Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 174 of 211
Found at i:51557013 original size:61 final size:58
Alignment explanation
Indices: 51556906--51557021 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
51556896 ATCAATTTAA
*
51556906 TATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATG
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATG
* * *
51556964 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTTAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAATATTAA
51557022 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 20 0.39
60 1 0.02
61 30 0.59
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATG
Found at i:51557057 original size:30 final size:30
Alignment explanation
Indices: 51557001--51557059 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51556991 AAGATAAATA
* *
51557001 TTTAATTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAAGTTAATATAAAGATAATCAC
*
51557031 TTTAATATTAAGTTAATA-AAATATAATCA
1 TTTAAT-TTAAGTTAATATAAAGATAATCA
51557060 AGATAAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTAATTTAAGTTAATATAAAGATAATCAC
Found at i:51558367 original size:15 final size:15
Alignment explanation
Indices: 51558349--51558378 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51558339 AATCACTTTA
51558349 ATATTAAATTAATAT
1 ATATTAAATTAATAT
*
51558364 ATATTAATTTAATAT
1 ATATTAAATTAATAT
51558379 TAAATCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAAATTAATAT
Found at i:51558395 original size:26 final size:26
Alignment explanation
Indices: 51558345--51558397 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
51558335 ACTTAATCAC
*
51558345 TTTAATATTAAATTAATATATATTAA
1 TTTAATATTAAATTAATATAAATTAA
*
51558371 TTTAATATTAAATCTTATA-AAATTAA
1 TTTAATATTAAAT-TAATATAAATTAA
51558397 T
1 T
51558398 AGAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTAATATTAAATTAATATAAATTAA
Found at i:51558403 original size:26 final size:26
Alignment explanation
Indices: 51558348--51558405 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
51558338 TAATCACTTT
* **
51558348 AATATTAAATTAATATATATTAATTT
1 AATATTAAATTAATATAAATTAATAG
*
51558374 AATATTAAATCTTATA-AAATTAATAG
1 AATATTAAAT-TAATATAAATTAATAG
51558400 AATATT
1 AATATT
51558406 TATCTACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
AATATTAAATTAATATAAATTAATAG
Found at i:51564710 original size:19 final size:18
Alignment explanation
Indices: 51564668--51564710 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
51564658 ATGCAAGTAG
*
51564668 TTTGGTTTGTAATGTGGA
1 TTTGGTTTGTAATGTGAA
51564686 TTTGGTTTGATAAT-TGAA
1 TTTGGTTTG-TAATGTGAA
51564704 TTGTGGT
1 TT-TGGT
51564711 GTTAATGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (18 bp):
TTTGGTTTGTAATGTGAA
Found at i:51565985 original size:20 final size:20
Alignment explanation
Indices: 51565957--51566014 Score: 53
Period size: 25 Copynumber: 2.6 Consensus size: 20
51565947 TAGCTCCCAT
*
51565957 CTCCAATCCACAACGAGAAC
1 CTCCTATCCACAACGAGAAC
51565977 CTCCTATCCAATCCACAACGAGAAC
1 CTCC--T---ATCCACAACGAGAAC
51566002 CTCCTATCACACA
1 CTCCTATC-CACA
51566015 GGCTTCTCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
20 7 0.23
21 4 0.13
23 1 0.03
25 19 0.61
ACGTcount: A:0.36, C:0.41, G:0.07, T:0.16
Consensus pattern (20 bp):
CTCCTATCCACAACGAGAAC
Found at i:51565986 original size:25 final size:25
Alignment explanation
Indices: 51565958--51566009 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
51565948 AGCTCCCATC
51565958 TCCAATCCACAACGAGAACCTCCTA
1 TCCAATCCACAACGAGAACCTCCTA
51565983 TCCAATCCACAACGAGAACCTCCTA
1 TCCAATCCACAACGAGAACCTCCTA
51566008 TC
1 TC
51566010 ACACAGGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.40, G:0.08, T:0.17
Consensus pattern (25 bp):
TCCAATCCACAACGAGAACCTCCTA
Found at i:51568002 original size:24 final size:22
Alignment explanation
Indices: 51567971--51568030 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
51567961 ATATATATAT
51567971 CAAA-ATTATAACATTACATAAAA
1 CAAATATTATAACATT--ATAAAA
*
51567994 TAAATATTATAAACTATTATAAAA
1 CAAATATTAT-AAC-ATTATAAAA
51568018 CAAATA-TATAACA
1 CAAATATTATAACA
51568031 GGATAGGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 1 0.03
22 3 0.09
23 6 0.19
24 16 0.50
25 3 0.09
26 3 0.09
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (22 bp):
CAAATATTATAACATTATAAAA
Found at i:51569019 original size:69 final size:68
Alignment explanation
Indices: 51568936--51569070 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 68
51568926 TAATTAAACT
* * *
51568936 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATA-CTATCAAGATAAATATTAAATTAAATTTAATATT
51569001 AAGA
65 AAGA
* * * * *
51569005 TAATCATTTTAATATTAAATTAATAAAATACTATTACGATAAGTATTAAATTTAATTTAATATTA
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTA
51569070 A
66 A
51569071 ATTTATTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 30 0.52
69 28 0.48
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:51569083 original size:17 final size:17
Alignment explanation
Indices: 51569048--51569080 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51569038 TTACGATAAG
*
51569048 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
51569065 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
51569081 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:51569086 original size:68 final size:69
Alignment explanation
Indices: 51568945--51569089 Score: 159
Period size: 68 Copynumber: 2.1 Consensus size: 69
51568935 TTAATCACTT
* * *
51568945 TAATATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAGATAATC
1 TAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
***
51569010 ATTT
66 AAAA
* * * * *
51569014 TAATATTAAATTAATAAAATA-CTATTACGATAAGTATTAAATTTAATTTAATATTAA-ATTTAT
1 TAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATTAAGA-TAAT
*
51569077 TAAAA
65 CAAAA
51569082 TAATATTA
1 TAATATTA
51569090 TTTTCGAAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
67 1 0.02
68 42 0.67
69 20 0.32
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
AAAA
Found at i:51574056 original size:50 final size:54
Alignment explanation
Indices: 51574002--51574137 Score: 154
Period size: 56 Copynumber: 2.6 Consensus size: 54
51573992 TGGTGCCCAT
**
51574002 GCCATGTCCCAAACATGGTCTTATGGGGGACCTCTC-A-TCTC-A-ATGCCAAC
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCAATTCTCAAGATGCCAAC
* * * *
51574052 GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAAATTCTCAATGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTC-AATTCTCAA-GATGCCAAC
* *
51574108 GCCATGTTCCAAACATGGTCTTACATGGGA
1 GCCATGTCCCAAACATGGTCTTACAGGGGA
51574138 TCTCATCATC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
50 31 0.44
52 1 0.01
53 4 0.06
54 1 0.01
56 34 0.48
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (54 bp):
GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCAATTCTCAAGATGCCAAC
Found at i:51579270 original size:21 final size:23
Alignment explanation
Indices: 51579209--51579277 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
51579199 TACGGAACAG
*
51579209 AATAGAACACCGTCA-AAGCAGAT
1 AATAGAACACCG-CAGAAGCGGAT
*
51579232 AATAGAACACCGCTGAAGCGGAT
1 AATAGAACACCGCAGAAGCGGAT
*
51579255 AATA-AA-ACCGCAGAAGCGAAT
1 AATAGAACACCGCAGAAGCGGAT
51579276 AA
1 AA
51579278 ACAGATAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.37
22 3 0.07
23 23 0.56
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (23 bp):
AATAGAACACCGCAGAAGCGGAT
Found at i:51583089 original size:18 final size:17
Alignment explanation
Indices: 51583066--51583104 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
51583056 TTTTCATCAA
51583066 ACATATATACATTATTTC
1 ACATATAT-CATTATTTC
51583084 AC--ATATCATTATTTC
1 ACATATATCATTATTTC
51583099 ACATAT
1 ACATAT
51583105 TTCTCATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.58
16 4 0.21
17 2 0.11
18 2 0.11
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (17 bp):
ACATATATCATTATTTC
Found at i:51583095 original size:15 final size:16
Alignment explanation
Indices: 51583070--51583104 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
51583060 CATCAAACAT
51583070 ATATACATTATTTCAC
1 ATATACATTATTTCAC
51583086 ATAT-CATTATTTCAC
1 ATATACATTATTTCAC
51583101 ATAT
1 ATAT
51583105 TTCTCATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATACATTATTTCAC
Found at i:51584559 original size:22 final size:24
Alignment explanation
Indices: 51584531--51584574 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
51584521 ATTTTGTTTA
51584531 ATTTTAACTT-TTAT-TCAAAAAC
1 ATTTTAACTTGTTATATCAAAAAC
*
51584553 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTTGTTATATCAAAA
51584575 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAAAC
Found at i:51588782 original size:17 final size:15
Alignment explanation
Indices: 51588770--51588810 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
51588760 ACAATTAATG
51588770 ATTTTTAAAAATTTAT
1 ATTTTTAAAAA-TTAT
* *
51588786 ATTTTTAATAATTTT
1 ATTTTTAAAAATTAT
51588801 ATTTTTAAAA
1 ATTTTTAAAA
51588811 TAATTTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTAAAAATTAT
Found at i:51588803 original size:15 final size:16
Alignment explanation
Indices: 51588770--51588810 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
51588760 ACAATTAATG
51588770 ATTTTTAAAAATTTAT
1 ATTTTTAAAAATTTAT
*
51588786 ATTTTTAATAATTT-T
1 ATTTTTAAAAATTTAT
51588801 ATTTTTAAAA
1 ATTTTTAAAA
51588811 TAATTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTTAAAAATTTAT
Found at i:51588812 original size:17 final size:16
Alignment explanation
Indices: 51588770--51588817 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
51588760 ACAATTAATG
51588770 ATTTTTAAA-AATTTAT
1 ATTTTTAAATAATTT-T
51588786 ATTTTT-AATAATTTT
1 ATTTTTAAATAATTTT
51588801 ATTTTTAAAATAATTTT
1 ATTTTT-AAATAATTTT
51588818 TGTATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.31
16 11 0.38
17 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTAAATAATTTT
Found at i:51589292 original size:16 final size:16
Alignment explanation
Indices: 51589267--51589325 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
51589257 ATTCGTCCTC
51589267 TTTATAATAATTATTT
1 TTTATAATAATTATTT
*
51589283 TTTATGATAA-TATTT
1 TTTATAATAATTATTT
51589298 TATTATAATAATTAAATTT
1 T-TTATAATAATT--ATTT
*
51589317 GTTATAATA
1 TTTATAATA
51589326 TTGAGTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
17 1 0.03
18 8 0.22
19 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTATAATAATTATTT
Found at i:51590313 original size:23 final size:23
Alignment explanation
Indices: 51590270--51590315 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
51590260 AATTTCTCAC
*
51590270 TTTTTTTTTTACATTTTTATCCTA
1 TTTTTTTTTTACA-TTATATCCTA
51590294 TTTTTATTTTTAC-TTATATCCT
1 TTTTT-TTTTTACATTATATCCT
51590316 CTAGACTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 5 0.25
25 7 0.35
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTTTTTTACATTATATCCTA
Found at i:51593484 original size:5 final size:5
Alignment explanation
Indices: 51593470--51593502 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
51593460 TGCTTCTAAA
*
51593470 ATGA- ATGAT ATGAT ATGGT ATGAT ATGAT ATGA
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
51593503 ATTGATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (5 bp):
ATGAT
Found at i:51601056 original size:98 final size:98
Alignment explanation
Indices: 51600879--51601073 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
51600869 ACAATAAAAT
*
51600879 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
51600944 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
51600977 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
51601042 TTTAAAATCTCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
51601074 TTATTTTTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:51601365 original size:9 final size:9
Alignment explanation
Indices: 51601351--51601375 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51601341 TGCAAATGTT
51601351 ATAATAACA
1 ATAATAACA
51601360 ATAATAACA
1 ATAATAACA
51601369 ATAATAA
1 ATAATAA
51601376 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:51602015 original size:3 final size:3
Alignment explanation
Indices: 51602009--51602043 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
51601999 TTACAATACC
*
51602009 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
51602044 ATTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51602024 original size:18 final size:18
Alignment explanation
Indices: 51601991--51602042 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
51601981 TGTACATGAA
* *
51601991 AATAATAATTACAATACC
1 AATAATAATAATAATACC
**
51602009 AATAATAATAATAATAGT
1 AATAATAATAATAATACC
51602027 AATAATAATAATAATA
1 AATAATAATAATAATA
51602043 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (18 bp):
AATAATAATAATAATACC
Found at i:51604780 original size:22 final size:23
Alignment explanation
Indices: 51604731--51604775 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
51604721 GGGTATCTAC
*
51604731 AAATTAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
51604753 AAATCAAATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
51604776 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:51604788 original size:19 final size:19
Alignment explanation
Indices: 51604764--51604817 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
51604754 AATCAAATCT
51604764 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
51604783 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
51604802 TCTAATATTACATATC
1 TCTAAGATTACATATC
51604818 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:51605260 original size:17 final size:17
Alignment explanation
Indices: 51605240--51605285 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
51605230 TAAAAGTATT
51605240 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
51605257 TTAAAAA-ATTTTTAAAA
1 TTAAAAATA-TTTTAAAA
* *
51605274 ATAAATATATTT
1 TTAAAAATATTT
51605286 ATTATATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 1 0.04
17 23 0.92
18 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:51608871 original size:40 final size:40
Alignment explanation
Indices: 51608809--51608903 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
51608799 CTTTTCTTTC
* *
51608809 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
51608850 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
51608890 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
51608904 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:51608946 original size:22 final size:22
Alignment explanation
Indices: 51608913--51608954 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
51608903 TTTCTTTGTC
51608913 ATATATATATA-TATATAATATA
1 ATATATATATATTA-ATAATATA
51608935 ATATA-ATAATATTAATAATA
1 ATATATAT-ATATTAATAATA
51608955 ATCATTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.11
22 14 0.78
23 2 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATATATATATTAATAATATA
Found at i:51610604 original size:12 final size:12
Alignment explanation
Indices: 51610589--51610628 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
51610579 GATATCCCAG
51610589 AGAAAATCCAAA
1 AGAAAATCCAAA
* * *
51610601 AGAATATCCCAG
1 AGAAAATCCAAA
51610613 AGAAAATCCAAA
1 AGAAAATCCAAA
51610625 AGAA
1 AGAA
51610629 GAATATCACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (12 bp):
AGAAAATCCAAA
Found at i:51610612 original size:24 final size:24
Alignment explanation
Indices: 51610580--51610628 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
51610570 GAGATCGATG
51610580 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
51610604 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
51610628 A
1 A
51610629 GAATATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.12
Consensus pattern (24 bp):
ATATCCCAGAGAAAATCCAAAAGA
Found at i:51610938 original size:13 final size:13
Alignment explanation
Indices: 51610920--51610947 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51610910 GATAAAAGAG
51610920 CATATAGAATACC
1 CATATAGAATACC
51610933 CATATAGAATACC
1 CATATAGAATACC
51610946 CA
1 CA
51610948 GAAGAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:51611965 original size:22 final size:24
Alignment explanation
Indices: 51611901--51611993 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 24
51611891 ATCAGAGAGC
* *
51611901 GTGCTAATATTCAGAGAGCACTGAC
1 GTGCTAA-AATCAGAGAGCACTGAT
*
51611926 GTGCTAAATATCAGAGAGCACCGAT
1 GTGCTAAA-ATCAGAGAGCACTGAT
51611951 GTGCT-AAA-CAGAGAGCACTGAT
1 GTGCTAAAATCAGAGAGCACTGAT
51611973 GTGCTAATAATCAGAGAGCAC
1 GTGCTAA-AATCAGAGAGCAC
51611994 GCTAAACTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.30
23 2 0.03
24 5 0.08
25 35 0.58
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (24 bp):
GTGCTAAAATCAGAGAGCACTGAT
Found at i:51615344 original size:40 final size:39
Alignment explanation
Indices: 51615282--51615375 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 39
51615272 CTTTTCTTTC
* *
51615282 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCT-TG
*
51615323 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTTG
51615362 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
51615376 TTCTTTGTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
39 6 0.12
40 36 0.73
41 7 0.14
ACGTcount: A:0.00, C:0.28, G:0.09, T:0.64
Consensus pattern (39 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTTG
Found at i:51615405 original size:5 final size:5
Alignment explanation
Indices: 51615385--51615428 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
51615375 TTTCTTTGTC
*
51615385 ATAT- ATATA TATATA ATATA ATATA ATATA AAATA ATAATA ATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA ATATA AT-ATA ATA
51615429 ATCATTACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:51627875 original size:49 final size:48
Alignment explanation
Indices: 51627713--51627876 Score: 136
Period size: 49 Copynumber: 3.4 Consensus size: 48
51627703 CCAGCTTGTA
* *
51627713 TTGAACTACATCAATTATGGTATTATGCTTAGATGCTTATATTAAACAT
1 TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTT-TATTGAACAT
* * * * * * * *
51627762 TTGAACTGCATTAATTATGTTTTTTTTACTTAGATCCTTTGTGGTAAC--
1 TTGAACTGCATCAATTATG-GTATTATGCTTAGATGCTTTATTG-AACAT
* ** *
51627810 -TCATTTGCATCGATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
1 TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTT-TATTGAACAT
*
51627858 TTGAACTGCATCCATTATG
1 TTGAACTGCATCAATTATG
51627877 TTCTTTTTAC
Statistics
Matches: 83, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
46 17 0.20
47 16 0.19
49 33 0.40
50 17 0.20
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (48 bp):
TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTTTATTGAACAT
Found at i:51627890 original size:96 final size:97
Alignment explanation
Indices: 51627721--51627914 Score: 327
Period size: 96 Copynumber: 2.0 Consensus size: 97
51627711 TATTGAACTA
* *
51627721 CATCAATTATGGTATTATGCTTAGATGCTTATATTAAACATTTGAACTGCATTAATTATGTTTTT
1 CATCAATTATGGTATTATGCTTAGATGCTTATATTAAACATTTGAACTGCATCAATTATGTTCTT
51627786 TTTACTTAGAT-CCTTTGTGGTAACTCATTTG
66 TTTACTTAGATACCTTTGTGGTAACTCATTTG
* * * *
51627817 CATCGATTATGGTATTATGCTTAGATGCTTGTATTGAACATTTGAACTGCATCCATTATGTTCTT
1 CATCAATTATGGTATTATGCTTAGATGCTTATATTAAACATTTGAACTGCATCAATTATGTTCTT
51627882 TTTACTTAGATACCTTTGTGGTAACTCATTTG
66 TTTACTTAGATACCTTTGTGGTAACTCATTTG
51627914 C
1 C
51627915 CTCTTTTTAA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
96 70 0.77
97 21 0.23
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (97 bp):
CATCAATTATGGTATTATGCTTAGATGCTTATATTAAACATTTGAACTGCATCAATTATGTTCTT
TTTACTTAGATACCTTTGTGGTAACTCATTTG
Found at i:51628439 original size:19 final size:19
Alignment explanation
Indices: 51628415--51628476 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
51628405 AAAACTTTGA
51628415 TCTTAACATTAATTTTAAT
1 TCTTAACATTAATTTTAAT
* ** * *
51628434 TCTTAATAAAAACTTTGA-
1 TCTTAACATTAATTTTAAT
*
51628452 TCTCAACATTAATTTTAAT
1 TCTTAACATTAATTTTAAT
51628471 TCTTAA
1 TCTTAA
51628477 TCTTGGATTT
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.47
Consensus pattern (19 bp):
TCTTAACATTAATTTTAAT
Found at i:51628444 original size:37 final size:37
Alignment explanation
Indices: 51628403--51628477 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
51628393 TCGACGATGG
*
51628403 TAAAAACTTTGATCTTAACATTAATTTTAATTCTTAA
1 TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
51628440 TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
1 TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
51628477 T
1 T
51628478 CTTGGATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (37 bp):
TAAAAACTTTGATCTCAACATTAATTTTAATTCTTAA
Found at i:51628850 original size:76 final size:76
Alignment explanation
Indices: 51628727--51628954 Score: 408
Period size: 76 Copynumber: 3.0 Consensus size: 76
51628717 TATCAAATTT
*
51628727 TATTTGTTTAAATATATA---TAATTGCCCACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
51628789 TAAATAAAGAA
66 TAAATAAAGAA
*
51628800 TATTTGTTTAAATATATATGTTAATTGCCGATGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
51628865 TAAATAAAGAA
66 TAAATAAAGAA
*
51628876 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTTTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
51628941 TAAATAAAGAA
66 TAAATAAAGAA
51628952 TAT
1 TAT
51628955 ATTGGAACGT
Statistics
Matches: 148, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
73 18 0.12
76 130 0.88
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (76 bp):
TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
TAAATAAAGAA
Found at i:51629390 original size:44 final size:44
Alignment explanation
Indices: 51629327--51629414 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
51629317 ATTAACGCAA
* * * * *
51629327 TATTTGGTAGTACAAAATTATTTGAAAGCTCTAGAAGAGCTAAT
1 TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
51629371 TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
1 TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
51629415 ATATCAATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (44 bp):
TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
Found at i:51631351 original size:27 final size:27
Alignment explanation
Indices: 51631304--51631397 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 27
51631294 TTAGCCTACT
* *
51631304 AGGACAATAAACACAAGGTAGTTTGTC
1 AGGACAATAAACACAAGGTAGTCTGCC
* *
51631331 GGGACAATAAACAC-GGTGTAGTCTGCC
1 AGGACAATAAACACAAG-GTAGTCTGCC
* * * * * *
51631358 AAGACAATAAACATAGGGTAATCCGCT
1 AGGACAATAAACACAAGGTAGTCTGCC
*
51631385 AAGACAATAAACA
1 AGGACAATAAACA
51631398 TGGAGTAGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.95
28 2 0.04
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (27 bp):
AGGACAATAAACACAAGGTAGTCTGCC
Found at i:51631416 original size:27 final size:27
Alignment explanation
Indices: 51631333--51631432 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
51631323 AGTTTGTCGG
* *
51631333 GACAATAAACACGGTGTAGTCTGCCAA
1 GACAATAAACACGGAGTAGTCTGCTAA
* * *
51631360 GACAATAAACATAGG-GTAATCCGCTAA
1 GACAATAAACA-CGGAGTAGTCTGCTAA
* * *
51631387 GACAATAAACATGGAGTAGTCTGTTGA
1 GACAATAAACACGGAGTAGTCTGCTAA
*
51631414 GACAGTAAACACGGAGTAG
1 GACAATAAACACGGAGTAG
51631433 CTTGCCAAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.03
27 56 0.93
28 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (27 bp):
GACAATAAACACGGAGTAGTCTGCTAA
Found at i:51635113 original size:850 final size:838
Alignment explanation
Indices: 51633500--51635113 Score: 2123
Period size: 850 Copynumber: 1.9 Consensus size: 838
51633490 AAACAATTTG
*
51633500 GTTAATAAAAGTATTCATGGATTACATTAATATCCTTTGTATAATGTCCTTATGTGGATTTTGCA
1 GTTAATAAAAGTATTCATGGATTACATTAATATACTTTGTATAATGTCCTTATGTGGATTTTGCA
** * * * *
51633565 TGTAAAGCAAAATAGAAGAAAATATTCACTCACTGGTTGTCTAATGTTTAACTAATGCTAGGCGG
66 TACAAAGAAAAATAGAAGAAAATATTCACTAACTGGTTGTCTAATGTTTAACTAATACTAAGCGG
* * * * * * * *
51633630 TATTACATGGTCGGATCGTAATACGGAAATACATCTTATATTATTAGATGAACCTAAACATGTCC
131 TATTACATGGTCGGATCATAATACAGAAAGACAACTTATAATAGTAGATCAAACTAAACATGTCC
* * *
51633695 TTAGTCTAATAAAAAATGAGCAAATCGATTAAAAGACTAATATGTTTTCCATAAAGTCTAATTGA
196 TTAGTCTAATAAAAAATGAGCAAACCGATTAAAAGAATAATATGTCTTCCATAAAGTCTAATTGA
* * *
51633760 GGAGATGTTTTGTCTTGGGCATCAAAGTAGATGACTCATAGAAGATAGAGACATAGATGTGACTG
261 GGAGATGTTTTGTCTTGGACATCAAAGCAGATGACTCATAGAAGATAAAGACATAGATGTGACTG
* ** * * *
51633825 ACTGGGCAAATAGTACATTGGATTGGACCTAAGTAAGATAGATTCTAAATTCAATTCACTTGTAA
326 ACTGGCCAAATAGTACATCAGACTGGACCGAAGGAAGATAGATTCTAAATTCAATTCACTTGTAA
* * *
51633890 CATTCATAGTGTGACATACCTTAATCTTGAGTGGATGATGGACTATATATGCATGACTCGTATAC
391 CATTCATAGTGTGACATACATTAATCTTAAGTGGATGATGGACTATACATGCATGACTCGTATAC
* * * ** *
51633955 TTTGATGTAAGTTAAAGTCTGAGTTCAAATATTTAAGGGACCAAAAGCTGGTGCGTTAGGTATAT
456 TTTGATGTAAATAAAAGCCTGAGTTCAAATAGATAAGGAACCAAAAGCTGGTGCGTTAGGTATAT
* *
51634020 GACTTCTAGAGTGTGTATCATTATTCACAATAGTAGAATTCATAGCCCAAGACATGGGTAAATGA
521 GACTTCTAGAGTGTGTATCATCATTCACAATAGTAGAATTCATAGCCCAAGACATAGGTAAATGA
** * * *
51634085 TATCCTCCTATTGGCATTAGATGATAGATGAAAAGTAAACGTGGCCATGGGTCGTTCTTCTTTGT
586 TATCCTCCTATTCACATTACATGATAGATGAAAAGTAAACGTGGCCATGGGTCATTCATCTTTGT
* * * *
51634150 GATGAATGACTTAATTCCTATTTCATAGTAATTTACTCTTCATAAAGGAAGATGTAATAGTTATC
651 GATAAATGACTTAATTACTATTTCATAGTAATTGACTCTTCATAAAGGAAGATGTAATAGTTACC
*
51634215 ATGAGATAAAATAAGATTATATTGAGAAAGTGAATTTATCCCAAAGAGAGTAAAGATTGTTGGAT
716 ATGAGATAAAATAAGATCATATTGAGAAAGTGAATTTATCCCAAAGAGAGTAAAGATTGTTGGAT
51634280 CTGGTGCCCTAAGTGTAGTATATTTGTTTGTAAACTTATAATTTTTTCGAACAGAATA
781 CTGGTGCCCTAAGTGTAGTATATTTGTTTGTAAACTTATAATTTTTTCGAACAGAATA
* *
51634338 GTTAATAAAA-TAATTCATGGATTACATTAATATACTTTGTATAATGTCCTTATGTGGTTTTTGT
1 GTTAATAAAAGT-ATTCATGGATTACATTAATATACTTTGTATAATGTCCTTATGTGGATTTTGC
** * * * *
51634402 ATACAACA-AAAAATAGAAGAAAATATTGGCTAATTGGTTTTTTGATGTTTAAACTAATACTAAG
65 ATACAA-AGAAAAATAGAAGAAAATATTCACTAACTGGTTGTCTAATGTTT-AACTAATACTAAG
** * *
51634466 CGGTATTATGTGGTTGGATCATAATATAGAAAGACAACTTATAATAGTAGA-CAAACTAAAACAT
128 CGGTATTACATGGTCGGATCATAATACAGAAAGACAACTTATAATAGTAGATCAAACT-AAACAT
* * * * *
51634530 GTCCTTAGTCTAATCAGAAATGAGCAAACCGATTAAAAGAATAATATGTCTTCTATCAATTCTAA
192 GTCCTTAGTCTAATAAAAAATGAGCAAACCGATTAAAAGAATAATATGTCTTCCATAAAGTCTAA
* * * *
51634595 TTGAGGAGATGTTTTGTCTTGGACATCAGAGCGGATGACTCCTAGTAGATAAAGACATAGATGTG
257 TTGAGGAGATGTTTTGTCTTGGACATCAAAGCAGATGACTCATAGAAGATAAAGACATAGATGTG
* *
51634660 ACTGACTGGCCAAATTGTACATCAGACTGGACCGAAGG-GGAATAGA-TCTTGAATCAGTTTATG
322 ACTGACTGGCCAAATAGTACATCAGACTGGACCGAAGGAAG-ATAGATTC-T-AA--A---T-T-
* * * *
51634723 GATTTATTCACTTGTTACATTCATAGTGTGGCATACATTAATCTTAAGTGGATGATGGACTATGC
377 CA---ATTCACTTGTAACATTCATAGTGTGACATACATTAATCTTAAGTGGATGATGGACTATAC
* **
51634788 ATGCTTGACTCGTATACTTTGATGTAAATAAAAGCCTGAGTTCAAATAGATAAGGAACTGAAAGC
439 ATGCATGACTCGTATACTTTGATGTAAATAAAAGCCTGAGTTCAAATAGATAAGGAACCAAAAGC
* *
51634853 TGGTGCGTTGGGTATATGACTTCTATAGTGTGTAGT-ATCATTCACAATAGT-GAAATTCATAGC
504 TGGTGCGTTAGGTATATGACTTCTAGAGTGTGTA-TCATCATTCACAATAGTAG-AATTCATAGC
* * * *
51634916 CCGAGATATAGGTAAATGATATCCT-CTCATTCACATTACATGATAGATGAAAAGTAAATGTGGT
567 CCAAGACATAGGTAAATGATATCCTCCT-ATTCACATTACATGATAGATGAAAAGTAAACGTGGC
* * * *
51634980 CGTGGGTCATTCATCTTTGTGATAAATGACTTAATTACTATTTGATAGTAATTGACTTTTCATGA
631 CATGGGTCATTCATCTTTGTGATAAATGACTTAATTACTATTTCATAGTAATTGACTCTTCATAA
* * * * *
51635045 AGGAAGATGTAAT-GATTACCATGAGATAAATTAGGATCATATTGGGAGAGCTG-ATTTATCCTA
696 AGGAAGATGTAATAG-TTACCATGAGATAAAATAAGATCATATTGAGAAAG-TGAATTTATCCCA
51635108 AAGAGA
759 AAGAGA
51635114 TTAAGGATAT
Statistics
Matches: 661, Mismatches: 93, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
837 1 0.00
838 104 0.16
839 211 0.32
840 2 0.00
842 1 0.00
845 1 0.00
846 1 0.00
847 1 0.00
849 4 0.01
850 332 0.50
851 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (838 bp):
GTTAATAAAAGTATTCATGGATTACATTAATATACTTTGTATAATGTCCTTATGTGGATTTTGCA
TACAAAGAAAAATAGAAGAAAATATTCACTAACTGGTTGTCTAATGTTTAACTAATACTAAGCGG
TATTACATGGTCGGATCATAATACAGAAAGACAACTTATAATAGTAGATCAAACTAAACATGTCC
TTAGTCTAATAAAAAATGAGCAAACCGATTAAAAGAATAATATGTCTTCCATAAAGTCTAATTGA
GGAGATGTTTTGTCTTGGACATCAAAGCAGATGACTCATAGAAGATAAAGACATAGATGTGACTG
ACTGGCCAAATAGTACATCAGACTGGACCGAAGGAAGATAGATTCTAAATTCAATTCACTTGTAA
CATTCATAGTGTGACATACATTAATCTTAAGTGGATGATGGACTATACATGCATGACTCGTATAC
TTTGATGTAAATAAAAGCCTGAGTTCAAATAGATAAGGAACCAAAAGCTGGTGCGTTAGGTATAT
GACTTCTAGAGTGTGTATCATCATTCACAATAGTAGAATTCATAGCCCAAGACATAGGTAAATGA
TATCCTCCTATTCACATTACATGATAGATGAAAAGTAAACGTGGCCATGGGTCATTCATCTTTGT
GATAAATGACTTAATTACTATTTCATAGTAATTGACTCTTCATAAAGGAAGATGTAATAGTTACC
ATGAGATAAAATAAGATCATATTGAGAAAGTGAATTTATCCCAAAGAGAGTAAAGATTGTTGGAT
CTGGTGCCCTAAGTGTAGTATATTTGTTTGTAAACTTATAATTTTTTCGAACAGAATA
Found at i:51635473 original size:11 final size:12
Alignment explanation
Indices: 51635459--51635488 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51635449 AAAATTTTTA
51635459 TAAACTA-TAAT
1 TAAACTATTAAT
51635470 TAAACTATTAAT
1 TAAACTATTAAT
51635482 TAAACTA
1 TAAACTA
51635489 ACTAAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAACTATTAAT
Found at i:51646694 original size:38 final size:38
Alignment explanation
Indices: 51646652--51646753 Score: 114
Period size: 41 Copynumber: 2.6 Consensus size: 38
51646642 GAAATCCTTG
*
51646652 TTATAATTATTGTAATTATAATTTACGGTCGAATATTA
1 TTATAATTATTGTAATTATAATTTACGGTCAAATATTA
* * * *
51646690 TTATAATTATTATAATTGTAATTTTTTTCGGTCAAATGTTA
1 TTATAATTATTGTAATTATAA---TTTACGGTCAAATATTA
* *
51646731 TTATTATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
51646754 ATTATATTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
38 21 0.40
41 31 0.60
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTACGGTCAAATATTA
Found at i:51648859 original size:57 final size:57
Alignment explanation
Indices: 51648756--51648872 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 57
51648746 ATAGAAATGG
* * *
51648756 TGAAATGGAGAAATAGAAAACATTTGGAATTGATTATGGTGTTCTCCAAAAATGAAAA
1 TGAAATGGAGAAATAGAAAACATTAGGAATTGAATATAGTGTTCTCC-AAAATGAAAA
* * * *
51648814 TGAAATGGAGAAAT-GGAATCATTAGGAATTGAATCTAGTTTTCTCCAAAATGAAAA
1 TGAAATGGAGAAATAGAAAACATTAGGAATTGAATATAGTGTTCTCCAAAATGAAAA
51648870 TGA
1 TGA
51648873 CCTGAAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 13 0.25
57 25 0.48
58 14 0.27
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (57 bp):
TGAAATGGAGAAATAGAAAACATTAGGAATTGAATATAGTGTTCTCCAAAATGAAAA
Found at i:51650196 original size:35 final size:37
Alignment explanation
Indices: 51650150--51650224 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 37
51650140 CACTAGTGTA
*
51650150 TTAAATAATAGTATATTT-A-TAGATCATCTATATAT
1 TTAAATAATAGTATATTTAAGCAGATCATCTATATAT
*
51650185 TTAAATGATAGTATATTTAAAGCAGATCATCTATATAT
1 TTAAATAATAGTATATTT-AAGCAGATCATCTATATAT
51650223 TT
1 TT
51650225 TATCATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
35 17 0.49
37 1 0.03
38 17 0.49
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (37 bp):
TTAAATAATAGTATATTTAAGCAGATCATCTATATAT
Found at i:51652781 original size:22 final size:21
Alignment explanation
Indices: 51652756--51652798 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51652746 GAAGGAATAA
51652756 TTATATAAAATTTTAAATTAGT
1 TTAT-TAAAATTTTAAATTAGT
*
51652778 TTATTTAAATTTTAAATTAGT
1 TTATTAAAATTTTAAATTAGT
51652799 AATTGTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTATTAAAATTTTAAATTAGT
Found at i:51687369 original size:19 final size:19
Alignment explanation
Indices: 51687345--51687455 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
51687335 AATCTTCAGG
51687345 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51687364 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
51687383 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51687402 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
51687421 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51687440 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
51687456 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51687395 original size:38 final size:38
Alignment explanation
Indices: 51687352--51687455 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
51687342 AGGGATATGC
51687352 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
51687390 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
51687428 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
51687456 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:51687481 original size:22 final size:20
Alignment explanation
Indices: 51687345--51687481 Score: 131
Period size: 19 Copynumber: 6.9 Consensus size: 20
51687335 AATCTTCAGG
*
51687345 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
51687364 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
* *
51687383 AATATATAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
51687402 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
51687421 GATATATAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
51687440 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTT--AAGATAT
*
51687462 GATTTTGTAATCTTACAGAT
1 GA-TATGTAATCTTA-AGAT
51687482 TTAATTTGTA
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
19 79 0.78
21 1 0.01
22 12 0.12
23 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (20 bp):
GATATGTAATCTTAAGATAT
Found at i:51690346 original size:24 final size:24
Alignment explanation
Indices: 51690318--51690363 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
51690308 ATCAAAGGAT
*
51690318 GGAAAAGCTA-GAGCAGTTTCAAAA
1 GGAAAAGC-AGGAGCAGCTTCAAAA
*
51690342 GGAAATGCAGGAGCAGCTTCAA
1 GGAAAAGCAGGAGCAGCTTCAA
51690364 CGACAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.15
Consensus pattern (24 bp):
GGAAAAGCAGGAGCAGCTTCAAAA
Found at i:51694496 original size:132 final size:132
Alignment explanation
Indices: 51694322--51695348 Score: 1594
Period size: 132 Copynumber: 7.8 Consensus size: 132
51694312 TTGACAGCGA
51694322 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
51694387 TCTTCTTCCCTGGATAACAGTGGAATAGATTGAAGATTTTATATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
51694452 GG
131 AG
*
51694454 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
51694519 TCTACTTCCCTGGGCAACAGCGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
51694584 GG
131 AG
* * * * *
51694586 GGCAGATTGAAGATGGCAGATTTTACCTCCATGTGGTTATAGTGGAGTACATTCAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
51694651 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
51694716 AG
131 AG
* *
51694718 AGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGGTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
51694783 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
51694848 AA
131 AG
* * * * * *
51694850 AGCAGATTGAAGATTGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAACCATTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
51694915 TCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGGTATTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
51694980 AG
131 AG
*
51694982 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
51695047 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
51695112 AG
131 AG
* *
51695114 AGCAGATCGAAGATGGCGGTTTTTACCTCCCTGTAGTTATAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
** * *
51695178 TCATA-TATCCCTGGTTAGCAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
*
51695242 GTGG
129 GTAG
* * *
51695246 AGCAAATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
51695310 TCATA-TATCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
51695349 GTAAGTCCTA
Statistics
Matches: 831, Mismatches: 62, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
131 3 0.00
132 828 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
AG
Found at i:51695698 original size:19 final size:19
Alignment explanation
Indices: 51695674--51695784 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
51695664 AATCTTCAGG
51695674 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51695693 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* ** *
51695712 AATATATAATCTTATATAT
1 GATATGCAATCTTAGATAT
51695731 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
51695750 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
51695769 GATATGCAATTTTAGA
1 GATATGCAATCTTAGA
51695785 AGATATGATT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 79 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51695724 original size:38 final size:38
Alignment explanation
Indices: 51695681--51695784 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
51695671 AGGGATATGC
51695681 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
51695719 AATCTTATATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
51695757 AATCTTAGATATGATATGCAATTTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
51695785 AGATATGATT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:51695810 original size:22 final size:21
Alignment explanation
Indices: 51695674--51695810 Score: 96
Period size: 19 Copynumber: 6.9 Consensus size: 21
51695664 AATCTTCAGG
*
51695674 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
51695693 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* * *
51695712 AATATATAATCTT--ATATAT
1 GATATGTAATCTTAGAGATAT
*
51695731 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
51695750 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
51695769 GATATGCAATTTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
51695791 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
51695811 TTAATTTGTA
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
19 76 0.78
22 12 0.12
23 10 0.10
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:51707014 original size:103 final size:102
Alignment explanation
Indices: 51706844--51707050 Score: 378
Period size: 103 Copynumber: 2.0 Consensus size: 102
51706834 TAGATAAGAA
* *
51706844 TACTAAAAAATGAGTCTGATTTAACACTAATAATATATAATTAACTAAAACATAAGTAAAATAAA
1 TACTAAAAAATGAGTCTAATTTAACACTAATAATATATAATTAACTAAAACATAAATAAAATAAA
51706909 ATTCCTAAAATCTACTAAAATTAACTTATAGAATAAAC
66 ATTCCT-AAATCTACTAAAATTAACTTATAGAATAAAC
*
51706947 TACTAAAAAATGAGTCTAATTTAACGCTAATAATATATAATTAACTAAAACATAAATAAAATAAA
1 TACTAAAAAATGAGTCTAATTTAACACTAATAATATATAATTAACTAAAACATAAATAAAATAAA
51707012 ATTCCTAAATCTACTAAAATTAACTTATAGAATAAAC
66 ATTCCTAAATCTACTAAAATTAACTTATAGAATAAAC
51707049 TA
1 TA
51707051 AAATAAAATA
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 33 0.33
103 68 0.67
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (102 bp):
TACTAAAAAATGAGTCTAATTTAACACTAATAATATATAATTAACTAAAACATAAATAAAATAAA
ATTCCTAAATCTACTAAAATTAACTTATAGAATAAAC
Found at i:51713387 original size:32 final size:33
Alignment explanation
Indices: 51713346--51713413 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
51713336 GATTTAATCC
51713346 AACCTAATATATGTTTTTCTATTTCCCAAAATA
1 AACCTAATATATGTTTTTCTATTTCCCAAAATA
*
51713379 AACC-AATATATGTTTTTCTATTTCTCAAAATA
1 AACCTAATATATGTTTTTCTATTTCCCAAAATA
51713411 AAC
1 AAC
51713414 ATTATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (33 bp):
AACCTAATATATGTTTTTCTATTTCCCAAAATA
Found at i:51717858 original size:3 final size:3
Alignment explanation
Indices: 51717845--51717882 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
51717835 ACACTTACTT
* *
51717845 CAC CGC CAC CAC CAC CAC CAC CAC CAC CAG CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
51717883 TTATTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.63, G:0.05, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:51722455 original size:20 final size:21
Alignment explanation
Indices: 51722423--51722461 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
51722413 CTTCCCCCTT
51722423 TTTTCCTTATTTT-ATTTTAA
1 TTTTCCTTATTTTAATTTTAA
51722443 TTTTCCTGT-TTTTAATTTT
1 TTTTCCT-TATTTTAATTTT
51722462 GGGGTAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTCCTTATTTTAATTTTAA
Found at i:51734922 original size:16 final size:16
Alignment explanation
Indices: 51734901--51734946 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
51734891 TTATTAAATT
51734901 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
51734917 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
51734932 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
51734947 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:51735020 original size:120 final size:120
Alignment explanation
Indices: 51734807--51735064 Score: 498
Period size: 120 Copynumber: 2.1 Consensus size: 120
51734797 AGCAGTTGTC
*
51734807 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTTATATAAGA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
51734872 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
51734927 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
51734992 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
51735047 TAATAATTATGTTTAAAT
1 TAATAATTATG-TTAAAT
51735065 ATGATTAAAT
Statistics
Matches: 136, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
120 130 0.96
121 6 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
Found at i:51735042 original size:16 final size:16
Alignment explanation
Indices: 51735021--51735062 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
51735011 TTATTAAATT
*
51735021 ATATATTTTAATTATA
1 ATATATTTTAATAATA
51735037 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
51735052 AT-TATGTTTAA
1 ATATAT-TTTAA
51735063 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:51735047 original size:15 final size:15
Alignment explanation
Indices: 51735012--51735053 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51735002 TTAAGAATTT
*
51735012 TATTAAATTAT-ATA
1 TATTTAATTATAATA
51735026 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
51735040 TATTTAATAATAAT
1 TATTTAATTATAAT
51735054 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:51735259 original size:44 final size:45
Alignment explanation
Indices: 51735190--51735297 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
51735180 TTCTATTATG
51735190 CTATTACACCTCTATTCC---AC--TCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTACATTCAACCAAACACAAGATTTA
* *** *
51735229 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATTCCATTACATTCAACCAAACACAAGATTTA
51735274 CTATTACACCTCTATTCCATTACA
1 CTATTACACCTCTATTCCATTACA
51735298 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
39 17 0.30
42 2 0.04
44 13 0.23
45 25 0.44
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (45 bp):
CTATTACACCTCTATTCCATTACATTCAACCAAACACAAGATTTA
Found at i:51735297 original size:16 final size:16
Alignment explanation
Indices: 51735278--51735329 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
51735268 GATTTGCTAT
* *
51735278 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
51735294 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51735310 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51735326 TACA
1 TACA
51735330 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:51735706 original size:31 final size:30
Alignment explanation
Indices: 51735641--51735712 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 30
51735631 TGTATATATG
*
51735641 AACTTTAATTTGGTGCAATTATACACGTGA
1 AACTTTAATTTGGTGCAAATATACACGTGA
* * *
51735671 AACTTTAATTGTGGTTCAAATATATACTTGA
1 AACTTTAATT-TGGTGCAAATATACACGTGA
51735702 AACTTTAATTT
1 AACTTTAATTT
51735713 TGATTTAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATACACGTGA
Found at i:51735783 original size:29 final size:29
Alignment explanation
Indices: 51735751--51735806 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
51735741 AAATACATCA
*
51735751 ATTTAGTTT-TATATTAGATAAATATAATT
1 ATTTA-TTTATATAATAGATAAATATAATT
*
51735780 ATTTATTTATGTAATAGATAAATATAA
1 ATTTATTTATATAATAGATAAATATAA
51735807 AATGATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (29 bp):
ATTTATTTATATAATAGATAAATATAATT
Found at i:51745210 original size:19 final size:19
Alignment explanation
Indices: 51745186--51745225 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
51745176 AGTTGAATGA
*
51745186 AGAAAGTTGCTTACAATTC
1 AGAAAGTTGCCTACAATTC
51745205 AGAAAGTTGCCTACAATTC
1 AGAAAGTTGCCTACAATTC
51745224 AG
1 AG
51745226 GTATTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (19 bp):
AGAAAGTTGCCTACAATTC
Found at i:51747277 original size:13 final size:13
Alignment explanation
Indices: 51747259--51747293 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
51747249 AAAACTTAAT
51747259 GTCATGCAATCAA
1 GTCATGCAATCAA
51747272 GTCATGCAATCAA
1 GTCATGCAATCAA
51747285 GTCATGCAA
1 GTCATGCAA
51747294 ACCAGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (13 bp):
GTCATGCAATCAA
Found at i:51751660 original size:31 final size:31
Alignment explanation
Indices: 51751625--51751702 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
51751615 TGTCCCAATG
*
51751625 GACTATATATTTTGTGCTTACTATCCCTA-CA
1 GACTATTTATTTTGTGCTTACTATCCC-AGCA
*
51751656 GACTATTTGTTTTGTGCTTACTATCCCAGCA
1 GACTATTTATTTTGTGCTTACTATCCCAGCA
*
51751687 GACTATTTATTATGTG
1 GACTATTTATTTTGTG
51751703 TTTATTGTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (31 bp):
GACTATTTATTTTGTGCTTACTATCCCAGCA
Found at i:51773729 original size:24 final size:22
Alignment explanation
Indices: 51773702--51773757 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 22
51773692 AAATATTTAA
*
51773702 TTAACTAAATTATTAAATATTCCT
1 TTAACTAAATTATTAAATAAT--T
* * *
51773726 TTAAATTAATTATTAATTAATT
1 TTAACTAAATTATTAAATAATT
51773748 TTAACTAAAT
1 TTAACTAAAT
51773758 ATTTTAGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 9 0.35
24 17 0.65
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAACTAAATTATTAAATAATT
Found at i:51775561 original size:21 final size:21
Alignment explanation
Indices: 51775521--51775561 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51775511 AAAATTATTT
51775521 ATATTTATATTTATTTTATAA
1 ATATTTATATTTATTTTATAA
*
51775542 ATATTTTTATTT-TTTATATA
1 ATATTTATATTTATTT-TATA
51775562 TCCTAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATATTTATATTTATTTTATAA
Found at i:51776157 original size:21 final size:21
Alignment explanation
Indices: 51776132--51776182 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51776122 TAACATCAAA
51776132 ATAAAGATTTGATTGGTAAAT
1 ATAAAGATTTGATTGGTAAAT
51776153 ATAAATG-TTTGATTGGTAAAT
1 ATAAA-GATTTGATTGGTAAAT
*
51776174 -TTAAGATTT
1 ATAAAGATTT
51776183 TAATAACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 6 0.22
21 19 0.70
22 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (21 bp):
ATAAAGATTTGATTGGTAAAT
Found at i:51778881 original size:3 final size:3
Alignment explanation
Indices: 51778873--51778905 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
51778863 TCGTTCTCTT
51778873 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
51778906 ATATACTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:51782670 original size:16 final size:18
Alignment explanation
Indices: 51782649--51782687 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
51782639 TTACAGGAAC
*
51782649 AAAAAAT-A-AACTAAAT
1 AAAAAATAAGAACGAAAT
51782665 AAAAAATAAGAACGAAAT
1 AAAAAATAAGAACGAAAT
51782683 AAAAA
1 AAAAA
51782688 TCTAAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAAAATAAGAACGAAAT
Found at i:51788876 original size:138 final size:138
Alignment explanation
Indices: 51788539--51789290 Score: 1194
Period size: 138 Copynumber: 5.5 Consensus size: 138
51788529 AATGAAAATG
* *
51788539 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
51788604 TATAACTATTTATATTAAAAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATC--A--
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
51788665 -ATATATT
131 CATATATT
* * *
51788672 AATTATATTCTTTCTAAAAGAATTTTAATTTCCATGTCTTTTATATTTTGACAGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
51788737 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAAT-TATTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATAT-TTTGTATGAATCAAAT
*
51788801 CCATATATT
130 TCATATATT
*
51788810 AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
51788875 TATAACTATTTAGATTAATAATTTCGGTAAAAAATATACAATTAAT-TATTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATAT-TTTGTATGAATCAAAT
51788939 TCATATATT
130 TCATATATT
*
51788948 AATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
51789013 TACAACTGTTTATATTAATAAATTCGGTAAAATATATACAATCAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
51789078 CATATATT
131 CATATATT
* * * *
51789086 AATTATATTCTTTCTAAAAGAATATTAATTTCCTTGCCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
51789151 TACAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
51789216 AAAATATT
131 CATATATT
* *
51789224 AATTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCGAAATTAATATA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAAT-TA
51789289 AT
65 AT
51789291 TGTTTATATT
Statistics
Matches: 572, Mismatches: 39, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
132 1 0.00
133 116 0.20
135 1 0.00
138 449 0.78
139 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:51790194 original size:11 final size:11
Alignment explanation
Indices: 51790178--51790236 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
51790168 ACTACTACAA
51790178 ACCATATCACC
1 ACCATATCACC
51790189 ACCATA-CAACC
1 ACCATATC-ACC
51790200 ACCATATCACC
1 ACCATATCACC
* * *
51790211 GCCATTTAACC
1 ACCATATCACC
* *
51790222 ACCTTAGCACC
1 ACCATATCACC
51790233 ACCA
1 ACCA
51790237 CACCGACACC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
10 1 0.03
11 35 0.95
12 1 0.03
ACGTcount: A:0.36, C:0.44, G:0.03, T:0.17
Consensus pattern (11 bp):
ACCATATCACC
Found at i:51790204 original size:22 final size:22
Alignment explanation
Indices: 51790178--51790236 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
51790168 ACTACTACAA
51790178 ACCATATCACCACCATACAACC
1 ACCATATCACCACCATACAACC
* **
51790200 ACCATATCACCGCCATTTAACC
1 ACCATATCACCACCATACAACC
* *
51790222 ACCTTAGCACCACCA
1 ACCATATCACCACCA
51790237 CACCGACACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.44, G:0.03, T:0.17
Consensus pattern (22 bp):
ACCATATCACCACCATACAACC
Found at i:51796420 original size:23 final size:22
Alignment explanation
Indices: 51796377--51796420 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
51796367 TTCTAAGTCG
51796377 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
51796400 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
51796421 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:51796532 original size:45 final size:45
Alignment explanation
Indices: 51796465--51796551 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
51796455 AACAGATACT
* *
51796465 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATATG
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATATG
* *
51796510 CGGTGGAATCAGCACATGGCAACCACTTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
51796552 GTTTGGTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATATG
Found at i:51796627 original size:51 final size:51
Alignment explanation
Indices: 51796563--51796700 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 51
51796553 TTTGGTTCAT
* * *
51796563 ATAGCAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACAC
1 ATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATACAC
* * * * * *
51796614 GTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACGC
1 ATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACCATCCGATACAC
51796665 ATAGTAGCCTGCACATAGTACTACACACT-TGACCAT
1 ATAGTAGCCTGCACATAGTACTACACA-TGTGACCAT
51796701 GACTTTCACT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.03
51 68 0.94
52 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
ATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATACAC
Found at i:51805686 original size:12 final size:14
Alignment explanation
Indices: 51805650--51805684 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
51805640 AGGCCTTAAC
*
51805650 TTGATTTTTAGTTA
1 TTGATTTTTAATTA
51805664 TTGATTTTTAATTA
1 TTGATTTTTAATTA
51805678 TT-ATTTT
1 TTGATTTT
51805685 AACCTTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (14 bp):
TTGATTTTTAATTA
Found at i:51808775 original size:36 final size:36
Alignment explanation
Indices: 51808725--51808802 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
51808715 TACTAAGAAT
*
51808725 GAAAAACCTAATCTAAAAAGTAAACTAAAACGAAGG
1 GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
51808761 GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
1 GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
51808797 GAAATA
1 GAAATA
51808803 GTCCCTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.58, C:0.13, G:0.14, T:0.15
Consensus pattern (36 bp):
GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
Found at i:51811460 original size:22 final size:22
Alignment explanation
Indices: 51811430--51811484 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
51811420 CCAATTTGGA
* * * *
51811430 TGTCGAGACATGACATGGCTGG
1 TGTCAAGACATCACATGACTAG
51811452 TGTCAAGACATCACATGACTAG
1 TGTCAAGACATCACATGACTAG
*
51811474 TGTCATGACAT
1 TGTCAAGACAT
51811485 TGTTGGCAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
TGTCAAGACATCACATGACTAG
Found at i:51826136 original size:21 final size:21
Alignment explanation
Indices: 51826107--51826147 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51826097 AAATAAAGAT
*
51826107 AATTAATCATATCAGATCATC
1 AATTAATCAAATCAGATCATC
* *
51826128 AATTGATCAAATCTGATCAT
1 AATTAATCAAATCAGATCAT
51826148 GCATGCAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (21 bp):
AATTAATCAAATCAGATCATC
Found at i:51831433 original size:28 final size:28
Alignment explanation
Indices: 51831402--51831461 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
51831392 TTCGTCAAGG
*
51831402 CTATCTTATATGTGGAAGCCCATTAGAA
1 CTATCTTATATGTGAAAGCCCATTAGAA
** *
51831430 CTATCTTATATGTGAAAGTTCATTGGAA
1 CTATCTTATATGTGAAAGCCCATTAGAA
51831458 CTAT
1 CTAT
51831462 ATTGTAAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (28 bp):
CTATCTTATATGTGAAAGCCCATTAGAA
Found at i:51836856 original size:20 final size:20
Alignment explanation
Indices: 51836833--51836939 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
51836823 TACACTTTGG
51836833 TGCCCCTGTTTGCACTTCGA
1 TGCCCCTGTTTGCACTTCGA
* *
51836853 TGCCCCTGTATACACTTCGA
1 TGCCCCTGTTTGCACTTCGA
* * * *
51836873 TGTCTCTATTTGCACTACGA
1 TGCCCCTGTTTGCACTTCGA
* * *
51836893 TGCCTCTGTTTGCATATTTG-
1 TGCCCCTGTTTGCA-CTTCGA
* * *
51836913 TGCCCCTATTTGCACTTTGG
1 TGCCCCTGTTTGCACTTCGA
51836933 TGCCCCT
1 TGCCCCT
51836940 ATTATGCATC
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 4 0.06
20 63 0.91
21 2 0.03
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.38
Consensus pattern (20 bp):
TGCCCCTGTTTGCACTTCGA
Found at i:51836869 original size:40 final size:40
Alignment explanation
Indices: 51836823--51836939 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 40
51836813 GTACGAGATT
*
51836823 TACACTTTGGTGCCCCTGTTTGCACTTCGATGCCCCTGTA
1 TACACTTTGGTGCCCCTATTTGCACTTCGATGCCCCTGTA
* * * * * * *
51836863 TACACTTCGATGTCTCTATTTGCACTACGATGCCTCTGTT
1 TACACTTTGGTGCCCCTATTTGCACTTCGATGCCCCTGTA
* * * *
51836903 TGCA-TATTTGTGCCCCTATTTGCACTTTGGTGCCCCT
1 TACACT-TTGGTGCCCCTATTTGCACTTCGATGCCCCT
51836940 ATTATGCATC
Statistics
Matches: 58, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
39 1 0.02
40 57 0.98
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (40 bp):
TACACTTTGGTGCCCCTATTTGCACTTCGATGCCCCTGTA
Found at i:51837090 original size:7 final size:7
Alignment explanation
Indices: 51837078--51837104 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
51837068 AAGATATTAG
51837078 TAAATGT
1 TAAATGT
51837085 TAAATGT
1 TAAATGT
51837092 TAAATGT
1 TAAATGT
51837099 TAAATG
1 TAAATG
51837105 AATTACTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (7 bp):
TAAATGT
Found at i:51839477 original size:13 final size:13
Alignment explanation
Indices: 51839461--51839489 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
51839451 ATAATAAAAA
51839461 ATATATTTATTAT
1 ATATATTTATTAT
51839474 ATATATTTATTAT
1 ATATATTTATTAT
51839487 ATA
1 ATA
51839490 AATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATTTATTAT
Found at i:51839941 original size:16 final size:16
Alignment explanation
Indices: 51839920--51839955 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
51839910 ACTTCTTCTT
51839920 TTTCTTTTCATTTT-TA
1 TTTCTTTT-ATTTTATA
51839936 TTTCTTTTATTTTATA
1 TTTCTTTTATTTTATA
51839952 TTTC
1 TTTC
51839956 GTATTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTATTTTATA
Found at i:51852810 original size:17 final size:18
Alignment explanation
Indices: 51852780--51852813 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
51852770 ATTGCGGTCG
51852780 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
51852798 CGGTCGC-GTCGCGTTT
1 CGGTCGCGGTCGCGTTT
51852814 ATCGCGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.00, C:0.29, G:0.38, T:0.32
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:51853420 original size:14 final size:14
Alignment explanation
Indices: 51853382--51853424 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
51853372 CAAAATGTAC
51853382 AATATAATTAAA-T
1 AATATAATTAAATT
51853395 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
51853410 AA-ATAATTTAATT
1 AATATAATTAAATT
51853423 AA
1 AA
51853425 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:51858752 original size:24 final size:25
Alignment explanation
Indices: 51858725--51858788 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
51858715 GTGCATGTAT
*
51858725 GCTCATACGAGCTGTG-AACGGTAA
1 GCTCATACGAGCTGAGTAACGGTAA
*
51858749 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAGTAACGGTAA
*
51858774 GCTCATAAGAGCTGA
1 GCTCATACGAGCTGA
51858789 AACCGATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 15 0.42
25 21 0.58
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAGTAACGGTAA
Found at i:51869494 original size:866 final size:866
Alignment explanation
Indices: 51867821--51869553 Score: 3349
Period size: 866 Copynumber: 2.0 Consensus size: 866
51867811 GTAAGATCAA
51867821 TATAGAGTTATTTATAAAAGATCAGTTAGTTATTCGCCAAGAATCATATTTATGAGTACCCATCC
1 TATAGAGTTATTTATAAAAGATCAGTTAGTTATTCGCCAAGAATCATATTTATGAGTACCCATCC
*
51867886 TGCGGGAAAATGTATTCAATGTTTATTTGAAGGAATATTCATTGAAAGTAGGCTATGTATGGATA
66 TGCGGGAAAATGTATTCAATGTTTATTTGAAGGAAAATTCATTGAAAGTAGGCTATGTATGGATA
51867951 TTCTTCTGGGAAGTACATTTGATTTTCTAAAAAAGAAATGAGATCTGTAGTCATTGATGAAATCT
131 TTCTTCTGGGAAGTACATTTGATTTTCTAAAAAAGAAATGAGATCTGTAGTCATTGATGAAATCT
51868016 AGAATTAGTCCAAACAGGGACTTGTGAATAGATCGGTCAATTATGGAAGTTGGTGAATAAGTATA
196 AGAATTAGTCCAAACAGGGACTTGTGAATAGATCGGTCAATTATGGAAGTTGGTGAATAAGTATA
51868081 AGCTGATATAGGAAAGTATCCGCCAATGATAGAAACAAAATCTGAAACCTTCATGATGAGGATTC
261 AGCTGATATAGGAAAGTATCCGCCAATGATAGAAACAAAATCTGAAACCTTCATGATGAGGATTC
51868146 ATCTAGAAATGCGTCAAGGTAATTTGGGTTAAAACTCACTAGATTCGCTTGAACTTATAAGTGTT
326 ATCTAGAAATGCGTCAAGGTAATTTGGGTTAAAACTCACTAGATTCGCTTGAACTTATAAGTGTT
51868211 TGTTATAATGTAGGTTCTATTTATCAAATGAGTACTGTATGAGGGACCAAGCTAGGAGTGCACCA
391 TGTTATAATGTAGGTTCTATTTATCAAATGAGTACTGTATGAGGGACCAAGCTAGGAGTGCACCA
* **
51868276 AGTAGCGGTTCGAGTTGCGATATTATGCATACAGAGGGTACCCCAAAAGTATGGTGATTAGTTCA
456 AGTAGCGGTTCGAGTTGCGATATTATGCATACAGAGGGTACCCAAAAAAAATGGTGATTAGTTCA
*
51868341 CAAATATCTCAAAATACACCACACAGGCTTTATAAAAAATTACGTGTGTACTGTCCCGTCGGACA
521 CAAATATCTCAAAATACACCACACAGGCTTTATAAAAAATTAAGTGTGTACTGTCCCGTCGGACA
*
51868406 ATCTAAAAGGATGTCATGGGATTTCTTCCACATGGTCTTACACATATTTTCATGTTGTGATCTGC
586 ATCTAAAAGGATGTCATGGGATTTCTTCCACATGGTCTTACACATATTTTCATGTTGTGATCTAC
51868471 CAATCTAGCCTCCACCTCACTGGAGGCATCACCATGAGTATTTTCATTCTCATAATATGACACGG
651 CAATCTAGCCTCCACCTCACTGGAGGCATCACCATGAGTATTTTCATTCTCATAATATGACACGG
*
51868536 GTCTCTGCCACATTGTCCTACACATTCTTATGTTGTATTCTGCTAGTCGGATTTACATTATTTCA
716 GTCTCTGCCACATTGTCCTACACATTCTTATGTTGTATTCTGCTAGTCGGATTTACATCATTTCA
51868601 AAGGCTACACCATAAGTACTCTTATTATCATATAATGCCATGGGTTTCTACCATATGGTCTTACA
781 AAGGCTACACCATAAGTACTCTTATTATCATATAATGCCATGGGTTTCTACCATATGGTCTTACA
51868666 CATATTTTCATATTGTGATAT
846 CATATTTTCATATTGTGATAT
51868687 TATAGAGTTATTTATAAAAGATCAGTTAGTTATTCGCCAAGAATCATATTTATGAGTACCCATCC
1 TATAGAGTTATTTATAAAAGATCAGTTAGTTATTCGCCAAGAATCATATTTATGAGTACCCATCC
*
51868752 TGCGGGAAAATGTATTCAATGTTTGTTTGAAGGAAAATTCATTGAAAGTAGGCTATGTATGGATA
66 TGCGGGAAAATGTATTCAATGTTTATTTGAAGGAAAATTCATTGAAAGTAGGCTATGTATGGATA
51868817 TTCTTCTGGGAAGTACATTTGATTTTCTAAAAAAGAAATGAGATCTGTAGTCATTGATGAAATCT
131 TTCTTCTGGGAAGTACATTTGATTTTCTAAAAAAGAAATGAGATCTGTAGTCATTGATGAAATCT
*
51868882 AGAATTAGTCCAAACAGGGACTTGTGAATAGATTGGTCAATTATGGAAGTTGGTGAATAAGTATA
196 AGAATTAGTCCAAACAGGGACTTGTGAATAGATCGGTCAATTATGGAAGTTGGTGAATAAGTATA
51868947 AGCTGATATAGGAAAGTATCCGCCAATGATAGAAACAAAATCTGAAACCTTCATGATGAGGATTC
261 AGCTGATATAGGAAAGTATCCGCCAATGATAGAAACAAAATCTGAAACCTTCATGATGAGGATTC
51869012 ATCTAGAAATGCGTCAAGGTAATTTGGGTTAAAACTCACTAGATTCGCTTGAACTTATAAGTGTT
326 ATCTAGAAATGCGTCAAGGTAATTTGGGTTAAAACTCACTAGATTCGCTTGAACTTATAAGTGTT
51869077 TGTTATAATGTAGGTTCTATTTATCAAATGAGTACTGTATGAGGGACCAAGCTAGGAGTGCACCA
391 TGTTATAATGTAGGTTCTATTTATCAAATGAGTACTGTATGAGGGACCAAGCTAGGAGTGCACCA
51869142 AGTAGCGGTTCGAGTTGCGATATTATGCATACAGAGGGTACCCAAAAAAAATGGTGATTAGTTCA
456 AGTAGCGGTTCGAGTTGCGATATTATGCATACAGAGGGTACCCAAAAAAAATGGTGATTAGTTCA
51869207 CAAATATCTCAAAATACACCACACAGGCTTTATAAAAAATTAAGTGTGTACTGTCCCGTCGGACA
521 CAAATATCTCAAAATACACCACACAGGCTTTATAAAAAATTAAGTGTGTACTGTCCCGTCGGACA
51869272 ATCTAAAAGGATGTCATGGGATTTCTTCCACATGGTCTTACACATATTTTCATGTTGTGATCTAC
586 ATCTAAAAGGATGTCATGGGATTTCTTCCACATGGTCTTACACATATTTTCATGTTGTGATCTAC
51869337 CAATCTAGCCTCCACCTCACTGGAGGCATCACCATGAGTATTTTCATTCTCATAATATGACACGG
651 CAATCTAGCCTCCACCTCACTGGAGGCATCACCATGAGTATTTTCATTCTCATAATATGACACGG
* *
51869402 GTCTCTGCCACATTGTCTTACACCTTCTTATGTTGTATTCTGCTAGTCGGATTTACATCATTTCA
716 GTCTCTGCCACATTGTCCTACACATTCTTATGTTGTATTCTGCTAGTCGGATTTACATCATTTCA
* *
51869467 AAGGCTACACCATAAGTACTTTTATTATCATATAATGCCATGGGTTTCTACCATATGGTCTTATA
781 AAGGCTACACCATAAGTACTCTTATTATCATATAATGCCATGGGTTTCTACCATATGGTCTTACA
51869532 CATATTTTCATATTGTGATAT
846 CATATTTTCATATTGTGATAT
51869553 T
1 T
51869554 TCAGTATAGT
Statistics
Matches: 854, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
866 854 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (866 bp):
TATAGAGTTATTTATAAAAGATCAGTTAGTTATTCGCCAAGAATCATATTTATGAGTACCCATCC
TGCGGGAAAATGTATTCAATGTTTATTTGAAGGAAAATTCATTGAAAGTAGGCTATGTATGGATA
TTCTTCTGGGAAGTACATTTGATTTTCTAAAAAAGAAATGAGATCTGTAGTCATTGATGAAATCT
AGAATTAGTCCAAACAGGGACTTGTGAATAGATCGGTCAATTATGGAAGTTGGTGAATAAGTATA
AGCTGATATAGGAAAGTATCCGCCAATGATAGAAACAAAATCTGAAACCTTCATGATGAGGATTC
ATCTAGAAATGCGTCAAGGTAATTTGGGTTAAAACTCACTAGATTCGCTTGAACTTATAAGTGTT
TGTTATAATGTAGGTTCTATTTATCAAATGAGTACTGTATGAGGGACCAAGCTAGGAGTGCACCA
AGTAGCGGTTCGAGTTGCGATATTATGCATACAGAGGGTACCCAAAAAAAATGGTGATTAGTTCA
CAAATATCTCAAAATACACCACACAGGCTTTATAAAAAATTAAGTGTGTACTGTCCCGTCGGACA
ATCTAAAAGGATGTCATGGGATTTCTTCCACATGGTCTTACACATATTTTCATGTTGTGATCTAC
CAATCTAGCCTCCACCTCACTGGAGGCATCACCATGAGTATTTTCATTCTCATAATATGACACGG
GTCTCTGCCACATTGTCCTACACATTCTTATGTTGTATTCTGCTAGTCGGATTTACATCATTTCA
AAGGCTACACCATAAGTACTCTTATTATCATATAATGCCATGGGTTTCTACCATATGGTCTTACA
CATATTTTCATATTGTGATAT
Found at i:51876148 original size:21 final size:22
Alignment explanation
Indices: 51876116--51876167 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
51876106 CAATTGAATC
51876116 TATTTT-TTATTTTTAAATA-T
1 TATTTTATTATTTTTAAATATT
*
51876136 TATTTTATTATTTTTAATTATT
1 TATTTTATTATTTTTAAATATT
*
51876158 TATTTAATTA
1 TATTTTATTA
51876168 AACCGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 6 0.21
21 12 0.43
22 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTATTATTTTTAAATATT
Found at i:51879044 original size:54 final size:54
Alignment explanation
Indices: 51878981--51879213 Score: 234
Period size: 54 Copynumber: 4.1 Consensus size: 54
51878971 AGTATCATAT
*
51878981 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
51879035 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
51879089 ATTATATATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 ATTAT-GA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTT-TA-T-T-A-
51879153 A
54 A
*
51879154 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
51879209 ATTAT
1 ATTAT
51879214 ATATTTTAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
54 62 0.43
55 2 0.01
56 7 0.05
57 12 0.08
58 5 0.03
59 4 0.03
60 16 0.11
61 4 0.03
62 5 0.03
63 12 0.08
64 7 0.05
65 2 0.01
66 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:51879081 original size:28 final size:27
Alignment explanation
Indices: 51878996--51879081 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
51878986 GATTTGAGTA
*
51878996 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
51879024 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
51879048 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
51879078 AATT
1 AATT
51879082 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:51879118 original size:15 final size:15
Alignment explanation
Indices: 51879083--51879134 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
51879073 TTAAGAATTT
*
51879083 TATTAAATTAT-ATA
1 TATTTAATTATAATA
51879097 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
51879111 TATTTAATAATAAT-
1 TATTTAATTATAATA
51879125 TATGTTAATT
1 TAT-TTAATT
51879135 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:51879160 original size:120 final size:120
Alignment explanation
Indices: 51879035--51879250 Score: 432
Period size: 120 Copynumber: 1.8 Consensus size: 120
51879025 ATTTTATTAA
51879035 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
51879100 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
66 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
51879155 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
51879220 TAATTATAATATATTTAATAATAATTATGTT
66 TAATTATAATATATTTAATAATAATTATGTT
51879251 TAAATATGAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (120 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
Found at i:51879233 original size:16 final size:16
Alignment explanation
Indices: 51879212--51879253 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
51879202 TTATTAAATT
*
51879212 ATATATTTTAATTATA
1 ATATATTTTAATAATA
51879228 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
51879243 AT-TATGTTTAA
1 ATATAT-TTTAA
51879254 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:51879238 original size:15 final size:15
Alignment explanation
Indices: 51879203--51879244 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51879193 TTAAGAATTT
*
51879203 TATTAAATTAT-ATA
1 TATTTAATTATAATA
51879217 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
51879231 TATTTAATAATAAT
1 TATTTAATTATAAT
51879245 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:51879478 original size:16 final size:16
Alignment explanation
Indices: 51879454--51879505 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
51879444 GATTTGTTAT
*
51879454 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
51879470 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
51879486 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51879502 TACA
1 TACA
51879506 GTGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:51881658 original size:20 final size:21
Alignment explanation
Indices: 51881633--51881677 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
51881623 GTTCAACTAA
51881633 TTTTGGGTT-TCGATCTCAAT
1 TTTTGGGTTCTCGATCTCAAT
*
51881653 TTTT-GGTTCTCGATTTCAAT
1 TTTTGGGTTCTCGATCTCAAT
51881673 TTTTG
1 TTTTG
51881678 ATCTCAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (21 bp):
TTTTGGGTTCTCGATCTCAAT
Found at i:51883591 original size:45 final size:45
Alignment explanation
Indices: 51883538--51883745 Score: 251
Period size: 45 Copynumber: 4.6 Consensus size: 45
51883528 CCAGAAACAA
* *
51883538 TAAGACCATAGCTAAAAGACGTTATGGCATCATGATTCTATCAAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCAAG
*
51883583 TAAGACCAT-GCCTGAAAGACATTATGGCATCATGATTCAATCAAG
1 TAAGACCATAG-CTGAAAGACATTATGGCATCATGATTCTATCAAG
* **
51883628 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTTTATTGAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCAAG
* * * * * *
51883673 TAAGACCATAGTTGAAAGACATTATGGCATAACGAATCAAATGAA-
1 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTC-TATCAAG
* *
51883718 -AAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATAGCTGAAAGACATTATGGCA
51883746 ACACGACGGA
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
44 28 0.19
45 112 0.78
46 4 0.03
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCAAG
Found at i:51883791 original size:41 final size:41
Alignment explanation
Indices: 51883711--51883824 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 41
51883701 ATAACGAATC
* *
51883711 AAATGAA-AAGACCATAGTTGAAAGACACTATGGCAACACGACGGA
1 AAATGAATAAGACCATAATTGAAAG--AC-AT--CAACACGACGAA
* *
51883756 AAATGAATAAGATCATAATTGAAAGACATCAACACGATGAA
1 AAATGAATAAGACCATAATTGAAAGACATCAACACGACGAA
**
51883797 AAATGAATAAGACCATGGTTGAAAGACA
1 AAATGAATAAGACCATAATTGAAAGACA
51883825 CTATGGCATC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
41 35 0.57
43 2 0.03
44 2 0.03
45 7 0.11
46 15 0.25
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (41 bp):
AAATGAATAAGACCATAATTGAAAGACATCAACACGACGAA
Found at i:51883821 original size:87 final size:85
Alignment explanation
Indices: 51883711--51883869 Score: 228
Period size: 86 Copynumber: 1.8 Consensus size: 85
51883701 ATAACGAATC
* *
51883711 AAATGAAAAGACCATAGTTGAAAGACACTATGGCAACACGACGGAAAATGAATAAGATCATAATT
1 AAATGAAAAGACCATAGTTGAAAGACACTATGGCAACAAGAC-GAAAATGAATAAGACCATAATT
51883776 GAAAGACATCAACACGATGAA
65 GAAAGACATCAACACGATGAA
* * * * **
51883797 AAATGAATAAGACCATGGTTGAAAGACACTATGGCATCAAGTCGAGAATGAATAAGACCATGTTT
1 AAATGAA-AAGACCATAGTTGAAAGACACTATGGCAACAAGACGAAAATGAATAAGACCATAATT
51883862 GAAAGACA
65 GAAAGACA
51883870 ATAACTCCCT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 33 0.52
87 31 0.48
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (85 bp):
AAATGAAAAGACCATAGTTGAAAGACACTATGGCAACAAGACGAAAATGAATAAGACCATAATTG
AAAGACATCAACACGATGAA
Found at i:51885227 original size:26 final size:26
Alignment explanation
Indices: 51885196--51885265 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
51885186 CATTCTGACC
51885196 CACAACTCGTATGAGCAAGCCCATTT
1 CACAACTCGTATGAGCAAGCCCATTT
*
51885222 CACAACTCGTATGAGCAGGCCCATTT
1 CACAACTCGTATGAGCAAGCCCATTT
* *
51885248 CACAGCTCGTGTGAGCAA
1 CACAACTCGTATGAGCAA
51885266 TGTAAAGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (26 bp):
CACAACTCGTATGAGCAAGCCCATTT
Found at i:51895459 original size:21 final size:21
Alignment explanation
Indices: 51895435--51895479 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
51895425 AGGACTAAAT
*
51895435 TGTAAAAATATAAAAGTGTTA
1 TGTAAAAATATAAAAGTGATA
* *
51895456 TGTAAAAGTGTAAAAGTGATA
1 TGTAAAAATATAAAAGTGATA
51895477 TGT
1 TGT
51895480 GTGCATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTAAAAATATAAAAGTGATA
Found at i:51896098 original size:16 final size:16
Alignment explanation
Indices: 51896077--51896112 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
51896067 GGGAATTATG
51896077 GAATTTAATAGATTTT
1 GAATTTAATAGATTTT
51896093 GAATTTAATAGATTTT
1 GAATTTAATAGATTTT
51896109 GAAT
1 GAAT
51896113 ATCAAGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (16 bp):
GAATTTAATAGATTTT
Found at i:51901577 original size:26 final size:26
Alignment explanation
Indices: 51901522--51901593 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 26
51901512 TCTCGTCCCT
* ** **
51901522 ATTTTACCCCCAACAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACA
* *
51901548 ATTTTACCCTTGGTAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
*
51901574 ATTTTGCCCCTAGTAAAATT
1 ATTTTACCCCTAGTAAAATT
51901594 CTAAGAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:51908527 original size:15 final size:15
Alignment explanation
Indices: 51908509--51908538 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51908499 TAACCCTAAT
*
51908509 CCTATTAGACACATC
1 CCTATCAGACACATC
51908524 CCTATCAGACACATC
1 CCTATCAGACACATC
51908539 AAAATCAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (15 bp):
CCTATCAGACACATC
Found at i:51909997 original size:106 final size:109
Alignment explanation
Indices: 51909829--51910043 Score: 409
Period size: 106 Copynumber: 2.0 Consensus size: 109
51909819 TTATTTTTTT
51909829 TTTACTCACTTTCTTATATATATATATTTACTTTTTTTTTCATCCATATATAAGACTAATTTTAA
1 TTTACTCACTTTCTTATATATATATATTTACTTTTTTTTTCATCCATATATAAGACTAATTTTAA
51909894 TATAAAATTTTAGAAATACACTCGATGACTCGAATCAATTGGAA
66 TATAAAATTTTAGAAATACACTCGATGACTCGAATCAATTGGAA
51909938 TTTACTCACTTTC-T-TATATATATATTTAC-TTTTTTTTCATCCATATATAAGACTAATTTTAA
1 TTTACTCACTTTCTTATATATATATATTTACTTTTTTTTTCATCCATATATAAGACTAATTTTAA
51910000 TATAAAATTTTAGAAATACACTCGATGACTCGAATCAATTGGAA
66 TATAAAATTTTAGAAATACACTCGATGACTCGAATCAATTGGAA
51910044 ACCAAATTCA
Statistics
Matches: 106, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
106 77 0.73
107 15 0.14
108 1 0.01
109 13 0.12
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.44
Consensus pattern (109 bp):
TTTACTCACTTTCTTATATATATATATTTACTTTTTTTTTCATCCATATATAAGACTAATTTTAA
TATAAAATTTTAGAAATACACTCGATGACTCGAATCAATTGGAA
Found at i:51912587 original size:3 final size:3
Alignment explanation
Indices: 51912566--51912673 Score: 81
Period size: 3 Copynumber: 36.0 Consensus size: 3
51912556 TTTAAGATTT
* * * ** * *
51912566 TTA TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA ATA CCA TCA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * **
51912614 TTA TTA ATA CCA TTA TTC TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
51912662 TTA TTG TTA TTA
1 TTA TTA TTA TTA
51912674 AATTGTTTTA
Statistics
Matches: 82, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:51912613 original size:21 final size:21
Alignment explanation
Indices: 51912583--51912664 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
51912573 TGTTATTGTT
*
51912583 ATTATTATTATTATTAATACC
1 ATTATCATTATTATTAATACC
*
51912604 ATCATCATTATTATTAATACC
1 ATTATCATTATTATTAATACC
51912625 ATTATTCTTATTATTATTAATACC
1 ATTA-TC--ATTATTATTAATACC
*
51912649 ATTATTATTATTATTA
1 ATTATCATTATTATTA
51912665 TTGTTATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
21 32 0.59
22 2 0.04
23 1 0.02
24 19 0.35
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATCATTATTATTAATACC
Done.