Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 205 of 211
Found at i:63455451 original size:44 final size:44
Alignment explanation
Indices: 63455384--63455850 Score: 305
Period size: 44 Copynumber: 10.7 Consensus size: 44
63455374 AAATAATTTC
* * *
63455384 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* *
63455428 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAG
* * * * * * *
63455472 TA-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAA
1 -AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* ** * * *
63455515 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* * * * *
63455559 -G-TCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA---G
* *
63455603 AGATCTTATCTCCCTGAAGTTATAGCGGAGCAGATCGAAGACAT
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* * * * * * *
63455647 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAA
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* ** * * *
63455689 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* * * * *
63455733 -G-TCTTATTTTCCTGAGGTTACAGCGGAGTAGACCGAAGA-ATTG
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA--G
* ** *
63455776 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACAT
1 -AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
* *
63455821 A-ATCCTATCTCCCTGAAGTTACAGTGGAGC
1 AGATCTTATCTCCCTGAAGTTACAGCGGAGC
63455851 GGATTAAAAT
Statistics
Matches: 327, Mismatches: 73, Indels: 47
0.73 0.16 0.11
Matches are distributed among these distances:
41 59 0.18
42 8 0.02
43 62 0.19
44 124 0.38
45 7 0.02
46 65 0.20
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
Found at i:63455675 original size:174 final size:174
Alignment explanation
Indices: 63455382--63455898 Score: 835
Period size: 174 Copynumber: 3.0 Consensus size: 174
63455372 CCAAATAATT
* * * ** *
63455382 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCA--G-AGATCTTATCTCCCTG
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAG-AATTGCAGATCTTATCTCCCTG
*
63455444 -AGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT
65 AAG-TTACAGCGGAGCAGATCAAAGACA-TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT
63455508 AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
128 AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
*
63455555 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
* *
63455620 AGTTATAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 AGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
63455685 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
*
63455729 TCAGGTCTTATTTTCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
* *
63455794 GGTTACAGCGGAGCAGATTAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 AGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
* **
63455859 ATAAAGAATCTTATCTCTCTGAAGTGGCAGTAGAGTAGAT
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
63455899 TACGTCCAAG
Statistics
Matches: 321, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
172 1 0.00
173 37 0.12
174 244 0.76
175 37 0.12
176 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (174 bp):
TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
AGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
Found at i:63455870 original size:87 final size:85
Alignment explanation
Indices: 63455390--63455883 Score: 354
Period size: 87 Copynumber: 5.7 Consensus size: 85
63455380 TTTCAGATCT
* *** *
63455390 TATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGC
1 TATCTCCCTGAAGTTACAGCGGAGCAGATT-AAAATAAAGATCTTATCTCCCTGAAG-TTACAGC
* *
63455454 GGAGCAGATCAAAGATAGTAATCC
64 GGAGCAGAT-TAAGACA-TAATCC
* * * **
63455478 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATAAA-GATCTTATCTCCCTGAAGTTACAGCG
* * * *
63455543 GAGTAGA-T-CG-CATCAGGTCT
65 GAGCAGATTAAGACAT-A-ATCC
* * * ** ** *
63455563 TATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTATAG
1 TATCTCCCTGAAGTTACAGCGGAGCAGA-TTAA-AA-TAAAGATCTTATCTCCCTGAAGTTACAG
*
63455628 CGGAGCAGATCGAAGACATAATCC
63 CGGAGCAGAT-TAAGACATAATCC
* * * **
63455652 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATAAA-GATCTTATCTCCCTGAAGTTACAGCG
* * * *
63455717 GAGTAGA-T-CG-CATCAGGTCT
65 GAGCAGATTAAGACAT-A-ATCC
* * * * ** ** *
63455737 TATTTTCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGGTTACAG
1 TATCTCCCTGAAGTTACAGCGGAGCAGA-TTAA-AA-TAAAGATCTTATCTCCCTGAAGTTACAG
63455802 CGGAGCAGATTAAAGACATAATCC
63 CGGAGCAGATT-AAGACATAATCC
* * *
63455826 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGT
1 TATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATAAAG-ATCTTATCTCCCTGAAGT
63455884 GGCAGTAGAG
Statistics
Matches: 302, Mismatches: 82, Indels: 45
0.70 0.19 0.10
Matches are distributed among these distances:
83 4 0.01
84 4 0.01
85 50 0.17
86 9 0.03
87 112 0.37
88 62 0.21
89 51 0.17
90 4 0.01
91 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (85 bp):
TATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATAAAGATCTTATCTCCCTGAAGTTACAGCGG
AGCAGATTAAGACATAATCC
Found at i:63459088 original size:3 final size:3
Alignment explanation
Indices: 63459080--63459111 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
63459070 CCAACTCAAC
63459080 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
63459112 TTGTCTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:63465668 original size:40 final size:40
Alignment explanation
Indices: 63465624--63465758 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
63465614 ACCAGTTTGG
*
63465624 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAATTGA
* * * *
63465664 CACCCAGTGTCTCATCGGTTAAACCGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAATTGA
** *
63465701 CACCCAGTGCCTCATCAAATTAATCCGAAATAATAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAAATTGA
*
63465742 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
63465759 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 22 0.29
38 8 0.10
40 25 0.32
41 22 0.29
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAATTGA
Found at i:63465746 original size:41 final size:40
Alignment explanation
Indices: 63465624--63465759 Score: 145
Period size: 37 Copynumber: 3.5 Consensus size: 40
63465614 ACCAGTTTGG
* *
63465624 CACCCAGTGCCTCATCGGA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATC-GATTAATCCGAAATAATAAATTGA
* * * * *
63465664 CACCCAGTGTCTCATCGGTTAAACCG--A-AGTAAATTGG
1 CACCCAGTGCCTCATCGATTAATCCGAAATAATAAATTGA
*
63465701 CACCCAGTGCCTCATCAAATTAATCCGAAATAATAAATTGA
1 CACCCAGTGCCTCATC-GATTAATCCGAAATAATAAATTGA
*
63465742 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
63465760 CTCGAAGTCG
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
37 23 0.30
38 7 0.09
39 1 0.01
40 22 0.29
41 23 0.30
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGATTAATCCGAAATAATAAATTGA
Found at i:63467200 original size:23 final size:23
Alignment explanation
Indices: 63467174--63467271 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
63467164 ATAAGTGCCA
63467174 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
63467197 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
63467220 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
63467242 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
63467265 CACTGAT
1 CACTGAT
63467272 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:63467239 original size:45 final size:45
Alignment explanation
Indices: 63467181--63467269 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
63467171 CCACACTGAT
* *
63467181 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
63467226 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
63467270 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:63467506 original size:75 final size:75
Alignment explanation
Indices: 63467420--63467567 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
63467410 CTATTCCTAA
63467420 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
63467485 CAACTTTCAT
66 CAACTTTCAT
63467495 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
63467560 CAACTTTC
66 CAACTTTC
63467568 CTTCCACATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
CAACTTTCAT
Found at i:63469433 original size:35 final size:36
Alignment explanation
Indices: 63469387--63469477 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 36
63469377 TTTATTATTA
* *
63469387 TAATATAATAATATATATACT-TA-ACTCTTAAGTTT
1 TAATATTATAATATATATACTATATA-TCTTAACTTT
* *
63469422 TAATATTATAATAT-TATAATATATATTTTAACTTT
1 TAATATTATAATATATATACTATATATCTTAACTTT
*
63469457 AAATAGTTATAATATATATAC
1 TAATA-TTATAATATATATAC
63469478 ACTTATCCCG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
34 5 0.11
35 27 0.59
36 10 0.22
37 4 0.09
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (36 bp):
TAATATTATAATATATATACTATATATCTTAACTTT
Found at i:63490572 original size:7 final size:7
Alignment explanation
Indices: 63490559--63490605 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
63490549 CATATTATAA
63490559 AATTATT
1 AATTATT
*
63490566 TATTATT
1 AATTATT
*
63490573 TATTATT
1 AATTATT
63490580 AATTATT
1 AATTATT
63490587 AATTATT
1 AATTATT
63490594 AATTATT
1 AATTATT
63490601 AATTA
1 AATTA
63490606 GTAAAAGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
AATTATT
Found at i:63490736 original size:3 final size:3
Alignment explanation
Indices: 63490728--63490779 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
63490718 AAATAGATAT
* * * *
63490728 TTA TTA TTA TAA TTA TTA TTG TTA TTA TTA TT- TAA TTA ATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63490774 TTA TTA
1 TTA TTA
63490780 GATCAATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:63490745 original size:12 final size:12
Alignment explanation
Indices: 63490728--63490779 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
63490718 AAATAGATAT
63490728 TTATTATTATAA
1 TTATTATTATAA
* *
63490740 TTATTATTGTTA
1 TTATTATTATAA
63490752 TTATTATT-TAA
1 TTATTATTATAA
*
63490763 TTAATATTAT-A
1 TTATTATTATAA
63490774 TTATTA
1 TTATTA
63490780 GATCAATGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 15 0.44
12 19 0.56
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:63490926 original size:21 final size:21
Alignment explanation
Indices: 63490902--63490944 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
63490892 AATAATAATT
*
63490902 AAAATAAAAG-ATAAAACAAAC
1 AAAAT-AAAGCATAAAAAAAAC
63490923 AAAATAAAGCATAAAAAAAAC
1 AAAATAAAGCATAAAAAAAAC
63490944 A
1 A
63490945 GAACCATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (21 bp):
AAAATAAAGCATAAAAAAAAC
Found at i:63491662 original size:18 final size:19
Alignment explanation
Indices: 63491626--63491662 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
63491616 AGAAACTTTA
*
63491626 TTGAATTGAATTTAGAAAT
1 TTGAATTGAATTGAGAAAT
63491645 TTGAATTGAA-TGAGAAAT
1 TTGAATTGAATTGAGAAAT
63491663 ATGTGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGAATTGAATTGAGAAAT
Found at i:63491950 original size:38 final size:39
Alignment explanation
Indices: 63491848--63491956 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 39
63491838 GACCTCGAGT
* **
63491848 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
* * * * *
63491889 CAATGAGATATTGGGTATC-ACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
63491926 CGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
63491957 AACTATCCGA
Statistics
Matches: 54, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
37 15 0.28
38 24 0.44
41 15 0.28
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:63493140 original size:31 final size:33
Alignment explanation
Indices: 63493105--63493171 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
63493095 CAATTTGAAA
* *
63493105 AAACTCCGGTACCA-AAA-TGAATATTGAAGTC
1 AAACTCAGGTACCACAAATTGAATATTGAAATC
*
63493136 AAACTCATGTACCACCAAATTGAATATTGAAATC
1 AAACTCAGGTACCA-CAAATTGAATATTGAAATC
63493170 AA
1 AA
63493172 GTTCAAGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 12 0.40
33 3 0.10
34 15 0.50
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (33 bp):
AAACTCAGGTACCACAAATTGAATATTGAAATC
Found at i:63493182 original size:34 final size:34
Alignment explanation
Indices: 63493115--63493182 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
63493105 AAACTCCGGT
* *
63493115 ACCAAAATGAATATTGAAGTCAAACTCATGTACC
1 ACCAAAATGAATATTGAAATCAAACTCAAGTACC
* **
63493149 ACCAAATTGAATATTGAAATCAAGTTCAAGTACC
1 ACCAAAATGAATATTGAAATCAAACTCAAGTACC
63493183 GAATAGTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (34 bp):
ACCAAAATGAATATTGAAATCAAACTCAAGTACC
Found at i:63500633 original size:22 final size:22
Alignment explanation
Indices: 63500603--63500650 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
63500593 GAAAATATAT
* *
63500603 AATTTAAAAAAAAATCTAAAAG
1 AATTCAAAAAAAAATATAAAAG
* *
63500625 AATTCAAAAAAGAATATAAAAT
1 AATTCAAAAAAAAATATAAAAG
63500647 AATT
1 AATT
63500651 TAAGAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (22 bp):
AATTCAAAAAAAAATATAAAAG
Found at i:63504201 original size:175 final size:177
Alignment explanation
Indices: 63503879--63504207 Score: 441
Period size: 175 Copynumber: 1.9 Consensus size: 177
63503869 TTTAATCCCA
* * *
63503879 TTTTTGCATTAAGATCTTGTTTAGCAATGAACATTTGATTTATATGGTTGGTTTTATGTATGATG
1 TTTTTGCATTAAAATCTTGTTTAGCAATGAACATTTGA-GTATAT-GATGG-TTTATGTATGATG
* * * *
63503944 TTTCCTTATCTATATAGCTTTAAAATCAAGCAATTTTATCTTATATCTCTTCTTGTATGAATGAA
63 TTTACTTATATATAAAGCTTTAAAATCAAGCAATTTTATCTTATATCTCTTCTTATATGAATGAA
*
63504009 CTACTTGCCAACCCCATGGTGTTGGTATCTTTTAATGTTTTAACTTGGTT
128 CTACTTGCCAACCCCATGATGTTGGTATCTTTTAATGTTTTAACTTGGTT
* *
63504059 TTTTTGCATTAAAAATCTTGTTTAGCAATGATCGTTTG-GTATAT-ATGG-TTATGTATGATGTT
1 TTTTTGCATT-AAAATCTTGTTTAGCAATGAACATTTGAGTATATGATGGTTTATGTATGATGTT
* * *
63504121 TACTTGTATATAAAGCTTTGAAATCAAGCAATTTTATCTTATAAT-TGTTCTTATATGAATGAAC
65 TACTTATATATAAAGCTTTAAAATCAAGCAATTTTATCTTAT-ATCTCTTCTTATATGAATGAAC
* * *
63504185 TGCTTGCTATCCCCATGATGTTG
129 TACTTGCCAACCCCATGATGTTG
63504208 TAATATAATT
Statistics
Matches: 131, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
175 87 0.66
176 2 0.02
177 3 0.02
179 5 0.04
180 10 0.08
181 24 0.18
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (177 bp):
TTTTTGCATTAAAATCTTGTTTAGCAATGAACATTTGAGTATATGATGGTTTATGTATGATGTTT
ACTTATATATAAAGCTTTAAAATCAAGCAATTTTATCTTATATCTCTTCTTATATGAATGAACTA
CTTGCCAACCCCATGATGTTGGTATCTTTTAATGTTTTAACTTGGTT
Found at i:63509335 original size:22 final size:22
Alignment explanation
Indices: 63509309--63509355 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
63509299 ATGAGAATTT
*
63509309 TTAAAAATGTTGGAGGGTCTAA
1 TTAAAAATGTTGGAAGGTCTAA
* * *
63509331 TTAAAACTTTTGGAAGGTTTAA
1 TTAAAAATGTTGGAAGGTCTAA
63509353 TTA
1 TTA
63509356 GAATATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.38
Consensus pattern (22 bp):
TTAAAAATGTTGGAAGGTCTAA
Found at i:63509359 original size:53 final size:51
Alignment explanation
Indices: 63509261--63509394 Score: 144
Period size: 53 Copynumber: 2.5 Consensus size: 51
63509251 GGATTTAATT
* * * *
63509261 AAAATTTGGACGGTTTAGTTAAAATTTTGAGAGGATTAATGAGAATTTTTA
1 AAAATTTGGAGGGTCTAATTAAAATTTTGAGAGGATTAATGAGAATATTTA
* *
63509312 AAAATGTTGGAGGGTCTAATTAAAACTTTTG-GAAGGTTTAATTAGAATATTTA
1 AAAAT-TTGGAGGGTCTAATTAAAA-TTTTGAG-AGGATTAATGAGAATATTTA
* *
63509365 AAAATTTCGAGGGGAGCTAATTAAAATTTT
1 AAAATTTGGA-GGG-TCTAATTAAAATTTT
63509395 CAAAAATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
51 5 0.07
52 21 0.30
53 34 0.49
54 10 0.14
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (51 bp):
AAAATTTGGAGGGTCTAATTAAAATTTTGAGAGGATTAATGAGAATATTTA
Found at i:63513457 original size:14 final size:14
Alignment explanation
Indices: 63513438--63513485 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
63513428 TCAAGGTGGG
63513438 TTCTTCTTTTGTTT
1 TTCTTCTTTTGTTT
**
63513452 TTCTTCTTCGGATTT
1 TTCTTCTTTTG-TTT
*
63513467 TTCTTCTTTTTTTT
1 TTCTTCTTTTGTTT
63513481 TTCTT
1 TTCTT
63513486 TCGATACTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.02, C:0.17, G:0.06, T:0.75
Consensus pattern (14 bp):
TTCTTCTTTTGTTT
Found at i:63514664 original size:96 final size:97
Alignment explanation
Indices: 63514497--63514672 Score: 255
Period size: 96 Copynumber: 1.8 Consensus size: 97
63514487 ATCCCTAGCT
* * * * * * *
63514497 TTAGTCGAAAGTAAAAAGCAAATGTCATGTTAGCAATCCGTTAGTGGATTAACGAAATTTTTAAC
1 TTAGTCAAAAGTAAAAA-CAAATATCATGTCAGCAATCCATTAATAGACTAACGAAATTTTTAAC
*
63514562 GGCAGTGACCAATTCGAACAATTATCTTAATTA
65 GACAGTGACCAATTCGAACAATTATCTTAATTA
*
63514595 TTAGTCAAAAGTAAAAA-AAATATCATGTCAGCAATCCATTAATAGACTAACGAAATTTTTAATG
1 TTAGTCAAAAGTAAAAACAAATATCATGTCAGCAATCCATTAATAGACTAACGAAATTTTTAACG
63514659 ACAGTGACCAATTC
66 ACAGTGACCAATTC
63514673 AGAGTGACTA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
96 53 0.77
98 16 0.23
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (97 bp):
TTAGTCAAAAGTAAAAACAAATATCATGTCAGCAATCCATTAATAGACTAACGAAATTTTTAACG
ACAGTGACCAATTCGAACAATTATCTTAATTA
Found at i:63517704 original size:28 final size:27
Alignment explanation
Indices: 63517665--63517719 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
63517655 ACACCTTGAA
63517665 TTGTTCAATTTGACACCTAAATTTTTT
1 TTGTTCAATTTGACACCTAAATTTTTT
* * *
63517692 TTGTCTCAATTTGGCACCTCAGTTTTTT
1 TTGT-TCAATTTGACACCTAAATTTTTT
63517720 CAGTTTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (27 bp):
TTGTTCAATTTGACACCTAAATTTTTT
Found at i:63518680 original size:17 final size:18
Alignment explanation
Indices: 63518658--63518705 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
63518648 ATTTTATTTT
63518658 TATATAA-AAATTAAAAA
1 TATATAATAAATTAAAAA
*
63518675 TATATAATACATTAAAAA
1 TATATAATAAATTAAAAA
*
63518693 TATCAAAATAAAT
1 TAT-ATAATAAAT
63518706 ATTTTCCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 7 0.27
18 12 0.46
19 7 0.27
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TATATAATAAATTAAAAA
Found at i:63526590 original size:7 final size:7
Alignment explanation
Indices: 63526578--63526614 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
63526568 TCAAACACAT
63526578 TTAAAAA
1 TTAAAAA
63526585 TTAAAAA
1 TTAAAAA
*
63526592 TTAAATA
1 TTAAAAA
*
63526599 TTAAATA
1 TTAAAAA
63526606 TTAAAAA
1 TTAAAAA
63526613 TT
1 TT
63526615 TCTTATCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TTAAAAA
Found at i:63529236 original size:6 final size:6
Alignment explanation
Indices: 63529217--63529254 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
63529207 TCATCACCAA
*
63529217 CATCTT CATTTT CATCTT CATCTT CATCTT CATCTT CA
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CA
63529255 ACATCATCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (6 bp):
CATCTT
Found at i:63529261 original size:18 final size:18
Alignment explanation
Indices: 63529222--63529262 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
63529212 ACCAACATCT
* * *
63529222 TCATTTTCATCTTCATCT
1 TCATCTTCATCTTCAACA
63529240 TCATCTTCATCTTCAACA
1 TCATCTTCATCTTCAACA
63529258 TCATC
1 TCATC
63529263 CTCTCCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (18 bp):
TCATCTTCATCTTCAACA
Found at i:63530600 original size:132 final size:132
Alignment explanation
Indices: 63530340--63530583 Score: 373
Period size: 132 Copynumber: 1.9 Consensus size: 132
63530330 GCTTCACATC
** * * *
63530340 TTTTTCCTTCAATTTCGGGTCACGGCTTCTCACCTACATGGAAACATTGAAATTTCATGACAAAA
1 TTTTTCCTTCAATTTCGGACCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAAA
* *
63530405 AAATCACTAATAAATTGACAAAAATTTCAGTTTTCACACCAATTAGCAAAAAAAAAAAACAACAC
66 AAATCACTAATAAATTAACAAAAATTTCAATTTTCACACCAATTAGCAAAAAAAAAAAACAACAC
63530470 TT
131 TT
* * *
63530472 TTTTTCCTTCAATTTCGGACCACTGCTTCTCGCCTACATGAAAACATTGAAATCTCAAGATAAAA
1 TTTTTCCTTCAATTTCGGACCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAAA
* *
63530537 AGATCACTAATAAATTAACAAAAATTTCAATTTTCACA-CAGTTAGCA
66 AAATCACTAATAAATTAACAAAAATTTCAATTTTCACACCAATTAGCA
63530584 GAACAACAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
131 8 0.08
132 92 0.92
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (132 bp):
TTTTTCCTTCAATTTCGGACCACGGCTTCTCACCTACATGAAAACATTGAAATCTCAAGACAAAA
AAATCACTAATAAATTAACAAAAATTTCAATTTTCACACCAATTAGCAAAAAAAAAAAACAACAC
TT
Found at i:63541458 original size:20 final size:20
Alignment explanation
Indices: 63541435--63541474 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63541425 ACATATTGTT
63541435 ACTGTTCACGACATGACCCC
1 ACTGTTCACGACATGACCCC
* * *
63541455 ACTGTTTATGACTTGACCCC
1 ACTGTTCACGACATGACCCC
63541475 CTTACTCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (20 bp):
ACTGTTCACGACATGACCCC
Found at i:63543020 original size:25 final size:23
Alignment explanation
Indices: 63542991--63543050 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
63542981 CTCTCAAACC
* **
63542991 ATATAACAGGATGCTTATGTGAG
1 ATATAACAGGAAGCTTATCCGAG
*
63543014 TTATATAACAAGAAGCTTATCCGAG
1 --ATATAACAGGAAGCTTATCCGAG
63543039 ATATAACAGGAA
1 ATATAACAGGAA
63543051 ACTCATAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 11 0.37
25 19 0.63
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.27
Consensus pattern (23 bp):
ATATAACAGGAAGCTTATCCGAG
Found at i:63543196 original size:25 final size:25
Alignment explanation
Indices: 63543158--63543205 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
63543148 CAAGCGAGCC
63543158 ATATCAGGAAGCTCACAAAGAGTCT
1 ATATCAGGAAGCTCACAAAGAGTCT
*
63543183 ATATCA-GAATGCTCATAAAGAGT
1 ATATCAGGAA-GCTCACAAAGAGT
63543206 TGCGGTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (25 bp):
ATATCAGGAAGCTCACAAAGAGTCT
Found at i:63545094 original size:47 final size:47
Alignment explanation
Indices: 63545023--63545117 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
63545013 TTTGTGTGTA
63545023 TCAAATACTAACCCTATAAACACACATTAGTATAAACATAGTAGCTT
1 TCAAATACTAACCCTATAAACACACATTAGTATAAACATAGTAGCTT
* *
63545070 TCAAATACTAACCCTATAAGCACACATTAGTATGAACATAGTAGCTT
1 TCAAATACTAACCCTATAAACACACATTAGTATAAACATAGTAGCTT
63545117 T
1 T
63545118 TTCTCACTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (47 bp):
TCAAATACTAACCCTATAAACACACATTAGTATAAACATAGTAGCTT
Found at i:63549816 original size:6 final size:6
Alignment explanation
Indices: 63549805--63549834 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
63549795 GGTTGCGGGT
63549805 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
63549835 TCCAAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:63550850 original size:32 final size:32
Alignment explanation
Indices: 63550814--63550887 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
63550804 AAAAAATTTT
* *
63550814 AAGTACCGAATTAAGAAAAAAGTGTCAAGTCC
1 AAGTACCAAATTAAGAAAAAAGTATCAAGTCC
* * *
63550846 AAGTATCAAATTAGGAAAAAAGTATCAAGTTC
1 AAGTACCAAATTAAGAAAAAAGTATCAAGTCC
63550878 AAGTACCAAA
1 AAGTACCAAA
63550888 GGTTATATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (32 bp):
AAGTACCAAATTAAGAAAAAAGTATCAAGTCC
Found at i:63560743 original size:18 final size:18
Alignment explanation
Indices: 63560702--63560741 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
63560692 TTTATATTTT
* *
63560702 TAAAATTATTAATTATTA
1 TAAAATTATCAATTATGA
63560720 TAAAATTATCAA-TATGA
1 TAAAATTATCAATTATGA
63560737 TAAAA
1 TAAAA
63560742 ATAATTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAAATTATCAATTATGA
Found at i:63561940 original size:30 final size:30
Alignment explanation
Indices: 63561904--63561960 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
63561894 GTGACTTTCC
63561904 AAAGAAACAGATATCAGTTGATTCATTAGA
1 AAAGAAACAGATATCAGTTGATTCATTAGA
63561934 AAAGAAACAGATATCAGTTGATTCATT
1 AAAGAAACAGATATCAGTTGATTCATT
63561961 GCAATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (30 bp):
AAAGAAACAGATATCAGTTGATTCATTAGA
Found at i:63570984 original size:17 final size:18
Alignment explanation
Indices: 63570961--63571011 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
63570951 TTAAAAAATT
63570961 TATTAAAAATTCAAAAAA
1 TATTAAAAATTCAAAAAA
**
63570979 -ATTAAATAAAACAAAAAA
1 TATTAAA-AATTCAAAAAA
63570997 TTATTAAAAATTCAA
1 -TATTAAAAATTCAA
63571012 TCAACTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 5 0.19
20 6 0.23
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (18 bp):
TATTAAAAATTCAAAAAA
Found at i:63571803 original size:21 final size:23
Alignment explanation
Indices: 63571778--63571821 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
63571768 TAAAAAACTA
*
63571778 AAAT-ATTTTTAT-ATTTTTTAT
1 AAATAATTTTAATGATTTTTTAT
63571799 AAATAATTTTAATGATTTTTTAT
1 AAATAATTTTAATGATTTTTTAT
63571822 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AAATAATTTTAATGATTTTTTAT
Found at i:63571831 original size:29 final size:28
Alignment explanation
Indices: 63571780--63571860 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
63571770 AAAAACTAAA
* *
63571780 ATATTTTTATATTTTTTATAAAT-AATTTT
1 ATATTTTT-TA-TTTTTAAAAATAAATTAT
63571809 AATGATTTTTTATTTTTAAAAATAAATTAT
1 -AT-ATTTTTTATTTTTAAAAATAAATTAT
63571839 ATATTTTTTAATTTTTAAAAAT
1 ATATTTTTT-ATTTTTAAAAAT
63571861 TTAAAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
28 7 0.15
29 24 0.52
30 9 0.20
31 6 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
ATATTTTTTATTTTTAAAAATAAATTAT
Found at i:63573617 original size:6 final size:7
Alignment explanation
Indices: 63573589--63573616 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
63573579 TAGAATTTAA
63573589 TAATTTT
1 TAATTTT
63573596 TAATTTT
1 TAATTTT
63573603 TAATTTT
1 TAATTTT
63573610 TAATTTT
1 TAATTTT
63573617 ACTTTTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TAATTTT
Found at i:63574331 original size:36 final size:36
Alignment explanation
Indices: 63574261--63574340 Score: 83
Period size: 36 Copynumber: 2.2 Consensus size: 36
63574251 TAGTAACGAA
* * *
63574261 ATTAACAATAAAATAAATATTATAAAATATTTAAAC
1 ATTAACAACAAAATAAATAATATAAAATAGTTAAAC
*
63574297 ATTAACAACAAAAT-AATAATA-ACATAATAGTTAAAT
1 ATTAACAACAAAATAAATAATATA-A-AATAGTTAAAC
*
63574333 AGTAACAA
1 ATTAACAA
63574341 AAACATTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 1 0.03
35 7 0.19
36 29 0.78
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.29
Consensus pattern (36 bp):
ATTAACAACAAAATAAATAATATAAAATAGTTAAAC
Found at i:63574481 original size:8 final size:8
Alignment explanation
Indices: 63574468--63574496 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
63574458 TAACTCTTAA
63574468 AAAAAAAG
1 AAAAAAAG
63574476 AAAAAAAG
1 AAAAAAAG
63574484 AAAAAAAG
1 AAAAAAAG
63574492 AAAAA
1 AAAAA
63574497 GAAGCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:63577694 original size:21 final size:20
Alignment explanation
Indices: 63577665--63577704 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
63577655 TAAAAAAAAA
63577665 TTTAAAATTTTTAATTTCTT
1 TTTAAAATTTTTAATTTCTT
63577685 TTTAATAATTTTTAATTTCT
1 TTTAA-AATTTTTAATTTCT
63577705 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAAAATTTTTAATTTCTT
Found at i:63581477 original size:29 final size:29
Alignment explanation
Indices: 63581443--63581506 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
63581433 AATTATTGCC
63581443 CTTAATATGTATATATTATTAACTCTAAA
1 CTTAATATGTATATATTATTAACTCTAAA
*
63581472 TTTAATATGTATATATTATTAACTCTAAA
1 CTTAATATGTATATATTATTAACTCTAAA
63581501 CTTAAT
1 CTTAAT
63581507 TATCGAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (29 bp):
CTTAATATGTATATATTATTAACTCTAAA
Found at i:63583859 original size:164 final size:164
Alignment explanation
Indices: 63583588--63583910 Score: 529
Period size: 164 Copynumber: 2.0 Consensus size: 164
63583578 AAAATTTCAG
* ** *
63583588 CACTAAATCATGCGGGTTTGGATGTAGTATGGTGCAGAGGAAGTAAACCTTGGTTGCTTATTGCC
1 CACTAAATCATGCGGGTTTAGATGTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTGCC
** *
63583653 TGCCAATAAATAACATTTAAATTTTCTATGTTCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTG
66 TGCCAATAAATAACATTTAAATTGGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTG
*
63583718 ATTGAGGTCATGGTCATTTTTATCAATATGGTAA
131 ATTGAGGTCATGATCATTTTTATCAATATGGTAA
* * * *
63583752 CACTAAATCATGTGGTTTTAGATTTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTGTC
1 CACTAAATCATGCGGGTTTAGATGTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTGCC
*
63583817 TGCCAATAAATAACATTTTAATTGGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTG
66 TGCCAATAAATAACATTTAAATTGGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTG
63583882 ATTGAGGTCATGATCATTTTTATCAATAT
131 ATTGAGGTCATGATCATTTTTATCAATAT
63583911 AGTTAAATTC
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
164 146 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.41
Consensus pattern (164 bp):
CACTAAATCATGCGGGTTTAGATGTAGTATGGTGCAGAGGAAGTAAAAATTGATTGCTTATTGCC
TGCCAATAAATAACATTTAAATTGGCTATGATCTTGTTGGTTGAGAATCTTCTGTTTTGATTCTG
ATTGAGGTCATGATCATTTTTATCAATATGGTAA
Found at i:63590391 original size:47 final size:46
Alignment explanation
Indices: 63590330--63590437 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 46
63590320 TGCAACTGAA
*
63590330 TAATATTTTCTGTAATTACACAAATACACATAACATTA-ACGAAGTTG
1 TAATATTTT-TGTAATTACACAAATACACAAAACATTACA-GAAGTTG
* *
63590377 TAATAGTTTTTGTAATTACATAAATATACAAAACATTACAGAAGTTG
1 TAATA-TTTTTGTAATTACACAAATACACAAAACATTACAGAAGTTG
*
63590424 TCATAATTTTTGTA
1 TAAT-ATTTTTGTA
63590438 GTTAGGTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
47 48 0.89
48 6 0.11
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (46 bp):
TAATATTTTTGTAATTACACAAATACACAAAACATTACAGAAGTTG
Found at i:63598668 original size:210 final size:208
Alignment explanation
Indices: 63598308--63598732 Score: 814
Period size: 210 Copynumber: 2.0 Consensus size: 208
63598298 GTATTATTGT
63598308 CATCATTGTTCCCTTGATTGTGTGTTTTTTTTTTTCGGTTGTATGGGCAAGCCTTTCCTGTTTTC
1 CATCATTGTTCCCTTGATTGTGTGTTTTTTTTTTTCGGTTGTATGGGCAAGCCTTTCCTGTTTTC
63598373 TACCATTTCTTGTCACATTTTCATTGTTGGTAGTCCTTTACTTAAGCAGTACTGGTTCTTTTGTA
66 TACCATTTCTTGTCACATTTTCATTGTTGGTAGTCCTTTACTTAAGCAGTACTGGTTCTTTTGTA
*
63598438 CATTTTTTCCCCCAAGAAGTCCCCTATCTAATTGCAGTTAAGTTTCTCGGCCCTCTATGAGTATC
131 CATTTTTTCCCCAAAGAAGTCCCCTATCTAATTGCAGTTAAGTTTCTCGGCCCTCTATGAGTATC
63598503 TGAAACAATTTTG
196 TGAAACAATTTTG
*
63598516 CATCATTGTTCCCTTGATTGGGTGTTTTTTTTTTTTTCGGTTGTATGGGCAAGCCTTTCCTGTTT
1 CATCATTGTTCCCTTGATT--GTGTGTTTTTTTTTTTCGGTTGTATGGGCAAGCCTTTCCTGTTT
63598581 TCTACCATTTCTTGTCACATTTTCATTGTTGGTAGTCCTTTACTTAAGCAGTACTGGTTCTTTTG
64 TCTACCATTTCTTGTCACATTTTCATTGTTGGTAGTCCTTTACTTAAGCAGTACTGGTTCTTTTG
63598646 TACATTTTTTCCCCAAAGAAGTCCCCTATCTAATTGCAGTTAAGTTTCTCGGCCCTCTATGAGTA
129 TACATTTTTTCCCCAAAGAAGTCCCCTATCTAATTGCAGTTAAGTTTCTCGGCCCTCTATGAGTA
63598711 TCTGAAACAATTTTG
194 TCTGAAACAATTTTG
63598726 CATCATT
1 CATCATT
63598733 AGTTTTCATG
Statistics
Matches: 213, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
208 19 0.09
210 194 0.91
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (208 bp):
CATCATTGTTCCCTTGATTGTGTGTTTTTTTTTTTCGGTTGTATGGGCAAGCCTTTCCTGTTTTC
TACCATTTCTTGTCACATTTTCATTGTTGGTAGTCCTTTACTTAAGCAGTACTGGTTCTTTTGTA
CATTTTTTCCCCAAAGAAGTCCCCTATCTAATTGCAGTTAAGTTTCTCGGCCCTCTATGAGTATC
TGAAACAATTTTG
Found at i:63601647 original size:30 final size:30
Alignment explanation
Indices: 63601606--63601665 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
63601596 ACCCAGGGAG
* *
63601606 CTGGAATTGGAATTGGGATTCAAATTGGAA
1 CTGGAACTGGAACTGGGATTCAAATTGGAA
63601636 CTGGAACTGGAACTGGGATTCAAATTGGAA
1 CTGGAACTGGAACTGGGATTCAAATTGGAA
63601666 TGCGCATCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (30 bp):
CTGGAACTGGAACTGGGATTCAAATTGGAA
Found at i:63603187 original size:22 final size:23
Alignment explanation
Indices: 63603161--63603204 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
63603151 ATTAATGTTT
*
63603161 AATTTGATA-TTTAATTTTTTTC
1 AATTTGATACTTGAATTTTTTTC
63603183 AATTTGATACTTGAATTTTTTT
1 AATTTGATACTTGAATTTTTTT
63603205 TTATCTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (23 bp):
AATTTGATACTTGAATTTTTTTC
Found at i:63606959 original size:30 final size:31
Alignment explanation
Indices: 63606923--63606986 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
63606913 AATTTTAAAT
63606923 TTTAAAAA-TACAAAAAAATTATAAAAAT-TA
1 TTTAAAAAGTACAAAAAAA-TATAAAAATATA
* *
63606953 TTTAAAAAGTACTAAAATATATAAAAATATA
1 TTTAAAAAGTACAAAAAAATATAAAAATATA
63606984 TTT
1 TTT
63606987 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (31 bp):
TTTAAAAAGTACAAAAAAATATAAAAATATA
Found at i:63609875 original size:5 final size:6
Alignment explanation
Indices: 63609850--63609874 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
63609840 TGCTTATCAA
63609850 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
63609875 AAAAAGGAAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:63617548 original size:36 final size:36
Alignment explanation
Indices: 63617508--63617576 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
63617498 AGCCTAATCA
* * *
63617508 AGCAAGCTCAAGTAGTTCGCTTTTTATCTCAAATTC
1 AGCAAGATCAAGCAGTTCACTTTTTATCTCAAATTC
*
63617544 AGCAAGATCAAGCATTTCACTTTTTATCTCAAA
1 AGCAAGATCAAGCAGTTCACTTTTTATCTCAAA
63617577 ACTTTAGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (36 bp):
AGCAAGATCAAGCAGTTCACTTTTTATCTCAAATTC
Found at i:63626975 original size:30 final size:30
Alignment explanation
Indices: 63626910--63626975 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
63626900 ATATTATACG
* * *
63626910 TAAATTTTGATTTTATACATTTATATAAAT
1 TAAATTTTAATTTTATACAATTACATAAAT
* *
63626940 AAAATTTTAATTTTGATTCAATTACAT-AAT
1 TAAATTTTAATTTT-ATACAATTACATAAAT
63626970 TAAATT
1 TAAATT
63626976 AATGATTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (30 bp):
TAAATTTTAATTTTATACAATTACATAAAT
Found at i:63632658 original size:59 final size:59
Alignment explanation
Indices: 63632556--63632887 Score: 323
Period size: 59 Copynumber: 5.7 Consensus size: 59
63632546 TATTAGAGAT
* * * * *
63632556 TAACTTGGACAAAAAAAA-TTCAAACTCTAATGTGGGACCAATTGCCAAGTTCAAGGAC
1 TAACTTGGACAAAAAAAAGTTCAAGCCCTAATGTGAGAACAATTGCCAAGTTTAAGGAC
* * * * * **
63632614 TAAATTGGACAAAAAAAAGTTCAAACCCTAATGTAAGAATAATTGTCAAGTTCGAGGAC
1 TAACTTGGACAAAAAAAAGTTCAAGCCCTAATGTGAGAACAATTGCCAAGTTTAAGGAC
* * * * *
63632673 TAACTTGAACAAAAAAAAATTTAGGCCCCAATGTGAGAACAATTGCCAAGTTTAGAGG-C
1 TAACTTGGACAAAAAAAAGTTCAAGCCCTAATGTGAGAACAATTGCCAAGTTTA-AGGAC
* * * * ** * *
63632732 TAACTTGGA-TAAAAAATGTTCAAGCCCCAATGTG-GAAAAAATTGTTAAGTTTAGGGAT
1 TAACTTGGACAAAAAAAAGTTCAAGCCCTAATGTGAG-AACAATTGCCAAGTTTAAGGAC
* * * * *
63632790 TAATTTGAATATAAAAAAGTTCAAGCCCTAATGCGAGAACAATTGCCAAGTTTAAGGAC
1 TAACTTGGACAAAAAAAAGTTCAAGCCCTAATGTGAGAACAATTGCCAAGTTTAAGGAC
*
63632849 TAACTTGGACAAAAAAAAGTTCAA-CCTTCAATGTGAGAA
1 TAACTTGGACAAAAAAAAGTTCAAGCCCT-AATGTGAGAA
63632888 TTGTGGGAAT
Statistics
Matches: 218, Mismatches: 49, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
57 3 0.01
58 61 0.28
59 150 0.69
60 4 0.02
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (59 bp):
TAACTTGGACAAAAAAAAGTTCAAGCCCTAATGTGAGAACAATTGCCAAGTTTAAGGAC
Found at i:63632776 original size:117 final size:117
Alignment explanation
Indices: 63632556--63632872 Score: 338
Period size: 117 Copynumber: 2.7 Consensus size: 117
63632546 TATTAGAGAT
* * * * * * * *
63632556 TAACTTGGAC-AAAAAAAATTCAAACTCTAATGTGGGACCAATTGCCAAGTTCAAGGACTAAATT
1 TAACTTGAACAAAAAAAAATTCAAGCCCCAATGTGAGAACAATTGCCAAGTTTAAGGACTAACTT
*
63632620 GGACAAAAAAAAGTTCAAACCCTAATGTAAGAATAATTGTCAAGTTCGA-GGAC
66 GGA-AAAAAAAAGTTCAAACCCCAATGTAAGAATAATTGTCAAGTT-GAGGGAC
* *
63632673 TAACTTGAACAAAAAAAAATTTAGGCCCCAATGTGAGAACAATTGCCAAGTTTAGAGG-CTAACT
1 TAACTTGAACAAAAAAAAATTCAAGCCCCAATGTGAGAACAATTGCCAAGTTTA-AGGACTAACT
* * * * * *
63632737 TGGATAAAAAATGTTCAAGCCCCAATGTGGAA-AA-AATTGTTAAGTTTAGGGAT
65 TGGAAAAAAAAAGTTCAAACCCCAATGT--AAGAATAATTGTCAAGTTGAGGGAC
* * * * * *
63632790 TAATTTGAATATAAAAAAGTTCAAGCCCTAATGCGAGAACAATTGCCAAGTTTAAGGACTAACTT
1 TAACTTGAACAAAAAAAAATTCAAGCCCCAATGTGAGAACAATTGCCAAGTTTAAGGACTAACTT
63632855 GGACAAAAAAAAGTTCAA
66 GGA-AAAAAAAAGTTCAA
63632873 CCTTCAATGT
Statistics
Matches: 166, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
116 4 0.02
117 99 0.60
118 58 0.35
119 5 0.03
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (117 bp):
TAACTTGAACAAAAAAAAATTCAAGCCCCAATGTGAGAACAATTGCCAAGTTTAAGGACTAACTT
GGAAAAAAAAAGTTCAAACCCCAATGTAAGAATAATTGTCAAGTTGAGGGAC
Found at i:63634988 original size:16 final size:17
Alignment explanation
Indices: 63634955--63634988 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
63634945 TTAATTAAAT
*
63634955 TAATTAAATTAGTTTTC
1 TAATTAAATTAATTTTC
63634972 TAATTAAA-TAATTTTC
1 TAATTAAATTAATTTTC
63634988 T
1 T
63634989 CAACCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (17 bp):
TAATTAAATTAATTTTC
Found at i:63642609 original size:23 final size:23
Alignment explanation
Indices: 63642583--63642658 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
63642573 ATAAGTGCAA
63642583 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
63642606 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
63642629 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
63642652 CACTGAT
1 CACTGAT
63642659 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:63643371 original size:17 final size:17
Alignment explanation
Indices: 63643349--63643381 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
63643339 AAATTAACAC
63643349 TTCAAACATTCATTATT
1 TTCAAACATTCATTATT
63643366 TTCAAACATTCATTAT
1 TTCAAACATTCATTAT
63643382 CTAACACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (17 bp):
TTCAAACATTCATTATT
Found at i:63648524 original size:45 final size:41
Alignment explanation
Indices: 63648474--63648569 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 41
63648464 ATATGTATTC
* *
63648474 TCGTGTAGGACCACGTCTGGGACGA-TGGCATCGATATATGTGAT
1 TCGTGTAAGACCACGTCTAGGAC-ATTGGCATCG-TAT-T-TGAT
*
63648518 TACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTTGAT
1 T-CGTGTAAGACCACGTCTAGGACATTGGCATCGTATTTGAT
63648560 TCGTGTAAGA
1 TCGTGTAAGA
63648570 TTCTGTCCGG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
41 9 0.19
42 5 0.11
43 1 0.02
44 5 0.11
45 27 0.57
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCACGTCTAGGACATTGGCATCGTATTTGAT
Found at i:63652973 original size:13 final size:14
Alignment explanation
Indices: 63652946--63652977 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
63652936 CTTTGACCAG
63652946 TTTAGTCATAATTT
1 TTTAGTCATAATTT
63652960 TTTAG-CAT-ATTT
1 TTTAGTCATAATTT
63652972 TTTAGT
1 TTTAGT
63652978 AACTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.53
13 3 0.18
14 5 0.29
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.59
Consensus pattern (14 bp):
TTTAGTCATAATTT
Found at i:63661272 original size:23 final size:23
Alignment explanation
Indices: 63661246--63661292 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
63661236 AAAAGAGGGA
*
63661246 GTATACAAAGATGTTGAGAGTGT
1 GTATACAAAGATGTTGAGACTGT
*
63661269 GTATACTAAGATGTTGAGACTGT
1 GTATACAAAGATGTTGAGACTGT
63661292 G
1 G
63661293 ACTGCTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (23 bp):
GTATACAAAGATGTTGAGACTGT
Found at i:63665522 original size:18 final size:19
Alignment explanation
Indices: 63665483--63665535 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
63665473 TATCACTATT
*
63665483 TTTACAAATTAAATACACTA
1 TTTA-AAATTAAATACAATA
63665503 -TTAAAATTGAAATA-AATA
1 TTTAAAATT-AAATACAATA
63665521 TTTAAAATATAAATA
1 TTTAAAAT-TAAATA
63665536 ATGTTACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 8 0.28
19 20 0.69
20 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (19 bp):
TTTAAAATTAAATACAATA
Found at i:63666573 original size:182 final size:180
Alignment explanation
Indices: 63666060--63666582 Score: 597
Period size: 180 Copynumber: 2.9 Consensus size: 180
63666050 AAATGTTATT
* ** * *
63666060 TTTTTAGAGAGATAATTATGAAACTTTAAAATATTAGTATTTTATAGACAGTAAAATAAATATTA
1 TTTTTAGAGAGATAATCATGAAACTCAAAAATATTAGT-CTTTATAGACAGTAAAATAAACATTA
*
63666125 AGGAAA-CTTTGATCATAAAAAATATATACA-TTTTTAAACATTTTTCAAATTAAGAATTCTTGA
65 AGGAAACCTTAG-TCATAAAAAA-ATATACATTTTTTAAACA-TTTTCAAATTAAGAATTCTTGA
* * * ** *
63666188 TCCAAAATCTGAATTAACAATATTCACGCGTAAAAAATATTACACGAAATATCA
127 TCCAAAACCCGAATTAACAATACTCACGTATAAAAAATATGACACGAAATATCA
* * * * *
63666242 TTTTTGAGAGGGATAATCATGGACCTCAAAAATATTAATCTTTATAGACTGTAAAATAAACATTA
1 TTTTT-AGAGAGATAATCATGAAACTCAAAAATATTAGTCTTTATAGACAGTAAAATAAACATTA
* * * * * *
63666307 AGGAAACCTTGGTCAT-AAAAAATATA-TTTTTTTAAACATTCTCCAAATTAAGGATTTTTAATC
65 AGGAAACCTTAGTCATAAAAAAATATACATTTTTTAAACATT-TTCAAATTAAGAATTCTTGATC
* * ** *
63666370 CAAAACCCAAATTAACAATACTCACGTATAAAAGATATGACTGGAAATGTCA
129 CAAAACCCGAATTAACAATACTCACGTATAAAAAATATGACACGAAATATCA
* * * * * *
63666422 GTTTTTAGAAAGATAATCATGAATCTCAAAAATATTAGTCTTCATTGACCGTAAAATGAACATTA
1 -TTTTTAGAGAGATAATCATGAAACTCAAAAATATTAGTCTTTATAGACAGTAAAATAAACATTA
* *
63666487 A-GAAACCTTAGTCATAAGAAAAATATACATTTTTTAAACCTTTTCAAAATTAAGAAATCTTGAT
65 AGGAAACCTTAGTCATAA-AAAAATATACATTTTTTAAACATTTTC-AAATTAAGAATTCTTGAT
*
63666551 TCAAAACCCGAATTAACAATACTCACGTATAA
128 CCAAAACCCGAATTAACAATACTCACGTATAA
63666583 GTATAAAAGT
Statistics
Matches: 286, Mismatches: 46, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
179 15 0.05
180 126 0.44
181 21 0.07
182 94 0.33
183 30 0.10
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (180 bp):
TTTTTAGAGAGATAATCATGAAACTCAAAAATATTAGTCTTTATAGACAGTAAAATAAACATTAA
GGAAACCTTAGTCATAAAAAAATATACATTTTTTAAACATTTTCAAATTAAGAATTCTTGATCCA
AAACCCGAATTAACAATACTCACGTATAAAAAATATGACACGAAATATCA
Found at i:63672888 original size:21 final size:21
Alignment explanation
Indices: 63672826--63672912 Score: 106
Period size: 21 Copynumber: 4.1 Consensus size: 21
63672816 CATGACCAGT
63672826 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* *
63672846 AAACGACACA-CAAGATGCCTG
1 ATACGACACATAAAG-TGCCTG
*
63672867 ATACGACACATAAAGTGTCTG
1 ATACGACACATAAAGTGCCTG
63672888 ACGTACGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
63672911 AT
1 AT
63672913 CAGCAAAGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.21
21 22 0.39
22 3 0.05
23 20 0.35
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:63672909 original size:44 final size:41
Alignment explanation
Indices: 63672826--63672912 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 41
63672816 CATGACCAGT
*
63672826 ATACGACACATAAGTGCCTGAAACGACACACAAGATGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACAAAAGATGCCTG
* *
63672867 ATACGACACATAAAGTGTCTGACGTACGACACATAAAG-TGCCTG
1 ATACGACACAT-AAGTGCCTGA--AACGACACA-AAAGATGCCTG
63672911 AT
1 AT
63672913 CAGCAAAGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 11 0.28
42 9 0.23
44 16 0.41
45 3 0.08
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACAAAAGATGCCTG
Found at i:63673926 original size:14 final size:13
Alignment explanation
Indices: 63673907--63673936 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
63673897 GCCTCTGTTC
63673907 TTTCTTTCTTTTTG
1 TTTCTTTC-TTTTG
63673921 TTTCTTTCTTTTG
1 TTTCTTTCTTTTG
63673934 TTT
1 TTT
63673937 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTCTTTCTTTTG
Found at i:63674081 original size:14 final size:17
Alignment explanation
Indices: 63674062--63674099 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
63674052 ATTTATTTCT
63674062 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
63674076 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
63674093 TAATATA
1 TAATATA
63674100 CTTATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:63674093 original size:23 final size:24
Alignment explanation
Indices: 63674061--63674124 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
63674051 AATTTATTTC
*
63674061 TTAATATAATATTTATA-ATATAA
1 TTAATTTAATATTTATACATATAA
* *
63674084 TTAATTTAATA-ATATACTTATAA
1 TTAATTTAATATTTATACATATAA
63674107 TTAATTTATATATTTATA
1 TTAATTTA-ATATTTATA
63674125 TAAATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
23 23 0.68
24 3 0.09
25 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAATTTAATATTTATACATATAA
Found at i:63704953 original size:1 final size:1
Alignment explanation
Indices: 63704947--63704981 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
63704937 ACCTGCCATC
* *
63704947 TTTTTTTTCTTTTTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
63704982 GCAGATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:63704979 original size:13 final size:12
Alignment explanation
Indices: 63704947--63704978 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
63704937 ACCTGCCATC
63704947 TTTTTTTTCTTT
1 TTTTTTTTCTTT
63704959 TTTTTTTTCTTT
1 TTTTTTTTCTTT
63704971 TTTTTTTT
1 TTTTTTTT
63704979 TTTGCAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:63705648 original size:20 final size:21
Alignment explanation
Indices: 63705600--63705648 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
63705590 AACTTAAATT
*
63705600 TTATTTTTTAATTCTTTTATT
1 TTATTTTTTAATTCTTTTATA
*
63705621 TTCCTTTTTT-A-TCTTTTATA
1 TT-ATTTTTTAATTCTTTTATA
63705641 TTATTTTT
1 TTATTTTT
63705649 CTCTCTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 3 0.12
22 6 0.25
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (21 bp):
TTATTTTTTAATTCTTTTATA
Found at i:63705657 original size:26 final size:25
Alignment explanation
Indices: 63705619--63705691 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
63705609 AATTCTTTTA
* *
63705619 TTTTCCTTTTTTATCTTTTATATTAT
1 TTTTCATTCTTTATCTTTTATATT-T
* *
63705645 TTTTC-TCTCTTTATTTTTTGTATTT
1 TTTTCAT-TCTTTATCTTTTATATTT
63705670 TTTTCATTCTTCTA-CTTTTATA
1 TTTTCATTCTT-TATCTTTTATA
63705692 ATGTTTGGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 17 0.44
26 22 0.56
ACGTcount: A:0.14, C:0.14, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTTCATTCTTTATCTTTTATATTT
Found at i:63705990 original size:11 final size:11
Alignment explanation
Indices: 63705960--63706001 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 11
63705950 TTTCTCAAAA
63705960 TTTTA-AATAT
1 TTTTATAATAT
63705970 TTTTATTAATAT
1 TTTTA-TAATAT
63705982 TTTTATAAT-T
1 TTTTATAATAT
63705992 TTTTAATAAT
1 TTTT-ATAAT
63706002 TTATTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTATAATAT
Found at i:63705994 original size:22 final size:22
Alignment explanation
Indices: 63705960--63706009 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
63705950 TTTCTCAAAA
*
63705960 TTTTAAATATTTTTATTAATAT
1 TTTTAAATATTTTTAATAATAT
63705982 TTTTATAAT-TTTTTAATAAT-T
1 TTTTA-AATATTTTTAATAATAT
63706003 TATTTAA
1 T-TTTAA
63706010 TTGAACTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTAAATATTTTTAATAATAT
Found at i:63706010 original size:12 final size:11
Alignment explanation
Indices: 63705969--63706010 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
63705959 ATTTTAAATA
*
63705969 TTTTTATTAAT
1 TTTTTAATAAT
63705980 ATTTTT-ATAAT
1 -TTTTTAATAAT
63705991 TTTTTAATAAT
1 TTTTTAATAAT
63706002 TTATTTAAT
1 TT-TTTAAT
63706011 TGAACTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 5 0.19
11 11 0.41
12 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:63707031 original size:35 final size:35
Alignment explanation
Indices: 63706990--63707061 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
63706980 TAACCCTTAA
*
63706990 ATAATAAGATAATACACTTCAACGCACTCAAACCC
1 ATAATAAGATAATACACGTCAACGCACTCAAACCC
* * *
63707025 ATAATAAGATAATGCGCGTCAATGCACTCAAACCC
1 ATAATAAGATAATACACGTCAACGCACTCAAACCC
63707060 AT
1 AT
63707062 GTTCTCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (35 bp):
ATAATAAGATAATACACGTCAACGCACTCAAACCC
Found at i:63707766 original size:108 final size:107
Alignment explanation
Indices: 63707573--63707770 Score: 299
Period size: 108 Copynumber: 1.8 Consensus size: 107
63707563 GTTTCTGATA
* * * *
63707573 AAATAGTATAAAATCGCTTCTAGTGGATGCTATTTGTGAAGAATTTGTGAAATCGCGCCCTCGTG
1 AAATAGTATAAAATCGCTTCTAGAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATA
*
63707638 GACGCGCTTTTGCTATAGTAGGTCACGGAAGAATTTGTGAGC
66 GACGCGCTTTTGCTACAGTAGGTCACGGAAGAATTTGTGAGC
* *
63707680 AAATAGTATAAAATCGGTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCAT
1 AAATAGTATAAAATCGCTTCTAG-AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCAT
*
63707745 CAG-CGTGCTTTTGCTACAGTAGGTCA
65 -AGACGCGCTTTTGCTACAGTAGGTCA
63707771 TGTAAAAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 22 0.27
108 58 0.72
109 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (107 bp):
AAATAGTATAAAATCGCTTCTAGAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATA
GACGCGCTTTTGCTACAGTAGGTCACGGAAGAATTTGTGAGC
Found at i:63711157 original size:22 final size:20
Alignment explanation
Indices: 63711122--63711167 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
63711112 CTAACATTAC
63711122 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
63711142 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
63711164 -TTAA
1 GTTAA
63711168 ATTAGATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:63711233 original size:51 final size:51
Alignment explanation
Indices: 63711151--63711330 Score: 214
Period size: 51 Copynumber: 3.6 Consensus size: 51
63711141 AGTTAAGGGT
* *
63711151 TTAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAATTAAATTAGGTCAAGG
1 TTAGAGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTCAAGG
* *
63711203 TTAGAGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGAGTTTTTAA-TTAAATAGG-TTAGGGTTTTTAATTAAATTAGGTCAAGG
*
63711254 TTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGT-TA-G
1 TTAGAGTTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTCAAGG
63711304 ---GA-TTTTTAATTAAATTAGGTTAGGGTT
1 TTAGAGTTTTTAATTAAA-TAGGTTAGGGTT
63711331 AGGGTTTGTA
Statistics
Matches: 117, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
46 25 0.21
47 2 0.02
50 4 0.03
51 44 0.38
52 38 0.32
53 4 0.03
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (51 bp):
TTAGAGTTTTTAATTAAATAGGTTAGGGTTTTTAATTAAATTAGGTCAAGG
Found at i:63711262 original size:29 final size:29
Alignment explanation
Indices: 63711216--63711400 Score: 169
Period size: 30 Copynumber: 6.7 Consensus size: 29
63711206 GAGTTTTTAA
63711216 GTTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAA-GG-TTAGGGTTTTTAATTAAATTAG
*
63711247 GTTAAGGTTAGAGTTTTTAATT-AA--A-
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
63711272 -TT-AGGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
63711299 GTT-AGG--A---TTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
* * *
63711322 GTTAGGGTTAGGGTTTGTAATTAATTTAG
1 GTTAAGGTTAGGGTTTTTAATTAAATTAG
* * * *
63711351 GTTAGGGGTCAGGGTTTTTAATTAATTTAA
1 GTTA-AGGTTAGGGTTTTTAATTAAATTAG
*
63711381 GTTAGGGTTTAGGGTTTTTA
1 GTTAAGG-TTAGGGTTTTTA
63711401 TTATATAAAA
Statistics
Matches: 132, Mismatches: 9, Indels: 27
0.79 0.05 0.16
Matches are distributed among these distances:
23 36 0.27
24 6 0.05
26 4 0.03
28 7 0.05
29 35 0.27
30 39 0.30
31 5 0.04
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (29 bp):
GTTAAGGTTAGGGTTTTTAATTAAATTAG
Found at i:63711278 original size:74 final size:74
Alignment explanation
Indices: 63711126--63711357 Score: 264
Period size: 74 Copynumber: 3.1 Consensus size: 74
63711116 CATTACGTTA
63711126 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTA-G---A--TTAGGGTTTTT
1 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
63711185 AATTAAATTAGGT
66 AATTAAA-T---T
* *
63711198 CAAGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGAGTTT
1 --AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTT
63711263 TTAATTAAATT
64 TTAATTAAATT
* * *
63711274 AGGTTAGGGTTTTTAA-TTAAATTAGG-TTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 AGGTTAGGGTTTTTAAGTT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTT
* *
63711337 TGTAATTAATTT
63 TTTAATTAAATT
63711349 AGGTTAGGG
1 AGGTTAGGG
63711358 GTCAGGGTTT
Statistics
Matches: 140, Mismatches: 9, Indels: 17
0.84 0.05 0.10
Matches are distributed among these distances:
73 2 0.01
74 62 0.44
75 54 0.39
76 3 0.02
78 1 0.01
79 1 0.01
80 17 0.12
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (74 bp):
AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
AATTAAATT
Found at i:63711299 original size:52 final size:52
Alignment explanation
Indices: 63711142--63711390 Score: 246
Period size: 52 Copynumber: 4.8 Consensus size: 52
63711132 GGGTTTTTAA
* *
63711142 GTTAAGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAATTAAATTAG
1 GTTAA-GG-TTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAG
* *
63711196 GTCAAGGTTAGAGTTTTTAAGTT-AA--GGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGAGTTTTTAA-TTAAATTAGG-TTAGGGTTTTTAATTAAATTAG
63711247 GTTAAGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAG
*
63711299 GTT-A-G---GA-TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTAATTAATTTAG
1 GTTAAGGTTAGAGTTTTTAATTAAATTAGGTTAGGG-T----TTT-TAATTAAATTAG
* * * * *
63711351 GTTAGGGGTCAGGGTTTTTAATTAATTTAAGTTAGGGTTT
1 GTTA-AGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTT
63711391 AGGGTTTTTA
Statistics
Matches: 166, Mismatches: 11, Indels: 36
0.78 0.05 0.17
Matches are distributed among these distances:
46 23 0.14
47 3 0.02
50 4 0.02
51 47 0.28
52 53 0.32
53 6 0.04
54 6 0.04
55 1 0.01
58 2 0.01
59 21 0.13
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.45
Consensus pattern (52 bp):
GTTAAGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAG
Found at i:63711357 original size:23 final size:23
Alignment explanation
Indices: 63711126--63711330 Score: 186
Period size: 23 Copynumber: 8.5 Consensus size: 23
63711116 CATTACGTTA
63711126 AGGTTAGGGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
*
63711147 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
*
63711171 AGATTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
* * *
63711194 AGGTCAAGGTTAGAGTTT--TTAAGTT
1 AGGTTAGGGTT----TTTAATTAAATT
63711219 AAGGGTTTAGGGTTTTTAATTAAATT
1 -A-GG-TTAGGGTTTTTAATTAAATT
63711245 AGGTTAAGGTTAGAGTTTTTAATTAAATT
1 AGGTT-A-G---G-GTTTTTAATTAAATT
63711274 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
63711297 AGGTTAGGATTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
63711320 AGGTTAGGGTT
1 AGGTTAGGGTT
63711331 AGGGTTTGTA
Statistics
Matches: 153, Mismatches: 12, Indels: 36
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.03
22 15 0.10
23 77 0.50
24 8 0.05
25 8 0.05
26 7 0.05
27 6 0.04
28 8 0.05
29 20 0.13
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:63711403 original size:29 final size:29
Alignment explanation
Indices: 63711211--63711400 Score: 170
Period size: 29 Copynumber: 6.8 Consensus size: 29
63711201 GGTTAGAGTT
63711211 TTTAAGTTAAGGGTTTAGGGTTTTTAATTAA
1 TTTAAGTT-AGGG-TTAGGGTTTTTAATTAA
* * * *
63711242 ATTAGGTTAAGGTTAGAGTTTTTAATT-A
1 TTTAAGTTAGGGTTAGGGTTTTTAATTAA
63711270 ---AA-TTA-GGTTAGGGTTTTTAATT-A
1 TTTAAGTTAGGGTTAGGGTTTTTAATTAA
*
63711293 ---AA-TTA-GGTTAGGATTTTTAATTAA
1 TTTAAGTTAGGGTTAGGGTTTTTAATTAA
* * *
63711317 ATTAGGTTAGGGTTAGGGTTTGTAATTAA
1 TTTAAGTTAGGGTTAGGGTTTTTAATTAA
* *
63711346 TTTAGGTTAGGGGTCAGGGTTTTTAATTAA
1 TTTAAGTTA-GGGTTAGGGTTTTTAATTAA
63711376 TTTAAGTTAGGGTTTAGGGTTTTTA
1 TTTAAGTTAGGG-TTAGGGTTTTTA
63711401 TTATATAAAA
Statistics
Matches: 136, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
23 38 0.28
24 4 0.03
25 1 0.01
27 1 0.01
28 4 0.03
29 42 0.31
30 40 0.29
31 6 0.04
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (29 bp):
TTTAAGTTAGGGTTAGGGTTTTTAATTAA
Found at i:63711929 original size:18 final size:18
Alignment explanation
Indices: 63711906--63711940 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63711896 CGCAAAAGGA
*
63711906 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
63711924 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
63711941 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:63713767 original size:29 final size:29
Alignment explanation
Indices: 63713735--63713821 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
63713725 AAAAAGAAAA
63713735 TTGAGAGGAAATTTAAATTAAATATGGAT
1 TTGAGAGGAAATTTAAATTAAATATGGAT
* *
63713764 TTGAGA-G-AATTT---TT-GA-A-GGAAA
1 TTGAGAGGAAATTTAAATTAAATATGG-AT
*
63713786 TTGAGAGGAAATTAAAATTAAATATGGAT
1 TTGAGAGGAAATTTAAATTAAATATGGAT
63713815 TTGAGAG
1 TTGAGAG
63713822 AATTTTGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 18
0.66 0.07 0.27
Matches are distributed among these distances:
21 2 0.05
22 8 0.18
23 2 0.05
24 6 0.14
27 7 0.16
28 2 0.05
29 15 0.34
30 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (29 bp):
TTGAGAGGAAATTTAAATTAAATATGGAT
Found at i:63713787 original size:51 final size:51
Alignment explanation
Indices: 63713732--63713845 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
63713722 TTAAAAAAGA
* *
63713732 AAATTGAGAGGAAATTTAAATTAAATATGGATTTGAGAGAATTTTTGAAGG
1 AAATTGAGAGGAAATTAAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
63713783 AAATTGAGAGGAAATTAAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATTGAGAGGAAATTAAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
63713834 AAATTGAGAGGA
1 AAATTGAGAGGA
63713846 GTTGAGAGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (51 bp):
AAATTGAGAGGAAATTAAAATTAAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:63714832 original size:31 final size:30
Alignment explanation
Indices: 63714758--63714849 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 30
63714748 ATTAAACATG
*
63714758 TATAATTAAATCGAAATTAAAGTTTTATGTA
1 TATAATTAAA-CCAAATTAAAGTTTTATGTA
* * * *
63714789 TACATTTGAACCATAA-TAAATTTTTCATGTA
1 TATAATTAAACCA-AATTAAAGTTTT-ATGTA
*
63714820 TATAATTAAACCAAATTAAA-ATTTATGTA
1 TATAATTAAACCAAATTAAAGTTTTATGTA
63714849 T
1 T
63714850 CACATTTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
29 6 0.12
30 15 0.31
31 28 0.57
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.41
Consensus pattern (30 bp):
TATAATTAAACCAAATTAAAGTTTTATGTA
Found at i:63728627 original size:36 final size:36
Alignment explanation
Indices: 63728578--63728764 Score: 205
Period size: 36 Copynumber: 5.2 Consensus size: 36
63728568 TGCACCTGGT
* *
63728578 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGA
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
* *
63728614 GGTGGAGGGGGCACAGCATGACCTTTCAGTGGAGGG
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
* * * *
63728650 GGAGGAGGGGGCACCGCAGAACCTTTCGGTGGAGGT
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
* ** * *
63728686 GGAGGAGGGGGTGCAGTAGGAGCTTTCGGTGGAGGG
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
* * * * *
63728722 GGTGGAGGGGGCGCTGGAGG-GCTTTTGGTGGAGGG
1 GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
63728757 GGTGGAGG
1 GGTGGAGG
63728765 AGCTTTTGGA
Statistics
Matches: 129, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 22 0.17
36 107 0.83
ACGTcount: A:0.17, C:0.13, G:0.53, T:0.16
Consensus pattern (36 bp):
GGTGGAGGGGGCACAGCAGGACCTTTCGGTGGAGGG
Found at i:63728753 original size:35 final size:36
Alignment explanation
Indices: 63728578--63728848 Score: 193
Period size: 36 Copynumber: 7.2 Consensus size: 36
63728568 TGCACCTGGT
* * * * *
63728578 GGTGGAGGAGGCACAGCAGGACCTTTCGGTGGAGGA
1 GGTGGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGG
* * * * *
63728614 GGTGGAGGGGGCACAGCATGACCTTTCAGTGGAGGG
1 GGTGGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGG
* * * * * * *
63728650 GGAGGAGGGGGCACCGCAGAACCTTTCGGTGGAGGT
1 GGTGGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGG
* * *
63728686 GGAGGAGGGGGTGCAGTAGGAGCTTTCGGTGGAGGG
1 GGTGGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGG
* *
63728722 GGTGGAGGGGGCGCTGGAGG-GCTTTTGGTGGAGGGGGTGGAG
1 GGTGGAGGGGGCGCAGGAGGAGCTTTCGGTGGA------GG-G
* *
63728764 GAGCTTTTGGAGGGGGCGCTGGAGGAGCTTTTGGTGGAGGG
1 G-G----TGGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGG
* *
63728805 GGTGGAGGGGGCGCTGGAGGAGCTTTTGGTGGAGGG
1 GGTGGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGG
63728841 GGTGGAGG
1 GGTGGAGG
63728849 AGGAATAGAA
Statistics
Matches: 200, Mismatches: 22, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
35 11 0.05
36 149 0.75
40 1 0.00
41 4 0.02
42 4 0.02
43 1 0.00
47 18 0.09
48 12 0.06
ACGTcount: A:0.15, C:0.12, G:0.55, T:0.18
Consensus pattern (36 bp):
GGTGGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGG
Found at i:63728790 original size:83 final size:84
Alignment explanation
Indices: 63728689--63728850 Score: 281
Period size: 83 Copynumber: 1.9 Consensus size: 84
63728679 TGGAGGTGGA
* *
63728689 GGAGGGGGTGCAGTAGGAGCTTTCGGTGGAGGGGGTGGAGGGGGCGCTGGAGG-GCTTTTGGTGG
1 GGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGGGGTGGAGGGGGCGCTGGAGGAGCTTTTGGTGG
63728753 AGGGGGTGGAGGAGCTTTT
66 AGGGGGTGGAGGAGCTTTT
* *
63728772 GGAGGGGGCGCTGGAGGAGCTTTTGGTGGAGGGGGTGGAGGGGGCGCTGGAGGAGCTTTTGGTGG
1 GGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGGGGTGGAGGGGGCGCTGGAGGAGCTTTTGGTGG
63728837 AGGGGGTGGAGGAG
66 AGGGGGTGGAGGAG
63728851 GAATAGAACC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 49 0.66
84 25 0.34
ACGTcount: A:0.12, C:0.08, G:0.60, T:0.20
Consensus pattern (84 bp):
GGAGGGGGCGCAGGAGGAGCTTTCGGTGGAGGGGGTGGAGGGGGCGCTGGAGGAGCTTTTGGTGG
AGGGGGTGGAGGAGCTTTT
Found at i:63728810 original size:24 final size:24
Alignment explanation
Indices: 63728722--63728812 Score: 114
Period size: 24 Copynumber: 3.7 Consensus size: 24
63728712 CGGTGGAGGG
63728722 GGTGGAGGGGGCGCTGGAGG-GCTTTT
1 GGTGGA-GGGG-G-TGGAGGAGCTTTT
63728748 GGTGGAGGGGGTGGAGGAGCTTTT
1 GGTGGAGGGGGTGGAGGAGCTTTT
* *
63728772 GGAGG-GGGCGCTGGAGGAGCTTTT
1 GGTGGAGGG-GGTGGAGGAGCTTTT
63728796 GGTGGAGGGGGTGGAGG
1 GGTGGAGGGGGTGGAGG
63728813 GGGCGCTGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.16
24 36 0.62
25 7 0.12
26 6 0.10
ACGTcount: A:0.11, C:0.08, G:0.60, T:0.21
Consensus pattern (24 bp):
GGTGGAGGGGGTGGAGGAGCTTTT
Found at i:63729071 original size:12 final size:12
Alignment explanation
Indices: 63729056--63729097 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
63729046 GTGGATGCAA
63729056 GGGTGGGGGTAG
1 GGGTGGGGGTAG
*
63729068 GGGTAGGGGTAG
1 GGGTGGGGGTAG
* *
63729080 GGGTGGAGGCAG
1 GGGTGGGGGTAG
63729092 GGGTGG
1 GGGTGG
63729098 AGATGGCGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.12, C:0.02, G:0.71, T:0.14
Consensus pattern (12 bp):
GGGTGGGGGTAG
Found at i:63729093 original size:18 final size:18
Alignment explanation
Indices: 63729045--63729095 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
63729035 GCTGAAGGAT
* * *
63729045 GGTGGATGCAAGGGTGGG
1 GGTGGAGGCAGGGGTAGG
*
63729063 GGTAGG-GGTAGGGGTAGG
1 GGT-GGAGGCAGGGGTAGG
63729081 GGTGGAGGCAGGGGT
1 GGTGGAGGCAGGGGT
63729096 GGAGATGGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.16, C:0.04, G:0.65, T:0.16
Consensus pattern (18 bp):
GGTGGAGGCAGGGGTAGG
Found at i:63729390 original size:3 final size:3
Alignment explanation
Indices: 63729384--63729410 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
63729374 AGGAGGAGGA
63729384 GGT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT
63729411 CCAGGAGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:63740944 original size:110 final size:110
Alignment explanation
Indices: 63740808--63741034 Score: 445
Period size: 110 Copynumber: 2.1 Consensus size: 110
63740798 TGTTTTTTTA
*
63740808 CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCTA
1 CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
63740873 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
66 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
63740918 CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
1 CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
63740983 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
66 TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
63741028 CTTAGTT
1 CTTAGTT
63741035 AGCCAGACAC
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 116 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (110 bp):
CTTAGTTTTGTTCTAGAAGAAGACTGTCTTTATATTAGCTTCTTGAACAGAGTGTTGATTTCCAA
TACTTTTCTAGTCCAGGAGTTGGGCTACTGATGTTATTATAATTC
Found at i:63746880 original size:6 final size:6
Alignment explanation
Indices: 63746869--63746900 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
63746859 GAACAGAAAC
63746869 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GA
63746901 GTAAGGGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:63749170 original size:192 final size:193
Alignment explanation
Indices: 63748835--63749185 Score: 485
Period size: 192 Copynumber: 1.8 Consensus size: 193
63748825 CGGTTATTAT
* * * * **
63748835 ATTTCTGGATCAATTTAGGTTTGTGTTCTTTTTGGTTTTGATCATTAGGGTTTTTTGGGTTGAAT
1 ATTTCTGGATCAATTTAGGCTAGTGCTCTTTTTGGTTTTAATCATTAGGGTTTTTCAGGTTGAAT
* * * ** * * *
63748900 CATCTTTGGGTTCATATCATTTCGGATCCTTTTGTGTTTGGAACATCTTGGATTCGAATTCTTTT
66 AATCTTTGGATTCATATAATTTCGGATCAATTTATGTTTGGAACATCTTGGATTAGAATTATTTT
*
63748965 CAGGTTTGGTTGAGCCAGTTTGGGTTATTGCCATTTGATTACTAGGTCCATTCGTTTTTTGAA
131 CAGGTTCGGTTGAGCCAGTTTGGGTTATTGCCATTTGATTACTAGGTCCATTCGTTTTTTGAA
* * *
63749028 ATTTCTGGATCAGTTTAGGCTAG-GCTCATTTTTTGTTTTAATCATTAGGGTTTTTCAGGTTGGA
1 ATTTCTGGATCAATTTAGGCTAGTGCTC-TTTTTGGTTTTAATCATTAGGGTTTTTCAGGTTGAA
63749092 TAATC-TTGGATTCATATAA-TTCTGGATCAATTTATGTTTGGAACAT-TTGGAATTAGAATTAT
65 TAATCTTTGGATTCATATAATTTC-GGATCAATTTATGTTTGGAACATCTTGG-ATTAGAATTAT
63749154 TTTCAGGTTCGGTTGAGCCAGTTTGGGTTATT
128 TTTCAGGTTCGGTTGAGCCAGTTTGGGTTATT
63749186 CCCTTTTCAT
Statistics
Matches: 137, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
191 7 0.05
192 75 0.55
193 55 0.40
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (193 bp):
ATTTCTGGATCAATTTAGGCTAGTGCTCTTTTTGGTTTTAATCATTAGGGTTTTTCAGGTTGAAT
AATCTTTGGATTCATATAATTTCGGATCAATTTATGTTTGGAACATCTTGGATTAGAATTATTTT
CAGGTTCGGTTGAGCCAGTTTGGGTTATTGCCATTTGATTACTAGGTCCATTCGTTTTTTGAA
Found at i:63761239 original size:13 final size:13
Alignment explanation
Indices: 63761221--63761257 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
63761211 AGAAATGAGC
63761221 TTTTTATTTTTTA
1 TTTTTATTTTTTA
**
63761234 TTTTTACCTTTTA
1 TTTTTATTTTTTA
63761247 TTTTTATTTTT
1 TTTTTATTTTT
63761258 ATTCTTTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:63761250 original size:5 final size:6
Alignment explanation
Indices: 63761221--63761260 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
63761211 AGAAATGAGC
*
63761221 TTTTTA TTTTTTA TTTTTA CCTTTTA TTTTTA TTTTTA TT
1 TTTTTA -TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TT
63761261 CTTTTCTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:63761265 original size:20 final size:20
Alignment explanation
Indices: 63761222--63761258 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
63761212 GAAATGAGCT
63761222 TTTTATTTTTTATTTTTACC
1 TTTTATTTTTTATTTTTACC
63761242 TTTTA-TTTTTATTTTTA
1 TTTTATTTTTTATTTTTA
63761259 TTCTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTATTTTTTATTTTTACC
Found at i:63767063 original size:12 final size:12
Alignment explanation
Indices: 63767046--63767072 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63767036 TGGGTTAAGA
63767046 ATACCCTGGTCT
1 ATACCCTGGTCT
63767058 ATACCCTGGTCT
1 ATACCCTGGTCT
63767070 ATA
1 ATA
63767073 TTAAATTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (12 bp):
ATACCCTGGTCT
Found at i:63774534 original size:11 final size:11
Alignment explanation
Indices: 63774518--63774549 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
63774508 TTATCTCACG
63774518 CTACAGTATCA
1 CTACAGTATCA
63774529 CTACAGTATCA
1 CTACAGTATCA
63774540 CTACAGTATC
1 CTACAGTATC
63774550 TAATCTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (11 bp):
CTACAGTATCA
Found at i:63774848 original size:21 final size:21
Alignment explanation
Indices: 63774822--63774861 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
63774812 AACAAAATAT
63774822 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
63774843 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
63774862 AAATAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:63775938 original size:17 final size:18
Alignment explanation
Indices: 63775898--63775945 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
63775888 TCAAATTAAA
63775898 TAAATTATTAAAAATGTAT
1 TAAATT-TTAAAAATGTAT
*
63775917 AAAATTTTAAAAAT-TAT
1 TAAATTTTAAAAATGTAT
*
63775934 TAAATTATAAAA
1 TAAATTTTAAAA
63775946 TATGATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 13 0.50
18 8 0.31
19 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAATTTTAAAAATGTAT
Found at i:63782676 original size:4 final size:4
Alignment explanation
Indices: 63782667--63782693 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
63782657 CGAGCACGCG
63782667 CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
63782694 GAAAAGGAAA
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:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:63785108 original size:18 final size:18
Alignment explanation
Indices: 63785085--63785119 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63785075 TATGGTAAAA
63785085 TTATATAAAAATATTATT
1 TTATATAAAAATATTATT
*
63785103 TTATATAAAGATATTAT
1 TTATATAAAAATATTAT
63785120 ACTAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTATATAAAAATATTATT
Found at i:63785296 original size:20 final size:21
Alignment explanation
Indices: 63785246--63785297 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
63785236 TAATCAAATT
*
63785246 TAATAAATTATTTTTTAATCA
1 TAATAAATAATTTTTTAATCA
63785267 T--TAAATTAATTTTTTAAT-A
1 TAATAAA-TAATTTTTTAATCA
63785286 TAATAAATAATT
1 TAATAAATAATT
63785298 ACACATGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 6 0.22
20 16 0.59
21 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATAAATAATTTTTTAATCA
Found at i:63785468 original size:6 final size:6
Alignment explanation
Indices: 63785457--63785489 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
63785447 GTCCAGCTTA
63785457 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
63785490 ACATTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:63790031 original size:43 final size:43
Alignment explanation
Indices: 63789983--63790068 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
63789973 TTATGTAAGA
63789983 GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
1 GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
63790026 GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
1 GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
63790069 TTTTATTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (43 bp):
GTCGATGTTTTGATTTTAATGATAAAATTTATCATAGGTAATT
Found at i:63803052 original size:23 final size:23
Alignment explanation
Indices: 63803025--63803081 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
63803015 AAATTTAAAA
63803025 TATATATTATAATAT-TATAATAT
1 TATATATTA-AATATATATAATAT
* * *
63803048 TATATCTTAAGTATATATTATAT
1 TATATATTAAATATATATAATAT
*
63803071 TATATAATAAA
1 TATATATTAAA
63803082 ACAAAGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TATATATTAAATATATATAATAT
Found at i:63803845 original size:24 final size:24
Alignment explanation
Indices: 63803809--63803864 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
63803799 GTGTATTGCA
**
63803809 ATTGAATGGATTG-ATTTAGTATGTG
1 ATTGAATTTATTGAATTTA-TAT-TG
63803834 ATT-AATTTATTGAATTTATATTG
1 ATTGAATTTATTGAATTTATATTG
63803857 ATTGAATT
1 ATTGAATT
63803865 GGTATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 5 0.19
24 14 0.52
25 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (24 bp):
ATTGAATTTATTGAATTTATATTG
Found at i:63805417 original size:50 final size:50
Alignment explanation
Indices: 63805293--63805541 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
63805283 GATAATAACA
* * * *
63805293 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-CTCTCAT-CTCGG
* * *
63805344 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * *
63805394 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * * *
63805444 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTC-TCATC-T-CGG
63805499 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
63805542 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.01
50 85 0.50
51 34 0.20
52 3 0.02
53 4 0.02
54 5 0.03
55 2 0.01
56 35 0.21
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
Found at i:63805471 original size:100 final size:105
Alignment explanation
Indices: 63805292--63805541 Score: 350
Period size: 100 Copynumber: 2.4 Consensus size: 105
63805282 TGATAATAAC
**
63805292 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
63805357 TCCCAGACATGGTCTTATAGGGGA-TCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACTCTCATCATCTTAAGG
* *
63805394 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
63805457 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGA-CTCTCATCATCTTAAGG
* *
63805499 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
63805542 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 44 0.33
101 36 0.27
102 4 0.03
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACTCTCATCATCTTAAGG
Found at i:63805656 original size:13 final size:13
Alignment explanation
Indices: 63805635--63805666 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
63805625 GCTTGGATCA
*
63805635 TCATCAAATAAAT
1 TCATAAAATAAAT
63805648 TCATAAAATAAAT
1 TCATAAAATAAAT
63805661 TCATAA
1 TCATAA
63805667 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:63806160 original size:13 final size:13
Alignment explanation
Indices: 63806142--63806167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63806132 GCCCAAACGT
63806142 CGAAATTTTCAAA
1 CGAAATTTTCAAA
63806155 CGAAATTTTCAAA
1 CGAAATTTTCAAA
63806168 AAATCATTTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:63807942 original size:23 final size:23
Alignment explanation
Indices: 63807916--63808013 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
63807906 ATAAGTGCCA
63807916 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
63807939 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
63807962 CACTG-GATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
63807984 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
63808007 CACTGAT
1 CACTGAT
63808014 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:63807981 original size:45 final size:45
Alignment explanation
Indices: 63807923--63808011 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
63807913 CCACACTGAT
*
63807923 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
63807968 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
63808012 ATCAATAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (45 bp):
ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Done.