Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 166 of 199
Found at i:48673954 original size:22 final size:23
Alignment explanation
Indices: 48673929--48673988 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
48673919 TGGACTGAAT
48673929 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
48673951 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
48673973 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
48673989 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:48673956 original size:4 final size:4
Alignment explanation
Indices: 48673938--48673971 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
48673928 TATAAAAATT
48673938 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
48673972 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:48679232 original size:31 final size:30
Alignment explanation
Indices: 48679204--48679280 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
48679194 TCAAAATTCA
*
48679204 AAAAGTATAGGGATTAAAATTGA-CAAATTT
1 AAAAGTATAGAGATTAAAATTGATCAAA-TT
* *
48679234 GAAAAG-ATAGAAACTAAAATTGATCAAATT
1 -AAAAGTATAGAGATTAAAATTGATCAAATT
48679264 AAAA-TATAGAGATTAAA
1 AAAAGTATAGAGATTAAA
48679281 TCCATAACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 14 0.36
30 16 0.41
31 9 0.23
ACGTcount: A:0.56, C:0.04, G:0.14, T:0.26
Consensus pattern (30 bp):
AAAAGTATAGAGATTAAAATTGATCAAATT
Found at i:48680771 original size:18 final size:18
Alignment explanation
Indices: 48680749--48680789 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
48680739 AGTAAAATAT
*
48680749 TTTTTGGAAAATGATTTAC
1 TTTTCGGAAAATG-TTTAC
*
48680768 TTTTCTGAAAATGTTTAC
1 TTTTCGGAAAATGTTTAC
48680786 TTTT
1 TTTT
48680790 TTGGTGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (18 bp):
TTTTCGGAAAATGTTTAC
Found at i:48687108 original size:15 final size:15
Alignment explanation
Indices: 48687060--48687116 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
48687050 CGAAAAGAAA
48687060 ATTTATATTTTCCATC
1 ATTTAT-TTTTCCATC
*
48687076 ATTTTACTTTTT--ACC
1 A-TTTA-TTTTTCCATC
48687091 ATTTATTTTTCCATC
1 ATTTATTTTTCCATC
48687106 ATTTCATTTTT
1 ATTT-ATTTTT
48687117 TTCACTCTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 5 0.15
14 4 0.12
15 9 0.26
16 7 0.21
17 8 0.24
18 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTCCATC
Found at i:48687118 original size:31 final size:31
Alignment explanation
Indices: 48687060--48687117 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
48687050 CGAAAAGAAA
*
48687060 ATTTATATTTTCCATCATTTTACTTTTTACC
1 ATTTATATTTTCCATCATTTCACTTTTTACC
*
48687091 ATTTAT-TTTTCCATCATTTCATTTTTT
1 ATTTATATTTTCCATCATTTCACTTTTT
48687118 TCACTCTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (31 bp):
ATTTATATTTTCCATCATTTCACTTTTTACC
Found at i:48691420 original size:20 final size:20
Alignment explanation
Indices: 48691354--48691430 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
48691344 TAAAAAATGA
48691354 TTTTATTATTAGGGTTTTAGG
1 TTTTATTATTAGGGTTTT-GG
48691375 TGTGTTA--ATTAGGGTTTTGG
1 T-T-TTATTATTAGGGTTTTGG
48691395 -TTTATT-TTAGGGTTTTGG
1 TTTTATTATTAGGGTTTTGG
*
48691413 ATTTTATTGTTA-GGTTTT
1 -TTTTATTATTAGGGTTTT
48691431 TAGTGTTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
17 3 0.06
18 13 0.27
20 14 0.29
21 15 0.31
22 1 0.02
23 3 0.06
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (20 bp):
TTTTATTATTAGGGTTTTGG
Found at i:48691439 original size:21 final size:21
Alignment explanation
Indices: 48691355--48691439 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
48691345 AAAAAATGAT
*
48691355 TTTATTATTAGGGTTTTAGGTG
1 TTTATT-TTAGGGTTTTAGATG
*
48691377 TGTTA-ATTAGGGTTTT-G--G
1 T-TTATTTTAGGGTTTTAGATG
*
48691395 TTTATTTTAGGGTTTTGGAT-
1 TTTATTTTAGGGTTTTAGATG
*
48691415 TTTATTGTTAGGTTTTTAG-TG
1 TTTATT-TTAGGGTTTTAGATG
48691436 TTTA
1 TTTA
48691440 AGGGTTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
17 3 0.06
18 12 0.23
19 1 0.02
20 8 0.15
21 24 0.46
22 1 0.02
23 3 0.06
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (21 bp):
TTTATTTTAGGGTTTTAGATG
Found at i:48692891 original size:16 final size:16
Alignment explanation
Indices: 48692870--48692904 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
48692860 ACTACATAAG
48692870 CATGAACATAACTTAC
1 CATGAACATAACTTAC
48692886 CATGAACATAACTTAC
1 CATGAACATAACTTAC
48692902 CAT
1 CAT
48692905 TTCAACGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
CATGAACATAACTTAC
Found at i:48715124 original size:21 final size:23
Alignment explanation
Indices: 48715100--48715143 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
48715090 AATAAAAAAT
48715100 ATAAATTTT-TTAATT-TTTTTA
1 ATAAATTTTGTTAATTATTTTTA
*
48715121 ATAAATTTTGTTTATTATTTTTA
1 ATAAATTTTGTTAATTATTTTTA
48715144 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
ATAAATTTTGTTAATTATTTTTA
Found at i:48728868 original size:21 final size:22
Alignment explanation
Indices: 48728828--48728868 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
48728818 TCAAACTGAA
48728828 AAAATTTGTTTAATTATTAAAT
1 AAAATTTGTTTAATTATTAAAT
48728850 AAAATATT-TTTAA-TATTAA
1 AAAAT-TTGTTTAATTATTAA
48728869 TATTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 10 0.56
23 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAATTTGTTTAATTATTAAAT
Found at i:48730462 original size:31 final size:31
Alignment explanation
Indices: 48730424--48730489 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
48730414 GACTAGGTAT
**
48730424 CAAATTGAACATTGAAGGCAAACTCAAATAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
* **
48730455 CAAATTGAATATTGAAACCAAACTCAGGTAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
48730486 CAAA
1 CAAA
48730490 ATAATTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (31 bp):
CAAATTGAACATTGAAACCAAACTCAAATAC
Found at i:48730747 original size:2 final size:2
Alignment explanation
Indices: 48730740--48730770 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48730730 TTCTGTAACA
48730740 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
48730771 TATAAGAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:48736422 original size:3 final size:3
Alignment explanation
Indices: 48736414--48736450 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
48736404 TTTAGCAAAT
*
48736414 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48736451 AATTGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48761657 original size:80 final size:79
Alignment explanation
Indices: 48761564--48762011 Score: 350
Period size: 80 Copynumber: 5.4 Consensus size: 79
48761554 ATAGTAATCC
* *
48761564 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTA
48761629 GATCGTATCAGGTCT
66 GATCG-ATCAGGTCT
** *
48761644 TATCTCCCTGAGATTACAGTGGAGCATACCGAAGAAGTGCAGATCTTATCTC-CTTG-AGATTAC
1 TATCTCCCTGAGATTACAGTGGAGC--A--GATTAA-AG--GATCTTATCTCTC-TGAAG-TTAC
* * * *
48761707 AGCGGAGCAGATCAAAGAT-AGTAATCC
57 AGCAGAGTAGATC---GATCAG--GTCT
* * *
48761734 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTA
48761799 GATCGTATCAGGTCT
66 GATCG-ATCAGGTCT
** * *
48761814 TATCTCCCTGAGATTACAGTGGAGCAAACCGAAGAAGTGCAGATCTTATCTCCCTG-AGATTACA
1 TATCTCCCTGAGATTACAGTGGAGC--A--GATTAA-AG--GATCTTATCTCTCTGAAG-TTACA
* *
48761878 G-AGGAGCAGATCAAAGAT-AGTAATCT
58 GCA-GAGTAGATC---GATCAG--GTCT
* * *
48761904 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGATCTTATATCTCTAAAGTTACAGCAGAGTA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTA
*
48761969 GATCGCGTCAGGTCT
66 GATCG-ATCAGGTCT
* * *
48761984 TATTTCCCAGAGATTACAGTGGAACAGA
1 TATCTCCCTGAGATTACAGTGGAGCAGA
48762012 CCGAAGAATT
Statistics
Matches: 291, Mismatches: 41, Indels: 72
0.72 0.10 0.18
Matches are distributed among these distances:
80 81 0.28
81 3 0.01
82 5 0.02
83 52 0.18
84 14 0.05
85 4 0.01
86 14 0.05
87 53 0.18
88 4 0.01
89 4 0.01
90 57 0.20
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (79 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTA
GATCGATCAGGTCT
Found at i:48761749 original size:170 final size:170
Alignment explanation
Indices: 48761469--48762084 Score: 966
Period size: 170 Copynumber: 3.6 Consensus size: 170
48761459 GTTCATTATA
* * *
48761469 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA-AATTACAGATCTGATCT-CCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGATCTTATCTCCCTGAG
* * *
48761532 ATCATAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
48761597 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
* *
48761637 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCATACCGAAGAAGTGCAGATCTTATCTCCTTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGATCTTATCTCCCTGAG
48761702 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
48761767 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
*
48761807 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAAACCGAAGAAGTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGATCTTATCTCCCTGAG
* *
48761872 ATTACAGAGGAGCAGATCAAAGATAGTAATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* * * * **
48761937 GGATCTTATATCTCTAAAGTTACAGCAGAGTAGATCGCGT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
* * * * *
48761977 CAGGTCTTATTTCCCAGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGATCTTATCTCCCTGAG
* ** ** *
48762042 ATTATAGCGGAGCAGATTGAAGCCAGTAATTCTATCTCCCTGA
66 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGA
48762085 CGTTGCGGAG
Statistics
Matches: 414, Mismatches: 32, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
168 39 0.09
169 14 0.03
170 361 0.87
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (170 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAGTGCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
GGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTAT
Found at i:48761751 original size:44 final size:45
Alignment explanation
Indices: 48761473--48762058 Score: 336
Period size: 44 Copynumber: 13.7 Consensus size: 45
48761463 ATTATACAGG
* * *
48761473 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA-AATTACAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGT-CAGA
* * * *
48761518 TCTGATCT-CCTGAGATCATAGCGGAGCAGATCAAAGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-AGTCAGA
* *
48761561 TCCTATCTCCCTGAGATTACAGTGGAGCAGAT--TA-AAG---GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGTCAGA
* * ** * *
48761600 TCTTATCTCTCTGA-AGTTACAGTAGAGTGGATC---GTA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAAGTCAGA
* * *
48761641 TCTTATCTCCCTGAGATTACAGTGGAGCATACCGAAGAAGTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGT-CAGA
* *
48761687 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCAAAGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-AGTCAGA
* * *
48761731 TCCTATCTCCCTGAGATTACAGTGGAGCGGAT--TA-AAG---GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGTCAGA
* * ** * *
48761770 TCTTATCTCTCTGA-AGTTACAGTAGAGTGGATC---GTA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAAGTCAGA
* * *
48761811 TCTTATCTCCCTGAGATTACAGTGGAGCAAACCGAAGAAGTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGT-CAGA
*
48761857 TCTTATCTCCCTGAGATTACAGAGGAGCAGATCAAAGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-AGTCAGA
* *
48761901 TCTTATCTCCCTGAGATTACAGTGGAGCGGAT--TA-AAG---GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGTCAGA
* * * ** * * *
48761940 TCTTATATCTCT-AAAGTTACAGCAGAGTAGATC---G-CGTCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAAGTCAGA
* * * * * *
48761981 TCTTATTTCCCAGAGATTACAGTGGAACAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAA-GTCAGA
* *
48762027 TCTTATCTCCCTGAGATTATAGCGGAGCAGAT
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGAT
48762059 TGAAGCCAGT
Statistics
Matches: 411, Mismatches: 86, Indels: 87
0.70 0.15 0.15
Matches are distributed among these distances:
38 5 0.01
39 78 0.19
40 6 0.01
41 77 0.19
42 7 0.02
43 7 0.02
44 108 0.26
45 12 0.03
46 105 0.26
47 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAGTCAGA
Found at i:48763600 original size:3 final size:3
Alignment explanation
Indices: 48763592--48763631 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
48763582 TTTAGCAATT
*
48763592 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48763632 AATTGTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48769181 original size:20 final size:20
Alignment explanation
Indices: 48769148--48769187 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48769138 TCTCTCCCAA
*
48769148 AGTAATTATGAAAGTAAAAT
1 AGTAATTATAAAAGTAAAAT
* *
48769168 AGTAATTTTAAAAGTCAAAT
1 AGTAATTATAAAAGTAAAAT
48769188 TCAATGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTAATTATAAAAGTAAAAT
Found at i:48774571 original size:31 final size:31
Alignment explanation
Indices: 48774533--48774598 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
48774523 GTCTAGTTAT
* * **
48774533 CAAATTGAGCGTTGAAGGCAAACTCAAGTAC
1 CAAATTGAACATTGAAACCAAACTCAAGTAC
*
48774564 CAAATTGAATATTGAAACCAAACTCAAGTAC
1 CAAATTGAACATTGAAACCAAACTCAAGTAC
48774595 CAAA
1 CAAA
48774599 ATAGTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (31 bp):
CAAATTGAACATTGAAACCAAACTCAAGTAC
Found at i:48777949 original size:15 final size:15
Alignment explanation
Indices: 48777908--48777950 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
48777898 TCATATATGA
48777908 TATTTTAAAATTTAGT
1 TATTTTAAAA-TTAGT
48777924 TATCTTT-AAATTAGT
1 TAT-TTTAAAATTAGT
48777939 TATTTTAAAATT
1 TATTTTAAAATT
48777951 CCTCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 6 0.24
17 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (15 bp):
TATTTTAAAATTAGT
Found at i:48778294 original size:18 final size:18
Alignment explanation
Indices: 48778271--48778305 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48778261 AAGTTCTCCA
*
48778271 TTTTATATATATTACTTT
1 TTTTATATATACTACTTT
48778289 TTTTATATATACTACTT
1 TTTTATATATACTACTT
48778306 ATATAGATTA
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:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATATATACTACTTT
Found at i:48778342 original size:15 final size:13
Alignment explanation
Indices: 48778305--48778334 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
48778295 ATATACTACT
48778305 TATATAG-ATTAA
1 TATATAGTATTAA
48778317 TATATAGTATTAA
1 TATATAGTATTAA
48778330 TATAT
1 TATAT
48778335 TAGTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TATATAGTATTAA
Found at i:48782748 original size:17 final size:17
Alignment explanation
Indices: 48782726--48782763 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
48782716 AGTTATGTTA
48782726 TATGAAAGGTCAAGAGT
1 TATGAAAGGTCAAGAGT
48782743 TATGAAAGGTCAAGAGT
1 TATGAAAGGTCAAGAGT
48782760 TATG
1 TATG
48782764 TTGTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.26
Consensus pattern (17 bp):
TATGAAAGGTCAAGAGT
Found at i:48783809 original size:36 final size:36
Alignment explanation
Indices: 48783760--48783831 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
48783750 CTTAGACCCC
48783760 ATGTGATGATGTGACTACCATGCATTATTCCACATT
1 ATGTGATGATGTGACTACCATGCATTATTCCACATT
*
48783796 ATGTGATGTTGTGACTACCATGCATTATTCCACATT
1 ATGTGATGATGTGACTACCATGCATTATTCCACATT
48783832 TTCAGTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (36 bp):
ATGTGATGATGTGACTACCATGCATTATTCCACATT
Found at i:48786114 original size:31 final size:31
Alignment explanation
Indices: 48786076--48786141 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
48786066 GTTTCAGTAT
*
48786076 CAAATTGAGCATTGAAACCAAACTCAAATAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
* ** *
48786107 CAAATTGAATATTGAAGTCAAACTCAAGTAC
1 CAAATTGAACATTGAAACCAAACTCAAATAC
48786138 CAAA
1 CAAA
48786142 ATACTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (31 bp):
CAAATTGAACATTGAAACCAAACTCAAATAC
Found at i:48793807 original size:3 final size:3
Alignment explanation
Indices: 48793761--48793799 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
48793751 AATTAGGGTT
*
48793761 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48793800 GATAATAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:48794883 original size:17 final size:16
Alignment explanation
Indices: 48794861--48794918 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
48794851 TCTAATTATA
48794861 TATATATTATTTATTTT
1 TATAT-TTATTTATTTT
* **
48794878 TATATATATACATATTT
1 TATATTTATTTAT-TTT
*
48794895 TATATTT-TTTATTAT
1 TATATTTATTTATTTT
48794910 TATATTTAT
1 TATATTTAT
48794919 GCATATATAC
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 9 0.28
16 9 0.28
17 14 0.44
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTTATTTATTTT
Found at i:48794899 original size:32 final size:32
Alignment explanation
Indices: 48794863--48794924 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
48794853 TAATTATATA
*
48794863 TATATTATTTATTTTTATATATATACATATTT
1 TATATTATTTATTATTATATATATACATATTT
* * *
48794895 TATATTTTTTATTATTATATTTATGCATAT
1 TATATTATTTATTATTATATATATACATAT
48794925 ATACGCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (32 bp):
TATATTATTTATTATTATATATATACATATTT
Found at i:48794925 original size:42 final size:40
Alignment explanation
Indices: 48794879--48794966 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
48794869 ATTTATTTTT
* * * *
48794879 ATATATATACATATTTTATATTTTTTATTATTATATTTATGC
1 ATATATACACATATGTT-T-TTTTTTATTATAATATATATGC
* *
48794921 ATATATACGCATATGTTTTTTTTTATTATAATATATATGT
1 ATATATACACATATGTTTTTTTTTATTATAATATATATGC
48794961 ATATAT
1 ATATAT
48794967 TTTAAATGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 25 0.62
41 1 0.03
42 14 0.35
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (40 bp):
ATATATACACATATGTTTTTTTTTATTATAATATATATGC
Found at i:48794927 original size:40 final size:38
Alignment explanation
Indices: 48794865--48794966 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 38
48794855 ATTATATATA
* *
48794865 TATTATTTATTTTTAT-ATATATA-CATATTTTATATTTTT
1 TATTA-TTATATTTATGATATATACCATATGTT-T-TTTTT
48794904 TATTATTATATTTATGCATATATACGCATATGTTTTTTTT
1 TATTATTATATTTATG-ATATATAC-CATATGTTTTTTTT
* *
48794944 TATTATAATATATATGTATATAT
1 TATTATTATATTTATG-ATATAT
48794967 TTTAAATGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 9 0.17
39 5 0.09
40 32 0.59
41 1 0.02
42 7 0.13
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (38 bp):
TATTATTATATTTATGATATATACCATATGTTTTTTTT
Found at i:48797270 original size:14 final size:15
Alignment explanation
Indices: 48797241--48797275 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
48797231 TGGTTTTTTT
*
48797241 TTTTGTTGTTGTTTA
1 TTTTGTTGTGGTTTA
48797256 TTTTGTT-TGGTTTA
1 TTTTGTTGTGGTTTA
48797270 TTTTGT
1 TTTTGT
48797276 GTTTTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.06, C:0.00, G:0.20, T:0.74
Consensus pattern (15 bp):
TTTTGTTGTGGTTTA
Found at i:48803742 original size:18 final size:18
Alignment explanation
Indices: 48803721--48803755 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48803711 GGCCAAGACC
* *
48803721 GAGGTCGAGGTCGAGGTT
1 GAGGTAGAGGTAGAGGTT
48803739 GAGGTAGAGGTAGAGGT
1 GAGGTAGAGGTAGAGGT
48803756 AGATTTTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.51, T:0.20
Consensus pattern (18 bp):
GAGGTAGAGGTAGAGGTT
Found at i:48809445 original size:6 final size:6
Alignment explanation
Indices: 48809436--48809463 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48809426 TTGGGTTGTG
48809436 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
48809464 GTTCGTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:48813626 original size:21 final size:22
Alignment explanation
Indices: 48813587--48813639 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
48813577 TTCTCTTAAA
48813587 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
48813609 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
48813631 CTCTCAAAT
1 CTCTCAAAT
48813640 CCATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:48813704 original size:28 final size:28
Alignment explanation
Indices: 48813673--48813728 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
48813663 TCAATTTCAT
*
48813673 TTTTTTAAGAA-AATTTTAAATATTTTTA
1 TTTTTTAAAAATAATTTT-AATATTTTTA
48813701 TTTTTTAAAAATAATTTTAATATTTTTA
1 TTTTTTAAAAATAATTTTAATATTTTTA
48813729 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTTTAAAAATAATTTTAATATTTTTA
Found at i:48813718 original size:19 final size:21
Alignment explanation
Indices: 48813690--48813729 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
48813680 AGAAAATTTT
*
48813690 AAAT-ATTTTTAT-TTTTTAA
1 AAATAATTTTAATATTTTTAA
48813709 AAATAATTTTAATATTTTTAA
1 AAATAATTTTAATATTTTTAA
48813730 TATTTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATAATTTTAATATTTTTAA
Found at i:48813735 original size:29 final size:28
Alignment explanation
Indices: 48813675--48813735 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
48813665 AATTTCATTT
* *
48813675 TTTTAAGAAAATTTTAAATATTTTTATT
1 TTTTAAAAAAATTTTAAATATTTTTATA
48813703 TTTTAAAAATAATTTT-AATATTTTTAATA
1 TTTTAAAAA-AATTTTAAATATTTTT-ATA
48813732 TTTT
1 TTTT
48813736 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTAAAAAAATTTTAAATATTTTTATA
Found at i:48813848 original size:14 final size:15
Alignment explanation
Indices: 48813819--48813852 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48813809 TAAATTTAAA
48813819 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
48813834 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
48813848 TTTTA
1 TTTTA
48813853 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:48814821 original size:7 final size:7
Alignment explanation
Indices: 48814809--48814847 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
48814799 AGTGGATTGA
48814809 TATTTAG
1 TATTTAG
48814816 TATTTAG
1 TATTTAG
48814823 TATTTAG
1 TATTTAG
48814830 TATTTAG
1 TATTTAG
48814837 TATTTAG
1 TATTTAG
48814844 TATT
1 TATT
48814848 ATGTATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:48817071 original size:23 final size:23
Alignment explanation
Indices: 48817045--48817141 Score: 167
Period size: 23 Copynumber: 4.2 Consensus size: 23
48817035 TGTTATTGAT
48817045 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
**
48817068 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACATAA
48817091 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
*
48817114 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAA
48817137 CAGTG
1 CAGTG
48817142 TTGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:48817097 original size:46 final size:46
Alignment explanation
Indices: 48817043--48817141 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
48817033 AGTGTTATTG
48817043 ATCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACAT
*
48817089 TTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACAT
48817135 ATCAGTG
1 ATCAGTG
48817142 TTGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACAT
Found at i:48818770 original size:29 final size:29
Alignment explanation
Indices: 48818682--48819185 Score: 503
Period size: 29 Copynumber: 17.6 Consensus size: 29
48818672 TTTTGATATT
*
48818682 ATTTGATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48818710 ATTTAATTAAAAACCC-AA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48818737 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48818766 ATTTAATT-AAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48818794 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
48818823 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
48818852 TTTTAATTAAAAACCCTAACCCAACCCTAACCCTA
1 ATTTAATTAAAAACCCT-----AACCCTAA-TTTA
* * *
48818887 GTTTAATTTAATTAAA----AACCCTAACCCTAA
1 ATTTAA-TTAA--AAACCCTAACCCTAA--TTTA
*
48818917 CCCATTTTAATTAAAAACCCTAACCCTAGTTTA
1 ---A-TTTAATTAAAAACCCTAACCCTAATTTA
* **
48818950 ATTTAATT-AAAACCCTAAACCCCAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
48818979 ATTTGATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48819008 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48819037 ATTTAATTAAAAACCCTAACCC--A--T-
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
48819061 -TTTAATTAAAAACCTTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48819089 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
48819118 ATTTAATTAAAAACCCTAACCC--A--T-
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48819142 -TTTAATTAAAAACCCTAACCCTAAACTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48819170 ATTTAATTAAAAACCC
1 ATTTAATTAAAAACCC
48819186 ATTTTAATTA
Statistics
Matches: 409, Mismatches: 30, Indels: 73
0.80 0.06 0.14
Matches are distributed among these distances:
23 41 0.10
25 3 0.01
27 31 0.08
28 60 0.15
29 210 0.51
30 20 0.05
31 3 0.01
33 6 0.01
34 13 0.03
35 15 0.04
36 4 0.01
38 3 0.01
ACGTcount: A:0.43, C:0.24, G:0.01, T:0.32
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:48818864 original size:58 final size:58
Alignment explanation
Indices: 48818682--48819185 Score: 558
Period size: 58 Copynumber: 8.8 Consensus size: 58
48818672 TTTTGATATT
* **
48818682 ATTTGATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCC-AA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
**
48818737 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATT-AAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
*
48818794 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
*
48818852 TTTTAATTAAAAACCCTAACCCAACCCTAACCCTAGTTTAATTTAATTAAAAACCCTAACCCTAA
1 ATTTAATTAAAAACCCT-----AACCCT-A----A-TTTAATTTAATTAAAAACCCTAACCCTAA
*
48818917 CCCA
55 CCTA
* * *
48818921 TTTTAATTAAAAACCCTAACCCTAGTTTAATTTAATT-AAAACCCTAAACCCCAACCTA
1 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCT-AACCCTAACCTA
* * **
48818979 ATTTGATTAAAAACCCTAACCCTAGTTTAATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
* ***
48819037 ATTTAATTAAAAACCCTAACCC--A--T--TTTAATTAAAAACCTTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
**
48819089 ATTTAATT-AAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCC--A--T-
1 ATTTAATTAAAAACCCT-AACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
**
48819142 -TTTAATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCC
1 ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCC
48819186 ATTTTAATTA
Statistics
Matches: 404, Mismatches: 20, Indels: 53
0.85 0.04 0.11
Matches are distributed among these distances:
51 8 0.02
52 73 0.18
53 8 0.02
54 3 0.01
55 25 0.06
56 20 0.05
57 54 0.13
58 140 0.35
59 8 0.02
63 7 0.02
64 7 0.02
68 1 0.00
69 50 0.12
ACGTcount: A:0.43, C:0.24, G:0.01, T:0.32
Consensus pattern (58 bp):
ATTTAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:48818878 original size:40 final size:41
Alignment explanation
Indices: 48818834--48818919 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 41
48818824 TTTAATTAAA
*
48818834 AACCCTAACCCTAACCCATTTTAATTAAAAACCCTAACCC-
1 AACCCTAACCCTAACCCAATTTAATTAAAAACCCTAACCCT
****
48818874 AACCCTAACCCTAGTTTAATTTAATTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCCAATTTAATTAAAAACCCTAACCCT
48818915 AACCC
1 AACCC
48818920 ATTTTAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.40, C:0.35, G:0.01, T:0.24
Consensus pattern (41 bp):
AACCCTAACCCTAACCCAATTTAATTAAAAACCCTAACCCT
Found at i:48819381 original size:25 final size:25
Alignment explanation
Indices: 48819353--48819407 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
48819343 ATAAAATGTA
48819353 ATTGCATCTAAAATTACATTCAACT
1 ATTGCATCTAAAATTACATTCAACT
48819378 ATTGCATCTAAAATTACATTCAACT
1 ATTGCATCTAAAATTACATTCAACT
48819403 ATTGC
1 ATTGC
48819408 GATTAGGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.36
Consensus pattern (25 bp):
ATTGCATCTAAAATTACATTCAACT
Found at i:48822602 original size:125 final size:126
Alignment explanation
Indices: 48822380--48822655 Score: 407
Period size: 125 Copynumber: 2.2 Consensus size: 126
48822370 CCACGAGGGC
* * *
48822380 GCGATTTGACACTATTTGCTCAG-AAACGCTAAAAAATAATTATTTCCTACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGCTAAAAAATAATTATTTCCTACATGACCAACTGTAC
* * **
48822444 CGAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCA
66 CGAAATCACGTCCACGAGGGCACGATTTCACAATTTCTTCTC-TGATAGCATCCTGGTAGAA
*
48822505 GCGATTTTATACTATTTGCTCAGAAAACG-TCAAAAAA-AATTATTTCTTACATGACCAACTGTA
1 GCGATTTTATACTATTTGCTCAGAAAACGCT-AAAAAATAATTATTTCCTACATGACCAACTGTA
*
48822568 CCGAAATCACGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCTTGGTAGAA
65 CCGAAATCACGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
* *
48822630 GCAATTTTATACTATTTGATCAGAAA
1 GCGATTTTATACTATTTGCTCAGAAA
48822656 TGTCAACTCG
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
124 1 0.01
125 125 0.91
126 11 0.08
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAAACGCTAAAAAATAATTATTTCCTACATGACCAACTGTAC
CGAAATCACGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
Found at i:48833299 original size:12 final size:12
Alignment explanation
Indices: 48833282--48833306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48833272 GATGTTTTCC
48833282 AATTAAGCACTA
1 AATTAAGCACTA
48833294 AATTAAGCACTA
1 AATTAAGCACTA
48833306 A
1 A
48833307 CACAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AATTAAGCACTA
Found at i:48845308 original size:37 final size:37
Alignment explanation
Indices: 48845171--48845301 Score: 165
Period size: 37 Copynumber: 3.5 Consensus size: 37
48845161 GGCGGATGTA
* * * *
48845171 TAGCTCATATGATCATTTGACGTGTTTTTGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCATGTTTTTGGTTGGAT
* *
48845208 TAACTCTTATGAGCATTTGGCATGTTATCT-GTTGGAT
1 TAGCTCTTATGAGCATTTGGCATGTT-TTTGGTTGGAT
** *
48845245 TAGCTCTTCGGAGCACTTGGCATGTTTTTGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCATGTTTTTGGTTGGAT
48845282 TAGCTCTTATGAGCATTTGG
1 TAGCTCTTATGAGCATTTGG
48845302 TGTGTTTCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
36 2 0.03
37 74 0.95
38 2 0.03
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (37 bp):
TAGCTCTTATGAGCATTTGGCATGTTTTTGGTTGGAT
Found at i:48850708 original size:19 final size:18
Alignment explanation
Indices: 48850681--48850716 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
48850671 AGTAATGATA
48850681 TTAAAAATATATAAATATT
1 TTAAAAATATA-AAATATT
*
48850700 TTAATAATATAAAATAT
1 TTAAAAATATAAAATAT
48850717 AAAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAAATATAAAATATT
Found at i:48851187 original size:17 final size:17
Alignment explanation
Indices: 48851162--48851195 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48851152 TTTAACTAAT
48851162 ATTAAATTAAATTATAA
1 ATTAAATTAAATTATAA
* *
48851179 ATTACATTATATTATAA
1 ATTAAATTAAATTATAA
48851196 TATAATCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAATTAAATTATAA
Found at i:48858543 original size:21 final size:19
Alignment explanation
Indices: 48858495--48858543 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
48858485 TACAAACTCT
48858495 TAAA-TAAAACCAGAATTA
1 TAAATTAAAACCAGAATTA
* *
48858513 TAAATAAAAACCATAGATTA
1 TAAATTAAAACCAGA-ATTA
48858533 CTAAATTAAAA
1 -TAAATTAAAA
48858544 TAGTTCTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 8 0.32
20 4 0.16
21 9 0.36
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.24
Consensus pattern (19 bp):
TAAATTAAAACCAGAATTA
Found at i:48859047 original size:17 final size:17
Alignment explanation
Indices: 48859025--48859059 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48859015 TTACATGCTC
48859025 ATATACAGATATCAAAT
1 ATATACAGATATCAAAT
*
48859042 ATATACATATATCAAAT
1 ATATACAGATATCAAAT
48859059 A
1 A
48859060 AATCAGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (17 bp):
ATATACAGATATCAAAT
Found at i:48859278 original size:17 final size:17
Alignment explanation
Indices: 48859214--48859278 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
48859204 CAGAATTGTG
* *
48859214 GGCCCACATGCCAATGT
1 GGCCCACACGCCCATGT
* * **
48859231 AGCCCACATGCCTGTGT
1 GGCCCACACGCCCATGT
* *
48859248 GGCCCAGACTCCCATGT
1 GGCCCACACGCCCATGT
48859265 GGCCCACACGCCCA
1 GGCCCACACGCCCA
48859279 ACTTGGCCTA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.20, C:0.42, G:0.23, T:0.15
Consensus pattern (17 bp):
GGCCCACACGCCCATGT
Found at i:48864043 original size:22 final size:22
Alignment explanation
Indices: 48863997--48864045 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48863987 TACAGGTTGT
*
48863997 TGTCTTAAGACAAAAGCCTGCA
1 TGTCTTAAGACAAAAGCCTACA
* *
48864019 TGTCTTAAGATAAAAGCCTATA
1 TGTCTTAAGACAAAAGCCTACA
48864041 TGTCT
1 TGTCT
48864046 CGATACATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (22 bp):
TGTCTTAAGACAAAAGCCTACA
Found at i:48865741 original size:30 final size:30
Alignment explanation
Indices: 48865699--48865759 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
48865689 GCCCAGACGT
48865699 GTAACCTCGATATAATGTCAGCTTGTGTGA
1 GTAACCTCGATATAATGTCAGCTTGTGTGA
*
48865729 GTAACC-CTGATATATTGTCAGCTTGTGTGA
1 GTAACCTC-GATATAATGTCAGCTTGTGTGA
48865759 G
1 G
48865760 CAACGTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (30 bp):
GTAACCTCGATATAATGTCAGCTTGTGTGA
Found at i:48868080 original size:18 final size:17
Alignment explanation
Indices: 48868047--48868085 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48868037 TTTTATAAAT
48868047 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
48868065 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
48868082 TGTG
1 TGTG
48868086 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:48868409 original size:23 final size:23
Alignment explanation
Indices: 48868312--48868402 Score: 155
Period size: 23 Copynumber: 4.0 Consensus size: 23
48868302 GTGTTATTGA
48868312 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
48868335 TCAGCGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
48868358 TCAGTGGTAGCTACGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
48868381 TCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
48868403 ATTAGTGTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:48870085 original size:26 final size:26
Alignment explanation
Indices: 48870049--48870111 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
48870039 TTCAATCCCT
48870049 ATTTTACCCCTAACAAAATTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
*** *
48870075 ATTTTACCCCTTGTAAATTTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
*
48870101 ATTTTGCCCCT
1 ATTTTACCCCT
48870112 GGTAAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAACAAAATTTTGACG
Found at i:48870116 original size:26 final size:26
Alignment explanation
Indices: 48870063--48870134 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
48870053 TACCCCTAAC
* *
48870063 AAAATTTTGACGATTTTACCCCTTGT
1 AAAATTTTGACGATTTTGCCCCTGGT
*
48870089 AAATTTTTGACGATTTTGCCCCTGGT
1 AAAATTTTGACGATTTTGCCCCTGGT
* *
48870115 AAAATTTTAATGATTTTGCC
1 AAAATTTTGACGATTTTGCC
48870135 TTAATAAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (26 bp):
AAAATTTTGACGATTTTGCCCCTGGT
Found at i:48876831 original size:5 final size:5
Alignment explanation
Indices: 48876818--48876864 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
48876808 TGAAGTTTTC
* *
48876818 TCGAA TCGAG TCGAA T-GAGA TGGAAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGA-A TCG-AA TCGAA TCGAA TCGAA TCGAA T
48876865 ATATTTGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 29 0.81
6 4 0.11
7 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (5 bp):
TCGAA
Found at i:48882149 original size:19 final size:19
Alignment explanation
Indices: 48882127--48882176 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
48882117 TTATTTTTAA
* *
48882127 TAATTTTTTTACAAATTTT
1 TAATTTTTTTAAAAAGTTT
*
48882146 TAATTATTTTAAAAAAGTTT
1 TAATT-TTTTTAAAAAGTTT
*
48882166 AAATTTTTTTA
1 TAATTTTTTTA
48882177 TAATTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TAATTTTTTTAAAAAGTTT
Found at i:48892369 original size:21 final size:20
Alignment explanation
Indices: 48892345--48892387 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
48892335 AAAACCGTAG
48892345 AAATTGTAATTCCT-AGAAAAT
1 AAATT-TAATT-CTAAGAAAAT
*
48892366 AAATTTTATTCTAAGAAAAT
1 AAATTTAATTCTAAGAAAAT
48892386 AA
1 AA
48892388 TTTCCACTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.65
21 5 0.25
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (20 bp):
AAATTTAATTCTAAGAAAAT
Found at i:48892780 original size:17 final size:16
Alignment explanation
Indices: 48892760--48892793 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48892750 TTAATTTAAT
48892760 TAATCAAATTAATTTTC
1 TAATCAAA-TAATTTTC
*
48892777 TAATTAAATAATTTTC
1 TAATCAAATAATTTTC
48892793 T
1 T
48892794 CAACCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATCAAATAATTTTC
Found at i:48893881 original size:31 final size:31
Alignment explanation
Indices: 48893816--48893874 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
48893806 ACACAGAATG
*
48893816 TTAGTCTTTCAATCGACTTGCTCATTTTCGA
1 TTAGTCTTTCAATCGACTTGCCCATTTTCGA
48893847 TTAGTCTTTCAATCGACTTGCCCATTTT
1 TTAGTCTTTCAATCGACTTGCCCATTTT
48893875 TTATTAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.46
Consensus pattern (31 bp):
TTAGTCTTTCAATCGACTTGCCCATTTTCGA
Found at i:48897300 original size:18 final size:18
Alignment explanation
Indices: 48897255--48897293 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
48897245 TATAGAAATT
48897255 TTTAAATAATACTAAGTC
1 TTTAAATAATACTAAGTC
48897273 TTTAAATAATACTAAGTC
1 TTTAAATAATACTAAGTC
48897291 TTT
1 TTT
48897294 TAGTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTAAATAATACTAAGTC
Found at i:48901183 original size:7 final size:7
Alignment explanation
Indices: 48901155--48901203 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
48901145 TCCAATCTTA
48901155 TTTCAAT
1 TTTCAAT
*
48901162 CTTCAAAT
1 TTTC-AAT
48901170 TTT-AAT
1 TTTCAAT
48901176 TTTCAAT
1 TTTCAAT
48901183 TTTCAA-
1 TTTCAAT
48901189 TTTCGAAT
1 TTTC-AAT
48901197 TTTCAAT
1 TTTCAAT
48901204 CCTCAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 10 0.28
7 17 0.47
8 9 0.25
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (7 bp):
TTTCAAT
Found at i:48901210 original size:21 final size:20
Alignment explanation
Indices: 48901155--48901211 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
48901145 TCCAATCTTA
*
48901155 TTTCAATCTTCAAATTTTAAT
1 TTTCAATCTTC-AATTTGAAT
*
48901176 TTTCAATTTTCAATTTCGAAT
1 TTTCAATCTTCAATTT-GAAT
*
48901197 TTTCAATCCTCAATT
1 TTTCAATCTTCAATT
48901212 ATTTTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTCAATCTTCAATTTGAAT
Found at i:48901211 original size:14 final size:15
Alignment explanation
Indices: 48901155--48901209 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 15
48901145 TCCAATCTTA
48901155 TTTCAATCTTCAAAT
1 TTTCAATCTTCAAAT
*
48901170 TTT-AATTTTC-AAT
1 TTTCAATCTTCAAAT
*
48901183 TTTCAAT-TTCGAAT
1 TTTCAATCTTCAAAT
*
48901197 TTTCAATCCTCAA
1 TTTCAATCTTCAA
48901210 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 19 0.56
15 6 0.18
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTCAATCTTCAAAT
Found at i:48901388 original size:24 final size:24
Alignment explanation
Indices: 48901361--48901407 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48901351 GTTATTTTAA
48901361 TTTA-AATAGTTAATTATTATGTTG
1 TTTAGAATA-TTAATTATTATGTTG
* *
48901385 TTTAGATTATTAATTTTTATGTT
1 TTTAGAATATTAATTATTATGTT
48901408 TATATACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (24 bp):
TTTAGAATATTAATTATTATGTTG
Found at i:48911631 original size:276 final size:276
Alignment explanation
Indices: 48910939--48912912 Score: 1371
Period size: 276 Copynumber: 7.2 Consensus size: 276
48910929 GGTATGTCGA
* * *
48910939 TTTAAGATCGCAACCTCCAAAACAACTAG-AGAACCTACATTCTCAGCTGATACTCTAAAGGCTT
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCAG-ACCTACATTCCCAGCTGATACTCTAAAGGCTC
* * * * * ** *
48911003 ATC-AGTTTATGATCGTAACCTCCGACATAGCTAGCGAACCTATGCTCCCAGTTGATATCATAAA
65 ACCGA-TTTATGATCGCAACCTCCAACACAGCTAGCGAACCTATGCTCCCAATCAATGTCATAAA
* * * * * ** * * * * * *
48911067 AGTTTTCTGATTTGAGATCGCAACCTCCGGAACAGCTACCAAACATACATTTCCAACTGATACTG
129 GGTTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACATTCCCAACTGATACTC
* * * * * * *
48911132 TAAAGGCTCGTCAATTTATAATCCCAGCCTCCAACACAACTAGTGAACCTACGCTCCCAACTGAT
194 TAAAGGCTCGTCAGTTTATAATCGCAGCCTCTAACACAGCTAGCGGACCTACGCTCCCAGCTGAT
48911197 GTCATAAAGGTTTGCCA-
259 GTCATAAAGGTTTGCCAG
* * * * * * * *
48911214 ATTAAGATAGCAAACTCCAAAATAGCTAGC-GAACCAACATTTCCAGCCGATACTCCAAAGGCTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCAG-ACCTACATTCCCAGCTGATACTCTAAAGGCTC
* * * * * * *
48911278 ATCGGTTTATGATCGCAGCCTCCAACACAGCTAGTGAACCTATGCTTCCAA-CTGATGTCAAAAA
65 ACCGATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTATGCTCCCAATC-AATGTCATAAA
** * * * *** *
48911342 GGTAGGTCGGTTTAAGATTGTAACCTTTGAAATAGCTAGCAGACCTACATTCCCAATTGATACTC
129 GGTTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACATTCCCAACTGATACTC
* * * * * *
48911407 TAAAGGCTCGTCGGTTTATAATCACAGCCTCTAACATAGCTAGTGGACCTATGGTCCCAGCTGAT
194 TAAAGGCTCGTCAGTTTATAATCGCAGCCTCTAACACAGCTAGCGGACCTACGCTCCCAGCTGAT
*
48911472 GTCATAGAGGTTTGCCAG
259 GTCATAAAGGTTTGCCAG
* * * *
48911490 TTTAAGATCGCAACCTCCAAAATAGTTAGCAGACCTACGTTCCCAGCTAATACTCTAAAGGCTCA
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCAGACCTACATTCCCAGCTGATACTCTAAAGGCTCA
* * * ** * *
48911555 CCGATTTATGATC-CTAGCCTCTAACATAGCTAGCGAACCTACACTTCCAATCAATGTTATAAAG
66 CCGATTTATGATCGC-AACCTCCAACACAGCTAGCGAACCTATGCTCCCAATCAATGTCATAAAG
* * ** ** *
48911619 GTTTACCGGTTTAAGATCGCAACCTCCAAAATAGCTAAC-GAACCTATGTT-TTAAGTTGATACT
130 GTTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAG-ACCTACATTCCCAA-CTGATACT
* * * * * ** **
48911682 TTAAAGGCTC-ACTAGTTTATGATTGCAACCTCTGGCACAGCTAATGGACCTACGCTCCCAGCTG
193 CTAAAGGCTCGTC-AGTTTATAATCGCAGCCTCTAACACAGCTAGCGGACCTACGCTCCCAGCTG
* * *
48911746 ATGTCATAAAAGTTTGGCGG
257 ATGTCATAAAGGTTTGCCAG
** * * * *
48911766 TTTAAGATCGCAACCTCCAAAACAGCTAGTGGTCCTACGTTCCGAACTGATA-TGCTAAAGGCTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCAGACCTACATTCCCAGCTGATACT-CTAAAGGCTC
* * * * * * * *
48911830 ACCGATTTATGATCACAACCTTCAACACAACTAACAAACCTATGCT-CCTAGCAGACGTCATAAA
65 ACCGATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTATGCTCCCAATCA-ATGTCATAAA
* * * * ** * * *
48911894 GCTTTGCTGATTTAAGATCGCAACCTCCAAAATAGCTAGCAGTCCTATGTTCCGAGCCGATACTC
129 GGTTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACATTCCCAACTGATACTC
** * * * * * **
48911959 TAAAGGCTCACCAGTTTATGATCGGAGCCTCTGACACAACTAGCGGAACTACGCTCCCAAATGAT
194 TAAAGGCTCGTCAGTTTATAATCGCAGCCTCTAACACAGCTAGCGGACCTACGCTCCCAGCTGAT
*
48912024 GTCATAAAGGTTTGTCAG
259 GTCATAAAGGTTTGCCAG
* * * * * ** * * *
48912042 TTTAAGATTGCAACCTTCAAAACAGTTAGCAGACCCACTTTCCTTGTTGATAATCTAAAGGCTCG
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCAGACCTACATTCCCAGCTGATACTCTAAAGGCTCA
* * * *
48912107 TCGGTTTATGATCGCAACCTCCAACACAGCTAGCGGACCTATGCTCCCAA-CTAATGTCATGAAG
66 CCGATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTATGCTCCCAATC-AATGTCATAAAG
*** ** * * * * * * *
48912171 GTTTGTTAGTTTAAGATCATAACCTCCGAAACAACTACCAGACTTACATTCCCAGCTGATACTTT
130 GTTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACATTCCCAACTGATACTCT
* * ** * * * * *
48912236 AAA-GCTTGTC-GATTTATAATCGCAGCATCTAACATGGCTAGCGAAACTACGCTCCTAGTTAAT
195 AAAGGCTCGTCAG-TTTATAATCGCAGCCTCTAACACAGCTAGCGGACCTACGCTCCCAGCTGAT
* * ***
48912299 ATCATAAAAGTTT-TTTG
259 GTCATAAAGGTTTGCCAG
* * * * ** * *
48912316 ATTTAAGATTGTAACCTCTAAAATAGCTAGTGGACCTTCATTCCCAGCTGATTA-TCTAAGGGCT
1 -TTTAAGATCGCAACCTCCAAAACAGCTAGCAGACCTACATTCCCAGCTGA-TACTCTAAAGGCT
* * ** * * ** **
48912380 CACCGGTTTAGGATCATAGCCTCCAACATAGCTAGAAAACCTATGCTCCCAATTGATGTCATAAA
64 CACCGATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTATGCTCCCAATCAATGTCATAAA
* * * * ** ** *
48912445 GGTTTACCAGTTTAAAATCGCAACCTCCAAAATAACTAGTGGACCTATGTTCCCAGCTGATACTC
129 GGTTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACATTCCCAACTGATACTC
** * * * * * * * *
48912510 TAAAGGCTCACCAGTTTATTATCGCAACCTCCAACATAGCTAACAGACCTCTACACTCCTAGCTG
194 TAAAGGCTCGTCAGTTTATAATCGCAGCCTCTAACACAGCTAGCGGA-C-CTACGCTCCCAGCTG
** * * *
48912575 AAATCATAAATGTTTTCTAG
257 ATGTCATAAAGGTTTGCCAG
* * * * *
48912595 TTTAAGATCGTAACCTCCAAAACAACTAGC-GATCCTACGTTCCCAGCTGATACTCAAAAGGCTT
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCAGA-CCTACATTCCCAGCTGATACTCTAAAGGCTC
* * ** * * * * * * * *
48912659 GCTGATTTATGATTACAACCTCTAATACAACTTGTGTACCTATACTCCCAA-CGGATGTCATAAA
65 ACCGATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTATGCTCCCAATC-AATGTCATAAA
** * * * * * * *
48912723 GGTTTTTCGATTTAAGATCGTAAACTCCAAAATAACTAGC-GAGCCTACGTTCCTAACTAATACT
129 GGTTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAGA-CCTACATTCCCAACTGATACT
** * * ** * * * *
48912787 CTAAAGGCTCACCAATTTATGATCATAACCT-TCAACACAGCTAGTGGACCTACGCTCCTAACTG
193 CTAAAGGCTCGTCAGTTTATAATCGCAGCCTCT-AACACAGCTAGCGGACCTACGCTCCCAGCTG
* *
48912851 ATGTCATAAACGTTTAG-CGG
257 ATGTCATAAAGGTTT-GCCAG
* * **
48912871 TTTAAGATTGCAACCTCCAAAACAACTAGTGGACCTACATTC
1 TTTAAGATCGCAACCTCCAAAACAGCTAGCAGACCTACATTC
48912913 ACAATTGACA
Statistics
Matches: 1332, Mismatches: 332, Indels: 69
0.77 0.19 0.04
Matches are distributed among these distances:
274 3 0.00
275 435 0.33
276 665 0.50
277 21 0.02
278 206 0.15
279 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (276 bp):
TTTAAGATCGCAACCTCCAAAACAGCTAGCAGACCTACATTCCCAGCTGATACTCTAAAGGCTCA
CCGATTTATGATCGCAACCTCCAACACAGCTAGCGAACCTATGCTCCCAATCAATGTCATAAAGG
TTTGCCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCAGACCTACATTCCCAACTGATACTCTA
AAGGCTCGTCAGTTTATAATCGCAGCCTCTAACACAGCTAGCGGACCTACGCTCCCAGCTGATGT
CATAAAGGTTTGCCAG
Found at i:48911661 original size:69 final size:69
Alignment explanation
Indices: 48911465--48911664 Score: 172
Period size: 69 Copynumber: 2.9 Consensus size: 69
48911455 CTATGGTCCC
* * * * * * *
48911465 AGCTGATGTCATAGAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAATAGTTAGC-AGACCTACG
1 AGCTAATGTTATAAAGGTTTACCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGA-ACCTACC
*
48911529 TTCCC
65 TTCCA
** * * * * * * * *
48911534 AGCTAATACTCTAAAGGCTCACCGATTTATGATC-CTAGCCTCTAACATAGCTAGCGAACCTACA
1 AGCTAATGTTATAAAGGTTTACCGGTTTAAGATCGC-AACCTCCAAAATAGCTAGCGAACCTAC-
48911598 CTTCCA
64 CTTCCA
* *
48911604 ATC-AATGTTATAAAGGTTTACCGGTTTAAGATCGCAACCTCCAAAATAGCTAACGAACCTA
1 AGCTAATGTTATAAAGGTTTACCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAACCTA
48911665 TGTTTTAAGT
Statistics
Matches: 97, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
68 1 0.01
69 88 0.91
70 8 0.08
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (69 bp):
AGCTAATGTTATAAAGGTTTACCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAACCTACCT
TCCA
Found at i:48912559 original size:69 final size:67
Alignment explanation
Indices: 48912356--48912559 Score: 174
Period size: 69 Copynumber: 3.0 Consensus size: 67
48912346 TGGACCTTCA
* * ** ** * *
48912356 TTCCCAGCTGATTATCTAAGGGCTCACCGGTTTAGGATCATAGCCTCCAACATAGCTAGAAAACC
1 TTCCCAGCTGA-TATCTAAAGGCTCACCAGTTTAAAATCGCAACCTCCAACATAGCTA-AAGACC
48912421 TATG
64 TATG
* ** * * * * * **
48912425 CTCCCAATTGATGTCATAAAGGTTTACCAGTTTAAAATCGCAACCTCCAAAATAACTAGTGGACC
1 TTCCCAGCTGATATC-TAAAGGCTCACCAGTTTAAAATCGCAACCTCCAACATAGCTA-AAGACC
48912490 TATG
64 TATG
**
48912494 TTCCCAGCTGATACTCTAAAGGCTCACCAGTTTATTATCGCAACCTCCAACATAGCTAACAGACC
1 TTCCCAGCTGATA-TCTAAAGGCTCACCAGTTTAAAATCGCAACCTCCAACATAGCTAA-AGACC
48912559 T
64 T
48912560 CTACACTCCT
Statistics
Matches: 102, Mismatches: 30, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
68 3 0.03
69 97 0.95
70 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (67 bp):
TTCCCAGCTGATATCTAAAGGCTCACCAGTTTAAAATCGCAACCTCCAACATAGCTAAAGACCTA
TG
Found at i:48912899 original size:138 final size:138
Alignment explanation
Indices: 48910924--48912892 Score: 1200
Period size: 138 Copynumber: 14.3 Consensus size: 138
48910914 TTGGTATAAT
* * * * * * *
48910924 ATAAAGGTATGTCGATTTAAGATCGCAACCTCCAAAACAACTAGAGA-ACCTACATTCTCAGCTG
1 ATAAAGGTTTG-CGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* * * * * * * *
48910988 ATACTCTAAAGGCTTATCAGTTTATGATCGTAACCTCCGACATAGCTAGCGAACCTATGCTCCCA
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCA
** *
48911053 GTTGATATC
130 ACTGATGTC
* * * * ** * * * * * * *
48911062 ATAAAAGTTTTCTGATTTGAGATCGCAACCTCCGGAACAGCTA-CCAAACATACATTTCCAACTG
1 ATAAAGGTTTGC-GGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* ** ** * * * * * *
48911126 ATACTGTAAAGGCTCGTCAATTTATAATCCCAGCCTCCAACACAACTAGTGAACCTACGCTCCCA
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCA
48911191 ACTGATGTC
130 ACTGATGTC
*** * * * * * *
48911200 ATAAAGGTTTGCCAATTAAGATAGCAAACTCCAAAATAGCTAGCGA-ACCAACATTTCCAGCCGA
1 ATAAAGGTTTGCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTGA
* * * * * * *
48911264 TACTCCAAAGGCTCATCGGTTTATGATCGCAGCCTCCAACACAGCTAGTGAACCTATGCTTCCAA
66 TACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAA
48911329 CTGATGTC
131 CTGATGTC
* ** * * *** * **
48911337 AAAAAGGTAGGTCGGTTTAAGATTGTAACCTTTGAAATAGCTAGC-AGACCTACATTCCCAATTG
1 ATAAAGGTTTG-CGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
** * * * * * * * *
48911401 ATACTCTAAAGGCTCGTCGGTTTATAATCACAGCC-TCTAACATAGCTAGTGGACCTATGGTCCC
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTC-AACACAGCTAGCGAACCTACGCTCCC
*
48911465 AGCTGATGTC
129 AACTGATGTC
* * * *
48911475 ATAGAGGTTTGCCAGTTTAAGATCGCAACCTCCAAAATAGTTAGC-AGACCTACGTTCCCAGCTA
1 ATAAAGGTTTG-CGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* * * * *
48911539 ATACTCTAAAGGCTCACCGATTTATGATC-CTAGCC-TCTAACATAGCTAGCGAACCTACACTTC
65 ATACTCTAAAGGCTCACCGGTTTATGATCGC-AACCTTC-AACACAGCTAGCGAACCTACGCTCC
* *
48911602 CAA-TCAATGTT
128 CAACT-GATGTC
* * * *** *
48911613 ATAAAGGTTTACCGGTTTAAGATCGCAACCTCCAAAATAGCTAACGA-ACCTATGTTTTAAGTTG
1 ATAAAGGTTT-GCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* ** * ** ** *
48911677 ATACTTTAAAGGCTCACTAGTTTATGATTGCAACC-TCTGGCACAGCTAATGGACCTACGCTCCC
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTC-AACACAGCTAGCGAACCTACGCTCCC
*
48911741 AGCTGATGTC
129 AACTGATGTC
* * * * * *
48911751 ATAAAAGTTTGGCGGTTTAAGATCGCAACCTCCAAAACAGCTAGTG-GTCCTACGTTCCGAACTG
1 ATAAAGGTTT-GCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* * * * * * *
48911815 ATA-TGCTAAAGGCTCACCGATTTATGATCACAACCTTCAACACAACTAACAAACCTATGCTCCT
65 ATACT-CTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCC
* * *
48911879 AGCAGACGTC
129 AACTGATGTC
* * * * * *
48911889 ATAAAGCTTTGCTGATTTAAGATCGCAACCTCCAAAATAGCTAGC-AGTCCTATGTTCCGAGCCG
1 ATAAAGGTTTGC-GGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* * * * *
48911953 ATACTCTAAAGGCTCACCAGTTTATGATCGGAGCC-TCTGACACAACTAGCGGAA-CTACGCTCC
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTC-AACACAGCTAGC-GAACCTACGCTCC
*
48912016 CAAATGATGTC
128 CAACTGATGTC
* * * * * * * ** *
48912027 ATAAAGGTTTGTCAGTTTAAGATTGCAACCTTCAAAACAGTTAGC-AGACCCACTTTCCTTGTTG
1 ATAAAGGTTTG-CGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* ** * * *
48912091 ATAATCTAAAGGCTCGTCGGTTTATGATCGCAACCTCCAACACAGCTAGCGGACCTATGCTCCCA
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCA
*
48912156 ACTAATGTC
130 ACTGATGTC
* ** ** * * * * * *
48912165 ATGAAGGTTTGTTAGTTTAAGATCATAACCTCCGAAACAACTA-CCAGACTTACATTCCCAGCTG
1 ATAAAGGTTTG-CGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* *** * * * * ** * *
48912229 ATACTTTAAA-GCTTGTCGATTTATAATCGC-AGCATCTAACATGGCTAGCGAAACTACGCTCCT
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTC-AACACAGCTAGCGAACCTACGCTCCC
** * *
48912292 AGTTAATATC
129 AACTGATGTC
* ** * * * * * * *
48912302 ATAAAAGTTTTTTGATTTAAGATTGTAACCTCTAAAATAGCTAGTG-GACCTTCATTCCCAGCTG
1 AT-AAAGGTTTGCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* * ** * * * ** *
48912366 ATTA-TCTAAGGGCTCACCGGTTTAGGATCATAGCCTCCAACATAGCTAGAAAACCTATGCTCCC
65 A-TACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCC
*
48912430 AATTGATGTC
129 AACTGATGTC
* * * * * *
48912440 ATAAAGGTTTACCAGTTTAAAATCGCAACCTCCAAAATAACTAGTG-GACCTATGTTCCCAGCTG
1 ATAAAGGTTT-GCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* * * * * * *
48912504 ATACTCTAAAGGCTCACCAGTTTATTATCGCAACCTCCAACATAGCTAACAGACCTCTACACTCC
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGC-GAAC-CTACGCTCC
* * **
48912569 TAGCTGAAATC
128 CAACTGATGTC
* * * * * * *
48912580 ATAAATGTTTTCTAGTTTAAGATCGTAACCTCCAAAACAACTAGCGA-TCCTACGTTCCCAGCTG
1 ATAAAGGTTTGC-GGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
* ** * * ** * * * * * **
48912644 ATACTCAAAAGGCTTGCTGATTTATGATTACAACC-TCTAATACAACTTGTGTACCTATACTCCC
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTC-AACACAGCTAGCGAACCTACGCTCCC
*
48912708 AACGGATGTC
129 AACTGATGTC
* * * * * * * *
48912718 ATAAAGGTTTTTCGATTTAAGATCGTAAACTCCAAAATAACTAGCGAG-CCTACGTTCCTAACTA
1 ATAAAGG-TTTGCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTG
** ** * * *
48912782 ATACTCTAAAGGCTCACCAATTTATGATCATAACCTTCAACACAGCTAGTGGACCTACGCTCCTA
65 ATACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCA
48912847 ACTGATGTC
130 ACTGATGTC
* *
48912856 ATAAACGTTTAGCGGTTTAAGATTGCAACCTCCAAAA
1 ATAAAGGTTT-GCGGTTTAAGATCGCAACCTCCAAAA
48912893 CAACTAGTGG
Statistics
Matches: 1411, Mismatches: 379, Indels: 82
0.75 0.20 0.04
Matches are distributed among these distances:
136 3 0.00
137 223 0.16
138 1062 0.75
139 25 0.02
140 98 0.07
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (138 bp):
ATAAAGGTTTGCGGTTTAAGATCGCAACCTCCAAAATAGCTAGCGAGACCTACGTTCCCAGCTGA
TACTCTAAAGGCTCACCGGTTTATGATCGCAACCTTCAACACAGCTAGCGAACCTACGCTCCCAA
CTGATGTC
Found at i:48916341 original size:21 final size:21
Alignment explanation
Indices: 48916311--48916365 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
48916301 AAAACTGGAA
* *
48916311 ACACGACCGTGTGGCTACCCC
1 ACACGCCCGTGTGACTACCCC
*
48916332 ACACGCCCGTGTGACTACTCC
1 ACACGCCCGTGTGACTACCCC
*
48916353 ACACACCCGTGTG
1 ACACGCCCGTGTG
48916366 CTCAGACTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.42, G:0.22, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGACTACCCC
Found at i:48917492 original size:13 final size:13
Alignment explanation
Indices: 48917454--48917496 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
48917444 ATATCTATAC
*
48917454 TCATAAAAACATT
1 TCATATAAACATT
* *
48917467 TCGTATAACCATT
1 TCATATAAACATT
*
48917480 TCATCTAAACATT
1 TCATATAAACATT
48917493 TCAT
1 TCAT
48917497 TCTACCATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (13 bp):
TCATATAAACATT
Found at i:48917495 original size:53 final size:52
Alignment explanation
Indices: 48917389--48917496 Score: 128
Period size: 53 Copynumber: 2.1 Consensus size: 52
48917379 CCTTTTTTTA
* * * * *
48917389 CATATTCTATATTCCTAAAAATATTTCGTATAAACACTTCATCTATCTGTTT
1 CATATTCTATACTCATAAAAACATTTCGTATAAACACTTCATCTAACTATTT
* *
48917441 CATATATCTATACTCATAAAAACATTTCGTATAACCATTTCATCTAAAC-ATTT
1 CATAT-TCTATACTCATAAAAACATTTCGTATAAACACTTCATCT-AACTATTT
48917494 CAT
1 CAT
48917497 TCTACCATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
52 5 0.11
53 40 0.85
54 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (52 bp):
CATATTCTATACTCATAAAAACATTTCGTATAAACACTTCATCTAACTATTT
Found at i:48918496 original size:13 final size:13
Alignment explanation
Indices: 48918474--48918510 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
48918464 CAAAATTTAC
*
48918474 ACTTTTACCTTGA
1 ACTTTCACCTTGA
48918487 ACTTTCACCTTGA
1 ACTTTCACCTTGA
48918500 ACTTTCACCTT
1 ACTTTCACCTT
48918511 TTATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.05, T:0.43
Consensus pattern (13 bp):
ACTTTCACCTTGA
Found at i:48925398 original size:17 final size:17
Alignment explanation
Indices: 48925367--48925412 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
48925357 ATGTATAACA
* *
48925367 GAGCTCACACCTTTGGT
1 GAGCTCGCACATTTGGT
*
48925384 GAGCTTGCACATTTGGT
1 GAGCTCGCACATTTGGT
48925401 GAGCTCGCACAT
1 GAGCTCGCACAT
48925413 ATGATAACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (17 bp):
GAGCTCGCACATTTGGT
Found at i:48925475 original size:17 final size:18
Alignment explanation
Indices: 48925458--48925518 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
48925448 TTTTAGGCTT
* *
48925458 GTATCTTTGGCTG-GCTT
1 GTATCTTTGGATGAGCTC
*
48925475 GTATATTTGGATGAGCTC
1 GTATCTTTGGATGAGCTC
* *
48925493 GCATCTTTGGGTGAGCTC
1 GTATCTTTGGATGAGCTC
48925511 GTATCTTT
1 GTATCTTT
48925519 ACAATCTATG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 11 0.31
18 25 0.69
ACGTcount: A:0.13, C:0.16, G:0.28, T:0.43
Consensus pattern (18 bp):
GTATCTTTGGATGAGCTC
Found at i:48947665 original size:23 final size:22
Alignment explanation
Indices: 48947639--48947688 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 22
48947629 TCAAAAGTAT
48947639 ATCAATTTAACTTACTATAATC
1 ATCAATTTAACTTACTATAATC
48947661 AATCAATTTAACTTACTATAATC
1 -ATCAATTTAACTTACTATAATC
48947684 ATCAA
1 ATCAA
48947689 GTCATCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (22 bp):
ATCAATTTAACTTACTATAATC
Found at i:48948760 original size:32 final size:32
Alignment explanation
Indices: 48948724--48949160 Score: 394
Period size: 32 Copynumber: 13.7 Consensus size: 32
48948714 ATAAATACAA
* *
48948724 ATACAAATT-AATTCGACAATAGGTGTATACCT
1 ATAC-AATTCAATTCGGCAATAGGAGTATACCT
* ** *
48948756 ATACAATTCAATTCGGCGATATAAGTATACAT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* *
48948788 ATAAAATTCAATTCGGCAATAGGTGTATACCT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* ** * **
48948820 ATACAATTCAATTCGGCTATATAAATATAAAT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
48948852 ATACAATTCAATTCGGCAATAGGAGTATACCT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* * **
48948884 ATACAATTCCATTCGGTAATATAAGTATA--T
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* * *
48948914 ATACATAATTCAATTCGGTAATAAGTGTATACCT
1 ATAC--AATTCAATTCGGCAATAGGAGTATACCT
* ** **
48948948 ATACAATTCCATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* *
48948980 ATACAATTCAATTCGACAATAGGTGTATACCT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
** **
48949012 ATACAATTCAATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* * *
48949044 ATACAATTCAATTCGGTAATAGGTGTATACTT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* ** * **
48949076 ATGCAATTCAATTCGGCAATATAAATATATAT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
* * ** **
48949108 ATACAATTCAATTCGACAAAATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGAGTATACCT
*
48949140 ATACAATTCAATTCAGCAATA
1 ATACAATTCAATTCGGCAATA
48949161 TATAAAACAT
Statistics
Matches: 325, Mismatches: 75, Indels: 10
0.79 0.18 0.02
Matches are distributed among these distances:
30 5 0.02
31 4 0.01
32 311 0.96
34 5 0.02
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (32 bp):
ATACAATTCAATTCGGCAATAGGAGTATACCT
Found at i:48948801 original size:64 final size:64
Alignment explanation
Indices: 48948724--48949162 Score: 614
Period size: 64 Copynumber: 6.9 Consensus size: 64
48948714 ATAAATACAA
* * *
48948724 ATACAAATT-AATTCGACAATAGGTGTATACCTATACAATTCAATTCGGCGATATAAGTATACAT
1 ATAC-AATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * * *
48948788 ATAAAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCTATATAAATATAAAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * *
48948852 ATACAATTCAATTCGGCAATAGGAGTATACCTATACAATTCCATTCGGTAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * * * *
48948916 ACATAATTCAATTCGGTAATAAGTGTATACCTATACAATTCCATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
*
48948980 ATACAATTCAATTCGACAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * * *
48949044 ATACAATTCAATTCGGTAATAGGTGTATACTTATGCAATTCAATTCGGCAATATAAATATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * * *
48949108 ATACAATTCAATTCGACAAAATAAGTATATA--TATACAATTCAATTCAGCAATATA
1 ATACAATTCAATTCGGC--AATAGGTGTATACCTATACAATTCAATTCGGCAATATA
48949163 TAAAACATAT
Statistics
Matches: 337, Mismatches: 35, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
63 4 0.01
64 323 0.96
66 10 0.03
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (64 bp):
ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
Found at i:48952124 original size:3 final size:3
Alignment explanation
Indices: 48952116--48952140 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48952106 TTCAAAGTAA
48952116 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
48952141 TATTAGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48952273 original size:19 final size:20
Alignment explanation
Indices: 48952251--48952308 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
48952241 AAAAATATAA
48952251 ATTTTAAATTTTTATAAA-T
1 ATTTTAAATTTTTATAAATT
*
48952270 ATTTTGAATTTTTGA-AAATT
1 ATTTTAAATTTTT-ATAAATT
48952290 ATTTTGAATATTTTTATAA
1 ATTTT-AA-ATTTTTATAA
48952309 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 15 0.47
20 7 0.22
21 2 0.06
22 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTAAATTTTTATAAATT
Found at i:48957319 original size:24 final size:24
Alignment explanation
Indices: 48957291--48957339 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
48957281 TAAATTTGAA
*
48957291 AAAAAAAACCTATTTGACC-AATTT
1 AAAAAAAACATATTTG-CCTAATTT
*
48957315 AAAAATAACATATTTGCCTAATTT
1 AAAAAAAACATATTTGCCTAATTT
48957339 A
1 A
48957340 GCCAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAAAAACATATTTGCCTAATTT
Found at i:48966623 original size:43 final size:43
Alignment explanation
Indices: 48966565--48966648 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
48966555 CGCAAAATAT
* *
48966565 ATCATGTTATTTAGCGGCGTTTGTAGTAAAAGTACCGCTAAAA
1 ATCATGTTATATAGCGGCGTTTGTAGTAAAAGCACCGCTAAAA
* * * *
48966608 ATCATGTTCTATAGCGGTGTTTGTGGTAAAAGCGCCGCTAA
1 ATCATGTTATATAGCGGCGTTTGTAGTAAAAGCACCGCTAA
48966649 CATTAACAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
ATCATGTTATATAGCGGCGTTTGTAGTAAAAGCACCGCTAAAA
Found at i:48972781 original size:29 final size:31
Alignment explanation
Indices: 48972745--48972807 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
48972735 TAATAATAAG
*
48972745 ATATGAAACATTTTAAAGA-ATA-T-ATATAT
1 ATATGAAA-ATTTGAAAGACATATTCATATAT
48972774 ATATGAAAATTTGAAAGACATATTCATATAT
1 ATATGAAAATTTGAAAGACATATTCATATAT
48972805 ATA
1 ATA
48972808 ATAGTTTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 9 0.30
29 11 0.37
30 1 0.03
31 9 0.30
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (31 bp):
ATATGAAAATTTGAAAGACATATTCATATAT
Found at i:48975004 original size:22 final size:23
Alignment explanation
Indices: 48974967--48975034 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
48974957 TTGCAGTTAC
48974967 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
* *
48974990 TTCA-TGTT-TATAATATGA-TTAG
1 TTAAGTGTTCTA-AATA-GATTTAA
48975012 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
48975035 GTCAAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (23 bp):
TTAAGTGTTCTAAATAGATTTAA
Found at i:48977184 original size:30 final size:30
Alignment explanation
Indices: 48977150--48977212 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
48977140 ACTTATTTTA
*
48977150 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
48977180 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
48977210 TTG
1 TTG
48977213 CTTGTTAAAT
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:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:48977331 original size:18 final size:18
Alignment explanation
Indices: 48977295--48977332 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48977285 GAAATATTTA
*
48977295 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
48977313 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
48977331 TT
1 TT
48977333 AAAATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:48980065 original size:19 final size:20
Alignment explanation
Indices: 48980019--48980071 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
48980009 CTTAACTATT
48980019 TATGCATATATATATAAACTA
1 TATG-ATATATATATAAACTA
* *
48980040 T-TAATATAT-TATATACTA
1 TATGATATATATATAAACTA
48980058 TATGATATGATATA
1 TATGATAT-ATATA
48980072 GCATTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 3 0.12
21 3 0.12
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (20 bp):
TATGATATATATATAAACTA
Found at i:48980278 original size:32 final size:31
Alignment explanation
Indices: 48980216--48980285 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
48980206 TATGTGATAT
*
48980216 AGTATTATATAATGAAATAATATATTTTATA
1 AGTATTATATAATGAAATAATATATATTATA
*
48980247 AGTATTAATATAAT-AAATATTATTATATTAT-
1 AGTATT-ATATAATGAAATAATA-TATATTATA
48980278 AG-ATTATA
1 AGTATTATA
48980286 ATAAAAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.09
30 3 0.09
31 15 0.43
32 14 0.40
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (31 bp):
AGTATTATATAATGAAATAATATATATTATA
Found at i:48980288 original size:32 final size:32
Alignment explanation
Indices: 48980216--48980278 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
48980206 TATGTGATAT
*
48980216 AGTATT-ATATAATGAAATAATATATTTTATA
1 AGTATTAATATAATGAAATAATATATATTATA
*
48980247 AGTATTAATATAAT-AAATATTATTATATTATA
1 AGTATTAATATAATGAAATAATA-TATATTATA
48980279 GATTATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (32 bp):
AGTATTAATATAATGAAATAATATATATTATA
Found at i:48985138 original size:22 final size:21
Alignment explanation
Indices: 48985095--48985160 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
48985085 AGGGGTTAAA
48985095 GGTGAGAAGTAAAAGTTTGGG
1 GGTGAGAAGTAAAAGTTTGGG
48985116 GGTGAGAA-TGAAAAGTTTTGGG
1 GGTGAGAAGT-AAAAG-TTTGGG
* *
48985138 GGTTGAGGGAGTAAAATTTTGGG
1 GG-TGA-GAAGTAAAAGTTTGGG
48985161 AGAAGTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 1 0.03
21 13 0.34
22 8 0.21
23 9 0.24
24 6 0.16
25 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.42, T:0.27
Consensus pattern (21 bp):
GGTGAGAAGTAAAAGTTTGGG
Found at i:48985264 original size:30 final size:29
Alignment explanation
Indices: 48985223--48985281 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
48985213 AAGTGGGATG
* *
48985223 GGAAGGGAGTAAAAGTTTTGGGGAGAAAGT
1 GGAAAGGAGTAAAAGTTTTGAGG-GAAAGT
48985253 GGAAAGGAGTAAAAGTTTTGAGGGAAAGT
1 GGAAAGGAGTAAAAGTTTTGAGGGAAAGT
48985282 AGAGAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (29 bp):
GGAAAGGAGTAAAAGTTTTGAGGGAAAGT
Found at i:48990192 original size:47 final size:47
Alignment explanation
Indices: 48990132--48990227 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
48990122 TAATTGTATT
*
48990132 CATAAGAGATATAAAGACTTTCTAATAACAATACAAAGGTATTAATC
1 CATAAGAGATATAAAGACTTTCTAACAACAATACAAAGGTATTAATC
* * *
48990179 CATAAGAGATATAAGGAGTTTCTAACAACAATACGAAGGTATTAATC
1 CATAAGAGATATAAAGACTTTCTAACAACAATACAAAGGTATTAATC
48990226 CA
1 CA
48990228 CCCGTACCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (47 bp):
CATAAGAGATATAAAGACTTTCTAACAACAATACAAAGGTATTAATC
Found at i:49012646 original size:18 final size:18
Alignment explanation
Indices: 49012619--49012658 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
49012609 AATGATCGCC
*
49012619 ACCACCTTCTTCTTCACA
1 ACCACATTCTTCTTCACA
*
49012637 ACCACATTCTTCTTCACC
1 ACCACATTCTTCTTCACA
49012655 ACCA
1 ACCA
49012659 ACCATATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (18 bp):
ACCACATTCTTCTTCACA
Found at i:49013290 original size:12 final size:12
Alignment explanation
Indices: 49013256--49013410 Score: 56
Period size: 12 Copynumber: 12.7 Consensus size: 12
49013246 ATTTAACCAC
*
49013256 TAATCCTAATAA
1 TAATACTAATAA
*
49013268 CTAACAC-AATAA
1 -TAATACTAATAA
*
49013280 TAATATTAATAA
1 TAATACTAATAA
49013292 TTTTATATAC-AA-AA
1 ---TA-ATACTAATAA
49013306 TAATACTAACTAA
1 TAATACTAA-TAA
*
49013319 -AATTATTAATAA
1 TAA-TACTAATAA
*
49013331 CTAACTA-TAAAAA
1 -TAA-TACTAATAA
*
49013344 TAATACTAAT-T
1 TAATACTAATAA
** *
49013355 TTTTACTAACAA
1 TAATACTAATAA
49013367 TAATACTAAGTAA
1 TAATACTAA-TAA
*
49013380 -CAT-CTTAATAA
1 TAATAC-TAATAA
*
49013391 TAATAATAATAA
1 TAATACTAATAA
49013403 TAATACTA
1 TAATACTA
49013411 TAAAATTTTA
Statistics
Matches: 104, Mismatches: 21, Indels: 35
0.65 0.13 0.22
Matches are distributed among these distances:
10 4 0.04
11 21 0.20
12 48 0.46
13 18 0.17
14 6 0.06
15 4 0.04
16 3 0.03
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.35
Consensus pattern (12 bp):
TAATACTAATAA
Found at i:49013765 original size:27 final size:26
Alignment explanation
Indices: 49013692--49013769 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 26
49013682 ATAACACGAG
**
49013692 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACA-GGTTCCCTTGTT
49013719 TGGTGCCGCCAACAAGGTTCCCTTGTT
1 TGGTGCCGCCAAC-AGGTTCCCTTGTT
49013746 TGGTGCCGCCAACAGTGTTCCCTT
1 TGGTGCCGCCAACAG-GTTCCCTT
49013770 CACCCAGGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
26 2 0.04
27 44 0.94
28 1 0.02
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (26 bp):
TGGTGCCGCCAACAGGTTCCCTTGTT
Found at i:49013823 original size:18 final size:18
Alignment explanation
Indices: 49013800--49013835 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49013790 CAGTCCAGAT
*
49013800 TTTTTTTCTGTTTTTTTG
1 TTTTTTTCTATTTTTTTG
*
49013818 TTTTTTTTTATTTTTTTG
1 TTTTTTTCTATTTTTTTG
49013836 ATATATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.86
Consensus pattern (18 bp):
TTTTTTTCTATTTTTTTG
Found at i:49013868 original size:27 final size:28
Alignment explanation
Indices: 49013836--49013903 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
49013826 TATTTTTTTG
49013836 ATATATTTTGGTAAATAAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
49013863 ATATATTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
*
49013891 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
49013904 TTTTTAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:49014449 original size:3 final size:3
Alignment explanation
Indices: 49014441--49014475 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
49014431 CCCATCTTCG
* *
49014441 TCA TCA TCA TTA TCA TCA TTA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
49014476 TCCATCTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:49017424 original size:16 final size:16
Alignment explanation
Indices: 49017403--49017441 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
49017393 GTTTGGTTCA
*
49017403 CTGTAAT-AGAATAGGG
1 CTGTAATGA-AATAGAG
49017419 CTGTAATGAAATAGAG
1 CTGTAATGAAATAGAG
49017435 CTGTAAT
1 CTGTAAT
49017442 CAGTAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:49021117 original size:30 final size:30
Alignment explanation
Indices: 49021083--49021154 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
49021073 CTTCATTGGA
49021083 AATTATTTTAAAATAATAATTTATAATTAT
1 AATTATTTTAAAATAATAATTTATAATTAT
** *** *
49021113 AATTATTCCATGCTATTAATTTATAATTAT
1 AATTATTTTAAAATAATAATTTATAATTAT
49021143 --TTATTTTAAAAT
1 AATTATTTTAAAAT
49021155 TATTGATATA
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
28 7 0.23
30 24 0.77
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (30 bp):
AATTATTTTAAAATAATAATTTATAATTAT
Found at i:49022782 original size:25 final size:25
Alignment explanation
Indices: 49022728--49022782 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
49022718 GGCATCTACA
** *
49022728 TTATTTATTATTAAGTTTATATATG
1 TTATTTATTATTAAGAATATATATC
*
49022753 ATATTTATTATTATAGAATAT-TATC
1 TTATTTATTATTA-AGAATATATATC
49022778 TTATT
1 TTATT
49022783 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (25 bp):
TTATTTATTATTAAGAATATATATC
Found at i:49026163 original size:15 final size:15
Alignment explanation
Indices: 49026143--49026177 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
49026133 CGCAAGGAAC
49026143 ACCCTAGGTGCTAGA
1 ACCCTAGGTGCTAGA
49026158 ACCCTAGGTGCTAGA
1 ACCCTAGGTGCTAGA
49026173 ACCCT
1 ACCCT
49026178 TATATTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (15 bp):
ACCCTAGGTGCTAGA
Found at i:49033955 original size:18 final size:17
Alignment explanation
Indices: 49033927--49033975 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
49033917 TGAACTAACC
* *
49033927 TTTTCTATTTTTAATTA
1 TTTTTTATTTTTAATGA
49033944 TTGTTTTATTTTT-ATGA
1 TT-TTTTATTTTTAATGA
49033961 TTTTTTATTATTTAA
1 TTTTTTATT-TTTAA
49033976 CGAACTGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
17 10 0.37
18 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTTTTATTTTTAATGA
Found at i:49036172 original size:26 final size:25
Alignment explanation
Indices: 49036125--49036197 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 25
49036115 TTCTCGCCCT
*
49036125 AATTTTACCCT-AGTAAAGTTTTGAC
1 AATTTTACCCTGA-TAAAATTTTGAC
49036150 AATTTTACCCCTGATAAAATTTTGAC
1 AATTTTA-CCCTGATAAAATTTTGAC
*
49036176 GATTTTACCCTCGATAAAATTT
1 AATTTTACCCT-GATAAAATTT
49036198 CAAGAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 11 0.26
26 31 0.72
27 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (25 bp):
AATTTTACCCTGATAAAATTTTGAC
Found at i:49044827 original size:8 final size:8
Alignment explanation
Indices: 49044814--49044841 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
49044804 GCATGTGTCA
49044814 ATTAAAAT
1 ATTAAAAT
49044822 ATTAAAAT
1 ATTAAAAT
49044830 ATTAAAAT
1 ATTAAAAT
49044838 ATTA
1 ATTA
49044842 TACATTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTAAAAT
Found at i:49055397 original size:37 final size:37
Alignment explanation
Indices: 49055336--49055494 Score: 147
Period size: 37 Copynumber: 4.3 Consensus size: 37
49055326 TCCATAGATC
* * * *
49055336 ATCATATCTTGAAACATGATGACAAGTCTAGCGGACT
1 ATCATAACTTGAAACATGAAGACAAGTCCAGCGAACT
* * *
49055373 ATCTTAACTTGAAACATGAAGACAAGTCCAGTGCACT
1 ATCATAACTTGAAACATGAAGACAAGTCCAGCGAACT
** * * *
49055410 ATCATAACTTGAAATGTGAGGACGAGTCCAACGAACT
1 ATCATAACTTGAAACATGAAGACAAGTCCAGCGAACT
* * * * * *
49055447 GTCATAACTTGAAACATGAGGACGATTCCAGTGGACT
1 ATCATAACTTGAAACATGAAGACAAGTCCAGCGAACT
*
49055484 GTCATAACTTG
1 ATCATAACTTG
49055495 CGTATGCCCA
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (37 bp):
ATCATAACTTGAAACATGAAGACAAGTCCAGCGAACT
Found at i:49065649 original size:27 final size:27
Alignment explanation
Indices: 49065595--49065652 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
49065585 AAAAAAACTA
* *
49065595 AAAATAATTTGTTTAGCAATACGAGAG
1 AAAATAATTGGTTTAGAAATACGAGAG
*
49065622 AAAATAATTGGTTTAAGAAAT-CGGGAG
1 AAAATAATTGGTTT-AGAAATACGAGAG
49065649 AAAA
1 AAAA
49065653 AAATGAGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAATAATTGGTTTAGAAATACGAGAG
Found at i:49067317 original size:35 final size:34
Alignment explanation
Indices: 49067260--49067326 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
49067250 AGAATAGAAA
* *
49067260 TGAGAAAGAAAGAAACAGAGAAGCAAAACGAAAAT
1 TGAGAAAGAAAGAAACAAAGAAG-AAAAAGAAAAT
*
49067295 TGAGAAAGAAA-AAGAGAAAGAAGAAAAAGAAA
1 TGAGAAAGAAAGAA-ACAAAGAAGAAAAAGAAA
49067327 GAGAACCACG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.04
Consensus pattern (34 bp):
TGAGAAAGAAAGAAACAAAGAAGAAAAAGAAAAT
Found at i:49073899 original size:19 final size:19
Alignment explanation
Indices: 49073856--49073898 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
49073846 AATAAACACC
*
49073856 AAAAAATTATTTAAAAAAT
1 AAAAAAGTATTTAAAAAAT
*
49073875 AAAAAAGTATTT-TAAAAT
1 AAAAAAGTATTTAAAAAAT
49073893 AAAAAA
1 AAAAAA
49073899 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAAAGTATTTAAAAAAT
Found at i:49078198 original size:12 final size:12
Alignment explanation
Indices: 49078181--49078206 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49078171 AAGATTAAAA
49078181 AAGTGAAAAATT
1 AAGTGAAAAATT
49078193 AAGTGAAAAATT
1 AAGTGAAAAATT
49078205 AA
1 AA
49078207 AATGATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (12 bp):
AAGTGAAAAATT
Found at i:49080560 original size:42 final size:42
Alignment explanation
Indices: 49080508--49080607 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
49080498 CTATATGAAC
* * *
49080508 GGCACTAAGTGTGTGAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTAGAATAACG
* *
49080550 GGCACTAAGTGTGCGAAATTAAAATGATGATGTAGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTAGAATAACG
*
49080592 AGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
49080608 TACCGAGAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGTAGAATAACG
Found at i:49083266 original size:3 final size:3
Alignment explanation
Indices: 49083258--49083284 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
49083248 AAAACGTAAC
49083258 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
49083285 GCAATATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49084050 original size:8 final size:8
Alignment explanation
Indices: 49084037--49084063 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
49084027 AGAGAAGAAT
49084037 AAAAAATA
1 AAAAAATA
49084045 AAAAAATA
1 AAAAAATA
49084053 AAAAAATA
1 AAAAAATA
49084061 AAA
1 AAA
49084064 TCTAACCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:49084910 original size:83 final size:83
Alignment explanation
Indices: 49084769--49084923 Score: 215
Period size: 83 Copynumber: 1.9 Consensus size: 83
49084759 GAGGCTGCGA
* * * * *
49084769 CTCTTCACCTACGAGCCTTAATATGATAGCTAAGAGCTTTGCTCTTGCTAATTGTGTTGGAGGCT
1 CTCTTCACCTACGAGCCATAATATAATAGCTAAGAGCTTTGCTCTTCCTAACTATGTTGGAGGCT
49084834 GCGGCTCACAGGTTCCGG
66 GCGGCTCACAGGTTCCGG
**
49084852 CTCTTCACCTACGAGCCATAATATAATAGCTGGGAG-TTCTGCT-TTCCCTAACTATGTTGGAGG
1 CTCTTCACCTACGAGCCATAATATAATAGCTAAGAGCTT-TGCTCTT-CCTAACTATGTTGGAGG
49084915 CTGCGGCTC
64 CTGCGGCTC
49084924 TTCACCTGCG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
82 4 0.06
83 59 0.94
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (83 bp):
CTCTTCACCTACGAGCCATAATATAATAGCTAAGAGCTTTGCTCTTCCTAACTATGTTGGAGGCT
GCGGCTCACAGGTTCCGG
Found at i:49084972 original size:69 final size:69
Alignment explanation
Indices: 49084849--49085213 Score: 378
Period size: 69 Copynumber: 5.3 Consensus size: 69
49084839 TCACAGGTTC
* * * * * * *
49084849 CGGCTCTTCACCTACGAGCCATAATATAATAGCTGGGAG-TTCTGCTT-TCCCTAACTATGTTGG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTT-TG-TTCTCGCTAACTGTGTTGG
49084912 AGGCTG
64 AGGCTG
* *
49084918 CGGCTCTTCACCTGCGAGCCTTAATATGACAGATGAGAGCTTTGTTCTCGCTAACTATGTTGGAG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAG
*
49084983 GCTA
66 GCTG
* ** * **
49084987 CGACTCTTCACCTATGAGCCTTAATATGACTGCTGAGAGCTTTACTCTCGCTAACTGTGTTGGAG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAG
49085052 GCTG
66 GCTG
* * * *
49085056 CGACTCTTCACCTGTGAACCTTAATATGACAGCTGAGAGC-TTGTAACTCTCGCTAACTGCGTTG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGT---TCTCGCTAACTGTGTTG
49085120 GAGGCTG
63 GAGGCTG
* * * * * * *
49085127 TGGCTCTTTACCTTCGAGCTTTAATATGACAGTTGGGAGCTTTGCTCTCGCT-ACTTGTGTTGGA
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAAC-TGTGTTGGA
49085191 GGCTG
65 GGCTG
* * *
49085196 TGGTTATTCACCTGCGAG
1 CGGCTCTTCACCTGCGAG
49085214 TTTTATGTTC
Statistics
Matches: 251, Mismatches: 38, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
68 6 0.02
69 186 0.74
70 2 0.01
71 54 0.22
72 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.32
Consensus pattern (69 bp):
CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAG
GCTG
Done.