Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 239 of 292
Found at i:69438472 original size:19 final size:18
Alignment explanation
Indices: 69438449--69438496 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
69438439 TTTTAATCAT
69438449 AATTTTTTATTTTTTTAA
1 AATTTTTTATTTTTTTAA
**
69438467 ATATTTTTT-TAATTTTAA
1 A-ATTTTTTATTTTTTTAA
*
69438485 AGTTTTTTATTT
1 AATTTTTTATTT
69438497 AAAATACAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
17 6 0.26
18 10 0.43
19 7 0.30
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
AATTTTTTATTTTTTTAA
Found at i:69438497 original size:20 final size:19
Alignment explanation
Indices: 69438449--69438498 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
69438439 TTTTAATCAT
69438449 AATTTTTTATTT--TTTTA
1 AATTTTTTATTTAATTTTA
*
69438466 AATATTTT-TTTAATTTTA
1 AATTTTTTATTTAATTTTA
69438484 AAGTTTTTTATTTAA
1 AA-TTTTTTATTTAA
69438499 AATACAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.11
17 7 0.26
18 7 0.26
19 5 0.19
20 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
AATTTTTTATTTAATTTTA
Found at i:69440910 original size:18 final size:18
Alignment explanation
Indices: 69440874--69440909 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
69440864 ATTAAAGGAG
*
69440874 GGAAGAAGAAAGGTAAAA
1 GGAAGAAGAAAGATAAAA
69440892 GGAAGAAGAAAAGATAAA
1 GGAAGAAG-AAAGATAAA
69440910 GTACTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.06
Consensus pattern (18 bp):
GGAAGAAGAAAGATAAAA
Found at i:69454684 original size:21 final size:21
Alignment explanation
Indices: 69454658--69454697 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69454648 TACTGGAAAA
*
69454658 TGACCAATATAAAAATAATTG
1 TGACCAAAATAAAAATAATTG
*
69454679 TGACCAAAATAGAAATAAT
1 TGACCAAAATAAAAATAAT
69454698 AAAAAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (21 bp):
TGACCAAAATAAAAATAATTG
Found at i:69457322 original size:2 final size:2
Alignment explanation
Indices: 69457317--69457367 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
69457307 ATATATATAT
69457317 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
69457359 AG AG AG AG A
1 AG AG AG AG A
69457368 TAGGAGGGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:69460979 original size:16 final size:15
Alignment explanation
Indices: 69460958--69461005 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
69460948 GATGTGAATA
69460958 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
69460974 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
69460989 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
69461005 A
1 A
69461006 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:69460988 original size:8 final size:8
Alignment explanation
Indices: 69460954--69461005 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
69460944 CAATGATGTG
*
69460954 AATAATAA
1 AATATTAA
69460962 AATATATAA
1 AATAT-TAA
69460971 AATA-TAA
1 AATATTAA
69460978 AATATTAA
1 AATATTAA
*
69460986 AATATCAA
1 AATATTAA
*
69460994 AATATTAG
1 AATATTAA
69461002 AATA
1 AATA
69461006 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:69461005 original size:24 final size:24
Alignment explanation
Indices: 69460953--69461009 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
69460943 ACAATGATGT
*
69460953 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
69460977 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
69461001 GAATAATAA
1 GAATAATAA
69461010 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:69461226 original size:22 final size:24
Alignment explanation
Indices: 69461163--69461227 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
69461153 CGTGATAATA
*
69461163 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
69461188 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
69461211 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
69461228 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:69461301 original size:25 final size:25
Alignment explanation
Indices: 69461244--69461304 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
69461234 ATGTAGAAAA
*
69461244 AAAAAATATA-AAATAATATAATAT
1 AAAAAATATATAAATAAAATAATAT
* * *
69461268 TAAAGATATATAAATAAAATAGTAT
1 AAAAAATATATAAATAAAATAATAT
*
69461293 AAAATATATATA
1 AAAAAATATATA
69461305 TACGTAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (25 bp):
AAAAAATATATAAATAAAATAATAT
Found at i:69461901 original size:30 final size:30
Alignment explanation
Indices: 69461865--69461979 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
69461855 TAGGTACAAG
* *
69461865 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69461895 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
69461925 TGGTGGTGGAAAAGGTGTGGCTAGTGAAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
69461955 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
69461980 TGAGAAAAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:69462746 original size:14 final size:14
Alignment explanation
Indices: 69462727--69462775 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
69462717 GAGTTGATTT
* *
69462727 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
69462741 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
69462756 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
69462770 TT-AAAA
1 TTGAAAA
69462776 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:69462920 original size:75 final size:74
Alignment explanation
Indices: 69462756--69462923 Score: 214
Period size: 73 Copynumber: 2.3 Consensus size: 74
69462746 AAAACAGAAA
* *
69462756 TTGAAAAGCAGAAATT-AAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGACTCAACTCACCTCTCGCAATAT
69462820 GAGTTAATTT
65 GAGTTAATTT
* ** * * *
69462830 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTTTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGACTCAACTCACCTCTCGCAATATG
*
69462894 AGTTGATTTTT
66 AGTT-A-ATTT
69462905 TTGAAAAACAGAAATTGAA
1 TTGAAAAACAGAAATTGAA
69462924 GAACAGAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
73 34 0.42
74 15 0.19
75 32 0.40
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGACTCAACTCACCTCTCGCAATATG
AGTTAATTT
Found at i:69462928 original size:14 final size:14
Alignment explanation
Indices: 69462905--69462939 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
69462895 GTTGATTTTT
69462905 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
69462919 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
69462933 TTGAAAA
1 TTGAAAA
69462940 GACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:69462953 original size:164 final size:160
Alignment explanation
Indices: 69462745--69463078 Score: 589
Period size: 164 Copynumber: 2.1 Consensus size: 160
69462735 TATAAATTGA
69462745 AAAAACAGAAATTGAAAAGCAGAAATTAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCT
1 AAAAACAGAAATTGAAAAGCAGAAATTAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCT
69462810 CTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCA
66 CTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT-CCGAGGCTCA
* *
69462875 ACTCACCTTTCGCAATATGAGTTGATTTTTTTG
130 ACTCACCTCTCGCAATATGAGTCGA--TTTTTG
*
69462908 AAAAACAGAAATTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCAC
1 AAAAACAGAAATTGAA-AAGCAGAAATT-AAAAGACCTCAGCATGTGAGCCGAGACTCAACTCAC
69462972 CTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTC
64 CTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTC
69463037 AACTCACCTCTCGCAATATGAGTCGATTTTTG
129 AACTCACCTCTCGCAATATGAGTCGATTTTTG
69463069 AAAAACAGAA
1 AAAAACAGAA
69463079 TTTTAAAAAT
Statistics
Matches: 166, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
161 16 0.10
163 57 0.34
164 93 0.56
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (160 bp):
AAAAACAGAAATTGAAAAGCAGAAATTAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCT
CTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAA
CTCACCTCTCGCAATATGAGTCGATTTTTG
Found at i:69463003 original size:89 final size:89
Alignment explanation
Indices: 69462836--69463012 Score: 259
Period size: 89 Copynumber: 2.0 Consensus size: 89
69462826 ATTTTTGACA
** * *
69462836 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
69462901 TTTTTTGAAAAACAGAAATTGAAG
66 ATTTTTGAAAAACAGAAATTGAAG
*
69462925 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AACAGAAATTGAAAAGACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
69462989 A-ATTTTTGACAAACAGAAATTGAA
64 ATATTTTTGAAAAACAGAAATTGAA
69463013 ATTACCTCAG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 43 0.54
90 1 0.01
91 35 0.44
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (89 bp):
AACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
ATTTTTGAAAAACAGAAATTGAAG
Found at i:69463049 original size:72 final size:72
Alignment explanation
Indices: 69462919--69463159 Score: 306
Period size: 72 Copynumber: 3.3 Consensus size: 72
69462909 AAAACAGAAA
* * *
69462919 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
*
69462984 GAGTTAATTT
63 GAGTTGATTT
* *
69462994 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
69463059 TCGATTT
66 TTGATTT
* * * *
69463066 TTGAAAAACAGAATTTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTTACCTCTCACAATATG
1 TTGAAAAACAGAA-ATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATG
69463131 AGTTGA-TT
64 AGTTGATTT
*
69463139 TTGAAAAAGTAGAAATT-AAAA
1 TTGAAAAA-CAGAAATTGAAAA
69463160 GGTTCAACCC
Statistics
Matches: 147, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
72 52 0.35
73 35 0.24
74 34 0.23
75 26 0.18
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (72 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:69463260 original size:140 final size:140
Alignment explanation
Indices: 69463070--69463416 Score: 604
Period size: 140 Copynumber: 2.5 Consensus size: 140
69463060 CGATTTTTGA
* * * * *
69463070 AAAACAGAATTTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTTACCTCTCACAATATGAGTT
1 AAAACAGAA-ATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
69463135 GATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAAC
65 GATTTAGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAAC
69463200 AACGTAAATTG
130 AACGTAAATTG
* * *
69463211 AAAACAGAAATTGAAAATACCTCAACATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
69463276 ATTTAGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
66 ATTTAGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
69463341 ACGTAAATTG
131 ACGTAAATTG
69463351 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
69463416 A
66 A
69463417 AATTAAAATA
Statistics
Matches: 194, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
140 185 0.95
141 9 0.05
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (140 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTAGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACA
ACGTAAATTG
Found at i:69463349 original size:54 final size:54
Alignment explanation
Indices: 69463249--69463354 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
69463239 GACCTGAGGC
*
69463249 TCAACTCACCTCTCGCAATATGAGCTGATTTAGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTAGAAAAAGTA-AAATTGAAAAGGT
* * *
69463303 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TAGAA-AAAGTAAAATTGAAAA
69463355 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 33 0.73
55 8 0.18
56 4 0.09
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTAGAAAAAGTAAAATTGAAAAGGT
Found at i:69463502 original size:72 final size:71
Alignment explanation
Indices: 69463345--69463510 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
69463335 TGAACAACGT
* * * *
69463345 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
69463410 GAGTTG
66 GAGTTG
*
69463416 AAATTAAAATACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
69463481 TGAGTTG
65 TGAGTTG
**
69463488 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
69463511 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:69463605 original size:122 final size:125
Alignment explanation
Indices: 69463385--69463614 Score: 367
Period size: 122 Copynumber: 1.9 Consensus size: 125
69463375 GCGTGACCTG
* *
69463385 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAATACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAATACAAAAACTAAAAATACCTCAGCG
69463450 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * * *
69463510 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAATACAAAAACTAAAAATACCTCAGCG
* *
69463572 TGCCCCGAGGCTCAACTCACCTCTCGGAATATGAGTTGATTTT
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
69463615 TTTGACAAAC
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
122 62 0.64
123 7 0.07
124 1 0.01
125 27 0.28
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAATACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:69463657 original size:75 final size:75
Alignment explanation
Indices: 69463510--69463788 Score: 340
Period size: 75 Copynumber: 3.7 Consensus size: 75
69463500 AAAAATTAAA
* * * * *
69463510 AGGCTTAACTCACCTCTCGCAATATGAG-TCA---ATTT-A-AAACATAAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAATACCTCA
*
69463569 GCGTGCCCCG
66 GCGTGCCCTG
* *
69463579 AGGCTCAACTCACCTCTCGGAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAATACCTCA
*
69463644 GCGTGTCCTG
66 GCGTGCCCTG
*
69463654 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAGCAAAAATTGAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG---A-CA-AA-CATAAATTGAAAAT
69463719 ACCTCAGCGTGCCCTG
60 ACCTCAGCGTGCCCTG
* *
69463735 AGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTGAAAAACATAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAA
69463789 GAAAACAGAA
Statistics
Matches: 182, Mismatches: 16, Indels: 20
0.83 0.07 0.09
Matches are distributed among these distances:
69 26 0.14
70 2 0.01
73 13 0.07
74 3 0.02
75 68 0.37
76 1 0.01
78 1 0.01
79 8 0.04
80 2 0.01
81 58 0.32
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAATACCTCA
GCGTGCCCTG
Found at i:69463795 original size:16 final size:16
Alignment explanation
Indices: 69463774--69463804 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69463764 TGATTTTTGA
*
69463774 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
69463790 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
69463805 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:69463940 original size:87 final size:87
Alignment explanation
Indices: 69463616--69463968 Score: 470
Period size: 89 Copynumber: 4.1 Consensus size: 87
69463606 GTTGATTTTT
* * * *
69463616 TTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
69463681 GTTGATTTTTTTGAAAAGCAT-AA
66 GTTGA--TTTTTGAAAAGCATAAA
*
69463704 --G-----CAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
69463762 GCTGATTTTTGAAAAACATAAA
66 GTTGATTTTTGAAAAGCATAAA
* * *
69463784 TTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-A-AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
69463849 GAGTTGATTTTTGAAAAGCATAAA
64 GAGTTGATTTTTGAAAAGCATAAA
** * *
69463873 TTGAAAAATGGAAATTGAAAATACCTCAGCGTACCCTGAAGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
69463938 GTTGATTTTTTTGAAAAGCATAAA
66 GTTGA--TTTTTGAAAAGCATAAA
69463962 TTGAAAA
1 TTGAAAA
69463969 TACCTCAACG
Statistics
Matches: 235, Mismatches: 18, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
79 13 0.06
80 2 0.01
81 58 0.25
82 1 0.00
86 1 0.00
87 59 0.25
88 1 0.00
89 100 0.43
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAGCATAAA
Found at i:69464070 original size:73 final size:72
Alignment explanation
Indices: 69463883--69464107 Score: 297
Period size: 73 Copynumber: 3.1 Consensus size: 72
69463873 TTGAAAAATG
*
69463883 GAAATTGAAAATACCTCAGCGTACCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGCCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
69463948 TTGAAAAGCA
64 TTGAAAA-CA
* * * * * ** *
69463958 TAAATTGAAAATACCTCAACGTGTCTTGAAGCTCGACTCATTTCTCGCAATATGAGTTGAGTTTT
1 GAAATTGAAAATACCTCAGCGTGCCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
69464023 GACAAATA
66 GA-AAACA
* * *
69464031 GAAATTGAAATTACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGCCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
69464096 GAAAACA
66 GAAAACA
69464103 GAAAT
1 GAAAT
69464108 AAAACATCAA
Statistics
Matches: 127, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
72 9 0.07
73 63 0.50
74 3 0.02
75 52 0.41
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (72 bp):
GAAATTGAAAATACCTCAGCGTGCCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAACA
Found at i:69465670 original size:1 final size:1
Alignment explanation
Indices: 69465659--69465689 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
69465649 GACCTCTCCA
*
69465659 TTTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
69465690 GCTTTTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:69466301 original size:5 final size:5
Alignment explanation
Indices: 69466270--69466328 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
69466260 TGGCTTTTGA
* * *
69466270 TTTT- TTTTC TTGTC CTTT- TTTTA TTTTC TTTT- TTTTC TTTTC TTTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC
69466318 TTTTTC TTTTC
1 -TTTTC TTTTC
69466329 ATGACTATCG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
4 11 0.24
5 24 0.52
6 11 0.24
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:69466301 original size:11 final size:10
Alignment explanation
Indices: 69466287--69466328 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
69466277 TCTTGTCCTT
69466287 TTTTTATTTTC
1 TTTTT-TTTTC
69466298 -TTTTTTTTC
1 TTTTTTTTTC
69466307 TTTTCTTTTTC
1 TTTT-TTTTTC
69466318 TTTTTCTTTTC
1 TTTTT-TTTTC
69466329 ATGACTATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.18
10 8 0.29
11 15 0.54
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:69466310 original size:14 final size:14
Alignment explanation
Indices: 69466270--69466316 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
69466260 TGGCTTTTGA
*
69466270 TTTTTTTTCTTGTC
1 TTTTTTTTCTTTTC
* *
69466284 CTTTTTTTATTTTC
1 TTTTTTTTCTTTTC
69466298 TTTTTTTTCTTTTC
1 TTTTTTTTCTTTTC
69466312 TTTTT
1 TTTTT
69466317 CTTTTTCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:69470190 original size:16 final size:15
Alignment explanation
Indices: 69470169--69470216 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
69470159 GATGTGAATA
69470169 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
69470185 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
69470200 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
69470216 A
1 A
69470217 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:69470199 original size:8 final size:8
Alignment explanation
Indices: 69470165--69470216 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
69470155 CAATGATGTG
*
69470165 AATAATAA
1 AATATTAA
69470173 AATATATAA
1 AATAT-TAA
69470182 AATA-TAA
1 AATATTAA
69470189 AATATTAA
1 AATATTAA
*
69470197 AATATCAA
1 AATATTAA
*
69470205 AATATTAG
1 AATATTAA
69470213 AATA
1 AATA
69470217 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:69470216 original size:24 final size:24
Alignment explanation
Indices: 69470164--69470220 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
69470154 ACAATGATGT
*
69470164 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
69470188 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
69470212 GAATAATAA
1 GAATAATAA
69470221 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:69470434 original size:22 final size:24
Alignment explanation
Indices: 69470371--69470435 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
69470361 CGTGATAATA
*
69470371 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
69470396 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
69470419 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
69470436 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:69470494 original size:14 final size:13
Alignment explanation
Indices: 69470454--69470504 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
69470444 GTAGAAAAAA
69470454 AAAATATATAAAT
1 AAAATATATAAAT
* *
69470467 AATATA-AT-ATT
1 AAAATATATAAAT
69470478 AAAGATATATAAAT
1 AAA-ATATATAAAT
69470492 AAAATAGTATAAA
1 AAAATA-TATAAA
69470505 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 4 0.13
12 5 0.17
13 10 0.33
14 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:69470515 original size:27 final size:25
Alignment explanation
Indices: 69470452--69470513 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
69470442 ATGTAGAAAA
* *
69470452 AAAAAATATATAAATAATATAATAT
1 AAAAGATATATAAATAAAATAATAT
* *
69470477 TAAAGATATATAAATAAAATAGTAT
1 AAAAGATATATAAATAAAATAATAT
*
69470502 AAAATATATATA
1 AAAAGATATATA
69470514 TACGTAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
AAAAGATATATAAATAAAATAATAT
Found at i:69471114 original size:30 final size:30
Alignment explanation
Indices: 69471078--69471192 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
69471068 TAGGTACAAG
* *
69471078 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69471108 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
69471138 TGGTGGTGGAAAAGGTGTGGCTAGTGAAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
69471168 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
69471193 TGAGAAAAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:69472904 original size:48 final size:48
Alignment explanation
Indices: 69472848--69472945 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
69472838 TTTTTTTGAG
69472848 AGAGTTGGAACCTGCTGGGGGCTGATTCTCTTGTGCAAAGTCTGACTT
1 AGAGTTGGAACCTGCTGGGGGCTGATTCTCTTGTGCAAAGTCTGACTT
69472896 AGAGTTGGAACCTGCTGGGGGCTGATTCTCTTGTGCAAAGTCTGACTT
1 AGAGTTGGAACCTGCTGGGGGCTGATTCTCTTGTGCAAAGTCTGACTT
69472944 AG
1 AG
69472946 GCATTTTGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (48 bp):
AGAGTTGGAACCTGCTGGGGGCTGATTCTCTTGTGCAAAGTCTGACTT
Found at i:69473483 original size:6 final size:6
Alignment explanation
Indices: 69473472--69473517 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
69473462 TTACACTATC
*
69473472 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAGT TTTAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
69473518 TTTGGTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:69478507 original size:18 final size:18
Alignment explanation
Indices: 69478486--69478520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69478476 TTTTGAAAAT
69478486 ATTTAAAATATTAATATA
1 ATTTAAAATATTAATATA
**
69478504 ATTTATTATATTAATAT
1 ATTTAAAATATTAATAT
69478521 TCCAATTTTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAAAATATTAATATA
Found at i:69479437 original size:24 final size:23
Alignment explanation
Indices: 69479410--69479454 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
69479400 TTGGGAATAT
*
69479410 CAAAAGTTGACTTCCTAGGGTTCC
1 CAAAAATTGACTT-CTAGGGTTCC
*
69479434 CAAAAATTGACTTTTAGGGTT
1 CAAAAATTGACTTCTAGGGTT
69479455 TTGAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (23 bp):
CAAAAATTGACTTCTAGGGTTCC
Found at i:69497394 original size:15 final size:14
Alignment explanation
Indices: 69497348--69497402 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
69497338 TAAGCTAGAT
69497348 AATATAAA-AACTAA
1 AATATAAACAA-TAA
*
69497362 AA-ATTAAACAATAC
1 AATA-TAAACAATAA
69497376 AATATAAACTAATAA
1 AATATAAAC-AATAA
69497391 AATATGAAACAA
1 AATAT-AAACAA
69497403 AAATTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 15 0.44
15 14 0.41
16 4 0.12
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (14 bp):
AATATAAACAATAA
Found at i:69505247 original size:6 final size:6
Alignment explanation
Indices: 69505238--69505268 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
69505228 AGAGAAAGAT
69505238 GGAGAC GGAGAC GGAGAC GGAGAC GGAGAC G
1 GGAGAC GGAGAC GGAGAC GGAGAC GGAGAC G
69505269 ATGGTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAGAC
Found at i:69510968 original size:13 final size:13
Alignment explanation
Indices: 69510962--69510989 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
69510952 TTAAAAATGT
69510962 AAATTAATAAATA
1 AAATTAATAAATA
69510975 AAATTAATAAATA
1 AAATTAATAAATA
69510988 AA
1 AA
69510990 GGTCAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAATAAATA
Found at i:69512170 original size:7 final size:7
Alignment explanation
Indices: 69512158--69512191 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
69512148 AGCTAATGTA
69512158 AGGGTTT
1 AGGGTTT
69512165 AGGGTTTT
1 AGGG-TTT
69512173 AGGGTTT
1 AGGGTTT
69512180 AGGGTTT
1 AGGGTTT
69512187 AGGGT
1 AGGGT
69512192 ATTGGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Found at i:69512178 original size:15 final size:14
Alignment explanation
Indices: 69512158--69512191 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
69512148 AGCTAATGTA
69512158 AGGGTTTAGGGTTTT
1 AGGGTTTAGGG-TTT
69512173 AGGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
69512187 AGGGT
1 AGGGT
69512192 ATTGGTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:69513230 original size:17 final size:17
Alignment explanation
Indices: 69513208--69513242 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69513198 TGTGACCCAA
69513208 GTCAGAGAGTTACACGG
1 GTCAGAGAGTTACACGG
69513225 GTCAGAGAGTTACACGG
1 GTCAGAGAGTTACACGG
69513242 G
1 G
69513243 GTCGGACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.37, T:0.17
Consensus pattern (17 bp):
GTCAGAGAGTTACACGG
Found at i:69517918 original size:27 final size:27
Alignment explanation
Indices: 69517888--69517939 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
69517878 CATATAACTG
69517888 ATTCATATAACCATTTAACATATCTGT
1 ATTCATATAACCATTTAACATATCTGT
* * *
69517915 ATTCATCTAACCATTTCATATATCT
1 ATTCATATAACCATTTAACATATCT
69517940 ATTTTTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTCATATAACCATTTAACATATCTGT
Found at i:69517952 original size:17 final size:15
Alignment explanation
Indices: 69517928--69517962 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
69517918 CATCTAACCA
*
69517928 TTTCATATATCTATT
1 TTTCATATATTTATT
69517943 TTTCATATATTTATT
1 TTTCATATATTTATT
69517958 TTTCA
1 TTTCA
69517963 CCCAATGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCATATATTTATT
Found at i:69519087 original size:14 final size:14
Alignment explanation
Indices: 69519068--69519096 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
69519058 CGATCTAAGG
69519068 ATAAAGATGATGAA
1 ATAAAGATGATGAA
69519082 ATAAAGATGATGAA
1 ATAAAGATGATGAA
69519096 A
1 A
69519097 AATGCCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
ATAAAGATGATGAA
Found at i:69534629 original size:5 final size:6
Alignment explanation
Indices: 69534589--69534647 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
69534579 AATATAAGAG
* * *
69534589 AAAAAT AAACAT AAAAAG AAAAA- AGACACAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT A-A-AAAT AAAAAT AAAAAT AAAAAT
69534638 -AAAAT AAAAA
1 AAAAAT AAAAA
69534648 CAAGCGGACT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 6 0.14
6 34 0.77
7 3 0.07
8 1 0.02
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:69536128 original size:25 final size:25
Alignment explanation
Indices: 69536100--69536149 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
69536090 ATAAATGATT
69536100 GATAAAA-TTAAAAAAATAAAATAAA
1 GATAAAAGTTAAAAAAA-AAAATAAA
*
69536125 GATAAAAGTTAAAAATAAAAATAAA
1 GATAAAAGTTAAAAAAAAAAATAAA
69536150 TAAGATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (25 bp):
GATAAAAGTTAAAAAAAAAAATAAA
Found at i:69541357 original size:3 final size:3
Alignment explanation
Indices: 69541349--69541432 Score: 107
Period size: 3 Copynumber: 28.0 Consensus size: 3
69541339 TTATGTTGTA
*
69541349 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
69541397 ATT ATT ACC ATT CTTT ATT ATT -TT CTT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
69541433 CTTTTCATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.03
3 66 0.94
4 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:69542991 original size:6 final size:6
Alignment explanation
Indices: 69542976--69543037 Score: 88
Period size: 6 Copynumber: 10.3 Consensus size: 6
69542966 ATTGAGTCCA
* * *
69542976 TTTATC TTTATG TTTATT TTTATT TCTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
69543024 TTTATG TTTATT TT
1 TTTATT TTTATT TT
69543038 GTTTTCCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:69546580 original size:6 final size:7
Alignment explanation
Indices: 69546561--69546586 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
69546551 TATGTTAAGA
69546561 AGTTTTT
1 AGTTTTT
69546568 AGTTTTT
1 AGTTTTT
69546575 AGTTTTT
1 AGTTTTT
69546582 AGTTT
1 AGTTT
69546587 CAATTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (7 bp):
AGTTTTT
Found at i:69548648 original size:21 final size:21
Alignment explanation
Indices: 69548600--69548648 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
69548590 ATTAAGGAAC
* *
69548600 CTTTA-AAAATATTGGTGAAT
1 CTTTAGAAAATATTGCTAAAT
*
69548620 CCTT-GAAAATATTGCTAAAT
1 CTTTAGAAAATATTGCTAAAT
69548640 CTTTAGAAA
1 CTTTAGAAA
69548649 TTTTGATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
CTTTAGAAAATATTGCTAAAT
Found at i:69549511 original size:25 final size:25
Alignment explanation
Indices: 69549478--69549530 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
69549468 TTATATTTTA
69549478 AAAAATATTTTAATATATGAAATAT
1 AAAAATATTTTAATATATGAAATAT
69549503 AAAAATATTTTAATATATGAAATAT
1 AAAAATATTTTAATATATGAAATAT
69549528 AAA
1 AAA
69549531 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
AAAAATATTTTAATATATGAAATAT
Found at i:69552991 original size:17 final size:18
Alignment explanation
Indices: 69552969--69553005 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
69552959 ATTTTGGATA
*
69552969 TAATTT-TTTAGGTATTT
1 TAATTTATTTAGGCATTT
69552986 TAATTTATTTAGGCATTT
1 TAATTTATTTAGGCATTT
69553004 TA
1 TA
69553006 TGTTTGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (18 bp):
TAATTTATTTAGGCATTT
Found at i:69562185 original size:21 final size:21
Alignment explanation
Indices: 69562159--69562232 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 21
69562149 ATTGGTCTGA
69562159 TTAATTAATTAATAATTTAAT
1 TTAATTAATTAATAATTTAAT
*
69562180 TTAATTTCAATTAATATTTTTAAAAT
1 TTAA-TT-AATTAATA-ATTT--AAT
*
69562206 TTCAATT-ATCAATTAATTTAAT
1 TT-AATTAATTAA-TAATTTAAT
69562228 TTAAT
1 TTAAT
69562233 ATTAGGTGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
21 7 0.16
22 7 0.16
23 8 0.19
24 10 0.23
25 2 0.05
26 7 0.16
27 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAATTAATTAATAATTTAAT
Found at i:69563241 original size:15 final size:16
Alignment explanation
Indices: 69563221--69563253 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
69563211 ATATATATTT
69563221 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
69563236 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
69563253 T
1 T
69563254 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:69563339 original size:22 final size:22
Alignment explanation
Indices: 69563300--69563358 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
69563290 GTTTTAAGAA
*
69563300 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
69563321 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
69563343 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
69563359 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:69563375 original size:26 final size:24
Alignment explanation
Indices: 69563329--69563377 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
69563319 ATTTGTTTTA
*
69563329 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
69563353 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
69563378 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:69563389 original size:26 final size:26
Alignment explanation
Indices: 69563332--69563390 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
69563322 TGTTTTAATA
*
69563332 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
69563357 TTGATTTATTATATTTTTAAACT-TTT
1 TTTATTTATTATATTTTTAAA-TATAT
69563383 TTTATTTA
1 TTTATTTA
69563391 ATGAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.21
26 21 0.75
27 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:69571728 original size:13 final size:13
Alignment explanation
Indices: 69571712--69571744 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
69571702 TTTAATTAAA
*
69571712 TTAGTTAATTAGT
1 TTAGATAATTAGT
69571725 TTAGATAATTAGT
1 TTAGATAATTAGT
69571738 TTA-ATAA
1 TTAGATAA
69571745 ACAAACCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:69577075 original size:5 final size:5
Alignment explanation
Indices: 69577065--69577133 Score: 56
Period size: 5 Copynumber: 13.8 Consensus size: 5
69577055 CGTTCTATCT
*
69577065 TTTTA TTTTA TTTTTA TTTT- TATT- TTTTA TTTTTA TTTTA TTTTCA
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT-A
*
69577111 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
69577134 CAAAGACATA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
3 3 0.06
4 6 0.11
5 26 0.49
6 18 0.34
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:69577079 original size:6 final size:6
Alignment explanation
Indices: 69577064--69577113 Score: 68
Period size: 6 Copynumber: 8.5 Consensus size: 6
69577054 TCGTTCTATC
*
69577064 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTTA TTTTTA -TTTTA TTTTCA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA
69577111 TTT
1 TTT
69577114 CAATTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
5 10 0.25
6 24 0.60
7 6 0.15
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:69577093 original size:13 final size:13
Alignment explanation
Indices: 69577064--69577103 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
69577054 TCGTTCTATC
69577064 TTTTTA-TTTTA-
1 TTTTTATTTTTAT
69577075 TTTTTATTTTTAT
1 TTTTTATTTTTAT
69577088 TTTTTATTTTTAT
1 TTTTTATTTTTAT
69577101 TTT
1 TTT
69577104 ATTTTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 6 0.22
12 5 0.19
13 16 0.59
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:69577094 original size:19 final size:18
Alignment explanation
Indices: 69577070--69577133 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 18
69577060 TATCTTTTTA
69577070 TTTTATTTTTATTTTTATT
1 TTTTATTTTTA-TTTTATT
69577089 TTTTATTTTTATTTTA-T
1 TTTTATTTTTATTTTATT
* **
69577106 TTTCATTTCAATTTTATT
1 TTTTATTTTTATTTTATT
69577124 ATTTTATTTT
1 -TTTTATTTT
69577134 CAAAGACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
17 14 0.37
18 6 0.16
19 18 0.47
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTATTTTATT
Found at i:69577095 original size:24 final size:24
Alignment explanation
Indices: 69577064--69577135 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
69577054 TCGTTCTATC
*
69577064 TTTTTA-TTTTATTTTTATTTTTAT
1 TTTTTATTTTTA-TTTTATTTTCAT
69577088 TTTTTATTTTTATTTTATTTTCAT
1 TTTTTATTTTTATTTTATTTTCAT
* *
69577112 TTCAATT-TTATTATTTTATTTTCA
1 TT--TTTATTTTTATTTTATTTTCA
69577136 AAGACATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 19 0.45
25 21 0.50
26 2 0.05
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTATTTTTATTTTATTTTCAT
Found at i:69577100 original size:30 final size:31
Alignment explanation
Indices: 69577064--69577133 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
69577054 TCGTTCTATC
* **
69577064 TTTTTATTTTATTTTTATTTTTATTTT-TTA
1 TTTTTATTTTATTTTCATTTCAATTTTATTA
69577094 TTTTTATTTTATTTTCATTTCAATTTTATTA
1 TTTTTATTTTATTTTCATTTCAATTTTATTA
69577125 -TTTTATTTT
1 TTTTTATTTT
69577134 CAAAGACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.79
Consensus pattern (31 bp):
TTTTTATTTTATTTTCATTTCAATTTTATTA
Found at i:69580053 original size:13 final size:13
Alignment explanation
Indices: 69580037--69580069 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
69580027 TTTAATTAAA
*
69580037 TTAGTTAATTAGT
1 TTAGATAATTAGT
69580050 TTAGATAATTAGT
1 TTAGATAATTAGT
69580063 TTA-ATAA
1 TTAGATAA
69580070 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:69584285 original size:6 final size:7
Alignment explanation
Indices: 69584268--69584296 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
69584258 GTTCCGAAAT
69584268 TTTTTTA
1 TTTTTTA
69584275 TTTTTTA
1 TTTTTTA
69584282 TTTTTTA
1 TTTTTTA
69584289 TTTTTTA
1 TTTTTTA
69584296 T
1 T
69584297 AAAAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:69584414 original size:20 final size:20
Alignment explanation
Indices: 69584382--69584419 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69584372 TGTTTCACAT
69584382 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
69584402 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
69584420 ACTTAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:69591868 original size:20 final size:20
Alignment explanation
Indices: 69591836--69591873 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69591826 TGTTTCACAT
69591836 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
69591856 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
69591874 ACTTAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:69602568 original size:4 final size:4
Alignment explanation
Indices: 69602559--69602585 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
69602549 TATAATATTA
69602559 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
69602586 ATCTAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:69606722 original size:28 final size:30
Alignment explanation
Indices: 69606691--69606752 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
69606681 TACTTTAGCC
*
69606691 ATTTTTATTTTTATTGC-AA-TTTTATTTT
1 ATTTTTATTTTAATTGCTAACTTTTATTTT
* *
69606719 ATTTTTATTTTAATTTCTAACTTTTTTTTT
1 ATTTTTATTTTAATTGCTAACTTTTATTTT
69606749 ATTT
1 ATTT
69606753 ACTTCTGGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 15 0.52
29 2 0.07
30 12 0.41
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.73
Consensus pattern (30 bp):
ATTTTTATTTTAATTGCTAACTTTTATTTT
Found at i:69606733 original size:22 final size:25
Alignment explanation
Indices: 69606693--69606752 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 25
69606683 CTTTAGCCAT
*
69606693 TTTTATTTTTATTGCAATTT-T-A-
1 TTTTATTTTTATTTCAATTTCTAAC
*
69606715 TTTTATTTTTATTTTAATTTCTAAC
1 TTTTATTTTTATTTCAATTTCTAAC
69606740 TTTT-TTTTTATTT
1 TTTTATTTTTATTT
69606753 ACTTCTGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 18 0.55
23 1 0.03
24 10 0.30
25 4 0.12
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTATTTCAATTTCTAAC
Found at i:69612222 original size:8 final size:8
Alignment explanation
Indices: 69612189--69612222 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
69612179 TGACGCAGTC
69612189 TATTTATTT
1 TATTT-TTT
*
69612198 TATTATTT
1 TATTTTTT
69612206 TATTTTTT
1 TATTTTTT
69612214 TATTTTTT
1 TATTTTTT
69612222 T
1 T
69612223 TTGAAGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TATTTTTT
Found at i:69612224 original size:13 final size:13
Alignment explanation
Indices: 69612191--69612223 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
69612181 ACGCAGTCTA
69612191 TTTATTTTATTAT
1 TTTATTTTATTAT
*
69612204 TTTATTTTTTTAT
1 TTTATTTTATTAT
69612217 TTT-TTTT
1 TTTATTTT
69612224 TGAAGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:69614111 original size:30 final size:30
Alignment explanation
Indices: 69614075--69614131 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
69614065 TAGGCACTTC
* * *
69614075 CACACGGGTAAACCACATGCTCGTGTGAGG
1 CACACGGGCAAACCACACGCCCGTGTGAGG
*
69614105 CACACGGGCAGACCACACGCCCGTGTG
1 CACACGGGCAAACCACACGCCCGTGTG
69614132 TCATGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.33, G:0.30, T:0.12
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGAGG
Found at i:69625729 original size:17 final size:17
Alignment explanation
Indices: 69625707--69625740 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69625697 CTAGACTTTT
*
69625707 ATCCAACACTATAATTA
1 ATCCAACACAATAATTA
*
69625724 ATCCAACCCAATAATTA
1 ATCCAACACAATAATTA
69625741 TTTTCTATTT
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:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (17 bp):
ATCCAACACAATAATTA
Found at i:69629849 original size:35 final size:36
Alignment explanation
Indices: 69629781--69629911 Score: 140
Period size: 35 Copynumber: 3.5 Consensus size: 36
69629771 TCCTCATTGA
* *
69629781 AATACCATACCTACATTTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA--TTTCTTAACTCAGTATGGGAT
*
69629818 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCTTAACTCAGTATGG----GAT
**
69629858 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
1 AATACCATACCTACATTTCTTAACTCAGTATGGGAT
*
69629893 GATACCATACCTACATTTC
1 AATACCATACCTACATTTC
69629912 ACACTTTGCC
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
35 37 0.45
37 14 0.17
39 3 0.04
40 28 0.34
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (36 bp):
AATACCATACCTACATTTCTTAACTCAGTATGGGAT
Found at i:69629912 original size:35 final size:37
Alignment explanation
Indices: 69629822--69629914 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 37
69629812 ATGGGAAATG
**
69629822 CCATACCTACATTTCTTAACTCAGTATGGATTTGATAATA
1 CCATACCTACATTTCACAACTCAGTATGGA-TTG--AATA
69629862 CCATACCTACATTTCACAACTCAGTATGGA-TG-ATA
1 CCATACCTACATTTCACAACTCAGTATGGATTGAATA
69629897 CCATACCTACATTTCACA
1 CCATACCTACATTTCACA
69629915 CTTTGCCATG
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
35 21 0.41
38 2 0.04
40 28 0.55
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (37 bp):
CCATACCTACATTTCACAACTCAGTATGGATTGAATA
Found at i:69638102 original size:16 final size:15
Alignment explanation
Indices: 69638077--69638106 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
69638067 GAGATTAAGT
69638077 TAATCATATTAATTG
1 TAATCATATTAATTG
69638092 TAATACATATTAATT
1 TAAT-CATATTAATT
69638107 ACATTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TAATCATATTAATTG
Found at i:69638123 original size:17 final size:18
Alignment explanation
Indices: 69638096--69638133 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
69638086 TAATTGTAAT
69638096 ACATATTAATTACATTTA
1 ACATATTAATTACATTTA
69638114 ACAT-TTAATTACATTTA
1 ACATATTAATTACATTTA
69638131 ACA
1 ACA
69638134 GAGGATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (18 bp):
ACATATTAATTACATTTA
Found at i:69640805 original size:7 final size:8
Alignment explanation
Indices: 69640789--69640835 Score: 64
Period size: 7 Copynumber: 6.2 Consensus size: 8
69640779 ATATTAAATA
*
69640789 TTAAGATT
1 TTAAGTTT
69640797 TTAAGTTT
1 TTAAGTTT
69640805 TTAAGTTT
1 TTAAGTTT
69640813 TTAA-TTT
1 TTAAGTTT
69640820 TTAA-TTT
1 TTAAGTTT
69640827 TTAA-TTT
1 TTAAGTTT
69640834 TT
1 TT
69640836 CAATTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
7 19 0.50
8 19 0.50
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (8 bp):
TTAAGTTT
Found at i:69640819 original size:22 final size:21
Alignment explanation
Indices: 69640794--69640842 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
69640784 AAATATTAAG
69640794 ATTTTAAGTTTTTAAGTTTTT-A
1 ATTTTAA-TTTTTAA-TTTTTCA
69640816 ATTTTTAATTTTTAATTTTTCA
1 A-TTTTAATTTTTAATTTTTCA
69640838 ATTTT
1 ATTTT
69640843 TTTGAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.36
22 10 0.40
23 6 0.24
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTTTAATTTTTAATTTTTCA
Found at i:69640840 original size:15 final size:14
Alignment explanation
Indices: 69640795--69640843 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 14
69640785 AATATTAAGA
69640795 TTTTAAGTTTTTAAGT
1 TTTTAA-TTTTTAA-T
69640811 TTTTAATTTTTAAT
1 TTTTAATTTTTAAT
69640825 TTTTAATTTTTCAAT
1 TTTTAATTTTT-AAT
69640840 TTTT
1 TTTT
69640844 TTGAAGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.38
15 14 0.44
16 6 0.19
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (14 bp):
TTTTAATTTTTAAT
Found at i:69640842 original size:7 final size:7
Alignment explanation
Indices: 69640795--69640843 Score: 71
Period size: 8 Copynumber: 6.6 Consensus size: 7
69640785 AATATTAAGA
69640795 TTTTAAGT
1 TTTTAA-T
69640803 TTTTAAGT
1 TTTTAA-T
69640811 TTTTAAT
1 TTTTAAT
69640818 TTTTAAT
1 TTTTAAT
69640825 TTTTAAT
1 TTTTAAT
69640832 TTTTCAAT
1 TTTT-AAT
69640840 TTTT
1 TTTT
69640844 TTGAAGAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 19 0.47
8 21 0.52
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (7 bp):
TTTTAAT
Found at i:69641264 original size:22 final size:22
Alignment explanation
Indices: 69641222--69641264 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
69641212 TCTTACATAA
*
69641222 CCATAAATCATAAACCCTAAAC
1 CCATAAATCATAAAACCTAAAC
*
69641244 CCAT-AATCCATAAAACTTAAA
1 CCATAAAT-CATAAAACCTAAA
69641265 ATAATAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (22 bp):
CCATAAATCATAAAACCTAAAC
Found at i:69641439 original size:14 final size:14
Alignment explanation
Indices: 69641410--69641460 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
69641400 CTAATCTAAA
*
69641410 CCCTAAACTCTTAAT
1 CCCTAAAC-ATTAAT
69641425 CCCTAAACATTAAT
1 CCCTAAACATTAAT
*
69641439 CCCTAAAACATAAAT
1 CCCT-AAACATTAAT
69641454 -CCTAAAC
1 CCCTAAAC
69641461 CATAAACCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 4 0.12
14 12 0.36
15 17 0.52
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.25
Consensus pattern (14 bp):
CCCTAAACATTAAT
Found at i:69641464 original size:14 final size:14
Alignment explanation
Indices: 69641422--69641471 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
69641412 CTAAACTCTT
*
69641422 AATCCCTAAACATT
1 AATCCCTAAACATA
69641436 AATCCCTAAAACATA
1 AATCCCT-AAACATA
69641451 AAT-CCTAAACCATA
1 AATCCCTAAA-CATA
*
69641465 AACCCCT
1 AATCCCT
69641472 CACCCTTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 3 0.10
14 16 0.52
15 12 0.39
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
AATCCCTAAACATA
Found at i:69641524 original size:21 final size:22
Alignment explanation
Indices: 69641456--69641524 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 22
69641446 ACATAAATCC
* *
69641456 TAAACCATAAACCCCTCACCCT
1 TAAACCTTAAACCCCTAACCCT
*
69641478 TAACCCTT-AACCCCTAACACC-
1 TAAACCTTAAACCCCTAAC-CCT
69641499 T-AACCTTAAACCCC-AACCCT
1 TAAACCTTAAACCCCTAACCCT
69641519 TAAACC
1 TAAACC
69641525 ACCTTTAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.05
20 9 0.23
21 20 0.51
22 8 0.21
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAACCTTAAACCCCTAACCCT
Found at i:69641571 original size:15 final size:15
Alignment explanation
Indices: 69641546--69641588 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
69641536 ATAGTTAACT
69641546 CATAAACCTTAAACC
1 CATAAACCTTAAACC
* *
69641561 CATATAGCTTAAA-C
1 CATAAACCTTAAACC
69641575 CATAAACCTTAAAC
1 CATAAACCTTAAAC
69641589 TATAATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (15 bp):
CATAAACCTTAAACC
Found at i:69641585 original size:14 final size:14
Alignment explanation
Indices: 69641546--69641593 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
69641536 ATAGTTAACT
69641546 CATAAACCTTAAACC
1 CATAAACCTTAAA-C
* *
69641561 CATATAGCTTAAAC
1 CATAAACCTTAAAC
69641575 CATAAACCTTAAAC
1 CATAAACCTTAAAC
*
69641589 TATAA
1 CATAA
69641594 TGATAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (14 bp):
CATAAACCTTAAAC
Found at i:69641946 original size:23 final size:22
Alignment explanation
Indices: 69641916--69641963 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
69641906 GTTTAAGATT
* *
69641916 TTTTAAGGTTTAGGAGTTTAGTG
1 TTTTAAGGATTA-GAGATTAGTG
*
69641939 TTTTAAGGATTATAGATTAGTG
1 TTTTAAGGATTAGAGATTAGTG
69641961 TTT
1 TTT
69641964 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAGAGATTAGTG
Found at i:69642062 original size:41 final size:41
Alignment explanation
Indices: 69642005--69642330 Score: 490
Period size: 41 Copynumber: 8.0 Consensus size: 41
69641995 GTTATATGAC
**
69642005 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
69642046 TTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
69642087 TTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCACCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
69642128 TTGTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
69642169 TTCTAGCGGCGTTTTACCAAAAGTGCCGCTAATGTTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
69642210 TTTTAGCGGCGTTTTACCAAAAGCGCCACTATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
69642251 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
69642292 TTTTAGCAGCATTTTACCAAAAGCGCCGCTATTGCTCTG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
69642331 TTTAAAACGC
Statistics
Matches: 259, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 259 1.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:69642341 original size:23 final size:24
Alignment explanation
Indices: 69642310--69642356 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
69642300 GCATTTTACC
69642310 AAAAGCGCCGCTATTGCTCTGTTT
1 AAAAGCGCCGCTATTGCTCTGTTT
69642334 AAAA-CGCCGCTATTGCTCTGTTT
1 AAAAGCGCCGCTATTGCTCTGTTT
69642357 TTAGTGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (24 bp):
AAAAGCGCCGCTATTGCTCTGTTT
Found at i:69649312 original size:34 final size:34
Alignment explanation
Indices: 69649251--69649322 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
69649241 AAATAAATAC
* **
69649251 AAATTAAACCCAATATCCAAATATAATTTTGCAA
1 AAATTAAACCCAATATCAAAATATAATTTAACAA
*
69649285 AAATTAAAACCCAAT-TCAAAATTTAATTTAACAA
1 AAATT-AAACCCAATATCAAAATATAATTTAACAA
69649319 AAAT
1 AAAT
69649323 AATTTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 24 0.73
35 9 0.27
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.29
Consensus pattern (34 bp):
AAATTAAACCCAATATCAAAATATAATTTAACAA
Found at i:69650402 original size:17 final size:17
Alignment explanation
Indices: 69650380--69650413 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
69650370 TGGTGTCTAG
69650380 TTGAATAAGGAGCTTAA
1 TTGAATAAGGAGCTTAA
69650397 TTGAATAAGGAGCTTAA
1 TTGAATAAGGAGCTTAA
69650414 GTAATAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
TTGAATAAGGAGCTTAA
Found at i:69654006 original size:6 final size:6
Alignment explanation
Indices: 69653997--69654021 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69653987 TTATTTTTAT
69653997 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
69654022 AAAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:69656725 original size:50 final size:50
Alignment explanation
Indices: 69656670--69656769 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
69656660 AAATTTAAAG
69656670 TTAAACTAATGACCCCTGTTGCTTGAAATTCATTGATTTTGCCCATGCAC
1 TTAAACTAATGACCCCTGTTGCTTGAAATTCATTGATTTTGCCCATGCAC
*
69656720 TTAAACTAATGACCCCTGTTGCTTGGAATTCATTGATTTTGCCCATGCAC
1 TTAAACTAATGACCCCTGTTGCTTGAAATTCATTGATTTTGCCCATGCAC
69656770 CAATGTTGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (50 bp):
TTAAACTAATGACCCCTGTTGCTTGAAATTCATTGATTTTGCCCATGCAC
Found at i:69660280 original size:15 final size:15
Alignment explanation
Indices: 69660262--69660317 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
69660252 TTTATACTAC
69660262 AAATATTTATTATTA
1 AAATATTTATTATTA
*
69660277 AAATATTTATAATTATAA
1 AAATA-TT-T-ATTATTA
69660295 TAAATATTTATTATTA
1 -AAATATTTATTATTA
69660311 AAATATT
1 AAATATT
69660318 AATATTGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 12 0.34
16 8 0.23
17 2 0.06
18 8 0.23
19 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATATTTATTATTA
Found at i:69660301 original size:19 final size:19
Alignment explanation
Indices: 69660277--69660315 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
69660267 TTTATTATTA
*
69660277 AAATATTTATAATTATAAT
1 AAATATTTATAATTAAAAT
*
69660296 AAATATTTATTATTAAAAT
1 AAATATTTATAATTAAAAT
69660315 A
1 A
69660316 TTAATATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATATTTATAATTAAAAT
Found at i:69660381 original size:16 final size:16
Alignment explanation
Indices: 69660350--69660386 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
69660340 ATCTGAATAA
69660350 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
69660366 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
69660382 TATTA
1 TATTA
69660387 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:69660427 original size:20 final size:22
Alignment explanation
Indices: 69660405--69660448 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
69660395 TTGAAATATT
69660405 AAATA-ATTTATTAAAATAATA
1 AAATATATTTATTAAAATAATA
* *
69660426 AAATATATTTATTATATTAATA
1 AAATATATTTATTAAAATAATA
69660448 A
1 A
69660449 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATATATTTATTAAAATAATA
Found at i:69660453 original size:16 final size:17
Alignment explanation
Indices: 69660427--69660458 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
69660417 AAAATAATAA
69660427 AATATATTTATTATATT
1 AATATATTTATTATATT
69660444 AATA-ATTTATTATAT
1 AATATATTTATTATAT
69660459 GACTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATATTTATTATATT
Found at i:69663337 original size:32 final size:32
Alignment explanation
Indices: 69663296--69663418 Score: 106
Period size: 33 Copynumber: 3.8 Consensus size: 32
69663286 GTACCCAGTG
* * *
69663296 GTACAACTTGAAAAGGTTATGTACAATTTGTGT
1 GTAC-ACTTGAAAAGGTAAGGTACACTTTGTGT
* * *
69663329 GTACACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACACTTGAAAAGGTAAGGTACACTTTGTGT
* * *
69663361 ATAC-CATATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAC-T-TGAAAAGGTAAGGTACACTTTGTGT
*
69663394 GTACCACTTGAAAAGG-AATGTACAC
1 GTA-CACTTGAAAAGGTAAGGTACAC
69663419 CTCAAGTGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
31 1 0.01
32 35 0.47
33 36 0.48
34 2 0.03
35 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (32 bp):
GTACACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:69663383 original size:33 final size:33
Alignment explanation
Indices: 69663322--69663411 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
69663312 TTATGTACAA
* * **
69663322 TTTGTGTGTA-CACTTGGAAAGGTTAGGTATAC
1 TTTGTGTATACCACTTGAAAAGGAAAGGTATAC
69663354 TTTGTGTATACCA-TATGAAAAGGAAAGGTATAC
1 TTTGTGTATACCACT-TGAAAAGGAAAGGTATAC
*
69663387 TTTGTGTGTACCACTTGAAAAGGAA
1 TTTGTGTATACCACTTGAAAAGGAA
69663412 TGTACACCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
32 10 0.20
33 39 0.78
34 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.33
Consensus pattern (33 bp):
TTTGTGTATACCACTTGAAAAGGAAAGGTATAC
Found at i:69667212 original size:21 final size:21
Alignment explanation
Indices: 69667188--69667248 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
69667178 TTTTATTTTT
69667188 ATTAAATTATATTTAATAATA
1 ATTAAATTATATTTAATAATA
* * *
69667209 ATTATATTA-A---AA-CATG
1 ATTAAATTATATTTAATAATA
*
69667225 ATTAAATTATTTTTAATAATA
1 ATTAAATTATATTTAATAATA
69667246 ATT
1 ATT
69667249 CTATTAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 10
0.62 0.16 0.22
Matches are distributed among these distances:
16 10 0.36
17 2 0.07
20 3 0.11
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTAAATTATATTTAATAATA
Found at i:69669450 original size:5 final size:5
Alignment explanation
Indices: 69669440--69669475 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
69669430 TTATGTTTTA
69669440 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
69669476 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:69670752 original size:15 final size:15
Alignment explanation
Indices: 69670732--69670788 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
69670722 CGATGAATTT
69670732 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
69670747 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
69670762 ATTGAATTTATATTG
1 ATTGAATTTATATTG
69670777 ATTGAA-TTATAT
1 ATTGAATTTATAT
69670789 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:69671208 original size:21 final size:21
Alignment explanation
Indices: 69671173--69671231 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
69671163 GAACTTTATG
69671173 TGTCGTATTTCAGGCACCTCGTA
1 TGTCGTA--TCAGGCACCTCGTA
*
69671196 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTA
* *
69671217 TGTCGTTTTAGGCAC
1 TGTCGTATCAGGCAC
69671232 TTTATGTGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 26 0.79
23 7 0.21
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.34
Consensus pattern (21 bp):
TGTCGTATCAGGCACCTCGTA
Found at i:69671239 original size:21 final size:21
Alignment explanation
Indices: 69671170--69671243 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
69671160 CAGGAACTTT
69671170 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGT-TTT-AGGCACCTC
* * * *
69671193 GTATGTCGTATCAGGCACCTC
1 ATGTGTCGTTTTAGGCACCTC
* * *
69671214 GTGTGTCGTTTTAGGCACTTT
1 ATGTGTCGTTTTAGGCACCTC
69671235 ATGTGTCGT
1 ATGTGTCGT
69671244 ATACTGATCA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 33 0.80
22 1 0.02
23 7 0.17
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGTCGTTTTAGGCACCTC
Found at i:69673814 original size:2 final size:2
Alignment explanation
Indices: 69673809--69673835 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
69673799 GTGAAAGTCG
69673809 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
69673836 TCTGAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:69674425 original size:39 final size:39
Alignment explanation
Indices: 69674301--69674442 Score: 153
Period size: 39 Copynumber: 3.6 Consensus size: 39
69674291 ATTTGATGTG
* * *
69674301 TATCCGGACTTAGGGT-TCGCAGGCTATGTGCTAGAATTA
1 TATCCGGGCTTAAGGTCT-GCAGGCTATGTGCTGGAATTA
* * * *
69674340 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAGGTCTGCAGGCTATGTGCTGGAATTA
* *
69674379 TATCCGGGCTTAAGGTCTGCAGGCTACGTGCTGGAAATA
1 TATCCGGGCTTAAGGTCTGCAGGCTATGTGCTGGAATTA
* *
69674418 TGTCCGGGC-TAAAGTCTCGCAGGCT
1 TATCCGGGCTTAAGGTCT-GCAGGCT
69674443 TCGAGTTGGT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 7 0.08
39 83 0.92
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGGCTTAAGGTCTGCAGGCTATGTGCTGGAATTA
Found at i:69679743 original size:2 final size:2
Alignment explanation
Indices: 69679738--69679767 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
69679728 TGTGAAAGTC
69679738 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69679768 TTCTGAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69680295 original size:39 final size:39
Alignment explanation
Indices: 69680234--69680352 Score: 114
Period size: 39 Copynumber: 3.1 Consensus size: 39
69680224 ATTTGATGTG
* * *
69680234 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
69680273 TATCCAGACTTAAGGTCTGCAGGCTACGTGCTGGAAATA
1 TATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* * * * * * *
69680312 TGTCCGGGC-TAAAGTCTCGCAGGCTTCGAGCTGGTATTA
1 TATCCAGACTTAAGGTC-CGCAGGCTACGTGCTGGAATTA
69680351 TA
1 TA
69680353 CCGGGTTTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
38 6 0.09
39 58 0.91
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
Found at i:69687657 original size:127 final size:126
Alignment explanation
Indices: 69687399--69687710 Score: 396
Period size: 126 Copynumber: 2.5 Consensus size: 126
69687389 AACATAAGGA
* *
69687399 AATATTTCGTGTTTGGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCGATTTTTTTGCAT
1 AATATTTCGTATTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA--TTTTTGCAT
69687464 TCGACTAAAATACAAAATATCCTTTTGAAATTTCGTCTATGCTTTCTTAAATTAAAACGAGGC
64 TCGACTAAAATACAAAATATCCTTTTGAAATTTCGTCTATGCTTTCTTAAATTAAAACGAGGC
*
69687527 AATATTTCGAATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTT-CATT
1 AATATTTCGTATTT-GGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTGCATT
* ** * ** * * *
69687591 CGATTAACGTGCGGAATATTCCTTTTGAAATTTCAT-TCATGTTTTCTTAAATTAAAATGAGGC
65 CGACTAAAATACAAAATA-TCCTTTTGAAATTTCGTCT-ATGCTTTCTTAAATTAAAACGAGGC
* * * * *
69687654 AATA-TTCAGTATTTGGAAGTTCGATAAATCGTGCGCAATCGTGCTGGGTTTCGATTT
1 AATATTTC-GTATTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
69687711 ACCGTTTGGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
126 58 0.36
127 53 0.33
128 12 0.07
129 39 0.24
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (126 bp):
AATATTTCGTATTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTGCATTC
GACTAAAATACAAAATATCCTTTTGAAATTTCGTCTATGCTTTCTTAAATTAAAACGAGGC
Found at i:69687751 original size:126 final size:127
Alignment explanation
Indices: 69687399--69687751 Score: 331
Period size: 126 Copynumber: 2.8 Consensus size: 127
69687389 AACATAAGGA
** * * * **
69687399 AATATTTCGTGTTTGGG-AGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCGATTTTTTTGCA
1 AATATTTCGAATTTGGGAAGTTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGA---TTTACCA
* * * *
69687463 TTCGACTAAAATACAAAATATCCTTTTGAAATTTC-GTCTATGCTTTCTTAAATTAAAACGAGGC
63 TTCGACCAACATGCCAAATATCCTTTTGAAATTTCAGTCTATGCTTTCTTAAATTAAAACGAGGC
* * * **
69687527 AATATTTCGAATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTC
1 AATATTTCGAATTTGGGAAGTTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTC
** * ** * * *
69687592 GATTAACGTGCGGAATATTCCTTTTGAAATTTCATTC-ATGTTTTCTTAAATTAAAATGAGGC
66 GACCAACATGCCAAATA-TCCTTTTGAAATTTCAGTCTATGCTTTCTTAAATTAAAACGAGGC
* * * *
69687654 AATA-TTCAGTATTT-GGAAGTTCGATAAATCGTGCGCAATCGTGCTGGGTTTCGATTTACCGTT
1 AATATTTC-GAATTTGGGAAGTTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATT
* *
69687717 TGGCCAA-ATAGCCAAATATCCTTTTTGAAATTTCA
65 CGACCAACAT-GCCAAATATCC-TTTTGAAATTTCA
69687752 AATGCATGAG
Statistics
Matches: 190, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
125 4 0.02
126 86 0.45
127 47 0.25
128 17 0.09
129 36 0.19
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (127 bp):
AATATTTCGAATTTGGGAAGTTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTC
GACCAACATGCCAAATATCCTTTTGAAATTTCAGTCTATGCTTTCTTAAATTAAAACGAGGC
Found at i:69695264 original size:44 final size:45
Alignment explanation
Indices: 69695174--69695302 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
69695164 GACAGAACGA
*
69695174 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
69695220 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
69695264 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
69695303 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Done.