Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 261 of 290
Found at i:84226309 original size:93 final size:93
Alignment explanation
Indices: 84226199--84226369 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
84226189 GCGCCTAAGT
***
84226199 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
84226264 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
84226292 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
84226357 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84226370 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:84226823 original size:30 final size:30
Alignment explanation
Indices: 84226789--84226848 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
84226779 ATTTAATACG
84226789 AACTTTGAAAAAATTACACTTTTGCCCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
* * * *
84226819 AACTTTTACATAATTACACTTTTGCTCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
84226849 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTGAAAAAATTACACTTTTGCCCCTA
Found at i:84227989 original size:42 final size:41
Alignment explanation
Indices: 84227930--84228089 Score: 135
Period size: 44 Copynumber: 3.8 Consensus size: 41
84227920 GGTCTTACAC
*
84227930 ATGCCACTGTCCCAGACAGGGTCTTACACAAAAGTAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAAA-TAAATACG
* *
84227972 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTTAAAT-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACAC--AAA--ATAAATACG
* * * * *
84228016 ATGACAATGCCCCAGA-TGTGGTCTTACACGAAATCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACAAAAT-AAATA-CG
* * *
84228059 ATGCCACTATCTCAGACAGGGTCTTACACAA
1 ATGCCAATGTCCCAGACAGGGTCTTACACAA
84228090 TATCTCACAT
Statistics
Matches: 92, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 29 0.32
43 24 0.26
44 30 0.33
45 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAAATAAATACG
Found at i:84228082 original size:43 final size:43
Alignment explanation
Indices: 84227930--84228087 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
84227920 GGTCTTACAC
* * *
84227930 ATGCCACTGTCCCAGACAGGGTCTTACACAAAAGT-AAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAA-TCATATATCG
* * *
84227972 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTTAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCATATATCG
* * *
84228016 ATGACAATGCCCCAGA-TGTGGTCTTACACGAAATCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATATCG
* * *
84228059 ATGCCACTATCTCAGACAGGGTCTTACAC
1 ATGCCAATGTCCCAGACAGGGTCTTACAC
84228088 AATATCTCAC
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 28 0.30
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATATCG
Found at i:84230459 original size:12 final size:12
Alignment explanation
Indices: 84230442--84230466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84230432 AAATTAAATG
84230442 AATTAAAAGCCA
1 AATTAAAAGCCA
84230454 AATTAAAAGCCA
1 AATTAAAAGCCA
84230466 A
1 A
84230467 TTTTTGTCCA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:84251818 original size:12 final size:12
Alignment explanation
Indices: 84251801--84251825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84251791 TGGAGAAAAA
84251801 TTGGCTTTTAAT
1 TTGGCTTTTAAT
84251813 TTGGCTTTTAAT
1 TTGGCTTTTAAT
84251825 T
1 T
84251826 CATTTAATTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:84254216 original size:43 final size:43
Alignment explanation
Indices: 84254154--84254313 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
84254144 ATGTGAGATA
* *
84254154 TCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATATGATT
1 TCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATATGATT
* * *
84254197 TCGTGTAAGACCAC-ATCTGGGA-TGTTGTCATCGATTTGA-GATT
1 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATAT-ATGATT
* * * * *
84254240 TACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTAATT
1 T-CGTGTAAGACCCTATCTGGGACAGTGGCATCGATATATGATT
*
84254283 TCATGTAAGACCCTATCTGGGACAGTGGCAT
1 TCGTGTAAGACCCTATCTGGGACAGTGGCAT
84254314 ATGTAAGACC
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
42 27 0.29
43 40 0.43
44 27 0.29
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATATGATT
Found at i:84254304 original size:86 final size:86
Alignment explanation
Indices: 84254147--84254304 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 86
84254137 TTCTGAGATG
* * * *
84254147 TGAGATATCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATATGATTTCGTGTAAGACCACA
1 TGAGATATCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATAATTTCATGTAAGACCACA
84254212 TCTGGGATGTTGTCATCGATT
66 TCTGGGATGTTGTCATCGATT
* * *
84254233 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTAATTTCATGTAAGACC-C
1 TGAGATAT-CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATAATTTCATGTAAGACCAC
84254296 TATCTGGGA
65 -ATCTGGGA
84254305 CAGTGGCATA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
85 1 0.02
86 33 0.52
87 29 0.46
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (86 bp):
TGAGATATCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATAATTTCATGTAAGACCACA
TCTGGGATGTTGTCATCGATT
Found at i:84255550 original size:46 final size:46
Alignment explanation
Indices: 84255497--84255621 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
84255487 TGAGCATCCG
* * *
84255497 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTTCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCA
* *
84255543 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCA
* *
84255589 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84255622 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCA
Found at i:84259230 original size:3 final size:3
Alignment explanation
Indices: 84259222--84259256 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
84259212 TATGTAAGTA
84259222 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
84259257 TTTTTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:84265602 original size:23 final size:24
Alignment explanation
Indices: 84265569--84265635 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 24
84265559 GAGCTGATGG
84265569 ACAGTAAGCTCTAT-TGAGCTGAA
1 ACAGTAAGCTCTATATGAGCTGAA
* * *
84265592 ACGGTAAGCTCTATCT-TGCT-AA
1 ACAGTAAGCTCTATATGAGCTGAA
84265614 ACAGTAAGCTC-ATATGAGCTGA
1 ACAGTAAGCTCTATATGAGCTGA
84265636 TATATCGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 3 0.08
22 15 0.42
23 17 0.47
24 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
ACAGTAAGCTCTATATGAGCTGAA
Found at i:84268956 original size:48 final size:48
Alignment explanation
Indices: 84268885--84268980 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
84268875 ATCTAAAAAG
84268885 ACGGTTCATGCTACCGAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
1 ACGGTTCATGCTACCGAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
*
84268933 ACGGTTGATGCTACCGAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
1 ACGGTTCATGCTACCGAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
84268981 GTTAACTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (48 bp):
ACGGTTCATGCTACCGAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
Found at i:84269958 original size:20 final size:19
Alignment explanation
Indices: 84269922--84269971 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
84269912 AAGGGCTATT
84269922 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
84269941 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
84269961 TTGAAAATGTG
1 TTGTAAATGTG
84269972 AGTTGCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:84270723 original size:48 final size:49
Alignment explanation
Indices: 84270620--84270986 Score: 195
Period size: 49 Copynumber: 7.7 Consensus size: 49
84270610 TGATATGTGT
*
84270620 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-C-CATTGAGATGAGA
* * *
84270666 GCCACTGTAAGACCATGTCTGAGACATGGCATCAG-CATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATTGAGATGAGA
* * * * * *
84270714 GCTAGTGTAA-AACATTTCTGGGATAT-GCATCAGCC-TTGATATACACAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATTGAGAT-GA-GA
* * * *
84270762 GCTAGTGTAAGACC-TGTCTGGGACTTGGCGTCAG-C-TT--GATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATTGAGATGAGA
* * *
84270806 G-TCAGTGTAAGACC-TGTTTGGGACATGGCATC-GACATCGATAGATGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCATTG--AGATGAGA
* * ** * * *
84270855 GCCAGTGTAAGA-CTTGTCTGGGACACAGCATCAGCCTCAAT-ATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-C-CATTGAGATGAGA
* * * * **
84270904 G-TCAGTGTAAGA-CTTGTCTGGGACATGGAATC-GACTTTGATG-TGCTA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCATTGA-GATGAGA
*
84270951 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
84270987 ATCTTACCCT
Statistics
Matches: 241, Mismatches: 52, Indels: 53
0.70 0.15 0.15
Matches are distributed among these distances:
43 2 0.01
44 28 0.12
45 5 0.02
46 27 0.11
47 41 0.17
48 63 0.26
49 72 0.30
50 1 0.00
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATTGAGATGAGA
Found at i:84270886 original size:142 final size:143
Alignment explanation
Indices: 84270671--84270989 Score: 352
Period size: 142 Copynumber: 2.2 Consensus size: 143
84270661 TGAGAGCCAC
* * *
84270671 TGTAAGACCATGTCTGAGACATGGCATCAGCATTGAGATGAGAGCTAGTGTAAAACATTTCTGGG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGAGAGCCAGTGTAAAACATTTCTGGG
* * ** * **
84270736 ATATGCATCAGCCTTGATATA-CACAAG-CTAGTGTAAGACCTGTCTGGGACTTGGCGTC-AGC-
66 ACAAGCATCAGCCTCAATATATCA-AAGTC-AGTGTAAGACCTGTCTGGGACATGGAATCGA-CT
84270797 TTGATGTG-T-G-TCAG
128 TTGATGTGCTAGCT-AG
* *
84270811 TGTAAGACC-TGTTTGGGACATGGCATC-GACATCGATAGATGAGAGCCAGTGTAAGAC-TTGTC
1 TGTAAGACCATGTCTGGGACATGGCATCAG-CATCG--AGATGAGAGCCAGTGTAAAACATT-TC
* *
84270873 TGGGACACAGCATCAGCCTCAATATATGAAAGTCAGTGTAAGACTTGTCTGGGACATGGAATCGA
62 TGGGACA-AGCATCAGCCTCAATATATCAAAGTCAGTGTAAGACCTGTCTGGGACATGGAATCGA
84270938 CTTTGATGTGCTAGCTAG
126 CTTTGATGTGCTAGCTAG
*
84270956 TGTAAGACCATGTCTGGGACATGGCGTCAGCATC
1 TGTAAGACCATGTCTGGGACATGGCATCAGCATC
84270990 TTACCCTATG
Statistics
Matches: 149, Mismatches: 16, Indels: 22
0.80 0.09 0.12
Matches are distributed among these distances:
138 1 0.01
139 20 0.13
140 11 0.07
141 27 0.18
142 44 0.30
143 11 0.07
144 1 0.01
145 12 0.08
146 21 0.14
147 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (143 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGAGAGCCAGTGTAAAACATTTCTGGG
ACAAGCATCAGCCTCAATATATCAAAGTCAGTGTAAGACCTGTCTGGGACATGGAATCGACTTTG
ATGTGCTAGCTAG
Found at i:84288921 original size:19 final size:18
Alignment explanation
Indices: 84288888--84288926 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
84288878 AAAATAAGTT
*
84288888 TAAAATAAATAATATATA
1 TAAAAAAAATAATATATA
*
84288906 TAAAAAAAATACATATGTA
1 TAAAAAAAATA-ATATATA
84288925 TA
1 TA
84288927 TATATAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAAAAAATAATATATA
Found at i:84289072 original size:25 final size:26
Alignment explanation
Indices: 84289039--84289113 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
84289029 CAAAAAAATG
* * *
84289039 AAAATTAAATAATAATAAAAC-GATTT
1 AAAA-TAAATAATAACAAAACAAACTT
*
84289065 AAAATAAATAATATAAGAAAACAAACTT
1 AAAATAAAT-A-ATAACAAAACAAACTT
84289093 AAAATAAATAATAACAAAACA
1 AAAATAAATAATAACAAAACA
84289114 GTTCCTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 5 0.12
26 15 0.36
27 10 0.24
28 12 0.29
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (26 bp):
AAAATAAATAATAACAAAACAAACTT
Found at i:84291405 original size:53 final size:53
Alignment explanation
Indices: 84291341--84291444 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
84291331 GGGAGCATAG
84291341 CTCGAAATGAATAAATTAATCAAAGATAGA-AAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATA-ACAAATGCAATAAGAAGGAAATTAA
* * *
84291394 CTCGAAGTGAATAAGTTAATCAAAGATAACAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAACAAATGCAATAAGAAGGAAATT
84291445 GATTGGGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.22
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAACAAATGCAATAAGAAGGAAATTAA
Found at i:84291781 original size:5 final size:5
Alignment explanation
Indices: 84291771--84291831 Score: 86
Period size: 5 Copynumber: 11.8 Consensus size: 5
84291761 GGCCTCTCCG
*
84291771 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTCTTC TTCTTC TTTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC
*
84291823 TTTTA TTTT
1 TTTTC TTTT
84291832 TGGAAAACTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
5 42 0.79
6 11 0.21
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:84300712 original size:23 final size:23
Alignment explanation
Indices: 84300686--84300744 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
84300676 GTGGAGAAAC
84300686 AAATTTAAAATAGATACTATAAA
1 AAATTTAAAATAGATACTATAAA
* * **
84300709 AAATTTTTAAGTAGATTGTATAAA
1 AAA-TTTAAAATAGATACTATAAA
84300733 ACAATTTAAAAT
1 A-AATTTAAAAT
84300745 CATTGATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 3 0.11
24 23 0.82
25 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (23 bp):
AAATTTAAAATAGATACTATAAA
Found at i:84300896 original size:19 final size:20
Alignment explanation
Indices: 84300864--84300903 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
84300854 AAATAAGTTT
84300864 AAAATAAATAATATATATAA
1 AAAATAAATAATATATATAA
*
84300884 AAAATACAT-ATATATATAA
1 AAAATAAATAATATATATAA
84300903 A
1 A
84300904 CAGTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATAAATAATATATATAA
Found at i:84305014 original size:51 final size:51
Alignment explanation
Indices: 84304938--84305039 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
84304928 TTATGTATTG
84304938 GCATTATGTCATTGTCCTTAATTAATGAAATTATCATCATTTTTCATTCAA
1 GCATTATGTCATTGTCCTTAATTAATGAAATTATCATCATTTTTCATTCAA
*
84304989 GCATTATGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
1 GCATTATGTCATTGTCCTTAATTAATGAAATTATCATCATTTTTCATTCAA
84305040 CATACTCTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (51 bp):
GCATTATGTCATTGTCCTTAATTAATGAAATTATCATCATTTTTCATTCAA
Found at i:84311039 original size:7 final size:7
Alignment explanation
Indices: 84311029--84311059 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
84311019 GATTTTAAAT
84311029 TTTGGAA
1 TTTGGAA
84311036 TTTGGAA
1 TTTGGAA
84311043 TTTGGAA
1 TTTGGAA
84311050 TTTGGAA
1 TTTGGAA
84311057 TTT
1 TTT
84311060 TTAAAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (7 bp):
TTTGGAA
Found at i:84314268 original size:20 final size:21
Alignment explanation
Indices: 84314243--84314288 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
84314233 TTAAATCTTA
*
84314243 AAAATAAATATAAATTAT-TT
1 AAAATAAATAAAAATTATGTT
*
84314263 AAAAT-ATTAAAAATTATGTT
1 AAAATAAATAAAAATTATGTT
84314283 AAAATA
1 AAAATA
84314289 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATAAATAAAAATTATGTT
Found at i:84314302 original size:29 final size:30
Alignment explanation
Indices: 84314246--84314340 Score: 95
Period size: 29 Copynumber: 3.1 Consensus size: 30
84314236 AATCTTAAAA
*
84314246 ATAAATATAAATTATTTAAAATATTAAAAATT
1 ATAAATAAAAATT-TTTAAAA-ATTAAAAATT
** *
84314278 AT-GTTAAAATATTTTTAAAAA-TAAACATT
1 ATAAATAAAA-ATTTTTAAAAATTAAAAATT
*
84314307 ATAAATAAAAATTTCTAAAAATTAAAAATAT
1 ATAAATAAAAATTTTTAAAAATTAAAAAT-T
84314338 ATA
1 ATA
84314341 TGTAAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
29 19 0.37
30 12 0.24
31 15 0.29
32 5 0.10
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (30 bp):
ATAAATAAAAATTTTTAAAAATTAAAAATT
Found at i:84314347 original size:31 final size:29
Alignment explanation
Indices: 84314262--84314358 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 29
84314252 ATAAATTATT
* *
84314262 TAAAATATTAAAAATTATGTTAAAATATTTT
1 TAAAA-ATTAAAAATTATATTAAAA-ATTTC
* *
84314293 TAAAAA-TAAACATTATAAATAAAAATTTC
1 TAAAAATTAAAAATTAT-ATTAAAAATTTC
**
84314322 TAAAAATTAAAAATATATATGTAAAAAAATC
1 TAAAAATTAAAAAT-TATAT-TAAAAATTTC
84314353 TAAAAA
1 TAAAAA
84314359 GGTTACAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 19 0.35
30 13 0.24
31 22 0.41
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (29 bp):
TAAAAATTAAAAATTATATTAAAAATTTC
Found at i:84321584 original size:40 final size:39
Alignment explanation
Indices: 84321527--84321693 Score: 181
Period size: 39 Copynumber: 4.2 Consensus size: 39
84321517 ATTTGATGTG
84321527 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTT-AAGACCCGCAGGCTATATGCTGGAATTA
*
84321567 TGTCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTT-AAGACCCGCAGGCTATATGCTGGAATTA
* * ** *
84321607 TACCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
* * *** ** *
84321646 TAACCGGACTTAAGGTTCGCAGGCTATGCGCTGGAAATA
1 TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
*
84321685 TGTCCGGGC
1 TATCCGGGC
84321694 AAAAGTCCTT
Statistics
Matches: 113, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 66 0.58
40 47 0.42
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:84325453 original size:24 final size:24
Alignment explanation
Indices: 84325397--84325441 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
84325387 GTTGAAAAGT
84325397 ATAA-AATAAAATAGATAATGATA
1 ATAATAATAAAATAGATAATGATA
84325420 ATAATAATAAAAT-GAT-ATGATA
1 ATAATAATAAAATAGATAATGATA
84325442 TATATGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (24 bp):
ATAATAATAAAATAGATAATGATA
Found at i:84325807 original size:49 final size:49
Alignment explanation
Indices: 84325725--84325882 Score: 284
Period size: 49 Copynumber: 3.2 Consensus size: 49
84325715 CTTACTTTGA
*
84325725 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
84325772 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
84325821 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
84325870 GAATGTGATAAGT
1 GAATGTGA-AAGT
84325883 CCCGAAGGGC
Statistics
Matches: 107, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
47 13 0.12
49 90 0.84
50 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:84326056 original size:37 final size:37
Alignment explanation
Indices: 84326000--84326078 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
84325990 CCGAGCTCTA
* * *
84326000 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
84326037 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
84326074 AAGAC
1 AAGAC
84326079 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:84333742 original size:22 final size:22
Alignment explanation
Indices: 84333715--84333762 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
84333705 TTTAGTTTGA
84333715 TTTTGTTTTCATGGAAATCGGT
1 TTTTGTTTTCATGGAAATCGGT
84333737 TTTTGTTTTCATGGAAATCGGT
1 TTTTGTTTTCATGGAAATCGGT
84333759 TTTT
1 TTTT
84333763 ATGCCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.54
Consensus pattern (22 bp):
TTTTGTTTTCATGGAAATCGGT
Found at i:84335114 original size:27 final size:27
Alignment explanation
Indices: 84335084--84335137 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
84335074 TTTAGGGGGC
84335084 CCGGATGAAATTTTAATTTTTTATAGT
1 CCGGATGAAATTTTAATTTTTTATAGT
84335111 CCGGATGAAATTTTAATTTTTTATAGT
1 CCGGATGAAATTTTAATTTTTTATAGT
84335138 TTATCTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (27 bp):
CCGGATGAAATTTTAATTTTTTATAGT
Found at i:84336828 original size:26 final size:26
Alignment explanation
Indices: 84336781--84336862 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
84336771 ATAATATATG
* * *
84336781 TTATAAATTTGTATAA-TATATATTT
1 TTATAAATTTATAGAATTTTATATTT
** *
84336806 TTATAAATTTATAGGCTTTTATATAT
1 TTATAAATTTATAGAATTTTATATTT
* * *
84336832 TTATATATTTATATAATTTTACATTT
1 TTATAAATTTATAGAATTTTATATTT
84336858 TTATA
1 TTATA
84336863 TGCTTTTCAA
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 12 0.27
26 32 0.73
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
TTATAAATTTATAGAATTTTATATTT
Found at i:84336846 original size:18 final size:18
Alignment explanation
Indices: 84336797--84336863 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
84336787 ATTTGTATAA
*
84336797 TATATATTTTTATAAATT
1 TATATATTTTTATATATT
***
84336815 TATAGGCTTTTATATATT
1 TATATATTTTTATATATT
*
84336833 TATATATTTATATA-ATT
1 TATATATTTTTATATATT
*
84336850 T-TACATTTTTATAT
1 TATATATTTTTATAT
84336864 GCTTTTCAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
16 10 0.26
17 4 0.11
18 24 0.63
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
TATATATTTTTATATATT
Found at i:84336857 original size:16 final size:17
Alignment explanation
Indices: 84336781--84336862 Score: 53
Period size: 16 Copynumber: 4.9 Consensus size: 17
84336771 ATAATATATG
* *
84336781 TTATAAATTTGTATAAT
1 TTATACATTTATATAAT
* **
84336798 ATATATTTTTATA-AAT
1 TTATACATTTATATAAT
*
84336814 TTATAGGCTTTTATAT-AT
1 TTATA--CATTTATATAAT
*
84336832 TTATATATTTATATAAT
1 TTATACATTTATATAAT
*
84336849 TT-TACATTTTTATA
1 TTATACATTTATATA
84336863 TGCTTTTCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
16 24 0.47
17 13 0.25
18 14 0.27
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
TTATACATTTATATAAT
Found at i:84339155 original size:23 final size:23
Alignment explanation
Indices: 84339114--84339161 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
84339104 TATTCACTTA
* **
84339114 TATTTTATTTTTATTTTAAATAT
1 TATTTTATATTTAAATTAAATAT
*
84339137 TATTTTATATTTAAATTAATTAT
1 TATTTTATATTTAAATTAAATAT
84339160 TA
1 TA
84339162 ATATTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTTTATATTTAAATTAAATAT
Found at i:84339616 original size:13 final size:13
Alignment explanation
Indices: 84339600--84339625 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84339590 AAAGTAAAAA
84339600 TTTATTAAATTTT
1 TTTATTAAATTTT
84339613 TTTATTAAATTTT
1 TTTATTAAATTTT
84339626 AATAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTAAATTTT
Found at i:84339988 original size:20 final size:20
Alignment explanation
Indices: 84339910--84340013 Score: 62
Period size: 20 Copynumber: 5.3 Consensus size: 20
84339900 TTCTTAGGAC
84339910 TTTATAAAATTTTATAGATTTT
1 TTTATAAAATTTTAT--ATTTT
*
84339932 TTTAT---ATTTCTATA-TAT
1 TTTATAAAATTT-TATATTTT
*
84339949 TTTAT--AATTTT-TATGATT
1 TTTATAAAATTTTATAT-TTT
84339967 TTTATAAAATTTTATATTTT
1 TTTATAAAATTTTATATTTT
* * *
84339987 TTT-TACGATTTTTATATTAT
1 TTTATA-AAATTTTATATTTT
84340007 TTTATAA
1 TTTATAA
84340014 TTTTTAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
16 2 0.03
17 8 0.12
18 11 0.17
19 6 0.09
20 28 0.43
21 5 0.08
22 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTATAAAATTTTATATTTT
Found at i:84339989 original size:57 final size:58
Alignment explanation
Indices: 84339910--84340019 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
84339900 TTCTTAGGAC
*
84339910 TTTATAAAATTTTATAGATTTTTTTA-TATTTCTATA-TATTTTATAATTTTTATGATT
1 TTTATAAAATTTTATA-ATTTTTTTACGATTTCTATATTATTTTATAATTTTTATGATT
* *
84339967 TTTATAAAATTTTATATTTTTTTTACGATTTTTATATTATTTTATAATTTTTA
1 TTTATAAAATTTTATAATTTTTTTACGATTTCTATATTATTTTATAATTTTTA
84340020 ATAAAAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
56 8 0.17
57 24 0.50
58 16 0.33
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (58 bp):
TTTATAAAATTTTATAATTTTTTTACGATTTCTATATTATTTTATAATTTTTATGATT
Found at i:84339997 original size:30 final size:29
Alignment explanation
Indices: 84339893--84340018 Score: 123
Period size: 30 Copynumber: 4.3 Consensus size: 29
84339883 TTATATTTTG
* *
84339893 TATAATTTTCTTAGGA-CTTTATAAAATTT
1 TATAATTTTTTTA-GATTTTTATAAAATTT
* * *
84339922 TATAGATTTTTTTATATTTCTAT-ATATTT
1 TATA-ATTTTTTTAGATTTTTATAAAATTT
*
84339951 TATAATTTTTAT-GATTTTTATAAAATTT
1 TATAATTTTTTTAGATTTTTATAAAATTT
* **
84339979 TATATTTTTTTTACGATTTTTATATTATTT
1 TATAATTTTTTTA-GATTTTTATAAAATTT
84340009 TATAATTTTT
1 TATAATTTTT
84340019 AATAAAAGCA
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.09
28 22 0.28
29 14 0.18
30 35 0.45
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (29 bp):
TATAATTTTTTTAGATTTTTATAAAATTT
Found at i:84340016 original size:19 final size:18
Alignment explanation
Indices: 84339929--84340019 Score: 87
Period size: 19 Copynumber: 4.9 Consensus size: 18
84339919 TTTTATAGAT
*
84339929 TTTTTTAT-ATTTCTATA
1 TTTTTTATAATTTTTATA
*
84339946 TATTTTATAATTTTTATGA
1 TTTTTTATAATTTTTAT-A
*
84339965 -TTTTTATAAAATTTTATA
1 TTTTTTAT-AATTTTTATA
*
84339983 TTTTTTTTACGATTTTTATA
1 TTTTTTATA--ATTTTTATA
84340003 TTATTTTATAATTTTTA
1 TT-TTTTATAATTTTTA
84340020 ATAAAAGCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
17 7 0.12
18 15 0.25
19 22 0.37
20 10 0.17
21 6 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTTATAATTTTTATA
Found at i:84340023 original size:10 final size:9
Alignment explanation
Indices: 84339919--84340019 Score: 69
Period size: 9 Copynumber: 10.6 Consensus size: 9
84339909 CTTTATAAAA
84339919 TTTTATAGAT
1 TTTTATA-AT
*
84339929 TTTTTTATAT
1 TTTTATA-AT
*
84339939 TTCTAT-AT
1 TTTTATAAT
84339947 ATTTTATAAT
1 -TTTTATAAT
*
84339957 TTTTATGAT
1 TTTTATAAT
*
84339966 TTTTATAAAA
1 TTTTAT-AAT
*
84339976 TTTTATATT
1 TTTTATAAT
*
84339985 TTTTTTACGAT
1 TTTTATA--AT
*
84339996 TTTTATATT
1 TTTTATAAT
84340005 ATTTTATAAT
1 -TTTTATAAT
84340015 TTTTA
1 TTTTA
84340020 ATAAAAGCAT
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
8 2 0.03
9 32 0.46
10 29 0.41
11 7 0.10
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:84352472 original size:17 final size:18
Alignment explanation
Indices: 84352440--84352474 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
84352430 TCATATGGCT
84352440 TGCCCGTGTGGGCCCACA
1 TGCCCGTGTGGGCCCACA
*
84352458 TGCCTGTGT-GGCCCACA
1 TGCCCGTGTGGGCCCACA
84352475 CGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.37, G:0.31, T:0.20
Consensus pattern (18 bp):
TGCCCGTGTGGGCCCACA
Found at i:84359865 original size:18 final size:20
Alignment explanation
Indices: 84359842--84359880 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
84359832 GTGGGGGTCA
84359842 ACACAC-CC-ATGTGAAAGG
1 ACACACGCCTATGTGAAAGG
*
84359860 ACACACGCCTGTGTGAAAGG
1 ACACACGCCTATGTGAAAGG
84359880 A
1 A
84359881 GGTACACGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.36, C:0.26, G:0.26, T:0.13
Consensus pattern (20 bp):
ACACACGCCTATGTGAAAGG
Found at i:84360679 original size:22 final size:21
Alignment explanation
Indices: 84360654--84360702 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
84360644 AAATTTTTCC
*
84360654 AAAAAATAAAGATAATAAAAAT
1 AAAAAATAAA-ACAATAAAAAT
* *
84360676 AAAAAATAAACCAATCAAAAT
1 AAAAAATAAAACAATAAAAAT
84360697 AAAAAA
1 AAAAAA
84360703 AATTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAAATAAAACAATAAAAAT
Found at i:84371941 original size:54 final size:54
Alignment explanation
Indices: 84371877--84371985 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
84371867 ATGAGAATGA
84371877 ATGTTTTATATTAAATTGATTGTAGTTTCTCAAGCAACAAATGTAGCATCCTGC
1 ATGTTTTATATTAAATTGATTGTAGTTTCTCAAGCAACAAATGTAGCATCCTGC
84371931 ATGTTTTATATTAAATTGATTGTAGTTTCTCAAGCAACAAATGTAGCATCCTGC
1 ATGTTTTATATTAAATTGATTGTAGTTTCTCAAGCAACAAATGTAGCATCCTGC
84371985 A
1 A
84371986 ACTCAGACCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (54 bp):
ATGTTTTATATTAAATTGATTGTAGTTTCTCAAGCAACAAATGTAGCATCCTGC
Found at i:84383849 original size:42 final size:46
Alignment explanation
Indices: 84383735--84383909 Score: 153
Period size: 48 Copynumber: 3.8 Consensus size: 46
84383725 TAGTAAGATG
*
84383735 CCAACGCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAAT
1 CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACT-AAT
* * * * *
84383782 GCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTC-A-T-AT
1 -CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACTAAT
* *
84383826 -CAAAGCCATATCCCAGATATGGTCTTACAATGTGA-CACATACTGAT
1 CCAAAGCCATATCCCAGATATGGTCTTAC-ATGGGATCACA-ACTAAT
* * * * *
84383872 GCCGATGCCATATCCCATATATGGTCTTATACGGGATC
1 -CCAAAGCCATATCCCAGATATGGTCTTACATGGGATC
84383910 TCATCACCCC
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
42 26 0.25
43 5 0.05
44 3 0.03
45 1 0.01
46 3 0.03
47 5 0.05
48 59 0.58
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (46 bp):
CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACTAAT
Found at i:84383896 original size:90 final size:90
Alignment explanation
Indices: 84383740--84383913 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 90
84383730 AGATGCCAAC
* *
84383740 GCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAATGCCAATGCCATGTCCTAGACATG
1 GCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAATGCCAATGCCATATCCCAGACATG
*
84383805 GTCTTACATGGGATCTCATATCAAA
66 GTCTTACACGGGATCTCATATCAAA
* * * * *
84383830 GCCATATCCCAGATATGGTCTTACAATGTGA-CACATACT-GATGCCGATGCCATATCCCATATA
1 GCCATATCCCAGATATGGTCTTAC-ATGGGATCACA-ACTCAATGCCAATGCCATATCCCAGACA
*
84383893 TGGTCTTATACGGGATCTCAT
64 TGGTCTTACACGGGATCTCAT
84383914 CACCCCAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 65 0.89
91 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (90 bp):
GCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAATGCCAATGCCATATCCCAGACATG
GTCTTACACGGGATCTCATATCAAA
Found at i:84397637 original size:34 final size:34
Alignment explanation
Indices: 84397594--84397658 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
84397584 TCTTTAACTT
84397594 AGAATTATTAAACTCATGTTTATATTGTTACGAA
1 AGAATTATTAAACTCATGTTTATATTGTTACGAA
*
84397628 AGAATTATTAAACTCATGTTTATGTTGTTAC
1 AGAATTATTAAACTCATGTTTATATTGTTAC
84397659 AAATAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (34 bp):
AGAATTATTAAACTCATGTTTATATTGTTACGAA
Found at i:84414446 original size:44 final size:44
Alignment explanation
Indices: 84414393--84414486 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
84414383 TTAATAGGTC
*
84414393 AAAC-AATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
*
84414436 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
84414480 AAACTAA
1 AAACTAA
84414487 AAACATTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 4 0.08
44 44 0.92
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.27
Consensus pattern (44 bp):
AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
Found at i:84416982 original size:13 final size:12
Alignment explanation
Indices: 84416962--84416997 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
84416952 TTTGCTAGTT
84416962 AATTAATTATTC
1 AATTAATTATTC
*
84416974 AATTTAATTATTG
1 AA-TTAATTATTC
84416987 AATTAATTATT
1 AATTAATTATT
84416998 TGGTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (12 bp):
AATTAATTATTC
Found at i:84417727 original size:23 final size:22
Alignment explanation
Indices: 84417701--84417749 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
84417691 AAGTAATGAT
84417701 TAAA-ATATCATTATGTTACAAAG
1 TAAATATAT-ATTATGTTA-AAAG
*
84417724 TAAATTATATATTATTTTAAAAG
1 TAAA-TATATATTATGTTAAAAG
84417747 TAA
1 TAA
84417750 TTTTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 8 0.35
25 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (22 bp):
TAAATATATATTATGTTAAAAG
Found at i:84420336 original size:27 final size:26
Alignment explanation
Indices: 84420281--84420359 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
84420271 ATTATTTTAA
*
84420281 TATTAAATTAATATAATATTTATCTT
1 TATTAAATTAATATAATATTAATCTT
* *
84420307 TATTAGATTAAATTTAATATTAAATC-T
1 TATTAAATT-AATATAATATT-AATCTT
* * *
84420334 TATTAAAATAATATAATGTTTATCTT
1 TATTAAATTAATATAATATTAATCTT
84420360 GTAGATAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
25 3 0.07
26 18 0.43
27 18 0.43
28 3 0.07
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (26 bp):
TATTAAATTAATATAATATTAATCTT
Found at i:84421236 original size:30 final size:30
Alignment explanation
Indices: 84421202--84421299 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
84421192 TATTAAAATC
84421202 ACAAATACAATTTTTCTCATTAGCAAATTT
1 ACAAATACAATTTTTCTCATTAGCAAATTT
* ** ** * *
84421232 ACAAATAAAATCAATAATC-CA-TATTAAAATC
1 ACAAATACAAT---TTTTCTCATTAGCAAATTT
84421263 ACAAATACAATTTTTCTCATTAGCAAATTT
1 ACAAATACAATTTTTCTCATTAGCAAATTT
84421293 ACAAATA
1 ACAAATA
84421300 AAATCAGCAA
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
28 3 0.06
29 2 0.04
30 23 0.47
31 16 0.33
32 2 0.04
33 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (30 bp):
ACAAATACAATTTTTCTCATTAGCAAATTT
Found at i:84421253 original size:61 final size:61
Alignment explanation
Indices: 84421184--84421305 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
84421174 TTTTCACCAG
84421184 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
1 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
84421245 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
1 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
84421306 GCAATCCTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (61 bp):
ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
Found at i:84425423 original size:43 final size:43
Alignment explanation
Indices: 84425372--84425457 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
84425362 TCATATTTCA
*
84425372 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
* *
84425415 TTTCTCATCTTATATTCATTTATCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
84425458 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
Found at i:84425882 original size:25 final size:25
Alignment explanation
Indices: 84425854--84425901 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84425844 AATACACATC
* *
84425854 TATACATAATCAATATATTTCATAA
1 TATACAAAATCAATACATTTCATAA
*
84425879 TATACAAAATCAATCCATTTCAT
1 TATACAAAATCAATACATTTCAT
84425902 TTCAATTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (25 bp):
TATACAAAATCAATACATTTCATAA
Found at i:84428701 original size:45 final size:46
Alignment explanation
Indices: 84428595--84428762 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 46
84428585 GAGGCTGGCA
* * *
84428595 CCATGT-CCAAACATGGTCTTACACTAGCTCTCACATATCCGTACCGATG
1 CCATGTCCCAGACATGGTCTTACACT-G--CACACATCT-CGTACCGATG
*
84428644 CCATGTCCCAGACATGGTCTTACACTG-ACACATTTCGTAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGCACACATCTCGTA-CCGATG
* * * *
84428690 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATACAGATG
1 CCATGTCCCAGACATGGTCTTACACT-GCACACATCTC-GTACCGATG
84428736 CCATGTCCCAGACATGGTCTTACACTG
1 CCATGTCCCAGACATGGTCTTACACTG
84428763 GCTCTCCAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 16
0.81 0.06 0.12
Matches are distributed among these distances:
44 10 0.10
45 19 0.18
46 23 0.22
47 17 0.16
48 10 0.10
49 7 0.07
50 18 0.17
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (46 bp):
CCATGTCCCAGACATGGTCTTACACTGCACACATCTCGTACCGATG
Found at i:84438457 original size:25 final size:24
Alignment explanation
Indices: 84438423--84438477 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
84438413 TTTTTTAGAT
*
84438423 TAAAACAAAATTAGGTTTTGTTTG
1 TAAAACAAAAATAGGTTTTGTTTG
84438447 TAAAACAAAAATAGGTTTTGTTTG
1 TAAAACAAAAATAGGTTTTGTTTG
*
84438471 GAAAACA
1 TAAAACA
84438478 GTTTTCACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (24 bp):
TAAAACAAAAATAGGTTTTGTTTG
Found at i:84440625 original size:27 final size:27
Alignment explanation
Indices: 84440587--84440641 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
84440577 ATCCCACTCG
84440587 TCCACAAAGACGGCAATGAAACTGGCA
1 TCCACAAAGACGGCAATGAAACTGGCA
84440614 TCCACAAAGACGGCAATGAAACTGGCA
1 TCCACAAAGACGGCAATGAAACTGGCA
84440641 T
1 T
84440642 GAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.22, T:0.13
Consensus pattern (27 bp):
TCCACAAAGACGGCAATGAAACTGGCA
Found at i:84441318 original size:25 final size:24
Alignment explanation
Indices: 84441289--84441340 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
84441279 AAACAAATTT
*
84441289 AAAGAAGAGAA-AGA-AAAAAACA
1 AAAGAAGAGAATACAGAAAAAACA
84441311 AAAGAAGAGAATACAGAAAAAACA
1 AAAGAAGAGAATACAGAAAAAACA
84441335 AAAGAA
1 AAAGAA
84441341 AAAAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 14 0.52
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (24 bp):
AAAGAAGAGAATACAGAAAAAACA
Found at i:84441348 original size:11 final size:12
Alignment explanation
Indices: 84441298--84441352 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
84441288 TAAAGAAGAG
84441298 AAAGAAAAAAACA
1 AAAG-AAAAAACA
* *
84441311 AAAGAAGAGAA-T
1 AAAGAA-AAAACA
*
84441323 ACAGAAAAAACA
1 AAAGAAAAAACA
84441335 AAAGAAAAAA-A
1 AAAGAAAAAACA
84441346 AAAGAAA
1 AAAGAAA
84441353 CGTGAAGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 11 0.32
12 16 0.47
13 7 0.21
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAGAAAAAACA
Found at i:84442215 original size:15 final size:15
Alignment explanation
Indices: 84442197--84442226 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
84442187 AGATATAATG
84442197 GACTCAAAAAAGAAA
1 GACTCAAAAAAGAAA
84442212 GACTCAAAAAAGAAA
1 GACTCAAAAAAGAAA
84442227 TTAGTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.13, G:0.13, T:0.07
Consensus pattern (15 bp):
GACTCAAAAAAGAAA
Found at i:84446165 original size:20 final size:20
Alignment explanation
Indices: 84446140--84446185 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
84446130 TTTTACAAAT
84446140 TTTCATTTTGACCCCTAAAC
1 TTTCATTTTGACCCCTAAAC
*
84446160 TTTCATTTTGACCCCTAAAT
1 TTTCATTTTGACCCCTAAAC
84446180 TTTCAT
1 TTTCAT
84446186 CTCGTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTCATTTTGACCCCTAAAC
Found at i:84450284 original size:30 final size:30
Alignment explanation
Indices: 84450245--84450301 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
84450235 TTTGATAAGT
84450245 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
84450275 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
84450302 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:84456255 original size:47 final size:46
Alignment explanation
Indices: 84456146--84456272 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 46
84456136 GTAACCCGCC
*
84456146 CATAAGTGAACTCGGACTCAA-TCAACGAGCTCGG-GCGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCACAT
84456190 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C--GTTCACAT
* *
84456239 C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84456273 ACTCATCCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
44 21 0.28
45 13 0.18
47 30 0.41
48 3 0.04
49 4 0.05
50 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCACAT
Found at i:84465050 original size:4 final size:4
Alignment explanation
Indices: 84465041--84465086 Score: 83
Period size: 4 Copynumber: 11.5 Consensus size: 4
84465031 ACATGTACTT
*
84465041 AATA AATA AATA AATA AATA AATA AATA AATA GATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
84465087 AGATAAGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:84466324 original size:11 final size:10
Alignment explanation
Indices: 84466290--84466405 Score: 57
Period size: 10 Copynumber: 11.7 Consensus size: 10
84466280 TTTTATGACT
*
84466290 TTTTAAATAA
1 TTTTATATAA
84466300 TTTT-TATAA
1 TTTTATATAA
*
84466309 CTTTATATCAA
1 TTTTATAT-AA
84466320 TTTTA-AT-A
1 TTTTATATAA
84466328 TTTCTA-ATAA
1 TTT-TATATAA
*
84466338 TTTT-TATGAT
1 TTTTATAT-AA
*
84466348 TTTTATAGAA
1 TTTTATATAA
**
84466358 TTTTAATATGT
1 TTTT-ATATAA
*
84466369 TTTTATAAAA
1 TTTTATATAA
*
84466379 TTTTAAAT-A
1 TTTTATATAA
84466388 TGTTTA-ATTAA
1 T-TTTATA-TAA
84466399 TTTTATA
1 TTTTATA
84466406 GATTCATTTA
Statistics
Matches: 80, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
8 4 0.05
9 17 0.21
10 41 0.51
11 18 0.22
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (10 bp):
TTTTATATAA
Found at i:84466349 original size:19 final size:18
Alignment explanation
Indices: 84466279--84466350 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 18
84466269 CCAGTTCAAG
84466279 TTTTTATGACTTTTTAAATAA
1 TTTTTATGA--TTTT-AATAA
* *
84466300 TTTTTATAACTTTATATCAA
1 TTTTTATGATTTTA-AT-AA
*
84466320 TTTTAAT-ATTTCTAATAA
1 TTTTTATGATTT-TAATAA
84466338 TTTTTATGATTTT
1 TTTTTATGATTTT
84466351 TATAGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.24
19 14 0.33
20 10 0.24
21 8 0.19
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTATGATTTTAATAA
Found at i:84466373 original size:21 final size:22
Alignment explanation
Indices: 84466342--84466392 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
84466332 TAATAATTTT
*
84466342 TATGATTTTTATAGAATTTT-AA
1 TATG-TTTTTATAAAATTTTAAA
84466364 TATGTTTTTATAAAATTTTAAA
1 TATGTTTTTATAAAATTTTAAA
84466386 TATGTTT
1 TATGTTT
84466393 AATTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
TATGTTTTTATAAAATTTTAAA
Found at i:84466442 original size:19 final size:17
Alignment explanation
Indices: 84466411--84466450 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
84466401 TTATAGATTC
*
84466411 ATTTATAAATTATTAGA
1 ATTTATAAATTATTAAA
84466428 ATTTATTAAATTTATTAAA
1 ATTTA-TAAA-TTATTAAA
84466447 ATTT
1 ATTT
84466451 TCTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATAAATTATTAAA
Found at i:84466480 original size:29 final size:29
Alignment explanation
Indices: 84466437--84466596 Score: 84
Period size: 29 Copynumber: 5.6 Consensus size: 29
84466427 AATTTATTAA
* * * *
84466437 ATTTATTAAAATTTTCTAATATTTTTATT
1 ATTTTTTATAATTTTTTAATATTTTTATC
*
84466466 ATTTTTTAT-ATTTTTTACA-AGTTCTTATC
1 ATTTTTTATAATTTTTTA-ATA-TTTTTATC
* *
84466495 AATTTTTAT-ATTCTTTTAATA--TTTAAC
1 ATTTTTTATAATT-TTTTAATATTTTTATC
*
84466522 ATTTTTTTATAATTTTTATAATTTTTTTAT-
1 A-TTTTTTATAATTTTT-TAATATTTTTATC
* * *
84466552 TTTTTTTATAAAATTTTCT-AT-TTTTTATG
1 ATTTTTTAT--AATTTTTTAATATTTTTATC
* *
84466581 ATTTTTAATCATTTTT
1 ATTTTTTATAATTTTT
84466597 ATGGGAAAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
27 10 0.10
28 25 0.25
29 50 0.49
30 7 0.07
31 10 0.10
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (29 bp):
ATTTTTTATAATTTTTTAATATTTTTATC
Found at i:84466481 original size:20 final size:19
Alignment explanation
Indices: 84466458--84466586 Score: 73
Period size: 20 Copynumber: 6.7 Consensus size: 19
84466448 TTTTCTAATA
84466458 TTTTTAT-TATTTTTTATAT
1 TTTTTATAT-TTTTTTATAT
* ** * *
84466477 TTTTTACAAGTTCTTATCAA
1 TTTTTATATTTTTTTAT-AT
*
84466497 TTTTTATATTCTTTTA-AT
1 TTTTTATATTTTTTTATAT
* * * *
84466515 ATTTAACATTTTTTTATAA
1 TTTTTATATTTTTTTATAT
*
84466534 TTTTTATAATTTTTTTATTT
1 TTTTTAT-ATTTTTTTATAT
*** *
84466554 TTTTTATAAAATTTTCTAT
1 TTTTTATATTTTTTTATAT
84466573 TTTTTATGATTTTT
1 TTTTTAT-ATTTTT
84466587 AATCATTTTT
Statistics
Matches: 76, Mismatches: 29, Indels: 9
0.67 0.25 0.08
Matches are distributed among these distances:
18 13 0.17
19 31 0.41
20 32 0.42
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTATATTTTTTTATAT
Found at i:84466546 original size:8 final size:9
Alignment explanation
Indices: 84466296--84466598 Score: 82
Period size: 9 Copynumber: 31.2 Consensus size: 9
84466286 GACTTTTTAA
84466296 ATAATTTTT
1 ATAATTTTT
*
84466305 ATAACTTTAT
1 ATAA-TTTTT
*
84466315 ATCAATTTTA
1 AT-AATTTTT
*
84466325 AT-ATTTCTA
1 ATAATTT-TT
84466334 ATAATTTTT
1 ATAATTTTT
*
84466343 ATGATTTTT
1 ATAATTTTT
*
84466352 ATAGAATTTTA
1 AT--AATTTTT
*
84466363 ATATGTTTTT
1 ATA-ATTTTT
*
84466373 ATAAAATTTT
1 AT-AATTTTT
84466383 A-AATATGTTT
1 ATAAT-T-TTT
84466393 AATTAA-TTTT
1 -A-TAATTTTT
84466403 ATAGATTCATTT
1 ATA-ATT--TTT
*
84466415 ATAAATTATT
1 AT-AATTTTT
*
84466425 AGAATTTATT
1 ATAATTT-TT
84466435 A-AATTTATT
1 ATAATTT-TT
*
84466444 AAAATTTTCT
1 ATAATTTT-T
84466454 A-ATATTTTT
1 ATA-ATTTTT
*
84466463 ATTATTTTTT
1 A-TAATTTTT
*
84466473 ATATTTTTT
1 ATAATTTTT
* *
84466482 ACAAGTTCTT
1 ATAA-TTTTT
84466492 ATCAATTTTT
1 AT-AATTTTT
84466502 AT-ATTCTTT
1 ATAATT-TTT
*
84466511 -TAATATTT
1 ATAATTTTT
84466519 A-ACATTTTTTT
1 ATA-A--TTTTT
84466530 ATAATTTTT
1 ATAATTTTT
84466539 ATAATTTTTTT
1 ATAA--TTTTT
**
84466550 ATTTTTTTT
1 ATAATTTTT
*
84466559 ATAAAATTTT
1 AT-AATTTTT
* *
84466569 CTATTTTTT
1 ATAATTTTT
*
84466578 ATGATTTTT
1 ATAATTTTT
*
84466587 AATCATTTTT
1 -ATAATTTTT
84466597 AT
1 AT
84466599 GGGAAAATAT
Statistics
Matches: 222, Mismatches: 35, Indels: 74
0.67 0.11 0.22
Matches are distributed among these distances:
8 16 0.07
9 85 0.38
10 81 0.36
11 28 0.13
12 9 0.04
13 3 0.01
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:84467599 original size:21 final size:21
Alignment explanation
Indices: 84467552--84467602 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
84467542 AGGTTTTACT
*
84467552 AATCCAATTGGTGTGGATTCA
1 AATCCCATTGGTGTGGATTCA
84467573 AATCCCATTGGTGTGGATTCA
1 AATCCCATTGGTGTGGATTCA
84467594 AATCCCATT
1 AATCCCATT
84467603 ATATGCGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
AATCCCATTGGTGTGGATTCA
Found at i:84475287 original size:17 final size:17
Alignment explanation
Indices: 84475254--84475299 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
84475244 AACAAATACA
*
84475254 GTTCCAGATTCAGATTCG
1 GTTCCA-ATTCAAATTCG
84475272 GTTCCAATTCAAATTCG
1 GTTCCAATTCAAATTCG
84475289 GTTCCAATTCA
1 GTTCCAATTCA
84475300 GATTTAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (17 bp):
GTTCCAATTCAAATTCG
Found at i:84476434 original size:16 final size:15
Alignment explanation
Indices: 84476411--84476452 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
84476401 CACTGAAACG
84476411 AAGAAAAAAAAAGAA
1 AAGAAAAAAAAAGAA
*
84476426 AAGGAAAAAAGGAAGAA
1 AA-GAAAAAA-AAAGAA
84476443 AAGAAAAAAA
1 AAGAAAAAAA
84476453 GACTACAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
17 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAGAA
Found at i:84476441 original size:17 final size:17
Alignment explanation
Indices: 84476411--84476453 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
84476401 CACTGAAACG
84476411 AAGAAAAAAA--AAGAA
1 AAGAAAAAAAGGAAGAA
*
84476426 AAGGAAAAAAGGAAGAA
1 AAGAAAAAAAGGAAGAA
84476443 AAGAAAAAAAG
1 AAGAAAAAAAG
84476454 ACTACAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.38
17 15 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAGGAAGAA
Found at i:84478240 original size:40 final size:40
Alignment explanation
Indices: 84478146--84478313 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
84478136 TACTCGAATG
* *
84478146 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
84478187 ACATCCAGACTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
84478227 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * **
84478267 ATATCCGGGTTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
84478306 ATATCCGG
1 ATATCCGG
84478314 CTTAACCCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.57
41 27 0.25
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:84480643 original size:295 final size:295
Alignment explanation
Indices: 84480107--84480761 Score: 736
Period size: 295 Copynumber: 2.2 Consensus size: 295
84480097 GTTACAATAA
* *
84480107 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATGCTAAAATACCCTCAAATAGTATAACTTATT
1 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
* * * **
84480172 TTAATTATAGAAGGGCATTTCCATAACTTTCTAACATAGTTGGTGACCCGATTGAGGAAGACTCT
66 TTAATTACAGAAGGACATTTCCATAACTTTCTAACATAGTTGGTGACCCAATTGAGGAAGAAACT
* * * * *
84480237 CAGTAAAACACTTAATAAGTAGTATGTATATATATAGCTAATGGAAATAATAACTTATGCATATT
131 CAGTAAAACACTTAATAAATAGTATGTATATATACAACTAATAGAAATAATAACATATGCATATT
** * * * * *
84480302 AAAATAAAAATGTATTAAATATATCAATATGAAGCTTTGATTGAGTGGTAAATTTAAGAT-TTTG
196 AAAATAAAAATGTAGAAAATACACCAATATGAAACTTTGATTGAGTGGTAAATTTAA-ATAATTA
* * *
84480366 CTATTCCAATTAGCA-CAAGCTCAAATCTTATTATAT
260 CTAATCCAACTAGCATC-AGCTCAAATCTTATCATAT
* *
84480402 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATATTAAAATACCATCAAATAATATAACTTATT
1 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
* * * * * * *
84480467 TTACTTACGGAAGGACATTTTCGTAATTTTTTAATCGA-A-TTGGTGACCCAATTGAGGGTGAAT
66 TTAATTACAGAAGGACATTTCCATAACTTTCTAA-C-ATAGTTGGTGACCCAATTGA--G-GAAG
* * * * *
84480530 AAACTCAGTAAAACACTTAATAAATATTATAG-ATA-A-ACAATTAATAGAGATGATAACATGTG
126 AAACTCAGTAAAACACTTAATAAATAGTAT-GTATATATACAACTAATAGAAATAATAACATATG
84480592 CATATTAAAATAAAAATGTAGAAAATACACCAA-ATGAAACTTT-AGTTGAGTGGTAAATTTAAA
190 CATATTAAAATAAAAATGTAGAAAATACACCAATATGAAACTTTGA-TTGAGTGGTAAATTTAAA
* * * * * *
84480655 TAATTATTAATCCAACTGGTATCGGTTCAAATTTTATCATAT
254 TAATTACTAATCCAACTAGCATCAGCTCAAATCTTATCATAT
* * * * *
84480697 GCATATTTTAATTGATTTTCGTTAAAATG-AAAGACCAAAATACCATCAAATAGGATAACTTATT
1 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
84480761 T
66 T
84480762 GAAACCAAAA
Statistics
Matches: 302, Mismatches: 49, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
294 34 0.11
295 182 0.60
296 50 0.17
297 3 0.01
298 32 0.11
299 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (295 bp):
GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
TTAATTACAGAAGGACATTTCCATAACTTTCTAACATAGTTGGTGACCCAATTGAGGAAGAAACT
CAGTAAAACACTTAATAAATAGTATGTATATATACAACTAATAGAAATAATAACATATGCATATT
AAAATAAAAATGTAGAAAATACACCAATATGAAACTTTGATTGAGTGGTAAATTTAAATAATTAC
TAATCCAACTAGCATCAGCTCAAATCTTATCATAT
Found at i:84483078 original size:17 final size:17
Alignment explanation
Indices: 84483040--84483081 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
84483030 GAAATCACAT
84483040 TCATTT-TTTAATATAA
1 TCATTTATTTAATATAA
* *
84483056 TCCATTTATTTAATTTTA
1 T-CATTTATTTAATATAA
84483074 TCATTTAT
1 TCATTTAT
84483082 ATTCATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 9 0.41
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (17 bp):
TCATTTATTTAATATAA
Found at i:84496885 original size:6 final size:6
Alignment explanation
Indices: 84496874--84496911 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
84496864 TTACCATCTC
84496874 TTTCTT TTTCTT TTTCTT TTTCTT TTTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
84496912 GCCAAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:84496897 original size:18 final size:17
Alignment explanation
Indices: 84496874--84496911 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
84496864 TTACCATCTC
84496874 TTTCTTTTTCTTTTTCTT
1 TTTCTTTTTC-TTTTCTT
84496892 TTTCTTTTTCTTTTCTT
1 TTTCTTTTTCTTTTCTT
84496909 TTT
1 TTT
84496912 GCCAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTTTCTTTTCTT
Found at i:84500927 original size:20 final size:20
Alignment explanation
Indices: 84500890--84500928 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
84500880 TTAAAGGACC
84500890 TTTTTGATGCATTTTATAAT
1 TTTTTGATGCATTTTATAAT
*
84500910 TTTTTTATG-ATTTCTATAA
1 TTTTTGATGCATTT-TATAA
84500929 AATTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTGATGCATTTTATAAT
Found at i:84500979 original size:19 final size:17
Alignment explanation
Indices: 84500932--84500976 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
84500922 TCTATAAAAT
*
84500932 TTTACAATTATATATATA
1 TTTATAATT-TATATATA
*
84500950 TTTATGATTTATATATA
1 TTTATAATTTATATATA
84500967 TTTATAATTT
1 TTTATAATTT
84500977 TTAGTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTATAATTTATATATA
Found at i:84501362 original size:16 final size:15
Alignment explanation
Indices: 84501338--84501367 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
84501328 AATTGAGTGT
84501338 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
84501353 AAAAAGAAAAAAGAA
1 AAAAA-AAAAAAGAA
84501368 TTTAATTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:84504079 original size:21 final size:21
Alignment explanation
Indices: 84504034--84504079 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
84504024 TAATTAAAGT
** * *
84504034 ATTATATTATATTGTATTATT
1 ATTATATTATAAAGTAATATA
84504055 ATTATATTATAAAGTAATATA
1 ATTATATTATAAAGTAATATA
84504076 ATTA
1 ATTA
84504080 AGAAATAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTATATTATAAAGTAATATA
Found at i:84504160 original size:19 final size:17
Alignment explanation
Indices: 84504136--84504176 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
84504126 GGGTAGCAGG
84504136 GGAAAGAAAGAAGAAAAGA
1 GGAAAGAAA-AAGAAAA-A
84504155 GGAAAGAAAAAGAAAAA
1 GGAAAGAAAAAGAAAAA
84504172 GGAAA
1 GGAAA
84504177 AATTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 7 0.32
19 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAAGAAAAA
Found at i:84505366 original size:18 final size:18
Alignment explanation
Indices: 84505326--84505369 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
84505316 TTGCTACGGA
* *
84505326 ATAATTGACTGTTATTGT
1 ATAACTGACTGTTATAGT
84505344 ATAACTGACTGTTATAG-
1 ATAACTGACTGTTATAGT
84505361 AGTAACTGA
1 A-TAACTGA
84505370 ATGCTACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (18 bp):
ATAACTGACTGTTATAGT
Found at i:84516634 original size:4 final size:4
Alignment explanation
Indices: 84516604--84516658 Score: 56
Period size: 4 Copynumber: 13.0 Consensus size: 4
84516594 GGGTTGAGAA
* * *
84516604 AATT ATTT AATT GATA AATT AATTT AATT AATTT AATT AATTT AATT AATT
1 AATT AATT AATT AATT AATT AA-TT AATT AA-TT AATT AA-TT AATT AATT
84516655 AATT
1 AATT
84516659 TTATTTATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 30 0.71
5 12 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (4 bp):
AATT
Found at i:84516634 original size:9 final size:9
Alignment explanation
Indices: 84516620--84516658 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
84516610 TTAATTGATA
84516620 AATTAATTT
1 AATTAATTT
84516629 AATTAATTT
1 AATTAATTT
84516638 AATTAATTT
1 AATTAATTT
84516647 AATTAA-TT
1 AATTAATTT
84516655 AATT
1 AATT
84516659 TTATTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AATTAATTT
Found at i:84516643 original size:13 final size:13
Alignment explanation
Indices: 84516620--84516669 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
84516610 TTAATTGATA
84516620 AATTAATTTAA-TT
1 AATTAA-TTAATTT
84516633 AATTTAATTAATTT
1 AA-TTAATTAATTT
84516647 AATTAATTAATTT
1 AATTAATTAATTT
* *
84516660 TATTTATTAA
1 AATTAATTAA
84516670 ATAATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 25 0.76
14 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:84516664 original size:18 final size:18
Alignment explanation
Indices: 84516606--84516681 Score: 68
Period size: 18 Copynumber: 4.3 Consensus size: 18
84516596 GTTGAGAAAA
* *
84516606 TTATTTAATTGA-TAAAT
1 TTATTTAATTAATTAATT
*
84516623 TAATTTAATTAATTTAA-T
1 TTATTTAATTAA-TTAATT
*
84516641 TAATTTAATTAATTAATT
1 TTATTTAATTAATTAATT
*
84516659 TTATTT-ATTAAATAATAT
1 TTATTTAATTAATTAAT-T
84516677 TTATT
1 TTATT
84516682 GGGTGCTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
17 23 0.45
18 25 0.49
19 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TTATTTAATTAATTAATT
Found at i:84520699 original size:664 final size:664
Alignment explanation
Indices: 84519431--84521412 Score: 3802
Period size: 664 Copynumber: 3.0 Consensus size: 664
84519421 TCCAGCCAAA
* * *
84519431 GCACCAATCAAATGATAGTTTTTAAGGGCACTTTAGGCAACATTTTAGGTTAGAGATTATCTATT
1 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
84519496 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
66 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
*
84519561 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTATGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
131 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
84519626 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
196 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
84519691 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
261 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
84519756 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
326 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
84519821 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
391 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
*
84519886 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAAATTTAG
456 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
84519951 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
521 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
*
84520016 GAGACACGAAGGTAATCTTGTTTCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
586 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
84520081 GATAGTGTTTAAGG
651 GATAGTGTTTAAGG
*
84520095 GCACCAATCAAATAATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
1 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
* *
84520160 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGTTTTTAGTTTTAGGTTAAAAAAGCTTATTAGTT
66 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
84520225 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
131 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
* *
84520290 GTTTATGTTTCTTTCTGGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACAAGT
196 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
84520355 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
261 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
*
84520420 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTACCTTTGTGTTAGTTGCTT
326 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
84520485 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
391 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
*
84520550 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACCTTAG
456 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
84520615 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
521 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
*
84520680 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATTGAAA
586 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
84520745 GATAGTGTTTAAGG
651 GATAGTGTTTAAGG
84520759 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
1 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
84520824 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
66 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
84520889 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
131 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
84520954 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
196 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
84521019 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
261 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
* *
84521084 TCTTTTCATCTATTGAAGCTTTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
326 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
84521149 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
391 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
*
84521214 AGCTTTTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
456 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
*
84521279 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATTTAGACAAGT
521 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
84521344 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
586 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
84521409 GATA
651 GATA
84521413 AATCAAAATT
Statistics
Matches: 1292, Mismatches: 26, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
664 1292 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (664 bp):
GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
GATAGTGTTTAAGG
Found at i:84521948 original size:12 final size:12
Alignment explanation
Indices: 84521931--84521961 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
84521921 GACATAAAAA
*
84521931 TAGGAGTGGGAT
1 TAGGAGTGGGAG
84521943 TAGGAGTGGGAG
1 TAGGAGTGGGAG
84521955 TAGGAGT
1 TAGGAGT
84521962 ATGAGTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.52, T:0.23
Consensus pattern (12 bp):
TAGGAGTGGGAG
Found at i:84525848 original size:27 final size:26
Alignment explanation
Indices: 84525806--84525972 Score: 172
Period size: 27 Copynumber: 6.2 Consensus size: 26
84525796 AGGAAGCGTC
*
84525806 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
84525833 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
84525860 CTGGTGGCTATGCTACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* * * *
84525887 CTGGTGGCTTTACCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
84525914 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
84525942 CTGGTGACTCTGTCACATTATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
84525969 CTGG
1 CTGG
84525973 CAGCCATGCT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.03
27 94 0.80
28 19 0.16
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:84525888 original size:54 final size:54
Alignment explanation
Indices: 84525806--84525972 Score: 237
Period size: 54 Copynumber: 3.1 Consensus size: 54
84525796 AGGAAGCGTC
*
84525806 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * *
84525860 CTGGTGGCTATGCTACGATTATCTGATCTGGTGGCTTTACCACATATTTCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * **
84525914 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTAT
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTGGCTCTACCACATATATCTGT-T
84525969 CTGG
1 CTGG
84525973 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
54 79 0.79
55 21 0.21
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:84525962 original size:81 final size:82
Alignment explanation
Indices: 84525806--84525972 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 82
84525796 AGGAAGCGTC
* *
84525806 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTTCTGGTGACTAT
84525871 GCTACGATTATCTG-AT
66 GCTACGATTATCTGTAT
* * *
84525887 CTGGTGGCTTTACCACATATT-TCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGAC
1 CTGGTGGCTATACCACA-ATTATCTGATCTGGTGGCTCTACCAC-ATATATCTGT-TCTGGTGAC
*
84525950 TCTG-TCAC-ATTATCTGTAT
63 TATGCT-ACGATTATCTGTAT
84525969 CTGG
1 CTGG
84525973 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
81 51 0.68
82 24 0.32
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (82 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTTCTGGTGACTAT
GCTACGATTATCTGTAT
Found at i:84527446 original size:75 final size:76
Alignment explanation
Indices: 84527313--84527454 Score: 191
Period size: 75 Copynumber: 1.9 Consensus size: 76
84527303 GTAAAACGGG
*
84527313 CTCACATGCCCATGAGGCCCCACACGCCCGTGTGGCCCACATTGCTCAAATTTTCCTTGGCCGTG
1 CTCACATGCCCATGAGGCCCCACACACCCGTGTGGCCCACATTGCTCAAATTTTCCTTGGCCGTG
84527378 TGACCCAAAAT
66 TGACCCAAAAT
** * * *
84527389 CTCACATGCCTGTGTGGGCCCACACACCC-TGTGGCCCACA-TGAC-CCAATTTTGCCTTGGCCG
1 CTCACATGCCCATGAGGCCCCACACACCCGTGTGGCCCACATTG-CTCAAATTTT-CCTTGGCCG
84527451 TGTG
64 TGTG
84527455 CCGCACACGG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
74 9 0.16
75 25 0.43
76 24 0.41
ACGTcount: A:0.18, C:0.37, G:0.22, T:0.23
Consensus pattern (76 bp):
CTCACATGCCCATGAGGCCCCACACACCCGTGTGGCCCACATTGCTCAAATTTTCCTTGGCCGTG
TGACCCAAAAT
Found at i:84533149 original size:26 final size:24
Alignment explanation
Indices: 84533086--84533154 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
84533076 TGAGCTGAAT
84533086 AGTAAGCTCATACGAGCTGAGAAC
1 AGTAAGCTCATACGAGCTGAGAAC
* * * *
84533110 AATAAGCTCTTACGAGCTGATATGTC
1 AGTAAGCTCATACGAGCTGAGA--AC
*
84533136 GGTAAGCTCATACGAGCTG
1 AGTAAGCTCATACGAGCTG
84533155 CTGTGAGTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 19 0.53
26 17 0.47
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (24 bp):
AGTAAGCTCATACGAGCTGAGAAC
Found at i:84534631 original size:16 final size:17
Alignment explanation
Indices: 84534602--84534633 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
84534592 TTTTGTTGTT
84534602 TTATTTTTACTTTTACA
1 TTATTTTTACTTTTACA
84534619 TTATTTTTA-TTTTAC
1 TTATTTTTACTTTTAC
84534634 TCTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTTTACTTTTACA
Found at i:84536856 original size:6 final size:6
Alignment explanation
Indices: 84536845--84536876 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
84536835 AAGTTTTCAA
*
84536845 TTTTAT TTTTAT TTTTAT CTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
84536877 AATGTGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:84541125 original size:23 final size:23
Alignment explanation
Indices: 84541099--84541145 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
84541089 CTCCATTTTG
84541099 TACATTCTTTGCAAAGAAAACAA
1 TACATTCTTTGCAAAGAAAACAA
84541122 TACATTCTTTGCAAAGAAAACAA
1 TACATTCTTTGCAAAGAAAACAA
84541145 T
1 T
84541146 CTCCTGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.28
Consensus pattern (23 bp):
TACATTCTTTGCAAAGAAAACAA
Found at i:84545242 original size:40 final size:40
Alignment explanation
Indices: 84545158--84545382 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
84545148 TTGAATGATG
* * * *
84545158 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
84545198 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
84545238 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84545277 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84545317 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84545358 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84545383 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84545404 original size:119 final size:119
Alignment explanation
Indices: 84545158--84545415 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
84545148 TTGAATGATG
* *
84545158 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * ** *
84545223 GTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
84545277 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
84545340 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
84545397 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
84545416 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:84546814 original size:43 final size:44
Alignment explanation
Indices: 84546767--84546867 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
84546757 AGAATGTGAG
* *
84546767 CTTTAGCGGCACTTTTATTGA-AAACGC-CA-CTAAAGGTCA-TGTT
1 CTTTAGCGGCA-TTTT-TTGATAAAAGCACAGCTAAAAGT-ATTGTT
* *
84546810 CTTTAGTGGCATTTTTTTATAAAAGCACAGCTAAAAGTATTGTT
1 CTTTAGCGGCATTTTTTGATAAAAGCACAGCTAAAAGTATTGTT
84546854 CTTTAGCGGCATTT
1 CTTTAGCGGCATTT
84546868 GTGAAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
41 3 0.06
42 9 0.18
43 13 0.27
44 24 0.49
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (44 bp):
CTTTAGCGGCATTTTTTGATAAAAGCACAGCTAAAAGTATTGTT
Found at i:84547691 original size:13 final size:14
Alignment explanation
Indices: 84547665--84547693 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
84547655 ACAAACAACG
84547665 AATTAAACCATTAT
1 AATTAAACCATTAT
84547679 AATTAAA-CATTAT
1 AATTAAACCATTAT
84547692 AA
1 AA
84547694 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:84550904 original size:40 final size:40
Alignment explanation
Indices: 84550849--84551111 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 40
84550839 GATGATAATG
84550849 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
*
84550889 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
84550929 GGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* * * * *
84550969 GGGCTAAGTCCTGAAGGCATTTGCGCGAGTTACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
84551009 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
* *
84551049 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTAAT-TCC
84551089 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
84551112 AGCGAGTAGC
Statistics
Matches: 207, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 203 0.98
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:84551125 original size:40 final size:40
Alignment explanation
Indices: 84550849--84551144 Score: 324
Period size: 40 Copynumber: 7.4 Consensus size: 40
84550839 GATGATAATG
*
84550849 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
* *
84550889 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
* * *
84550929 GGGCTAAGTCTCGAAGGCATTTGTGCTAGT-GACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
* * *
84550969 GGGCTAAGTCCTGAAGGCATTTGCGCGAGTTA-CTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTAATTCC
84551009 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTAAT-TCC
*
84551049 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTA-CT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTAGCTAAT-TCC
*
84551089 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAAT-TCC
* *
84551129 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
84551145 TACTTGGTTT
Statistics
Matches: 235, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
39 19 0.08
40 214 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAATTCC
Found at i:84553887 original size:51 final size:51
Alignment explanation
Indices: 84553824--84553925 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
84553814 CTTTTGCCCA
* **
84553824 AAATAACTTTGGTAAGTTGGCATTTGACAACATGCATCGAACCTTCTCCAT
1 AAATAACTTTGGTAAGGTGGCATTTGACAACATAAATCGAACCTTCTCCAT
* *
84553875 AAATGACTTTGGTAAGGTGGCATTTGACAATATAAATCGAACCTTCTCCAT
1 AAATAACTTTGGTAAGGTGGCATTTGACAACATAAATCGAACCTTCTCCAT
84553926 GATCGTTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (51 bp):
AAATAACTTTGGTAAGGTGGCATTTGACAACATAAATCGAACCTTCTCCAT
Found at i:84556673 original size:15 final size:15
Alignment explanation
Indices: 84556653--84556684 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84556643 TGGCACATAA
84556653 CAGAAAACTAGATGG
1 CAGAAAACTAGATGG
*
84556668 CAGAAAACTGGATGG
1 CAGAAAACTAGATGG
84556683 CA
1 CA
84556685 AAACTAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (15 bp):
CAGAAAACTAGATGG
Found at i:84558597 original size:27 final size:25
Alignment explanation
Indices: 84558538--84558609 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
84558528 CTGCTTGACC
*
84558538 CCGCTACTGCTTAACCTTTT-AACG
1 CCGCTACTGCTTGACCTTTTGAACG
*
84558562 CCGCTACTGCTTGACCTTTTGCAAATG
1 CCGCTACTGCTTGACCTTTTG--AACG
*
84558589 CCGCTACTGTTTGACCTTTTG
1 CCGCTACTGCTTGACCTTTTG
84558610 TGGTGTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 19 0.45
27 23 0.55
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (25 bp):
CCGCTACTGCTTGACCTTTTGAACG
Found at i:84559110 original size:16 final size:16
Alignment explanation
Indices: 84559089--84559122 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
84559079 CTATGTGTTC
84559089 TTTA-TTTTATTTTATT
1 TTTATTTTTATTTT-TT
84559105 TTTATTTTTATTTTTT
1 TTTATTTTTATTTTTT
84559121 TT
1 TT
84559123 CACAAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTATTTTTATTTTTT
Found at i:84567651 original size:43 final size:43
Alignment explanation
Indices: 84567549--84567660 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
84567539 TGTGTATTTG
* * * *
84567549 TGTAATACCACGTCTGGGATGTTGGCATCATTATGTGATTACG
1 TGTAAGACCACGTCTGGGAAGTTGGCATCAATATGTGATTACA
84567592 TGTAAGACC-CTGTCTGGGACAG-TGGCATCAATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCATCAATATGTGATTACA
* *
84567635 TGTAAGACCACATCT-GGACGTTGGCA
1 TGTAAGACCACGTCTGGGAAGTTGGCA
84567661 ATGTACGATA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 9 0.15
43 47 0.80
44 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGAAGTTGGCATCAATATGTGATTACA
Found at i:84573171 original size:56 final size:56
Alignment explanation
Indices: 84573105--84573328 Score: 272
Period size: 56 Copynumber: 4.0 Consensus size: 56
84573095 GACCATGGCA
* * *
84573105 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGTATCGGTATGTGATT
1 TCGATATATGTGTGAGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
* * * *
84573161 TCGATATATGTGTGAAAATAAGACCACGTTTAATACGTTAGCATCGATATGTGATT
1 TCGATATATGTGTGAGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
* *
84573217 CCGATATATGTGTGAGAGTAAGACCACATTTAATACATTGGCATCGATATGTGA-T
1 TCGATATATGTGTGAGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
* * * *** *
84573272 TCCATTATATGTGTGCGAGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATT
1 TCGA-TATATGTGTGAGAGTAAGACCAC-GTTTAATACATTGGCATCGATATGTGATT
84573329 ATATGTAAGA
Statistics
Matches: 143, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
55 4 0.03
56 138 0.97
57 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGAGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATT
Found at i:84573942 original size:23 final size:23
Alignment explanation
Indices: 84573916--84573961 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
84573906 ATAGATTTTG
84573916 GAGATTAGTTTAAATTCAAACCT
1 GAGATTAGTTTAAATTCAAACCT
84573939 GAGATTAGTTTAAATTCAAACCT
1 GAGATTAGTTTAAATTCAAACCT
84573962 ATGGCATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
GAGATTAGTTTAAATTCAAACCT
Found at i:84578656 original size:12 final size:13
Alignment explanation
Indices: 84578639--84578671 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84578629 AGTTGGTACA
84578639 TGGTTAGCA-AGT
1 TGGTTAGCAGAGT
*
84578651 TGGTTAGTAGAGT
1 TGGTTAGCAGAGT
84578664 TGGTTAGC
1 TGGTTAGC
84578672 CGAGGTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.21, C:0.06, G:0.36, T:0.36
Consensus pattern (13 bp):
TGGTTAGCAGAGT
Found at i:84583762 original size:13 final size:13
Alignment explanation
Indices: 84583733--84583767 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
84583723 TAGTAACAGA
84583733 GTTAGCA-AGTTG
1 GTTAGCAGAGTTG
84583745 GTTAGCAGAGTTG
1 GTTAGCAGAGTTG
*
84583758 TTTAGCAGAG
1 GTTAGCAGAG
84583768 GTTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.31
Consensus pattern (13 bp):
GTTAGCAGAGTTG
Found at i:84587164 original size:12 final size:11
Alignment explanation
Indices: 84587143--84587178 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
84587133 TTAATACATG
84587143 ATATAAAAATA
1 ATATAAAAATA
84587154 ATATCAAAAATA
1 ATAT-AAAAATA
84587166 ATATGAAAAATA
1 ATAT-AAAAATA
84587178 A
1 A
84587179 ATTAATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:84587582 original size:61 final size:60
Alignment explanation
Indices: 84587512--84587822 Score: 203
Period size: 61 Copynumber: 5.2 Consensus size: 60
84587502 ATTTTATAGT
*
84587512 ATTATATATTATGATTTTAGTAAATTCATATAATGATATTTACTATTAATAATTTTATTAA
1 ATTATATATTATGATTTGAGTAAATTCATATAATGATATTTA-TATTAATAATTTTATTAA
* * ** * * * * * * *
84587573 ATTATATATTTTTATTAAATTATATTTA-AAAATAATTAATTTA-ATTTAT-ATTTTA-TAGT
1 ATTATATATTATGATTTGAGTAAATTCATATAATGA-T-ATTTATATTAATAATTTTATTA-A
* * *
84587632 ATCATATATTATGATTTGAGTAAATTCATATAA-GAATATTAATTATTAAGAATTTTATTAA
1 ATTATATATTATGATTTGAGTAAATTCATATAATG-ATATTTA-TATTAATAATTTTATTAA
* * * * * * * *
84587693 ATTATATATTTTAATTAT-AATATATTTA-ATAATAATTATGTTA-ATTTAT-ATTTTA-TAGT
1 ATTATATATTATGATT-TGAGTAAATTCATATAATGA-TAT-TTATATTAATAATTTTATTA-A
* * *
84587752 ATCATATATTATGATTTGAGTAAATTCATATAA-GAATATTAATTATTAAGAATTTTATTAA
1 ATTATATATTATGATTTGAGTAAATTCATATAATG-ATATTTA-TATTAATAATTTTATTAA
84587813 ATTATATATT
1 ATTATATATT
84587823 TTAATTATAA
Statistics
Matches: 181, Mismatches: 48, Indels: 42
0.67 0.18 0.15
Matches are distributed among these distances:
58 11 0.06
59 56 0.31
60 36 0.20
61 66 0.36
62 12 0.07
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (60 bp):
ATTATATATTATGATTTGAGTAAATTCATATAATGATATTTATATTAATAATTTTATTAA
Done.