Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 14 of 208
Found at i:5741609 original size:17 final size:17
Alignment explanation
Indices: 5741589--5741642 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
5741579 TAATAAAATA
5741589 ATTATAATTATAATTAT
1 ATTATAATTATAATTAT
5741606 ATTAT-ATTAATAATT-T
1 ATTATAATT-ATAATTAT
*
5741622 GTTATGAATGT-TAATTAT
1 ATTAT-AAT-TATAATTAT
5741640 ATT
1 ATT
5741643 TTTAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 8 0.27
17 16 0.53
18 5 0.17
19 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
ATTATAATTATAATTAT
Found at i:5742182 original size:13 final size:13
Alignment explanation
Indices: 5742164--5742192 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5742154 GATAAAAAAC
5742164 TTTCAACAATTTA
1 TTTCAACAATTTA
5742177 TTTCAACAATTTA
1 TTTCAACAATTTA
5742190 TTT
1 TTT
5742193 AATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTCAACAATTTA
Found at i:5748184 original size:21 final size:21
Alignment explanation
Indices: 5748143--5748184 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5748133 AACCATCCAT
* * *
5748143 TAACAAAATTACAGGCTCAAA
1 TAACAAAAGTACAAGCCCAAA
5748164 TAACAAAAGTACAAGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
5748185 ATACAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.21, G:0.10, T:0.14
Consensus pattern (21 bp):
TAACAAAAGTACAAGCCCAAA
Found at i:5749909 original size:33 final size:35
Alignment explanation
Indices: 5749837--5749913 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
5749827 ATTGACGGAT
* *
5749837 AAGACCATGGTTGGACCATGACAATGTTTAAATGT
1 AAGACCATAGTTGGACCATGACAATGTTTAAATGA
* *
5749872 AAGACCATAGTTGGGCTATGAC-AT-TTT-AATGAA
1 AAGACCATAGTTGGACCATGACAATGTTTAAATG-A
5749905 AAGACCATA
1 AAGACCATA
5749914 ACTGGGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 4 0.11
33 12 0.32
34 2 0.05
35 19 0.51
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (35 bp):
AAGACCATAGTTGGACCATGACAATGTTTAAATGA
Found at i:5751548 original size:13 final size:13
Alignment explanation
Indices: 5751530--5751560 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5751520 TTCCAGCAAC
5751530 TATGAATTTATTT
1 TATGAATTTATTT
5751543 TATGAATTTATTT
1 TATGAATTTATTT
*
5751556 GATGA
1 TATGA
5751561 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:5751768 original size:50 final size:50
Alignment explanation
Indices: 5751655--5751895 Score: 313
Period size: 50 Copynumber: 4.7 Consensus size: 50
5751645 ATTTGGGTAA
* * *
5751655 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
5751711 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
5751761 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
5751811 AGAGGTCCC-TATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
**
5751860 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
5751896 TTTGGCATGT
Statistics
Matches: 169, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
49 39 0.23
50 61 0.36
51 24 0.14
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:5751857 original size:99 final size:103
Alignment explanation
Indices: 5751655--5751903 Score: 371
Period size: 100 Copynumber: 2.4 Consensus size: 103
5751645 ATTTGGGTAA
5751655 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
*
5751720 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
5751761 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGT-CCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
5751822 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
5751860 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
5751904 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
99 43 0.32
100 46 0.35
101 2 0.02
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:5766276 original size:18 final size:19
Alignment explanation
Indices: 5766250--5766300 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
5766240 TAATTTATAA
*
5766250 TACATTAAA-AAATAA-ACC
1 TACACTAAATAAATAATA-C
*
5766268 TACACTAAATATATAATAC
1 TACACTAAATAAATAATAC
5766287 TACACTAATATAAA
1 TACACTAA-ATAAA
5766301 CATTAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.30
19 14 0.52
20 5 0.19
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
TACACTAAATAAATAATAC
Found at i:5766943 original size:27 final size:29
Alignment explanation
Indices: 5766911--5766975 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
5766901 ACCTTTGAGC
**
5766911 CTAAATTTT-GAAATTTGAAAA-ATA-GGA
1 CTAAATTTTAGAAA-TAAAAAATATATGGA
5766938 CTAAATTCTTAGAAATAAAAAATATATGGA
1 CTAAATT-TTAGAAATAAAAAATATATGGA
5766968 CTAAATTT
1 CTAAATTT
5766976 CAATTTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 7 0.22
28 7 0.22
29 8 0.25
30 10 0.31
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (29 bp):
CTAAATTTTAGAAATAAAAAATATATGGA
Found at i:5772601 original size:18 final size:18
Alignment explanation
Indices: 5772574--5772613 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5772564 ATAAGATATA
5772574 GTAA-TAAATAAATAAAT
1 GTAATTAAATAAATAAAT
*
5772591 TTAATTAAATAAATAAAT
1 GTAATTAAATAAATAAAT
5772609 GTAAT
1 GTAAT
5772614 ACTTGTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
GTAATTAAATAAATAAAT
Found at i:5775133 original size:46 final size:46
Alignment explanation
Indices: 5775066--5775158 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
5775056 CATGGCAAAG
*
5775066 TGTGAAACGTAGGTATGATA-TTCCAGTGAAGAAAACCACAATGAGT
1 TGTGAAAAGTAGGTATGATATTTCCA-TGAAGAAAACCACAATGAGT
* * *
5775112 TGTGAAAAGTAGGTATGATATTTTCATGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATATTTCCATGAAGAAAACCACAATGAGT
5775158 T
1 T
5775159 ATAGCCTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 38 0.90
47 4 0.10
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGATATTTCCATGAAGAAAACCACAATGAGT
Found at i:5787127 original size:41 final size:41
Alignment explanation
Indices: 5787064--5787141 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
5787054 CGAAGACTTC
*
5787064 AATCTTATCTCCCTGAGATTACA-TCGGAGCAGATTAAGACT
1 AATCCTATCTCCCTGAGATTACAGT-GGAGCAGATTAAGACT
*
5787105 AATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAA
1 AATCCTATCTCCCTGAGA-TTACAGTGGAGCAGATTAA
5787142 ATAAAGGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 1 0.03
41 31 0.94
42 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (41 bp):
AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAGACT
Found at i:5787366 original size:225 final size:218
Alignment explanation
Indices: 5786855--5787404 Score: 782
Period size: 225 Copynumber: 2.5 Consensus size: 218
5786845 TGAAGCAGAG
* * *
5786855 ATCTT-TCTCCCTGAGATTGCAGCGGAGC-GATCAAAGACCT-ATCCTATCTCCCTGAAGTTACA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGAT-GAAGA-CTAACCCTATCTCCCTGAAGTTACA
*
5786917 GTGGAGCGGATGAAATAAAGATCTTATCT-T-TG-AGTT-CAGC-G-G-AGATCGCATCAAATTA
64 GTGGAGCGGATTAAATAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAATTA
* *
5786975 AACAAGGATCTTATCTCTCTGAGTTACAGTAGAGCAGATCGCACCAGTCTTATCTCCCTGAGGTT
129 AACAAGGATCTTATCTCTCTAAGTTACAGCAGAGCAGATCGCACCAGTCTTATCTCCCTGAGGTT
5787040 ACAGGGGAGTAAACCGAAGACTTCA
194 ACAGGGGAGTAAACCGAAGACTTCA
* * *
5787065 ATCTTATCTCCCTGAGATTACATCGGAGCAGATTAAGACTAATCCTATCTCCCTGAAGTTACAGT
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATGAAGACTAACCCTATCTCCCTGAAGTTACAGT
5787130 GGAGCGGATTAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAATTAA
66 GGAGCGGATTAAATAAA-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAATTAA
*
5787195 ACCAAGGATCTTATTTCTCTAAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGG
130 A-CAAGGATCTTATCTCTCT-AAGTTACAGCAGAGCAGATCGCACCA-GTCTTATCTCCCTGAGG
* *
5787260 TTACAGTGGAGTAGACCGAAGACTTTCA
192 TTACAGGGGAGTAAACCGAAGAC-TTCA
*
5787288 GATCTTATCT-CCTGAGA-TATCAGCGGAGCAGATGAAGATAGTAACCCTATCTCCCTGAAGTTA
1 -ATCTTATCTCCCTGAGATTA-CAGCGGAGCAGATGAAG--ACTAACCCTATCTCCCTGAAGTTA
*
5787351 CAGTGGAGCGGATTAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
62 CAGTGGAGCGGATTAAAT-AAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
5787405 TCACTCACAT
Statistics
Matches: 306, Mismatches: 14, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
210 7 0.02
211 65 0.21
212 13 0.04
213 1 0.00
214 2 0.01
215 4 0.01
216 4 0.01
217 1 0.00
218 1 0.00
219 18 0.06
220 17 0.06
221 24 0.08
222 40 0.13
223 26 0.08
224 9 0.03
225 71 0.23
226 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (218 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATGAAGACTAACCCTATCTCCCTGAAGTTACAGT
GGAGCGGATTAAATAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAATTAAA
CAAGGATCTTATCTCTCTAAGTTACAGCAGAGCAGATCGCACCAGTCTTATCTCCCTGAGGTTAC
AGGGGAGTAAACCGAAGACTTCA
Found at i:5788967 original size:14 final size:14
Alignment explanation
Indices: 5788948--5788974 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5788938 TTTTGTTAAC
5788948 TTTATTATTATTAT
1 TTTATTATTATTAT
5788962 TTTATTATTATTA
1 TTTATTATTATTA
5788975 CTATCATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:5789078 original size:18 final size:21
Alignment explanation
Indices: 5789032--5789078 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
5789022 ATATCTCTAT
5789032 TCATATATACTTATGTATTTTA
1 TCATATATACTTATGTA-TTTA
*
5789054 ACATATAT-CTTAT-TA-TTA
1 TCATATATACTTATGTATTTA
5789072 TCATATA
1 TCATATA
5789079 GTGCTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.39
20 2 0.09
21 5 0.22
22 7 0.30
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (21 bp):
TCATATATACTTATGTATTTA
Found at i:5789160 original size:24 final size:26
Alignment explanation
Indices: 5789104--5789170 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
5789094 ATGTACATAT
*
5789104 TTACATATATTTTTTATATATACGTTA
1 TTACATATTTTTTTTATATATACG-TA
5789131 TT-CATATTTTTTTTATATAT-C-TA
1 TTACATATTTTTTTTATATATACGTA
5789154 TTACATATATATTTTTT
1 TTACATAT-T-TTTTTT
5789171 TTTTATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 4 0.11
24 5 0.14
25 2 0.06
26 23 0.64
27 2 0.06
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (26 bp):
TTACATATTTTTTTTATATATACGTA
Found at i:5789163 original size:26 final size:26
Alignment explanation
Indices: 5789104--5789171 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 26
5789094 ATGTACATAT
*
5789104 TTACATATATTTTTTATATATACGTTA
1 TTACATATATTTTTTTTATATACG-TA
5789131 TT-C--ATATTTTTTTTATATATC-TA
1 TTACATATATTTTTTTTATATA-CGTA
5789154 TTACATATATATTTTTTT
1 TTACATATAT-TTTTTTT
5789172 TTTATATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
23 4 0.11
24 16 0.46
25 1 0.03
26 5 0.14
27 9 0.26
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.62
Consensus pattern (26 bp):
TTACATATATTTTTTTTATATACGTA
Found at i:5789215 original size:13 final size:13
Alignment explanation
Indices: 5789172--5789206 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
5789162 ATATTTTTTT
5789172 TTTATAT-TATATA
1 TTTATATGTAT-TA
5789185 TTTATATGTATTA
1 TTTATATGTATTA
5789198 TTTATATGT
1 TTTATATGT
5789207 TTTTGTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TTTATATGTATTA
Found at i:5789609 original size:12 final size:13
Alignment explanation
Indices: 5789592--5789628 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5789582 TTTGAATGAA
5789592 TGTTTATTTAT-T
1 TGTTTATTTATAT
*
5789604 TGTTTATATATAT
1 TGTTTATTTATAT
5789617 TGTTT-TTTATAT
1 TGTTTATTTATAT
5789629 GATTGTAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (13 bp):
TGTTTATTTATAT
Found at i:5794822 original size:21 final size:22
Alignment explanation
Indices: 5794776--5794822 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
5794766 TCAAGCAAAA
* *
5794776 AAAATCCTAAAAAGGAATAATG
1 AAAATCCTAAAAAAGAAAAATG
*
5794798 -AAATCC-AAAAAATAAAAATG
1 AAAATCCTAAAAAAGAAAAATG
5794818 AAAAT
1 AAAAT
5794823 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAATCCTAAAAAAGAAAAATG
Found at i:5795448 original size:18 final size:18
Alignment explanation
Indices: 5795425--5795464 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
5795415 ATTTTATATT
5795425 ATAAATTATCAAA-AATAA
1 ATAAATT-TCAAATAATAA
*
5795443 ATAAATTTTAAATAATAA
1 ATAAATTTCAAATAATAA
5795461 ATAA
1 ATAA
5795465 TAAAACTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAATTTCAAATAATAA
Found at i:5798469 original size:3 final size:3
Alignment explanation
Indices: 5798461--5798492 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
5798451 GACGCTGATG
*
5798461 CTC CTC CTC CTC CTC CTC CTA CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
5798493 GCTGCTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:5802148 original size:101 final size:101
Alignment explanation
Indices: 5801960--5802366 Score: 514
Period size: 101 Copynumber: 4.0 Consensus size: 101
5801950 AATTTATCCA
* * * * *
5801960 TTACATTCGTAGTGCCATAACCCAATTATGATCTTATCATCAAAATGTCATAACCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
5802025 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
5802061 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATTATCAGAATG-CTATAGCCCAGCTATGG
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTC-ATAGCCCAGCTATGG
* * * *
5802125 TTTTACATATAAACGCTGTCATGG-CCTAACCATGGTT
65 TCTTACATATAAACACTGCCATGGTCC-AACCATGGTC
* * * * * * *
5802162 TTAAGTTCACAGTTCCATAACCCAGTTATGGTCTTATCATCAGAATGCCAAAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
* *
5802227 CTTACATACAAACACTGCCATAGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * *
5802263 TTACGTTCATAGTGCTATAACTCAGTTATGGTCTT-TCCATTAAAATGTCATAGCCCAGCTATGA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTAT-CATCAAAATGTCATAGCCCAGCTATGG
* * * *
5802327 TTTTACATTTAAACATTGCCATGGTCCAATCATGGTC
65 TCTTACATATAAACACTGCCATGGTCCAACCATGGTC
5802364 TTA
1 TTA
5802367 TCCATCAATT
Statistics
Matches: 261, Mismatches: 40, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
100 4 0.02
101 254 0.97
102 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:5805042 original size:25 final size:24
Alignment explanation
Indices: 5804999--5805051 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
5804989 AAATTCAAAC
5804999 GAGCCATATCAGGAAGCTCATAAA
1 GAGCCATATCAGGAAGCTCATAAA
* *
5805023 GAGCCTATATCGGGACGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCATAAA
5805048 GAGC
1 GAGC
5805052 TGCGGTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATAAA
Found at i:5805417 original size:23 final size:22
Alignment explanation
Indices: 5805351--5805409 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
5805341 GACATTTATG
*
5805351 CAATTCACACATATACAACATT
1 CAATTCAAACATATACAACATT
*
5805373 CAATTCGAACATATACGAACATT
1 CAATTCAAACATATAC-AACATT
5805396 CAATTCAAACATAT
1 CAATTCAAACATAT
5805410 TCAAACATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (22 bp):
CAATTCAAACATATACAACATT
Found at i:5805430 original size:32 final size:33
Alignment explanation
Indices: 5805375--5805440 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
5805365 ACAACATTCA
*
5805375 ATTCGAACATATACGAACATTCAATTCAAACAT
1 ATTCAAACATATACGAACATTCAATTCAAACAT
5805408 ATTCAAACATATAC-AACATTCAATTCAAACAT
1 ATTCAAACATATACGAACATTCAATTCAAACAT
5805440 A
1 A
5805441 ATTTAGTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.27
Consensus pattern (33 bp):
ATTCAAACATATACGAACATTCAATTCAAACAT
Found at i:5807511 original size:1 final size:1
Alignment explanation
Indices: 5807505--5807529 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
5807495 TGCCAAGGTT
5807505 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
5807530 TGGGCTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5819829 original size:11 final size:11
Alignment explanation
Indices: 5819806--5819838 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
5819796 AGAAAAAAAA
5819806 AGAG-AGGGAAG
1 AGAGAAGGG-AG
5819817 AGAGAAGGGAG
1 AGAGAAGGGAG
5819828 AGAGAAGGGAG
1 AGAGAAGGGAG
5819839 GGGAATCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (11 bp):
AGAGAAGGGAG
Found at i:5821049 original size:44 final size:44
Alignment explanation
Indices: 5820888--5821173 Score: 276
Period size: 44 Copynumber: 6.5 Consensus size: 44
5820878 CAGGGACAAA
* * * *
5820888 ATCTGCTTTCTTCGATCTACTTCACCACCAGTAT-GAGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CTACCAATATAG-GAAGATAAG
* * * *
5820933 ATCTG-TATCTTGGATCCACTTCCTATCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGATAAG
* * *
5820976 ATCTGC-ATCTTCGATCCACTTCCTACCAATATATGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGATAAG
* * * *
5821019 ATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGATAAG
* * * * * * *
5821063 ATCCGTTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGATAAG
* *
5821108 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGATAAG
*
5821151 ATCAGCTATCTTCGATCTACTTC
1 ATCTGCTATCTTCGATCTACTTC
5821174 TTGCCCCGGG
Statistics
Matches: 197, Mismatches: 38, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
43 81 0.41
44 92 0.47
45 24 0.12
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGATAAG
Found at i:5821472 original size:91 final size:94
Alignment explanation
Indices: 5821286--5821474 Score: 289
Period size: 91 Copynumber: 2.0 Consensus size: 94
5821276 AAGATCTACA
*
5821286 ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCATG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCATG
5821351 TAGTCAGGGAAGTAAAATATGCCATCTTG
66 TAGTCAGGGAAGTAAAATATGCCATCTTG
*
5821380 ATCTTCAATCTATTCCACTG-CAAATGCA-GGAGATAGAGTTATCGGCTT-AATGTACT-CCACT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCA-T
* *
5821441 GTAGTCA-GGAGGTAAAATCTGCCATCTTTG
65 GTAGTCAGGGAAGTAAAATATGCCATC-TTG
5821471 ATCT
1 ATCT
5821475 GCTTCGCTTC
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
90 20 0.22
91 23 0.26
92 20 0.22
93 6 0.07
94 20 0.22
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (94 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCATG
TAGTCAGGGAAGTAAAATATGCCATCTTG
Found at i:5821616 original size:134 final size:134
Alignment explanation
Indices: 5821380--5821742 Score: 635
Period size: 134 Copynumber: 2.7 Consensus size: 134
5821370 TGCCATCTTG
*
5821380 ATCTTCAATCTATTCCACTG-CAAATGC-AGGAGATAGAGTTATCGGCTT-AATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* * *
5821442 TAGTCA-GGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTTCCAATTACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5821506 TGCA
131 TGCA
*
5821510 ATCTTCAATCTATTCCACTGCCAGATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5821575 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5821640 TGCA
131 TGCA
* *
5821644 ATTTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5821709 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCT
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCT
5821743 TCAATCTATT
Statistics
Matches: 221, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
130 20 0.09
131 5 0.02
132 21 0.10
133 20 0.09
134 155 0.70
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:5821794 original size:229 final size:229
Alignment explanation
Indices: 5821510--5822200 Score: 1301
Period size: 229 Copynumber: 3.0 Consensus size: 229
5821500 AAGATCTGCA
* *
5821510 ATCTTCAATCTATTCCACTGCCAGATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
5821575 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
* *
5821640 TGCAATTTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
131 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCC
5821705 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
196 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
5821739 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5821804 TGGTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5821869 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCC
131 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCC
*
5821934 ACTGTAGTCAGGGAAGTAAAATCTGCCATCTTCG
196 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
*
5821968 ATCTTTAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5822033 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
5822098 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCC
131 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCC
5822163 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
196 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
5822197 ATCT
1 ATCT
5822201 GCTTCGCTGC
Statistics
Matches: 451, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 451 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (229 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCC
ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:5821810 original size:95 final size:95
Alignment explanation
Indices: 5821647--5821837 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
5821637 ATCTGCAATT
5821647 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAG
1 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAG
5821712 TCAGGGAGGTAAAATCTGCCATCTTCGATC
66 TCAGGGAGGTAAAATCTGCCATCTTCGATC
*
5821742 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGG
1 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAG
* *
5821807 TCAGGGAGGTAAAATCTGTCATCTTTGATC
66 TCAGGGAGGTAAAATCTGCCATCTTCGATC
5821837 T
1 T
5821838 GCTTCGCTGC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAG
TCAGGGAGGTAAAATCTGCCATCTTCGATC
Found at i:5821937 original size:45 final size:45
Alignment explanation
Indices: 5821741--5822166 Score: 119
Period size: 46 Copynumber: 9.4 Consensus size: 45
5821731 CATCTTCGAT
* *
5821741 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
* *** * * * **
5821786 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGTCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAAT-TATCGG
** * * * * * **
5821829 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AG-ATCT-GCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAAT-TATC-GG
*
5821875 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
* * * * *
5821920 CTTCAATGTACTCCACTG--TAGT-CAGGGA-AGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGA-TAGAAT-T---A---TCG-G
* * *
5821970 CTTTAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
* *** * * ** **
5822015 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAAT-TATCGG
** * * * * * **
5822058 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AG-ATCT-GCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAAT-TATC-GG
*
5822104 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
5822149 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
5822167 TAGTCAGGGA
Statistics
Matches: 262, Mismatches: 86, Indels: 66
0.63 0.21 0.16
Matches are distributed among these distances:
41 1 0.00
42 33 0.13
43 34 0.13
44 2 0.01
45 75 0.29
46 80 0.31
47 4 0.02
49 4 0.02
50 15 0.06
52 3 0.01
53 10 0.04
54 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
Found at i:5821980 original size:95 final size:95
Alignment explanation
Indices: 5821873--5822066 Score: 343
Period size: 95 Copynumber: 2.0 Consensus size: 95
5821863 AAGATCTGCA
5821873 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
5821938 TAGTCAGGGAAGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAAGTAAAATCTGCCATCTTCG
* *
5821968 ATCTTTAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* * *
5822033 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAAGTAAAATCTGCCATCTTCG
5822063 ATCT
1 ATCT
5822067 GCTTCGCTGC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAAGTAAAATCTGCCATCTTCG
Found at i:5822113 original size:363 final size:354
Alignment explanation
Indices: 5821182--5822243 Score: 1176
Period size: 363 Copynumber: 2.9 Consensus size: 354
5821172 TCTTGCCCCG
* * * *
5821182 GGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTCG
1 GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAAGTAAAATCTGCCATCTTCG
** * ** * *
5821247 ATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAGAT
66 ATCTGCTTCACTGCCAAATACAGGAAGACAAGATCGGC-A--TTCAATCTACTCCACTG-CAAAT
* * * * * * * * *
5821312 ACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CATGTAGTCAGGGAA-GTAAAATATGCCA
127 ACAGGGAGATAAAATTACCAGCTTCAATCTACTCCAC-TGAAATCA-GGAAGGCAAAATCTGCCA
*
5821375 TCTTGATCTTCAATCTATTCCACTG-CAAATGCA-GGAGATAGAGTTATCGGCTT-AATGTACTC
190 ---T-ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTC
* *
5821437 CACTGTAGTCA-GGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTTCCAATTACAGGAAGGCA
251 CACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA
*
5821501 AGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAA
316 AGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAA
* *
5821540 GGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
1 GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAAGTAAAATCTGCCATCTTCG
* * * *
5821605 ATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATTTTCAATCTATTCCACTGCCAAAT
66 ATCTGCTTCACTGCCAAATACAGGAAGACAAGATCGGC-A--TTCAATCTACTCCACTG-CAAAT
* * * * * * * * *
5821670 ACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATC
127 ACAGGGAGATAAAATTACCAGCTTCAATCTACTCCACTGAAATCAGGAAGGCAAAATCTGCCA--
5821735 TTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
190 -T--ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
* *
5821800 ACTGTGGTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
252 ACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
*
5821865 GATCTGCAATCTTCAATCTATTCCACTGCCAAATACAG
317 GATCTGCAATCTTCAATCTATTCCACTGCCAAATACAA
5821903 GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAAGTAAAATCTGCCATCTTCG
1 GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAAGTAAAATCTGCCATCTTCG
* * * *
5821968 ATCTTTAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC-TTCAATGTACTCCACT
66 ATC--T--GC--TT-CACTGCCAAATACAGGAAGACA-AG--ATCGGCATTCAATCTACTCCACT
*** * * * ** * * * *
5822032 G-TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
121 GCAAATACAGGGAGATAAAAT-TACCAGCTTCAATCTACTCCACTG--AAAT-CAGGAAGGCAAA
*
5822095 ATCTG-CA-ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGT
182 ATCTGCCATATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGT
* *
5822158 ACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAA
247 ACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAA
*
5822223 AGCAAGATCTG-ATATCTTCAA
312 GGCAAGATCTGCA-ATCTTCAA
5822244 CCAGCTCTGC
Statistics
Matches: 628, Mismatches: 54, Indels: 39
0.87 0.07 0.05
Matches are distributed among these distances:
357 3 0.00
358 181 0.29
359 22 0.04
360 7 0.01
361 20 0.03
362 20 0.03
363 287 0.46
365 1 0.00
366 11 0.02
367 16 0.03
369 21 0.03
370 32 0.05
371 2 0.00
373 5 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (354 bp):
GGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAAGTAAAATCTGCCATCTTCG
ATCTGCTTCACTGCCAAATACAGGAAGACAAGATCGGCATTCAATCTACTCCACTGCAAATACAG
GGAGATAAAATTACCAGCTTCAATCTACTCCACTGAAATCAGGAAGGCAAAATCTGCCATATCTT
CAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTC
AGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAA
TCTTCAATCTATTCCACTGCCAAATACAA
Found at i:5822128 original size:134 final size:134
Alignment explanation
Indices: 5821968--5822243 Score: 482
Period size: 134 Copynumber: 2.1 Consensus size: 134
5821958 GCCATCTTCG
* *
5821968 ATCTTTAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* * * *
5822033 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
5822098 TGCA-
131 TG-AT
5822102 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
5822167 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
5822232 TGAT
131 TGAT
5822236 ATCTTCAA
1 ATCTTCAA
5822244 CCAGCTCTGC
Statistics
Matches: 135, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
133 1 0.01
134 134 0.99
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
TGAT
Found at i:5822329 original size:86 final size:86
Alignment explanation
Indices: 5822191--5822625 Score: 674
Period size: 86 Copynumber: 5.1 Consensus size: 86
5822181 AAATCTGCCA
* * * * * *
5822191 TCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTA
* *
5822256 AAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGTGGCAAGGTTTG
*
5822278 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
5822343 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
*
5822364 TCTTCGAT-TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
5822428 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
*
5822449 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
*
5822514 AAACGAGAGTGGTAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
* * * *
5822535 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAAATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
* * * *
5822600 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGTGGCAAGGTTTG
5822621 TCTTC
1 TCTTC
5822626 AATTTTTACT
Statistics
Matches: 325, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
85 83 0.26
86 222 0.68
87 20 0.06
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
AAACGAGAGTGGCAAGGTTTG
Found at i:5822417 original size:171 final size:172
Alignment explanation
Indices: 5822191--5822625 Score: 701
Period size: 171 Copynumber: 2.5 Consensus size: 172
5822181 AAATCTGCCA
* * * *
5822191 TCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTA
*
5822256 AAAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGC
65 AAAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGC
5822321 TATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
130 TATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
* * *
5822364 TCTTCGAT-TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAA
*
5822428 AAACGAGAGTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCT
66 AAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCT
* *
5822493 ATCTTCAACCAGCTCTACTATAAACGAGAGTGGTAAGGTTTG
131 ATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
* * *
5822535 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAAATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAA
* * *
5822600 GACCGAGAGAGGCAAGGTTTATCTTC
66 AAACGAGAGAGGCAAGGTTTGTCTTC
5822626 AATTTTTACT
Statistics
Matches: 241, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
171 149 0.62
172 84 0.35
173 8 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (172 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAA
AAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCT
ATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
Found at i:5824801 original size:19 final size:19
Alignment explanation
Indices: 5824777--5824815 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5824767 AATTATCTGT
5824777 ACTGTATAATTATGAATGA
1 ACTGTATAATTATGAATGA
5824796 ACTGTATAATTATGAATGA
1 ACTGTATAATTATGAATGA
5824815 A
1 A
5824816 TGAATGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
ACTGTATAATTATGAATGA
Found at i:5826797 original size:19 final size:20
Alignment explanation
Indices: 5826773--5826816 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
5826763 CGTGAAAGTC
* *
5826773 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
5826792 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
5826812 -AATGC
1 TAATGC
5826817 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:5829792 original size:11 final size:11
Alignment explanation
Indices: 5829760--5829792 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
5829750 GAAAAAAAAA
5829760 AGAG-AGGGAAG
1 AGAGAAGGG-AG
5829771 AGAGAAGGGAG
1 AGAGAAGGGAG
5829782 AGAGAAGGGAG
1 AGAGAAGGGAG
5829793 GGGAATCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (11 bp):
AGAGAAGGGAG
Found at i:5850640 original size:9 final size:9
Alignment explanation
Indices: 5850626--5850708 Score: 50
Period size: 8 Copynumber: 9.2 Consensus size: 9
5850616 AAAAAAAGTC
5850626 TTTATAATT
1 TTTATAATT
*
5850635 TTTATACTT
1 TTTATAATT
5850644 TTCTAATAATT
1 TT-T-ATAATT
*
5850655 TTAATAA--
1 TTTATAATT
*
5850662 TTTAAACATT
1 TTTATA-ATT
5850672 TTTAAATAATT
1 TTT--ATAATT
5850683 TTTAT-ATT
1 TTTATAATT
*
5850691 TTTA-ATTT
1 TTTATAATT
5850699 TTTA-AATT
1 TTTATAATT
5850707 TT
1 TT
5850709 AAAAAATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
7 4 0.07
8 19 0.33
9 16 0.28
10 4 0.07
11 13 0.22
12 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:5858988 original size:60 final size:59
Alignment explanation
Indices: 5858914--5859060 Score: 170
Period size: 59 Copynumber: 2.5 Consensus size: 59
5858904 TTTTTATTTT
* * * * *
5858914 TATTTTTTATCTTTAATTGGGAAGGATAGGAAA-ATGTTATTATCATTTATTACACTTATC
1 TATTTTTTAACTTTAATTGGGAAGGAAAGGAAATA-G-GAATACCATTTATTACACTTATC
* * * ** *
5858974 TATTTTTTAGCTTTAATTGGGGAGGAAATGACTTAGGAATACCATTTATTACACTTATT
1 TATTTTTTAACTTTAATTGGGAAGGAAAGGAAATAGGAATACCATTTATTACACTTATC
5859033 TATTTTTTAACTTTAATTGGGAAGGAAA
1 TATTTTTTAACTTTAATTGGGAAGGAAA
5859061 TGACTTTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
59 45 0.61
60 28 0.38
61 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (59 bp):
TATTTTTTAACTTTAATTGGGAAGGAAAGGAAATAGGAATACCATTTATTACACTTATC
Found at i:5859220 original size:79 final size:79
Alignment explanation
Indices: 5859006--5859293 Score: 452
Period size: 82 Copynumber: 3.6 Consensus size: 79
5858996 AGGAAATGAC
* *
5859006 TTAGGAATACCATTTATTACACTTATTTA-TTTTTTAACTTTAATTGGGAAGGAAATGACTTTTT
1 TTAGGATTACCATTTATTACACTTATTTATTTTTTTAACTTTAATTGGGAAGGAAATTACTTTTT
5859070 ATAGAAAAATATTA
66 ATAGAAAAATATTA
* * *
5859084 TTAGGATTGCCATTTATTACACTTATTTTTTTATTTTTTAACTTTAATTGGGGAGGAAATTACTT
1 TTAGGATTACCATTTATTACACTTA--TTTAT-TTTTTTAACTTTAATTGGGAAGGAAATTACTT
5859149 TTTATAGAAAAATATTA
63 TTTATAGAAAAATATTA
5859166 TTAGGATTACCATTTATTACACTTATTTATTTTTTTAACTTTAATTGGGAAGGAAATTACTTTTT
1 TTAGGATTACCATTTATTACACTTATTTATTTTTTTAACTTTAATTGGGAAGGAAATTACTTTTT
*
5859231 ATAGAAAAATGTTA
66 ATAGAAAAATATTA
*
5859245 TTAGGATTACCATTTATTACACTTTTTTACTTATTTTGTAACTTTAATT
1 TTAGGATTACCATTTATTACACTTATTTA-TT-TTTT-TAACTTTAATT
5859294 TACTTTTTTT
Statistics
Matches: 193, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
78 23 0.12
79 75 0.39
80 9 0.05
81 4 0.02
82 82 0.42
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (79 bp):
TTAGGATTACCATTTATTACACTTATTTATTTTTTTAACTTTAATTGGGAAGGAAATTACTTTTT
ATAGAAAAATATTA
Found at i:5861386 original size:14 final size:13
Alignment explanation
Indices: 5861360--5861384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5861350 TATTAAATTG
5861360 ATTTTTGAAAAAT
1 ATTTTTGAAAAAT
5861373 ATTTTTGAAAAA
1 ATTTTTGAAAAA
5861385 ATTGTATACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTTGAAAAAT
Found at i:5861565 original size:15 final size:16
Alignment explanation
Indices: 5861545--5861575 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5861535 AAGTTTTTGA
5861545 TATAAATTT-AGTACT
1 TATAAATTTGAGTACT
5861560 TATAAATTTGAGTACT
1 TATAAATTTGAGTACT
5861576 AAAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (16 bp):
TATAAATTTGAGTACT
Found at i:5862375 original size:52 final size:52
Alignment explanation
Indices: 5862297--5862411 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 52
5862287 ATGCTTACGT
* *
5862297 CTATCAAAGCTCTATTGCATTACAATGAATCAAACATACTGTTATTATTTCA
1 CTATCAAAGCTCCATTACATTACAATGAATCAAACATACTGTTATTATTTCA
* *
5862349 CTATCAAGGCTCCATTACATTACAATGAATCAAACATGCTGTTATTATTTCA
1 CTATCAAAGCTCCATTACATTACAATGAATCAAACATACTGTTATTATTTCA
*
5862401 CTGTCAAAGCT
1 CTATCAAAGCT
5862412 TTATGTATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (52 bp):
CTATCAAAGCTCCATTACATTACAATGAATCAAACATACTGTTATTATTTCA
Found at i:5864652 original size:3 final size:3
Alignment explanation
Indices: 5864644--5864679 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
5864634 TACAAGCAAT
5864644 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
5864680 TGAGGCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5869754 original size:11 final size:11
Alignment explanation
Indices: 5869738--5869767 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
5869728 TTTTATTCTT
5869738 TATTTTTAAAA
1 TATTTTTAAAA
5869749 TATTTTTAAAA
1 TATTTTTAAAA
5869760 TACTTTTT
1 TA-TTTTT
5869768 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:5883127 original size:17 final size:18
Alignment explanation
Indices: 5883105--5883138 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5883095 TTAAAAAATT
*
5883105 TTAAAAA-AAAGTAAAAA
1 TTAAAAATAAAATAAAAA
5883122 TTAAAAATAAAATAAAA
1 TTAAAAATAAAATAAAA
5883139 TCGAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
TTAAAAATAAAATAAAAA
Found at i:5896993 original size:28 final size:30
Alignment explanation
Indices: 5896950--5897020 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
5896940 AAAAAGTGTT
* * *
5896950 AATTTCAAGTAACAAA-TTAGAATAAAAA-A
1 AATTT-AAGTACCAAATTTAAAAAAAAAACA
5896979 AATTTAAGTACCAAATTTAAAAAAAAAATCA
1 AATTTAAGTACCAAATTTAAAAAAAAAA-CA
5897010 AATTTAAGTAC
1 AATTTAAGTAC
5897021 TAAACATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 9 0.25
29 15 0.42
31 12 0.33
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (30 bp):
AATTTAAGTACCAAATTTAAAAAAAAAACA
Found at i:5897970 original size:28 final size:27
Alignment explanation
Indices: 5897938--5898006 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
5897928 AATAAAAAAA
*
5897938 TTACCAAAATGT-TATACATTTTTTTTAT
1 TTACCAAAATATATATA-A-TTTTTTTAT
*
5897966 TTACCAAAAAATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
5897993 TTACCAAAATATAT
1 TTACCAAAATATAT
5898007 CAAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.59
28 11 0.30
29 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:5898020 original size:10 final size:10
Alignment explanation
Indices: 5898007--5898037 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
5897997 CAAAATATAT
5898007 CAAAAAAAAA
1 CAAAAAAAAA
5898017 CAAAAAAAAAA
1 C-AAAAAAAAA
5898028 CAAAAAAAAA
1 CAAAAAAAAA
5898038 ATTTGGACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:5898023 original size:12 final size:11
Alignment explanation
Indices: 5898008--5898038 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
5897998 AAAATATATC
5898008 AAAAAAAAACA
1 AAAAAAAAACA
5898019 AAAAAAAAACA
1 AAAAAAAAACA
5898030 AAAAAAAAA
1 AAAAAAAAA
5898039 TTTGGACCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:5898108 original size:27 final size:27
Alignment explanation
Indices: 5898067--5898118 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
5898057 TTCCCTGGGT
5898067 CAAGGGAACACTGTTGGCGGCACCAAA
1 CAAGGGAACACTGTTGGCGGCACCAAA
5898094 CAAGGGAAC-CTTGTTGGCGGCACCA
1 CAAGGGAACAC-TGTTGGCGGCACCA
5898119 CCTTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.29, C:0.27, G:0.31, T:0.13
Consensus pattern (27 bp):
CAAGGGAACACTGTTGGCGGCACCAAA
Found at i:5898231 original size:38 final size:38
Alignment explanation
Indices: 5898173--5898334 Score: 169
Period size: 38 Copynumber: 4.4 Consensus size: 38
5898163 GGGGAAGAAG
*
5898173 AAGAAAGAAAAAGAA-G---GAAAAGGAATGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
5898207 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* *
5898245 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* * *
5898283 GAA-AAA-AAAAAGAAAGAAGAAGAAGAGGGAAGGA-AGGA
1 -AAGAAAGAAAAAG-AAGGA-AAGAAAAGGAAAGGAGAGGA
*
5898321 AGGAAA-AAAAAGAA
1 AAGAAAGAAAAAGAA
5898335 AATAAGGTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
34 15 0.14
35 1 0.01
37 8 0.07
38 70 0.64
39 15 0.14
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:5898233 original size:10 final size:10
Alignment explanation
Indices: 5898175--5898275 Score: 70
Period size: 10 Copynumber: 10.5 Consensus size: 10
5898165 GGAAGAAGAA
*
5898175 GAAAGAAAAA
1 GAAAGAAAAG
*
5898185 GAAGGAAAAG
1 GAAAGAAAAG
* * *
5898195 GAATGGAGAG
1 GAAAGAAAAG
5898205 GAAAG-AAA-
1 GAAAGAAAAG
5898213 GAAA-AAGAAG
1 GAAAGAA-AAG
5898223 GAAAGAAAAG
1 GAAAGAAAAG
***
5898233 GAAAGGGGAG
1 GAAAGAAAAG
5898243 GAAAG-AAA-
1 GAAAGAAAAG
5898251 GAAA-AATAAG
1 GAAAGAA-AAG
5898261 GAAAGAAAAG
1 GAAAGAAAAG
5898271 GAAAG
1 GAAAG
5898276 GAGAAGAGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 50 0.70
11 4 0.06
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:5898290 original size:72 final size:72
Alignment explanation
Indices: 5898164--5898336 Score: 176
Period size: 72 Copynumber: 2.4 Consensus size: 72
5898154 AGAAGGATAG
* * * * *
5898164 GGGAAGAAGAAGAAAGAAAAAGAAGGAAAAGGAATGGAGAGGAAAGAAAGAAAAAGAAGGAAAGA
1 GGGAAGGA-AAGAAAGAAAAAGAAGGAAAAGAAAAGGAAAGGAAAGAAAGAAAAA-AAAGAAAGA
5898229 A-AAGGAA-A
64 AGAA-GAAGA
* *
5898237 GGGGAGGAAAGAAAGAAAAATAAGG-AAAGAAAAGGAAAGGAGAAGAGAA-AAAAAAAAGAAAGA
1 GGGAAGGAAAGAAAGAAAAAGAAGGAAAAGAAAAGGAAAGGA-AAGA-AAGAAAAAAAAGAAAGA
5898300 AGAAGAAGA
64 AGAAGAAGA
* * *
5898309 GGGAAGGAAGGAAGGAAAAA-AAAGAAAA
1 GGGAAGGAAAGAAAGAAAAAGAAGGAAAA
5898337 TAAGGTAATT
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
71 28 0.33
72 48 0.57
73 8 0.10
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (72 bp):
GGGAAGGAAAGAAAGAAAAAGAAGGAAAAGAAAAGGAAAGGAAAGAAAGAAAAAAAAGAAAGAAG
AAGAAGA
Found at i:5898889 original size:13 final size:13
Alignment explanation
Indices: 5898853--5898886 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
5898843 AAAATGTAAT
*
5898853 GAAATAATATAAA
1 GAAATAAAATAAA
5898866 GAAATAAAATAAA
1 GAAATAAAATAAA
5898879 -AAATAAAA
1 GAAATAAAA
5898887 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (13 bp):
GAAATAAAATAAA
Found at i:5899048 original size:19 final size:19
Alignment explanation
Indices: 5899015--5899066 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
5899005 AAAATATATA
**
5899015 TAATATTTTGGTATTTTT-
1 TAATATTTTATTATTTTTG
5899033 TAAATATTTTATTATTTTTG
1 T-AATATTTTATTATTTTTG
*
5899053 TAATGTTTTATTAT
1 TAATATTTTATTAT
5899067 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:5899091 original size:13 final size:13
Alignment explanation
Indices: 5899073--5899098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5899063 TTATGGGTTT
5899073 TATAAAAAAATAA
1 TATAAAAAAATAA
5899086 TATAAAAAAATAA
1 TATAAAAAAATAA
5899099 AAAATTACCA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TATAAAAAAATAA
Found at i:5899151 original size:27 final size:29
Alignment explanation
Indices: 5899105--5899171 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
5899095 ATAAAAAATT
5899105 ACCAAAATAT-TATAACTTTTT-TTATTG
1 ACCAAAATATATATAACTTTTTATTATTG
*
5899132 ACCAAAATATATATAA-TTTTTATTATTT
1 ACCAAAATATATATAACTTTTTATTATTG
5899160 ACCAAAATATAT
1 ACCAAAATATAT
5899172 CAAAAAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.45
Consensus pattern (29 bp):
ACCAAAATATATATAACTTTTTATTATTG
Found at i:5899194 original size:17 final size:17
Alignment explanation
Indices: 5899172--5899205 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5899162 CAAAATATAT
5899172 CAAAAAA-AAGTAAAAAA
1 CAAAAAAGAA-TAAAAAA
5899189 CAAAAAAGAATAAAAAA
1 CAAAAAAGAATAAAAAA
5899206 AGGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAAAAGAATAAAAAA
Found at i:5901521 original size:14 final size:14
Alignment explanation
Indices: 5901502--5901529 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5901492 TTTTTTGTAT
5901502 CAATTTAATTATTC
1 CAATTTAATTATTC
5901516 CAATTTAATTATTC
1 CAATTTAATTATTC
5901530 TACTTTCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
CAATTTAATTATTC
Found at i:5901840 original size:12 final size:12
Alignment explanation
Indices: 5901801--5901832 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5901791 TACAAATTAT
5901801 ACAA-AACAATA
1 ACAATAACAATA
5901812 ACAATAACAATA
1 ACAATAACAATA
5901824 ACAATAACA
1 ACAATAACA
5901833 TAATCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (12 bp):
ACAATAACAATA
Found at i:5902017 original size:27 final size:27
Alignment explanation
Indices: 5901979--5902046 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
5901969 ATAACACGAG
* *
5901979 TGGTGCCGCCAATAGGGAACCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
*
5902006 TGGTGCCGCCAACAAGGAATCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
*
5902033 TTGTGCCGCCAACA
1 TGGTGCCGCCAACA
5902047 GTGTTCCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:5902176 original size:29 final size:26
Alignment explanation
Indices: 5902118--5902182 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
5902108 TTTTTGATAT
*
5902118 ATTTTGGTAAATAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAATTATATAC
*
5902144 ATTTTGGTAAATAAAAAAAATTGTATAAC
1 ATTTTGGTAAAT--AAAAAATTATAT-AC
5902173 ATTTTGGTAA
1 ATTTTGGTAA
5902183 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 12 0.35
28 11 0.32
29 11 0.32
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTTGGTAAATAAAAAATTATATAC
Found at i:5904493 original size:24 final size:24
Alignment explanation
Indices: 5904465--5904516 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5904455 TTTCTAGAAG
* *
5904465 ATTTAATATTTATGAGCATAATAT
1 ATTTAACATTTATGAACATAATAT
* *
5904489 ATTTAGCATTTATTAACATAATAT
1 ATTTAACATTTATGAACATAATAT
5904513 ATTT
1 ATTT
5904517 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (24 bp):
ATTTAACATTTATGAACATAATAT
Found at i:5908015 original size:37 final size:37
Alignment explanation
Indices: 5907954--5908099 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
5907944 TACGTATGAT
* *
5907954 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
5907989 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
5908026 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
5908063 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
5908100 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:5908116 original size:46 final size:46
Alignment explanation
Indices: 5908063--5908429 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
5908053 TAAGTGCAGC
* * **
5908063 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
5908109 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
5908155 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
5908207 CACTTATCACTTTATTACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
5908253 TACTTATCACTTTCCACTTGTCACGTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
5908305 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
5908351 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
5908403 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
5908430 AGTACTCAAA
Statistics
Matches: 282, Mismatches: 21, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
46 152 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 124 0.44
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:5908182 original size:52 final size:52
Alignment explanation
Indices: 5908106--5908423 Score: 435
Period size: 52 Copynumber: 6.3 Consensus size: 52
5908096 TAGCTAAAGC
* *
5908106 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
5908159 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
5908211 TATCAC-TTT-A--T-T-ACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
5908257 TATCACTTTCCACTTGTCACGTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
5908309 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
5908355 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
5908407 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
5908424 ATCAGAAGTA
Statistics
Matches: 236, Mismatches: 16, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
46 79 0.33
47 5 0.02
48 3 0.01
50 3 0.01
51 6 0.03
52 122 0.52
53 18 0.08
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:5908228 original size:98 final size:98
Alignment explanation
Indices: 5908074--5908429 Score: 586
Period size: 98 Copynumber: 3.6 Consensus size: 98
5908064 ACTTATCACT
* * * * *
5908074 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
* *
5908139 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* *
5908172 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATTACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
5908237 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* *
5908270 TTGTCACGTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
5908335 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* * *
5908368 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGA
5908430 AGTACTCAAA
Statistics
Matches: 242, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 242 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:5911715 original size:24 final size:24
Alignment explanation
Indices: 5911681--5911732 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5911671 TTTCTAGAAG
* **
5911681 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
5911705 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
5911729 ATTT
1 ATTT
5911733 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:5933555 original size:19 final size:20
Alignment explanation
Indices: 5933515--5933556 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
5933505 AATTTTAATA
5933515 AAAATGTTAGATAATTTAGT
1 AAAATGTTAGATAATTTAGT
*
5933535 AAAATGTTAGAT-ATTTGGT
1 AAAATGTTAGATAATTTAGT
5933554 AAA
1 AAA
5933557 TCCATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (20 bp):
AAAATGTTAGATAATTTAGT
Found at i:5933658 original size:20 final size:20
Alignment explanation
Indices: 5933635--5933682 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
5933625 TTTAGATATT
* *
5933635 TTGGTAAATCCATATAAAAA
1 TTGGTAAATCAATACAAAAA
*
5933655 TTGGTAAATCAATACAAATA
1 TTGGTAAATCAATACAAAAA
5933675 TTGGTAAA
1 TTGGTAAA
5933683 GTCTTAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.31
Consensus pattern (20 bp):
TTGGTAAATCAATACAAAAA
Found at i:5933894 original size:20 final size:20
Alignment explanation
Indices: 5933871--5934059 Score: 110
Period size: 20 Copynumber: 9.2 Consensus size: 20
5933861 AAATTTTGAC
5933871 AAATTGTTAGATATATTGGT
1 AAATTGTTAGATATATTGGT
** * *
5933891 AAATCCTTAGAAATATTAGT
1 AAATTGTTAGATATATTGGT
* * *
5933911 AAATTGTCAAATATTTTGGT
1 AAATTGTTAGATATATTGGT
* ** * * *
5933931 AAGTCCTTAAAAATTTTGGT
1 AAATTGTTAGATATATTGGT
*
5933951 AAATGGTAAATCATTAGATATATTGGT
1 AAAT--T--GT--T-AGATATATTGGT
* *
5933978 AAATTGTTAGAAATATTGGA
1 AAATTGTTAGATATATTGGT
*
5933998 AAATCGTTAGATATATTGGT
1 AAATTGTTAGATATATTGGT
** *
5934018 AAATCATTAGATA-CTTGGT
1 AAATTGTTAGATATATTGGT
* *
5934037 AAATTATTAGATATTTTGGT
1 AAATTGTTAGATATATTGGT
5934057 AAA
1 AAA
5934060 GTCGTAGAAA
Statistics
Matches: 129, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
19 17 0.13
20 94 0.73
21 1 0.01
23 1 0.01
24 1 0.01
25 1 0.01
26 1 0.01
27 13 0.10
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (20 bp):
AAATTGTTAGATATATTGGT
Found at i:5933915 original size:40 final size:40
Alignment explanation
Indices: 5933843--5934084 Score: 170
Period size: 40 Copynumber: 5.9 Consensus size: 40
5933833 AGTCTCGTAA
* * **
5933843 ATATTTGTAAAT-CTATAGAAATTTTGACAAATTGTTAGAT
1 ATATTGGTAAATCCT-TAGAAATATTGGTAAATTGTTAGAT
* * *
5933883 ATATTGGTAAATCCTTAGAAATATTAGTAAATTGTCAAAT
1 ATATTGGTAAATCCTTAGAAATATTGGTAAATTGTTAGAT
* * * * *
5933923 ATTTTGGTAAGTCCTTAAAAATTTTGGTAAATGGTAAATCATTAGAT
1 ATATTGGTAAATCCTTAGAAATATTGGTAAA---T---T-GTTAGAT
** * *
5933970 ATATTGGTAAATTGTTAGAAATATTGGAAAATCGTTAGAT
1 ATATTGGTAAATCCTTAGAAATATTGGTAAATTGTTAGAT
* *
5934010 ATATTGGTAAATCATTAG--ATACTTGGTAAATTATTAGAT
1 ATATTGGTAAATCCTTAGAAATA-TTGGTAAATTGTTAGAT
* * *
5934049 ATTTTGGTAAAGT-CGTAGAAATTTTGGT-AATTGTTA
1 ATATTGGTAAA-TCCTTAGAAATATTGGTAAATTGTTA
5934085 AGACTTTGTA
Statistics
Matches: 156, Mismatches: 34, Indels: 25
0.73 0.16 0.12
Matches are distributed among these distances:
38 3 0.02
39 34 0.22
40 84 0.54
41 4 0.03
43 1 0.01
44 1 0.01
46 1 0.01
47 28 0.18
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (40 bp):
ATATTGGTAAATCCTTAGAAATATTGGTAAATTGTTAGAT
Found at i:5934017 original size:67 final size:67
Alignment explanation
Indices: 5933887--5934021 Score: 155
Period size: 67 Copynumber: 2.0 Consensus size: 67
5933877 TTAGATATAT
* * * * *
5933887 TGGTAAATCCTTAGAAATATTAGTAAATTGTCAAATATTTTGGTAAGTCCTTAAAAATTTTGGTA
1 TGGTAAATCATTAGAAATATTAGTAAATTGTCAAATATATTGGAAAATCCTTAAAAATATTGGTA
5933952 AA
66 AA
* * * * * *
5933954 TGGTAAATCATTAGATATATTGGTAAATTGTTAGAA-ATATTGGAAAATCGTTAGATATATTGGT
1 TGGTAAATCATTAGAAATATTAGTAAATTGTCA-AATATATTGGAAAATCCTTAAAAATATTGGT
5934018 AAA
65 AAA
5934021 T
1 T
5934022 CATTAGATAC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
67 54 0.96
68 2 0.04
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (67 bp):
TGGTAAATCATTAGAAATATTAGTAAATTGTCAAATATATTGGAAAATCCTTAAAAATATTGGTA
AA
Found at i:5934067 original size:20 final size:19
Alignment explanation
Indices: 5933954--5934078 Score: 90
Period size: 20 Copynumber: 6.3 Consensus size: 19
5933944 TTTTGGTAAA
*
5933954 TGGTAAATCATTAGATATAT
1 TGGTAAATC-GTAGATATAT
* *
5933974 TGGTAAATTGTTAGAAATAT
1 TGGTAAATCG-TAGATATAT
*
5933994 TGGAAAATCGTTAGATATAT
1 TGGTAAATCG-TAGATATAT
* *
5934014 TGGTAAATCATTAGATA-CT
1 TGGTAAATC-GTAGATATAT
** *
5934033 TGGTAAATTATTAGATATTT
1 TGGTAAA-TCGTAGATATAT
* *
5934053 TGGTAAAGTCGTAGAAATTT
1 TGGTAAA-TCGTAGATATAT
5934073 TGGTAA
1 TGGTAA
5934079 TTGTTAAGAC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
19 15 0.17
20 71 0.83
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (19 bp):
TGGTAAATCGTAGATATAT
Found at i:5934198 original size:20 final size:20
Alignment explanation
Indices: 5934175--5934365 Score: 127
Period size: 20 Copynumber: 9.6 Consensus size: 20
5934165 ATCCATAAAA
**
5934175 ATTTTGGTAAATTGTTAGAT
1 ATTTTGGTAAATCATTAGAT
* *
5934195 ATTTTGATAAAACATTACGA-
1 ATTTTGGTAAATCATTA-GAT
5934215 ATTTTGGTAAATCATTAGAT
1 ATTTTGGTAAATCATTAGAT
* * * *
5934235 GTTTTGGTAAA-CCTTATAA
1 ATTTTGGTAAATCATTAGAT
* ** *
5934254 ATTTTGGTAATTTGTTCGAT
1 ATTTTGGTAAATCATTAGAT
* **
5934274 ATATCAGTAAATCATTAGA-
1 ATTTTGGTAAATCATTAGAT
* *
5934293 ATTTTTAGTAAACCATTAGAT
1 A-TTTTGGTAAATCATTAGAT
* * **
5934314 ATATAGGTAAATTGTTAGAT
1 ATTTTGGTAAATCATTAGAT
* *
5934334 ATTTTGGTAAATCCTTAGAG
1 ATTTTGGTAAATCATTAGAT
*
5934354 ATATTGGTAAAT
1 ATTTTGGTAAAT
5934366 TGATGGAAAT
Statistics
Matches: 127, Mismatches: 39, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
19 17 0.13
20 107 0.84
21 3 0.02
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (20 bp):
ATTTTGGTAAATCATTAGAT
Found at i:5934218 original size:40 final size:39
Alignment explanation
Indices: 5934173--5934275 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 39
5934163 AAATCCATAA
5934173 AAATTTTGGTAAATTGTTAGATATTTTGATAAAACATTAC
1 AAATTTTGGTAAATTGTTAGATATTTTGAT-AAACATTAC
* ** * * * *
5934213 GAATTTTGGTAAATCATTAGATGTTTTGGTAAACCTTAT
1 AAATTTTGGTAAATTGTTAGATATTTTGATAAACATTAC
* *
5934252 AAATTTTGGTAATTTGTTCGATAT
1 AAATTTTGGTAAATTGTTAGATAT
5934276 ATCAGTAAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
39 25 0.50
40 25 0.50
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.45
Consensus pattern (39 bp):
AAATTTTGGTAAATTGTTAGATATTTTGATAAACATTAC
Found at i:5934323 original size:79 final size:80
Alignment explanation
Indices: 5934155--5934325 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 80
5934145 AGTAACATAA
**
5934155 ATATTGGTAAATCCATAAAAATTTTGGTAAATTGTTAGATATTTTGATAAAACATTACGAATTTT
1 ATATTGGTAAATCCATAAAAATTTTGGTAAATTGTTAGATATTCAGATAAAACATTACGAATTTT
* *
5934220 GGTAAATCATTAGAT
66 AGTAAACCATTAGAT
* * * * * * *
5934235 GTTTTGGTAAA-CCTTATAAATTTTGGTAATTTGTTCGATATATCAG-TAAATCATTA-GAATTT
1 ATATTGGTAAATCCATAAAAATTTTGGTAAATTGTTAGATAT-TCAGATAAAACATTACGAA-TT
5934297 TTAGTAAACCATTAGAT
64 TTAGTAAACCATTAGAT
*
5934314 ATATAGGTAAAT
1 ATATTGGTAAAT
5934326 TGTTAGATAT
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 3 0.04
79 60 0.81
80 11 0.15
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (80 bp):
ATATTGGTAAATCCATAAAAATTTTGGTAAATTGTTAGATATTCAGATAAAACATTACGAATTTT
AGTAAACCATTAGAT
Found at i:5934344 original size:60 final size:60
Alignment explanation
Indices: 5934215--5934352 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
5934205 AACATTACGA
* * * * * *
5934215 ATTTTGGTAAATCATTAG-ATGTTTTGGTAAACCTTATAAATTTTGGTAATTTGTTCGAT
1 ATTTTGGTAAATCATTAGAATGTTTTAGTAAACCTTAGAAATATAGGTAAATTGTTAGAT
* ** *
5934274 ATATCAGTAAATCATTAGAAT-TTTTAGTAAACCATTAGATATATAGGTAAATTGTTAGAT
1 ATTTTGGTAAATCATTAGAATGTTTTAGTAAACC-TTAGAAATATAGGTAAATTGTTAGAT
*
5934334 ATTTTGGTAAATCCTTAGA
1 ATTTTGGTAAATCATTAGA
5934353 GATATTGGTA
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 26 0.41
60 37 0.59
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (60 bp):
ATTTTGGTAAATCATTAGAATGTTTTAGTAAACCTTAGAAATATAGGTAAATTGTTAGAT
Found at i:5934568 original size:20 final size:20
Alignment explanation
Indices: 5934545--5934597 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
5934535 AAGTTCTTAA
5934545 AAATATTGGTAAATGGTTAG
1 AAATATTGGTAAATGGTTAG
*
5934565 AAATATTAGTAAATGGTTAG
1 AAATATTGGTAAATGGTTAG
* *
5934585 ATATTTTGGTAAA
1 AAATATTGGTAAA
5934598 GTTATAGAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (20 bp):
AAATATTGGTAAATGGTTAG
Found at i:5934666 original size:20 final size:20
Alignment explanation
Indices: 5934641--5934706 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
5934631 TACATGGTTT
5934641 TGAAATTTTGA-AAATATTGG
1 TGAAATTTT-ATAAATATTGG
* *
5934661 TGAAATCTTATAAATTTTGG
1 TGAAATTTTATAAATATTGG
5934681 T-AAAGTTTTATAAATATTGG
1 TGAAA-TTTTATAAATATTGG
*
5934701 TAAAAT
1 TGAAAT
5934707 GATAGATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 4 0.10
20 32 0.82
21 3 0.08
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.42
Consensus pattern (20 bp):
TGAAATTTTATAAATATTGG
Found at i:5934720 original size:20 final size:20
Alignment explanation
Indices: 5934697--5934744 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
5934687 TTTATAAATA
*
5934697 TTGGTAAA-ATGATAGATGTT
1 TTGGTAAACAT-ATAGATATT
5934717 TTGGTAAACATATAGATATT
1 TTGGTAAACATATAGATATT
*
5934737 TTGATAAA
1 TTGGTAAA
5934745 TCCTTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (20 bp):
TTGGTAAACATATAGATATT
Found at i:5934997 original size:20 final size:20
Alignment explanation
Indices: 5934974--5935092 Score: 91
Period size: 20 Copynumber: 6.0 Consensus size: 20
5934964 TAATAAATTG
* *
5934974 TTAGATATTTTGGTAAATCC
1 TTAGATATATTGGTAAATCA
* * *
5934994 TTAGAAATGTTGATAAA-CTA
1 TTAGATATATTGGTAAATC-A
*
5935014 TTAGATATATTGGTAAAACGA
1 TTAGATATATTGGTAAATC-A
* *
5935035 TATA-A-ATTTTGGTAAATCG
1 T-TAGATATATTGGTAAATCA
* * *
5935054 TTAGGTATATTGATAAATAA
1 TTAGATATATTGGTAAATCA
5935074 TTAGATATATTGGTAAATC
1 TTAGATATATTGGTAAATC
5935093 CTTAAATATT
Statistics
Matches: 75, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 65 0.87
21 4 0.05
22 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (20 bp):
TTAGATATATTGGTAAATCA
Found at i:5935104 original size:60 final size:61
Alignment explanation
Indices: 5934978--5935110 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 61
5934968 AAATTGTTAG
* *
5934978 ATATTTTGGTAAATCCTTAGAAATGTTGATAAACTATTAGATATATTGGTAAAACGATATA
1 ATATTTTGGTAAATCCTTAGAAATATTGATAAACTATTAGATATATTGGTAAAACCATATA
* ** * *
5935039 A-ATTTTGGTAAATCGTTAGGTATATTGATAAA-TAATTAGATATATTGGTAAATCCTTA-A
1 ATATTTTGGTAAATCCTTAGAAATATTGATAAACT-ATTAGATATATTGGTAAAACCATATA
*
5935098 ATATTTTGATAAA
1 ATATTTTGGTAAA
5935111 ACCACAGAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
59 3 0.05
60 58 0.94
61 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (61 bp):
ATATTTTGGTAAATCCTTAGAAATATTGATAAACTATTAGATATATTGGTAAAACCATATA
Found at i:5935110 original size:20 final size:20
Alignment explanation
Indices: 5934974--5935110 Score: 82
Period size: 20 Copynumber: 6.8 Consensus size: 20
5934964 TAATAAATTG
* * *
5934974 TTAGATATTTTGGTAAATCC
1 TTAGATATATTGATAAATCA
* *
5934994 TTAGAAATGTTGATAAA-CTA
1 TTAGATATATTGATAAATC-A
* *
5935014 TTAGATATATTGGTAAAACGA
1 TTAGATATATTGATAAATC-A
* * *
5935035 TATA-A-ATTTTGGTAAATCG
1 T-TAGATATATTGATAAATCA
* *
5935054 TTAGGTATATTGATAAATAA
1 TTAGATATATTGATAAATCA
* *
5935074 TTAGATATATTGGTAAATCC
1 TTAGATATATTGATAAATCA
* *
5935094 TTAAATATTTTGATAAA
1 TTAGATATATTGATAAA
5935111 ACCACAGAAC
Statistics
Matches: 89, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 79 0.89
21 4 0.04
22 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (20 bp):
TTAGATATATTGATAAATCA
Found at i:5936731 original size:21 final size:21
Alignment explanation
Indices: 5936689--5936731 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
5936679 CAATGATGAC
*
5936689 GAACGACGACAGGGGAGAGAG
1 GAACGACGACAGGGAAGAGAG
*
5936710 GAACGAC-ACAGGAGAAGGGAG
1 GAACGACGACAGG-GAAGAGAG
5936731 G
1 G
5936732 GCTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.14, G:0.47, T:0.00
Consensus pattern (21 bp):
GAACGACGACAGGGAAGAGAG
Found at i:5954815 original size:20 final size:20
Alignment explanation
Indices: 5954790--5954829 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
5954780 CGTAAAATGA
* *
5954790 TTTCTGGAAAGTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
5954810 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
5954830 GGAAAATATT
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:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:5956069 original size:13 final size:11
Alignment explanation
Indices: 5956037--5956070 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
5956027 GCAGGAATTA
5956037 GTACAATATAT
1 GTACAATATAT
5956048 GTACAATATAT
1 GTACAATATAT
5956059 GTACAATATAT
1 GTACAATATAT
5956070 G
1 G
5956071 AGAAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:5956959 original size:16 final size:16
Alignment explanation
Indices: 5956938--5956971 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5956928 GGACGAAGAG
*
5956938 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
5956954 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
5956970 GA
1 GA
5956972 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:5967659 original size:27 final size:24
Alignment explanation
Indices: 5967611--5967662 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5967601 AAACATTATT
*
5967611 CTCCTTACTATTACAATTCACCAC
1 CTCCTTACTACTACAATTCACCAC
* *
5967635 CTCCTTACTACTACAAGTCTCCAC
1 CTCCTTACTACTACAATTCACCAC
5967659 CTCC
1 CTCC
5967663 ACCATCTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.42, G:0.02, T:0.31
Consensus pattern (24 bp):
CTCCTTACTACTACAATTCACCAC
Found at i:5968347 original size:382 final size:382
Alignment explanation
Indices: 5967631--5968532 Score: 1450
Period size: 382 Copynumber: 2.4 Consensus size: 382
5967621 TTACAATTCA
* *
5967631 CCACCTCCTTACTACTACAAGTCTCCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCTCCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
5967696 CAAATCACCACCACCCCCTTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCAC
66 CAAATCACCACCA-CCCCTTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCAC
5967761 CGTCTCCCTCACCACCTCCTCCTTACTATTACAAATCACCACCACCCCTTCACCTAGTCCCCCAC
130 CGTCTCCCTCACCACCTCCTCCTTACTATTACAAATCACCACCACCCCTTCACCTAGTCCCCCAC
* * *
5967826 CACCATACTACTACAACTCACCACCTCCACCATCTCCTTCACCACCTCCTCCTTACTATTACAAG
195 CACCATACTACTACAACTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTACTACAAA
* * *
5967891 TCTCCACCCCCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCACCGTC
260 TCACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCACCATC
*
5967956 TCCCTCACCACCTCCTCCTTACTATTACAAATCACCACCACCACCTTCACCTAGTCCC
325 TCCCTCACCACCTCCTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCC
* *
5968014 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCTCCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
*
5968079 CAAATCACCACCACCCCTTCACCTAGTTCCCCACCACCATACTACTACAAGTCACCACCTCCACC
66 CAAATCACCACCACCCCTTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCACC
5968144 GTCTCCCTCACCACCTCCTCCTTACTATTACAAATCACCACCACCCCTTCACCTAGTCCCCCACC
131 GTCTCCCTCACCACCTCCTCCTTACTATTACAAATCACCACCACCCCTTCACCTAGTCCCCCACC
5968209 ACCATACTACTACAACTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTACTACAAAT
196 ACCATACTACTACAACTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTACTACAAAT
* * *
5968274 CACCATCACCACCTTCACCTAGTCCTCCACCACCATACTACTACAAGTCACCACCTCCACCATCT
261 CACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCACCATCT
* *
5968339 CCCTCACCACCTCCTCCTTACTACTACAAATCACCACCCCCACCTTCACCTAGTCCT
326 CCCTCACCACCTCCTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCC
* * * * * * *
5968396 CCACCACCCTACTACTACAAGTCTCCACCTTCACCATCT-CCT-AGTCCCCCACCACCATACTAC
1 CCACCACCATACTACTACAAGTCTCCACCTCCACCATCTCCCTCA--CCACCTCCTCCTTACTAT
* * * * * * *
5968459 TACAAATCACCACCCCCACCATCTCCTAG-CCCTCCACCACCATATTACAACAGGTCCCCACCTC
64 TACAAATCACCACCACC-CCTTCACCTAGTCCC-CCACCACCATACTACTACAAGTCACCACCTC
*
5968523 CACCATCTCC
127 CACCGTCTCC
5968533 TAGTCCACCA
Statistics
Matches: 480, Mismatches: 35, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
380 1 0.00
381 3 0.01
382 357 0.74
383 119 0.25
ACGTcount: A:0.25, C:0.51, G:0.03, T:0.21
Consensus pattern (382 bp):
CCACCACCATACTACTACAAGTCTCCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
CAAATCACCACCACCCCTTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCACC
GTCTCCCTCACCACCTCCTCCTTACTATTACAAATCACCACCACCCCTTCACCTAGTCCCCCACC
ACCATACTACTACAACTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTACTACAAAT
CACCACCACCACCCTCACCTAGTCCCCCACCACCATACTACTACAAGTCACCACCTCCACCATCT
CCCTCACCACCTCCTCCTTACTACTACAAATCACCACCACCACCTTCACCTAGTCCC
Found at i:5968485 original size:48 final size:48
Alignment explanation
Indices: 5967631--5968538 Score: 695
Period size: 48 Copynumber: 19.0 Consensus size: 48
5967621 TTACAATTCA
* * * *
5967631 CCACCTCCTTACTACTACAAGTCTCCACCTCCACCATCTCCCTCA--CCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCT-CCT-AGTCCC
* * * * * * * * *
5967679 CCTCCTCCTTACTATTACAAATCACCACCACCCCCTTCACCTAGTCCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* *
5967727 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCA--CCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCT-CCT-AGTCCC
* * * * * * * *
5967775 CCTCCTCCTTACTATTACAAATCACCACCACC-CCTTCACCTAGTCCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
*
5967822 CCACCACCATACTACTACAACTCACCACCTCCACCATCTCCT--TCACC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTC-CC
* * * * * * * *
5967869 ACCTCCTCCTTACTATTACAAGTCTCCACCCCCACCCTCACCTAGTCCC
1 -CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* *
5967918 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCA--CCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCT-CCT-AGTCCC
* * * * * * * *
5967966 CCTCCTCCTTACTATTACAAATCACCACCACCACCTTCACCTAGTCCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* *
5968014 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCA--CCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCT-CCT-AGTCCC
* * * * * * * * *
5968062 CCTCCTCCTTACTATTACAAATCACCACCACC-CCTTCACCTAGTTCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* *
5968109 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCA--CCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCT-CCT-AGTCCC
* * * * * * * *
5968157 CCTCCTCCTTACTATTACAAATCACCACCACC-CCTTCACCTAGTCCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* *
5968204 CCACCACCATACTACTACAACTCACCACCTCCACCATCTCCCTCA--CCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCT-CCT-AGTCCC
* * * * * * * * *
5968252 CCTCCTCCTTACTACTACAAATCACCATCACCACCTTCACCTAGTCCT
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
*
5968300 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCA--CCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCT-CCT-AGTCCC
* * * * * * * *
5968348 CCTCCTCCTTACTACTACAAATCACCACCCCCACCTTCACCTAGTCCT
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* * *
5968396 CCACCACCCTACTACTACAAGTCTCCACCTTCACCATCTCCTAGTCCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* *
5968444 CCACCACCATACTACTACAAATCACCACCCCCACCATCTCCTAG-CCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* * * *
5968491 TCCACCACCATATTACAACAGGTCCCCACCTCCACCATCTCCTAGTCC
1 -CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCC
5968539 ACCATCTGTT
Statistics
Matches: 668, Mismatches: 157, Indels: 69
0.75 0.18 0.08
Matches are distributed among these distances:
45 3 0.00
46 15 0.02
47 112 0.17
48 508 0.76
49 22 0.03
50 8 0.01
ACGTcount: A:0.25, C:0.51, G:0.03, T:0.21
Consensus pattern (48 bp):
CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
Found at i:5968538 original size:96 final size:96
Alignment explanation
Indices: 5967631--5968532 Score: 1402
Period size: 96 Copynumber: 9.4 Consensus size: 96
5967621 TTACAATTCA
* * *
5967631 CCACCTCCTTACTACTACAAGTCTCCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
*
5967696 CAAATCACCACCACCCCCTTCACCTAGTCCC
66 CAAATCACCACCACCACCTTCACCTAGTCCC
*
5967727 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
5967792 CAAATCACCACCACC-CCTTCACCTAGTCCC
66 CAAATCACCACCACCACCTTCACCTAGTCCC
* *
5967822 CCACCACCATACTACTACAACTCACCACCTCCACCATCTCCTTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
* * * *
5967887 CAAGTCTCCACCCCCACCCTCACCTAGTCCC
66 CAAATCACCACCACCACCTTCACCTAGTCCC
*
5967918 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
5967983 CAAATCACCACCACCACCTTCACCTAGTCCC
66 CAAATCACCACCACCACCTTCACCTAGTCCC
*
5968014 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
*
5968079 CAAATCACCACCACC-CCTTCACCTAGTTCC
66 CAAATCACCACCACCACCTTCACCTAGTCCC
*
5968109 CCACCACCATACTACTACAAGTCACCACCTCCACCGTCTCCCTCACCACCTCCTCCTTACTATTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
5968174 CAAATCACCACCACC-CCTTCACCTAGTCCC
66 CAAATCACCACCACCACCTTCACCTAGTCCC
* *
5968204 CCACCACCATACTACTACAACTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTACTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
* *
5968269 CAAATCACCATCACCACCTTCACCTAGTCCT
66 CAAATCACCACCACCACCTTCACCTAGTCCC
*
5968300 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTACTA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
* *
5968365 CAAATCACCACCCCCACCTTCACCTAGTCCT
66 CAAATCACCACCACCACCTTCACCTAGTCCC
* * * * * * * *
5968396 CCACCACCCTACTACTACAAGTCTCCACCTTCACCATCT-CCT-AGTCCCCCACCACCATACTAC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCA--CCACCTCCTCCTTACTAT
* * *
5968459 TACAAATCACCACCCCCACCATCTCCTAG-CCC
64 TACAAATCACCACCACCACCTTCACCTAGTCCC
* * * *
5968491 TCCACCACCATATTACAACAGGTCCCCACCTCCACCATCTCC
1 -CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCC
5968533 TAGTCCACCA
Statistics
Matches: 756, Mismatches: 44, Indels: 11
0.93 0.05 0.01
Matches are distributed among these distances:
94 1 0.00
95 278 0.37
96 476 0.63
97 1 0.00
ACGTcount: A:0.25, C:0.51, G:0.03, T:0.21
Consensus pattern (96 bp):
CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTATTA
CAAATCACCACCACCACCTTCACCTAGTCCC
Found at i:5971314 original size:21 final size:22
Alignment explanation
Indices: 5971285--5971331 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5971275 CAGAAGGAGT
*
5971285 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5971307 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5971328 GAGT
1 GAGT
5971332 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:5973013 original size:24 final size:24
Alignment explanation
Indices: 5972980--5973124 Score: 73
Period size: 24 Copynumber: 5.9 Consensus size: 24
5972970 GCTTCCGCAA
* *
5972980 CACCATCACCGTACTACTACAAGT
1 CACCACCACCATACTACTACAAGT
* * *
5973004 CACCACCACCCT-CTTC-ACCTAGT
1 CACCACCACCATACTACTA-CAAGT
*
5973027 CCCCCACCACCATACTACTACAAGT
1 -CACCACCACCATACTACTACAAGT
* * * * *
5973052 CACCGCCTCC--ACCATCTCCTAGT
1 CACCACCACCATACTA-CTACAAGT
* * *
5973075 CCCCCACCACCATAATATTACAAGT
1 -CACCACCACCATACTACTACAAGT
5973100 CACCACCACCTCCATACTACTACAA
1 CACCACCA---CCATACTACTACAA
5973125 ATCTCCTCCT
Statistics
Matches: 85, Mismatches: 25, Indels: 19
0.66 0.19 0.15
Matches are distributed among these distances:
22 4 0.05
23 13 0.15
24 41 0.48
25 12 0.14
26 3 0.04
27 12 0.14
ACGTcount: A:0.30, C:0.46, G:0.05, T:0.19
Consensus pattern (24 bp):
CACCACCACCATACTACTACAAGT
Found at i:5973054 original size:48 final size:48
Alignment explanation
Indices: 5972986--5973114 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
5972976 GCAACACCAT
* *
5972986 CACCGTACTACTACAAGTCACCACCACC-CTCTTCACCTAGTCCCCCAC
1 CACCATACTACTACAAGTCACCACCACCAC-CATCACCTAGTCCCCCAC
* * *
5973034 CACCATACTACTACAAGTCACCGCCTCCACCATCTCCTAGTCCCCCAC
1 CACCATACTACTACAAGTCACCACCACCACCATCACCTAGTCCCCCAC
* * *
5973082 CACCATAATATTACAAGTCACCACCACCTCCAT
1 CACCATACTACTACAAGTCACCACCACCACCAT
5973115 ACTACTACAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.47, G:0.05, T:0.19
Consensus pattern (48 bp):
CACCATACTACTACAAGTCACCACCACCACCATCACCTAGTCCCCCAC
Found at i:5973063 original size:27 final size:26
Alignment explanation
Indices: 5972986--5973124 Score: 100
Period size: 27 Copynumber: 5.6 Consensus size: 26
5972976 GCAACACCAT
*
5972986 CACCGTACTACTACAAGTCA--CCAC
1 CACCATACTACTACAAGTCACCCCAC
* * *
5973010 CACCCT-CTTC-ACCTAGTC-CCCCAC
1 CACCATACTACTA-CAAGTCACCCCAC
*
5973034 CACCATACTACTACAAGTCACCGCCTC
1 CACCATACTACTACAAGTCACC-CCAC
*
5973061 CACCAT-CT-C--CTAGTC-CCCCAC
1 CACCATACTACTACAAGTCACCCCAC
* *
5973082 CACCATAATATTACAAGTCACCACCAC
1 CACCATACTACTACAAGTCACC-CCAC
*
5973109 CTCCATACTACTACAA
1 CACCATACTACTACAA
5973125 ATCTCCTCCT
Statistics
Matches: 87, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
21 9 0.10
22 4 0.05
23 13 0.15
24 14 0.16
25 14 0.16
26 7 0.08
27 26 0.30
ACGTcount: A:0.29, C:0.46, G:0.05, T:0.19
Consensus pattern (26 bp):
CACCATACTACTACAAGTCACCCCAC
Found at i:5973154 original size:75 final size:74
Alignment explanation
Indices: 5973030--5973187 Score: 183
Period size: 75 Copynumber: 2.1 Consensus size: 74
5973020 ACCTAGTCCC
* * *
5973030 CCACCACCATACTACTACAAGTCACCGCCTCCACCATCTCCTAGTCCCCCACCACCATAATATTA
1 CCACCTCCATACTACTACAAATCACCGCCTCCACCATCTCCTAG-CCCCCACCACCATAATACTA
*
5973095 CAAGTCACCA
65 CAAATCACCA
* * * * * * *
5973105 CCACCTCCATACTACTACAAATCTCCTCCTCCACCGTCTCCATCA-CCCCCTCCTCCTTACTACT
1 CCACCTCCATACTACTACAAATCACCGCCTCCACCATCTCC-T-AGCCCCCACCACCATAATACT
5973169 ACAAATCACCA
64 ACAAATCACCA
5973180 CCACCTCC
1 CCACCTCC
5973188 TTCTCCATCA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
75 68 0.97
76 1 0.01
77 1 0.01
ACGTcount: A:0.27, C:0.49, G:0.03, T:0.21
Consensus pattern (74 bp):
CCACCTCCATACTACTACAAATCACCGCCTCCACCATCTCCTAGCCCCCACCACCATAATACTAC
AAATCACCA
Found at i:5973160 original size:48 final size:48
Alignment explanation
Indices: 5973099--5973235 Score: 157
Period size: 48 Copynumber: 2.9 Consensus size: 48
5973089 ATATTACAAG
* * *
5973099 TCACCACCACCTCCATACTACTACAAATCTCCTCCTCCACCGTCTCCA
1 TCACCCCCACCTCCTTACTACTACAAATCACCTCCTCCACCGTCTCCA
* * * * *
5973147 TCACCCCCTCCTCCTTACTACTACAAATCACCACCACCTCCTTCTCCA
1 TCACCCCCACCTCCTTACTACTACAAATCACCTCCTCCACCGTCTCCA
* * * * *
5973195 TCACCCCCGCCACCTTACTATTATAAGTCACCTCCTCCACC
1 TCACCCCCACCTCCTTACTACTACAAATCACCTCCTCCACC
5973236 ACCTCCTTAT
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.23, C:0.50, G:0.02, T:0.24
Consensus pattern (48 bp):
TCACCCCCACCTCCTTACTACTACAAATCACCTCCTCCACCGTCTCCA
Found at i:5988886 original size:25 final size:25
Alignment explanation
Indices: 5988813--5988879 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
5988803 TTCCGAGTTG
*
5988813 AATAACGGGAAGCTCATGCGAGCTA
1 AATAATGGGAAGCTCATGCGAGCTA
*
5988838 AATAATGGGAATCTCATGCGAGCTA
1 AATAATGGGAAGCTCATGCGAGCTA
*
5988863 AGT-ATGGGGAAGCTCAT
1 AATAAT-GGGAAGCTCAT
5988880 AAGAGCTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 2 0.05
25 35 0.95
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (25 bp):
AATAATGGGAAGCTCATGCGAGCTA
Found at i:5991767 original size:13 final size:13
Alignment explanation
Indices: 5991749--5991773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5991739 TAAGTTATAT
5991749 GTGTGAAAATTTC
1 GTGTGAAAATTTC
5991762 GTGTGAAAATTT
1 GTGTGAAAATTT
5991774 GATAGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:5993381 original size:41 final size:41
Alignment explanation
Indices: 5993334--5993438 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
5993324 GGTTTAAAAC
* *
5993334 CTAGCAGGCTTAAGGCCGGTGAAATTATTCGGACTTTATGT
1 CTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTTTAAGT
* **
5993375 CTAGCAGGCTT-TGTGCTTGTGAAATAATTCGGACTTTAAGT
1 CTAGCAGGCTTAAG-GCCGGTGAAATAATTCGGACTTTAAGT
*
5993416 CTAGCAGGC-TAATTGCCGGTGAA
1 CTAGCAGGCTTAA-GGCCGGTGAA
5993439 TTGAATCAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.04
41 50 0.96
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
CTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTTTAAGT
Found at i:5995849 original size:17 final size:17
Alignment explanation
Indices: 5995827--5995874 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
5995817 TTTTTATGCT
*
5995827 TTATATATATTATTTTA
1 TTATATATATTATTATA
5995844 TTATATATTATATATTATA
1 TTATATA-TAT-TATTATA
5995863 TTATATTATATT
1 TTATA-TATATT
5995875 GTATTGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 4 0.15
19 14 0.52
20 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATATATTATTATA
Found at i:5995854 original size:7 final size:7
Alignment explanation
Indices: 5995830--5995863 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
5995820 TTATGCTTTA
5995830 TATATAT
1 TATATAT
*
5995837 TATTTTAT
1 TA-TATAT
5995845 TATATAT
1 TATATAT
5995852 TATATAT
1 TATATAT
5995859 TATAT
1 TATAT
5995864 TATATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATAT
Found at i:5995855 original size:5 final size:5
Alignment explanation
Indices: 5995827--5995893 Score: 63
Period size: 5 Copynumber: 14.2 Consensus size: 5
5995817 TTTTTATGCT
5995827 TTATA -TATA TTAT- TT-TA TTATA -TAT- TATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
* * *
5995873 TTGTA TTGTG TTATA TTATA T
1 TTATA TTATA TTATA TTATA T
5995894 AAGTAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 1 0.02
4 11 0.21
5 39 0.75
6 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:5995855 original size:22 final size:24
Alignment explanation
Indices: 5995830--5995873 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
5995820 TTATGCTTTA
5995830 TATATATTAT-TT-TATTATATAT
1 TATATATTATATTATATTATATAT
5995852 TATATATTATATTATATTATAT
1 TATATATTATATTATATTATAT
5995874 TGTATTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATATTATATTATATTATATAT
Found at i:5995862 original size:12 final size:12
Alignment explanation
Indices: 5995830--5995868 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
5995820 TTATGCTTTA
*
5995830 TATATATTATTT
1 TATATATTATAT
5995842 TAT-TA-TATAT
1 TATATATTATAT
5995852 TATATATTATAT
1 TATATATTATAT
5995864 TATAT
1 TATAT
5995869 TATATTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 7 0.29
11 4 0.17
12 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATATTATAT
Found at i:5995872 original size:15 final size:14
Alignment explanation
Indices: 5995826--5995893 Score: 70
Period size: 15 Copynumber: 4.9 Consensus size: 14
5995816 ATTTTTATGC
5995826 TTTATA-TATATTA
1 TTTATATTATATTA
5995839 TTT-TATTATA-TA
1 TTTATATTATATTA
5995851 TTATATATTATATTA
1 TT-TATATTATATTA
* *
5995866 TATTATATTGTATTG
1 T-TTATATTATATTA
5995881 TGTTATATTATAT
1 T-TTATATTATAT
5995894 AAGTAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.13
13 8 0.17
14 7 0.15
15 24 0.52
16 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTATATTATATTA
Found at i:5996739 original size:21 final size:21
Alignment explanation
Indices: 5996713--5996758 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5996703 TTTTATTATT
5996713 ATTATTATTGTTAAT-ATAATA
1 ATTATTATT-TTAATGATAATA
*
5996734 ATTATTATTTTAATGATTATA
1 ATTATTATTTTAATGATAATA
5996755 ATTA
1 ATTA
5996759 AAAGTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTATTATTTTAATGATAATA
Found at i:5998082 original size:60 final size:60
Alignment explanation
Indices: 5997989--5998108 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
5997979 TGAAATTGGG
5997989 TTGGTTATGCTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGTCGAAATGCTGCCGA
1 TTGGTTATGCTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGTCGAAATGCTGCCGA
5998049 TTGGTTATGCTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGTCGAAATGCTGCCGA
1 TTGGTTATGCTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGTCGAAATGCTGCCGA
5998109 AATTTTTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (60 bp):
TTGGTTATGCTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGTCGAAATGCTGCCGA
Found at i:6000468 original size:45 final size:45
Alignment explanation
Indices: 6000416--6000522 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
6000406 GTAGCAGTAA
* * *
6000416 CAGTAACAATAATAGTAATAGTATTCAACACACAAAGTG-CTAAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-AAAT
* * * *
6000461 CTGTAACAGCAACGGTAACAGTATTCGACACACAAAGTGTCAAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAAT
6000506 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
6000523 GTCGGCACAT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAAT
Found at i:6000627 original size:45 final size:45
Alignment explanation
Indices: 6000557--6000660 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
6000547 TAATCAGTAA
* * * **
6000557 CGGTAGCAGTAACAGTAACAGTATTTAACACACAATGTGTTGAAT
1 CGGTAACAGTAACAATAACAGTATTTAACACACAAAGTGCCGAAT
* * *
6000602 CTGTAACAGTAACAATAATAGTATTTGACACACAAAGTGCCGAAT
1 CGGTAACAGTAACAATAACAGTATTTAACACACAAAGTGCCGAAT
*
6000647 CGGTACCAGTAACA
1 CGGTAACAGTAACA
6000661 GTAGTCGACA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTAACAGTAACAATAACAGTATTTAACACACAAAGTGCCGAAT
Found at i:6000775 original size:45 final size:45
Alignment explanation
Indices: 6000724--6000811 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
6000714 ACAGTAAAAA
*** *
6000724 TAACAGTATTCAACACACAAAGTGTTGAATCTGTAACAATAATGG
1 TAACAGTATTCAACACACAAAGTGCCAAATCGGTAACAATAATGG
*
6000769 TAACAGTATTCGACACACAAAGTGCCAAATCGGTAACAATAAT
1 TAACAGTATTCAACACACAAAGTGCCAAATCGGTAACAATAAT
6000812 AGTAGTCGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (45 bp):
TAACAGTATTCAACACACAAAGTGCCAAATCGGTAACAATAATGG
Found at i:6001067 original size:40 final size:40
Alignment explanation
Indices: 6001014--6001097 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
6001004 AATTTATTAC
* * *
6001014 TTCAGTAAATTCACAGTTCAA-TACAGTACACATAACAATA
1 TTCAATAAATTCACAATTCAACT-CAGTACACAAAACAATA
* * *
6001054 TTCAATAACTTCACAATTGAACTCAGTACTCAAAACAATA
1 TTCAATAAATTCACAATTCAACTCAGTACACAAAACAATA
6001094 TTCA
1 TTCA
6001098 GTATTCCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (40 bp):
TTCAATAAATTCACAATTCAACTCAGTACACAAAACAATA
Found at i:6004577 original size:19 final size:19
Alignment explanation
Indices: 6004553--6004591 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6004543 AATTATTTTT
6004553 CACATTTGATTTGAAATGA
1 CACATTTGATTTGAAATGA
6004572 CACATTTGATTTGAAATGA
1 CACATTTGATTTGAAATGA
6004591 C
1 C
6004592 TAAAAGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (19 bp):
CACATTTGATTTGAAATGA
Done.