATCATTATATTAAATTATTTAA
1 ATTTTATATATCATTATATTAAATTATTTAA
* *
50323713 TATTTTATGTATCATTATATTCAATTATTTAA
1 -ATTTTATATATCATTATATTAAATTATTTAA
* * *
50323745 ATTTTATATATTATTATATTTAATTTTTTAA
1 ATTTTATATATCATTATATTAAATTATTTAA
*
50323776 A-TATATATATCAT
1 ATTTTATATATCAT
50323789 CGATTTTCCA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.15
31 28 0.42
32 29 0.43
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (31 bp):
ATTTTATATATCATTATATTAAATTATTTAA
Found at i:50323780 original size:28 final size:29
Alignment explanation
Indices: 50323685--50323785 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 29
50323675 AATTTTCATT
* *
50323685 TTATATATCATTATATTAAATTATTTAATA
1 TTATATATTATTATATTCAATTATTTAA-A
* *
50323715 TTTTATGTATCATTATATTCAATTATTTAAA
1 --TTATATATTATTATATTCAATTATTTAAA
* *
50323746 TTTTATATATTATTATATTTAATTTTTTAAA
1 --TTATATATTATTATATTCAATTATTTAAA
50323777 TATATATAT
1 T-TATATAT
50323786 CATCGATTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.02
30 7 0.11
31 28 0.45
32 26 0.42
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (29 bp):
TTATATATTATTATATTCAATTATTTAAA
Found at i:50324190 original size:21 final size:21
Alignment explanation
Indices: 50324166--50324221 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
50324156 TGCAGGGGTC
50324166 ACACGCACGTGTGGACAAGGG
1 ACACGCACGTGTGGACAAGGG
50324187 ACACGCACGTGTGGACAAGGG
1 ACACGCACGTGTGGACAAGGG
*
50324208 ACACGCCCGTGTGG
1 ACACGCACGTGTGG
50324222 CCATTAGACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.11
Consensus pattern (21 bp):
ACACGCACGTGTGGACAAGGG
Found at i:50324792 original size:2 final size:2
Alignment explanation
Indices: 50324785--50324826 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
50324775 AAGCCCTAAC
*
50324785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50324826 A
1 A
50324827 AGCAAACCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:50326470 original size:8 final size:8
Alignment explanation
Indices: 50326456--50326504 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
50326446 ATGTTTTAAT
50326456 TATAATAA
1 TATAATAA
*
50326464 AATAATAA
1 TATAATAA
*
50326472 TATAACAA
1 TATAATAA
50326480 TATAATAA
1 TATAATAA
50326488 TATAATAA
1 TATAATAA
50326496 TATAATAA
1 TATAATAA
50326504 T
1 T
50326505 TTCTTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:50327971 original size:24 final size:25
Alignment explanation
Indices: 50327930--50327986 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
50327920 ATTATTATAT
**
50327930 AATT-AAATATATATAATTTTTAAA
1 AATTAAAATATATATAATTAATAAA
50327954 AATTAAAATATATA-AATTAATAAA
1 AATTAAAATATATATAATTAATAAA
50327978 AATATAAAA
1 AAT-TAAAA
50327987 ATAATTCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AATTAAAATATATATAATTAATAAA
Found at i:50327991 original size:17 final size:18
Alignment explanation
Indices: 50327958--50327991 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50327948 TTTAAAAATT
*
50327958 AAAATATATAAATTAATA
1 AAAATATATAAAATAATA
50327976 AAAATATA-AAAATAAT
1 AAAATATATAAAATAAT
50327992 TCACACGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATATATAAAATAATA
Found at i:50328053 original size:25 final size:25
Alignment explanation
Indices: 50328025--50328072 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50328015 TATGTGTTTA
* *
50328025 TATATTTTTATAAACTATGAATTTT
1 TATATATTTATAAACTATAAATTTT
*
50328050 TATATATTTATAAATTATAAATT
1 TATATATTTATAAACTATAAATT
50328073 ACAGTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TATATATTTATAAACTATAAATTTT
Found at i:50328127 original size:2 final size:2
Alignment explanation
Indices: 50328120--50328146 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50328110 TTTTAATTGC
50328120 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
50328147 ATTTTTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50328213 original size:18 final size:18
Alignment explanation
Indices: 50328190--50328228 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50328180 TATATTTTTC
*
50328190 AAAAATGATAATAACTTA
1 AAAAATGAGAATAACTTA
* *
50328208 AAAAATTAGAATAATTTA
1 AAAAATGAGAATAACTTA
50328226 AAA
1 AAA
50328229 TATGTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAATGAGAATAACTTA
Found at i:50332865 original size:47 final size:47
Alignment explanation
Indices: 50332808--50332902 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
50332798 AAGATGCATG
50332808 TATGTATGTAACTATAACTAAAATCTGTGAATATATATATATATATA
1 TATGTATGTAACTATAACTAAAATCTGTGAATATATATATATATATA
50332855 TATGTATGTAACTATAACTAAAATCTGTGAATATATATATATATATA
1 TATGTATGTAACTATAACTAAAATCTGTGAATATATATATATATATA
50332902 T
1 T
50332903 GTACAGTACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (47 bp):
TATGTATGTAACTATAACTAAAATCTGTGAATATATATATATATATA
Found at i:50339935 original size:17 final size:16
Alignment explanation
Indices: 50339915--50339958 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
50339905 ATTGAAAAGG
*
50339915 AATTAAAAATTTTAAAA
1 AATT-AAAATTCTAAAA
50339932 AATTAAAATTCTAAAA
1 AATTAAAATTCTAAAA
*
50339948 ATAATAAAATT
1 A-ATTAAAATT
50339959 AAGAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAAAATTCTAAAA
Found at i:50345446 original size:79 final size:80
Alignment explanation
Indices: 50345348--50345530 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
50345338 TACTCATTCA
* * *
50345348 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
50345411 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
50345428 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
50345492 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
50345507 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50345531 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:50345530 original size:40 final size:40
Alignment explanation
Indices: 50345346--50345530 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
50345336 GCTACTCATT
* *
50345346 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
50345386 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
50345426 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
50345465 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
50345506 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50345531 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:50347359 original size:49 final size:47
Alignment explanation
Indices: 50347303--50347475 Score: 145
Period size: 49 Copynumber: 3.6 Consensus size: 47
50347293 TGAGGTGTGT
50347303 CAGTGTAAGACTTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGAC-CAGAT-AGTGAGAGC
* * * * *
50347352 CAGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGAT-GT-ATGGAAGT
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGACC-AGATAGTGA--G-AGC
* * * *
50347401 CAGTGTAAGACTTGTTTGGGACATGTCATCAACTTAGAT-GTGAGAGC
1 CAGTGTAAGACTTGTCTGGGACATGGCATCGAC-CAGATAGTGAGAGC
* * *
50347448 CAGTGTAAGATCATGTTTGGAACATGGC
1 CAGTGTAAGA-CTTGTCTGGGACATGGC
50347476 GTCGGTATCG
Statistics
Matches: 100, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
46 1 0.01
47 14 0.14
48 17 0.17
49 67 0.67
50 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACTTGTCTGGGACATGGCATCGACCAGATAGTGAGAGC
Found at i:50359573 original size:18 final size:18
Alignment explanation
Indices: 50359550--50359584 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50359540 ATACAAAGTT
*
50359550 AGAAAAGGTTTTGAATTA
1 AGAAAAAGTTTTGAATTA
50359568 AGAAAAAGTTTTGAATT
1 AGAAAAAGTTTTGAATT
50359585 TGATCAAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (18 bp):
AGAAAAAGTTTTGAATTA
Found at i:50366075 original size:15 final size:15
Alignment explanation
Indices: 50366057--50366096 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
50366047 CCCATAACAG
50366057 AGAAATCCAGA-ATAA
1 AGAAATCCA-ACATAA
50366072 AGAAATCCAACATAA
1 AGAAATCCAACATAA
50366087 AGAAATCCAA
1 AGAAATCCAA
50366097 AACAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.12
Consensus pattern (15 bp):
AGAAATCCAACATAA
Found at i:50369625 original size:101 final size:99
Alignment explanation
Indices: 50369460--50369647 Score: 304
Period size: 101 Copynumber: 1.9 Consensus size: 99
50369450 GAAGCTATCT
* * *
50369460 GGTATGCATAGTAGTTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACATAGTAGCCT
1 GGTACGCATAGTAGCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACATAGTAGCCT
*
50369525 GCACTTAGTACTACACACGTGATTGAAGTTGTCG
66 ACACTTAGTACTACACACGTGATTGAAGTTGTCG
* *
50369559 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAG-CTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACATAGTAGC
50369624 CTACACTTAGTACTACACACGTGA
64 CTACACTTAGTACTACACACGTGA
50369648 CCTAAAACCA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 13 0.16
100 24 0.30
101 44 0.54
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (99 bp):
GGTACGCATAGTAGCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACATAGTAGCCT
ACACTTAGTACTACACACGTGATTGAAGTTGTCG
Found at i:50369634 original size:50 final size:50
Alignment explanation
Indices: 50369454--50369652 Score: 233
Period size: 50 Copynumber: 4.0 Consensus size: 50
50369444 GTAACTGAAG
** * *
50369454 CTATCTGGTATGCATAGTAG-TTGCACTTAGTACTACACATGTGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
50369502 CAATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * *
50369552 GTTGTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
50369603 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
50369653 AACCATCTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
48 17 0.14
49 22 0.18
50 44 0.35
51 40 0.32
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:50380365 original size:57 final size:57
Alignment explanation
Indices: 50380266--50380381 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
50380256 ATCACACTAT
* * *
50380266 ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAG
1 ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
*
50380323 ATAGTTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
1 ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
50380380 AT
1 AT
50380382 TTTGTATTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.41
Consensus pattern (57 bp):
ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
Found at i:50381786 original size:20 final size:20
Alignment explanation
Indices: 50381757--50381808 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
50381747 GAGGTAAAGC
50381757 ACACGCCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
50381777 ACACGTCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
50381797 ACACGCCTGTGT
1 ACACGCCCGTGT
50381809 CCCTCACTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.33, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTAGGG
Found at i:50385504 original size:48 final size:48
Alignment explanation
Indices: 50385437--50385765 Score: 227
Period size: 48 Copynumber: 6.9 Consensus size: 48
50385427 GTGAATTGCC
* * * * * *
50385437 GATGCTATGTTCCAAACATGGTTTTACACTGGCTCACATGTTGAGACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAGACT
* *** * **
50385485 GATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTGTCTCAATG-CT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGA-GACT
* * * * * *
50385533 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAGACT
* * ** *
50385581 AATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATG-TT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGA-GACT
* * * * * *
50385629 GATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCACA-ACAT-CG-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATA-TTGAGACT
* * * * * * * *
50385677 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAGACT
*
50385725 GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT
50385766 CACCTAAATG
Statistics
Matches: 217, Mismatches: 55, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
46 5 0.02
47 3 0.01
48 201 0.93
49 3 0.01
50 5 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAGACT
Found at i:50385601 original size:96 final size:96
Alignment explanation
Indices: 50385486--50385757 Score: 339
Period size: 96 Copynumber: 2.8 Consensus size: 96
50385476 GTTGAGACTG
* ** *
50385486 ATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTGTCTCAATGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACA
* * ** *
50385551 TGGTTTTACACTAGCTCTCATAATGTGGCCA
66 TGGTCTTACACTAGCTCTCACAACATCGCCA
* * * *
50385582 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGTTGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACA
* * *
50385647 TGGTCTTATACTGGCTCTCACAACATCGCCG
66 TGGTCTTACACTAGCTCTCACAACATCGCCA
* * * * *
50385678 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-GTGGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-GCTGATGCCATGTCCCAGAC
50385742 ATGGTCTTACACTAGC
65 ATGGTCTTACACTAGC
50385758 GCACATATCA
Statistics
Matches: 148, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
95 1 0.01
96 147 0.99
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCACAACATCGCCA
Found at i:50385712 original size:144 final size:142
Alignment explanation
Indices: 50385484--50385767 Score: 410
Period size: 144 Copynumber: 2.0 Consensus size: 142
50385474 ATGTTGAGAC
* * *
50385484 TGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTGTCTCAATGCTGATGCCATGTCCCAGA
1 TGATGCCATGTCCGAGACATGGTCTTACACTAGCTC-T-TCACAATGCCGATGCCATGTCCCAAA
*
50385549 CATGGTTTTACACTAGCTCTCATAAT-GTGGCCAATGCCATGTCCCAGACATGGTCTTACACTAG
64 CATGGTCTTACACTAGCTCTCAT-ATCGTGGCCAATGCCATGTCCCAGACATGGTCTTACACTAG
50385613 CGCACATATCAATGT
128 CGCACATATCAATGT
* * * *
50385628 TGATGCCATGTCCTAGACATGGTCTTATACTGGCTC-TCACAACATCGCCGATGCCATGTTCCAA
1 TGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTCAC-A-AT-GCCGATGCCATGTCCCAA
* *
50385692 ACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
63 ACATGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGACATGGTCTTACACTAG
50385757 CGCACATATCA
128 CGCACATATCA
50385768 CCTAAATGTC
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
141 3 0.02
142 1 0.01
143 4 0.03
144 118 0.94
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (142 bp):
TGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTCACAATGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCGC
ACATATCAATGT
Found at i:50385766 original size:48 final size:48
Alignment explanation
Indices: 50385485--50385767 Score: 302
Period size: 48 Copynumber: 5.9 Consensus size: 48
50385475 TGTTGAGACT
* ** * *
50385485 GATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTGTCTCAAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* *
50385533 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCC
* * * **
50385581 AATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-GTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * * * * *
50385629 GATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCACAACATCGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
* * * *
50385677 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
* *
50385725 GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
50385768 CCTAAATGTC
Statistics
Matches: 192, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
47 5 0.03
48 185 0.96
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
Found at i:50387892 original size:422 final size:419
Alignment explanation
Indices: 50387066--50387936 Score: 1013
Period size: 422 Copynumber: 2.1 Consensus size: 419
50387056 CTTTATTTAG
* * *
50387066 CCCAAACTCTTGCTTCAAT-CAACCTAAATTCTAGGTCCATAATAGTGAAATCTTGCACTGTGCA
1 CCCAAACTCTTGCTTC-ATGCAACCCAAATTATAGGTCCATAATAGTGAAATCTTGCACTGTACA
* ** *
50387130 GCCTTAGTTCTTGCTCCATAACTCCTAATTCTAGCAATGCAAACTTCTACTCCATAACAAATAAA
65 GCCTAAACTCTTGCTCCATAAATCCTAATTCTAGCAATGCAAACTTCTACTCCATAACAAATAAA
* * * * *
50387195 TCTTACTCCAAGCATCTTCAACTCCTACTCCACAGTGGTAAAATCTTACTCTCCATAACCCAAAA
130 TCTTACTCCAAGCATATTCAACTCCTACTCCAAAATGATAAAATCCTACTCTCCATAACCCAAAA
* * **
50387260 TCCTCTAATGAAATCTTACACGACATAGTTTGAACACCTATTCTGCTAAACTCGAACTTTTACTC
195 TCCTCTAATGAAATCTTACACGACATAGCTTGAACACCTACTCTGCTAAACTCGAACTCCTACTC
* * * * * ***
50387325 CATAAAAATAAAATCTTTCTCCACCCAGCCTAAGGTCTTACTCCCACCCAAATGGTGAAATCCTT
260 CAGAAAAACAAAATCTTCCTCCACCCAACCCAAGGTCTTACTCCCACCCAAACAATGAAAT-CTT
* * * * *
50387390 TTTTGAGTAATTCGATCTCGTACTTAATAATGGCAAACCCCTACTTTGAGCAACTCAATTAGATG
324 TTTTGAATAATTCGATCTCCTACTTAATAATAGCAAACCCCTACTTTGAGCAACTCAATCACATG
* **
50387455 CTCTATAGCAATGAAATCTTGCTCTGCACAT
389 CTCTATAGCAATGAAACCTCACTCTGCACAT
* * ** *
50387486 CCCAAACTCTTGCTTCATGCAACCCAAATTATAGGTCTATAATAGTGAAATGTTGTTCTGTATAG
1 CCCAAACTCTTGCTTCATGCAACCCAAATTATAGGTCCATAATAGTGAAATCTTGCACTGTACAG
* * *
50387551 CCTAAACTCTTGCTCCATAAATCCTACTT-TGAGCAATGCAAACTTCTGA-TCTATAACAATTAA
66 CCTAAACTCTTGCTCCATAAATCCTAATTCT-AGCAATGCAAACTTCT-ACTCCATAACAAATAA
* * * * * * **
50387614 ATCTTACTCTAAGCATATTTAACTCTTGCTCTAAAATGATGAAATCCTACTCTTTATAACCCAAA
129 ATCTTACTCCAAGCATATTCAACTCCTACTCCAAAATGATAAAATCCTACTCTCCATAACCCAAA
* * *
50387679 CTCCT-TATTAGTGAAATCTTACACGGCATAGCTTGAACTCCTACTCTGCTAAA-TCCGAACTCC
194 ATCCTCTA--A-TGAAATCTTACACGACATAGCTTGAACACCTACTCTGCTAAACT-CGAACTCC
** * * ** *
50387742 TACTCCAGAGCAACAAAATCTTCCTCCACCTAACCCAATGTCTTGTTCCCACCCAAGCAATGAAA
255 TACTCCAGAAAAACAAAATCTTCCTCCACCCAACCCAAGGTCTTACTCCCACCCAAACAATGAAA
* * *
50387807 T-TTTTCTCTGAATAATGT-GAAT-TCCTACTTCATAATAGCAAACTCCTACTTCT-AGCAACTT
320 TCTTTT-T-TGAATAAT-TCG-ATCTCCTACTTAATAATAGCAAACCCCTACTT-TGAGCAACTC
50387868 AATCACATGCTCTATAGCAATGAAACCTCACTCTGCACAT
380 AATCACATGCTCTATAGCAATGAAACCTCACTCTGCACAT
50387908 CCCAAACTCTTGCTTCATGCAACCCAAAT
1 CCCAAACTCTTGCTTCATGCAACCCAAAT
50387937 CTTACTCCAA
Statistics
Matches: 378, Mismatches: 61, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
419 5 0.01
420 166 0.44
421 4 0.01
422 199 0.53
423 4 0.01
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (419 bp):
CCCAAACTCTTGCTTCATGCAACCCAAATTATAGGTCCATAATAGTGAAATCTTGCACTGTACAG
CCTAAACTCTTGCTCCATAAATCCTAATTCTAGCAATGCAAACTTCTACTCCATAACAAATAAAT
CTTACTCCAAGCATATTCAACTCCTACTCCAAAATGATAAAATCCTACTCTCCATAACCCAAAAT
CCTCTAATGAAATCTTACACGACATAGCTTGAACACCTACTCTGCTAAACTCGAACTCCTACTCC
AGAAAAACAAAATCTTCCTCCACCCAACCCAAGGTCTTACTCCCACCCAAACAATGAAATCTTTT
TTGAATAATTCGATCTCCTACTTAATAATAGCAAACCCCTACTTTGAGCAACTCAATCACATGCT
CTATAGCAATGAAACCTCACTCTGCACAT
Found at i:50388831 original size:14 final size:15
Alignment explanation
Indices: 50388809--50388845 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
50388799 TAAATTATGA
*
50388809 ATTATAAAATAAATT
1 ATTAAAAAATAAATT
50388824 -TTAAAAAATAAATT
1 ATTAAAAAATAAATT
50388838 ATTAAAAA
1 ATTAAAAA
50388846 TATTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAAAATAAATT
Found at i:50388977 original size:2 final size:2
Alignment explanation
Indices: 50388970--50388997 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50388960 AATGTGGGAA
50388970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50388998 GTTAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50395639 original size:6 final size:6
Alignment explanation
Indices: 50395628--50395669 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
50395618 TATATTTTTA
*
50395628 AATATT AATATT AATATT AATAATT -TTAATT AATATT AATAT
1 AATATT AATATT AATATT AAT-ATT AAT-ATT AATATT AATAT
50395670 AAAATTATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATATT
Found at i:50401580 original size:19 final size:19
Alignment explanation
Indices: 50401556--50401595 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50401546 AGCTCCCATG
50401556 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
50401575 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
50401594 TA
1 TA
50401596 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:50404380 original size:45 final size:44
Alignment explanation
Indices: 50404291--50404380 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
50404281 GAATTATGTA
*
50404291 ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGAC
** *
50404335 ATCTGAACTCATTGAGTTGTGGTCTGAGTTTGTGATATGTATGAC
1 ATCTGAACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGAC
50404380 A
1 A
50404381 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (44 bp):
ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGAC
Found at i:50407886 original size:29 final size:29
Alignment explanation
Indices: 50407795--50407926 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
50407785 TACTCGATTT
** * *
50407795 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
50407824 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
50407853 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
50407882 TGCACACTTAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50407911 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50407927 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 83 0.98
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50415630 original size:29 final size:28
Alignment explanation
Indices: 50415597--50415669 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
50415587 CCTTCGAGCT
50415597 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
50415626 TGCACACTTAGTGCCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
50415654 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50415670 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:50415658 original size:28 final size:29
Alignment explanation
Indices: 50415539--50415669 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
50415529 TACTCGATTT
** * *
50415539 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
50415568 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
50415597 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
50415626 TGCACACTTAGTGCCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50415654 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50415670 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50423375 original size:29 final size:29
Alignment explanation
Indices: 50423284--50423415 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
50423274 TACTCGATTT
** * *
50423284 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
50423313 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
50423342 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
50423371 TGCACACTTAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50423400 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50423416 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 83 0.98
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50428147 original size:11 final size:11
Alignment explanation
Indices: 50428133--50428177 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
50428123 AGATAAATAT
50428133 TATTTTATTAA
1 TATTTTATTAA
*
50428144 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
50428157 TATTTTATTAT
1 TATTTTATTAA
50428168 TATTTTATTA
1 TATTTTATTA
50428178 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:50430377 original size:46 final size:46
Alignment explanation
Indices: 50430310--50430582 Score: 395
Period size: 46 Copynumber: 5.9 Consensus size: 46
50430300 GTGTGCTCTC
*
50430310 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
50430356 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
50430402 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
50430448 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
50430494 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
50430540 TGACA-GAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
50430583 TCATGTCAAA
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:50433669 original size:40 final size:40
Alignment explanation
Indices: 50433625--50433765 Score: 230
Period size: 40 Copynumber: 3.5 Consensus size: 40
50433615 TTTGCACAAT
50433625 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
50433665 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
* **
50433705 TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAA
*
50433745 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
50433766 GTATCATTCA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 95 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:50445462 original size:40 final size:40
Alignment explanation
Indices: 50445296--50445463 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
50445286 CATTTGAATG
* * * *
50445296 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
50445336 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTT
* * * ****
50445376 ATATCCGGGCTAAGACCCGAAGGCAACTGTTCAAGTTACCC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGGTT
* * *
50445417 A-ATCCGAGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
50445456 ATATCCGG
1 ATATCCGG
50445464 TTAAATCCCG
Statistics
Matches: 100, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 4 0.04
40 92 0.92
41 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:50451234 original size:16 final size:16
Alignment explanation
Indices: 50451213--50451268 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
50451203 CTCGGCCCTA
50451213 TCACATATATACACCT
1 TCACATATATACACCT
*
50451229 TCACAT-TCAT-CGGCCTT
1 TCACATAT-ATAC-ACC-T
50451246 ATCACATATATACACCT
1 -TCACATATATACACCT
50451263 TCACAT
1 TCACAT
50451269 TCATCACATC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 16 0.50
17 2 0.06
18 10 0.31
19 2 0.06
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (16 bp):
TCACATATATACACCT
Found at i:50451243 original size:34 final size:34
Alignment explanation
Indices: 50451204--50451273 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
50451194 CGTTGGCCAC
50451204 TCGGCCCTATCACATATATACACCTTCACATTCA
1 TCGGCCCTATCACATATATACACCTTCACATTCA
*
50451238 TCGGCCTTATCACATATATACACCTTCACATTCA
1 TCGGCCCTATCACATATATACACCTTCACATTCA
50451272 TC
1 TC
50451274 ACATCTGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.34, G:0.06, T:0.31
Consensus pattern (34 bp):
TCGGCCCTATCACATATATACACCTTCACATTCA
Found at i:50451263 original size:18 final size:18
Alignment explanation
Indices: 50451211--50451263 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
50451201 CACTCGGCCC
50451211 TATCACATATATACACC-
1 TATCACATATATACACCT
*
50451228 T-TCACAT-TCAT-CGGCCT
1 TATCACATAT-ATAC-ACCT
50451245 TATCACATATATACACCT
1 TATCACATATATACACCT
50451263 T
1 T
50451264 CACATTCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
15 2 0.07
16 10 0.36
17 2 0.07
18 12 0.43
19 2 0.07
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (18 bp):
TATCACATATATACACCT
Found at i:50451318 original size:49 final size:47
Alignment explanation
Indices: 50451240--50451465 Score: 362
Period size: 49 Copynumber: 4.7 Consensus size: 47
50451230 CACATTCATC
*
50451240 GGCCTTATCACATATATACACCTTCACATTCATCACATCTGCCATTA
1 GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
*
50451287 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTA
* * *
50451336 GGTCTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTA
50451385 GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
*
50451432 GGCCTTATCACATATATACACATTCACATTCATC
1 GGCCTTATCACATATATACACCTTCACATTCATC
50451466 GCGTAAAATC
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
47 77 0.47
48 1 0.01
49 87 0.53
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
GGCCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTA
Found at i:50451351 original size:96 final size:94
Alignment explanation
Indices: 50451240--50451465 Score: 364
Period size: 96 Copynumber: 2.4 Consensus size: 94
50451230 CACATTCATC
50451240 GGCCTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATAT
1 GGCCTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATAT
*
50451304 ATACACTTTCACATTCATCACATCGGCCATTA
63 ATACACCTTCACATTCATCACATCGGCCATTA
* *
50451336 GGTCTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 GGCCTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
50451401 TACACCTTCACATTCATCACATCGGCCATTA
64 TACACCTTCACATTCATCACATCGGCCATTA
*
50451432 GGCCTTATCACATATATACACATTCACATTCATC
1 GGCCTTATCACATATATACACCTTCACATTCATC
50451466 GCGTAAAATC
Statistics
Matches: 122, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
94 12 0.10
96 75 0.61
97 2 0.02
98 33 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
GGCCTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
CACCTTCACATTCATCACATCGGCCATTA
Found at i:50456593 original size:40 final size:40
Alignment explanation
Indices: 50456534--50456638 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
50456524 CATTTGAATG
* * *
50456534 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
*
50456574 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
50456614 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
50456639 ATTGTGCAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 58 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:50461929 original size:42 final size:42
Alignment explanation
Indices: 50461880--50461991 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
50461870 TGAGATTACG
* *
50461880 TGTAAGACCATATCTGGGTTATGGCATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATC-CCA
* * * * *
50461922 TGTAAGACCACAGCTGGGCTATTGGTATCGTTATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
* *
50461965 TGTTAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
50461992 TGGTATAGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
42 23 0.41
43 32 0.57
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:50476492 original size:77 final size:77
Alignment explanation
Indices: 50476365--50476518 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
50476355 AATTCAAATG
50476365 TAGTTTTGTTCTAAGTTCAAGGGTTGGGAACGTAACAACTTAACATAATGCTTTCAGTAATCAAG
1 TAGTTTTGTTCTAAGTTCAAGGGTTGGGAACGTAACAACTTAACATAATGCTTTCAGTAATCAAG
50476430 CAAGGACAAACA
66 CAAGGACAAACA
50476442 TAGTTTTGTTCTAAGTTCAAGGGTTGGGAACGTAACAACTTAACATAATGCTTTCAGTAATCAAG
1 TAGTTTTGTTCTAAGTTCAAGGGTTGGGAACGTAACAACTTAACATAATGCTTTCAGTAATCAAG
50476507 CAAGGACAAACA
66 CAAGGACAAACA
50476519 ACTAAATGCT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (77 bp):
TAGTTTTGTTCTAAGTTCAAGGGTTGGGAACGTAACAACTTAACATAATGCTTTCAGTAATCAAG
CAAGGACAAACA
Found at i:50477799 original size:2 final size:2
Alignment explanation
Indices: 50477792--50477819 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50477782 ATTTAAAACA
50477792 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50477820 GTGTTAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50478197 original size:47 final size:47
Alignment explanation
Indices: 50478146--50478236 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
50478136 TTTATTTGAT
** *
50478146 GTATAGAAATTAATTTATCTATTTTTGAGAGATAAAATACAAATTAC
1 GTATAGAAATTAATTTATCTATTTTCAAAAGATAAAATACAAATTAC
* * *
50478193 GTATAGAAATTATTTTATTTATTTTCAAAAGATAAAATATAAAT
1 GTATAGAAATTAATTTATCTATTTTCAAAAGATAAAATACAAAT
50478237 CTAACTCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (47 bp):
GTATAGAAATTAATTTATCTATTTTCAAAAGATAAAATACAAATTAC
Found at i:50478634 original size:21 final size:20
Alignment explanation
Indices: 50478608--50478661 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
50478598 GGTAGCGGTG
*
50478608 GCGGTGAGATTAATTACTGTA
1 GCGGTGAGATTAA-TAATGTA
*
50478629 GCGGTGAGATTGGATAATGTA
1 GCGGTGAGATT-AATAATGTA
50478650 GCGGTGAGATTA
1 GCGGTGAGATTA
50478662 GAAACAGCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.35, T:0.30
Consensus pattern (20 bp):
GCGGTGAGATTAATAATGTA
Done.