Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 265 of 290
Found at i:85382762 original size:37 final size:37
Alignment explanation
Indices: 85382712--85382787 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
85382702 TTAGCAAGTG
*
85382712 GTTAGATAAGTGCATAGACAAAGCCCAAAGCATTTTT
1 GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
85382749 GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
1 GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
85382786 GT
1 GT
85382788 ACCAAGTAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (37 bp):
GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
Found at i:85387225 original size:30 final size:30
Alignment explanation
Indices: 85387181--85387240 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
85387171 ATTTAACAAG
*
85387181 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
85387211 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
85387241 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:85396415 original size:10 final size:9
Alignment explanation
Indices: 85396388--85396432 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
85396378 CATAAATGAT
*
85396388 ATATATACA
1 ATATATAAA
*
85396397 ATAT-CAAA
1 ATATATAAA
85396405 ATATATAAA
1 ATATATAAA
85396414 A-ATATAAA
1 ATATATAAA
85396422 A-ATATAAA
1 ATATATAAA
85396430 ATA
1 ATA
85396433 AAGTGAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
8 22 0.71
9 9 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (9 bp):
ATATATAAA
Found at i:85396418 original size:8 final size:8
Alignment explanation
Indices: 85396396--85396430 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
85396386 ATATATATAC
85396396 AATATCAAA
1 AATAT-AAA
85396405 ATATATAAA
1 A-ATATAAA
85396414 AATATAAA
1 AATATAAA
85396422 AATATAAA
1 AATATAAA
85396430 A
1 A
85396431 TAAAGTGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.64
9 5 0.20
10 4 0.16
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (8 bp):
AATATAAA
Found at i:85396516 original size:14 final size:13
Alignment explanation
Indices: 85396478--85396526 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
85396468 AAAAAATATG
85396478 ATATTTAATAATA
1 ATATTTAATAATA
85396491 AT-TTTAA-AATA
1 ATATTTAATAATA
85396502 ATATTTAATATATA
1 ATATTTAATA-ATA
*
85396516 ATATATAATAA
1 ATATTTAATAA
85396527 AAAAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.19
12 10 0.31
13 4 0.12
14 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:85396852 original size:20 final size:20
Alignment explanation
Indices: 85396823--85396892 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
85396813 AACTTTTGAT
85396823 AATA-ATAATATAGATAAAA
1 AATATATAATATAGATAAAA
85396842 AATATAT-A-ATAGTATAAAA
1 AATATATAATATAG-ATAAAA
* *
85396861 AATGACATAATA-ATATAAAA
1 AAT-ATATAATATAGATAAAA
85396881 TAA-ATATAATAT
1 -AATATATAATAT
85396893 GTAATATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
18 4 0.10
19 21 0.51
20 11 0.27
21 4 0.10
22 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (20 bp):
AATATATAATATAGATAAAA
Found at i:85396858 original size:19 final size:19
Alignment explanation
Indices: 85396832--85396891 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
85396822 TAATAATAAT
85396832 ATAG-ATAAAAAATATATA
1 ATAGTATAAAAAATATATA
*
85396850 ATAGTATAAAAAATGACATA
1 ATAGTATAAAAAAT-ATATA
*
85396870 ATAATATAAAATAA-ATATA
1 ATAGTATAAAA-AATATATA
85396889 ATA
1 ATA
85396892 TGTAATATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 14 0.39
21 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAGTATAAAAAATATATA
Found at i:85396930 original size:22 final size:24
Alignment explanation
Indices: 85396905--85396958 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
85396895 AATATGAAAG
*
85396905 TATATAT-GTAAAAT-AATAATAA
1 TATATATAATAAAATGAATAATAA
85396927 TATATATAAATAAAATGAATAATAA
1 TATATAT-AATAAAATGAATAATAA
85396952 -ATA-ATAA
1 TATATATAA
85396959 ATAATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 9 0.32
25 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
TATATATAATAAAATGAATAATAA
Found at i:85396932 original size:24 final size:25
Alignment explanation
Indices: 85396821--85396962 Score: 90
Period size: 23 Copynumber: 5.8 Consensus size: 25
85396811 AAAACTTTTG
*
85396821 ATAATAATA-ATATAGATAAAA--A
1 ATAATAATATATATAAATAAAATGA
*
85396843 ATATATAATA-GTAT-AA-AAAATGA
1 ATA-ATAATATATATAAATAAAATGA
*
85396866 CATAATAATATAAAATAAATATAATATGTA
1 -ATAATAATAT-ATATAAATA-AA-ATG-A
**
85396896 AT-ATGAA-AGTATATATGTAAAAT-A
1 ATAAT-AATA-TATATAAATAAAATGA
85396920 ATAATAATATATATAAATAAAATGA
1 ATAATAATATATATAAATAAAATGA
85396945 ATAATAA-ATA-ATAAATAA
1 ATAATAATATATATAAATAA
85396963 TTATATATAT
Statistics
Matches: 95, Mismatches: 9, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
21 4 0.04
22 4 0.04
23 24 0.25
24 23 0.24
25 13 0.14
26 4 0.04
27 3 0.03
28 11 0.12
29 8 0.08
30 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.31
Consensus pattern (25 bp):
ATAATAATATATATAAATAAAATGA
Found at i:85396939 original size:19 final size:19
Alignment explanation
Indices: 85396821--85396989 Score: 82
Period size: 20 Copynumber: 8.5 Consensus size: 19
85396811 AAAACTTTTG
*
85396821 ATAATAATAATATAGATAA
1 ATAATAATAATATATATAA
*
85396840 AAAATATATAATAGTATA-AA
1 ATAATA-ATAATA-TATATAA
85396860 A-AATGACATAATA-ATATAAA
1 ATAAT-A-ATAATATATAT-AA
* *
85396880 ATAA-ATATAATATGTA-AT
1 ATAATA-ATAATATATATAA
* *
85396898 ATGAA-AGT-ATATATGTAAA
1 AT-AATAATAATATATAT-AA
85396917 ATAATAATAATATATATAA
1 ATAATAATAATATATATAA
*
85396936 ATAAAATGAATAATAAATAATAA
1 AT--AAT-AATAATATAT-ATAA
*
85396959 ATAATTATATATATATATAA
1 ATAATAATA-ATATATATAA
*
85396979 TATAAAAATAA
1 -ATAATAATAA
85396990 AATTAAAAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
17 5 0.04
18 9 0.08
19 27 0.23
20 36 0.31
21 23 0.20
22 9 0.08
23 6 0.05
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAATAATAATATATATAA
Found at i:85397027 original size:51 final size:52
Alignment explanation
Indices: 85396923--85397031 Score: 134
Period size: 51 Copynumber: 2.1 Consensus size: 52
85396913 TAAAATAATA
* * * *
85396923 ATAATATATATAAATAAAATGAATAATAAATAATAAATAATTATATATATAT
1 ATAATATATATAAATAAAATAAAAAATAAACAATAAAAAATTATATATATAT
*
85396975 ATAATATA-A-AAATAAAATTAAAAAATAAACAGATAAAAAATT-TATATTTAT
1 ATAATATATATAAATAAAA-TAAAAAATAAACA-ATAAAAAATTATATATATAT
85397026 ATAATA
1 ATAATA
85397032 ACAACAGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
50 8 0.16
51 25 0.50
52 17 0.34
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (52 bp):
ATAATATATATAAATAAAATAAAAAATAAACAATAAAAAATTATATATATAT
Found at i:85399085 original size:205 final size:206
Alignment explanation
Indices: 85398628--85399182 Score: 857
Period size: 205 Copynumber: 2.7 Consensus size: 206
85398618 AAATCTACTT
*
85398628 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
85398693 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGCAAGCACAAGAAT-TTCAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGCT-AAATCATCT
**
85398757 TGGATCTTGCTTCAGTGATATTATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGT
130 TGGATCTTGCTTCAGTGATAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGT
*
85398822 GGAGATGCCGGA
195 GGAGATGCCAGA
85398834 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * *
85398899 ATGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCTTGTAAGCACAATG-ATGCTAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAA-GAATGCTAAATCATCT
* *
85398963 TGGATC-TGCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATTTATCTGCTCCCCGTTGAAG
130 TGGATCTTGCTTCAGTGAT-AACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAG
*
85399026 TGGAGATGTCAGA
194 TGGAGATGCCAGA
* * * *
85399039 CTTTGATTTGCTCTCTGACAATACAGAGATGCCAAATTATCTTAGATTTACTTCAACGTAAACAC
1 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * *
85399104 GTGAAAGCCAAATCAGCTATGTCTTTGGTTTGTTCATTGTAAGCACAAGAATGCCAAACCATCTA
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGCTAAATCATCTT
85399169 GGATCTTGCTTCAG
131 GGATCTTGCTTCAG
85399183 CCAGATCTGT
Statistics
Matches: 318, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
204 3 0.01
205 181 0.57
206 132 0.42
207 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (206 bp):
CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGCTAAATCATCTT
GGATCTTGCTTCAGTGATAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTG
GAGATGCCAGA
Found at i:85407083 original size:14 final size:16
Alignment explanation
Indices: 85407048--85407084 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
85407038 CAAACGATGC
85407048 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
85407063 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
85407078 -ATGCAAA
1 GATGCAAA
85407085 AAGGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:85410824 original size:12 final size:13
Alignment explanation
Indices: 85410806--85410853 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
85410796 AAAAAATATG
85410806 ATATTTAATAATA
1 ATATTTAATAATA
85410819 AT-TTT-A-AATA
1 ATATTTAATAATA
85410829 ATATTTAATATATA
1 ATATTTAATA-ATA
*
85410843 ATATATAATAA
1 ATATTTAATAA
85410854 CAAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 6 0.20
11 4 0.13
12 4 0.13
13 4 0.13
14 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:85411188 original size:20 final size:20
Alignment explanation
Indices: 85411161--85411310 Score: 73
Period size: 19 Copynumber: 7.5 Consensus size: 20
85411151 TAATAATAAT
85411161 ATAG-ATAAAAAAATATATA
1 ATAGTATAAAAAAATATATA
*
85411180 ATAGTAT-AAAAAATGACATA
1 ATAGTATAAAAAAAT-ATATA
* *
85411200 ATAATATAAAATAA-ATATA
1 ATAGTATAAAAAAATATATA
** *
85411219 ATATGTAATATGAAAGTATAT-
1 ATA-GT-ATAAAAAAATATATA
*
85411240 AT-GTA-AAAATAATATATA
1 ATAGTATAAAAAAATATATA
*
85411258 ATATATATAAATAAAATGA-ATA
1 ATA-GTATAAA-AAAAT-ATATA
* *
85411280 ATAAATAATAAAATAATTATATA
1 AT-AGT-ATAAAA-AAATATATA
85411303 ATA-TATAA
1 ATAGTATAA
85411311 TATAAAAATA
Statistics
Matches: 99, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
17 8 0.08
18 3 0.03
19 20 0.20
20 19 0.19
21 16 0.16
22 18 0.18
23 15 0.15
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAGTATAAAAAAATATATA
Found at i:85411260 original size:7 final size:7
Alignment explanation
Indices: 85411248--85411314 Score: 55
Period size: 7 Copynumber: 9.1 Consensus size: 7
85411238 ATATGTAAAA
85411248 ATAATAT
1 ATAATAT
85411255 ATAATAT
1 ATAATAT
*
85411262 AT-ATAA
1 ATAATAT
*
85411268 ATAAAAT
1 ATAATAT
*
85411275 GAATAATAA
1 --ATAATAT
*
85411284 ATAATAAA
1 ATAAT-AT
85411292 ATAATTAT
1 ATAA-TAT
85411300 ATAATAT
1 ATAATAT
85411307 ATAATAT
1 ATAATAT
85411314 A
1 A
85411315 AAAATAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
6 5 0.10
7 27 0.55
8 11 0.22
9 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:85411261 original size:22 final size:21
Alignment explanation
Indices: 85411236--85411308 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
85411226 ATATGAAAGT
85411236 ATATATGTAAAAATAATATATA
1 ATATAT-TAAAAATAATATATA
85411258 ATATATATAAATAA-AATGA-ATA
1 ATATAT-TAAA-AATAAT-ATATA
* *
85411280 ATAAATAATAAAATAATTATATA
1 ATATATTA-AAAATAA-TATATA
85411303 ATATAT
1 ATATAT
85411309 AATATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
21 3 0.07
22 26 0.63
23 12 0.29
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
ATATATTAAAAATAATATATA
Found at i:85411321 original size:41 final size:40
Alignment explanation
Indices: 85411155--85411333 Score: 133
Period size: 39 Copynumber: 4.5 Consensus size: 40
85411145 TTTTGATAAT
* * *
85411155 AATAATATAGATAAAAAAATATATAATAGTATAA-A-AAATG
1 AATAATAAATATAAAATAATATATAATA-TATAATATAAA-G
*
85411195 ACATAAT-AATATAAAATAA-ATATAATATGTAATATGAAAG
1 A-ATAATAAATATAAAATAATATATAATATATAATAT-AAAG
* ** *
85411235 TAT-ATATGTA-AAAATAATATATAATATATATAAATAAAATG
1 AATAATAAATATAAAATAATATATAATATATA-ATAT-AAA-G
85411276 AATAATAAATAATAAAATAATTATATAATATATAATATAAA-
1 AATAATAAAT-ATAAAATAA-TATATAATATATAATATAAAG
*
85411317 AATAA-AATTA-AAAATAA
1 AATAATAAATATAAAATAA
85411334 AACAGATAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
38 20 0.18
39 25 0.22
40 20 0.18
41 16 0.14
42 4 0.04
43 4 0.04
44 10 0.09
45 13 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (40 bp):
AATAATAAATATAAAATAATATATAATATATAATATAAAG
Found at i:85416262 original size:21 final size:21
Alignment explanation
Indices: 85416238--85416293 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
85416228 AACAGCGGTG
*
85416238 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
85416259 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
85416280 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
85416294 AACAGCGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:85419015 original size:49 final size:49
Alignment explanation
Indices: 85418943--85419040 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
85418933 TTTCTTTCTC
*
85418943 AATTTTGATTACAAATTTAAAAATAAATTCTATCAAAATTTCATTATAA
1 AATTTTGATTACAAATTTAAAAATAAATTCTAACAAAATTTCATTATAA
85418992 AATTTTGATTACAAATTTAAAAATAAATTCTAACAAAATTTCATTATAA
1 AATTTTGATTACAAATTTAAAAATAAATTCTAACAAAATTTCATTATAA
85419041 TAAAAAAGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (49 bp):
AATTTTGATTACAAATTTAAAAATAAATTCTAACAAAATTTCATTATAA
Found at i:85420524 original size:22 final size:22
Alignment explanation
Indices: 85420496--85420540 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
85420486 CAACAACATG
85420496 TTAAACTTTATTAAAAATGGAT
1 TTAAACTTTATTAAAAATGGAT
85420518 TTAAACTTTATTAAAAATGGAT
1 TTAAACTTTATTAAAAATGGAT
85420540 T
1 T
85420541 ACTAAGACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
TTAAACTTTATTAAAAATGGAT
Found at i:85421754 original size:31 final size:30
Alignment explanation
Indices: 85421714--85421772 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
85421704 AAAAAATCAA
85421714 GTGAGTTAAATAAAAACTTCCAAATAGTTAT
1 GTGAGTTAAAT-AAAACTTCCAAATAGTTAT
* * *
85421745 GTGATTTAAATGAAACTTTCAAATAGTT
1 GTGAGTTAAATAAAACTTCCAAATAGTT
85421773 CAGTGACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (30 bp):
GTGAGTTAAATAAAACTTCCAAATAGTTAT
Found at i:85424633 original size:68 final size:69
Alignment explanation
Indices: 85424548--85424685 Score: 242
Period size: 68 Copynumber: 2.0 Consensus size: 69
85424538 GTTGAAGAAG
85424548 AAAGAAAAAAAGATGATATCTTTCTTTCACTTATTTTATTTTATGATATTTGATTAATTTACCAA
1 AAAGAAAAAAAGATGATATCTTTCTTTCACTTATTTTATTTTATGATATTTGATTAATTTACCAA
85424613 ATTA
66 ATTA
* * *
85424617 AAAG-AAAAAAGATGATATCTTTTTTTCACTTGTTTTATTTTATGATATTTTATTAATTTACCAA
1 AAAGAAAAAAAGATGATATCTTTCTTTCACTTATTTTATTTTATGATATTTGATTAATTTACCAA
85424681 ATTA
66 ATTA
85424685 A
1 A
85424686 CCTTAAGTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 62 0.94
69 4 0.06
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (69 bp):
AAAGAAAAAAAGATGATATCTTTCTTTCACTTATTTTATTTTATGATATTTGATTAATTTACCAA
ATTA
Found at i:85437147 original size:24 final size:24
Alignment explanation
Indices: 85437113--85437185 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
85437103 AGTCTGTCTA
* *
85437113 GAGAAGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATTAGG
*
85437137 GAGAGGGTTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATTAGG
85437161 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATTAGG
85437185 G
1 G
85437186 TGAATTGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.30, C:0.04, G:0.42, T:0.23
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATTAGG
Found at i:85438663 original size:27 final size:26
Alignment explanation
Indices: 85438625--85438708 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 26
85438615 GGAAGCGTCT
85438625 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
*
85438652 TGGTGGTTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TC
* *
85438680 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
85438706 TGG
1 TGG
85438709 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 5 0.10
27 30 0.59
28 16 0.31
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.39
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:85441026 original size:72 final size:71
Alignment explanation
Indices: 85440950--85441125 Score: 255
Period size: 72 Copynumber: 2.4 Consensus size: 71
85440940 GTCTGGGTAT
** * *
85440950 TGACTTTGTGTATAAACACGTGAGTAGCTCAATGAGTGGGCATTACATGATAATGTTTTGGGGTC
1 TGACTTTGTGTATAAAC-CGTGAGTAGCTCAATGAGCAGGAATTACATGATAATGCTTTGGGGTC
85441015 C-GAGTGC
65 CAG-GTGC
85441022 TGACTTTGTGTATAAATCCGTGAGTAGCTCAATGAGCAGGAATTACATGATAATGCTTTGGGGTC
1 TGACTTTGTGTATAAA-CCGTGAGTAGCTCAATGAGCAGGAATTACATGATAATGCTTTGGGGTC
*
85441087 CAGGTTC
65 CAGGTGC
*
85441094 TGACTTTGTGTACAAACCCGTGAGTAGCTCAA
1 TGACTTTGTGTATAAA-CCGTGAGTAGCTCAA
85441126 ATGTGCGCAT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
72 93 0.98
73 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (71 bp):
TGACTTTGTGTATAAACCGTGAGTAGCTCAATGAGCAGGAATTACATGATAATGCTTTGGGGTCC
AGGTGC
Found at i:85443244 original size:48 final size:47
Alignment explanation
Indices: 85443173--85443382 Score: 196
Period size: 46 Copynumber: 4.5 Consensus size: 47
85443163 AAGCTGACGC
* *
85443173 CATGTCCCAGACA-ATCTTACACTAGCTTGTATATCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCTGATG
* * ** * * *
85443220 CATGTCCCAGACATGTATTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATG
* * * *
85443266 CATGTCCTAGACATGTCGTACACTGGCTTAAATATCTCGAAGGC-GATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCG-AGGCTGATG
* * *
85443314 CATGTCCCAGACATGTCTTACACTGGCTCTTTTA-CT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCTGATG
*
85443360 CATGTCCCAGACTTGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
85443383 AAATGAACCA
Statistics
Matches: 132, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
45 3 0.02
46 61 0.46
47 16 0.12
48 48 0.36
49 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCTGATG
Found at i:85443366 original size:94 final size:93
Alignment explanation
Indices: 85443173--85443343 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 93
85443163 AAGCTGACGC
* * * **
85443173 CATGTCCCAGACA-ATCTTACACTAGCTTGTATATCGCGAGGCTGATGCATGTCCCAGACATGTA
1 CATGTCCCAGACATGTCGTACACTGGCTTAAATATCGCGAGGCTGATGCATGTCCCAGACATGTA
85443237 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTC-TCTCAATGCCGATG
* *
85443266 CATGTCCTAGACATGTCGTACACTGGCTTAAATATCTCGAAGGC-GATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCGTACACTGGCTTAAATATCGCG-AGGCTGATGCATGTCCCAGACATGT
* *
85443330 CTTACACTGGCTCT
65 ATTACACTAGCTCT
85443344 TTTACTGTGG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
93 12 0.18
94 51 0.76
95 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCGTACACTGGCTTAAATATCGCGAGGCTGATGCATGTCCCAGACATGTA
TTACACTAGCTCTCTCTCAATGCCGATG
Found at i:85443382 original size:94 final size:92
Alignment explanation
Indices: 85443173--85443382 Score: 226
Period size: 94 Copynumber: 2.2 Consensus size: 92
85443163 AAGCTGACGC
** **
85443173 CATGTCCCAGACAATCTTACACTAGCTTGTATATCGCGAGGCTGATGCATGTCCCAGACATGTAT
1 CATGTCCCAGACTGTCTTACACTAGCTTAAATATCGCGAGGCTGATGCATGTCCCAGACATGTAT
85443238 TACACTAGCTCTCGTCTCAATGCCGATG
66 TACACTAGCTCTC-TCTCAATGCCGATG
* * * *
85443266 CATGTCCTAGACATGTCGTACACTGGCTTAAATATCTCGAAGGC-GATGCATGTCCCAGACATGT
1 CATGTCCCAGAC-TGTCTTACACTAGCTTAAATATCGCG-AGGCTGATGCATGTCCCAGACATGT
* * * ** *
85443330 CTTACACTGGCTCT-TTTACTGTGGCTGATG
64 ATTACACTAGCTCTCTCT-CAAT-GCCGATG
85443360 CATGTCCCAGACTTGTCTTACAC
1 CATGTCCCAGAC-TGTCTTACAC
85443383 AAATGAACCA
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
92 2 0.02
93 13 0.14
94 77 0.80
95 4 0.04
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (92 bp):
CATGTCCCAGACTGTCTTACACTAGCTTAAATATCGCGAGGCTGATGCATGTCCCAGACATGTAT
TACACTAGCTCTCTCTCAATGCCGATG
Found at i:85445360 original size:8 final size:8
Alignment explanation
Indices: 85445315--85445354 Score: 80
Period size: 8 Copynumber: 5.0 Consensus size: 8
85445305 ATACTTAAGT
85445315 ATATAATA
1 ATATAATA
85445323 ATATAATA
1 ATATAATA
85445331 ATATAATA
1 ATATAATA
85445339 ATATAATA
1 ATATAATA
85445347 ATATAATA
1 ATATAATA
85445355 TAATAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:85446176 original size:27 final size:28
Alignment explanation
Indices: 85446127--85446184 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
85446117 TATATGTGTA
*
85446127 TGATTGAAAAGTGTATTGAATTGG-AAT
1 TGATTGAAAAGTATATTGAATTGGAAAT
*
85446154 TGATTGAAATTGTATATTG-ATTGGAAAT
1 TGATTGAAA-AGTATATTGAATTGGAAAT
85446182 TGA
1 TGA
85446185 ATTATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (28 bp):
TGATTGAAAAGTATATTGAATTGGAAAT
Found at i:85447705 original size:12 final size:12
Alignment explanation
Indices: 85447688--85447720 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
85447678 GACGCCACAT
85447688 GGCCGTGTGGTA
1 GGCCGTGTGGTA
85447700 GGCCGTGTGGTA
1 GGCCGTGTGGTA
*
85447712 GGCCATGTG
1 GGCCGTGTG
85447721 CCATAACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.48, T:0.24
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:85455476 original size:27 final size:28
Alignment explanation
Indices: 85455444--85455501 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
85455434 CATATCTGTA
85455444 TGATTGAAAATT-T-TATTGAATTGG-AAT
1 TGATTG-AAATTGTATATTG-ATTGGAAAT
85455471 TGATTGAAATTGTATATTGATTGGAAAT
1 TGATTGAAATTGTATATTGATTGGAAAT
85455499 TGA
1 TGA
85455502 ATTATGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 5 0.18
27 12 0.43
28 11 0.39
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (28 bp):
TGATTGAAATTGTATATTGATTGGAAAT
Found at i:85455515 original size:18 final size:17
Alignment explanation
Indices: 85455469--85455516 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
85455459 TTGAATTGGA
*
85455469 ATTGATTGAAATTGTAT
1 ATTGATTGAAATTGAAT
85455486 ATTGATTGGAAATTGAAT
1 ATTGATT-GAAATTGAAT
85455504 -TATGAATTGAAAT
1 AT-TG-ATTGAAAT
85455517 ACCCTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 8 0.30
18 16 0.59
19 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (17 bp):
ATTGATTGAAATTGAAT
Found at i:85455824 original size:40 final size:40
Alignment explanation
Indices: 85455769--85455847 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
85455759 AATTGAATAG
* *
85455769 ATCGAGTACTAGCGGCGTTTCT-AGAAAAGCGCCGCTAAAT
1 ATCGAGAACTAGCGGCATTTCTAAG-AAAGCGCCGCTAAAT
* * *
85455809 ATCGAGAATTAGCGGCATTTTTAAGGAAGCGCCGCTAAA
1 ATCGAGAACTAGCGGCATTTCTAAGAAAGCGCCGCTAAA
85455848 GATTGACCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCGAGAACTAGCGGCATTTCTAAGAAAGCGCCGCTAAAT
Found at i:85456483 original size:7 final size:7
Alignment explanation
Indices: 85456468--85456520 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
85456458 TTTTGATCAT
85456468 CCCTAAA
1 CCCTAAA
*
85456475 CCTTAAA
1 CCCTAAA
*
85456482 CCTTAAA
1 CCCTAAA
85456489 CCCTAAA
1 CCCTAAA
*
85456496 TCCTAAA
1 CCCTAAA
85456503 CCCTAAA
1 CCCTAAA
*
85456510 CCCTAAC
1 CCCTAAA
85456517 CCCT
1 CCCT
85456521 TAAATCAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:85456589 original size:21 final size:21
Alignment explanation
Indices: 85456565--85456607 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
85456555 TATATAGTCG
*
85456565 TAAATCATAAACTA-TAAACCT
1 TAAACCATAAA-TATTAAACCT
*
85456586 TAAACCCTAAATATTAAACCT
1 TAAACCATAAATATTAAACCT
85456607 T
1 T
85456608 GGATCCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAACCATAAATATTAAACCT
Found at i:85456763 original size:21 final size:21
Alignment explanation
Indices: 85456729--85456785 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
85456719 TTATAAAATG
*
85456729 TCTTAAAACTATAAACCCTAAA
1 TCTT-AAACCATAAACCCTAAA
85456751 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCCTAAA
**
85456772 TCCAAAACCATAAA
1 TCTTAAACCATAAA
85456786 ACCTTAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:85457126 original size:3 final size:3
Alignment explanation
Indices: 85457118--85457143 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85457108 TTAAATAGTA
85457118 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
85457144 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:85461899 original size:23 final size:23
Alignment explanation
Indices: 85461869--85461918 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
85461859 AACATTAATC
85461869 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
85461892 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
85461915 AAAT
1 AAAT
85461919 AAACTTGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:85462474 original size:241 final size:239
Alignment explanation
Indices: 85462051--85462535 Score: 925
Period size: 241 Copynumber: 2.0 Consensus size: 239
85462041 ATGAATTAAT
85462051 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
85462116 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
85462181 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
85462246 ATAAAGACTTGGAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 --AAAGACTTGGAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
85462292 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
85462357 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
85462422 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
85462487 AAAGACTTGGAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAGACTTGGAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
85462531 TTTAT
1 TTTAT
85462536 ATAACATTAA
Statistics
Matches: 241, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
239 49 0.20
241 192 0.80
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (239 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAGACTTGGAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:85462737 original size:9 final size:9
Alignment explanation
Indices: 85462714--85462841 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
85462704 ATTGATTATT
*
85462714 ACTTAAATA
1 ACTTACATA
*
85462723 AATTACATA
1 ACTTACATA
85462732 ACTTACATA
1 ACTTACATA
* *
85462741 ACTCATATA
1 ACTTACATA
85462750 ACTTACATA
1 ACTTACATA
*
85462759 ATTTACATAACA
1 ACTTACAT---A
85462771 ACTTACATA
1 ACTTACATA
*
85462780 ACTCACATA
1 ACTTACATA
85462789 ACTTACATA
1 ACTTACATA
*
85462798 ATTTACATA
1 ACTTACATA
*
85462807 ACTCACATA
1 ACTTACATA
*
85462816 ACGTACATAACA
1 ACTTACAT---A
85462828 ACTTACATA
1 ACTTACATA
85462837 ACTTA
1 ACTTA
85462842 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:85462783 original size:39 final size:39
Alignment explanation
Indices: 85462731--85462808 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
85462721 TAAATTACAT
*
85462731 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
85462770 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
85462809 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:85462808 original size:57 final size:57
Alignment explanation
Indices: 85462727--85462839 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
85462717 TAAATAAATT
* * **
85462727 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
85462784 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
85462840 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:85462927 original size:18 final size:17
Alignment explanation
Indices: 85462899--85462935 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
85462889 TTAAAGTTCA
85462899 AATCTCATAACTTACAT
1 AATCTCATAACTTACAT
85462916 AATCTACATAACTTACAT
1 AATCT-CATAACTTACAT
85462934 AA
1 AA
85462936 AACATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (17 bp):
AATCTCATAACTTACAT
Found at i:85467982 original size:13 final size:14
Alignment explanation
Indices: 85467964--85467992 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
85467954 TTATAAATAT
85467964 TTATAATA-TTTAA
1 TTATAATATTTTAA
85467977 TTATAATATTTTAA
1 TTATAATATTTTAA
85467991 TT
1 TT
85467993 CTTCGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAATATTTTAA
Found at i:85468397 original size:21 final size:21
Alignment explanation
Indices: 85468371--85468414 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
85468361 ACTTAGAGCG
*
85468371 GAGGCAGCAGTGAGGGAGACA
1 GAGGCAGCAGCGAGGGAGACA
*
85468392 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGACA
85468413 GA
1 GA
85468415 CCAGAACAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.50, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGACA
Found at i:85468774 original size:43 final size:43
Alignment explanation
Indices: 85468708--85468842 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
85468698 ACTGGGCAAA
*** * * *
85468708 TTAGCGGCGTTTTTTAAAAAAGCGCCGTTATAAGTCCTGGTTT
1 TTAGCGGCGTTTTTTATGTAAGCGCCGCTAAAAGTCCTGGTCT
*
85468751 TTAGCGGCATTTTTTATGTAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTATGTAAGCGCCGCTAAAAGTCCTGGTCT
* * *
85468794 TTAGCGGCGCTTTTTATGTAAGCACCGCTAAAAGTCCTAGTCT
1 TTAGCGGCGTTTTTTATGTAAGCGCCGCTAAAAGTCCTGGTCT
85468837 TTAGCG
1 TTAGCG
85468843 TCGCTTACCT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATGTAAGCGCCGCTAAAAGTCCTGGTCT
Found at i:85468892 original size:64 final size:63
Alignment explanation
Indices: 85468786--85468905 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 63
85468776 CGCTAAAAGT
* *
85468786 CCTGGTCTTTAGCGGCGCTTTTTATGTAAGCACCGCTAAAAGTCCTAGTCTTTAGCGTCGCTTA
1 CCTGATCTTTAGCGGCGCTTTTTATATAAGCACCGCTAAAAGTCCTAG-CTTTAGCGTCGCTTA
* * * *
85468850 CCTGATCTTTAGCGGTGTTTTTTTTATAAGCGCCGCTAAAAGTCCTAGCTTTAGCG
1 CCTGATCTTTAGCGGCGCTTTTTATATAAGCACCGCTAAAAGTCCTAGCTTTAGCG
85468906 GCGTTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 8 0.16
64 42 0.84
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (63 bp):
CCTGATCTTTAGCGGCGCTTTTTATATAAGCACCGCTAAAAGTCCTAGCTTTAGCGTCGCTTA
Found at i:85468944 original size:106 final size:107
Alignment explanation
Indices: 85468750--85468948 Score: 251
Period size: 106 Copynumber: 1.9 Consensus size: 107
85468740 AGTCCTGGTT
* * ***
85468750 TTTAGCGGCATTTTTTATGTAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGCTTTTTATGTAA
1 TTTAGCGGCATTTTTTATATAAGCGCCGCTAAAAGTCCTAGTCTTTAGCGGCGCTTTTTAAAAAA
* *
85468815 GCACCGCTAAAAGTCCTAGTCTTTAGCGTCGCTTACCTGATC
66 CCACCGCTAAAAGTCATAGTCTTTAGCGTCGCTTACCTGATC
** * *
85468857 TTTAGCGGTGTTTTTTTTATAAGCGCCGCTAAAAGTCCTAG-CTTTAGCGGCGTTTTTTAAAAAA
1 TTTAGCGGCATTTTTTATATAAGCGCCGCTAAAAGTCCTAGTCTTTAGCGGCGCTTTTTAAAAAA
*
85468921 CCGCCGCT-AAAGATCAT-GATCTTTAGCG
66 CCACCGCTAAAAG-TCATAG-TCTTTAGCG
85468949 GCATTACATA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 5 0.06
106 37 0.47
107 36 0.46
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (107 bp):
TTTAGCGGCATTTTTTATATAAGCGCCGCTAAAAGTCCTAGTCTTTAGCGGCGCTTTTTAAAAAA
CCACCGCTAAAAGTCATAGTCTTTAGCGTCGCTTACCTGATC
Found at i:85472104 original size:25 final size:25
Alignment explanation
Indices: 85472051--85472110 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
85472041 CCGTTTTCAG
**
85472051 AAAGAAAAG-AACCAAGAACCTCAA
1 AAAGAAAAGAAACCAAGAACAACAA
85472075 AAAGAAAAGAAACCAAGAA-AACAA
1 AAAGAAAAGAAACCAAGAACAACAA
*
85472099 AGAAGAAGAGAA
1 A-AAGAAAAGAA
85472111 CATCCAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.68, C:0.13, G:0.17, T:0.02
Consensus pattern (25 bp):
AAAGAAAAGAAACCAAGAACAACAA
Found at i:85472155 original size:5 final size:6
Alignment explanation
Indices: 85472121--85472154 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
85472111 CATCCAACCA
* *
85472121 AAAAAG AAAAAG AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
85472155 TGTTAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (6 bp):
AAAAAT
Found at i:85473123 original size:14 final size:14
Alignment explanation
Indices: 85473102--85473142 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
85473092 TTGAAACTTG
85473102 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
85473116 TGCAACTTGCAAAT
1 CACAACTTGCACAT
85473130 CACAACTTGCACA
1 CACAACTTGCACA
85473143 ATTAGGTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:85475780 original size:14 final size:14
Alignment explanation
Indices: 85475759--85475799 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
85475749 TTGCAACTTG
85475759 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
85475773 TGCAACTTGCAAAT
1 CACAACTTGCACAT
85475787 CACAACTTGCACA
1 CACAACTTGCACA
85475800 ATTAGGTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:85476635 original size:28 final size:28
Alignment explanation
Indices: 85476595--85476651 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
85476585 TTAATAAATA
85476595 TGTGCATCTTTTAATAAGGGGAATTTTC
1 TGTGCATCTTTTAATAAGGGGAATTTTC
85476623 TGTGCATCTTTTAATAAGGGGAATTTTC
1 TGTGCATCTTTTAATAAGGGGAATTTTC
85476651 T
1 T
85476652 CTAGAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (28 bp):
TGTGCATCTTTTAATAAGGGGAATTTTC
Found at i:85480713 original size:28 final size:28
Alignment explanation
Indices: 85480681--85480745 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
85480671 ATTTACTAGA
*
85480681 ATACCCCTATGTATGCAAAATTACCA-TT
1 ATACCCCTATGTATGCAAAATGA-CATTT
85480709 ATACCCCTATGTATGCAAAATGACATTT
1 ATACCCCTATGTATGCAAAATGACATTT
85480737 ATACCCCTA
1 ATACCCCTA
85480746 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 2 0.06
28 33 0.94
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACATTT
Found at i:85480892 original size:28 final size:27
Alignment explanation
Indices: 85480851--85480940 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 27
85480841 AGGAAGCGTC
85480851 CTGGTGG-CTATGCCACAAATTATCTGTT
1 CTGGTGGCCT-TGCCACAAA-TATCTGTT
**
85480879 CTGGTGGCCTTGCCACGTATATCTGTT
1 CTGGTGGCCTTGCCACAAATATCTGTT
* *
85480906 CTGGTGGCAC-TGCAATAAAATATCTGTAT
1 CTGGTGGC-CTTGCCA-CAAATATCTGT-T
85480935 CTGGTG
1 CTGGTG
85480941 ACTATGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 20 0.38
28 23 0.44
29 9 0.17
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCCTTGCCACAAATATCTGTT
Found at i:85481428 original size:19 final size:19
Alignment explanation
Indices: 85481404--85481442 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
85481394 TTTTAATTAT
* *
85481404 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
85481423 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
85481442 T
1 T
85481443 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:85482052 original size:11 final size:10
Alignment explanation
Indices: 85482024--85482057 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
85482014 AGCCTGTATG
85482024 TATTCTGAAT
1 TATTCTGAAT
*
85482034 TTTTCTGAAT
1 TATTCTGAAT
85482044 ATATTCTGAAT
1 -TATTCTGAAT
85482055 TAT
1 TAT
85482058 CTGTCTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:85488593 original size:28 final size:28
Alignment explanation
Indices: 85488561--85488625 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
85488551 ATTTACTAGA
*
85488561 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
85488589 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
85488617 ATACCCCTA
1 ATACCCCTA
85488626 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:85488772 original size:28 final size:27
Alignment explanation
Indices: 85488728--85488812 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 27
85488718 TGGAGGAAGC
85488728 GTCCTGGTGGCTA-TGCCACAAATTATCT
1 GTCCTGGTGGC-ACTGCCACAAA-TATCT
* **
85488756 GTCCTGGTGGCCCTGCCACGTATATCT
1 GTCCTGGTGGCACTGCCACAAATATCT
*
85488783 GTTCTGGTGGCACTGCCACAAAATATCT
1 GTCCTGGTGGCACTGCCAC-AAATATCT
85488811 GT
1 GT
85488813 ATCTGGTGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 22 0.46
28 26 0.54
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (27 bp):
GTCCTGGTGGCACTGCCACAAATATCT
Found at i:85488789 original size:27 final size:28
Alignment explanation
Indices: 85488731--85488820 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
85488721 AGGAAGCGTC
* *
85488731 CTGGTGGCTA-TGCCACAAATTATCTGTC
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
85488759 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
85488786 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
85488815 CTGGTG
1 CTGGTG
85488821 ACTATGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:85489308 original size:19 final size:19
Alignment explanation
Indices: 85489284--85489322 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
85489274 TTTTAATTAT
* *
85489284 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
85489303 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
85489322 T
1 T
85489323 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:85494914 original size:14 final size:14
Alignment explanation
Indices: 85494879--85494929 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
85494869 TAACAGTTAA
85494879 CTAACTA-TAACTG
1 CTAACTACTAACTG
85494892 CAATAACTACTAAGCT-
1 C--TAACTACTAA-CTG
85494908 CTAACTACTAACTG
1 CTAACTACTAACTG
85494922 CTAACTAC
1 CTAACTAC
85494930 CATAACCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.09
14 18 0.55
15 6 0.18
16 4 0.12
17 2 0.06
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (14 bp):
CTAACTACTAACTG
Found at i:85495271 original size:17 final size:17
Alignment explanation
Indices: 85495229--85495275 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
85495219 ATCAAGGTTA
85495229 TGAGCTC-TACAAAACTG
1 TGAGCTCAT-CAAAACTG
** *
85495246 CAAGTTCATCAAAACTG
1 TGAGCTCATCAAAACTG
85495263 TGAGCTCATCAAA
1 TGAGCTCATCAAA
85495276 GGTGCGAACT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 22 0.96
18 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (17 bp):
TGAGCTCATCAAAACTG
Found at i:85496200 original size:13 final size:13
Alignment explanation
Indices: 85496166--85496192 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
85496156 TTAAAACTAC
85496166 TTCTGAAAAGCAT
1 TTCTGAAAAGCAT
85496179 TTCTGAAAAGCAT
1 TTCTGAAAAGCAT
85496192 T
1 T
85496193 CTTGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TTCTGAAAAGCAT
Found at i:85496453 original size:19 final size:20
Alignment explanation
Indices: 85496429--85496467 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
85496419 TAAAATATAG
85496429 TTTATATATTC-TA-ATTAAA
1 TTTATAT-TTCATATATTAAA
85496448 TTTATATTTCATATATTAAA
1 TTTATATTTCATATATTAAA
85496468 ATGTTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 9 0.50
20 6 0.33
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATATTTCATATATTAAA
Found at i:85497680 original size:31 final size:31
Alignment explanation
Indices: 85497642--85497701 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
85497632 AAATAACCAA
* * *
85497642 GTGACTTAAATGAATACTTCCGAATAGTTAC
1 GTGACTTAAATAAAAACTTCCAAATAGTTAC
*
85497673 GTGACTTAAATAAAAACTTTCAAATAGTT
1 GTGACTTAAATAAAAACTTCCAAATAGTT
85497702 GAGTAATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (31 bp):
GTGACTTAAATAAAAACTTCCAAATAGTTAC
Found at i:85502111 original size:28 final size:28
Alignment explanation
Indices: 85502072--85502147 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
85502062 TATAAAACTG
85502072 AAAAATGA-AATAAACATAAAATTAAAGA
1 AAAAAT-ATAATAAACATAAAATTAAAGA
* **
85502100 AAAAATATAATAAAAAGTAATTTTAAAGA
1 AAAAATATAATAAACA-TAAAATTAAAGA
* *
85502129 TAAAA-GTAA-AAACATAAAA
1 AAAAATATAATAAACATAAAA
85502148 AGATAATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
26 3 0.08
27 5 0.13
28 16 0.42
29 14 0.37
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.21
Consensus pattern (28 bp):
AAAAATATAATAAACATAAAATTAAAGA
Found at i:85508688 original size:14 final size:13
Alignment explanation
Indices: 85508656--85508710 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
85508646 TTTTATCATG
*
85508656 TATTTTATCTATA
1 TATTTTATTTATA
* *
85508669 AATTATA-TTATA
1 TATTTTATTTATA
85508681 TATTTTATTTTATA
1 TATTTTA-TTTATA
*
85508695 TATTTTCTTTATA
1 TATTTTATTTATA
85508708 TAT
1 TAT
85508711 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 9 0.26
13 14 0.41
14 11 0.32
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTATTTATA
Found at i:85508707 original size:13 final size:14
Alignment explanation
Indices: 85508676--85508710 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
85508666 ATAAATTATA
*
85508676 TTATATATTTTATT
1 TTATATATTTTACT
85508690 TTATATATTTT-CT
1 TTATATATTTTACT
85508703 TTATATAT
1 TTATATAT
85508711 ATATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATATATTTTACT
Found at i:85520854 original size:208 final size:207
Alignment explanation
Indices: 85520489--85521459 Score: 1432
Period size: 208 Copynumber: 4.7 Consensus size: 207
85520479 GCAGATCTGG
* *
85520489 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTTCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
85520554 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
85520619 AGAACAAATCAAAGTTTTGTGTCTCCATATTCGAAGGAGGGTAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGAAGGAGGGCAGACACATAGCAGATCTGGCCTT
*
85520684 TAGATGTTTTATA
196 CAGATG-TTTATA
85520697 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
85520762 GATTTGGCTTTCACGTGCTTACGATGAAGAAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
85520827 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGTAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGAAGGAGGGCAGACACATAGCAGATCTGGCCTT
*
85520892 CAGATATTTTATA
196 CAGAT-GTTTATA
85520905 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
85520970 AATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
85521035 AGAACAAATCGAAGTTTGGCGTCTCCATATTTGACGGAGAGCAGACACATAGCAGATTTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGAAGGAGGGCAGACACATAGCAGATCTGGCCTT
*
85521100 CATATGTTTATA
196 CAGATGTTTATA
* * *
85521112 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTATAAGGAACAAATCGAA-ATCATAGT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
* * * *
85521175 TGATTTGGCTTTCACGTGCTTACGTTGAAGCAAGTTTAAGATGATTTGGCGTCTCTGTATTGTCA
65 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * * **
85521240 GGGAACAAATCGAAGTTTGG-GTCTCCATATTCGACA-AAGGGCAGACACATAGCAAATCTAACC
130 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGA-AGGAGGGCAGACACATAGCAGATCTGGCC
* *
85521303 TTCAGATGATTAGA
194 TTCAGATGTTTATA
* * * ** *
85521317 CTGAAGC-AGATCCAAGATGGTTTGGTATCTTTGTGCTTACAAGGCGCAAATCAAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* * ** * *
85521381 GATTTGGTTTTCGCGTGCTTAC-ACTGAAGCAGGTCTAAGATGATTTGCCATCTTTGTATTGTCA
66 GATTTGGCTTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
*
85521445 GGGAACAAATCGAAG
130 GAGAACAAATCGAAG
85521460 AAGCAGATCT
Statistics
Matches: 697, Mismatches: 61, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
205 169 0.24
206 130 0.19
207 13 0.02
208 385 0.55
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (207 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCGTCTCCATATTCGAAGGAGGGCAGACACATAGCAGATCTGGCCTT
CAGATGTTTATA
Found at i:85521709 original size:13 final size:13
Alignment explanation
Indices: 85521691--85521721 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
85521681 GTATTTATTT
85521691 ATTTAAAATGTCC
1 ATTTAAAATGTCC
85521704 ATTTAAAATGTCC
1 ATTTAAAATGTCC
*
85521717 TTTTA
1 ATTTA
85521722 CAGAACCCAA
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:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (13 bp):
ATTTAAAATGTCC
Found at i:85527008 original size:163 final size:163
Alignment explanation
Indices: 85526729--85527059 Score: 558
Period size: 163 Copynumber: 2.0 Consensus size: 163
85526719 TCTTCTAGGC
* *
85526729 TTATATTTTTCTTAACATATTCCTTCTTTAAAGTACTTTTATGGTCTCTCCATTTCTTTCCTAAT
1 TTATATTTTTCTTAAAATATTCCTTCTTTAAAGTACTTTTATGGTCTCTCCATTTATTTCCTAAT
* * * *
85526794 GCCTTCTTCACATAATTATCTAATACCTTTAAAGCAAATCTTTCCTGCAAATAACACAAGTTTAG
66 GCCTTCTTCACATAATTATCCAAGACCTCTAAAGCAAATCTTTCCTGCAAATAACACAAGTTTAA
85526859 AAAGTAAATATAAATGAAACTTAAACCAAAGTA
131 AAAGTAAATATAAATGAAACTTAAACCAAAGTA
85526892 TTATATTTTTCTTAAAATATTCCTTCTTTAAAGTACTTTTATGGTCTCTCCATTTATTTCCTAAT
1 TTATATTTTTCTTAAAATATTCCTTCTTTAAAGTACTTTTATGGTCTCTCCATTTATTTCCTAAT
* *
85526957 GCCTTCTTCACATAATTATCCGAGACCTCT-AAGACAAATCTCTT-TTGCAAATAACACAAGTTT
66 GCCTTCTTCACATAATTATCCAAGACCTCTAAAG-CAAATCT-TTCCTGCAAATAACACAAGTTT
85527020 AAAAAGTAAATATAAATGAAACTTAAACCAAAGTA
129 AAAAAGTAAATATAAATGAAACTTAAACCAAAGTA
85527055 TTATA
1 TTATA
85527060 AATTACATTC
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
162 3 0.02
163 153 0.97
164 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (163 bp):
TTATATTTTTCTTAAAATATTCCTTCTTTAAAGTACTTTTATGGTCTCTCCATTTATTTCCTAAT
GCCTTCTTCACATAATTATCCAAGACCTCTAAAGCAAATCTTTCCTGCAAATAACACAAGTTTAA
AAAGTAAATATAAATGAAACTTAAACCAAAGTA
Found at i:85532230 original size:25 final size:26
Alignment explanation
Indices: 85532194--85532244 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
85532184 AATATATAGA
85532194 TAAATAATATTTATCTTTATGATAAT
1 TAAATAATATTTATCTTTATGATAAT
*
85532220 TAAAT-ATATTTATTTTTATGATAAT
1 TAAATAATATTTATCTTTATGATAAT
85532245 ATTTATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
TAAATAATATTTATCTTTATGATAAT
Found at i:85541267 original size:11 final size:11
Alignment explanation
Indices: 85541251--85541275 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85541241 TTGAAGATGA
85541251 ATAAGCAAAAT
1 ATAAGCAAAAT
85541262 ATAAGCAAAAT
1 ATAAGCAAAAT
85541273 ATA
1 ATA
85541276 CAAACATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (11 bp):
ATAAGCAAAAT
Found at i:85541453 original size:24 final size:23
Alignment explanation
Indices: 85541406--85541449 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
85541396 TATATCAAAC
*
85541406 AAACAACACTTAATAATATTATG
1 AAACAACACTTAATAATATAATG
85541429 AAACTAACACTTAAT-ATATAA
1 AAAC-AACACTTAATAATATAA
85541450 ATGATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (23 bp):
AAACAACACTTAATAATATAATG
Found at i:85541556 original size:18 final size:19
Alignment explanation
Indices: 85541521--85541556 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
85541511 AGTAATTAAA
85541521 AAAATATACATATATAATT
1 AAAATATACATATATAATT
*
85541540 AAAATATA-ATATTTAAT
1 AAAATATACATATATAAT
85541557 AATGCATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATATACATATATAATT
Found at i:85541685 original size:17 final size:16
Alignment explanation
Indices: 85541660--85541693 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
85541650 TATTTTACAT
85541660 ATAAAAATATAATAAA
1 ATAAAAATATAATAAA
85541676 ATAAATAATATAATAAA
1 ATAAA-AATATAATAAA
85541693 A
1 A
85541694 AAACATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAATATAATAAA
Found at i:85544221 original size:25 final size:25
Alignment explanation
Indices: 85544193--85544243 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
85544183 CCCTTATAAT
*
85544193 GTGAAAATGACCT-TTTTACCCCTAG
1 GTGAAAATGA-CTATTATACCCCTAG
85544218 GTGAAAATGACTATTATACCCCTAG
1 GTGAAAATGACTATTATACCCCTAG
85544243 G
1 G
85544244 GTTATGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACTATTATACCCCTAG
Found at i:85544384 original size:25 final size:25
Alignment explanation
Indices: 85544356--85544425 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
85544346 GAGGAAGTGC
* * *
85544356 AAAAGGGCTATGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
85544381 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
85544406 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
85544426 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:85544707 original size:31 final size:30
Alignment explanation
Indices: 85544672--85544736 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
85544662 TGATATGAAT
* *
85544672 TATGAATAATGAAAAGGCTTCGGCCTAGTGA
1 TATGAATAACGAAAAGGCTTCAGCCTAGT-A
*
85544703 TATGAATAACGTAAAGGCTTCAGCCTAGTA
1 TATGAATAACGAAAAGGCTTCAGCCTAGTA
85544733 TATG
1 TATG
85544737 CTGAGATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (30 bp):
TATGAATAACGAAAAGGCTTCAGCCTAGTA
Found at i:85552607 original size:34 final size:34
Alignment explanation
Indices: 85552564--85552628 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
85552554 AAAAACGCTG
85552564 CTATTGCCTTACCTTTTGCGGCGTTTATGGGCTA
1 CTATTGCCTTACCTTTTGCGGCGTTTATGGGCTA
* *
85552598 CTATTGCCTTATCTTTTGCTGCGTTTATGGG
1 CTATTGCCTTACCTTTTGCGGCGTTTATGGG
85552629 AGAAACACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.45
Consensus pattern (34 bp):
CTATTGCCTTACCTTTTGCGGCGTTTATGGGCTA
Found at i:85553166 original size:24 final size:24
Alignment explanation
Indices: 85553099--85553160 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
85553089 GTCTGGAAAA
*
85553099 GATTTAGGAACTGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
*
85553123 GATTTAGGAGCTGATCAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
85553147 GATTTAGGAGCTGA
1 GATTTAGGAGCTGA
85553161 CTAGGGGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.32, C:0.06, G:0.39, T:0.23
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAGGGAGAG
Found at i:85554610 original size:27 final size:26
Alignment explanation
Indices: 85554570--85554681 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
85554560 AGGAAGTGTC
*
85554570 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
85554597 CTGGTGGCTCTGCCACATATATCTGCT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
85554624 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
85554652 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
85554678 CTGG
1 CTGG
85554682 AAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:85554674 original size:54 final size:54
Alignment explanation
Indices: 85554570--85554681 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
85554560 AGGAAGTGTC
*
85554570 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGCT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGCT
* * * * *
85554624 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGCT
85554678 CTGG
1 CTGG
85554682 AAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGCT
Found at i:85557519 original size:46 final size:46
Alignment explanation
Indices: 85557452--85557618 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
85557442 TGTAACCCGC
** *
85557452 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCATTTGCAT
* * *
85557498 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGG--G-C-ATTTGCAT
* * * * *
85557548 -C-TCA-CGAACTTGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCATTTGCAT
*
85557591 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGCGAACTCGGACTCAACTCAAC
85557619 GAGTTCGGAT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 52 0.54
47 26 0.27
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCATTTGCAT
Found at i:85557566 original size:93 final size:93
Alignment explanation
Indices: 85557459--85557631 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
85557449 CGCCCATAAG
** * * *
85557459 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85557524 ACAAGCTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
* *
85557552 CGAACTTGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
85557617 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
85557632 CACATATCCC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Found at i:85563743 original size:24 final size:24
Alignment explanation
Indices: 85563710--85563772 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
85563700 AAGTCTGTCT
*
85563710 GGAGAAGATTTAGGAACAGATAAG
1 GGAGAGGATTTAGGAACAGATAAG
* * * *
85563734 GGAGAGGATTCAGGAGCTGATCAG
1 GGAGAGGATTTAGGAACAGATAAG
*
85563758 GGAGAGAATTTAGGA
1 GGAGAGGATTTAGGA
85563773 GCTGATTAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.17
Consensus pattern (24 bp):
GGAGAGGATTTAGGAACAGATAAG
Found at i:85563773 original size:24 final size:24
Alignment explanation
Indices: 85563717--85563783 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
85563707 TCTGGAGAAG
* * *
85563717 ATTTAGGAACAGATAAGGGAGAGG
1 ATTTAGGAGCTGATAAGGGAGAGA
* *
85563741 ATTCAGGAGCTGATCAGGGAGAGA
1 ATTTAGGAGCTGATAAGGGAGAGA
*
85563765 ATTTAGGAGCTGATTAGGG
1 ATTTAGGAGCTGATAAGGG
85563784 TGAACTATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.34, C:0.07, G:0.37, T:0.21
Consensus pattern (24 bp):
ATTTAGGAGCTGATAAGGGAGAGA
Found at i:85565252 original size:27 final size:26
Alignment explanation
Indices: 85565222--85565333 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
85565212 AGGAAGCGTC
*
85565222 CTGGTGGCTATACCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
85565249 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* *
85565276 CTGGTGGTTTTGCCACGATTATCTGTAT
1 CTGGTGGCTATGCCAC-ATTATCTG-AT
* * * *
85565304 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGAT
85565330 CTGG
1 CTGG
85565334 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.69
28 15 0.21
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:85573674 original size:24 final size:24
Alignment explanation
Indices: 85573641--85573690 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
85573631 AAGTCTGTCT
85573641 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
85573665 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
85573689 GG
1 GG
85573691 TGAACTGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:85575161 original size:27 final size:26
Alignment explanation
Indices: 85575121--85575226 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 26
85575111 AGGAAGCGTC
*
85575121 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
85575148 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
85575175 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
85575203 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
85575227 TTCTAGCAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 51 0.74
28 16 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:85575225 original size:54 final size:54
Alignment explanation
Indices: 85575121--85575230 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
85575111 AGGAAGCGTC
*
85575121 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
85575175 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
85575229 CT
1 CT
85575231 AGCAGCCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:85578772 original size:17 final size:17
Alignment explanation
Indices: 85578734--85578814 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 17
85578724 TCTGAAAAAT
* *
85578734 AAAATAAAA-ACAACTA
1 AAAATAAAATAAAAGTA
85578750 ACAAATAAAATAAAAGTA
1 A-AAATAAAATAAAAGTA
85578768 AAAATAGAAA-AAAAG-A
1 AAAATA-AAATAAAAGTA
* *
85578784 AAAAGAAAATTAAA-TA
1 AAAATAAAATAAAAGTA
85578800 AAACATAAAACTAAA
1 AAA-ATAAAA-TAAA
85578815 TAAAATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
15 3 0.06
16 14 0.27
17 23 0.44
18 12 0.23
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAAAGTA
Found at i:85578815 original size:17 final size:17
Alignment explanation
Indices: 85578789--85578825 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
85578779 AAAGAAAAAG
*
85578789 AAAATTAAATAAAACAT
1 AAAACTAAATAAAACAT
*
85578806 AAAACTAAATAAAATAT
1 AAAACTAAATAAAACAT
85578823 AAA
1 AAA
85578826 TACTTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAACTAAATAAAACAT
Found at i:85580694 original size:30 final size:30
Alignment explanation
Indices: 85580636--85580697 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
85580626 TTTAAGAAAT
* *
85580636 TTACCATATTGTTCGTTCATGCGGTCTTTC
1 TTACCATATTGTTCGTTCATACGATCTTTC
*
85580666 TTACCATATTGTTCGTTCATATGATCTTTC
1 TTACCATATTGTTCGTTCATACGATCTTTC
85580696 TT
1 TT
85580698 CACTTTTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.50
Consensus pattern (30 bp):
TTACCATATTGTTCGTTCATACGATCTTTC
Found at i:85582682 original size:69 final size:70
Alignment explanation
Indices: 85582550--85582682 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
85582540 TAGTTTATTA
* * * *
85582550 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
85582615 CTTAG
66 CTTAG
85582620 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
85582683 GTTATGTCCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:85584532 original size:48 final size:48
Alignment explanation
Indices: 85584461--85584796 Score: 548
Period size: 48 Copynumber: 7.0 Consensus size: 48
85584451 CACAAGATAA
85584461 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
85584509 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
85584557 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
85584605 GGATATGTATATGTGGTAGAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
85584653 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
85584703 AGATATGTATATGTGGTAAA-CCTGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCC-GAATGGCTAATGTGAAATATGTATG
* * * *
85584751 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
85584797 GGAGGTGTGG
Statistics
Matches: 274, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
48 226 0.82
49 8 0.03
50 40 0.15
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:85585017 original size:74 final size:74
Alignment explanation
Indices: 85584932--85585083 Score: 259
Period size: 74 Copynumber: 2.1 Consensus size: 74
85584922 ACATGAAACT
*
85584932 TGGAAATATATTACGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
1 TGGAAAAATATTACGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
*
85584997 GACTACGTG
66 AACTACGTG
* *
85585006 TGGAAAAATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGAT
1 TGGAAAAATATTACGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
*
85585071 AACTTCGTG
66 AACTACGTG
85585080 TGGA
1 TGGA
85585084 GATTTCATCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (74 bp):
TGGAAAAATATTACGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
AACTACGTG
Found at i:85585088 original size:37 final size:37
Alignment explanation
Indices: 85584945--85585087 Score: 225
Period size: 37 Copynumber: 3.9 Consensus size: 37
85584935 AAATATATTA
85584945 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* *
85584982 CGGGTAAGACCCGATGACTACGTGTGGAAAAATAT-TC
1 CGGGTAAGACCCGATGACTACGTGTGG-AGATTATGTC
*
85585019 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* *
85585056 CGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT
85585088 TCATCTGAGC
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
36 4 0.04
37 88 0.91
38 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:85585965 original size:43 final size:43
Alignment explanation
Indices: 85585904--85585987 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
85585894 GGGTGTTACA
85585904 GCCTTTAGCGAGGCTTTTCCCACAAACACCGCTAAAGGTCATG
1 GCCTTTAGCGAGGCTTTTCCCACAAACACCGCTAAAGGTCATG
* *
85585947 GCCTTTAGCG-GCGCTTTTCCCACAAACGCCGCTAAATGTCA
1 GCCTTTAGCGAG-GCTTTTCCCACAAACACCGCTAAAGGTCA
85585988 CAAATTCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCTTTAGCGAGGCTTTTCCCACAAACACCGCTAAAGGTCATG
Found at i:85586269 original size:19 final size:18
Alignment explanation
Indices: 85586247--85586287 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
85586237 AATTAGAATC
85586247 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAAT-ATA
* *
85586266 AAAACTAGATTAAATATA
1 AAAACTAAAATAAATATA
85586284 AAAA
1 AAAA
85586288 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAACTAAAATAAATATA
Found at i:85586289 original size:31 final size:31
Alignment explanation
Indices: 85586213--85586286 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
85586203 TCAAATTATC
*
85586213 TTAAATATTAAAATAAAAATAAAAAATTAGAA
1 TTAAATA-TAAAATAAAAATAAAAAACTAGAA
*
85586245 TCAAA-ACTAAAATAAATAAT-AAAAACTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAAACTAGAA
85586275 TTAAATATAAAA
1 TTAAATATAAAA
85586287 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 19 0.53
32 7 0.19
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.26
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAAACTAGAA
Found at i:85589103 original size:14 final size:14
Alignment explanation
Indices: 85589086--85589116 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
85589076 CCTATCAATC
85589086 GAATCATATTTCAA
1 GAATCATATTTCAA
85589100 GAATCATATTTCAA
1 GAATCATATTTCAA
85589114 GAA
1 GAA
85589117 ATACATGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (14 bp):
GAATCATATTTCAA
Found at i:85591570 original size:7 final size:7
Alignment explanation
Indices: 85591560--85591653 Score: 66
Period size: 7 Copynumber: 13.4 Consensus size: 7
85591550 CCATAAATAT
85591560 TAAACCC
1 TAAACCC
85591567 TAAACCC
1 TAAACCC
*
85591574 TTAACCC
1 TAAACCC
*
85591581 TTAACCC
1 TAAACCC
*
85591588 AAAACCC
1 TAAACCC
* *
85591595 TTACACCT
1 -TAAACCC
85591603 TAAACTCC
1 TAAAC-CC
85591611 --AACCC
1 TAAACCC
*
85591616 TAACCCC
1 TAAACCC
*
85591623 TAAACCT
1 TAAACCC
* *
85591630 TAAATCA
1 TAAACCC
*
85591637 TAATCCC
1 TAAACCC
85591644 TAAACCC
1 TAAACCC
85591651 TAA
1 TAA
85591654 TTCATCATAA
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
7 56 0.85
8 5 0.08
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:85591695 original size:7 final size:7
Alignment explanation
Indices: 85591685--85591779 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
85591675 CTAGTTAACT
85591685 CTTAAAC
1 CTTAAAC
85591692 CTTAAAC
1 CTTAAAC
*
85591699 CCTAAAC
1 CTTAAAC
* * *
85591706 CATATAT
1 CTTAAAC
85591713 CTTAAAC
1 CTTAAAC
*
85591720 CATAGTTAAC
1 C-T--TAAAC
*
85591730 TCATAAAC
1 -CTTAAAC
85591738 CTTAAAC
1 CTTAAAC
*
85591745 CCTAAAC
1 CTTAAAC
* * *
85591752 CATATAT
1 CTTAAAC
85591759 CTTAAAC
1 CTTAAAC
*
85591766 CATAAAC
1 CTTAAAC
85591773 CTTAAAC
1 CTTAAAC
85591780 TATAATGATA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
7 54 0.84
8 5 0.08
10 4 0.06
11 1 0.02
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.27
Consensus pattern (7 bp):
CTTAAAC
Found at i:85591718 original size:21 final size:21
Alignment explanation
Indices: 85591692--85591773 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
85591682 ACTCTTAAAC
*
85591692 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
85591713 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
85591738 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
85591759 CTTAAACCATAAACC
1 CTTAAACCATAAACC
85591774 TTAAACTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 29 0.58
22 3 0.06
24 3 0.06
25 15 0.30
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:85591731 original size:46 final size:46
Alignment explanation
Indices: 85591676--85591769 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
85591666 CTTCAAATAC
*
85591676 TAGTTAACTCTTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
85591722 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
85591768 TA
1 TA
85591770 AACCTTAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:85591784 original size:14 final size:14
Alignment explanation
Indices: 85591685--85591784 Score: 74
Period size: 14 Copynumber: 6.9 Consensus size: 14
85591675 CTAGTTAACT
*
85591685 CTTAAACCTTAAAC
1 CTTAAACCATAAAC
* * *
85591699 CCTAAACCATATAT
1 CTTAAACCATAAAC
85591713 CTTAAACCATAGTTAAC
1 CTTAAACCATA---AAC
* *
85591730 TCATAAACCTTAAAC
1 -CTTAAACCATAAAC
* * *
85591745 CCTAAACCATATAT
1 CTTAAACCATAAAC
85591759 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
85591773 CTTAAACTATAA
1 CTTAAACCATAA
85591785 TGATAATTAA
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
14 52 0.80
15 3 0.05
17 1 0.02
18 9 0.14
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:85592062 original size:41 final size:39
Alignment explanation
Indices: 85591941--85592063 Score: 142
Period size: 41 Copynumber: 3.1 Consensus size: 39
85591931 GTTATATAAC
*
85591941 TTTTAGC-GACGTTTTACCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCAG-CGTTTTACCAAAAGCGCCGCT-ATGCTCT-GT
*
85591982 CTTTAGCAGCGTTTTACCAAAAGCGCCGCTATGCTCTGT
1 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATGCTCTGT
* *
85592021 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCAGCG--TTTTACCAAAAGCGCCGCTA-TGCTCTGT
85592062 TT
1 TT
85592064 GTGTTTTACA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
39 11 0.15
40 15 0.21
41 46 0.63
42 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (39 bp):
TTTTAGCAGCGTTTTACCAAAAGCGCCGCTATGCTCTGT
Found at i:85597476 original size:68 final size:68
Alignment explanation
Indices: 85597294--85597484 Score: 205
Period size: 68 Copynumber: 2.8 Consensus size: 68
85597284 GTTCATGGGA
*
85597294 AAACATG-CTATCATATTATGTAAGACCATAGTTGAGCTATGGCAACATATGAAG-TCCGCAAGG
1 AAACATGAC-ATCATATTA-GTAAGACCATAGTTGAGCTATGGCAACATATGAAGTTACGCAAGG
85597357 ATAGT
64 ATAGT
** * *
85597362 AAACATGACATCATA-TAGTGAAAGACTGTAGCTCG-GCAATGGCAACATATGAAGTTTAC-CAA
1 AAACATGACATCATATTAGT--AAGACCATAG-TTGAGCTATGGCAACATATGAAG-TTACGCAA
85597424 -GATAGT
62 GGATAGT
* * *
85597430 AAACATGACATCATATTACATAAGACCATTGTTGAGCTATGACAACATATGAAGT
1 AAACATGACATCATATTA-GTAAGACCATAGTTGAGCTATGGCAACATATGAAGT
85597485 CCATCAGGAC
Statistics
Matches: 102, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
66 2 0.02
67 5 0.05
68 84 0.82
69 8 0.08
70 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (68 bp):
AAACATGACATCATATTAGTAAGACCATAGTTGAGCTATGGCAACATATGAAGTTACGCAAGGAT
AGT
Found at i:85598486 original size:27 final size:27
Alignment explanation
Indices: 85598416--85598497 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
85598406 AGCATGGCTG
* *
85598416 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
* *
85598442 CCAG-ATACAAATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
*
85598469 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
85598496 CC
1 CC
85598498 TAACAGAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 37 0.82
28 3 0.07
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:85599176 original size:27 final size:27
Alignment explanation
Indices: 85599147--85599262 Score: 169
Period size: 27 Copynumber: 4.3 Consensus size: 27
85599137 GGGCAAAATG
* * * * *
85599147 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
85599174 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
85599201 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
85599228 GTAATTCTAACCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
85599255 GTAATTCT
1 GTAATTCT
85599263 GTAAATCGAA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:85599193 original size:54 final size:54
Alignment explanation
Indices: 85599135--85599247 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
85599125 TTAACACCCT
* * * *
85599135 AGGGGCAAAATGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTAC
1 AGGGGCAAAATAGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTAACCTAC
* *** * * *
85599189 AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAACCTAC
1 AGGGGCAAAATAGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTAACCTAC
85599243 AGGGG
1 AGGGG
85599248 TATTTCAGTA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (54 bp):
AGGGGCAAAATAGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTAACCTAC
Found at i:85599303 original size:27 final size:27
Alignment explanation
Indices: 85599256--85599839 Score: 688
Period size: 27 Copynumber: 21.8 Consensus size: 27
85599246 GGTATTTCAG
* *
85599256 TAATTCTGTAAATCGAAGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
85599283 TAATTCTGTAAA-CTGAGGGTAAAACGA
1 TAATTCTGTAAATC-GAGGGTAAAACGA
*
85599310 TAATTCTGTAAACCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
85599337 TAATT-TATAAATCGAGGGCAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
85599363 TAATTTTGTAAATCGAAGGT-AAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
85599389 TAATTCTGTAAACCAAGGGT-AAACCA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
85599415 GTAATTCTGTAAATCAAGGGTAAATA-G-
1 -TAATTCTGTAAATCGAGGGTAAA-ACGA
*
85599442 TAATTCTATAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
85599469 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
85599496 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * **
85599523 TAATTTTGTAAATCAAGGGTAAAATAA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
85599550 TAATTCTATAAATCGAGGGTAAAA-TA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
85599576 GTAATTTTGTAAATCGAGGGTAAAA-TA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
**
85599603 GTAATTCTGTAAATCGAGGGTAAAATAA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
* *
85599631 TAATTTTGTAAATCGAGGTTAAAAC-A
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
85599657 GTAATTCTATAAATCGAGGGTAAAACGA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
*
85599685 TAATTCTGTAAA-CTGAGGGT-AAACCA
1 TAATTCTGTAAATC-GAGGGTAAAACGA
85599711 GTAATT-TGTAAATCGAGGGTAAAACGA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
* *
85599738 TAATTTTGTAAATTGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
85599765 CAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
85599792 TAATTCTGTAAATCGAGGGTAAAATGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
85599819 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
85599840 CTTTGGTAAT
Statistics
Matches: 488, Mismatches: 52, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.00
26 98 0.20
27 383 0.78
28 5 0.01
29 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:85606978 original size:58 final size:58
Alignment explanation
Indices: 85606888--85607008 Score: 242
Period size: 58 Copynumber: 2.1 Consensus size: 58
85606878 CGTATGCACC
85606888 TAAATGTACCTTAAAACTCAAGTTTACCAAGTTGTGATTACTTGGACGCTAAACAACT
1 TAAATGTACCTTAAAACTCAAGTTTACCAAGTTGTGATTACTTGGACGCTAAACAACT
85606946 TAAATGTACCTTAAAACTCAAGTTTACCAAGTTGTGATTACTTGGACGCTAAACAACT
1 TAAATGTACCTTAAAACTCAAGTTTACCAAGTTGTGATTACTTGGACGCTAAACAACT
85607004 TAAAT
1 TAAAT
85607009 ACTTGCCAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (58 bp):
TAAATGTACCTTAAAACTCAAGTTTACCAAGTTGTGATTACTTGGACGCTAAACAACT
Found at i:85637670 original size:43 final size:44
Alignment explanation
Indices: 85637609--85637949 Score: 146
Period size: 43 Copynumber: 7.7 Consensus size: 44
85637599 TATCATCAGC
85637609 CTTATCTTCACTGAGTAGGAGTGGAGCAG-GCTAAAAACCAGAT
1 CTTATCTTCACTGAGTAGGAGTGGAGCAGAGCTAAAAACCAGAT
* * * *****
85637652 CTTATCTTCACTGAGTAGGAGTGAAGCAGATCGAATTTTGATGAAT
1 CTTATCTTCACTGAGTAGGAGTGGAGCAGAGCTAAAAACCA-G-AT
* * * * * ** * *
85637698 CTTATC-TC-CAG-GTACCGGCAATGGAGTAGATTCCAATCATCAG-C
1 CTTATCTTCACTGAGTA--GG-AGTGGAGCAGA-GCTAAAAACCAGAT
*
85637742 CTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTAAAAACCAGAT
1 CTTATCTTCACTGAGTAGGAGTGGAGCAGAGCTAAAAACCAGAT
* * * *****
85637785 CTTATCTTCACTGAGTAGGAGTGAAGCAGATCGAATTTTGATGAAT
1 CTTATCTTCACTGAGTAGGAGTGGAGCAGAGCTAAAAACCA-G-AT
* * * * ** * *
85637831 CTTATCTCCAC---GTACCGGCGATGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTGAGTA--GGAG-TGGAGCAGA-GCTAAAAACCAGAT
*
85637875 CTTATCTTCACTGAGCAGGAGTGGAGCA-AGCTAAACATACCAGAT
1 CTTATCTTCACTGAGTAGGAGTGGAGCAGAGCTAAA-A-ACCAGAT
* *
85637920 CTTATCTTCACTGAGCAGGAGTGAAGCAGA
1 CTTATCTTCACTGAGTAGGAGTGGAGCAGA
85637950 TCAAATTTTG
Statistics
Matches: 219, Mismatches: 54, Indels: 47
0.68 0.17 0.15
Matches are distributed among these distances:
42 10 0.05
43 62 0.28
44 45 0.21
45 43 0.20
46 41 0.19
47 18 0.08
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTTCACTGAGTAGGAGTGGAGCAGAGCTAAAAACCAGAT
Found at i:85637783 original size:133 final size:135
Alignment explanation
Indices: 85637600--85638225 Score: 878
Period size: 135 Copynumber: 4.7 Consensus size: 135
85637590 GATTACAGAT
*
85637600 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAA-A-ACCAGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * *
85637663 TGAGTAGGAGTGAAGCAGATCGAATTTTGATG-AA-TCTTATCTCCAGGTACCGGCAATGGAGTA
66 TGAGTAGGAGTGAAGCAGATCAAATTTTG--GCAAGTCTTATCTCCATGTACCGGCAATGGAGCA
85637726 GATTCCA
129 GATTCCA
85637733 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-A-ACCAGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * *
85637796 TGAGTAGGAGTGAAGCAGATCGAATTTTGATG-AA-TCTTATCTCCACGTACCGGCGATGGAGCA
66 TGAGTAGGAGTGAAGCAGATCAAATTTTG--GCAAGTCTTATCTCCATGTACCGGCAATGGAGCA
85637859 GATTCCA
129 GATTCCA
*
85637866 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAAGCTAAACATACCAGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCAC
* *
85637931 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGA
66 TGAGTAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTACCGGCAATGGAGCAGA
**
85637996 TTTTA
131 TTCCA
** * *
85638001 GCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGTAGGCTAAACATACCAGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCAC
* *
85638066 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGA
66 TGAGTAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTACCGGCAATGGAGCAGA
**
85638131 TTTTA
131 TTCCA
** * * **
85638136 GCCA-CTATCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATA-CAGATCTTATCTTTG
1 ATCATC-AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCA
*
85638199 CTGATTAGGAGT-AGAGCAGATCAAATT
65 CTGAGTAGGAGTGA-AGCAGATCAAATT
85638226 ACAGCAGACC
Statistics
Matches: 463, Mismatches: 24, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
133 174 0.38
134 40 0.09
135 249 0.54
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (135 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCAC
TGAGTAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTACCGGCAATGGAGCAGA
TTCCA
Found at i:85637926 original size:45 final size:45
Alignment explanation
Indices: 85637742--85638082 Score: 161
Period size: 45 Copynumber: 7.6 Consensus size: 45
85637732 AATCATCAGC
*
85637742 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-A-ACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAAGCTAAACATACCAGAT
* * * * *** **
85637785 CTTATCTTCACTGAGTAGGAGTGAAGCAGATCGAATTTTGATGA-AT
1 CTTATCTTCACTGAGCAGGAGTGGAGCA-AGCTAAACAT-ACCAGAT
* * * * * * *
85637831 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCAT--CAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCA-A-GCTAAACATACCAGAT
85637875 CTTATCTTCACTGAGCAGGAGTGGAGCAAGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAAGCTAAACATACCAGAT
* * ** **
85637920 CTTATCTTCACTGAGCAGGAGTGAAGC-AGATCAAATTTTGGCA-AGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAAGCT-AAA-CATACCAGA-T
* * * ** * * * *
85637966 CTTATCTCCA-TGTATC-GGCAATGGAGCAGATTTTAGC-CACCAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCA-AGCTAAACATACCAGAT
* *
85638010 CTTATCTTCACTGAGCAGGAGTGGAGTAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAAGCTAAACATACCAGAT
*
85638055 CTTATCTTCACTGAGCAGGAGTGAAGCA
1 CTTATCTTCACTGAGCAGGAGTGGAGCA
85638083 GATCAAATTT
Statistics
Matches: 215, Mismatches: 58, Indels: 48
0.67 0.18 0.15
Matches are distributed among these distances:
42 6 0.03
43 30 0.14
44 51 0.24
45 75 0.35
46 42 0.20
47 9 0.04
48 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAAGCTAAACATACCAGAT
Done.